Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 103 of 132
Found at i:31501322 original size:19 final size:19
Alignment explanation
Indices: 31501283--31501323 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
31501273 TGCGGTCCAA
*
31501283 TATTGCTCATACGAACTAG
1 TATTGCTCATACGAACCAG
* *
31501302 TATTGCTCTTACGAGCCAG
1 TATTGCTCATACGAACCAG
31501321 TAT
1 TAT
31501324 GCTATTCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (19 bp):
TATTGCTCATACGAACCAG
Found at i:31503747 original size:80 final size:79
Alignment explanation
Indices: 31503615--31503771 Score: 260
Period size: 80 Copynumber: 2.0 Consensus size: 79
31503605 TACACGCACT
* *
31503615 AATTTCATTTTAACTCTTGTAAGGAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAAT
1 AATTTCATTTTAACTCTTGTAAGGAAGCCAATGAGTCATGTCTCTTAATTAGGATCTGATGTAAC
31503680 TGAAAAGGCATGGC
66 TGAAAAGGCATGGC
* * *
31503694 AATTTCATTTTCAACTCTTGTAGGGAAGCTAATGAGTCATGTCTCTTAATTAGGATCTGATGTAG
1 AATTTCATTTT-AACTCTTGTAAGGAAGCCAATGAGTCATGTCTCTTAATTAGGATCTGATGTAA
31503759 CTGAAAAGGCATG
65 CTGAAAAGGCATG
31503772 ACATTTCTCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
79 11 0.15
80 61 0.85
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (79 bp):
AATTTCATTTTAACTCTTGTAAGGAAGCCAATGAGTCATGTCTCTTAATTAGGATCTGATGTAAC
TGAAAAGGCATGGC
Found at i:31504246 original size:48 final size:47
Alignment explanation
Indices: 31504194--31504338 Score: 168
Period size: 48 Copynumber: 3.0 Consensus size: 47
31504184 GCTGATGCGT
* *
31504194 TAATGCAAGGCATTTAACAGAGATGCATTTAACAAACAAAACATTTAA
1 TAATGC-AGGCATTTAACAAAGATGCATTTAACAAACAAAACACTTAA
*
31504242 TAATGCA-G-ATTACTAAACAAAGATGCATTTAACAAACGAAACACTTAA
1 TAATGCAGGCATT--T-AACAAAGATGCATTTAACAAACAAAACACTTAA
** * *
31504290 CGATGCAGATCATTAAACAAAGATGCATTTAACAAACAAAACACTTAA
1 TAATGCAG-GCATTTAACAAAGATGCATTTAACAAACAAAACACTTAA
31504338 T
1 T
31504339 GAAGCATAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
45 3 0.04
46 1 0.01
47 2 0.02
48 73 0.89
51 3 0.04
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (47 bp):
TAATGCAGGCATTTAACAAAGATGCATTTAACAAACAAAACACTTAA
Found at i:31504277 original size:15 final size:15
Alignment explanation
Indices: 31504257--31504325 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
31504247 CAGATTACTA
31504257 AACAAAGATGCATTT
1 AACAAAGATGCATTT
** *
31504272 AACAAACGAAACACTT
1 AACAAA-GATGCATTT
* *
31504288 AACGATGCAGAT-CATTA
1 AAC-A--AAGATGCATTT
31504305 AACAAAGATGCATTT
1 AACAAAGATGCATTT
31504320 AACAAA
1 AACAAA
31504326 CAAAACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
14 4 0.10
15 16 0.40
16 10 0.25
17 7 0.17
18 2 0.05
19 1 0.03
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (15 bp):
AACAAAGATGCATTT
Found at i:31523330 original size:49 final size:48
Alignment explanation
Indices: 31523230--31523534 Score: 173
Period size: 48 Copynumber: 6.4 Consensus size: 48
31523220 GGTTTGAAGG
* * * * * * *
31523230 GAAAGGTTGAAGCCGCAACGGTGAACCTTATAGCTTAGAGACATGATAGA
1 GAAAGATTGAAGCCGCAACGGTGAATCTTGTACCAT-G-GAGATGAGAGA
* *
31523280 -AAAGATTAAAGCCGTAACGGTGAATCTTGTACCATGGAGATGAGAGA
1 GAAAGATTGAAGCCGCAACGGTGAATCTTGTACCATGGAGATGAGAGA
* * * * * * *
31523327 GAAAGGTTGAAGCCGCAACGGCGAACCTTGTACCTTTGAGGCGTGATAG-
1 GAAAGATTGAAGCCGCAACGGTGAATCTTGTACCATGGA-G-ATGAGAGA
* * * ** *
31523376 GAAAGATTGAAGCCGCAACGATTAATCTTGTACCATGAAGATGCCAGG
1 GAAAGATTGAAGCCGCAACGGTGAATCTTGTACCATGGAGATGAGAGA
* * * * *
31523424 GAAAGGTTGAAGCTGCAACGGCGAA-CCT-TA-GA--GACG-TGATG-G-
1 GAAAGATTGAAGCCGCAACGGTGAATCTTGTACCATGGA-GATGA-GAGA
* * * *
31523466 GAAAGATTGAAGCCGCAA-TGTCGAATCTTGTACCATGAAGATGCGAGG
1 GAAAGATTGAAGCCGCAACGGT-GAATCTTGTACCATGGAGATGAGAGA
* *
31523514 GAAAGGTTGAAGCCACAACGG
1 GAAAGATTGAAGCCGCAACGG
31523535 CGATGTAACA
Statistics
