Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 186 of 210
Found at i:61690476 original size:11 final size:11
Alignment explanation
Indices: 61690445--61690490 Score: 51
Period size: 10 Copynumber: 4.2 Consensus size: 11
61690435 AAGGGAGGGC
61690445 AAGAAGAAGAGAA
1 AAGAAGAA-A-AA
61690458 AA-AAGAAAAA
1 AAGAAGAAAAA
*
61690468 GAGAAGAAAAA
1 AAGAAGAAAAA
61690479 AAG-AGAAAAA
1 AAGAAGAAAAA
61690489 AA
1 AA
61690491 TCAAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 12 0.40
11 11 0.37
12 5 0.17
13 2 0.07
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAGAAGAAAAA
Found at i:61690683 original size:14 final size:14
Alignment explanation
Indices: 61690647--61690684 Score: 62
Period size: 12 Copynumber: 2.9 Consensus size: 14
61690637 ACAGGCCTGA
61690647 CCCAATCCAGCAGG
1 CCCAATCCAGCAGG
61690661 CCCAA--CAGCAGG
1 CCCAATCCAGCAGG
61690673 CCCAATCCAGCA
1 CCCAATCCAGCA
61690685 AGCTGCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 12 0.55
14 10 0.45
ACGTcount: A:0.32, C:0.45, G:0.18, T:0.05
Consensus pattern (14 bp):
CCCAATCCAGCAGG
Found at i:61690762 original size:14 final size:14
Alignment explanation
Indices: 61690739--61690782 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
61690729 GCCCAACAAA
*
61690739 AAAG-AAGAAAGAG
1 AAAGAAAGAAAAAG
* *
61690752 AATGAAAGAAAAAA
1 AAAGAAAGAAAAAG
61690766 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAG
61690780 AAA
1 AAA
61690783 AAGAGGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 3 0.12
14 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (14 bp):
AAAGAAAGAAAAAG
Found at i:61690782 original size:24 final size:24
Alignment explanation
Indices: 61690736--61690782 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
61690726 CCGGCCCAAC
* * *
61690736 AAAAAAGAAGAAAGAGAATGAAAG
1 AAAAAAAAAGAAAGAAAAAGAAAG
61690760 AAAAAAAAAGAAAGAAAAAGAAA
1 AAAAAAAAAGAAAGAAAAAGAAA
61690783 AAGAGGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (24 bp):
AAAAAAAAAGAAAGAAAAAGAAAG
Found at i:61690968 original size:5 final size:5
Alignment explanation
Indices: 61690958--61691006 Score: 71
Period size: 5 Copynumber: 9.6 Consensus size: 5
61690948 TATTTATATT
* *
61690958 TTTAA TTTAA TTTAA TTTAA TTTAA TTTTAA TTCAA TTTAA TTTTA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA -TTTAA TTTAA TTTAA TTTAA TTT
61691007 TTAATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
5 35 0.88
6 5 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:61690989 original size:16 final size:16
Alignment explanation
Indices: 61690958--61691003 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
61690948 TATTTATATT
61690958 TTTAATTTAA-TTTAA
1 TTTAATTTAATTTTAA
61690973 TTTAATTTAATTTTAA
1 TTTAATTTAATTTTAA
*
61690989 TTCAATTTAATTTTA
1 TTTAATTTAATTTTA
61691004 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 10 0.34
16 19 0.66
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATTTAATTTTAA
Found at i:61690989 original size:21 final size:21
Alignment explanation
Indices: 61690958--61691007 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
61690948 TATTTATATT
*
61690958 TTTAA-TTTAATTTAATTTAA
1 TTTAATTTTAATTCAATTTAA
61690978 TTTAATTTTAATTCAATTTAA
1 TTTAATTTTAATTCAATTTAA
*
61690999 TTTTATTTT
1 TTTAATTTT
61691008 TAATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTAATTTTAATTCAATTTAA
Found at i:61690995 original size:26 final size:26
Alignment explanation
Indices: 61690957--61691006 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
61690947 GTATTTATAT
*
61690957 TTTTAATTTAATTTAATTTAATTTAA
1 TTTTAATTCAATTTAATTTAATTTAA
*
61690983 TTTTAATTCAATTTAATTTTATTT
1 TTTTAATTCAATTTAATTTAATTT
61691007 TTAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTAATTCAATTTAATTTAATTTAA
Found at i:61691174 original size:18 final size:19
Alignment explanation
Indices: 61691153--61691233 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
61691143 ATGTTTTCAA
61691153 AAAAAAATCTCGCG-CTTC
1 AAAAAAATCTCGCGTCTTC
* * *
61691171 --AAAATTTTCGTGTCTTC
1 AAAAAAATCTCGCGTCTTC
*
61691188 AAAAAAATTCTCGTGT-TTC
1 AAAAAAA-TCTCGCGTCTTC
*
61691207 AAAAAATAT-TCGCGTTTTC
1 AAAAAA-ATCTCGCGTCTTC
61691226 AAAAAAAT
1 AAAAAAAT
61691234 AATAATAAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
16 9 0.18
17 4 0.08
18 7 0.14
19 23 0.45
20 8 0.16
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (19 bp):
AAAAAAATCTCGCGTCTTC
Found at i:61691193 original size:19 final size:18
Alignment explanation
Indices: 61691171--61691231 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
61691161 CTCGCGCTTC
61691171 AAAATTTTCGTGTCTTCAAA
1 AAAATTTTCGTGT-TTC-AA
*
61691191 AAAATTCTCGTGTTTCAA
1 AAAATTTTCGTGTTTCAA
* *
61691209 AAAATATTCGCGTTTTCAA
1 AAAATTTTCGTG-TTTCAA
61691228 AAAA
1 AAAA
61691232 ATAATAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 11 0.31
19 13 0.36
20 12 0.33
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (18 bp):
AAAATTTTCGTGTTTCAA
Found at i:61691196 original size:20 final size:19
Alignment explanation
Indices: 61691171--61691233 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
61691161 CTCGCGCTTC
61691171 AAAATTTTCGTGTCTTCAAA
1 AAAATTTTCGTGT-TTCAAA
*
61691191 AAAATTCTCGTGTTTC-AA
1 AAAATTTTCGTGTTTCAAA
* *
61691209 AAAATATTCGCGTTTTCAAA
1 AAAATTTTCGTG-TTTCAAA
61691229 AAAAT
1 AAAAT
61691234 AATAATAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 11 0.30
19 7 0.19
20 19 0.51
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (19 bp):
AAAATTTTCGTGTTTCAAA
Found at i:61691234 original size:20 final size:20
Alignment explanation
Indices: 61691179--61691231 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
61691169 TCAAAATTTT
*
61691179 CGTGTCTTCAAAAAA-ATTCT
1 CGTGT-TTCAAAAAATATTCG
61691199 CGTGTTTCAAAAAATATTCG
1 CGTGTTTCAAAAAATATTCG
61691219 CGT-TTTCAAAAAA
1 CGTGTTTCAAAAAA
61691232 ATAATAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (20 bp):
CGTGTTTCAAAAAATATTCG
Found at i:61691417 original size:17 final size:18
Alignment explanation
Indices: 61691341--61691584 Score: 168
Period size: 17 Copynumber: 13.9 Consensus size: 18
61691331 ATAAAAAAAA
61691341 TCAAAAATTTT-GTG-TT
1 TCAAAAATTTTCGTGTTT
* **
61691357 TAAAAAAAATTCG-GTGTT
1 TCAAAAATTTTCGTGT-TT
* **
61691375 GCAAAAATTTTCACGTTT
1 TCAAAAATTTTCGTGTTT
*
61691393 TCAAAAAATTCTCGTGTTT
1 TC-AAAAATTTTCGTGTTT
61691412 TCAAAAATTTTCGTG-TT
1 TCAAAAATTTTCGTGTTT
*
61691429 TCAAAAATTTTCGT-ATT
1 TCAAAAATTTTCGTGTTT
61691446 TCAAAAATTTGT-GTGTTT
1 TCAAAAATTT-TCGTGTTT
* *
61691464 TCAACAATTCTCGTG-TT
1 TCAAAAATTTTCGTGTTT
* *
61691481 TCATAAATTTTCGCG-TT
1 TCAAAAATTTTCGTGTTT
*** *
61691498 TCAAAAAAAATCGGGTTT
1 TCAAAAATTTTCGTGTTT
*
61691516 TCAAAAAAATTTGCGTG-TT
1 TC--AAAAATTTTCGTGTTT
* *
61691535 TC-CAAATTGTCGTGTTT
1 TCAAAAATTTTCGTGTTT
61691552 TC-AAAATTTTCGTGTTT
1 TCAAAAATTTTCGTGTTT
* * *
61691569 TTAAGAATTTTTGTGT
1 TCAAAAATTTTCGTGT
61691585 CTCTAAAGTT
Statistics
Matches: 176, Mismatches: 38, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
16 18 0.10
17 75 0.43
18 54 0.31
19 21 0.12
20 8 0.05
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.44
Consensus pattern (18 bp):
TCAAAAATTTTCGTGTTT
Found at i:61691435 original size:35 final size:35
Alignment explanation
Indices: 61691341--61691568 Score: 177
Period size: 35 Copynumber: 6.5 Consensus size: 35
61691331 ATAAAAAAAA
* *
61691341 TCAAAAATTTT-GTGTTTAAAAAAAAT-TCG-GTGTT
1 TCAAAAATTTTCGTGTTT-CAAAAATTCTCGTGT-TT
*
61691375 GCAAAAATTTTCACGT-TTTCAAAAAATTCTCGTGTTT
1 TCAAAAATTTT--CGTGTTTC-AAAAATTCTCGTGTTT
* *
61691412 TCAAAAATTTTCGTGTTTCAAAAATTTTCGT-ATT
1 TCAAAAATTTTCGTGTTTCAAAAATTCTCGTGTTT
*
61691446 TCAAAAATTTGT-GTGTTTTCAACAATTCTCGTG-TT
1 TCAAAAATTT-TCGTG-TTTCAAAAATTCTCGTGTTT
* * *** *
61691481 TCATAAATTTTCGCGTTTCAAAAAAAATCGGGTTT
1 TCAAAAATTTTCGTGTTTCAAAAATTCTCGTGTTT
* * *
61691516 TCAAAAAAATTTGCGTGTTTC-CAAATTGTCGTGTTT
1 TC--AAAAATTTTCGTGTTTCAAAAATTCTCGTGTTT
61691552 TC-AAAATTTTCGTGTTT
1 TCAAAAATTTTCGTGTTT
61691569 TTAAGAATTT
Statistics
Matches: 156, Mismatches: 24, Indels: 29
0.75 0.11 0.14
Matches are distributed among these distances:
33 14 0.09
34 38 0.24
35 46 0.29
36 25 0.16
37 31 0.20
38 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (35 bp):
TCAAAAATTTTCGTGTTTCAAAAATTCTCGTGTTT
Found at i:61691478 original size:52 final size:52
Alignment explanation
Indices: 61691361--61691522 Score: 168
Period size: 52 Copynumber: 3.1 Consensus size: 52
61691351 TGTGTTTAAA
* *
61691361 AAAAATTC-GGTGTTGCAAAAATTTTCACGTTTTCAAAAAATTCTCGTGTTTTC
1 AAAAATTCTCGTGTTTCAAAAATTTT--CGTTTTCAAAAAATTCTCGTGTTTTC
* * *
61691414 AAAAATTTTCGTGTTTCAAAAATTTTCGTATTTCAAAAATTTGT-GTGTTTTC
1 AAAAATTCTCGTGTTTCAAAAATTTTCGT-TTTCAAAAAATTCTCGTGTTTTC
* * * ** *
61691466 AACAATTCTCGTGTTTCATAAATTTTCGCGTTTCAAAAAA-AATCGGGTTTTC
1 AAAAATTCTCGTGTTTCAAAAATTTTCG-TTTTCAAAAAATTCTCGTGTTTTC
