Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 118 of 193
Found at i:37498457 original size:28 final size:28
Alignment explanation
Indices: 37498419--37498473 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
37498409 AAATGAGCAT
* *
37498419 CATGGCCTTTGGGTTAACAAGGAGTAAG
1 CATGACCTTTGGGTCAACAAGGAGTAAG
37498447 CATGACCTTTGGGTCAACAAGGAGTAA
1 CATGACCTTTGGGTCAACAAGGAGTAA
37498474 ATCAGATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (28 bp):
CATGACCTTTGGGTCAACAAGGAGTAAG
Found at i:37506716 original size:18 final size:18
Alignment explanation
Indices: 37506695--37506753 Score: 91
Period size: 18 Copynumber: 3.3 Consensus size: 18
37506685 AGAAGAAGAA
*
37506695 GAAGAACAAGATCCTGAG
1 GAAGAAAAAGATCCTGAG
* *
37506713 GAAGAAGAAGATCCTGAA
1 GAAGAAAAAGATCCTGAG
37506731 GAAGAAAAAGATCCTGAG
1 GAAGAAAAAGATCCTGAG
37506749 GAAGA
1 GAAGA
37506754 TCCTGTAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.49, C:0.12, G:0.29, T:0.10
Consensus pattern (18 bp):
GAAGAAAAAGATCCTGAG
Found at i:37506722 original size:36 final size:37
Alignment explanation
Indices: 37506676--37506753 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
37506666 ACAGCAAGCT
* *
37506676 GAAGAGAGAAGAAGAAGAAGAAGAACAAGATCCTGAG
1 GAAGAGAGAAGAACAAGAAGAAGAAAAAGATCCTGAG
* **
37506713 GAAGA-AGAAGATCCTGAAGAAGAAAAAGATCCTGAG
1 GAAGAGAGAAGAACAAGAAGAAGAAAAAGATCCTGAG
37506749 GAAGA
1 GAAGA
37506754 TCCTGTAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 31 0.86
37 5 0.14
ACGTcount: A:0.53, C:0.09, G:0.31, T:0.08
Consensus pattern (37 bp):
GAAGAGAGAAGAACAAGAAGAAGAAAAAGATCCTGAG
Found at i:37509224 original size:17 final size:18
Alignment explanation
Indices: 37509192--37509228 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
37509182 GTTGATCATG
*
37509192 TTTAATTGCTTGTTTATA
1 TTTAATTGCATGTTTATA
37509210 TTTAATT-CATGTTTATA
1 TTTAATTGCATGTTTATA
37509227 TT
1 TT
37509229 GTTATAGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTAATTGCATGTTTATA
Found at i:37516571 original size:32 final size:32
Alignment explanation
Indices: 37516535--37516599 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37516525 TTTAAATTTC
37516535 TACCCTACAAGCCCTACAACTAACTCTACTTT
1 TACCCTACAAGCCCTACAACTAACTCTACTTT
37516567 TACCCTACAAGCCCTACAACTAACTCTACTTT
1 TACCCTACAAGCCCTACAACTAACTCTACTTT
37516599 T
1 T
37516600 TAAACAGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.37, G:0.03, T:0.29
Consensus pattern (32 bp):
TACCCTACAAGCCCTACAACTAACTCTACTTT
Found at i:37519492 original size:12 final size:13
Alignment explanation
Indices: 37519475--37519538 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
37519465 AGTTTAGCAT
37519475 TGCTTTTGAGAA-
1 TGCTTTTGAGAAG
* * *
37519487 TGC-TTTAAAAAA
1 TGCTTTTGAGAAG
*
37519499 TGCTTTGGAGAAG
1 TGCTTTTGAGAAG
*
37519512 TGATTTTGAGAAG
1 TGCTTTTGAGAAG
* *
37519525 TACTTTTGAAAAG
1 TGCTTTTGAGAAG
37519538 T
1 T
37519539 TTAGTTTAAG
Statistics
Matches: 39, Mismatches: 11, Indels: 3
0.74 0.21 0.06
Matches are distributed among these distances:
11 6 0.15
12 6 0.15
13 27 0.69
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:37520433 original size:21 final size:19
Alignment explanation
Indices: 37520409--37520448 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
37520399 CCATTATGTG
37520409 GGAATGAAATAGGATTATAAT
1 GGAATGAAATA-GA-TATAAT
*
37520430 GGAATTAAATAGATATAAT
1 GGAATGAAATAGATATAAT
37520449 AGTGGTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (19 bp):
GGAATGAAATAGATATAAT
Found at i:37523582 original size:24 final size:24
Alignment explanation
Indices: 37523554--37523612 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
37523544 TAGAGTAATA
*
37523554 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTCAAACAAATAAAT
* * *
37523578 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAT
*
37523602 AGAATTTAACT
1 AGAGTTTAACT
37523613 GAAAGATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAT
Found at i:37523615 original size:24 final size:24
Alignment explanation
Indices: 37523566--37523616 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
37523556 AGTTTGACTC
* * *
37523566 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAGAATTTAACTG
37523590 AAACAAATAAACAGAATTTAACTG
1 AAACAAATAAACAGAATTTAACTG
37523614 AAA
1 AAA
37523617 GATTATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAATTTAACTG
Found at i:37524047 original size:2 final size:2
Alignment explanation
Indices: 37524040--37524087 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
37524030 GTAAAAAGTA
37524040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37524082 AT AT AT
1 AT AT AT
37524088 TGCTTTCATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37532564 original size:46 final size:46
Alignment explanation
Indices: 37532514--37532657 Score: 104
Period size: 46 Copynumber: 3.1 Consensus size: 46
37532504 TTGAAGTAAG
37532514 AGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGA
1 AGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGA
* * * * ** * *
37532560 AGTAAAGCTG--G-A-TAACAAGCCTTTGTCC-A-CCAGAAATTGAAGTAAGA
1 AGTAAA-ATGAAGCACCAAC-ATCATTT-TCCTATCC---TCTTGAAAT-TGA
37532607 -GTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGA
1 AGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGA
37532652 AGTAAA
1 AGTAAA
37532658 GCTGGATAAC
Statistics
Matches: 68, Mismatches: 16, Indels: 28
0.61 0.14 0.25
Matches are distributed among these distances:
43 5 0.07
44 7 0.10
45 8 0.12
46 28 0.41
47 8 0.12
48 7 0.10
49 5 0.07
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (46 bp):
AGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTTGAAATTGA
Found at i:37532623 original size:92 final size:92
Alignment explanation
Indices: 37532466--37532790 Score: 550
Period size: 92 Copynumber: 3.5 Consensus size: 92
37532456 AAAGCTCTAA
37532466 GAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTGAAGTAAGAGTAAAATGAAGCACCA
1 GAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTGAAGTAAGAGTAAAATGAAGCACCA
37532531 ACATCATTTTCCTATCCTCTTGAAATT
66 ACATCATTTTCCTATCCTCTTGAAATT
*
37532558 GAAGTAAAGCTGGATAACAAGCCTTTGTCCAC-CAGAAATTGAAGTAAGAGTAAAATGAAGCACC
1 GAAGTAAAGCTGGATAACAAGCCTTCGTCC-CTCAGAAATTGAAGTAAGAGTAAAATGAAGCACC
37532622 AACATCATTTTCCTATCCTCTTGAAATT
65 AACATCATTTTCCTATCCTCTTGAAATT
37532650 GAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTGAAGTAAGAGTAAAATGAAGCACCA
1 GAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTGAAGTAAGAGTAAAATGAAGCACCA
37532715 ACATCATTTTCCTATCCTCTTGAAATT
66 ACATCATTTTCCTATCCTCTTGAAATT
* * * *
37532742 GAAGTAGAGCTGGATATCAA---ATCGTTCCTCTCTGAAATTGAAGTAAGAG
1 GAAGTAAAGCTGGATAACAAGCCTTCG-TCC-CTCAGAAATTGAAGTAAGAG
37532791 CAAGATAAAA
Statistics
Matches: 223, Mismatches: 6, Indels: 9
0.94 0.03 0.04
Matches are distributed among these distances:
89 3 0.01
90 3 0.01
91 20 0.09
92 196 0.88
93 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (92 bp):
GAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCAGAAATTGAAGTAAGAGTAAAATGAAGCACCA
ACATCATTTTCCTATCCTCTTGAAATT
Found at i:37532654 original size:52 final size:52
Alignment explanation
Indices: 37532592--37532747 Score: 158
Period size: 52 Copynumber: 3.2 Consensus size: 52
37532582 TTGTCCACCA
37532592 GAAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTT
1 GAAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTT
** * * * *
37532644 GAAATTGAAGTAA-AGCT-GGAT-AA-CA--AGC--C---TTCGT-CCCTC-A
1 GAAATTGAAGTAAGAG-TAAAATGAAGCACCAACATCATTTTCCTATCCTCTT
37532684 GAAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTT
1 GAAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTT
37532736 GAAATTGAAGTA
1 GAAATTGAAGTA
37532748 GAGCTGGATA
Statistics
Matches: 78, Mismatches: 12, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
40 14 0.18
41 8 0.10
42 6 0.08
43 2 0.03
45 3 0.04
47 3 0.04
49 2 0.03
50 6 0.08
51 8 0.10
52 26 0.33
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (52 bp):
GAAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTT
Found at i:37533098 original size:6 final size:6
Alignment explanation
Indices: 37533078--37533136 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
37533068 TTAAATGGGT
* * *
37533078 TTTAAA TTT-AT TTTAAA TTTAAA TTTACTCA TTTAAA TTT-AC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA
*
37533126 TTTAAG TTTAA
1 TTTAAA TTTAA
37533137 TCAAATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:37533113 original size:14 final size:14
Alignment explanation
Indices: 37533094--37533120 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37533084 TTTATTTTAA
37533094 ATTTAAATTTACTC
1 ATTTAAATTTACTC
37533108 ATTTAAATTTACT
1 ATTTAAATTTACT
37533121 TTAAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTAAATTTACTC
Found at i:37533370 original size:26 final size:26
Alignment explanation
Indices: 37533341--37533392 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
37533331 ATGGGAGTTC
37533341 GCCACA-TCAGCAGCCAACTTGCTCCT
1 GCCACAGTCAGCAGCCAAC-TGCTCCT
* *
37533367 GCCACAGTCGGCTGCCAACTGCTCCT
1 GCCACAGTCAGCAGCCAACTGCTCCT
37533393 AACCGCCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.19
Consensus pattern (26 bp):
GCCACAGTCAGCAGCCAACTGCTCCT
Found at i:37535105 original size:29 final size:28
Alignment explanation
Indices: 37535030--37535122 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 28
37535020 TGGACTGTCC
37535030 AAAATTATCATTTTACCCCTAAACTTTCT
1 AAAATTATCATTTTACCCC-AAACTTTCT
* *
37535059 AAAATT-TTATTTTAACCCC-GA-TTTCAT
1 AAAATTATCATTTT-ACCCCAAACTTTC-T
* *
37535086 CAAAAATTATCATTTTACCCTCGAACTTTCC
1 --AAAATTATCATTTTACCC-CAAACTTTCT
37535117 AAAATT
1 AAAATT
37535123 CAATTTTTAG
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
26 4 0.08
27 2 0.04
28 6 0.12
29 27 0.53
30 7 0.14
31 1 0.02
32 4 0.08
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (28 bp):
AAAATTATCATTTTACCCCAAACTTTCT
Found at i:37535247 original size:59 final size:59
Alignment explanation
Indices: 37535030--37535394 Score: 420
Period size: 59 Copynumber: 6.2 Consensus size: 59
37535020 TGGACTGTCC
* * **
37535030 AAAATTATCATTTTACCCCTAAACTTTCTAAAATTTTA-TTTTAACCCCGATTTCATCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* * * ** ** *
37535088 AAAATTATCATTTTA-CCCTCGAACTTTCCAAAATTCAATTTTTAGTCTTGGTTTCATC-
1 AAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* * * * *
37535146 AAAATTACCATTTTACCCC-CAAC-TTCCTAAAATTCCACTTTTAACCCTGATTTTACCAA
1 AAAATTACCATTTTACCCCTAAACTTTCC-AAAATTCCATTTTTAACCCCGATTTCATC-A
*
37535205 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGGTTTCATCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
** *
37535263 AAAATTACCATTTTA-CCCTCAAACTTTCCAAAATTCCATTACTAACCCCAATTTCATCA
1 AAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
* * * *
37535322 AAAATTACCATTTTACCCCTAAACTTTTCAAGATTCCATTTTTAACCCCTATTTCACCA
1 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
37535381 AAAATTACCATTTT
1 AAAATTACCATTTT
37535395 GCCCTCGGGT
Statistics
Matches: 262, Mismatches: 34, Indels: 21
0.83 0.11 0.07
Matches are distributed among these distances:
56 4 0.02
57 32 0.12
58 77 0.29
59 129 0.49
60 16 0.06
61 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCA
Found at i:37535273 original size:117 final size:116
Alignment explanation
Indices: 37535030--37535394 Score: 441
Period size: 117 Copynumber: 3.1 Consensus size: 116
37535020 TGGACTGTCC
* * **
37535030 AAAATTATCATTTTACCCCTAAACTTTCTAAAATTTTATTTTAACCCCGATTTCATCAAAAATTA
1 AAAATTACCATTTTACCCC-AAACTTCCTAAAATTCCATTTTAACCCCGATTTCATCAAAAATTA
* * * ** **
37535095 TCATTTTA-CCCTCGAACTTTCCAAAATTCAATTTTTAGTCTTGGTTTCATC-
65 CCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCATCA
* * * *
37535146 AAAATTACCATTTTACCCCCAACTTCCTAAAATTCCACTTTTAACCCTGATTTTACCAAAAAATT
1 AAAATTACCATTTTACCCCAAACTTCCTAAAATTCCA-TTTTAACCCCGATTTCATC-AAAAATT
37535211 ACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGGTTTCATCA
64 ACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCATCA
* *
37535263 AAAATTACCATTTTACCCTCAAACTTTCC-AAAATTCCATTACTAACCCCAATTTCATCAAAAAT
1 AAAATTACCATTTTACCC-CAAAC-TTCCTAAAATTCCATT-TTAACCCCGATTTCATCAAAAAT
* * ** *
37535327 TACCATTTTACCCCTAAACTTTTCAAGATTCCATTTTTAACCCCTATTTCACCA
63 TACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCATCA
37535381 AAAATTACCATTTT
1 AAAATTACCATTTT
37535395 GCCCTCGGGT
Statistics
Matches: 215, Mismatches: 26, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
115 14 0.07
116 49 0.23
117 88 0.41
118 60 0.28
119 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (116 bp):
AAAATTACCATTTTACCCCAAACTTCCTAAAATTCCATTTTAACCCCGATTTCATCAAAAATTAC
CATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCATCA
Found at i:37535276 original size:30 final size:28
Alignment explanation
Indices: 37535139--37535394 Score: 113
Period size: 29 Copynumber: 8.8 Consensus size: 28
37535129 TTAGTCTTGG
37535139 TTTCATC-AAAATTACCATTTTACCCCCAA
1 TTTCATCAAAAATT-CCATTTTA-CCCCAA
* * **
37535168 CTTC--CTAAAATTCCACTTTTAACCCTGA
1 TTTCATCAAAAATTCCA-TTTT-ACCCCAA
* *
37535196 TTTTACCAAAAAATTACCATTTTACCCCTAAA
1 TTTCATC-AAAAATT-CCATTTTACCCC--AA
**
37535228 CTTTC--C-AAAATTCCATTTTAACCCCGG
1 -TTTCATCAAAAATTCCATTTT-ACCCCAA
37535255 TTTCATCAAAAATTACCATTTTACCCTCAAA
1 TTTCATCAAAAATT-CCATTTTACCC-C-AA
*
37535286 CTTTC--C-AAAATTCCATTACTAACCCCAA
1 -TTTCATCAAAAATTCCATT--TTACCCCAA
37535314 TTTCATCAAAAATTACCATTTTACCCCTAAA
1 TTTCATCAAAAATT-CCATTTTACCCC--AA
* *
37535345 CTTT--TC-AAGATTCCATTTTTAACCCCTA
1 -TTTCATCAAAAATTCCA-TTTT-ACCCCAA
*
37535373 TTTCACCAAAAATTACCATTTT
1 TTTCATCAAAAATT-CCATTTT
37535395 GCCCTCGGGT
Statistics
Matches: 175, Mismatches: 19, Indels: 65
0.68 0.07 0.25
Matches are distributed among these distances:
26 4 0.02
27 11 0.06
28 35 0.20
29 49 0.28
30 41 0.23
31 21 0.12
32 11 0.06
33 3 0.02
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.36
Consensus pattern (28 bp):
TTTCATCAAAAATTCCATTTTACCCCAA
Found at i:37547639 original size:40 final size:40
Alignment explanation
Indices: 37547595--37547738 Score: 103
Period size: 40 Copynumber: 3.3 Consensus size: 40
37547585 CTATCCTCTT
37547595 GAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTTCCTCA
1 GAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTTCCTCA
* * * * *
37547635 GAAA-TGAAGTAGGAG-TAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
1 GAAATTGAAGTA-AAGCT-GGAT-AA-CA--AGC--C---TTCGT-TCCTC-A
*
37547686 GAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
1 GAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTTCCTCA
37547726 GAAATTGAAGTAA
1 GAAATTGAAGTAA
37547739 GAGTAGAATG
Statistics
Matches: 78, Mismatches: 11, Indels: 30
0.66 0.09 0.25
Matches are distributed among these distances:
39 8 0.10
40 22 0.28
41 6 0.08
42 6 0.08
44 2 0.03
45 1 0.01
46 1 0.01
47 2 0.03
49 6 0.08
50 7 0.09
51 9 0.12
52 8 0.10
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (40 bp):
GAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTTCCTCA
Found at i:37547695 original size:52 final size:51
Alignment explanation
Indices: 37547635--37548069 Score: 160
Period size: 52 Copynumber: 9.3 Consensus size: 51
37547625 TCGTTCCTCA
37547635 GAAA-TGAAGTAGGAGTAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
1 GAAATTGAAGTA-GAGTAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
* * * * * *
37547686 GAAATTGAAGTAAAGCT-GGAT-AA-CA--AGC--C---TTCGT-CCCTC-A
1 GAAATTGAAGTAGAG-TAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
37547726 GAAATTGAAGTAAGAGTAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
1 GAAATTGAAGT-AGAGTAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
* * * * * ***
37547778 GAAATTGAAGTAAAGCT-GGAT-AA-CA--AGC--C-TTCGTCC-CTCAGATT
1 GAAATTGAAGTAGAG-TAGAATGAAGCACCAACATCATT-TTCCTATCCTCTT
*
37547822 G-AA--GAAGTAAGAGTAAAATGAAGCACCAACATCA-TTTCCTATCCTCTT
1 GAAATTGAAGT-AGAGTAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
* * * * * *
37547870 GAAATTGAAAGTAAAGCT-GGAT-AA-CA--AGC--C---TTCGT-CCCTC-A
1 GAAATTG-AAGTAGAG-TAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
*
37547911 GAAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTT
1 GAAATTGAAGT-AGAGTAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
* * * * * *
37547963 GAAATTGAAGTAAAGCT-GGAT-AA-CA--AGC--C---TTCGT-CCCTC-A
1 GAAATTGAAGTAGAG-TAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
*
37548003 GAAATTGAAGTAAGAGTAAAATGAAGCACCAACATCATTTTCCTATCCTCTT
1 GAAATTGAAGT-AGAGTAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
37548055 GAAATTGAAGTAGAG
1 GAAATTGAAGTAGAG
37548070 CTGGATATCA
Statistics
Matches: 268, Mismatches: 57, Indels: 118
0.60 0.13 0.27
Matches are distributed among these distances:
40 29 0.11
41 37 0.14
42 23 0.09
43 14 0.05
44 9 0.03
45 13 0.05
46 2 0.01
47 14 0.05
48 7 0.03
49 10 0.04
50 20 0.07
51 42 0.16
52 48 0.18
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (51 bp):
GAAATTGAAGTAGAGTAGAATGAAGCACCAACATCATTTTCCTATCCTCTT
Found at i:37547796 original size:92 final size:92
Alignment explanation
Indices: 37547110--37548109 Score: 1693
Period size: 92 Copynumber: 10.9 Consensus size: 92
37547100 GGTGGATCAG
37547110 ACCAACATCATTTT-CTATCCTCTTGAAATTGAAGT-AAGCTGGATAACAAGCCTTCGTCCCTCA
1 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
*
37547173 GAAATTGAAGTAAGAGTAAAATGAAAC
66 GAAATTGAAGTAAGAGTAAAATGAAGC
*
37547200 -CACAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTCGTCCCTC
1 AC-CAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTC
*
37547264 A-AAATTGAAGAAAGAGTAAAATGAAGC
65 AGAAATTGAAGTAAGAGTAAAATGAAGC
*
37547291 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAGCAAGCCTTCGTCCCTC-
1 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
37547355 GAAATTGAATGAAGTAAGAGTAAAATGAAGC
66 GAAA-T---TGAAGTAAGAGTAAAATGAAGC
37547386 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAAGTAAAGCTGGATAACAAGCCTTCGTCCCTC
1 ACCAACATCATTTTCCTATCCTCTTGAAATTG-AAGTAAAGCTGGATAACAAGCCTTCGTCCCTC
37547451 AGAAATTGAAGTAAGAGTAAAATGAAGC
65 AGAAATTGAAGTAAGAGTAAAATGAAGC
37547479 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGT-CCTCA
1 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
37547543 GAAATTGAAGTAAGAGTAAAATGAAGC
66 GAAATTGAAGTAAGAGTAAAATGAAGC
*
37547570 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTTCCTCA
1 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
* *
37547635 GAAA-TGAAGTAGGAGTAGAATGAAGC
66 GAAATTGAAGTAAGAGTAAAATGAAGC
37547661 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
1 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
*
37547726 GAAATTGAAGTAAGAGTAGAATGAAGC
66 GAAATTGAAGTAAGAGTAAAATGAAGC
37547753 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
1 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
37547818 G--ATTGAAGAAGTAAGAGTAAAATGAAGC
66 GAAATT---GAAGTAAGAGTAAAATGAAGC
37547846 ACCAACATCA-TTTCCTATCCTCTTGAAATTGAAAGTAAAGCTGGATAACAAGCCTTCGTCCCTC
1 ACCAACATCATTTTCCTATCCTCTTGAAATTG-AAGTAAAGCTGGATAACAAGCCTTCGTCCCTC
37547910 AGAAATTGAAGTAAGAGTAAAATGAAGC
65 AGAAATTGAAGTAAGAGTAAAATGAAGC
37547938 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
1 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
37548003 GAAATTGAAGTAAGAGTAAAATGAAGC
66 GAAATTGAAGTAAGAGTAAAATGAAGC
* * *
37548030 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAA---ATCGTTCCTCT
1 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCG-TCC-CT
*
37548092 CTGAAATTGAAGTAAGAG
64 CAGAAATTGAAGTAAGAG
37548110 CAAGATAAAA
Statistics
Matches: 872, Mismatches: 16, Indels: 43
0.94 0.02 0.05
Matches are distributed among these distances:
89 4 0.00
90 18 0.02
91 306 0.35
92 313 0.36
93 139 0.16
95 56 0.06
96 32 0.04
97 4 0.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (92 bp):
ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
GAAATTGAAGTAAGAGTAAAATGAAGC
Found at i:37548419 original size:6 final size:6
Alignment explanation
Indices: 37548399--37548457 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
37548389 TTAAATGGGT
* * *
37548399 TTTAAA TTT-AT TTTAAA TTTAAA TTTACTCA TTTAAA TTT-AC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA
*
37548447 TTTAAG TTTAA
1 TTTAAA TTTAA
37548458 TCAAATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:37548434 original size:14 final size:14
Alignment explanation
Indices: 37548415--37548441 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37548405 TTTATTTTAA
37548415 ATTTAAATTTACTC
1 ATTTAAATTTACTC
37548429 ATTTAAATTTACT
1 ATTTAAATTTACT
37548442 TTAAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTAAATTTACTC
Found at i:37548689 original size:26 final size:26
Alignment explanation
Indices: 37548660--37548711 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
37548650 ATGGGAGTTC
37548660 GCCACA-TCAGCAGCCAACTTGCTCCT
1 GCCACAGTCAGCAGCCAAC-TGCTCCT
* *
37548686 GCCACAGTCGGCTGCCAACTGCTCCT
1 GCCACAGTCAGCAGCCAACTGCTCCT
37548712 AACCGCCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.19
Consensus pattern (26 bp):
GCCACAGTCAGCAGCCAACTGCTCCT
Found at i:37549808 original size:11 final size:11
Alignment explanation
Indices: 37549784--37549821 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
37549774 TTTGGTGGCT
37549784 GCCGGAGC-TCG
1 GCCGGAGCAT-G
*
37549795 GCCTGAGCATG
1 GCCGGAGCATG
37549806 GCCGGAGCATG
1 GCCGGAGCATG
37549817 GCCGG
1 GCCGG
37549822 CCAAGGAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 23 0.96
12 1 0.04
ACGTcount: A:0.13, C:0.32, G:0.45, T:0.11
Consensus pattern (11 bp):
GCCGGAGCATG
Found at i:37549947 original size:5 final size:5
Alignment explanation
Indices: 37549937--37549978 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
37549927 AGTACCCACA
*
37549937 GACCC GACCC GACCC GACCC GACCC GATCC GACCC GAACCC G
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC G-ACCC G
37549979 CTCTGGGATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.21, C:0.55, G:0.21, T:0.02
Consensus pattern (5 bp):
GACCC
Found at i:37550454 original size:29 final size:28
Alignment explanation
Indices: 37550422--37550677 Score: 147
Period size: 29 Copynumber: 8.7 Consensus size: 28
37550412 GGTTTCATCA
37550422 AAAATTACCATTTTACCCCTGAACTTTCC
1 AAAATTACCATTTTACCCC-GAACTTTCC
*
37550451 AAAATT-CCATTTTTTAACCCC--AGTTTCATC
1 AAAATTACCA--TTTT-ACCCCGAACTTTC--C
*
37550481 AAAAATTACCATTTTATACCGCGAACTTTCC
1 -AAAATTACCA-TTT-TACCCCGAACTTTCC
*
37550512 AAAATT-CCATTTTTTTAACCCC-AA-TTCATCA
1 AAAATTACCA---TTTT-ACCCCGAACTT--TCC