Matches: 189, Mismatches: 50, Indels: 33
0.69 0.18 0.12
Matches are distributed among these distances:
41 1 0.01
42 19 0.10
43 6 0.03
44 3 0.02
45 2 0.01
46 4 0.02
47 19 0.10
48 69 0.37
49 61 0.32
50 5 0.03
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (48 bp):
GAAAGATTGAAGCCGCAACGGTGAATCTTGTACCATGGAGATGAGAGA
Found at i:31523403 original size:97 final size:93
Alignment explanation
Indices: 31523227--31523537 Score: 378
Period size: 97 Copynumber: 3.3 Consensus size: 93
31523217 ATAGGTTTGA
* * * *
31523227 AGGGAAAGGTTGAAGCCGCAACGGTGAACCTTATAGCTTAGAGACATGATAGAAAAGATTAAAGC
1 AGGGAAAGGTTGAAGCCGCAACGGCGAACCTT-TA-CTT-GAGACGTGATAGGAAAGATTGAAGC
* * *
31523292 CGTAACGGTGAATCTTGTACCATGGAGATGAG
63 CGCAAC-GTGAATCTTGTACCATGAAGATGCG
* *
31523324 AGAGAAAGGTTGAAGCCGCAACGGCGAACCTTGTACCTTTGAGGCGTGATAGGAAAGATTGAAGC
1 AGGGAAAGGTTGAAGCCGCAACGGCGAACCTT-TA-C-TTGAGACGTGATAGGAAAGATTGAAGC
* *
31523389 CGCAACGATTAATCTTGTACCATGAAGATGCC
63 CGCAACG-TGAATCTTGTACCATGAAGATGCG
* *
31523421 AGGGAAAGGTTGAAGCTGCAACGGCGAACC-TTA---GAGACGTGATGGGAAAGATTGAAGCCGC
1 AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTTACTTGAGACGTGATAGGAAAGATTGAAGCCGC
*
31523482 AATGTCGAATCTTGTACCATGAAGATGCG
66 AACGT-GAATCTTGTACCATGAAGATGCG
*
31523511 AGGGAAAGGTTGAAGCCACAACGGCGA
1 AGGGAAAGGTTGAAGCCGCAACGGCGA
31523538 TGTAACACCC
Statistics
Matches: 189, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
89 1 0.01
90 75 0.40
95 2 0.01
96 2 0.01
97 107 0.57
98 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (93 bp):
AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTTACTTGAGACGTGATAGGAAAGATTGAAGCCGC
AACGTGAATCTTGTACCATGAAGATGCG
Found at i:31523515 original size:90 final size:90
Alignment explanation
Indices: 31523358--31523537 Score: 272
Period size: 90 Copynumber: 2.0 Consensus size: 90
31523348 CGAACCTTGT
* * *
31523358 ACCTTTGAGGCGTGATAGGAAAGATTGAAGCCGCAACGATTAATCTTGTACCATGAAGATGCCAG
1 ACCTTAGAGACGTGATAGGAAAGATTGAAGCCGCAACGATGAATCTTGTACCATGAAGATGCCAG
**
31523423 GGAAAGGTTGAAGCTGCAACGGCGA
66 GGAAAGGTTGAAGCCACAACGGCGA
* * *
31523448 ACCTTAGAGACGTGATGGGAAAGATTGAAGCCGCAATG-TCGAATCTTGTACCATGAAGATGCGA
1 ACCTTAGAGACGTGATAGGAAAGATTGAAGCCGCAACGAT-GAATCTTGTACCATGAAGATGCCA
31523512 GGGAAAGGTTGAAGCCACAACGGCGA
65 GGGAAAGGTTGAAGCCACAACGGCGA
31523538 TGTAACACCC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
89 1 0.01
90 80 0.99
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.19
Consensus pattern (90 bp):
ACCTTAGAGACGTGATAGGAAAGATTGAAGCCGCAACGATGAATCTTGTACCATGAAGATGCCAG
GGAAAGGTTGAAGCCACAACGGCGA
Found at i:31524157 original size:23 final size:23
Alignment explanation
Indices: 31524120--31524233 Score: 79
Period size: 23 Copynumber: 5.0 Consensus size: 23
31524110 AGTGCTGGGG
*
31524120 AAAT-AGTAAGCACACACAGTGC
1 AAATCAGTAAGAACACACAGTGC
* *
31524142 AAATCAGTAGGAACACACAGTAC
1 AAATCAGTAAGAACACACAGTGC
* * ** *
31524165 AAAACAGTAAGCACGTACAGAGC
1 AAATCAGTAAGAACACACAGTGC
* * * *
31524188 AAATCAGTAAGCACATATAGT-A
1 AAATCAGTAAGAACACACAGTGC
* *
31524210 AGAATCAGTAAGCACACGCAGTGC
1 A-AATCAGTAAGAACACACAGTGC
31524234 TGAACAGTAA
Statistics
Matches: 70, Mismatches: 19, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
22 5 0.07
23 65 0.93
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.14
Consensus pattern (23 bp):
AAATCAGTAAGAACACACAGTGC
Found at i:31524176 original size:46 final size:46
Alignment explanation
Indices: 31524119--31524233 Score: 124
Period size: 46 Copynumber: 2.5 Consensus size: 46
31524109 AAGTGCTGGG
* *
31524119 GAAATAGTAAGCACACACAGTGCAAATCAGTAGGAACACACAGTACA
1 GAAACAGTAAGCACACACAGTGCAAATCAGTAAGAACACACAGTA-A
** * * * *
31524166 -AAACAGTAAGCACGTACAGAGCAAATCAGTAAGCACATATAGTAA
1 GAAACAGTAAGCACACACAGTGCAAATCAGTAAGAACACACAGTAA
* *
31524211 GAATCAGTAAGCACACGCAGTGC