61691518 AAAAA
1 AAAAA
61691523 AATTTGCGTG
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
51 1 0.01
52 56 0.62
53 19 0.21
54 15 0.16
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (52 bp):
AAAAATTCTCGTGTTTCAAAAATTTTCGTTTTCAAAAAATTCTCGTGTTTTC
Found at i:61691577 original size:18 final size:17
Alignment explanation
Indices: 61691378--61691612 Score: 126
Period size: 17 Copynumber: 13.5 Consensus size: 17
61691368 CGGTGTTGCA
**
61691378 AAAATTTTCACGTTTTC
1 AAAATTTTCGTGTTTTC
*
61691395 AAAAAATTCTCGTGTTTTC
1 --AAAATTTTCGTGTTTTC
61691414 AAAAATTTTCGTG-TTTC
1 -AAAATTTTCGTGTTTTC
*
61691431 AAAAATTTTCGT-ATTTC
1 -AAAATTTTCGTGTTTTC
61691448 AAAAATTTGT-GTGTTTTC
1 -AAAATTT-TCGTGTTTTC
*
61691466 AACAATTCTCGTG-TTTC
1 AA-AATTTTCGTGTTTTC
*
61691483 ATAAATTTTCGCG-TTTC
1 A-AAATTTTCGTGTTTTC
*** *
61691500 AAAAAAAATCGGGTTTTC
1 -AAAATTTTCGTGTTTTC
*
61691518 AAAAAAATTTGCGTG-TTTC
1 ---AAAATTTTCGTGTTTTC
* *
61691537 CAAATTGTCGTGTTTTC
1 AAAATTTTCGTGTTTTC
*
61691554 AAAATTTTCGTGTTTTT
1 AAAATTTTCGTGTTTTC
* *
61691571 AAGAATTTTTGTG-TCTC
1 AA-AATTTTCGTGTTTTC
* *
61691588 TAAAGTTCTCGTGTTTT-
1 -AAAATTTTCGTGTTTTC
61691605 AAAATTTT
1 AAAATTTT
61691613 TTCATGTTTT
Statistics
Matches: 170, Mismatches: 32, Indels: 31
0.73 0.14 0.13
Matches are distributed among these distances:
16 15 0.09
17 86 0.51
18 43 0.25
19 18 0.11
20 8 0.05
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (17 bp):
AAAATTTTCGTGTTTTC
Found at i:61692812 original size:40 final size:40
Alignment explanation
Indices: 61692762--61692852 Score: 148
Period size: 39 Copynumber: 2.3 Consensus size: 40
61692752 AGAAAATTTT
61692762 AAAAATAAAAAAAGTATTTTAAAAATA-ATTTAAAAATAA
1 AAAAATAAAAAAAGTATTTTAAAAATATATTTAAAAATAA
* * *
61692801 AAAATTAAAAAAAGTATTTTAAAAATATTTTTGAAAATAA
1 AAAAATAAAAAAAGTATTTTAAAAATATATTTAAAAATAA
61692841 AAAAATAAAAAA
1 AAAAATAAAAAA
61692853 TAAATATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 26 0.55
40 21 0.45
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (40 bp):
AAAAATAAAAAAAGTATTTTAAAAATATATTTAAAAATAA
Found at i:61693100 original size:39 final size:40
Alignment explanation
Indices: 61693057--61693144 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
61693047 TTCAATATTG
61693057 ATTAAGATTGAAAAGC-CTTGCAAGCTACTCAATTCAAGT
1 ATTAAGATTGAAAAGCACTTGCAAGCTACTCAATTCAAGT
** ** ** *
61693096 ATTAATCTTGAAATTCACTTGTGAGCTACTCGATTCAAGT
1 ATTAAGATTGAAAAGCACTTGCAAGCTACTCAATTCAAGT
*
61693136 AATAAGATT
1 ATTAAGATT
61693145 CTCAAATTCA
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
39 12 0.32
40 26 0.68
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (40 bp):
ATTAAGATTGAAAAGCACTTGCAAGCTACTCAATTCAAGT
Found at i:61693388 original size:40 final size:40
Alignment explanation
Indices: 61693344--61693457 Score: 169
Period size: 40 Copynumber: 2.9 Consensus size: 40
61693334 GTTTGGACAA
* *
61693344 AAAACGCCGCTAAAAATTGAGTATTAGCGGCGCTTTACAT
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTACAG
* *
61693384 AAAACGCCGCTAAAGATTGAGCATTAGCGGCGC-TTCCAG
1 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTACAG
61693423 AAAAGCGCCGCTAAAAA-TGAGCATTAGCGGCGCTT
1 AAAA-CGCCGCTAAAAATTGAGCATTAGCGGCGCTT
61693458 CTTGGAAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 24 0.36
40 43 0.64
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTTACAG
Found at i:61693478 original size:39 final size:40
Alignment explanation
Indices: 61693343--61693479 Score: 163
Period size: 40 Copynumber: 3.4 Consensus size: 40
61693333 CGTTTGGACA
* *
61693343 AAAAACGCCGCTAAAAATTGAGTATTAGCGGCGC-T-TTAC
1 AAAAACGCCGCTAAAAA-TGAGCATTAGCGGCGCTTCTTAG
* *
61693382 ATAAAACGCCGCTAAAGATTGAGCATTAGCGGCGCTTC-CAG
1 A-AAAACGCCGCTAAA-AATGAGCATTAGCGGCGCTTCTTAG
* *
61693423 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCGCTTCTTGG
1 AAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTCTTAG
*
61693463 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
61693480 CCTAAGCCCA
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
39 21 0.25
40 58 0.70
41 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTCTTAG
Found at i:61693577 original size:41 final size:41
Alignment explanation
Indices: 61693519--61693750 Score: 358
Period size: 41 Copynumber: 5.7 Consensus size: 41
61693509 TTTCGGGGCA
*
61693519 TTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
* *
61693560 TTAGCGGCGTTTGTGAAAAAGCGTCGCTAATGCTCAGGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
* *
61693601 TCAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
* * * *
61693642 TTAGCGGCGTTTTTGAAAAAGCACCGCTATTGTTCATGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
*
61693683 TTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATGCTCTGGCTT
1 TTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTCAGGCTT
61693724 TTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TTAGCGGCGTTTTTGAAAAAGCGCCGC
61693751 AAAAACATTG
Statistics
Matches: 171, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 3 0.02
41 165 0.96
42 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
Found at i:61694102 original size:7 final size:7
Alignment explanation
Indices: 61694090--61694115 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61694080 ACAGTAAGGC
61694090 GTTAGGG
1 GTTAGGG
61694097 GTTAGGG
1 GTTAGGG
61694104 GTTAGGG
1 GTTAGGG
61694111 GTTAG
1 GTTAG
61694116 AGATTAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.54, T:0.31
Consensus pattern (7 bp):
GTTAGGG
Found at i:61694236 original size:13 final size:13
Alignment explanation
Indices: 61694211--61694248 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
61694201 TATTAAATAA
61694211 GGTTTAGGGGTTAG
1 GGTTTA-GGGTTAG
61694225 GGATTT-GGGTTAG
1 GG-TTTAGGGTTAG
61694238 GGTTTAGGGTT
1 GGTTTAGGGTT
61694249 TAGATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 14 0.64
14 2 0.09
15 3 0.14
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.39
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:61694246 original size:74 final size:76
Alignment explanation
Indices: 61694159--61694302 Score: 202
Period size: 74 Copynumber: 1.9 Consensus size: 76
61694149 TCGGTATCAA
* * *
61694159 GTTAAGGTTTAGGGTTTAGATTAACTAGTGCATTTTAA-TT-TATATTAAATAAGGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
61694222 TAGGGATTTGG
66 TAGGGATTTGG
* * * **
61694233 GTTAGGGTTTAGGGTTTAGATTTATTAATATTTTTTAATTTATATATTAAAGAAGGTTTAGGGGT
1 GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
61694298 TAGGG
66 TAGGG
61694303 GTTAGGGGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
74 31 0.52
75 2 0.03
76 27 0.45
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (76 bp):
GTTAAGGTTTAGGGTTTAGATTAACTAATACATTTTAATTTATATATTAAAGAAGGTTTAGGGGT
TAGGGATTTGG
Found at i:61694302 original size:7 final size:7
Alignment explanation
Indices: 61694290--61694314 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61694280 TAAAGAAGGT
61694290 TTAGGGG
1 TTAGGGG
61694297 TTAGGGG
1 TTAGGGG
61694304 TTAGGGG
1 TTAGGGG
61694311 TTAG
1 TTAG
61694315 AGATTAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:61694431 original size:199 final size:199
Alignment explanation
Indices: 61694091--61694485 Score: 790
Period size: 199 Copynumber: 2.0 Consensus size: 199
61694081 CAGTAAGGCG
61694091 TTAGGGGTTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAAGGTTTATAGATTCGGTAT
1 TTAGGGGTTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAAGGTTTATAGATTCGGTAT
61694156 CAAGTTAAGGTTTAGGGTTTAGATTAACTAGTGCATTTTAATTTATATTAAATAAGGTTTAGGGG
66 CAAGTTAAGGTTTAGGGTTTAGATTAACTAGTGCATTTTAATTTATATTAAATAAGGTTTAGGGG
61694221 TTAGGGATTTGGGTTAGGGTTTAGGGTTTAGATTTATTAATATTTTTTAATTTATATATTAAAGA
131 TTAGGGATTTGGGTTAGGGTTTAGGGTTTAGATTTATTAATATTTTTTAATTTATATATTAAAGA
61694286 AGGT
196 AGGT
61694290 TTAGGGGTTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAAGGTTTATAGATTCGGTAT
1 TTAGGGGTTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAAGGTTTATAGATTCGGTAT
61694355 CAAGTTAAGGTTTAGGGTTTAGATTAACTAGTGCATTTTAATTTATATTAAATAAGGTTTAGGGG
66 CAAGTTAAGGTTTAGGGTTTAGATTAACTAGTGCATTTTAATTTATATTAAATAAGGTTTAGGGG
61694420 TTAGGGATTTGGGTTAGGGTTTAGGGTTTAGATTTATTAATATTTTTTAATTTATATATTAAAGA
131 TTAGGGATTTGGGTTAGGGTTTAGGGTTTAGATTTATTAATATTTTTTAATTTATATATTAAAGA
61694485 A
196 A
61694486 TTTAAATTTC
Statistics
Matches: 196, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
199 196 1.00
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.41
Consensus pattern (199 bp):
TTAGGGGTTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAAGGTTTATAGATTCGGTAT
CAAGTTAAGGTTTAGGGTTTAGATTAACTAGTGCATTTTAATTTATATTAAATAAGGTTTAGGGG
TTAGGGATTTGGGTTAGGGTTTAGGGTTTAGATTTATTAATATTTTTTAATTTATATATTAAAGA
AGGT
Found at i:61694435 original size:13 final size:13
Alignment explanation