37550543 AAAATTACCATTTTACCCCGAACTTTCC
1 AAAATTACCATTTTACCCCGAACTTTCC
* *
37550571 AAAATT-CCATTATAAACACCG-A-TTTACC
1 AAAATTACCATT-T-TACCCCGAACTTT-CC
37550599 AAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATTACCATTTTA-CCCCGAACTTTCC
* *
37550629 AAGATT-CCATTTTTAACCCCG-ATTTTACC
1 AAAATTACCA-TTTT-ACCCCGAACTTT-CC
*
37550658 AAAAATTACCATTTTGCCCC
1 -AAAATTACCATTTTACCCC
37550678 CGGCATCTAA
Statistics
Matches: 182, Mismatches: 14, Indels: 62
0.71 0.05 0.24
Matches are distributed among these distances:
27 8 0.04
28 33 0.18
29 53 0.29
30 34 0.19
31 42 0.23
32 7 0.04
33 5 0.03
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.34
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGAACTTTCC
Found at i:37550486 original size:31 final size:31
Alignment explanation
Indices: 37550451--37550556 Score: 98
Period size: 31 Copynumber: 3.5 Consensus size: 31
37550441 TGAACTTTCC
37550451 AAAATT-CCATTTTTTAACCCCAGTTTCATCA
1 AAAATTACCATTTTTTAACCCCA-TTTCATCA
* *
37550482 AAAATTACCATTTTAT-ACCGCGAACTTTC--C-
1 AAAATTACCATTTTTTAACC-C-CA-TTTCATCA
*
37550512 AAAATT-CCATTTTTTTAACCCCAATTCATCA
1 AAAATTACCA-TTTTTTAACCCCATTTCATCA
37550543 AAAATTACCATTTT
1 AAAATTACCATTTT
37550557 ACCCCGAACT
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
28 3 0.05
29 4 0.07
30 13 0.22
31 23 0.38
32 12 0.20
33 5 0.08
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAATTACCATTTTTTAACCCCATTTCATCA
Found at i:37550672 original size:59 final size:59
Alignment explanation
Indices: 37550363--37550679 Score: 367
Period size: 58 Copynumber: 5.4 Consensus size: 59
37550353 GGACTGTCTG
** ** * * *
37550363 AAAATATT-CCATTTTACCCCTAAACTTTCCAAAATTTTA-TGTTAATCCCGGTTTCATC
1 AAAA-ATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC
*
37550421 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTTAACCCC-AGTTTCATC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTTAACCCCGA-TTTCATC
* * *
37550481 AAAAATTACCATTTTATACCGCGAACTTTCCAAAATTCCATTTTTTTAACCCC-AATTCATC
1 AAAAATTACCATTTTA-CCCCCGAACTTTCCAAAATTCCA--TTTTTAACCCCGATTTCATC
* * * *
37550542 AAAAATTACCATTTTA-CCCCGAACTTTCCAAAATTCCATTATAAACACCGATTT-ACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC
* * *
37550599 AAAAATTACCATTTTACCCCCGAACTTTCCAAGATTCCATTTTTAACCCCGATTTTACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC
*
37550658 AAAAATTACCATTTTGCCCCCG
1 AAAAATTACCATTTTACCCCCG
37550680 GCATCTAAAA
Statistics
Matches: 229, Mismatches: 21, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
57 29 0.13
58 69 0.30
59 45 0.20
60 31 0.14
61 42 0.18
62 13 0.06
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC
Found at i:37553097 original size:29 final size:24
Alignment explanation
Indices: 37553053--37553127 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 24
37553043 ATATTTGATG
37553053 ATATTTTA-TAATTATTTAATTAGATA
1 ATATTTTATTAA-TATTTAATTA-A-A
*
37553079 ATATTACTTTATTAATATTTAAATAAA
1 ATA-T--TTTATTAATATTTAATTAAA
*
37553106 ATATTTTATTAATATTTTATTA
1 ATATTTTATTAATATTTAATTA
37553128 TAAAATTGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
24 16 0.38
26 4 0.10
27 5 0.12
28 1 0.02
29 13 0.31
30 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (24 bp):
ATATTTTATTAATATTTAATTAAA
Found at i:37555429 original size:16 final size:16
Alignment explanation
Indices: 37555406--37555461 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
37555396 AATGGATAAG
*
37555406 GTTGTAATGTAATAGA
1 GTTGTAATGGAATAGA
* *
37555422 GATGTAATGGAACAGA
1 GTTGTAATGGAATAGA
37555438 GTTGTAATGGAATAGA
1 GTTGTAATGGAATAGA
37555454 GTTGTAAT
1 GTTGTAAT
37555462 CAATAATTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.02, G:0.29, T:0.32
Consensus pattern (16 bp):
GTTGTAATGGAATAGA
Found at i:37555693 original size:59 final size:57
Alignment explanation
Indices: 37555640--37555801 Score: 146
Period size: 64 Copynumber: 2.7 Consensus size: 57
37555630 TTTTAATAAG
* *
37555640 ATTATTATTAAATATATTTTATTAAAAAATAATAAATGATTTGATCATATTTTAACATA
1 ATTATTATTAAATACAATTTA--AAAAAATAATAAATGATTTGATCATATTTTAACATA
* * * * * *
37555699 ATTATTATTAAATACAATTTAATAAAATAATATATGATTTAATAACATTCATAATATAATAATT
1 ATTATTATTAAATACAATTTAAAAAAATAATAAATGATTTGAT--CA-T-AT--TTTAA-CATA
* *
37555763 ATTATTATTAAATACAATTTAATAAAAT-ATATATGATTT
1 ATTATTATTAAATACAATTTAAAAAAATAATAAATGATTT
37555802 AATAACATTC
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
57 19 0.22
59 21 0.24
60 1 0.01
61 2 0.02
63 15 0.17
64 30 0.34
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (57 bp):
ATTATTATTAAATACAATTTAAAAAAATAATAAATGATTTGATCATATTTTAACATA
Found at i:37555806 original size:63 final size:64
Alignment explanation
Indices: 37555699--37555829 Score: 255
Period size: 63 Copynumber: 2.1 Consensus size: 64
37555689 TTTTAACATA
37555699 ATTATTATTAAATACAATTTAATAAAATAATATATGATTTAATAACATTCATAATATAATAATT
1 ATTATTATTAAATACAATTTAATAAAATAATATATGATTTAATAACATTCATAATATAATAATT
37555763 ATTATTATTAAATACAATTTAATAAAAT-ATATATGATTTAATAACATTCATAATATAATAATT
1 ATTATTATTAAATACAATTTAATAAAATAATATATGATTTAATAACATTCATAATATAATAATT
37555826 ATTA
1 ATTA
37555830 AAACATGAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 39 0.58
64 28 0.42
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (64 bp):
ATTATTATTAAATACAATTTAATAAAATAATATATGATTTAATAACATTCATAATATAATAATT
Found at i:37561618 original size:21 final size:21
Alignment explanation
Indices: 37561578--37561618 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37561568 TCATTTAGGC
*
37561578 ACAATTTGCTTTGATGGTTTT
1 ACAATTTGCTTTGATAGTTTT
* *
37561599 ACAATTTTCTTTGCTAGTTT
1 ACAATTTGCTTTGATAGTTT
37561619 ATATCCAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.54
Consensus pattern (21 bp):
ACAATTTGCTTTGATAGTTTT
Found at i:37565737 original size:10 final size:10
Alignment explanation
Indices: 37565715--37565744 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
37565705 TTCTCTCTCC
37565715 ACTCTCT-AA
1 ACTCTCTCAA
37565724 ACTCTCTCAA
1 ACTCTCTCAA
37565734 ACTCTCTCAA
1 ACTCTCTCAA
37565744 A
1 A
37565745 TACACAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (10 bp):
ACTCTCTCAA
Found at i:37565951 original size:30 final size:31
Alignment explanation
Indices: 37565917--37565977 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
37565907 GTAATATGAA
*
37565917 AAATTAAATTTTGTTAATTTAAATAT-TTTT
1 AAATTAAATTTTATTAATTTAAATATATTTT
* * *
37565947 AAATTTATTTTTATTAATTTTAATATATTTT
1 AAATTAAATTTTATTAATTTAAATATATTTT
37565978 GCGAACAGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (31 bp):
AAATTAAATTTTATTAATTTAAATATATTTT
Found at i:37567928 original size:4 final size:4
Alignment explanation
Indices: 37567914--37568020 Score: 108
Period size: 4 Copynumber: 26.8 Consensus size: 4
37567904 TTTTACAATG
* * ** *
37567914 TAAA GAAA TAAA TAAA TAAA TAAG TAAA TATG TAAA TAAA TAAA TAAC
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
* * * *
37567962 TAAG TAAA TAAG TAAA TAAA TAAC TAAA TAAA TAAAA TAAG TAAA T-AA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T-AAA TAAA TAAA TAAA
*
37568010 TACA TAAA TAA
1 TAAA TAAA TAA
37568021 TAATAATTAA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
3 3 0.04
4 75 0.91
5 4 0.05
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:37567952 original size:28 final size:28
Alignment explanation
Indices: 37567919--37568020 Score: 143
Period size: 28 Copynumber: 3.6 Consensus size: 28
37567909 CAATGTAAAG
*
37567919 AAATAAATAAATAAATAAGTAAATATGT
1 AAATAAATAAATAAATAAGTAAATAAGT
*
37567947 AAATAAATAAATAACTAAGTAAATAAGT
1 AAATAAATAAATAAATAAGTAAATAAGT
* *
37567975 AAATAAATAACTAAATAAATAAAATAAGT
1 AAATAAATAAATAAATAAGT-AAATAAGT
*
37568004 AAAT-AATACATAAATAA
1 AAATAAATAAATAAATAA
37568021 TAATAATTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 54 0.82
29 12 0.18
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (28 bp):
AAATAAATAAATAAATAAGTAAATAAGT
Found at i:37568031 original size:4 final size:4
Alignment explanation
Indices: 37568024--37568074 Score: 75
Period size: 4 Copynumber: 12.8 Consensus size: 4
37568014 TAAATAATAA
* * *
37568024 TAAT TAAT TAAT TAAT TAAT TAAC AAAA TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
37568072 TAA
1 TAA
37568075 AATATTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (4 bp):
TAAT
Found at i:37569447 original size:16 final size:16
Alignment explanation
Indices: 37569426--37569463 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
37569416 TTTGGTTCAC
37569426 TGTAATGAAATAGAGT
1 TGTAATGAAATAGAGT
*
37569442 TGTAATGGAATAGAGT
1 TGTAATGAAATAGAGT
37569458 TGTAAT
1 TGTAAT
37569464 TAGTAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.34
Consensus pattern (16 bp):
TGTAATGAAATAGAGT
Found at i:37578254 original size:21 final size:20
Alignment explanation
Indices: 37578229--37578282 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
37578219 TCGTATTATA
37578229 ATATTATTATAATAATTAATTT
1 ATATTATTATAATAATT--TTT
*
37578251 -TATTATTATCATAATTTTT
1 ATATTATTATAATAATTTTT
37578270 ATATTAATTATAA
1 ATATT-ATTATAA
37578283 ATAAATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 3 0.11
20 4 0.14
21 21 0.75
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATTATTATAATAATTTTT
Found at i:37579826 original size:10 final size:10
Alignment explanation
Indices: 37579811--37579844 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
37579801 TTACTAATTT
*
37579811 AAATTTTTAA
1 AAATTTTAAA
37579821 AAATTTTAAA
1 AAATTTTAAA
37579831 AAA-TTTAAA
1 AAATTTTAAA
37579840 AAATT
1 AAATT
37579845 CATTTTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAATTTTAAA
Found at i:37585827 original size:22 final size:21
Alignment explanation
Indices: 37585802--37585842 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
37585792 ATGATGAGTG
37585802 CTTATTATGATGTATTTTAGGT
1 CTTATTATGAT-TATTTTAGGT
* *
37585824 CTTATTTTGCTTATTTTAG
1 CTTATTATGATTATTTTAG
37585843 CCTCTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.20, C:0.07, G:0.15, T:0.59
Consensus pattern (21 bp):
CTTATTATGATTATTTTAGGT
Found at i:37589386 original size:23 final size:23
Alignment explanation
Indices: 37589359--37589406 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
37589349 CCCAAACCGA
37589359 ATCGACCCGACCCATTAACTTTG
1 ATCGACCCGACCCATTAACTTTG
** * *
37589382 ATCGACTTGACCCGTTGACTTTG
1 ATCGACCCGACCCATTAACTTTG
37589405 AT
1 AT
37589407 TGAATCGAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (23 bp):
ATCGACCCGACCCATTAACTTTG
Found at i:37590628 original size:19 final size:18
Alignment explanation
Indices: 37590600--37590636 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
37590590 AGAAGCTCTT
*
37590600 ATTATTTTTTATTTATTTC
1 ATTATATTTTA-TTATTTC
37590619 ATTATATTTTATTATTTC
1 ATTATATTTTATTATTTC
37590637 GGTATAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTATATTTTATTATTTC
Found at i:37593895 original size:23 final size:22
Alignment explanation
Indices: 37593865--37593991 Score: 76
Period size: 23 Copynumber: 5.5 Consensus size: 22
37593855 ACACTAACAC
37593865 GCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGTTTAGCACGTCT-GT
* *
37593888 GCTCTCTGTTATTAGCATTGTGTGT
1 GCTCTCTG-T-TTAGCA-CGTCTGT
* * *
37593913 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCAC-GTCTGT