1 GAAACAGTAAGCACACACAGTGC
31524234 TGAACAGTAA
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
45 1 0.02
46 53 0.98
ACGTcount: A:0.45, C:0.21, G:0.20, T:0.14
Consensus pattern (46 bp):
GAAACAGTAAGCACACACAGTGCAAATCAGTAAGAACACACAGTAA
Found at i:31525099 original size:13 final size:13
Alignment explanation
Indices: 31525080--31525113 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
31525070 AAGTGTGGTG
31525080 GAAAAGTTCTTTT
1 GAAAAGTTCTTTT
*
31525093 GAGAAGTTCTTTT
1 GAAAAGTTCTTTT
31525106 GAAAAGTT
1 GAAAAGTT
31525114 TGGTTAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (13 bp):
GAAAAGTTCTTTT
Found at i:31527216 original size:72 final size:72
Alignment explanation
Indices: 31527119--31527439 Score: 534
Period size: 72 Copynumber: 4.5 Consensus size: 72
31527109 TTTTATATCT
* * *
31527119 AAAATCAAATATAAACAACTATTGATAAAACTAAAATACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
31527184 ATATCCA
66 ATATCCA
* * *
31527191 AAAACCAAACATAAACAACTATTGATAAAACTAGATTGCACATAAATAAGTAGAACATAAATTTA
1 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
31527256 ATATCCA
66 ATATCCA
* * * *
31527263 AGAACCAAACATAAACAACTATTGATAAAATTAGATTACACATAAATAAGTATAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
31527328 ATATCCA
66 ATATCCA
*
31527335 AGAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
31527400 ATATCCA
66 ATATCCA
*
31527407 AAAACCAAACATAAACGACTATTGATAAAACTA
1 AAAACCAAACATAAACAACTATTGATAAAACTA
31527440 GTTTAGCATT
Statistics
Matches: 233, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 233 1.00
ACGTcount: A:0.56, C:0.16, G:0.06, T:0.23
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCA
ATATCCA
Found at i:31527900 original size:18 final size:18
Alignment explanation
Indices: 31527871--31527922 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
31527861 CGTTTCCATC
* *
31527871 AATGTTAACATCATTTGA
1 AATGTCAACATCATTTAA
*
31527889 AGTGTCAACATCATTTAA
1 AATGTCAACATCATTTAA
*
31527907 AATGTTAACATCATTT
1 AATGTCAACATCATTT
31527923 CTTGCATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (18 bp):
AATGTCAACATCATTTAA
Found at i:31532403 original size:49 final size:47
Alignment explanation
Indices: 31532294--31532442 Score: 138
Period size: 49 Copynumber: 3.0 Consensus size: 47
31532284 GAATGTTACA
* * *
31532294 GGCGAACCTTATACCTTAGAGATGTAATGGGAAAGATTGAAGCCGCAAC
1 GGCGAACCTTGTACCTTAGATATG-GA-GGGAAAGATTGAAGCCGCAAC
* * * *
31532343 GGTGGATCTTGTACCATGTAGATATGGAGGGAAATG-TTGAAGCCGCAAT
1 GGCGAACCTTGTACC-T-TAGATATGGAGGGAAA-GATTGAAGCCGCAAC
* * *
31532392 GGCGAACCTTGTACCTTAGATATATGAAGGGAAAGATTGAAGTCACAAC
1 GGCGAACCTTGTACCTTAG--ATATGGAGGGAAAGATTGAAGCCGCAAC
31532441 GG
1 GG
31532443 TAAATCTTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
47 3 0.04
48 2 0.03
49 65 0.81
50 3 0.04
51 7 0.09
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (47 bp):
GGCGAACCTTGTACCTTAGATATGGAGGGAAAGATTGAAGCCGCAAC
Found at i:31535651 original size:38 final size:38
Alignment explanation
Indices: 31535609--31535687 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
31535599 CTTCTCTGTA
31535609 AAAAGAAAACTCAAAACTTTGTATTACTTTGAAAAACC
1 AAAAGAAAACTCAAAACTTTGTATTACTTTGAAAAACC
31535647 AAAAGAAAACTCAAAACTTTGTATTACTTTGAAAAACC
1 AAAAGAAAACTCAAAACTTTGTATTACTTTGAAAAACC
31535685 AAA
1 AAA
31535688 GTAACAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (38 bp):
AAAAGAAAACTCAAAACTTTGTATTACTTTGAAAAACC
Found at i:31539765 original size:27 final size:24
Alignment explanation
Indices: 31539734--31539784 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 24
31539724 TTTATATGTA
31539734 TAACAAATACAATTATATAAATATATT
1 TAACAAATA-AATTAT-TAAA-ATATT
*
31539761 TAACAATTAAATTATTAAAATATT
1 TAACAAATAAATTATTAAAATATT