Indices: 61694410--61694447 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
61694400 TATTAAATAA
61694410 GGTTTAGGGGTTAG
1 GGTTTA-GGGTTAG
61694424 GGATTT-GGGTTAG
1 GG-TTTAGGGTTAG
61694437 GGTTTAGGGTT
1 GGTTTAGGGTT
61694448 TAGATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 14 0.64
14 2 0.09
15 3 0.14
ACGTcount: A:0.13, C:0.00, G:0.47, T:0.39
Consensus pattern (13 bp):
GGTTTAGGGTTAG
Found at i:61695466 original size:38 final size:38
Alignment explanation
Indices: 61695386--61695467 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
61695376 GGTTACAAAC
* * * *
61695386 TTTATCTGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
*
61695424 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTGG
1 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
61695462 TTTATC
1 TTTATC
61695468 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (38 bp):
TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
Found at i:61719787 original size:32 final size:33
Alignment explanation
Indices: 61719743--61719805 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
61719733 GTGTCATAAT
61719743 TTTTCCTTTTTCTTCTT-TTTT-TTTTTTGTAA
1 TTTTCCTTTTTCTTCTTCTTTTCTTTTTTGTAA
*
61719774 TTTTCTTTCTTTCTTCTTCCTTTTCTTTTTTG
1 TTTTCCTT-TTTCTTCTT-CTTTTCTTTTTTG
61719806 CATGCCCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 7 0.26
32 9 0.33
34 4 0.15
35 7 0.26
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.76
Consensus pattern (33 bp):
TTTTCCTTTTTCTTCTTCTTTTCTTTTTTGTAA
Found at i:61724207 original size:3 final size:3
Alignment explanation
Indices: 61724199--61724227 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61724189 TCTTAATACT
61724199 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
61724228 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:61724488 original size:27 final size:27
Alignment explanation
Indices: 61724444--61724524 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
61724434 TAAGACGAGT
* * *
61724444 AGTGCCGCCAATCAGTATGGCACCATC
1 AGTGCTGCCAACCTGTATGGCACCATC
61724471 AGTGCTGCCAACCTGTATGGCACCATC
1 AGTGCTGCCAACCTGTATGGCACCATC
* *
61724498 GGTGCTTCCAACCT-TATTGGCACCATC
1 AGTGCTGCCAACCTGTA-TGGCACCATC
61724525 GATGCCGCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.04
27 46 0.96
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.23
Consensus pattern (27 bp):
AGTGCTGCCAACCTGTATGGCACCATC
Found at i:61724525 original size:27 final size:27
Alignment explanation
Indices: 61724458--61724525 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
61724448 CCGCCAATCA
*
61724458 GTATGGCACCATCAGTGCTGCCAACCT
1 GTATGGCACCATCGGTGCTGCCAACCT
*
61724485 GTATGGCACCATCGGTGCTTCCAACCT
1 GTATGGCACCATCGGTGCTGCCAACCT
61724512 -TATTGGCACCATCG
1 GTA-TGGCACCATCG
61724526 ATGCCGCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (27 bp):
GTATGGCACCATCGGTGCTGCCAACCT
Found at i:61730685 original size:7 final size:6
Alignment explanation
Indices: 61730659--61730683 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
61730649 ACTGTAATAA
61730659 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
61730684 TAATTTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:61731138 original size:12 final size:12
Alignment explanation
Indices: 61731121--61731153 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
61731111 TGACCCACCC
61731121 ATATTAATTTTT
1 ATATTAATTTTT
61731133 ATATT-ATTTTT
1 ATATTAATTTTT
61731144 ATA-TAATTTT
1 ATATTAATTTT
61731154 AATGTGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:61731347 original size:245 final size:246
Alignment explanation
Indices: 61730909--61731390 Score: 734
Period size: 245 Copynumber: 2.0 Consensus size: 246
61730899 AAATGGAGAA
*
61730909 AATGTGCTAAGAGATATTAATTCAAGCTTGGATAAGTTTGAGTAAATATATGTTGGTAGTAGAGG
1 AATGTGCTAAGAGATATTAATTCAACCTTGGATAAGTTTGAGTAAATATATGTTGGTAGTAGAGG
*
61730974 TGCTCATGGGCTAAGCCAGACCGAGTTTGGGTCAAGTAAAAAAAATAGGCCCATTTGCTAGGCCT
66 TGCTCATGGGCTAAGCCAGACCGAGTTTGGGTCAAGTAAAAAAAATAGGCCCATTTACTAGGCCT
* ** * *
61731039 GAGTTCGGCCCAAAAAATGGGCCTAAAATTTTATCTAGACCCGATTCGGATAAAAAAACTAAAAC
131 GAGCTAAGCCCAAAAAATGGGCCTAAAACTTTATCCAGACCCGATTCGGATAAAAAAACTAAAAC
** *
61731104 TCGGGTCTGACCCACCCATATTAA-TTTTTATATTATTTTTATATAATTTT
196 TCAAGTCTGACCCACCCATATTAATTTTTTATATAATTTTTATATAATTTT
*
61731154 AATGTGTTAAGAGATATTAATTCAACCTTGGATAAGTTTGAGTAAATATATGTTGGTAGTAGAGG
1 AATGTGCTAAGAGATATTAATTCAACCTTGGATAAGTTTGAGTAAATATATGTTGGTAGTAGAGG
* * * * *
61731219 TGCTCGTGGGCTAGGCCGGACCGAG-TTGGGTCAAGTCAAAAAAAATGGGCCCGTTTACTAGGCC
66 TGCTCATGGGCTAAGCCAGACCGAGTTTGGGTCAAGT-AAAAAAAATAGGCCCATTTACTAGGCC
* * * * *
61731283 TGGGCTAAGCCTAAAAAATGGGCCTAAAACTTTATCCAGACCTGGTTCGGATAAAAATACTAAAA
130 TGAGCTAAGCCCAAAAAATGGGCCTAAAACTTTATCCAGACCCGATTCGGATAAAAAAACTAAAA
* *
61731348 CTCAAGTCTGACCCACCCGTTTTAATTTTTTATATAATTTTTA
195 CTCAAGTCTGACCCACCCATATTAATTTTTTATATAATTTTTA
61731391 AAATATATAA
Statistics
Matches: 212, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
244 11 0.05
245 185 0.87
246 16 0.08
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (246 bp):
AATGTGCTAAGAGATATTAATTCAACCTTGGATAAGTTTGAGTAAATATATGTTGGTAGTAGAGG
TGCTCATGGGCTAAGCCAGACCGAGTTTGGGTCAAGTAAAAAAAATAGGCCCATTTACTAGGCCT
GAGCTAAGCCCAAAAAATGGGCCTAAAACTTTATCCAGACCCGATTCGGATAAAAAAACTAAAAC
TCAAGTCTGACCCACCCATATTAATTTTTTATATAATTTTTATATAATTTT
Found at i:61731409 original size:16 final size:16
Alignment explanation
Indices: 61731378--61731411 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61731368 TTTAATTTTT
* *
61731378 TATATAATTTTTAAAA
1 TATATAATTATCAAAA
61731394 TATATAATTATCAAAA
1 TATATAATTATCAAAA
61731410 TA
1 TA
61731412 CTAAAACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATAATTATCAAAA
Found at i:61735139 original size:12 final size:10
Alignment explanation
Indices: 61735112--61735151 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 10
61735102 ATTTTTTTAA
61735112 TTTTAAAATGT
1 TTTTAAAAT-T
61735123 TTTTAAAATACT
1 TTTTAAAAT--T
61735135 TTTTAAAATT
1 TTTTAAAATT
61735145 TTTTAAA
1 TTTTAAA
61735152 TAAATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 8 0.30
11 9 0.33
12 10 0.37
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:61735159 original size:22 final size:21
Alignment explanation
Indices: 61735112--61735178 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
61735102 ATTTTTTTAA
*
61735112 TTTTAAAATGTTTTTAAAATACT
1 TTTTAAAAT-TTTTTAAAA-AAT
61735135 TTTTAAAATTTTTTAAATAAAT
1 TTTTAAAATTTTTTAAA-AAAT
**
61735157 TTTTAGTATTTATTTAAAAAAT
1 TTTTAAAATTT-TTTAAAAAAT
61735179 GGGCTGGGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
22 23 0.59
23 16 0.41
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTAAAATTTTTTAAAAAAT
Found at i:61740233 original size:17 final size:17
Alignment explanation
Indices: 61740185--61740233 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
61740175 GTTTGAATCA
*
61740185 TTTTAATTTTAAATTAT
1 TTTTAAGTTTAAATTAT
** *
61740202 TTTGGATTTTAAATTAT
1 TTTTAAGTTTAAATTAT
*
61740219 TTTTAAGTTTGAATT
1 TTTTAAGTTTAAATT
61740234 GAACAAGTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (17 bp):
TTTTAAGTTTAAATTAT
Found at i:61771575 original size:19 final size:19
Alignment explanation
Indices: 61771551--61771587 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61771541 CGAAATTAAT
*
61771551 AATTAAGCTTAATTAAAAA
1 AATTAAGATTAATTAAAAA
*
61771570 AATTAAGATTGATTAAAA
1 AATTAAGATTAATTAAAA
61771588 CTAAAACATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (19 bp):
AATTAAGATTAATTAAAAA
Found at i:61773344 original size:18 final size:19
Alignment explanation
Indices: 61773321--61773579 Score: 110
Period size: 18 Copynumber: 13.8 Consensus size: 19
61773311 ACAATAATAC
*
61773321 TTTTTGAAAACACGAAGA-
1 TTTTTGAAAACACGAAAAT
61773339 TTTTTG-AAACACGAAAAT
1 TTTTTGAAAACACGAAAAT
*
61773357 TTTTTGAAAACACGGAAA-
1 TTTTTGAAAACACGAAAAT
* * *
61773375 TTTTCG-ATACATGAGAAAT
1 TTTTTGAAAACACGA-AAAT
****
61773394 TTTTTTTTTACACGAAAA-
1 TTTTTGAAAACACGAAAAT
* *
61773412 ATTTTGAAATCACGAAAA-
1 TTTTTGAAAACACGAAAAT
* *
61773430 -TTTTGAAAACATG-AATT
1 TTTTTGAAAACACGAAAAT
** *
61773447 TTTTTTTAAACACG-AATT
1 TTTTTGAAAACACGAAAAT
** *
61773465 TTTTTTTAAACACGAGAATT
1 TTTTTGAAAACACGA-AAAT
*
61773485 TTTTTGAAGACACGAAAACAT
1 TTTTTGAAAACACG-AAA-AT
*
61773506 GAAAATTTTTG-AAACACGAGAAT
1 -----TTTTTGAAAACACGAAAAT
*
61773529 TTTTTAAAAACACGAAAA-
1 TTTTTGAAAACACGAAAAT
* * **
61773547 TTTGT-CAAACACGGGAAT
1 TTTTTGAAAACACGAAAAT
*
61773565 CTTTTGAAAACACGA
1 TTTTTGAAAACACGA
61773580 TAACATCAAA
Statistics
Matches: 184, Mismatches: 38, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
16 2 0.01
17 35 0.19
18 72 0.39
19 34 0.18
20 23 0.12
21 2 0.01
23 2 0.01
24 2 0.01
25 6 0.03
26 6 0.03
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (19 bp):