* * *
37593936 GCTCTCTGATTAGTAC-TTTGT
1 GCTCTCTGTTTAGCACGTCTGT
* * *
37593957 GTACTCTCTGTTTAGTACTGTGTAT
1 G--CTCTCTGTTTAGCAC-GTCTGT
37593982 GCTCTCTGTT
1 GCTCTCTGTT
37593992 GCCCAGCACT
Statistics
Matches: 86, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
21 5 0.06
23 57 0.66
24 1 0.01
25 20 0.23
26 3 0.03
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (22 bp):
GCTCTCTGTTTAGCACGTCTGT
Found at i:37593965 original size:46 final size:48
Alignment explanation
Indices: 37593866--37593991 Score: 134
Period size: 46 Copynumber: 2.7 Consensus size: 48
37593856 CACTAACACG
* * * *
37593866 CTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGTTATTAGCATTGTGTGTG
1 CTCTCTGATTAGCACTGTGT-GTGCTCTCTGTTAGTAGCATTGTGTGTA
*
37593914 CTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTA-C-TT-TGTGTA
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTG-TTAGTAGCATTGTGTGTA
* * *
37593960 CTCTCTGTTTAGTACTGTGTATGCTCTCTGTT
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGTT
37593992 GCCCAGCACT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
45 2 0.03
46 31 0.46
47 2 0.03
48 25 0.37
49 7 0.10
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (48 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGTTAGTAGCATTGTGTGTA
Found at i:37594408 original size:65 final size:65
Alignment explanation
Indices: 37594304--37594435 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
37594294 ATCACATCAC
37594304 ATCACTATTGGAAGACTTCAGTTTAAGTACATTACTTTGGTAAAATGGCATGTACAAATGGTACT
1 ATCACTATTGGAAGACTTCAGTTTAAGTACATTACTTTGGTAAAATGGCATGTACAAATGGTACT
*
37594369 ATCACTATTGGAAGACTTCAGTTTAGGTACATTACTTTGGTAAAATGGCATGTACAAATGGTACT
1 ATCACTATTGGAAGACTTCAGTTTAAGTACATTACTTTGGTAAAATGGCATGTACAAATGGTACT
37594434 AT
1 AT
37594436 TATGTGTCTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (65 bp):
ATCACTATTGGAAGACTTCAGTTTAAGTACATTACTTTGGTAAAATGGCATGTACAAATGGTACT
Found at i:37594524 original size:32 final size:32
Alignment explanation
Indices: 37594488--37594552 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
37594478 CTACGAGTTG
*
37594488 ATGAATTAAAATGATGAGTTTTGAATAAAATA
1 ATGAATTAAAATGATGAATTTTGAATAAAATA
37594520 ATGAATTAAAATGATGAATTTTGAATAAAATA
1 ATGAATTAAAATGATGAATTTTGAATAAAATA
37594552 A
1 A
37594553 CTTTAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (32 bp):
ATGAATTAAAATGATGAATTTTGAATAAAATA
Found at i:37594550 original size:19 final size:19
Alignment explanation
Indices: 37594489--37594550 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
37594479 TACGAGTTGA
*
37594489 TGAATTAAAATGATGAGTTT
1 TGAA-TAAAATGATGAATTT
*
37594509 TGAATAAAATAATGAA---
1 TGAATAAAATGATGAATTT
37594525 T---TAAAATGATGAATTT
1 TGAATAAAATGATGAATTT
37594541 TGAATAAAAT
1 TGAATAAAAT
37594551 AACTTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 13
0.67 0.06 0.27
Matches are distributed among these distances:
13 11 0.33
16 2 0.06
19 16 0.48
20 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (19 bp):
TGAATAAAATGATGAATTT
Found at i:37607018 original size:2 final size:2
Alignment explanation
Indices: 37607000--37607034 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
37606990 TAATATCAAA
*
37607000 AT AT AGT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37607035 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:37611170 original size:19 final size:18
Alignment explanation
Indices: 37611116--37611168 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 18
37611106 AAATTACAAA
*
37611116 AAAAATCAAAATATTT-T
1 AAAATTCAAAATATTTAT
37611133 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
*
37611151 AAAATTCCAAA-ATTTAT
1 AAAATTCAAAATATTTAT
37611168 A
1 A
37611169 TATTTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:37611200 original size:19 final size:18
Alignment explanation
Indices: 37611170--37611230 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 18
37611160 AAATTTATAT
*
37611170 ATTTTTTAAAAATTATAAA
1 ATTTTTAAAAAATTA-AAA
37611189 ATTTTTAAAAAAATCTAAACA
1 ATTTTT-AAAAAAT-TAAA-A
* *
37611210 ATATATAAAAAATTAAAA
1 ATTTTTAAAAAATTAAAA
37611228 ATT
1 ATT
37611231 AATTTTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.09
19 10 0.29
20 15 0.43
21 7 0.20
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTTTTAAAAAATTAAAA
Found at i:37619144 original size:89 final size:89
Alignment explanation
Indices: 37619030--37619205 Score: 309
Period size: 89 Copynumber: 2.0 Consensus size: 89
37619020 TATAATATCC
37619030 AAACAATAACAACAAAATAGTAGTAATATAATAGCGAAATGATAGCAAAACAATAAAAAAACTGT
1 AAACAATAACAACAAAATAGTAGTAATATAATAGCGAAATGATAGCAAAACAATAAAAAAACTGT
37619095 GGTAAATATAGTAAAAACAACAACA
66 GGTAAA-ATAGTAAAAACAACAACA
* * *
37619120 AAACAATAACAA-AAAATAGTAGTAATATAATATCGAAATGATAGTAAAACAATGAAAAAACTGT
1 AAACAATAACAACAAAATAGTAGTAATATAATAGCGAAATGATAGCAAAACAATAAAAAAACTGT
37619184 GGTAAAATAGTAAAAACAACAA
66 GGTAAAATAGTAAAAACAACAA
37619206 TAATTTTTTT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
88 16 0.19
89 55 0.66
90 12 0.14
ACGTcount: A:0.60, C:0.10, G:0.11, T:0.19
Consensus pattern (89 bp):
AAACAATAACAACAAAATAGTAGTAATATAATAGCGAAATGATAGCAAAACAATAAAAAAACTGT
GGTAAAATAGTAAAAACAACAACA
Found at i:37619874 original size:2 final size:2
Alignment explanation
Indices: 37619867--37619893 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37619857 CATACTAAAG
37619867 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
37619894 TATTTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37624033 original size:27 final size:27
Alignment explanation
Indices: 37624003--37624056 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
37623993 ATTTAGTTAA
37624003 ACTGTTAATAAGCTGTCAACATTTCTT
1 ACTGTTAATAAGCTGTCAACATTTCTT
37624030 ACTGTTAATAAGCTGTCAACATTTCTT
1 ACTGTTAATAAGCTGTCAACATTTCTT
37624057 TTGGCATCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (27 bp):
ACTGTTAATAAGCTGTCAACATTTCTT
Found at i:37626155 original size:11 final size:11
Alignment explanation
Indices: 37626139--37626163 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37626129 AGAGAAAGTG
37626139 AGAAAAAAAAA
1 AGAAAAAAAAA
37626150 AGAAAAAAAAA
1 AGAAAAAAAAA
37626161 AGA
1 AGA
37626164 GCTGTTTGGG
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:37626764 original size:21 final size:21
Alignment explanation
Indices: 37626740--37626791 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
37626730 CTATTTGAAT
*
37626740 ATATATATTTATGTAATTG-A
1 ATATATATTTATGTAAATGTA
*
37626760 GATATAT-TGGTATGTAAATGTA
1 -ATATATAT-TTATGTAAATGTA
37626782 ATATATATTT
1 ATATATATTT
37626792 GTTACGAGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 22 0.88
22 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.48
Consensus pattern (21 bp):
ATATATATTTATGTAAATGTA
Found at i:37627360 original size:78 final size:78
Alignment explanation
Indices: 37627262--37627412 Score: 284
Period size: 78 Copynumber: 1.9 Consensus size: 78
37627252 ACTATGTGTT
* *
37627262 TATATCCTTCAAATACATTATTGAGATGATGAAATGAGATAACAGAATAGTAATTATTTGCTTTG
1 TATATCCTTCAAATACATTATTGAGATGATGAAATGAGATAACAGAATAATAATCATTTGCTTTG
37627327 TTTATTTAAGTTA
66 TTTATTTAAGTTA
37627340 TATATCCTTCAAATACATTATTGAGATGATGAAATGAGATAACAGAATAATAATCATTTGCTTTG
1 TATATCCTTCAAATACATTATTGAGATGATGAAATGAGATAACAGAATAATAATCATTTGCTTTG
37627405 TTTATTTA
66 TTTATTTA
37627413 CTATGTGTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (78 bp):
TATATCCTTCAAATACATTATTGAGATGATGAAATGAGATAACAGAATAATAATCATTTGCTTTG
TTTATTTAAGTTA
Found at i:37634223 original size:18 final size:17
Alignment explanation
Indices: 37634191--37634230 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
37634181 TATAGCATTG
*
37634191 TATTTTTCCCTTTTCCT
1 TATTTTTCCCCTTTCCT
37634208 TATTTATTCCCCTTTCCT
1 TATTT-TTCCCCTTTCCT
37634226 TATTT
1 TATTT
37634231 GTTCTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTTTCCCCTTTCCT
Found at i:37642790 original size:49 final size:49
Alignment explanation
Indices: 37642731--37642923 Score: 201
Period size: 49 Copynumber: 3.9 Consensus size: 49
37642721 AACTTTTAGA
* * * **
37642731 ATTTTCATATTCTACCATCTCGGGTGGCCTGCCAATGATGATTTTCACT
1 ATTTGCATATTCTACCATCCCGGGTGGCCTGACAATGATGGCTTTCACT
** * * *
37642780 ATTTTTATATTCTACCATCCCAGGTAGGAC-GAAAATGATGGCTTTCACT
1 ATTTGCATATTCTACCATCCCGGGT-GGCCTGACAATGATGGCTTTCACT
* *
37642829 ATTTGCATATTCTAACATCCTGGGTGG-CTCGACAATGATGGCTTTCACT
1 ATTTGCATATTCTACCATCCCGGGTGGCCT-GACAATGATGGCTTTCACT
* * * *
37642878 ATTTGCATATTCTCATCATCCCGGGTGGCTTGAAAATGATGACTTT
1 ATTTGCATATTCT-ACCATCCCGGGTGGCCTGACAATGATGGCTTT
37642924 AAATCATTAT
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 88 0.73
50 28 0.23
51 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (49 bp):
ATTTGCATATTCTACCATCCCGGGTGGCCTGACAATGATGGCTTTCACT
Found at i:37644077 original size:18 final size:18
Alignment explanation
Indices: 37644054--37644090 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37644044 ACAATTCATA
37644054 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
37644072 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
37644090 T
1 T
37644091 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:37651448 original size:17 final size:17
Alignment explanation
Indices: 37651396--37651451 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
37651386 AATATGAAAA
37651396 GTTAAGGAAGATGGAAG
1 GTTAAGGAAGATGGAAG
37651413 GTTAAAGGTCAAG--GG-AG
1 GTT-AAGG--AAGATGGAAG
37651430 GTTAAGGAAGATGGAAG
1 GTTAAGGAAGATGGAAG
37651447 GTTAA
1 GTTAA
37651452 AATTCAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
14 3 0.09
16 6 0.18
17 15 0.45
18 6 0.18
20 3 0.09
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.20
Consensus pattern (17 bp):
GTTAAGGAAGATGGAAG
Found at i:37656959 original size:17 final size:17
Alignment explanation
Indices: 37656937--37657024 Score: 82
Period size: 17 Copynumber: 5.3 Consensus size: 17
37656927 AGTATAAAAA
37656937 GTTAAGGAAGATGGAAG
1 GTTAAGGAAGATGGAAG
37656954 GTTAAGGTCAAG--GG-A-
1 GTTAAGG--AAGATGGAAG
37656969 GTTAAGGAAGATGGAAG
1 GTTAAGGAAGATGGAAG
37656986 GTTAAAGGTCAAG--GG-AG
1 GTT-AAGG--AAGATGGAAG
37657003 GTTAAGGAAGATGGAAG
1 GTTAAGGAAGATGGAAG
37657020 GTTAA
1 GTTAA
37657025 AAGTCAAGAG
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 3 0.05
14 3 0.05
15 9 0.15
16 8 0.14
17 24 0.41
18 6 0.10
19 3 0.05
20 3 0.05
ACGTcount: A:0.39, C:0.02, G:0.40, T:0.19
Consensus pattern (17 bp):
GTTAAGGAAGATGGAAG
Found at i:37656977 original size:32 final size:32
Alignment explanation
Indices: 37656936--37657024 Score: 160
Period size: 32 Copynumber: 2.7 Consensus size: 32
37656926 AAGTATAAAA
37656936 AGTTAAGGAAGATGGAAGGTTAAGGTCAAGGG
1 AGTTAAGGAAGATGGAAGGTTAAGGTCAAGGG
37656968 AGTTAAGGAAGATGGAAGGTTAAAGGTCAAGGG
1 AGTTAAGGAAGATGGAAGGTT-AAGGTCAAGGG
37657001 AGGTTAAGGAAGATGGAAGGTTAA
1 A-GTTAAGGAAGATGGAAGGTTAA
37657025 AAGTCAAGAG
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 21 0.38
33 14 0.25
34 20 0.36
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.19
Consensus pattern (32 bp):
AGTTAAGGAAGATGGAAGGTTAAGGTCAAGGG
Found at i:37657012 original size:34 final size:33
Alignment explanation
Indices: 37656936--37657032 Score: 169
Period size: 34 Copynumber: 2.9 Consensus size: 33