31539785 AATCATACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 4 0.17
26 6 0.26
27 8 0.35
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (24 bp):
TAACAAATAAATTATTAAAATATT
Found at i:31547945 original size:20 final size:21
Alignment explanation
Indices: 31547914--31547964 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
31547904 ATAATTATGT
31547914 TTATTTTCTTTAAATTA-AT-AA
1 TTATTTT-TTT-AATTACATGAA
31547935 TTATTTTTTTAATTACATGAA
1 TTATTTTTTTAATTACATGAA
31547956 TTATTTTTT
1 TTATTTTTT
31547965 ATATGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.18
20 5 0.18
21 18 0.64
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTTTTTAATTACATGAA
Found at i:31550445 original size:30 final size:30
Alignment explanation
Indices: 31550409--31550692 Score: 182
Period size: 30 Copynumber: 9.7 Consensus size: 30
31550399 AAAATTCAAA
31550409 TAAAATTACATTTTTACCCCTAAACTTTTC
1 TAAAATTACATTTTTACCCCTAAACTTTTC
* * * *
31550439 TAAAATTATATTTTAACCCCAAAAC-TCTC
1 TAAAATTACATTTTTACCCCTAAACTTTTC
*
31550468 TAAAAATTACATTTTTACCTCTAAACTTTTC
1 T-AAAATTACATTTTTACCCCTAAACTTTTC
* *
31550499 TAAAATTATA-TTTTAACCCTAAAAC-TTTC
1 TAAAATTACATTTTTACCCCT-AAACTTTTC
*
31550528 TAAAATTACATTTTTACCCCT-AAGTTTTC
1 TAAAATTACATTTTTACCCCTAAACTTTTC
* * * * *
31550557 CATAATTCCATTTTAACCCC--AA-TTTCACC
1 TAAAATTACATTTTTACCCCTAAACTTT--TC
* * * *
31550586 AAAAATTACCATTTTAACCTC-GAAC-TTTC
1 TAAAATTA-CATTTTTACCCCTAAACTTTTC
* * * *
31550615 CAAAATTCCATTTTAACCCC--GA-TTTTAC
1 TAAAATTACATTTTTACCCCTAAACTTTT-C
* *
31550643 TAAAATTTACCA-TTTTACCCTTGAAC-TTTC
1 TAAAA-TTA-CATTTTTACCCCTAAACTTTTC
*
31550673 TAAAATTACAATTTTACCCC
1 TAAAATTACATTTTTACCCC
31550693 CGAGCTTTCC
Statistics
Matches: 201, Mismatches: 35, Indels: 37
0.74 0.13 0.14
Matches are distributed among these distances:
27 7 0.03
28 22 0.11
29 78 0.39
30 82 0.41
31 12 0.06
ACGTcount: A:0.35, C:0.24, G:0.01, T:0.39
Consensus pattern (30 bp):
TAAAATTACATTTTTACCCCTAAACTTTTC
Found at i:31550492 original size:60 final size:60
Alignment explanation
Indices: 31550410--31550634 Score: 244
Period size: 60 Copynumber: 3.8 Consensus size: 60
31550400 AAATTCAAAT
* *
31550410 AAAATTACATTTTTACCCCTAAACTTTTCTAAAATTATATTTTAACCCCAAAACTCTCTA
1 AAAATTACATTTTTACCCCTAAACTTTTCCAAAATTACATTTTAACCCCAAAACTCTCTA
* * * * *
31550470 AAAATTACATTTTTACCTCTAAACTTTTCTAAAATTATATTTTAACCCTAAAACTTTCT-
1 AAAATTACATTTTTACCCCTAAACTTTTCCAAAATTACATTTTAACCCCAAAACTCTCTA
* * * ** * *
31550529 AAAATTACATTTTTACCCCT-AAGTTTTCCATAATTCCATTTTAACCCC-AATTTCACCA
1 AAAATTACATTTTTACCCCTAAACTTTTCCAAAATTACATTTTAACCCCAAAACTCTCTA
* * * *
31550587 AAAATTACCATTTTAACCTC-GAAC-TTTCCAAAATTCCATTTTAACCCC
1 AAAATTA-CATTTTTACCCCTAAACTTTTCCAAAATTACATTTTAACCCC
31550635 GATTTTACTA
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
57 4 0.03
58 52 0.36
59 31 0.22
60 56 0.39
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (60 bp):
AAAATTACATTTTTACCCCTAAACTTTTCCAAAATTACATTTTAACCCCAAAACTCTCTA
Found at i:31550686 original size:29 final size:29
Alignment explanation
Indices: 31550409--31550795 Score: 207
Period size: 29 Copynumber: 13.2 Consensus size: 29
31550399 AAAATTCAAA
*
31550409 TAAAATTA-CATTTTTACCCCTAAACTTTTC
1 TAAAATTACCA-TTTTACCCCTGAAC-TTTC
* ** *
31550439 TAAAATTA-TATTTTAACCCCAAAACTCTC
1 TAAAATTACCATTTT-ACCCCTGAACTTTC
* *
31550468 TAAAAATTA-CATTTTTACCTCTAAACTTTTC
1 T-AAAATTACCA-TTTTACCCCTGAAC-TTTC
* * *
31550499 TAAAATTA-TATTTTAACCCTAAAACTTTC
1 TAAAATTACCATTTTACCCCT-GAACTTTC
*
31550528 TAAAATTA-CATTTTTACCCCT-AAGTTTTC
1 TAAAATTACCA-TTTTACCCCTGAA-CTTTC
* *
31550557 CATAATT-CCATTTTAACCCC--AA-TTTCACC
1 TAAAATTACCATTTT-ACCCCTGAACTTT---C
* *
31550586 AAAAATTACCATTTTA-ACCTCGAACTTTC
1 TAAAATTACCATTTTACCCCT-GAACTTTC
* *
31550615 CAAAATT-CCATTTTAACCCC-G-ATTTTAC
1 TAAAATTACCATTTT-ACCCCTGAACTTT-C