TTTTTGAAAACACGAAAAT
Found at i:61773429 original size:17 final size:18
Alignment explanation
Indices: 61773404--61773437 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
61773394 TTTTTTTTTA
61773404 CACGAAAAATTTTGAAAT
1 CACGAAAAATTTTGAAAT
61773422 CACG-AAAATTTTGAAA
1 CACGAAAAATTTTGAAA
61773438 ACATGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (18 bp):
CACGAAAAATTTTGAAAT
Found at i:61773529 original size:17 final size:17
Alignment explanation
Indices: 61773509--61773579 Score: 61
Period size: 19 Copynumber: 3.9 Consensus size: 17
61773499 AAAACATGAA
61773509 AATTTTTGAAACACGAG
1 AATTTTTGAAACACGAG
* *
61773526 AATTTTTTAAAAACACGAA
1 AA-TTTTT-GAAACACGAG
* * *
61773545 AATTTGTCAAACACGGG
1 AATTTTTGAAACACGAG
61773562 AATCTTTTGAAAACACGA
1 AAT-TTTTG-AAACACGA
61773580 TAACATCAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
17 12 0.29
18 12 0.29
19 17 0.41
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (17 bp):
AATTTTTGAAACACGAG
Found at i:61773623 original size:21 final size:22
Alignment explanation
Indices: 61773598--61773645 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
61773588 AAAAAATATT
*
61773598 CACGAGAGTTTTTTTTTG-AAA
1 CACGAGAATTTTTTTTTGAAAA
61773619 CACGAGAATTTTTTTTTGAAAA
1 CACGAGAATTTTTTTTTGAAAA
61773641 CACGA
1 CACGA
61773646 AAACACGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (22 bp):
CACGAGAATTTTTTTTTGAAAA
Found at i:61773694 original size:17 final size:17
Alignment explanation
Indices: 61773644--61773730 Score: 52
Period size: 17 Copynumber: 5.0 Consensus size: 17
61773634 TTGAAAACAC
61773644 GAAAACACGAAATTTTT
1 GAAAACACGAAATTTTT
** * *
61773661 TCAAACATGGGAA-TTTT
1 GAAAACA-CGAAATTTTT
61773678 GAAAACACGAAATTTTTT
1 GAAAACACGAAA-TTTTT
** **
61773696 TTATTCACGAGAATTTTT
1 GAAAACACGA-AATTTTT
61773714 G-AAACACGGAAATTTTT
1 GAAAACAC-GAAATTTTT
61773731 TTTTTCAAAA
Statistics
Matches: 50, Mismatches: 15, Indels: 10
0.67 0.20 0.13
Matches are distributed among these distances:
16 3 0.06
17 25 0.50
18 20 0.40
19 2 0.04
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (17 bp):
GAAAACACGAAATTTTT
Found at i:61773710 original size:35 final size:36
Alignment explanation
Indices: 61773644--61773737 Score: 106
Period size: 35 Copynumber: 2.7 Consensus size: 36
61773634 TTGAAAACAC
* ** * *
61773644 GAAAACACGAAA-TTTTTTCAAACATGGGAA-TTTT
1 GAAAACACGAAATTTTTTTTATTCACGAGAATTTTT
61773678 GAAAACACGAAATTTTTTTTATTCACGAGAATTTTT
1 GAAAACACGAAATTTTTTTTATTCACGAGAATTTTT
61773714 G-AAACACGGAAATTTTTTTT-TTCA
1 GAAAACAC-GAAATTTTTTTTATTCA
61773738 AAAAGAAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
34 12 0.23
35 23 0.44
36 17 0.33
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (36 bp):
GAAAACACGAAATTTTTTTTATTCACGAGAATTTTT
Found at i:61773714 original size:144 final size:141
Alignment explanation
Indices: 61773463--61773721 Score: 333
Period size: 146 Copynumber: 1.8 Consensus size: 141
61773453 TAAACACGAA
* * *
61773463 TTTTTTTTTAAACACGAGAATTTTTTTGAAGACACGAAAACATGAAAATTTTTGAAACACGAGAA
1 TTTTTTTTTAAACACGAGAATTTTTTTGAAAACACGAAAACACGAAAATTTTTCAAACACGAGAA
*
61773528 TTTTTTAAAAACACGAAAATTTGTCAAACACGGGAATCTTTTGAAAACACGATAACATCAAAAAA
66 -TTTTTAAAAACACGAAAATTTGTCAAACACGAGAATCTTTTG-AAACACGATAACATCAAAAAA
61773593 ATATTCACGAGAG
129 ATATTCACGAGAG
* * *
61773606 TTTTTTTTTGAAACACGAGAATTTTTTTTTGAAAACACGAAAACACGAAATTTTTTCAAACATGG
1 TTTTTTTTT-AAACACGAGAA--TTTTTTTGAAAACACGAAAACACGAAAATTTTTCAAACACGA
* * * * **
61773671 GAA-TTTTGAAAACACGAAATTTTTTTTATTCACGAGAAT-TTTTGAAACACG
63 GAATTTTTAAAAACACGAAA-ATTTGTCAAACACGAGAATCTTTTGAAACACG
61773722 GAAATTTTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
143 16 0.16
144 31 0.31
145 13 0.13
146 39 0.39
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (141 bp):
TTTTTTTTTAAACACGAGAATTTTTTTGAAAACACGAAAACACGAAAATTTTTCAAACACGAGAA
TTTTTAAAAACACGAAAATTTGTCAAACACGAGAATCTTTTGAAACACGATAACATCAAAAAAAT
ATTCACGAGAG
Found at i:61774248 original size:19 final size:19
Alignment explanation
Indices: 61774208--61774250 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
61774198 AACACCATTT
*
61774208 AAATACATTAAATAAAATA
1 AAATACATTAAATAAAAAA
* *
61774227 AAATAGATTAAAAAGAAAAA
1 AAATACATTAAATA-AAAAA
61774247 AAAT
1 AAAT
61774251 TTACCCAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATACATTAAATAAAAAA
Found at i:61774450 original size:13 final size:13
Alignment explanation
Indices: 61774425--61774480 Score: 67
Period size: 13 Copynumber: 4.1 Consensus size: 13
61774415 GCTGTTTTTA
*
61774425 TTTTTTTTACCTT
1 TTTTTTTTTCCTT
*
61774438 TTTTTATTTCCTT
1 TTTTTTTTTCCTT
61774451 TTTTTTTTTCTCTCT
1 TTTTTTTTTC-CT-T
61774466 TTTTCTTTTTCCTT
1 TTTT-TTTTTCCTT
61774480 T
1 T
61774481 CTTCTTCTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
13 20 0.54
14 4 0.11
15 7 0.19
16 6 0.16
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTCCTT
Found at i:61774483 original size:17 final size:17
Alignment explanation
Indices: 61774448--61774489 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
61774438 TTTTTATTTC
*
61774448 CTTTTT-TTTTTTCTCT
1 CTTTTTCTTTTTCCTCT
*
61774464 CTTTTTCTTTTTCCTTT
1 CTTTTTCTTTTTCCTCT
*
61774481 CTTCTTCTT
1 CTTTTTCTT
61774490 CTCTTAACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTTTCTTTTTCCTCT
Found at i:61774492 original size:28 final size:29
Alignment explanation
Indices: 61774435--61774494 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
61774425 TTTTTTTTAC
* * *
61774435 CTTTTTTTATTTCCTTTTTTTTTTTCTCT
1 CTTTTTTTATTTCCTTTCTTCTTCTCTCT
61774464 CTTTTTCTT-TTTCCTTTCTTCTTCT-TCT
1 CTTTTT-TTATTTCCTTTCTTCTTCTCTCT
61774492 CTT
1 CTT
61774495 AACTTTCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.22
29 19 0.70
30 2 0.07
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (29 bp):
CTTTTTTTATTTCCTTTCTTCTTCTCTCT
Found at i:61774783 original size:23 final size:23
Alignment explanation
Indices: 61774728--61774786 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
61774718 GTGCGGGGAC
*
61774728 GGTGGTGACAGTGCTGTAGTGGT
1 GGTGGTGACGGTGCTGTAGTGGT
*
61774751 GGTGGTGACGGTGCTGTCGTGGT
1 GGTGGTGACGGTGCTGTAGTGGT
*
61774774 GGTGGGGACGGTG
1 GGTGGTGACGGTG
61774787 GCGCGCGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.08, C:0.10, G:0.54, T:0.27
Consensus pattern (23 bp):
GGTGGTGACGGTGCTGTAGTGGT
Found at i:61775186 original size:30 final size:30
Alignment explanation
Indices: 61775133--61775209 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
61775123 TAGGGCCCTG
* * *
61775133 AATGT-AATTTATAAAATATTAGGGGTCAA
1 AATGTAAATTTAGAAAAAACTAGGGGTCAA
61775162 AATGTAAATTTAGAAAAAACTAGGGGTCAA
1 AATGTAAATTTAGAAAAAACTAGGGGTCAA
* *
61775192 AATGTAATTTTTGAAAAA
1 AATGTAAATTTAGAAAAA
61775210 TTCAGGGGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 5 0.12
30 37 0.88
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (30 bp):
AATGTAAATTTAGAAAAAACTAGGGGTCAA
Found at i:61775217 original size:30 final size:30
Alignment explanation
Indices: 61775100--61775239 Score: 101
Period size: 30 Copynumber: 4.7 Consensus size: 30
61775090 AAAATTGGGC
* **
61775100 CAAAATGTAATTTCTTG-AAAATTTAGGGCC
1 CAAAATGTAATTT-TTGAAAAATTCAGGGGT
** *
61775130 CTGAATGTAATTTAT-AAAATATT-AGGGGT
1 CAAAATGTAATTTTTGAAAA-ATTCAGGGGT
* * *
61775159 CAAAATGTAAATTTAGAAAAA-ACTAGGGGT
1 CAAAATGTAATTTTTGAAAAATTC-AGGGGT
61775189 CAAAATGTAATTTTTGAAAAATTCAGGGG-
1 CAAAATGTAATTTTTGAAAAATTCAGGGGT
* * *
61775218 CTAAAACGCAATTTTTAAAAAA
1 C-AAAATGTAATTTTTGAAAAA
61775240 ACGTAAATTC
Statistics
Matches: 86, Mismatches: 17, Indels: 14
0.74 0.15 0.12
Matches are distributed among these distances:
29 20 0.23
30 65 0.76
31 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.31
Consensus pattern (30 bp):
CAAAATGTAATTTTTGAAAAATTCAGGGGT
Found at i:61776310 original size:152 final size:154
Alignment explanation
Indices: 61776113--61776439 Score: 595
Period size: 152 Copynumber: 2.1 Consensus size: 154
61776103 AATAAGATAA
** *
61776113 ATAAAAAGGATAAATTAATAGCATACAAAATAAGTATATAAGCAAACAAAGTTAAAGCATTCTTT
1 ATAAAAATTATAAAATAATAGCATACAAAAT-AGTATATAAGCAAACAAAGTTAAAGCATTCTTT
61776178 TAAAATAATGACATAAATGTAAACAAATAAAGAAAATGAATAAAATATAAAAATGTGAAAGGATG
65 TAAAATAATGACATAAATGTAAACAAATAAAGAAAATGAATAAAATATAAAAATGTGAAAGGATG
61776243 TACATATTTGTATATATATATGCAT
130 TACATATTTGTATATATATATGCAT
61776268 ATAAAAATTATAAAATAATA-CATACAAAAT-GTATATAAGCAAACAAAGTTAAAGCATTCTTTT
1 ATAAAAATTATAAAATAATAGCATACAAAATAGTATATAAGCAAACAAAGTTAAAGCATTCTTTT
*
61776331 AAAATAATGACATAAATGTAAACAAATAAAGAAAATGAATAAAATATATAAATGTGAAAGGATGT
66 AAAATAATGACATAAATGTAAACAAATAAAGAAAATGAATAAAATATAAAAATGTGAAAGGATGT
61776396 ACATATTTGTATATATATATGCAT
131 ACATATTTGTATATATATATGCAT
61776420 ATAAAAATTATAAAATAATA
1 ATAAAAATTATAAAATAATA
61776440 TATAAATATA
Statistics
Matches: 168, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