37656926 AAGTATAAAA
37656936 AGTTAAGGAAGATGGAAGGTT-AAGGTCAAGGG
1 AGTTAAGGAAGATGGAAGGTTAAAGGTCAAGGG
37656968 AGTTAAGGAAGATGGAAGGTTAAAGGTCAAGGG
1 AGTTAAGGAAGATGGAAGGTTAAAGGTCAAGGG
*
37657001 AGGTTAAGGAAGATGGAAGGTTAAAAGTCAAG
1 A-GTTAAGGAAGATGGAAGGTTAAAGGTCAAG
37657033 AGAGAAGAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 21 0.34
33 12 0.19
34 29 0.47
ACGTcount: A:0.40, C:0.03, G:0.38, T:0.19
Consensus pattern (33 bp):
AGTTAAGGAAGATGGAAGGTTAAAGGTCAAGGG
Found at i:37668710 original size:42 final size:42
Alignment explanation
Indices: 37668634--37668714 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
37668624 TGTAGAGGTA
* * *
37668634 CAGATTGAAACCGCAATGGCAAATCTCGTACACCTAAAGGGG
1 CAGAATGAAACCGCAATGACAAATCTCATACACCTAAAGGGG
* * *
37668676 CAGAATGAAGCCGCAATGATAAATCTCATTCACCTAAAG
1 CAGAATGAAACCGCAATGACAAATCTCATACACCTAAAG
37668715 CTGTAGAGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (42 bp):
CAGAATGAAACCGCAATGACAAATCTCATACACCTAAAGGGG
Found at i:37668750 original size:50 final size:50
Alignment explanation
Indices: 37668671--37668767 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
37668661 GTACACCTAA
* * * *
37668671 AGGGGCAGAATGAAGCCGCAATGATAAATCTCATTCACCTAAAGCTGTAG
1 AGGGGCAGAATGAAGCCACAAGGACAAATCTCATACACCTAAAGCTGTAG
* * * *
37668721 AGGGGCAGATTGAAGTCACAAGGACAAATCTTATACTCCTAAAGCTG
1 AGGGGCAGAATGAAGCCACAAGGACAAATCTCATACACCTAAAGCTG
37668768 AAATGAAGTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (50 bp):
AGGGGCAGAATGAAGCCACAAGGACAAATCTCATACACCTAAAGCTGTAG
Found at i:37668837 original size:40 final size:40
Alignment explanation
Indices: 37668791--37669003 Score: 225
Period size: 40 Copynumber: 5.3 Consensus size: 40
37668781 TTACAACCTT
* *
37668791 CAATCTCTTACCCTAACCAGAAGGTAGATTGAAGACCATC
1 CAATCTCTTACCCTAATCAGAAGGCAGATTGAAGACCATC
* * * *
37668831 CGATCTCTTACCAC-GATCATG-AGGCAGATTGAAAACTATC
1 CAATCTCTTACC-CTAATCA-GAAGGCAGATTGAAGACCATC
* *
37668871 CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCATC
1 CAATCTCTTACCCTAATCAGAAGGCAGATTGAAGACCATC
* ** * * *
37668911 CAATCTTTTACCCCGATCA-TAGGACAGATTGAAAACCATT
1 CAATCTCTTACCCTAATCAGAAGG-CAGATTGAAGACCATC
* * *
37668951 CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCGTC
1 CAATCTCTTACCCTAATCAGAAGGCAGATTGAAGACCATC
37668991 CAATCTCTTACCC
1 CAATCTCTTACCC
37669004 CGATCATAGG
Statistics
Matches: 141, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
39 4 0.03
40 133 0.94
41 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (40 bp):
CAATCTCTTACCCTAATCAGAAGGCAGATTGAAGACCATC
Found at i:37669020 original size:40 final size:40
Alignment explanation
Indices: 37668816--37669043 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
37668806 ACCAGAAGGT
* * *
37668816 AGATTGAAGACCATCCGATCTCTTACCACGATCAT-GAGGC
1 AGATTGAAGACCATCCAATCTTTTACCCCGATCATAG-GGC
* * ** *
37668856 AGATTGAAAACTATCCAATCTTTTACCCTAATCAGAGGGC
1 AGATTGAAGACCATCCAATCTTTTACCCCGATCATAGGGC
*
37668896 AGATTGAAGACCATCCAATCTTTTACCCCGATCATAGGAC
1 AGATTGAAGACCATCCAATCTTTTACCCCGATCATAGGGC
* * ** *
37668936 AGATTGAAAACCATTCAATCTTTTACCCTAATCAGAGGGC
1 AGATTGAAGACCATCCAATCTTTTACCCCGATCATAGGGC
* * *
37668976 AGATTGAAGACCGTCCAATCTCTTACCCCGATCATAGGGT
1 AGATTGAAGACCATCCAATCTTTTACCCCGATCATAGGGC
*
37669016 AGATTGAA-A-CAACTCAATCTTTTACCCC
1 AGATTGAAGACCATC-CAATCTTTTACCCC
37669044 TAAAGTTATA
Statistics
Matches: 155, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
38 2 0.01
39 14 0.09
40 138 0.89
41 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
AGATTGAAGACCATCCAATCTTTTACCCCGATCATAGGGC
Found at i:37669046 original size:80 final size:79
Alignment explanation
Indices: 37668790--37669042 Score: 348
Period size: 80 Copynumber: 3.2 Consensus size: 79
37668780 TTTACAACCT
* * * * * *
37668790 TCAATCTCTTACCCTAACCAGAAGGTAGATTGAAGACCATCCGATCTCTTACCACGATCAT-GAG
1 TCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCATCCAATCTCTTACCCCGATCATAG-G
*
37668854 GCAGATTGAAAACTA
65 GCAGATTGAAAACAA
*
37668869 TCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCATCCAATCTTTTACCCCGATCATAGG
1 T-CAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCATCCAATCTCTTACCCCGATCATAGG
* *
37668934 ACAGATTGAAAACCAT
65 GCAGATTGAAAA-CAA
*
37668950 TCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCGTCCAATCTCTTACCCCGATCATAGGG
1 TCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCATCCAATCTCTTACCCCGATCATAGGG
*
37669015 TAGATTG-AAACAA
66 CAGATTGAAAACAA
37669028 CTCAATCTTTTACCC
1 -TCAATCTTTTACCC
37669043 CTAAAGTTAT
Statistics
Matches: 155, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
78 2 0.01
79 18 0.12
80 132 0.85
81 3 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (79 bp):
TCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACCATCCAATCTCTTACCCCGATCATAGGG
CAGATTGAAAACAA
Found at i:37672115 original size:24 final size:24
Alignment explanation
Indices: 37672088--37672133 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
37672078 GTTTCTCACA
*
37672088 TCTTAGGACAATCATCAGGTTCTT
1 TCTTAGGACAATCATCAAGTTCTT
37672112 TCTTAGGACAATCATCAAGTTC
1 TCTTAGGACAATCATCAAGTTC
37672134 CTTTTCCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (24 bp):
TCTTAGGACAATCATCAAGTTCTT
Found at i:37680259 original size:28 final size:27
Alignment explanation
Indices: 37680222--37680279 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 27
37680212 GATTGCGACA
37680222 TTAACAATTAATTAATTAACTTTTTCAT
1 TTAACAATTAATTAATTAA-TTTTTCAT
*
37680250 TTAACAATTAATTAATTAATTTTTTAT
1 TTAACAATTAATTAATTAATTTTTCAT
37680277 TTA
1 TTA
37680280 TTTTACGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAACAATTAATTAATTAATTTTTCAT
Found at i:37686466 original size:28 final size:26
Alignment explanation
Indices: 37686410--37686466 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 26
37686400 TACTAAAACT
37686410 CTTTTATACCCAATTTGGTACCTAAA
1 CTTTTATACCCAATTTGGTACCTAAA
*
37686436 CTTTTATTGACCCAATTTGGTACCTGAA
1 CTTTTA-T-ACCCAATTTGGTACCTAAA
37686464 CTT
1 CTT
37686467 GATTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 6 0.21
27 1 0.04
28 21 0.75
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (26 bp):
CTTTTATACCCAATTTGGTACCTAAA
Found at i:37686678 original size:31 final size:30
Alignment explanation
Indices: 37686638--37686829 Score: 114
Period size: 31 Copynumber: 6.4 Consensus size: 30
37686628 TTAAAAAAAA
* *
37686638 TTAGATACCAAATTAGAGAAAAGAGTCAAGT
1 TTAGGTACCAAATTAGA-AAAAAAGTCAAGT
**
37686669 TTAGGTACCAAATT-GAACCCCAAA---AA-T
1 TTAGGTACCAAATTAGAA--AAAAAGTCAAGT
* * *
37686696 TTAAGTACCAACTTA-AAAAAAATGTCAAGA
1 TTAGGTACCAAATTAGAAAAAAA-GTCAAGT
* *
37686726 TTAGGTAACAAATTAGGAAAAAATGTCAAGT
1 TTAGGTACCAAATTA-GAAAAAAAGTCAAGT
* * *
37686757 TT-GAGTACCAAATTGGACCAAAAAG--AACT
1 TTAG-GTACCAAATTAGA-AAAAAAGTCAAGT
**
37686786 TTAGGTACCAAATTAGTAAAAAGTGTCAAGT
1 TTAGGTACCAAATTAG-AAAAAAAGTCAAGT
*
37686817 TCAGGTACCAAAT
1 TTAGGTACCAAAT
37686830 GTTATATTAA
Statistics
Matches: 120, Mismatches: 25, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
25 3 0.03
27 15 0.12
28 2 0.02
29 23 0.19
30 19 0.16
31 52 0.43
32 6 0.05
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (30 bp):
TTAGGTACCAAATTAGAAAAAAAGTCAAGT
Found at i:37688036 original size:22 final size:20
Alignment explanation
Indices: 37688010--37688054 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
37688000 AAGCATTTTC
37688010 TATTTAAGTATATATATTAATA
1 TATTTAA-TATATAT-TTAATA
* *
37688032 TATTTAATATTTATTTATTA
1 TATTTAATATATATTTAATA
37688052 TAT
1 TAT
37688055 ATGAATATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTTAATATATATTTAATA
Found at i:37689146 original size:29 final size:30
Alignment explanation
Indices: 37689084--37689487 Score: 282
Period size: 30 Copynumber: 13.6 Consensus size: 30
37689074 ATTTTCTTTG
*
37689084 AAAATTACATTTTGACCCCCAAACTTTTCT
1 AAAATTACATTTTAACCCCCAAACTTTTCT
* * *
37689114 AAAATTTCATTTTAACCCCCAAACTTTCCA
1 AAAATTACATTTTAACCCCCAAACTTTTCT
* * * * *
37689144 AAAATCATATTTTGACCCTCAAACTTTTCA
1 AAAATTACATTTTAACCCCCAAACTTTTCT
* * * *
37689174 AAAATTACATTTTGA-CTCTAAACTTTTTT
1 AAAATTACATTTTAACCCCCAAACTTTTCT
*
37689203 AAAATTACATTTTAA-CCCTAAACTTTTCT
1 AAAATTACATTTTAACCCCCAAACTTTTCT
* * *
37689232 ATAATTACATTTTAACCACCCGAACTTTTTT
1 AAAATTACATTTTAACC-CCCAAACTTTTCT
*** * *
37689263 AAAATTACATTTTAACCTTTATACTTTTCA
1 AAAATTACATTTTAACCCCCAAACTTTTCT
* * * * *
37689293 AAAATCACATTTTAACCTCTAAACTCTTCC
1 AAAATTACATTTTAACCCCCAAACTTTTCT
** *
37689323 AAAATTACATTTTAACCCTTAAACTTCTCT
1 AAAATTACATTTTAACCCCCAAACTTTTCT
* ** * ** *
37689353 AAAATCATGTTTTAACTCGTATAC-TTTCT
1 AAAATTACATTTTAACCCCCAAACTTTTCT
* * * * * *
37689382 CAAAATCACATTTTGA-TCGCAAACTTCTCC
1 -AAAATTACATTTTAACCCCCAAACTTTTCT
* * *
37689412 AAAATCACA-TTTAA-CCTCAAACTTTCCT
1 AAAATTACATTTTAACCCCCAAACTTTTCT
* *
37689440 AAAATTACATTTTTA-TCCCAAACTTTTTTCT
1 AAAATTACATTTTAACCCCCAAAC--TTTTCT
*
37689471 AAAATTACGTTTTAACC
1 AAAATTACATTTTAACC
37689488 ATGTATTCTC
Statistics
Matches: 295, Mismatches: 71, Indels: 14
0.78 0.19 0.04
Matches are distributed among these distances:
28 21 0.07
29 78 0.26
30 152 0.52
31 44 0.15
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCCAAACTTTTCT
Found at i:37689178 original size:60 final size:60
Alignment explanation
Indices: 37689084--37689487 Score: 311
Period size: 60 Copynumber: 6.8 Consensus size: 60
37689074 ATTTTCTTTG
* * * *
37689084 AAAATTACATTTTGACCCCCAAACTTTTCTAAAATTTCATTTTAACCCCCAAACTTTCCA
1 AAAATTACATTTTAACCCTCAAACTTTTCTAAAATTACATTTTAACCCCCAAACTTTCCT
* * * * * * * **
37689144 AAAATCATATTTTGACCCTCAAACTTTTCAAAAATTACATTTTGA-CTCTAAACTTTTTT
1 AAAATTACATTTTAACCCTCAAACTTTTCTAAAATTACATTTTAACCCCCAAACTTTCCT
* * **
37689203 AAAATTACATTTTAACCCT-AAACTTTTCTATAATTACATTTTAACCACCCGAACTTTTTT
1 AAAATTACATTTTAACCCTCAAACTTTTCTAAAATTACATTTTAACC-CCCAAACTTTCCT
* * * * * * *
37689263 AAAATTACATTTTAACCTTTATACTTTTCAAAAATCACATTTTAACCTCTAAACTCTTCC-
1 AAAATTACATTTTAACCCTCAAACTTTTCTAAAATTACATTTTAACCCCCAAACT-TTCCT
* * * ** * ** *
37689323 AAAATTACATTTTAACCCTTAAACTTCTCTAAAATCATGTTTTAACTCGTATACTTT-CT
1 AAAATTACATTTTAACCCTCAAACTTTTCTAAAATTACATTTTAACCCCCAAACTTTCCT
* * * * * * * *
37689382 CAAAATCACATTTTGA-TCGCAAACTTCTCCAAAATCACA-TTTAA-CCTCAAACTTTCCT
1 -AAAATTACATTTTAACCCTCAAACTTTTCTAAAATTACATTTTAACCCCCAAACTTTCCT
* * *
37689440 AAAATTACATTTTTATCC-CAAACTTTTTTCTAAAATTACGTTTTAACC
1 AAAATTACATTTTAACCCTCAAAC--TTTTCTAAAATTACATTTTAACC
37689488 ATGTATTCTC
Statistics
Matches: 273, Mismatches: 59, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
57 25 0.09
58 31 0.11
59 56 0.21
60 135 0.49
61 26 0.10
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.39
Consensus pattern (60 bp):
AAAATTACATTTTAACCCTCAAACTTTTCTAAAATTACATTTTAACCCCCAAACTTTCCT
Found at i:37699300 original size:23 final size:21
Alignment explanation
Indices: 37699265--37699315 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
37699255 TTTTTTATTT
*
37699265 AAAAAGAAATAAAAAGAATAAC
1 AAAAATAAATAAAAAGAA-AAC
*
37699287 AAAAATAAAGTAAAAAGAAAAT
1 AAAAATAAA-TAAAAAGAAAAC
37699309 AAAAATA
1 AAAAATA
37699316 GATTCTAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (21 bp):
AAAAATAAATAAAAAGAAAAC
Found at i:37699652 original size:21 final size:20
Alignment explanation