*
31550643 TAAAATTTACCATTTTACCCTTGAACTTTC
1 TAAAA-TTACCATTTTACCCCTGAACTTTC
* * *
31550673 TAAAATTACAATTTTACCCCCGAGCTTTC
1 TAAAATTACCATTTTACCCCTGAACTTTC
* * *
31550702 CAAAATT-CCATTTTTGA-CCTTG-ATTTTAC
1 TAAAATTACCA-TTTT-ACCCCTGAACTTT-C
*
31550731 TAAAATTTACCATTTTACCCAC-AAACTTTC
1 TAAAA-TTACCATTTTACCC-CTGAACTTTC
* *
31550761 CAAAATTACCATTTTACCCCTGAGCTTTC
1 TAAAATTACCATTTTACCCCTGAACTTTC
31550790 TAAAAT
1 TAAAAT
31550796 CCCGTTTTTA
Statistics
Matches: 282, Mismatches: 42, Indels: 67
0.72 0.11 0.17
Matches are distributed among these distances:
26 3 0.01
27 4 0.01
28 29 0.10
29 130 0.46
30 92 0.33
31 21 0.07
32 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (29 bp):
TAAAATTACCATTTTACCCCTGAACTTTC
Found at i:31550723 original size:58 final size:56
Alignment explanation
Indices: 31550587--31550795 Score: 199
Period size: 59 Copynumber: 3.6 Consensus size: 56
31550577 AATTTCACCA
* * * * *
31550587 AAAATTACCATTTTAACCTCGAACTTTCCAAAATT-CCATTTTAACCCCGATTTTACT
1 AAAATTACCATTTT-ACCTTGAACTTTCTAAAATTACCATTTTACCCCCGACTTT-CC
*
31550644 AAAATTTACCATTTTACCCTTGAACTTTCTAAAATTACAATTTTACCCCCGAGCTTTCC
1 AAAA-TTACCATTTTA-CCTTGAACTTTCTAAAATTACCATTTTACCCCCGA-CTTTCC
* **
31550703 AAAATT-CCATTTTTGACCTTG-ATTTTACTAAAATTTACCATTTTACCCACAAACTTTCC
1 AAAATTACCA-TTTT-ACCTTGAACTTT-CTAAAA-TTACCATTTTACCC-CCGACTTTCC
* *
31550762 AAAATTACCATTTTACCCCTGAGCTTTCTAAAAT
1 AAAATTACCATTTTA-CCTTGAACTTTCTAAAAT
31550796 CCCGTTTTTA
Statistics
Matches: 127, Mismatches: 13, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
57 12 0.09
58 46 0.36
59 58 0.46
60 11 0.09
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (56 bp):
AAAATTACCATTTTACCTTGAACTTTCTAAAATTACCATTTTACCCCCGACTTTCC
Found at i:31550758 original size:88 final size:88
Alignment explanation
Indices: 31550587--31550837 Score: 310
Period size: 88 Copynumber: 2.9 Consensus size: 88
31550577 AATTTCACCA
* * *
31550587 AAAATTACCATTTTAACCTCGAACTTTCCAAAATTCCA-TTTTAACCCCGATTTTACTAAAATTT
1 AAAATTACCATTTTACCCCCGAGCTTTCCAAAATTCCATTTTTAACCCCGATTTTACTAAAATTT
*** *
31550651 ACCATTTTACCCTTGAACTTTCT
66 ACCATTTTACCCACAAACTTTCC
* * **
31550674 AAAATTACAATTTTACCCCCGAGCTTTCCAAAATTCCATTTTTGACCTTGATTTTACTAAAATTT
1 AAAATTACCATTTTACCCCCGAGCTTTCCAAAATTCCATTTTTAACCCCGATTTTACTAAAATTT
31550739 ACCATTTTACCCACAAACTTTCC
66 ACCATTTTACCCACAAACTTTCC
* * * * * * *
31550762 AAAATTACCATTTTACCCCTGAGCTTTCTAAAATCCCGTTTTTAA-CCCAATTTCAACCAAAA-T
1 AAAATTACCATTTTACCCCCGAGCTTTCCAAAATTCCATTTTTAACCCCGATTT-TACTAAAATT
31550825 TACCATTTTACCC
65 TACCATTTTACCC
31550838 CTGGGTATCC
Statistics
Matches: 140, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
87 53 0.38
88 87 0.62
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (88 bp):
AAAATTACCATTTTACCCCCGAGCTTTCCAAAATTCCATTTTTAACCCCGATTTTACTAAAATTT
ACCATTTTACCCACAAACTTTCC
Found at i:31556676 original size:97 final size:96
Alignment explanation
Indices: 31556475--31556807 Score: 341
Period size: 97 Copynumber: 3.4 Consensus size: 96
31556465 TCATTACCAT
* * *
31556475 GAAGGGAAAGATTTAAGCCGTAACGACGAATCCAGTACCACGAAAATA-TAAAGGGAAAGGTTTA
1 GAAGGGAAAGATTTAAGCCGCAACGGCAAATCCAGTACCACG---ATAGTAAAGGGAAAGGTTTA
* * ** *
31556539 AGTCGCAATGGCGAACATTATACCTCAGGGGACAT
63 AGTCGCAACGGCGAAC-CTATACCTCAGAAGACAC
* * *
31556574 GAAGGGAAGGATTTAAGCCGCAACGGCAAATCCAGTACCATGATAGTAAAGGAAAAGGTTTAAGT
1 GAAGGGAAAGATTTAAGCCGCAACGGCAAATCCAGTACCACGATAGTAAAGGGAAAGGTTTAAGT
* * *
31556639 CGCAACGGCGAACCTCACACTTCAGAAGATAC
66 CGCAACGGCGAACCT-ATACCTCAGAAGACAC
* * ** *
31556671 AAAGGGAAAGATTTAAGTCGCAACGGTGAATCCAGTACCACGA-AGATACAAAGGGAATGGTTTA
1 GAAGGGAAAGATTTAAGCCGCAACGGCAAATCCAGTACCACGATAG-T--AAAGGGAAAGGTTTA
**
31556735 AGTTACAACGGCGAACCTAGTACCTC-GAA-AGCAC
63 AGTCGCAACGGCGAACCTA-TACCTCAGAAGA-CAC
* *