152 141 0.84
154 10 0.06
155 17 0.10
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.29
Consensus pattern (154 bp):
ATAAAAATTATAAAATAATAGCATACAAAATAGTATATAAGCAAACAAAGTTAAAGCATTCTTTT
AAAATAATGACATAAATGTAAACAAATAAAGAAAATGAATAAAATATAAAAATGTGAAAGGATGT
ACATATTTGTATATATATATGCAT
Found at i:61776512 original size:44 final size:42
Alignment explanation
Indices: 61776427--61776512 Score: 95
Period size: 44 Copynumber: 2.0 Consensus size: 42
61776417 CATATAAAAA
* * *
61776427 TTATAAAATAATATATAAATATATAAGTATGTATATGCATAT
1 TTATAAAATAAAATATAAATAGATAAGTATGTATATACATAT
61776469 TTATGAAAATAAAAATATAAATAGATACATGTA-G-ATATACATAT
1 TTAT-AAAAT-AAAATATAAATAGATA-A-GTATGTATATACATAT
61776513 AAGTTATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
42 4 0.11
43 5 0.14
44 23 0.62
45 2 0.05
46 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.36
Consensus pattern (42 bp):
TTATAAAATAAAATATAAATAGATAAGTATGTATATACATAT
Found at i:61776617 original size:23 final size:25
Alignment explanation
Indices: 61776568--61776626 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
61776558 TATACAAGTA
*
61776568 AATTATGAAAATATGTACGTATATAT
1 AATTATAAAAATATGTAC-TATATAT
61776594 -ATTATAAAAATATGTA-TATATAT
1 AATTATAAAAATATGTACTATATAT
61776617 AAGTTATAAA
1 AA-TTATAAA
61776627 GTATAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 7 0.23
24 1 0.03
25 22 0.73
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (25 bp):
AATTATAAAAATATGTACTATATAT
Found at i:61776699 original size:24 final size:25
Alignment explanation
Indices: 61776672--61776723 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
61776662 CTAAAAGGGT
*
61776672 ATAAAT-AGGTAAATAATAATAACA
1 ATAAATAAGGTAAACAATAATAACA
* *
61776696 AT-AATAAGGTAAGCAATAATAATA
1 ATAAATAAGGTAAACAATAATAACA
61776720 ATAA
1 ATAA
61776724 TACTATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
23 3 0.13
24 19 0.83
25 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.10, T:0.25
Consensus pattern (25 bp):
ATAAATAAGGTAAACAATAATAACA
Found at i:61782981 original size:13 final size:13
Alignment explanation
Indices: 61782963--61782991 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
61782953 TTTTTTAACC
61782963 TAATAATAGAATT
1 TAATAATAGAATT
61782976 TAATAATAGAATT
1 TAATAATAGAATT
61782989 TAA
1 TAA
61782992 CCTAACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (13 bp):
TAATAATAGAATT
Found at i:61791498 original size:9 final size:9
Alignment explanation
Indices: 61791484--61791518 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
61791474 TATATAGTCA
61791484 TATTTTCAT
1 TATTTTCAT
61791493 TATTTTCAT
1 TATTTTCAT
61791502 TATTTTCAT
1 TATTTTCAT
61791511 TATTTTCA
1 TATTTTCA
61791519 ATTAAATCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (9 bp):
TATTTTCAT
Found at i:61799404 original size:5 final size:5
Alignment explanation
Indices: 61799396--61799423 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
61799386 CTTATAATGT
61799396 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
61799424 ACTGAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:61799996 original size:11 final size:11
Alignment explanation
Indices: 61799980--61800004 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
61799970 AACCTAACAA
61799980 ATTTACCATAC
1 ATTTACCATAC
61799991 ATTTACCATAC
1 ATTTACCATAC
61800002 ATT
1 ATT
61800005 AATATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTTACCATAC
Found at i:61808172 original size:24 final size:23
Alignment explanation
Indices: 61808125--61808172 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
61808115 CTAAGAAAAT
*
61808125 AAGGTTATAATAAAAAAATTTTA
1 AAGGTTATAATAAAAAAATATTA
*
61808148 AAGGATTATAATAAAAATATATTA
1 AAGG-TTATAATAAAAAAATATTA
61808172 A
1 A
61808173 TTCTCAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (23 bp):
AAGGTTATAATAAAAAAATATTA
Found at i:61815731 original size:21 final size:21
Alignment explanation
Indices: 61815670--61815748 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
61815660 CTTGATCAGT
*
61815670 ATACGGCACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** * *
61815690 AAACGACACACGAGGTACCTG
1 ATACGACACATAAAGTGCCTG
61815711 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
61815734 ATACGACACATAAAG
1 ATACGACACATAAAG
61815749 CCCCTAATGT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 8 0.17
21 22 0.48
23 16 0.35
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:61815761 original size:23 final size:23
Alignment explanation
Indices: 61815710--61815767 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
61815700 CGAGGTACCT
** *
61815710 GATACGACACATAAAGTGCCTGA
1 GATACGACACATAAAGCCCCTAA
61815733 GATACGACACATAAAGCCCCTAA
1 GATACGACACATAAAGCCCCTAA
61815756 TG-TACGACACAT
1 -GATACGACACAT
61815768 GTATAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 30 0.97
24 1 0.03
ACGTcount: A:0.40, C:0.26, G:0.17, T:0.17
Consensus pattern (23 bp):
GATACGACACATAAAGCCCCTAA
Found at i:61815846 original size:12 final size:12
Alignment explanation
Indices: 61815820--61815861 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
61815810 ACAAATTGTG
61815820 ATAATAA-TA-A
1 ATAATAATTACA
61815830 A-AATAATTACA
1 ATAATAATTACA
61815841 ATAATAATTACA
1 ATAATAATTACA
61815853 ATAATAATT
1 ATAATAATT
61815862 TAATAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.17
10 3 0.10
11 2 0.07
12 19 0.66
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAATAATTACA
Found at i:61818203 original size:20 final size:20
Alignment explanation
Indices: 61818178--61818220 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
61818168 GAATATTCAA
61818178 ATACCAAACTATATCAATTT
1 ATACCAAACTATATCAATTT
61818198 ATACCAAACTATATCAATTT
1 ATACCAAACTATATCAATTT
61818218 ATA
1 ATA
61818221 GAATGCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.35
Consensus pattern (20 bp):
ATACCAAACTATATCAATTT
Found at i:61822710 original size:8 final size:8
Alignment explanation
Indices: 61822699--61822729 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
61822689 ATGCTTTTTT
61822699 AATTTTAA
1 AATTTTAA
61822707 AATTTTAA
1 AATTTTAA
61822715 AATTTTAA
1 AATTTTAA
61822723 AATTTTA
1 AATTTTA
61822730 GTCCATACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
AATTTTAA
Found at i:61828284 original size:4 final size:4
Alignment explanation
Indices: 61828275--61828301 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
61828265 GTGATTGAGA
61828275 TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAA
61828302 AATTTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:61830680 original size:30 final size:31
Alignment explanation
Indices: 61830646--61830711 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
61830636 TTTGAATCTG
**
61830646 AAAAATAAAAAGACTAAATTCTTGA-AAATA
1 AAAAATAAAAAGACTAAATTCTAAATAAATA
* * *
61830676 AAAAATATATAGACTAATTTCTAAATAAATA
1 AAAAATAAAAAGACTAAATTCTAAATAAATA
61830707 AAAAA
1 AAAAA
61830712 ACTTAATAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.64, C:0.06, G:0.05, T:0.26
Consensus pattern (31 bp):
AAAAATAAAAAGACTAAATTCTAAATAAATA
Found at i:61847004 original size:12 final size:12
Alignment explanation
Indices: 61846987--61847029 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
61846977 TCATTTTATC
61846987 ATCAAGTCTTGA
1 ATCAAGTCTTGA
*
61846999 ATCAAGTCTTGT
1 ATCAAGTCTTGA
61847011 ATCAAGTCATT-A
1 ATCAAGTC-TTGA
61847023 ATCAAGT
1 ATCAAGT
61847030 TTTTAATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 26 0.93
13 2 0.07
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (12 bp):
ATCAAGTCTTGA
Found at i:61847035 original size:12 final size:12
Alignment explanation
Indices: 61846987--61847036 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
61846977 TCATTTTATC
*
61846987 ATCAAGTCTTGA
1 ATCAAGTCTTTA
61846999 ATCAAGTCTTGT-
1 ATCAAGTCTT-TA
*
61847011 ATCAAGTCATTA
1 ATCAAGTCTTTA
*
61847023 ATCAAGTTTTTA
1 ATCAAGTCTTTA
61847035 AT
1 AT
61847037 TACCAAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 1 0.03
12 31 0.97
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (12 bp):
ATCAAGTCTTTA
Found at i:61849445 original size:21 final size:23
Alignment explanation
Indices: 61849404--61849450 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
61849394 ATAATCACGA
61849404 TTATTTGAATTGAATAATTATTT
1 TTATTTGAATTGAATAATTATTT
*
61849427 TTATTT-AATTTAA-AATTATTT
1 TTATTTGAATTGAATAATTATTT
61849448 TTA
1 TTA
61849451 AATTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.48
22 6 0.26
23 6 0.26
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTATTTGAATTGAATAATTATTT
Found at i:61850636 original size:3 final size:3
Alignment explanation
Indices: 61850630--61850656 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
61850620 GGTATTATTA