Indices: 37699619--37699660 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
37699609 ATAAAGCCTT
37699619 GAGAGGGTTTTTTGAAGAGAG
1 GAGAGGGTTTTTT-AAGAGAG
* *
37699640 GAGAGGTTTTTTTTAGAGAG
1 GAGAGGGTTTTTTAAGAGAG
37699660 G
1 G
37699661 GTGTAAAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.33
Consensus pattern (20 bp):
GAGAGGGTTTTTTAAGAGAG
Found at i:37699657 original size:20 final size:21
Alignment explanation
Indices: 37699619--37699660 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
37699609 ATAAAGCCTT
37699619 GAGAGGGTTTTTTGAAGAGAG
1 GAGAGGGTTTTTTGAAGAGAG
**
37699640 GAGA-GGTTTTTTTTAGAGAG
1 GAGAGGGTTTTTTGAAGAGAG
37699660 G
1 G
37699661 GTGTAAAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.33
Consensus pattern (21 bp):
GAGAGGGTTTTTTGAAGAGAG
Found at i:37700099 original size:30 final size:30
Alignment explanation
Indices: 37699989--37700360 Score: 398
Period size: 30 Copynumber: 12.6 Consensus size: 30
37699979 AATTTCTTTA
*
37699989 AAAATTATATTTTAACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* *
37700019 -AAATTTCATTTTAA-CCCTTAAC-TTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* * *
37700046 AAAAATCACATTTTAA-CCTTAAACTTTTGC
1 -AAAATTACATTTTAACCCCTAAACTTTTCC
*
37700076 AAAATTACATTTTAACCCCTAAACTTTTCT
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* * * *
37700106 AAAATTGCATTTCAA-CCTTAACCTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* *
37700135 AAAATTGCATTTTAACCCCTAAACTTCTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* * *
37700165 GAAATTACATTTTAACCCTTAAACTCTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* *
37700195 AAAATTACATTTTAACCCTTAAACTTCTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* * *
37700225 AAAATCACGTTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* * * * *
37700255 AAAATCACATTTTGATCGC-AAACTTCTCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* *
37700284 AAAATCACATTTTAACCCC-AAACTTTCCC
1 AAAATTACATTTTAACCCCTAAACTTTTCC
* * *
37700313 AAAATTACATTTTTACCCCTAAATTTTTTCT
1 AAAATTACATTTTAACCCCTAAA-CTTTTCC
37700344 AAAATTACATTTTAACC
1 AAAATTACATTTTAACC
37700361 TTATATTCTT
Statistics
Matches: 286, Mismatches: 49, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
27 5 0.02
28 7 0.02
29 119 0.42
30 135 0.47
31 20 0.07
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTTTCC
Found at i:37703031 original size:32 final size:32
Alignment explanation
Indices: 37702990--37703062 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
37702980 TATTCATAAC
37702990 GTACGCCAGAGGACGGTTGACCAAAAAAAAAG
1 GTACGCCAGAGGACGGTTGACCAAAAAAAAAG
*
37703022 GTACGCCAGAGTACGGTTGACCAAAAAAAAAG
1 GTACGCCAGAGGACGGTTGACCAAAAAAAAAG
37703054 GTACGCCAG
1 GTACGCCAG
37703063 GGTACATCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.41, C:0.21, G:0.27, T:0.11
Consensus pattern (32 bp):
GTACGCCAGAGGACGGTTGACCAAAAAAAAAG
Found at i:37704417 original size:7 final size:7
Alignment explanation
Indices: 37704404--37704444 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
37704394 CGAATTTGAA
37704404 CTTAAAC
1 CTTAAAC
*
37704411 TTTAAAC
1 CTTAAAC
37704418 CTTAAAC
1 CTTAAAC
**
37704425 CAAAAAC
1 CTTAAAC
37704432 CTTAAAC
1 CTTAAAC
37704439 CTTAAA
1 CTTAAA
37704445 TGAGTTTAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (7 bp):
CTTAAAC
Found at i:37705575 original size:96 final size:96
Alignment explanation
Indices: 37705394--37705585 Score: 217
Period size: 96 Copynumber: 2.0 Consensus size: 96
37705384 AAATTTGAAG
* * * * * ** ***
37705394 AAGGATATTTGATTACTTCGATTTGAAGAAAAGTTGCACCTAGTGAGTTAAGTTACACCTTTTCA
1 AAGGATATTCGATTACTTCGATTTAAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAAATTTCA
* *
37705459 TAACCGAAGATAAGGAAATATTGCCTCGATT
66 AAACCGAAGATAAAGAAATATTGCCTCGATT
* *
37705490 AAGGATATTCGATTATTTCGGTTTAAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAAATTTCA
1 AAGGATATTCGATTACTTCGATTTAAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAAATTTCA
*
37705555 AAACTCGAA-ATAAA-AGAATATTGTCTCGATT
66 AAAC-CGAAGATAAAGA-AATATTGCCTCGATT
37705586 TTAAATTTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
95 1 0.01
96 74 0.94
97 4 0.05
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (96 bp):
AAGGATATTCGATTACTTCGATTTAAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAAATTTCA
AAACCGAAGATAAAGAAATATTGCCTCGATT
Found at i:37705868 original size:29 final size:29
Alignment explanation
Indices: 37705836--37706046 Score: 103
Period size: 29 Copynumber: 7.2 Consensus size: 29
37705826 TTAAAAATGA
*
37705836 AATTTTGGAAAATTAGGGGGTGAAATGGT
1 AATTTTGGAAAATTAGGGGGTAAAATGGT
* * * * *
37705865 AATTTTTGATGAATTCGAGGTTAAAAATGG-
1 AATTTTGGA-AAATTAGGGGGT-AAAATGGT
*
37705895 AATTTTGGAAAGTTTA-GGGGTAAAATGGT
1 AATTTTGGAAA-ATTAGGGGGTAAAATGGT
* * *
37705924 AATTTTTGGTGAAA-T-CGGGGTCAAAAAAGG-
1 AA-TTTTGG-AAAATTAGGGGGT--AAAATGGT
* * * *
37705954 GATTTTGGAAAGTTTGGGGGTAAAATGTT
1 AATTTTGGAAAATTAGGGGGTAAAATGGT
* * *
37705983 AATTTTGGGTGAAATTA-AGGTTAAAATGG-
1 AATTTT-GG-AAAATTAGGGGGTAAAATGGT
* * * *
37706012 GATTTTGGAAAGTTCGAGGGTAAAATGGT
1 AATTTTGGAAAATTAGGGGGTAAAATGGT
37706041 AATTTT
1 AATTTT
37706047 TAGAAGTTTT
Statistics
Matches: 132, Mismatches: 34, Indels: 32
0.67 0.17 0.16
Matches are distributed among these distances:
27 4 0.03
28 27 0.20
29 42 0.32
30 41 0.31
31 18 0.14
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (29 bp):
AATTTTGGAAAATTAGGGGGTAAAATGGT
Found at i:37705869 original size:59 final size:59
Alignment explanation
Indices: 37705798--37706047 Score: 306
Period size: 59 Copynumber: 4.3 Consensus size: 59
37705788 TTCCGAGGGA
* * * *
37705798 AAAATAGTAATTTTTGGTAAAATCGAGGTTAAAAATGAAATTTTGGAAAATTAGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTAGGGGGT
* * *
37705857 GAAATGGTAATTTTTGATGAATTCGAGGTTAAAAATGGAATTTTGGAAAGTTTA-GGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG-TTAGGGGGT
* * * * *
37705916 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAAAGGGATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTAGGGGGT
* * ** * * *
37705975 AAAATGTTAATTTTGGGTGAAATTAAGGTT-AAAATGGGATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTAGGGGGT
37706033 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
37706048 AGAAGTTTTG
Statistics
Matches: 163, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
58 40 0.25
59 120 0.74
60 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTAGGGGGT
Found at i:37705899 original size:30 final size:30
Alignment explanation
Indices: 37705797--37705900 Score: 86
Period size: 30 Copynumber: 3.5 Consensus size: 30
37705787 TTTCCGAGGG
* * *
37705797 AAAAATAGTAATTTTTGGTAAAATCGAGGTT
1 AAAAAT-GGAATTTTTGATAAATTCGAGGTT
* * * * *
37705828 AAAAATGAAATTTTGGA-AAATTAGGGGGT
1 AAAAATGGAATTTTTGATAAATTCGAGGTT
* *
37705857 -GAAATGGTAATTTTTGATGAATTCGAGGTT
1 AAAAATGG-AATTTTTGATAAATTCGAGGTT
37705887 AAAAATGGAATTTT
1 AAAAATGGAATTTT
37705901 GGAAAGTTTA
Statistics
Matches: 55, Mismatches: 15, Indels: 7
0.71 0.19 0.09
Matches are distributed among these distances:
28 5 0.09
29 16 0.29
30 22 0.40
31 12 0.22
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (30 bp):
AAAAATGGAATTTTTGATAAATTCGAGGTT
Found at i:37707696 original size:17 final size:18
Alignment explanation
Indices: 37707676--37707716 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
37707666 AATTTTATGC
37707676 AAATTTAAATTCAAAA-T
1 AAATTTAAATTCAAAACT
* *
37707693 AAATCT-AATTTAAAACT
1 AAATTTAAATTCAAAACT
37707710 AAATTTA
1 AAATTTA
37707717 TCTCATTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTAAATTCAAAACT
Found at i:37708411 original size:201 final size:201
Alignment explanation
Indices: 37708054--37708556 Score: 848
Period size: 201 Copynumber: 2.5 Consensus size: 201
37708044 AGTTTGCTGA
* *
37708054 CTTCGATCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCG-TTGAGCGT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTTGAGCGT
37708118 TGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCGCTTGTTTTAATTCGCTTC
66 TGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCGCTTGTTTTAATTCGCTTC
*
37708183 TCTGAATCTCCTCAAGAAGACAAATTTGG-TCTACTTCTCTGTATCTCATCAGGAAGCTAACCAT
131 TCTGAATCTCCTCAAGAAGACAAATTTGGTTC-ACTTCTCTGTATCTCATCAAGAAGCTAACCAT
37708247 TTTATTG
195 TTTATTG
* *
37708254 CTTCGACCTGCTTCTCTGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTTGCGCGT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTTGAGCGT
* * *
37708319 TGAGTTGGTATTCTTCTCTGTACCCCATCAGGAAGATGACTGCCTCGGTTGTTTTAATTCGCTTC
66 TGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCGCTTGTTTTAATTCGCTTC
* * * * *
37708384 TCTGGATCTCCTCAGGAAGATAAATTTGGTTCACTTCTTTGTATCTCATCAAGAAGCTAACCGTT
131 TCTGAATCTCCTCAAGAAGACAAATTTGGTTCACTTCTCTGTATCTCATCAAGAAGCTAACCATT
37708449 TTATTG
196 TTATTG
*
37708455 CTTCGACCTGCTTCTCAGTGTCTCATCGGGAAGCTGGGTTCGAAGATTTGCTCGCGTTTGAGCGT
1 CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTTGAGCGT
*
37708520 TGAGTTGGTATTCTTCTCTGTATCTCATCAAGAAGAT
66 TGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGAT
37708557 TATCGCCTCA
Statistics
Matches: 282, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
200 53 0.19
201 227 0.80
202 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (201 bp):
CTTCGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTTGAGCGT
TGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACTGCCTCGCTTGTTTTAATTCGCTTC
TCTGAATCTCCTCAAGAAGACAAATTTGGTTCACTTCTCTGTATCTCATCAAGAAGCTAACCATT
TTATTG
Found at i:37720393 original size:58 final size:58
Alignment explanation
Indices: 37720330--37720698 Score: 378
Period size: 58 Copynumber: 6.3 Consensus size: 58
37720320 TGGATTCCCA
* *
37720330 AGGGTAAAATAGTAATTTTTGGTAAAATCGAGGTTAAAAATGAAATTTTGGAAAATTAG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAAT-AAATTTTGGAAAATTAG
* * * *
37720389 -GGGT-AAATGGTAATTTTTGATGAATTCGAGGTCT-AAAATAGAATTTTGGAAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGT-TAAAAATA-AATTTTGGAAAATTAG
* * * * *
37720446 AGGGTAAAATGGTAACTTTTTGATAAAATTGGGGTCAAAAA-AAATTTTGGAAAATTTA-
1 AGGGTAAAATGGTAA-TTTTTGGTGAAATCGAGGTTAAAAATAAATTTTGGAAAA-TTAG
* ** *
37720504 AAGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTT-GAAAAGTTTG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAAT-AAATTTTGGAAAA-TTAG
* * *
37720562 AGGATAAAATGGTAATTTTTGGTGAAATC-AGGGTTAAAAATAAGATTTTGGAAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGA-GGTTAAAAATAA-ATTTTGGAAAATTAG
* * * *
37720621 AGGGT-AAATGGTAATTTTTTGTGAAATCGGGGTTAAAAATGAGATTTTGGAAAATTTG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAAT-AAATTTTGGAAAATTAG
*
37720679 AGGGTAACATGGTAATTTTT
1 AGGGTAAAATGGTAATTTTT
37720699 AGAAGTTTTG
Statistics
Matches: 257, Mismatches: 36, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
56 5 0.02
57 66 0.26
58 120 0.47
59 43 0.17
60 23 0.09
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (58 bp):
AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATAAATTTTGGAAAATTAG
Found at i:37720570 original size:116 final size:115
Alignment explanation
Indices: 37720330--37720698 Score: 447
Period size: 117 Copynumber: 3.2 Consensus size: 115
37720320 TGGATTCCCA
* * *
37720330 AGGGTAAAATAGTAATTTTTGGTAAAATCGAGGTTAAAAATGAAATTTTGGAAAA-TTAGGGGTA