31556769 GAAGGGAAAGATTTAAGCCGCAACGGTAAATCTAGTACC
1 GAAGGGAAAGATTTAAGCCGCAACGGCAAATCCAGTACC
31556808 GTAAAGACAT
Statistics
Matches: 196, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
96 6 0.03
97 79 0.40
98 41 0.21
99 70 0.36
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (96 bp):
GAAGGGAAAGATTTAAGCCGCAACGGCAAATCCAGTACCACGATAGTAAAGGGAAAGGTTTAAGT
CGCAACGGCGAACCTATACCTCAGAAGACAC
Found at i:31556726 original size:49 final size:49
Alignment explanation
Indices: 31556476--31556794 Score: 217
Period size: 49 Copynumber: 6.5 Consensus size: 49
31556466 CATTACCATG
* * * * *
31556476 AAGGGAAAGATTTAAGCCGTAACGACGAATCCAGTACCACGAAAATATA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGATACA
* * * * * **
31556525 AAGGGAAAGGTTTAAGTCGCAATGGCGAA--CATTATACCTC-AGGGGACA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAATCCA--GTACCACGAAGATACA
* * * *
31556573 TGAAGGGAAGGATTTAAGCCGCAACGGCAAATCCAGTACCATGATAG-T--A
1 --AAGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGA-AGATACA
* * * *
31556622 AAGGAAAAGGTTTAAGTCGCAACGGCGAACCTCACACT-TCA-GAAGATACA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAA--TC-CAGTACCACGAAGATACA
*
31556672 AAGGGAAAGATTTAAGTCGCAACGGTGAATCCAGTACCACGAAGATACA
1 AAGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGATACA
* * ** * * *
31556721 AAGGGAATGGTTTAAGTTACAACGGCGAA-CCTAGTACCTCGAA-AGCACG
1 AAGGGAAAGATTTAAGTCGCAACGGCGAATCC-AGTACCACGAAGA-TACA
*
31556770 AAGGGAAAGATTTAAGCCGCAACGG
1 AAGGGAAAGATTTAAGTCGCAACGG
31556795 TAAATCTAGT
Statistics
Matches: 205, Mismatches: 47, Indels: 36
0.71 0.16 0.12
Matches are distributed among these distances:
47 31 0.15
48 13 0.06
49 99 0.48
50 58 0.28
51 1 0.00
52 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (49 bp):
AAGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGATACA
Found at i:31557477 original size:13 final size:13
Alignment explanation
Indices: 31557459--31557508 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
31557449 AAGCCATGAT
31557459 TGCCACGTCAGCA
1 TGCCACGTCAGCA
*
31557472 TGCCACGTCACCA
1 TGCCACGTCAGCA
*
31557485 TTACCACGTCAGC-
1 -TGCCACGTCAGCA
31557498 -GCCACGTCAGC
1 TGCCACGTCAGC
31557509 CATGTGACTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 10 0.31
13 12 0.38
14 10 0.31
ACGTcount: A:0.22, C:0.42, G:0.20, T:0.16
Consensus pattern (13 bp):
TGCCACGTCAGCA
Found at i:31557491 original size:27 final size:26
Alignment explanation
Indices: 31557461--31557511 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
31557451 GCCATGATTG
31557461 CCACGTCAGCATGCCACGTCA-CCATTA
1 CCACGTCAGC--GCCACGTCAGCCATTA
31557488 CCACGTCAGCGCCACGTCAGCCAT
1 CCACGTCAGCGCCACGTCAGCCAT
31557512 GTGACTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 4 0.17
27 10 0.43
ACGTcount: A:0.24, C:0.43, G:0.18, T:0.16
Consensus pattern (26 bp):
CCACGTCAGCGCCACGTCAGCCATTA
Found at i:31559096 original size:21 final size:20
Alignment explanation
Indices: 31559072--31559110 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31559062 TTTTTTAGAA
31559072 TAAAACTTTGAATTTCACCTT
1 TAAAACTTT-AATTTCACCTT
* *
31559093 TAAATCTTTATTTTCACC
1 TAAAACTTTAATTTCACC
31559111 GTAAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.46
Consensus pattern (20 bp):
TAAAACTTTAATTTCACCTT
Found at i:31564249 original size:58 final size:59
Alignment explanation
Indices: 31564157--31564408 Score: 337
Period size: 59 Copynumber: 4.3 Consensus size: 59
31564147 ACCCGAGGGC
* * *
31564157 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAATTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATTTGGGGGT
* * *
31564216 AAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATAGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATTTGGGGGT
* * * *