61850630 TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG
61850657 AATTATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:61857631 original size:20 final size:21
Alignment explanation
Indices: 61857603--61857644 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
61857593 TAAATAAACC
61857603 AATAAATATTA-AAA-AAAATA
1 AATAAATA-TACAAATAAAATA
*
61857623 AATATATATACAAATAAAATA
1 AATAAATATACAAATAAAATA
61857644 A
1 A
61857645 TTGAACCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 2 0.11
20 10 0.53
21 7 0.37
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
AATAAATATACAAATAAAATA
Found at i:61867009 original size:2 final size:2
Alignment explanation
Indices: 61866998--61867032 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
61866988 AACAATTAGT
61866998 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61867033 GAGATATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:61882323 original size:31 final size:30
Alignment explanation
Indices: 61882261--61882332 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 30
61882251 TTGATACACG
* *
61882261 AACTTTAATTTGGTGCAATTATCTACATGA
1 AACTTTAATTTGGTGCAAATATATACATGA
* * *
61882291 AACTTTGATTGTGGTTCAAATATATATATGA
1 AACTTTAATT-TGGTGCAAATATATACATGA
61882322 AACTTTAATTT
1 AACTTTAATTT
61882333 TGAATCAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 10 0.29
31 25 0.71
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (30 bp):
AACTTTAATTTGGTGCAAATATATACATGA
Found at i:61885567 original size:31 final size:32
Alignment explanation
Indices: 61885527--61885596 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
61885517 AAATATTTAA
*
61885527 TTTAGTCACT-AATATTTTAGATAATTTCTATT
1 TTTAGTCACTCAAGA-TTTAGATAATTTCTATT
* *
61885559 TTTA-TCACTCACGATTTAGATCATTTCTA-T
1 TTTAGTCACTCAAGATTTAGATAATTTCTATT
61885589 TTTAGTCA
1 TTTAGTCA
61885597 TTCTCTGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 5 0.15
31 22 0.67
32 6 0.18
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (32 bp):
TTTAGTCACTCAAGATTTAGATAATTTCTATT
Found at i:61885986 original size:108 final size:109
Alignment explanation
Indices: 61885848--61886065 Score: 420
Period size: 108 Copynumber: 2.0 Consensus size: 109
61885838 AGATAAAAGT
61885848 TTACAAATATAACTATAATAATAAATAAATTATATTAAAATAAATTATAATCATAATTAAACATT
1 TTACAAATAT-ACTATAATAATAAATAAATTATATTAAAATAAATTATAATCATAATTAAACATT
61885913 TTAGACTGTAATTATTTTTCGTCGATGTATCTTCTTTGTTTTTTG
65 TTAGACTGTAATTATTTTTCGTCGATGTATCTTCTTTGTTTTTTG
61885958 TTACAAATAT-CTATAATAATAAATAAATTATATTAAAATAAATTATAATCATAATTAAACATTT
1 TTACAAATATACTATAATAATAAATAAATTATATTAAAATAAATTATAATCATAATTAAACATTT
61886022 TAGACTGTAATTATTTTTCGTCGATGTATCTTCTTTGTTTTTTG
66 TAGACTGTAATTATTTTTCGTCGATGTATCTTCTTTGTTTTTTG
61886066 GGGATAACAT
Statistics
Matches: 108, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
108 98 0.91
110 10 0.09
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.46
Consensus pattern (109 bp):
TTACAAATATACTATAATAATAAATAAATTATATTAAAATAAATTATAATCATAATTAAACATTT
TAGACTGTAATTATTTTTCGTCGATGTATCTTCTTTGTTTTTTG
Found at i:61919553 original size:15 final size:17
Alignment explanation
Indices: 61919533--61919564 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61919523 TTAATTAAAT
61919533 TTAA-TTAA-ATGATAA
1 TTAATTTAATATGATAA
61919548 TTAATTTAATATGATAA
1 TTAATTTAATATGATAA
61919565 ATCTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTAATTTAATATGATAA
Found at i:61923825 original size:13 final size:13
Alignment explanation
Indices: 61923807--61923831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61923797 TTTTACTTTT
61923807 ATTGTATTTTATC
1 ATTGTATTTTATC
61923820 ATTGTATTTTAT
1 ATTGTATTTTAT
61923832 TTAAACAAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (13 bp):
ATTGTATTTTATC
Found at i:61927525 original size:17 final size:17
Alignment explanation
Indices: 61927503--61927545 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
61927493 TTGAGAGTGT
61927503 TTATTTAAGTAATTTGA
1 TTATTTAAGTAATTTGA
*
61927520 TTATTTAAATAATTTGA
1 TTATTTAAGTAATTTGA
61927537 TTA-TTAAGT
1 TTATTTAAGT
61927546 TGGTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (17 bp):
TTATTTAAGTAATTTGA
Found at i:61928255 original size:29 final size:31
Alignment explanation
Indices: 61928193--61928260 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
61928183 TAATTGGACT
61928193 TAAATTTTGAAAAACTAAAAAGTAGAGTGAC
1 TAAATTTTGAAAAACTAAAAAGTAGAGTGAC
*
61928224 TAAATTCTTG-AAAA-TAAAAA-TATAG-GATC
1 TAAATT-TTGAAAAACTAAAAAGTAGAGTGA-C
61928253 TAAATTTT
1 TAAATTTT
61928261 ACATTTTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 4 0.12
29 11 0.32
30 6 0.18
31 10 0.29
32 3 0.09
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (31 bp):
TAAATTTTGAAAAACTAAAAAGTAGAGTGAC
Found at i:61932324 original size:54 final size:55
Alignment explanation
Indices: 61932233--61932346 Score: 194
Period size: 54 Copynumber: 2.1 Consensus size: 55
61932223 CGACCAATTC
* *
61932233 CTGATAGAGCATAGGTGTCTAAGCAATGTTAGGCGACGAGTAGTGCTCTAAGGAGG
1 CTGATAGAGCATAGGTG-CTAAGCAATGTTAGCCGACGAGTAGTGCTCGAAGGAGG
61932289 CTGATAGAGCATAGGTG-TAAGCAATGTTAGCCGACGAGTAGTGCTCGAAGGAGG
1 CTGATAGAGCATAGGTGCTAAGCAATGTTAGCCGACGAGTAGTGCTCGAAGGAGG
61932343 CTGA
1 CTGA
61932347 AGAAGTTTGA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
54 39 0.70
56 17 0.30
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (55 bp):
CTGATAGAGCATAGGTGCTAAGCAATGTTAGCCGACGAGTAGTGCTCGAAGGAGG
Found at i:61933087 original size:21 final size:21
Alignment explanation
Indices: 61933058--61933098 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
61933048 CTCAATCTAA
*
61933058 AAGTGGATCACATTGAACTAG
1 AAGTAGATCACATTGAACTAG
61933079 AAGTAGATCACATTGAACTA
1 AAGTAGATCACATTGAACTA
61933099 CTATTTGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (21 bp):
AAGTAGATCACATTGAACTAG
Found at i:61933190 original size:16 final size:17
Alignment explanation
Indices: 61933164--61933200 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
61933154 CTTATTTTAA
61933164 ATTATAAAATATAAAAT
1 ATTATAAAATATAAAAT
61933181 ATTA-AAAATATAAAAT
1 ATTATAAAATATAAAAT
61933197 -TTAT
1 ATTAT
61933201 TTTAATATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 12 0.63
17 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTATAAAATATAAAAT
Found at i:61933522 original size:18 final size:18
Alignment explanation
Indices: 61933495--61933529 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61933485 TAACATTCTT
*
61933495 ATAAACTTATAAAAAATC
1 ATAAAATTATAAAAAATC
*
61933513 ATAAAATTATTAAAAAT
1 ATAAAATTATAAAAAAT
61933530 TAATAAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAATTATAAAAAATC
Found at i:61933526 original size:9 final size:9
Alignment explanation
Indices: 61933514--61933573 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
61933504 TAAAAAATCA
61933514 TAAAATTAT
1 TAAAATTAT
*
61933523 TAAAAATTAA
1 T-AAAATTAT
**
61933533 TAAAAACAT
1 TAAAATTAT
61933542 TAAAATTAT
1 TAAAATTAT
*
61933551 ATAAACTTAT
1 -TAAAATTAT
*
61933561 AAAAATTA-
1 TAAAATTAT
61933569 TAAAA
1 TAAAA
61933574 AAAATCATAA
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
8 4 0.10
9 19 0.49
10 16 0.41
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAATTAT
Found at i:61933528 original size:10 final size:9
Alignment explanation
Indices: 61933501--61933574 Score: 62
Period size: 10 Copynumber: 8.0 Consensus size: 9
61933491 TCTTATAAAC
61933501 TTATAAAAAA
1 TTAT-AAAAA
*
61933511 TCAT-AAAA
1 TTATAAAAA
61933519 TTATTAAAAA
1 TTA-TAAAAA
61933529 TTAATAAAAA
1 TT-ATAAAAA
* *
61933539 -CATTAAAA
1 TTATAAAAA
*
61933547 TTATATAAAC
1 TTATA-AAAA
61933557 TTATAAAAA
1 TTATAAAAA
61933566 TTATAAAAA
1 TTATAAAAA
61933575 AAATCATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
8 12 0.24
9 15 0.29
10 23 0.45
11 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (9 bp):
TTATAAAAA
Found at i:61933535 original size:19 final size:18
Alignment explanation
Indices: 61933495--61933573 Score: 70
Period size: 19 Copynumber: 4.3 Consensus size: 18
61933485 TAACATTCTT
* * *
61933495 ATAAACTTATAAAAAATC
1 ATAAAATTATAAAAATTA
61933513 ATAAAATTATTAAAAATTA
1 ATAAAATTA-TAAAAATTA
** *
61933532 ATAAAAACATTAAAATTA
1 ATAAAATTATAAAAATTA
*
61933550 TATAAACTTATAAAAATT-
1 -ATAAAATTATAAAAATTA
61933568 ATAAAA
1 ATAAAA
61933574 AAAATCATAA
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
17 5 0.10
18 16 0.33
19 27 0.56
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAATTATAAAAATTA
Found at i:61933574 original size:28 final size:27
Alignment explanation
Indices: 61933494--61933573 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 27
61933484 NTAACATTCT
61933494 TATAAACTTATAAAAAATCATAAAATTA
1 TATAAACTTAT-AAAAATCATAAAATTA
*
61933522 T-TAAAAATTAATAAAAA-CATTAAAATTA