1 AGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAAT-AAATTTTGGAAAATTTAAGGGTA
* * * * * *
37720394 AATGGTAATTTTTGATGAATTCGAGGTCTAAAATAGAATTTTGGAAAGTTCG
65 AATGGTAATTTTTGGTGAAATCGAGGT-TAAAATGGGATTTTGAAAAGTTTG
* * * *
37720446 AGGGTAAAATGGTAACTTTTTGATAAAATTGGGGTCAAAAA-AAATTTTGGAAAATTTAAAGGTA
1 AGGGTAAAATGGTAA-TTTTTGGTAAAATCGGGGTTAAAAATAAATTTTGGAAAATTTAAGGGT-
37720510 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGAAAAGTTTG
64 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGAAAAGTTTG
* * * * **
37720562 AGGATAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATAAGATTTTGGAAAGTTCGAGGGTA
1 AGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATAA-ATTTTGGAAAATTTAAGGGTA
* * *
37720627 AATGGTAATTTTTTGTGAAATCGGGGTTAAAAATGAGATTTTGGAAAA-TTTG
65 AATGGTAATTTTTGGTGAAATCGAGGTT-AAAATGGGATTTT-GAAAAGTTTG
*
37720679 AGGGTAACATGGTAATTTTT
1 AGGGTAAAATGGTAATTTTT
37720699 AGAAGTTTTG
Statistics
Matches: 218, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
115 33 0.15
116 83 0.38
117 97 0.44
118 5 0.02
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (115 bp):
AGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATAAATTTTGGAAAATTTAAGGGTAA
ATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGGATTTTGAAAAGTTTG
Found at i:37722397 original size:17 final size:17
Alignment explanation
Indices: 37722342--37722417 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 17
37722332 AATTTAATTT
*
37722342 TAAATTTAAATTTAGAA
1 TAAATTTAAATTTAAAA
* **
37722359 TAAATTTAAATTTTATG
1 TAAATTTAAATTTAAAA
* *
37722376 CAAATTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
*
37722393 TAAATCT-AATTTAAAA
1 TAAATTTAAATTTAAAA
37722409 CTAAATTTA
1 -TAAATTTA
37722418 TCTCATTGGA
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
16 8 0.18
17 36 0.82
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:37722415 original size:34 final size:34
Alignment explanation
Indices: 37722328--37722417 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
37722318 GACATTGGAT
** * *
37722328 ATCTAATTTAATTTTAAATTTAAATTTAGAATAA
1 ATCTAATTTAATACTAAATTTAAATTCAAAATAA
* * *
37722362 ATTTAAATTTTATGC-AAATTTAAATTCAAAATAA
1 ATCT-AATTTAATACTAAATTTAAATTCAAAATAA
*
37722396 ATCTAATTTAAAACTAAATTTA
1 ATCTAATTTAATACTAAATTTA
37722418 TCTCATTGGA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
33 7 0.16
34 30 0.68
35 7 0.16
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (34 bp):
ATCTAATTTAATACTAAATTTAAATTCAAAATAA
Found at i:37727106 original size:158 final size:158
Alignment explanation
Indices: 37726814--37727112 Score: 429
Period size: 158 Copynumber: 1.9 Consensus size: 158
37726804 ACAGTTACAG
* * *
37726814 CTCGTGTGAACATTACAGGTTATATGGGTGTTGGTCTTAGATATCCTACCGATGGTTGAGGTCTT
1 CTCGTGTGAACATTACAGGTTATATAGGTGCTGGTCCTAGATATCCTACCGATGGTTGAGGTCTT
* ** *
37726879 GCATTGATTGCGGATTCTCCACAACTCGTGTGAGCAGTATCGCGTAACGTAACATCTCGACCCAT
66 GCATTGATTGCGGATTCTCCACAACTCGTGTGAGCAGCATCGCGTAACCCAACATCTCGACCCAC
37726944 AGCTCGTGTGAAAAGGCCCATTTCACAA
131 AGCTCGTGTGAAAAGGCCCATTTCACAA
* * * *
37726972 CTCGTGTGAGCATTACAGGTTATATAGGTGCTGGTCCTAGATGTCTTATCGATGGTTGAGGTC-T
1 CTCGTGTGAACATTACAGGTTATATAGGTGCTGGTCCTAGATATCCTACCGATGGTTGAGGTCTT
* * * * * *
37727036 GACATTTATTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCCCCACATCTTGACCCA
66 G-CATTGATTGCGGATTCTCCACAACTCGTGTGAGCAGCATCGCGTAACCCAACATCTCGACCCA
37727101 CAGCTCGTGTGA
130 CAGCTCGTGTGA
37727113 GCAGACCCAT
Statistics
Matches: 123, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
157 2 0.02
158 121 0.98
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (158 bp):
CTCGTGTGAACATTACAGGTTATATAGGTGCTGGTCCTAGATATCCTACCGATGGTTGAGGTCTT
GCATTGATTGCGGATTCTCCACAACTCGTGTGAGCAGCATCGCGTAACCCAACATCTCGACCCAC
AGCTCGTGTGAAAAGGCCCATTTCACAA
Found at i:37730012 original size:24 final size:25
Alignment explanation
Indices: 37729979--37730073 Score: 81
Period size: 24 Copynumber: 3.8 Consensus size: 25
37729969 TTCCAGAAAT
* *
37729979 TTAGCCCATACGAGCCCGGTA-AAA
1 TTAGCTCATACGAGCCCGATACAAA
**
37730003 TTAGCTCATACGAGCCCGGAT--AGG
1 TTAGCTCATACGAGCCC-GATACAAA
* *
37730027 TTAGCTCATTCGAGCCC-AAACAGAA
1 TTAGCTCATACGAGCCCGATACA-AA
37730052 TTAGCTCATACGAGCGCCGATA
1 TTAGCTCATACGAGC-CCGATA
37730074 GGTTAGCTCT
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
22 1 0.02
24 34 0.62
25 16 0.29
26 2 0.04
27 2 0.04
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (25 bp):
TTAGCTCATACGAGCCCGATACAAA
Found at i:37730087 original size:24 final size:24
Alignment explanation
Indices: 37730003--37730098 Score: 113
Period size: 24 Copynumber: 4.0 Consensus size: 24
37729993 CCCGGTAAAA
*
37730003 TTAGCTCATACGAGCCCGGATAGG
1 TTAGCTCATACGAGCCCAGATAGG
* * * *
37730027 TTAGCTCATTCGAGCCCAAACAGAA
1 TTAGCTCATACGAGCCCAGATAG-G
37730052 TTAGCTCATACGAGCGCC-GATAGG
1 TTAGCTCATACGAGC-CCAGATAGG
*
37730076 TTAGCTCTTACGAGCCCAGATAG
1 TTAGCTCATACGAGCCCAGATAG
37730099 AGTTTAACCA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
23 2 0.03
24 38 0.64
25 17 0.29
26 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (24 bp):
TTAGCTCATACGAGCCCAGATAGG
Found at i:37734447 original size:24 final size:24
Alignment explanation
Indices: 37734420--37734533 Score: 104
Period size: 24 Copynumber: 4.7 Consensus size: 24
37734410 GCCCAAAAAA
37734420 ATTAGCTCATACGAGCCTAGATAG
1 ATTAGCTCATACGAGCCTAGATAG
* *
37734444 ATTAGCTCTTACGAGTCC-AGAAAG
1 ATTAGCTCATACGAG-CCTAGATAG
* ** * *
37734468 GTTAGCTCATTTGAGCCCAGACAG
1 ATTAGCTCATACGAGCCTAGATAG
*
37734492 AATTAGCGCATACGAGCCTAGATAG
1 -ATTAGCTCATACGAGCCTAGATAG
* * *
37734517 GTTAGCTCTTAAGAGCC
1 ATTAGCTCATACGAGCC
37734534 CAGACAAAGT
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
23 2 0.03
24 48 0.69
25 20 0.29
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (24 bp):
ATTAGCTCATACGAGCCTAGATAG
Found at i:37734519 original size:49 final size:48
Alignment explanation
Indices: 37734421--37734539 Score: 127
Period size: 49 Copynumber: 2.5 Consensus size: 48
37734411 CCCAAAAAAA
* * * *
37734421 TTAGCTCA-TACGAGCCTAGATAGATTAGCTCTTACGAGTCCAGAAAGG
1 TTAGCTCATTA-GAGCCCAGACAGATTAGCGCATACGAGTCCAGAAAGG
* *
37734469 TTAGCTCATTTGAGCCCAGACAGAATTAGCGCATACGAG-CCTAGATAGG
1 TTAGCTCATTAGAGCCCAGACAG-ATTAGCGCATACGAGTCC-AGAAAGG
37734518 TTAGCTC-TTAAGAGCCCAGACA
1 TTAGCTCATT-AGAGCCCAGACA
37734540 AAGTTTAACC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
48 22 0.37
49 38 0.63
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (48 bp):
TTAGCTCATTAGAGCCCAGACAGATTAGCGCATACGAGTCCAGAAAGG
Found at i:37737718 original size:20 final size:19
Alignment explanation
Indices: 37737693--37737779 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 19
37737683 TTACAAAAAA
37737693 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
37737712 CAAAAATTAAAAATTAATTTT
1 -AAAAATTCAAAA-TAATTTT
37737733 AAAAA-TCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
37737751 AAAAAAATTCAAAATTTATATTTT
1 --AAAAATTCAAAA--TA-ATTTT
37737775 AAAAA
1 AAAAA
37737780 ATTATAAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
17 4 0.07
18 2 0.04
19 5 0.09
20 21 0.38
21 13 0.23
22 5 0.09
23 1 0.02
24 1 0.02
25 4 0.07
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:37737778 original size:21 final size:20
Alignment explanation
Indices: 37737694--37737778 Score: 59
Period size: 21 Copynumber: 4.2 Consensus size: 20
37737684 TACAAAAAAA
37737694 AAAATTCAAAA--TAATTTT
1 AAAATTCAAAATTTAATTTT
*
37737712 CAAAAATT-AAAAATTAATTTT
1 --AAAATTCAAAATTTAATTTT
* * ***
37737733 AAAAATCAAAATATTTATAAA
1 AAAATTCAAAAT-TTAATTTT
37737754 AAAATTCAAAATTTATATTTT
1 AAAATTCAAAATTTA-ATTTT
37737775 AAAA
1 AAAA
37737779 AATTATAAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
19 9 0.18
20 12 0.24
21 28 0.57
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATTCAAAATTTAATTTT
Found at i:37737825 original size:29 final size:26
Alignment explanation
Indices: 37737770--37737834 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 26
37737760 CAAAATTTAT
*
37737770 ATTTTAAAAAATTATAAATATTCTAAA
1 ATTTT-AAAAATTATAAAAATTCTAAA
37737797 ATATTCTAAAAATATATAAAAATGT-TAAA
1 AT-TT-TAAAAAT-TATAAAAAT-TCTAAA
37737826 ATTTTAAAA
1 ATTTTAAAA
37737835 TTTTTCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 7 0.21
28 10 0.30
29 15 0.45
30 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (26 bp):
ATTTTAAAAATTATAAAAATTCTAAA
Found at i:37738202 original size:1 final size:1
Alignment explanation
Indices: 37738196--37738236 Score: 64
Period size: 1 Copynumber: 41.0 Consensus size: 1
37738186 CATCCACAGA
* *
37738196 CCCCCCCACCCCCCCGCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
37738237 ACCAACAACC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.02, C:0.95, G:0.02, T:0.00
Consensus pattern (1 bp):
C
Found at i:37741704 original size:20 final size:22
Alignment explanation
Indices: 37741668--37741714 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
37741658 CAAAAAAGTA
* *
37741668 TAAAAGTTATTAAATTTTA-TT
1 TAAAAGTTATAAAATTTAATTT
37741689 TAAAAG-TATAAAATTTAATTT
1 TAAAAGTTATAAAATTTAATTT
37741710 TAAAA
1 TAAAA
37741715 AATTACTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (22 bp):
TAAAAGTTATAAAATTTAATTT
Found at i:37745200 original size:21 final size:21
Alignment explanation
Indices: 37745176--37745228 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
37745166 TTTCAAATAA
37745176 TATATTAATTAATAATATTAT
1 TATATTAATTAATAATATTAT
37745197 TATATTAATTAATAATATTAT
1 TATATTAATTAATAATATTAT
37745218 TAT-TTATATTA
1 TATATTA-ATTA
37745229 TAAAATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 3 0.10
21 28 0.90
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATATTAATTAATAATATTAT
Found at i:37745207 original size:25 final size:25
Alignment explanation
Indices: 37745179--37745228 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
37745169 CAAATAATAT
37745179 ATTAATTAATAATATTA-TTATATTA
1 ATTAA-TAATAATATTATTTATATTA
*
37745204 ATTAATAATATTATTATTTATATTA
1 ATTAATAATAATATTATTTATATTA
37745229 TAAAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTAATAATAATATTATTTATATTA
Found at i:37745209 original size:18 final size:16
Alignment explanation
Indices: 37745171--37745217 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 16
37745161 TATGTTTTCA
37745171 AATAATATATTA-ATT
1 AATAATATATTATATT
37745186 AATAATATTATTATATT
1 AATAATA-TATTATATT
37745203 AATTAATAATATTAT
1 AA-TAAT-ATATTAT
37745218 TATTTATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.25
16 5 0.18
17 5 0.18
18 10 0.36
19 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATAATATATTATATT
Found at i:37752412 original size:21 final size:21
Alignment explanation
Indices: 37752388--37752452 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
37752378 TTTCAAATAA
37752388 TATATTAATTAATAATATTAT
1 TATATTAATTAATAATATTAT
37752409 TATATTAATTAATAATATTAT
1 TATATTAATTAATAATATTAT
* *
37752430 TATAATAAATAATAATATT-T
1 TATATTAATTAATAATATTAT
37752450 TAT
1 TAT
37752453 TATTTATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
20 4 0.10
21 38 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATATTAATTAATAATATTAT
Found at i:37752421 original size:18 final size:16
Alignment explanation