31564274 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAGATGAAATTTTGGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATTTGGGGGT
* ** *
31564333 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAGATGGAATTTTCTAAAATTTTGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATTTGGGGGT
* *
31564392 CAATAT-GCAATTTTTGG
1 -AAAATGGTAATTTTTGG
31564409 ACTGTTTGGG
Statistics
Matches: 172, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
58 52 0.30
59 116 0.67
60 4 0.02
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATTTGGGGGT
Found at i:31564332 original size:117 final size:118
Alignment explanation
Indices: 31564157--31564376 Score: 343
Period size: 117 Copynumber: 1.9 Consensus size: 118
31564147 ACCCGAGGGC
* *
31564157 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAATTTAGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGAAATTTTAGAAAATTCAGGGGTAAAATG
31564222 GTAA-TTTTGGTGAAATCGAGGTTAAAAATAGAATTTTGGAAAGTTTGGGGGT
66 GTAATTTTTGGTGAAATCGAGGTTAAAAATAGAATTTTGGAAAGTTTGGGGGT
* * * * *
31564274 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAGATGAAATTTTGGAAAGTTCGGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGAAATTTTAGAAAATTCAGGGGTAAAATG
* * *
31564339 GTAATTTTTGGTGAAATCGGGGTTAAAGATGGAATTTT
66 GTAATTTTTGGTGAAATCGAGGTTAAAAATAGAATTTT
31564377 CTAAAATTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
117 62 0.67
118 30 0.33
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (118 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGAAATTTTAGAAAATTCAGGGGTAAAATG
GTAATTTTTGGTGAAATCGAGGTTAAAAATAGAATTTTGGAAAGTTTGGGGGT
Found at i:31566336 original size:17 final size:17
Alignment explanation
Indices: 31566306--31566363 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
31566296 AATTTATTCC
31566306 AAATTT-AC-CAAATTT
1 AAATTTAACACAAATTT
31566321 AAATTTAACACAAATTT
1 AAATTTAACACAAATTT
*
31566338 AAATTTAA-AAATTAATTT
1 AAATTTAACACA--AATTT
31566356 AAATTTAA
1 AAATTTAA
31566364 ATTTTAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
15 6 0.16
16 4 0.11
17 15 0.39
18 13 0.34
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTAACACAAATTT
Found at i:31566359 original size:24 final size:24
Alignment explanation
Indices: 31566332--31566385 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
31566322 AATTTAACAC
* *
31566332 AAATTTAAATTTAAAAATTAATTT
1 AAATTTAAATTTAAAAATAAATCT
*
31566356 AAATTTAAATTTTAAAATAAATCT
1 AAATTTAAATTTAAAAATAAATCT
31566380 AAATTT
1 AAATTT
31566386 GTAAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AAATTTAAATTTAAAAATAAATCT
Found at i:31566369 original size:7 final size:6
Alignment explanation
Indices: 31566315--31566385 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
31566305 CAAATTTACC
* *
31566315 AAATTT AAATTT AACA--C AAATTT AAATTT AAAAATT -AATTT AAATTT
1 AAATTT AAATTT AA-ATTT AAATTT AAATTT -AAATTT AAATTT AAATTT
* *
31566362 AAATTTT AAA-AT AAATCT AAATTT
1 AAA-TTT AAATTT AAATTT AAATTT
31566386 GTAAATAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
4 1 0.02
5 10 0.20
6 28 0.55
7 12 0.24
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (6 bp):
AAATTT
Found at i:31566370 original size:18 final size:18
Alignment explanation
Indices: 31566333--31566385 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
31566323 ATTTAACACA
**
31566333 AATTTAAATTTAAAAATT
1 AATTTAAATTTAAATTTT
31566351 AATTTAAATTTAAATTTT
1 AATTTAAATTTAAATTTT
** *
31566369 AAAATAAATCTAAATTT
1 AATTTAAATTTAAATTT
31566386 GTAAATAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTTAAATTTAAATTTT
Found at i:31566391 original size:18 final size:18
Alignment explanation
Indices: 31566355--31566395 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
31566345 AAAATTAATT
*
31566355 TAAATTTAAATTTTAAAA
1 TAAATCTAAATTTTAAAA