1 TAT-AAACTT-ATAAAAATCA-TAAAATTA
*
61933550 TATAAACTTATAAAAATTATAAAA
1 TATAAACTTATAAAAATCATAAAA
61933574 AAAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
27 15 0.34
28 26 0.59
29 3 0.07
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (27 bp):
TATAAACTTATAAAAATCATAAAATTA
Found at i:61938732 original size:17 final size:17
Alignment explanation
Indices: 61938710--61938744 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
61938700 GACAAGACTG
61938710 TTTTTTTAGTTTTGTTT
1 TTTTTTTAGTTTTGTTT
*
61938727 TTTTTTTTGTTTTGTTT
1 TTTTTTTAGTTTTGTTT
61938744 T
1 T
61938745 GTGAGGAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (17 bp):
TTTTTTTAGTTTTGTTT
Found at i:61942998 original size:10 final size:10
Alignment explanation
Indices: 61942980--61943009 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
61942970 GAAACTGAAG
61942980 CATATATATA
1 CATATATATA
*
61942990 CATACATATA
1 CATATATATA
61943000 CATATATATA
1 CATATATATA
61943010 ATAGTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (10 bp):
CATATATATA
Found at i:61945100 original size:16 final size:16
Alignment explanation
Indices: 61945079--61945112 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
61945069 ACTGAGCTAT
*
61945079 TAATTGCCCTTAATGG
1 TAATTGCCCTTAACGG
61945095 TAATTGCCCTTAACGG
1 TAATTGCCCTTAACGG
61945111 TA
1 TA
61945113 TAATGATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (16 bp):
TAATTGCCCTTAACGG
Found at i:61945253 original size:20 final size:21
Alignment explanation
Indices: 61945215--61945253 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
61945205 TATTTTGAGC
61945215 ACTTTTTTTTATGTTCTTTTA
1 ACTTTTTTTTATGTTCTTTTA
61945236 ACTTTATTTTT-T-TTCTTT
1 ACTTT-TTTTTATGTTCTTT
61945254 ATTTTCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (21 bp):
ACTTTTTTTTATGTTCTTTTA
Found at i:61946054 original size:4 final size:4
Alignment explanation
Indices: 61946045--61946071 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
61946035 TCTCTTCCTT
61946045 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
61946072 TACTTTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:61953316 original size:17 final size:19
Alignment explanation
Indices: 61953286--61953320 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
61953276 TAGACTTTTT
61953286 TATATTAAATAAATAAAAA
1 TATATTAAATAAATAAAAA
61953305 TATA-TAAA-AAATAAAA
1 TATATTAAATAAATAAAA
61953321 TAAAGTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TATATTAAATAAATAAAAA
Found at i:61967018 original size:25 final size:25
Alignment explanation
Indices: 61966976--61967036 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
61966966 ATTATATATT
61966976 AAATATAT-TTTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
61967000 AAATATATATTTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
61967025 AAATATATATTT
1 AAATATATATTT
61967037 AATATGGGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 8 0.22
25 28 0.78
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
AAATATATATTTTTTATTTTTAATC
Found at i:61971178 original size:30 final size:29
Alignment explanation
Indices: 61971128--61971185 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
61971118 TGTTTGATAT
61971128 TTAATTTAAATATTAAATAAATAATTTTAA
1 TTAATTTAAATATT-AATAAATAATTTTAA
*
61971158 TTAATTTTAAAATATT-ATAAATATTTTT
1 TTAA-TTT-AAATATTAATAAATAATTTT
61971186 TTATGATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 15 0.60
31 3 0.12
32 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTAATTTAAATATTAATAAATAATTTTAA
Found at i:61971603 original size:19 final size:21
Alignment explanation
Indices: 61971558--61971596 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
61971548 CCAGATATAC
61971558 TTCATAAAATTTTAAAAAAAA
1 TTCATAAAATTTTAAAAAAAA
61971579 TTCATAAAA-TTTAAAAAA
1 TTCATAAAATTTTAAAAAA
61971597 GTTCATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
TTCATAAAATTTTAAAAAAAA
Found at i:61978378 original size:83 final size:84
Alignment explanation
Indices: 61978264--61978433 Score: 333
Period size: 83 Copynumber: 2.0 Consensus size: 84
61978254 TTGATTAAAT
61978264 TTTGTCTCTAAAATTTAATTTTTATTGAAATTTTCTACTCAATTTTAATTTAAAATAACTCGAAA
1 TTTGTCTCTAAAATTTAATTTTTATTGAAATTTTCTACTCAATTTTAATTTAAAATAACTCGAAA
61978329 AGAATTTAATAATTTTTAA
66 AGAATTTAATAATTTTTAA
61978348 TTTGTCTCT-AAATTTAATTTTTATTGAAATTTTCTACTCAATTTTAATTTAAAATAACTCGAAA
1 TTTGTCTCTAAAATTTAATTTTTATTGAAATTTTCTACTCAATTTTAATTTAAAATAACTCGAAA
61978412 AGAATTTAATAATTTTTAA
66 AGAATTTAATAATTTTTAA
61978431 TTT
1 TTT
61978434 ACTTTTTCTG
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 77 0.90
84 9 0.10
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (84 bp):
TTTGTCTCTAAAATTTAATTTTTATTGAAATTTTCTACTCAATTTTAATTTAAAATAACTCGAAA
AGAATTTAATAATTTTTAA
Found at i:61979521 original size:2 final size:2
Alignment explanation
Indices: 61979514--61979551 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
61979504 CAAAATATTA
61979514 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
61979552 GAGTCAAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:61983193 original size:14 final size:14
Alignment explanation
Indices: 61983174--61983201 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61983164 GTTCTTAGTT
61983174 GTTTAAAATCTTGA
1 GTTTAAAATCTTGA
61983188 GTTTAAAATCTTGA
1 GTTTAAAATCTTGA
61983202 ATCACAGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
GTTTAAAATCTTGA
Found at i:61989108 original size:61 final size:57
Alignment explanation
Indices: 61988940--61989111 Score: 166
Period size: 61 Copynumber: 2.9 Consensus size: 57
61988930 TAATATAACA
* * ** * *
61988940 TTGGTTCTTGAACTTGACACTTTTTTTTCTAATTTGGTATCTAAAATTTTTTTGCCCAAT
1 TTGGTACTTGAACTTG-C-CATTTTTTTCTAATTTGGTA-CCCAACTTTTTTTGCCAAAT
* * **
61989000 TAGGTACCTGAACTTGCCATTTTTTT-TAAAATTTGGTACTGAACTTTTTTTGGGACCAAAT
1 TTGGTACTTGAACTTGCCATTTTTTTCT--AATTTGGTACCCAACTTTTTTT--G-CCAAAT
61989061 TTGGTACTTGAACTTGCCATTTTTTTCTAATTTGGTACCCAAGCTTTTTTT
1 TTGGTACTTGAACTTGCCATTTTTTTCTAATTTGGTACCCAA-CTTTTTTT
61989112 TTTGGATTCA
Statistics
Matches: 94, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
57 1 0.01
58 19 0.20
59 10 0.11
60 26 0.28
61 37 0.39
62 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (57 bp):
TTGGTACTTGAACTTGCCATTTTTTTCTAATTTGGTACCCAACTTTTTTTGCCAAAT
Found at i:61996046 original size:3 final size:3
Alignment explanation
Indices: 61996038--61996077 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
61996028 ATAAATGGCT
61996038 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
61996078 CGCAAAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:61996369 original size:13 final size:13
Alignment explanation
Indices: 61996351--61996377 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61996341 TCCTTTCTAC
61996351 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
61996364 TTTTTTTGTTTTT
1 TTTTTTTGTTTTT
61996377 T
1 T
61996378 CTAACACACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (13 bp):
TTTTTTTGTTTTT
Found at i:61996649 original size:3 final size:3
Alignment explanation
Indices: 61996594--61996636 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
61996584 TTTCCACTAC
* * * *
61996594 CTT CTT CAT CGT CTT CAT CTT CTT CTT CTT CTT CTT CCT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
61996637 ACCATTTTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.05, C:0.37, G:0.02, T:0.56
Consensus pattern (3 bp):
CTT
Found at i:61997398 original size:9 final size:9
Alignment explanation
Indices: 61997384--61997446 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
61997374 CTTCATCACT
61997384 GTCGTCATC
1 GTCGTCATC
*
61997393 GTCGTCGTC
1 GTCGTCATC
61997402 GTCGTCATC
1 GTCGTCATC
* **
61997411 GTCATCGCC
1 GTCGTCATC
61997420 GTCGCCTTCATC
1 GTCG---TCATC
61997432 GTCGTCATC
1 GTCGTCATC
*
61997441 ATCGTC
1 GTCGTC
61997447 TTTAACATCC
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
9 35 0.83
12 7 0.17
ACGTcount: A:0.10, C:0.37, G:0.22, T:0.32
Consensus pattern (9 bp):
GTCGTCATC
Found at i:61997404 original size:15 final size:15
Alignment explanation
Indices: 61997385--61997437 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
61997375 TTCATCACTG
* *
61997385 TCGTCATCGTCGTCG
1 TCGTCGTCGTCGTCA
*
61997400 TCGTCGTCATCGTCA
1 TCGTCGTCGTCGTCA
* * *
61997415 TCGCCGTCGCCTTCA
1 TCGTCGTCGTCGTCA
61997430 TCGTCGTC
1 TCGTCGTC
61997438 ATCATCGTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.08, C:0.38, G:0.23, T:0.32
Consensus pattern (15 bp):
TCGTCGTCGTCGTCA
Found at i:61997541 original size:3 final size:3
Alignment explanation
Indices: 61997535--61997605 Score: 61
Period size: 3 Copynumber: 23.7 Consensus size: 3
61997525 CTCCTCTCCT
* * * * * * * *
61997535 TCG TCG TCG TCG TCG TCG TCG TCG TCA TCT TCG CCT TCA TCA TCC TCA