Indices: 37752383--37752429 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 16
37752373 TATGTTTTCA
37752383 AATAATATATTA-ATT
1 AATAATATATTATATT
37752398 AATAATATTATTATATT
1 AATAATA-TATTATATT
37752415 AATTAATAATATTAT
1 AA-TAAT-ATATTAT
37752430 TATAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.25
16 5 0.18
17 5 0.18
18 10 0.36
19 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATAATATATTATATT
Found at i:37755289 original size:42 final size:42
Alignment explanation
Indices: 37755186--37755291 Score: 133
Period size: 41 Copynumber: 2.5 Consensus size: 42
37755176 TGGTGTATAA
* *
37755186 AAAGGAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATT
1 AAAGGAAGACTCATGTCTCGAAATGAGAATGAGAATATGATT
** *
37755228 -AAGGAAGACTCATGTCTCGAGTTGAGAATGAGAATATGGTT
1 AAAGGAAGACTCATGTCTCGAAATGAGAATGAGAATATGATT
* * *
37755269 AAAGGAATACTTATGACTCGAAA
1 AAAGGAAGACTCATGTCTCGAAA
37755292 GAGCATAAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 36 0.68
42 17 0.32
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAAATGAGAATGAGAATATGATT
Found at i:37773297 original size:406 final size:402
Alignment explanation
Indices: 37772516--37773305 Score: 936
Period size: 406 Copynumber: 1.9 Consensus size: 402
37772506 ATATAACTCA
* * * *
37772516 TAATATGCCAGAACAATGAAATGTATGGAGAAAAATCAATTGCTAAAGAGATAATATGCTAAAGA
1 TAATATGCCAGAACAATGAAATGTATAGAGAAAAATCAATAGCCAAAGAGATAATAAGCTAAAGA
*
37772581 ACACTAAAAGTAGAGACAAGAAGAGTGGATAGTAGGTTAAGATGCTACTATTTCGCGAGTGAAAC
66 ACACTAAAACTAGAGACAAGAAGAGTGGATAGTAGGTTAAGA-GCTACTATTTCGCGAGTGAAAC
* ** ** * *
37772646 GAGGGAAAATTTCTCTATAGAGCATCTGTTACTTCATCATAAAGGCTTTGACCCATATTGAAAAG
130 AAGAAAAAATTTCTCTATAGAGCATCAATTACTTCATCATAAAGGCTTTAACCCATATTAAAAAG
* * * *
37772711 ATTTGTTGTTTACGCTATCATTACAATATGTAACCCACTTAACAAAAGGAAGCTAACATTTACGT
195 ATTTCTTGTTTACGCTATCACTACAATATCTAACCCACTTAACAAAAGGAAGCTAACATTTACAT
* * * *
37772776 GAAAAAAATGACAACATGCAGAAGAACAACAAACAAAACAGCAAATGGAGCAGCAGAGAAAAATG
260 GAAAAAAATAACAACATACAGAAGAACAACAAACAAAACA-CAAA--GAGCACCACAGAAAAATG
* * *
37772841 GTCACCAAATTATTTCTTTCACGTTGTCAAAATATCACAAATTGAAGCTAGATGTACCAATGGCT
322 ATCACCAAATTATTTCTATCACGTTGTCAAAATATCACAAATTAAAGCTAGATGTACCAATGGCT
37772906 AAATGTAATTGGAACT
387 AAATGTAATTGGAACT
* * * *
37772922 TAATATGCCAGAACAATGAGATGTATAGAGCAAAATCAATAGCCAAAGAGATAATAAGCTGAAGG
1 TAATATGCCAGAACAATGAAATGTATAGAGAAAAATCAATAGCCAAAGAGATAATAAGCTAAAGA
* * * * *
37772987 ATACTAACACTAGAGACAATAAGATTGGCTATAACAACAGTAGGTTAAGA-CTACTATTTTC-TG
66 ACACTAAAACTAGAGACAAGAAGAGTGG--AT------AGTAGGTTAAGAGCTACTA-TTTCGCG
* *
37773050 AGTGAAACAAGAAAAAATTTCTCTTTAGAGCATCAATTGCTTCATCATAAAGGCTTTAACCCCAT
122 AGTGAAACAAGAAAAAATTTCTCTATAGAGCATCAATTACTTCATCATAAAGGCTTTAA-CCCAT
* * * *
37773115 ATTAAAAAGGTTTCTTGTTTACAGCT-TCCACTAGAATATCTAACCTATTTAACTAAAA-GAAGC
186 ATTAAAAAGATTTCTTGTTTAC-GCTAT-CACTACAATATCTAACCCACTTAAC-AAAAGGAAG-
* * *
37773178 CT-ATATTTACATG-AAAAAATAACAACATATAGAAGAACAATAAACAAAA-A-AAA-AGCACCA
247 CTAACATTTACATGAAAAAAATAACAACATACAGAAGAACAACAAACAAAACACAAAGAGCACCA
* * *
37773238 CAGAAAAATTATCACTC-ATTTATTTCTATCACGTTGTC-AAATATCACAAGTTAAAGCTAGATG
312 CAGAAAAATGATCAC-CAAATTATTTCTATCACGTTGTCAAAATATCACAAATTAAAGCTAGATG
37773301 TACCA
376 TACCA
37773306 GTTTCTAAAA
Statistics
Matches: 325, Mismatches: 44, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
406 108 0.33
407 37 0.11
408 3 0.01
410 3 0.01
412 59 0.18
413 61 0.19
414 48 0.15
415 6 0.02
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (402 bp):
TAATATGCCAGAACAATGAAATGTATAGAGAAAAATCAATAGCCAAAGAGATAATAAGCTAAAGA
ACACTAAAACTAGAGACAAGAAGAGTGGATAGTAGGTTAAGAGCTACTATTTCGCGAGTGAAACA
AGAAAAAATTTCTCTATAGAGCATCAATTACTTCATCATAAAGGCTTTAACCCATATTAAAAAGA
TTTCTTGTTTACGCTATCACTACAATATCTAACCCACTTAACAAAAGGAAGCTAACATTTACATG
AAAAAAATAACAACATACAGAAGAACAACAAACAAAACACAAAGAGCACCACAGAAAAATGATCA
CCAAATTATTTCTATCACGTTGTCAAAATATCACAAATTAAAGCTAGATGTACCAATGGCTAAAT
GTAATTGGAACT
Found at i:37776419 original size:22 final size:23
Alignment explanation
Indices: 37776386--37776437 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
37776376 AATATGCAAC
*
37776386 AAAATT-ACAAAAAG-AAAGATA
1 AAAATTAACAAAAAGTAAAGAGA
*
37776407 AAAATTAATAAAAAGTAAAGAGA
1 AAAATTAACAAAAAGTAAAGAGA
*
37776430 AAATTTAA
1 AAAATTAA
37776438 AAATTACCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 6 0.23
22 7 0.27
23 13 0.50
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (23 bp):
AAAATTAACAAAAAGTAAAGAGA
Found at i:37778850 original size:29 final size:29
Alignment explanation
Indices: 37778810--37779021 Score: 109
Period size: 29 Copynumber: 7.2 Consensus size: 29
37778800 ACCTGGGGGC
37778810 AAAATGGTAATTTTGGTGAAATCGAGGTTA
1 AAAATGG-AATTTTGGTGAAATCGAGGTTA
*
37778840 AAAATGGAATTTT-G-GAAAGTTCGAGGGT-
1 AAAATGGAATTTTGGTGAAA--TCGAGGTTA
** *
37778868 AAAATGGTTTTTTGGTGAAAT-TAGGGTTA
1 AAAATGGAATTTTGGTGAAATCGA-GGTTA
** *
37778897 AAAATGGAATTTT-G-GAAAGTTTAGGGGTA
1 AAAATGGAATTTTGGTGAAA-TCGA-GGTTA
* ** *
37778926 AATGTTATGGTTTTTTGGTGAAATCGGGGTTA
1 AA---AATGGAATTTTGGTGAAATCGAGGTTA
* * *
37778958 AAAATGGAATTTTGG-GAAGTTCGGGGGT-
1 AAAATGGAATTTTGGTGAA-ATCGAGGTTA
*
37778986 AAAATGGTAATTTTAGGTAAAATC-AGGGTTA
1 AAAATGG-AATTTT-GGTGAAATCGA-GGTTA
37779017 AAAAT
1 AAAAT
37779022 AAAATTGGGA
Statistics
Matches: 139, Mismatches: 24, Indels: 37
0.69 0.12 0.19
Matches are distributed among these distances:
27 9 0.06
28 28 0.20
29 57 0.41
30 18 0.13
31 7 0.05
32 14 0.10
33 2 0.01
34 4 0.03
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTGGTGAAATCGAGGTTA
Found at i:37779082 original size:29 final size:28
Alignment explanation
Indices: 37779050--37779141 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
37779040 GGTAAAAAAG
*
37779050 TAAAATAGTAGTTTAGGTGAAATCGGGGT
1 TAAAAT-GTAGTTTTGGTGAAATCGGGGT
* * * * *
37779079 TAAAATGGAATTTTGG-GAAGTTTGGGGA
1 TAAAATGTAGTTTTGGTGAA-ATCGGGGT
*
37779107 CAAAATGGTAAGTTTTGGTGAAATCGGGGT
1 TAAAAT-GT-AGTTTTGGTGAAATCGGGGT
37779137 TAAAA
1 TAAAA
37779142 ATGGAATTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 7
0.70 0.20 0.11
Matches are distributed among these distances:
27 3 0.07
28 17 0.37
29 7 0.15
30 16 0.35
31 3 0.07
ACGTcount: A:0.35, C:0.03, G:0.32, T:0.30
Consensus pattern (28 bp):
TAAAATGTAGTTTTGGTGAAATCGGGGT
Found at i:37779112 original size:122 final size:123
Alignment explanation
Indices: 37778810--37779286 Score: 382
Period size: 117 Copynumber: 4.0 Consensus size: 123
37778800 ACCTGGGGGC
* * * * * *
37778810 AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGG-TAAAATG
1 AAAATAGTAGTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGGGAAGTTCG-GGGACAAAATG
* * * ** *
37778874 GT--TTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT--AAATGT
65 GTAAGTTTTGGTAAAATCAGGGTTAAAAAT-GAAAATTGGAAAGTTT-GGGGTAAAAAAGT
* * * * **
37778931 --TATGGT-TTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGGAAGTTCGGGGGTAAAATGG
1 AAAATAGTAGTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGGGAAGTTCGGGGACAAAATGG
*
37778993 TAA-TTTTAGGTAAAATCAGGGTTAAAAAT-AAAATTGGGAAGTTTGAGGGTAAAAAAGT
66 TAAGTTTT-GGTAAAATCAGGGTTAAAAATGAAAATTGGAAAGTTTG-GGGTAAAAAAGT
*
37779051 AAAATAGTAGTTTAGGTGAAATCGGGGTT-AAAATGGAATTTTGGGAAGTTTGGGGACAAAATGG
1 AAAATAGTAGTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGGGAAGTTCGGGGACAAAATGG
* * ** **
37779115 TAAGTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGTAAAATGGT
66 TAAGTTTTGGTAAAATCAGGGTTAAAAAT-GAAAATTGGAAAGTTTGGGGTAAAAAAGT
* ** * * **
37779174 --AAT--T--TTT--G-GAAGCTTTGGGTTAAAAAAAGGAATTTTGGAAAGTTCGGGGGTAAAAT
1 AAAATAGTAGTTTAGGTGAA-ATCGGGGTT-AAAAATGGAATTTTGGGAAGTTCGGGGACAAAAT
* * * ** *
37779230 GGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGTAAAA
64 GGTAAGTTTTGGTAAAATCAGGGTTAAAAAT-GAAAATTGGAAAGTTTGGGGTAAAA
37779287 TGGTAATTTT
Statistics
Matches: 306, Mismatches: 34, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
114 3 0.01
115 7 0.02
117 90 0.29
118 66 0.22
119 10 0.03
120 24 0.08
121 3 0.01
122 58 0.19
123 32 0.10
124 13 0.04
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.32
Consensus pattern (123 bp):
AAAATAGTAGTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTGGGAAGTTCGGGGACAAAATGG
TAAGTTTTGGTAAAATCAGGGTTAAAAATGAAAATTGGAAAGTTTGGGGTAAAAAAGT
Found at i:37779152 original size:59 final size:57
Alignment explanation
Indices: 37778805--37779298 Score: 514
Period size: 57 Copynumber: 8.4 Consensus size: 57
37778795 TGGATACCTG
* * *
37778805 GGGGCAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTC
1 GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* **
37778862 GAGGGTAAAATGGT-TTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTT
1 G-GGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* * *
37778919 AGGGGTAAATGTTATGGT-TTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGGAAGTTCG
1 -GGGGTAAA----ATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT-T
* * ** *
37778981 GGGGTAAAATGGTAATTTTAGGTAAAATCAGGGTTAAAAAT--AAAATTGGGAAGTTT
1 GGGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
** *
37779037 GAGGGTAAAAAAGTAAAATAGTAGTTTAGGTGAAATCGGGGTT-AAAATGGAATTTTGGGAAGTT
1 G-GGGTAAAATGGT---A-A-T--TTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
37779101 T
57 T
*
37779102 GGGGACAAAATGGTAAGTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
1 GGGG-TAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
* * ** * *
37779161 GGGGTAAAATGGTAATTTTTG-GAAGCTTTGGGTTAAAAAAAGGAATTTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTGGTGAA-ATCGGGGTT-AAAAATGGAATTTTGGAAAGTT-T
37779220 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
1 GGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
*
37779278 AGGGTAAAATGGTAATTTTGG
1 GGGGTAAAATGGTAATTTTGG
37779299 AAGTTGGGGA
Statistics
Matches: 371, Mismatches: 40, Indels: 52
0.80 0.09 0.11
Matches are distributed among these distances:
56 4 0.01
57 90 0.24
58 76 0.20
59 83 0.22
60 12 0.03
61 59 0.16
62 2 0.01
63 5 0.01
64 20 0.05
65 20 0.05
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.32
Consensus pattern (57 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
Found at i:37780372 original size:27 final size:27
Alignment explanation
Indices: 37780308--37780378 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
37780298 AATAAAAATT
* *
37780308 ATTATTATTATTAATATTATAACCGTC
1 ATTAATATTATTAATATTATAACAGTC
*
37780335 ATTAATATTATTAATATTA-AACATTC
1 ATTAATATTATTAATATTATAACAGTC
*
37780361 TTTAATACTTATTAATAT
1 ATTAATA-TTATTAATAT
37780379 ATTTAAACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 11 0.28
27 28 0.72
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.49
Consensus pattern (27 bp):
ATTAATATTATTAATATTATAACAGTC
Found at i:37781056 original size:6 final size:6
Alignment explanation
Indices: 37781040--37781107 Score: 61
Period size: 6 Copynumber: 11.2 Consensus size: 6
37781030 TAAATTTGTT
**
37781040 TTTATAA TTTAAA TTT-AA GGTAAA TTTAAA TAATTAAA TTTAAA TTTAAGA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAA-A
37781091 --TAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA T
37781108 AAATTTCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
4 1 0.02
5 6 0.12
6 33 0.65
7 5 0.10
8 6 0.12
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (6 bp):
TTTAAA
Done.