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG
*
61997583 TCC TCG TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TC
61997606 TTCCTCTTCG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.06, C:0.38, G:0.21, T:0.35
Consensus pattern (3 bp):
TCG
Found at i:61998587 original size:9 final size:9
Alignment explanation
Indices: 61998549--61998613 Score: 67
Period size: 9 Copynumber: 7.2 Consensus size: 9
61998539 GTAGTGATTC
61998549 AATTCGGTT
1 AATTCGGTT
* *
61998558 AATTTGGGT
1 AATTCGGTT
* *
61998567 AATCCGATT
1 AATTCGGTT
*
61998576 AATTCGGGT
1 AATTCGGTT
*
61998585 AATCCGGTT
1 AATTCGGTT
*
61998594 AACTCGGTT
1 AATTCGGTT
61998603 AATTCGGTT
1 AATTCGGTT
61998612 AA
1 AA
61998614 CCGACCGAAT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (9 bp):
AATTCGGTT
Found at i:62001914 original size:25 final size:26
Alignment explanation
Indices: 62001857--62001920 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
62001847 AAGTATTTAA
62001857 TTAATTTTTAAAATTTTAAAAATATT
1 TTAATTTTTAAAATTTTAAAAATATT
* * **
62001883 TT-TTTTTTATAATTTTAATGAT-TT
1 TTAATTTTTAAAATTTTAAAAATATT
*
62001907 TTAATTTTAAAAAT
1 TTAATTTTTAAAAT
62001921 ATTTTTTTGA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
24 4 0.13
25 24 0.80
26 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
TTAATTTTTAAAATTTTAAAAATATT
Found at i:62002283 original size:21 final size:21
Alignment explanation
Indices: 62002258--62002301 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
62002248 CAATCTAAGA
* *
62002258 ATAAAAAAAATTATAAAATTT
1 ATAAAAAAAATTAAAAAAATT
62002279 ATAAAAAAAATTAAAAAAATT
1 ATAAAAAAAATTAAAAAAATT
62002300 AT
1 AT
62002302 GCGATAACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAAAAAAAATTAAAAAAATT
Found at i:62004573 original size:26 final size:26
Alignment explanation
Indices: 62004537--62004588 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
62004527 TAAGAGGATA
62004537 GTACACTTTAAACTTACGTCCTCTTG
1 GTACACTTTAAACTTACGTCCTCTTG
62004563 GTACACTTTAAACTTACGTCCTCTTG
1 GTACACTTTAAACTTACGTCCTCTTG
62004589 CATTGACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (26 bp):
GTACACTTTAAACTTACGTCCTCTTG
Found at i:62015053 original size:13 final size:13
Alignment explanation
Indices: 62015035--62015061 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62015025 GTTTTATTAT
62015035 ATAATCATATCTA
1 ATAATCATATCTA
62015048 ATAATCATATCTA
1 ATAATCATATCTA
62015061 A
1 A
62015062 CTTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATCATATCTA
Found at i:62019914 original size:110 final size:111
Alignment explanation
Indices: 62019787--62020008 Score: 437
Period size: 110 Copynumber: 2.0 Consensus size: 111
62019777 ACCTGAGAGG
62019787 TCCCTATATTATAGTGATCTCATCAAATTAGTCCCTCTACTATTAAATGGATCAATTTAGTCCTT
1 TCCCTATATTATAGTGATCTCATCAAATTAGTCCCTCTACTATTAAATGGATCAATTTAGTCCTT
62019852 GTGCTATTAAAAAAAATAAAAAAAAGCCAAATGAATAGATTTAAAT
66 GTGCTATTAAAAAAAATAAAAAAAAGCCAAATGAATAGATTTAAAT
62019898 TCCCTATATTA-AGTGATCTCATCAAATTAGTCCCTCTACTATTAAATGGATCAATTTAGTCCTT
1 TCCCTATATTATAGTGATCTCATCAAATTAGTCCCTCTACTATTAAATGGATCAATTTAGTCCTT
62019962 GTGCTATTAAAAAAAATAAAAAAAAGCCAAATGAATAGATTTAAAT
66 GTGCTATTAAAAAAAATAAAAAAAAGCCAAATGAATAGATTTAAAT
62020008 T
1 T
62020009 TGGAATTGAA
Statistics
Matches: 111, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
110 100 0.90
111 11 0.10
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (111 bp):
TCCCTATATTATAGTGATCTCATCAAATTAGTCCCTCTACTATTAAATGGATCAATTTAGTCCTT
GTGCTATTAAAAAAAATAAAAAAAAGCCAAATGAATAGATTTAAAT
Found at i:62020971 original size:56 final size:56
Alignment explanation
Indices: 62020911--62021016 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 56
62020901 GGGAAACAAT
62020911 CAGAAAATTCTAATCCGAATTCAAATTAAAC-ATCTTATTAACCACGCAACCAAAAA
1 CAGAAAATTCTAATCCGAATTCAAATTAAACAAT-TTATTAACCACGCAACCAAAAA
* * * *
62020967 CAGAAAATTCTAGTGCGAGTTCAAATTAAACAATTTCTTAACCACGCAAC
1 CAGAAAATTCTAATCCGAATTCAAATTAAACAATTTATTAACCACGCAAC
62021017 GAAATAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
56 43 0.96
57 2 0.04
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (56 bp):
CAGAAAATTCTAATCCGAATTCAAATTAAACAATTTATTAACCACGCAACCAAAAA
Found at i:62021122 original size:156 final size:157
Alignment explanation
Indices: 62020842--62021127 Score: 380
Period size: 156 Copynumber: 1.8 Consensus size: 157
62020832 AATCAAATAT
* * *
62020842 TTTCTTAACCATGCAACGAAAAAAAAAAGAAATTCAAACAATTTTTCTCAGTGTTTCTCGGGAAA
1 TTTCTTAACCACGCAACG-AAAAAAAAAGAAATTCAAACAATTTTTCTCAGTGTTTCTCAGCAAA
* * * *
62020907 CAATCAGAAAATTCTAATCCGAATTCAAATTAAACATCTTATTAACCACGCAACCAAAAACAGAA
65 CAATCAGAAAATTCTAATCCGAATTAAAACTAAACATCTTATTAACCACGCAACAAAAAAAAGAA
62020972 AATTCTAGTGCGAGTTCAAATTAAACAA
130 AATTCTAGTGCGAGTTCAAATTAAACAA
* * *
62021000 TTTCTTAACCACGCAACG-AAATAAAA-AAATTCAAACGATTTTTTCTCAGTGTTTCTCAGCAAC
1 TTTCTTAACCACGCAACGAAAAAAAAAGAAATTCAAAC-AATTTTTCTCAGTGTTTCTCAGCAAA
* * * * * *
62021063 CAATCAGATAATTCTAGTGCGAATTAAAACT-AACATTTTCTTAACCGCGCAACGAAAAAAAAGA
65 CAATCAGAAAATTCTAATCCGAATTAAAACTAAACATCTTATTAACCACGCAAC-AAAAAAAAGA
62021127 A
129 A
62021128 CTCAAACAGT
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
155 29 0.26
156 64 0.58
158 17 0.15
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (157 bp):
TTTCTTAACCACGCAACGAAAAAAAAAGAAATTCAAACAATTTTTCTCAGTGTTTCTCAGCAAAC
AATCAGAAAATTCTAATCCGAATTAAAACTAAACATCTTATTAACCACGCAACAAAAAAAAGAAA
ATTCTAGTGCGAGTTCAAATTAAACAA
Found at i:62021167 original size:100 final size:102
Alignment explanation
Indices: 62020967--62021350 Score: 438
Period size: 105 Copynumber: 3.8 Consensus size: 102
62020957 CAACCAAAAA
* * *
62020967 CAGAAAATTCTAGTGCGAGTTCAAATTAAACAATTTCTTAACCACGCAACGAAATAAAAA-AATT
1 CAGAAAATTCTAGTGCGAATTCAAACTAAACATTTTCTTAACCACGCAACGAAATAAAAAGAATT
* *
62021031 CAAAC-GATTTTT-TCTCAGTGTTTCTCAGCAACCAAT
66 CAAACAG-TTTTTCTCACAGTGTTTCTCAGCAAACAAT
* * * *
62021067 CAGATAATTCTAGTGCGAATTAAAACT-AACATTTTCTTAACCGCGCAACGAAA-AAAAAGAACT
1 CAGAAAATTCTAGTGCGAATTCAAACTAAACATTTTCTTAACCACGCAACGAAATAAAAAGAATT
62021130 CAAACAGTTTTTCTCACAGTGTTTCTCAGCAAACAAT
66 CAAACAGTTTTTCTCACAGTGTTTCTCAGCAAACAAT
* ** * * * * *
62021167 CAGAAAACTCTAACGCGAATTCGAA-TCAAACATTTTCTTATCCACGCGACCAAAAAAAAAAAGG
1 CAGAAAATTCTAGTGCGAATTCAAACT-AAACATTTTCTTAACCACGC-AAC-GAAATAAAAA-G
* * * *
62021231 AATTCAACCAGTTTTTCTCAGAGTGTTTCTCAGCAAGCAAA
62 AATTCAAACAGTTTTTCTCACAGTGTTTCTCAGCAAACAAT
* ** *
62021272 CAAAAAATTCTAGTGCGAATTCAATTTAAACAGTTTCTTAACCACGCAACGAAAATAAAAAGAAT
1 CAGAAAATTCTAGTGCGAATTCAAACTAAACATTTTCTTAACCACGCAACG-AAATAAAAAGAAT
*
62021337 TCAAACAGTGTTTC
65 TCAAACAGTTTTTC
62021351 GCAGCAAAGA
Statistics
Matches: 236, Mismatches: 37, Indels: 19
0.81 0.13 0.07
Matches are distributed among these distances:
98 5 0.02
99 38 0.16
100 65 0.28
101 17 0.07
102 2 0.01
103 19 0.08
104 15 0.06
105 74 0.31
106 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.27
Consensus pattern (102 bp):
CAGAAAATTCTAGTGCGAATTCAAACTAAACATTTTCTTAACCACGCAACGAAATAAAAAGAATT
CAAACAGTTTTTCTCACAGTGTTTCTCAGCAAACAAT
Found at i:62021261 original size:105 final size:100
Alignment explanation
Indices: 62020967--62021419 Score: 373
Period size: 105 Copynumber: 4.5 Consensus size: 100
62020957 CAACCAAAAA
* * * * * *
62020967 CAGAAAATTCTAGTGCGAGTTCAAATTAAACAATTTCTTAACCACGCAAC-GAAATAAAAA-AAT
1 CAGAAAATTCTAGTGCGAATTC-AATCAAACATTTTCTT-ACCACGCGACAAAAAAAAAAAGAAT
* *
62021030 TCAAACGATTTTTTCTC-AGTGTTTCTCAGCAACCAAT
64 TCAAAC-AGTTTTTCTCAAGTGTTTCTCAGCAAACAAT
* * * * * * *
62021067 CAGATAATTCTAGTGCGAATTAAAACTAACATTTTCTTAAC-CGCG-CAACGAAAAAAAAGAACT
1 CAGAAAATTCTAGTGCGAATTCAATCAAACATTTTCTTACCACGCGACAA-AAAAAAAAAGAATT
62021130 CAAACAGTTTTTCTCACAGTGTTTCTCAGCAAACAAT
65 CAAACAGTTTTTCTCA-AGTGTTTCTCAGCAAACAAT
* **
62021167 CAGAAAACTCTAACGCGAATTCGAATCAAACATTTTCTTATCCACGCGACCAAAAAAAAAAAGGA
1 CAGAAAATTCTAGTGCGAATTC-AATCAAACATTTTCTTA-CCACGCGA-CAAAAAAAAAAA-GA
* * *
62021232 ATTCAACCAGTTTTTCTCAGAGTGTTTCTCAGCAAGCAAA
62 ATTCAAACAGTTTTTCTCA-AGTGTTTCTCAGCAAACAAT
* * * * * *
62021272 CAAAAAATTCTAGTGCGAATTCAATTTAAACAGTTTCTTAACCACGCAACGAAAATAAAAAGAAT
1 CAGAAAATTCTAGTGCGAATTCAA-TCAAACATTTTCTT-ACCACGCGACAAAAAAAAAAAGAAT
* * *
62021337 TC-AA-A--------C-AGTGTTTCGCAGCAAAGAAA
64 TCAAACAGTTTTTCTCAAGTGTTTCTCAGCAAACAAT
*
62021363 CAGAAAATTCTAGTGCGAATTCAAGCCAAACATTTTCTTAACCACG-GAACAAAAAAA
1 CAGAAAATTCTAGTGCGAATTCAA-TCAAACATTTTCTT-ACCACGCG-ACAAAAAAA
62021420 GAATCTCGCT
Statistics
Matches: 289, Mismatches: 50, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
91 65 0.22
93 1 0.00
96 1 0.00
97 3 0.01
98 18 0.06
99 20 0.07
100 55 0.19
101 16 0.06
102 2 0.01
103 10 0.03
104 20 0.07
105 77 0.27
106 1 0.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (100 bp):
CAGAAAATTCTAGTGCGAATTCAATCAAACATTTTCTTACCACGCGACAAAAAAAAAAAGAATTC
AAACAGTTTTTCTCAAGTGTTTCTCAGCAAACAAT
Done.