31566373 TAAATCTAAATTTGT-AAA
1 TAAATCTAAATTT-TAAAA
31566391 TAAAT
1 TAAAT
31566396 TTGGAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
TAAATCTAAATTTTAAAA
Found at i:31569325 original size:99 final size:99
Alignment explanation
Indices: 31569215--31569405 Score: 382
Period size: 99 Copynumber: 1.9 Consensus size: 99
31569205 CTATAATTTT
31569215 ACGCTGATATAAATAGATTCCTTCTTTTTTATTATTTTGTTTACATAAAGTGTAATATTTTTATG
1 ACGCTGATATAAATAGATTCCTTCTTTTTTATTATTTTGTTTACATAAAGTGTAATATTTTTATG
31569280 CATCAAAATTATTTATATATATATATATATATAC
66 CATCAAAATTATTTATATATATATATATATATAC
31569314 ACGCTGATATAAATAGATTCCTTCTTTTTTATTATTTTGTTTACATAAAGTGTAATATTTTTATG
1 ACGCTGATATAAATAGATTCCTTCTTTTTTATTATTTTGTTTACATAAAGTGTAATATTTTTATG
31569379 CATCAAAATTATTTATATATATATATA
66 CATCAAAATTATTTATATATATATATA
31569406 AGAACCCATT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (99 bp):
ACGCTGATATAAATAGATTCCTTCTTTTTTATTATTTTGTTTACATAAAGTGTAATATTTTTATG
CATCAAAATTATTTATATATATATATATATATAC
Found at i:31569635 original size:2 final size:2
Alignment explanation
Indices: 31569628--31569666 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
31569618 GATATAAAAT
31569628 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
31569667 TTGATGGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31571993 original size:58 final size:58
Alignment explanation
Indices: 31571907--31572026 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 58
31571897 AAAAGGAGTT
* * *
31571907 GTTTATTAGTGTTATTTAGGAATAAAATTATATTT-GAGTTAAAAAATATTTGGGTTTA
1 GTTTATGAGTATTATTTAAGAATAAAATTATATTTGGA-TTAAAAAATATTTGGGTTTA
* * * *
31571965 GTTTATGAGTATTTTTTAAGAATGAAATTCTATTTGGATTTAAAAATATTTGGGTTTA
1 GTTTATGAGTATTATTTAAGAATAAAATTATATTTGGATTAAAAAATATTTGGGTTTA
31572023 GTTT
1 GTTT
31572027 GTTGATGGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 52 0.96
59 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.48
Consensus pattern (58 bp):
GTTTATGAGTATTATTTAAGAATAAAATTATATTTGGATTAAAAAATATTTGGGTTTA
Found at i:31572486 original size:11 final size:11
Alignment explanation
Indices: 31572442--31572467 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
31572432 TAATTTGAAG
31572442 TTTTTATAAAT
1 TTTTTATAAAT
31572453 TTTTTATAAAT
1 TTTTTATAAAT
31572464 TTTT
1 TTTT
31572468 ATTATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTATAAAT
Found at i:31581103 original size:12 final size:12
Alignment explanation
Indices: 31581086--31581112 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31581076 AATCAAAATT
31581086 TAATTGAACAAA
1 TAATTGAACAAA
31581098 TAATTGAACAAA
1 TAATTGAACAAA
31581110 TAA
1 TAA
31581113 ATAGAGTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (12 bp):
TAATTGAACAAA
Found at i:31584104 original size:2 final size:2
Alignment explanation
Indices: 31584097--31584144 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
31584087 CGATCAAAAC
31584097 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
31584139 AT AT AT
1 AT AT AT
31584145 CAATAATAAA
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:31585106 original size:30 final size:29
Alignment explanation
Indices: 31585049--31585259 Score: 190
Period size: 30 Copynumber: 7.1 Consensus size: 29
31585039 CCCTCGAATT
* * *
31585049 TTTCAAACATCACATTTTTACCATTAAAC
1 TTTCAAAAATCACATTTTAACCCTTAAAC
* *
31585078 TTTCAAGAAATCATATTTTGACCCTTAAAC
1 TTTCAA-AAATCACATTTTAACCCTTAAAC
* *
31585108 TTCTCTAAAATTACATTTTAACCCTTAAAC
1 TT-TCAAAAATCACATTTTAACCCTTAAAC
* * *
31585138 TTTTCCAAAATTACATTTTAACCCTCAAAC
1 -TTTCAAAAATCACATTTTAACCCTTAAAC
* * *
31585168 TTTCCAAAAATCACATTTAAACCTTTGAAC
1 TTT-CAAAAATCACATTTTAACCCTTAAAC
* **
31585198 TTTCCTAAAATTGCATTTTAACCC-TAAAC
1 TTT-CAAAAATCACATTTTAACCCTTAAAC
* * *
31585227 TTCTCCAAAATTACATTTTAACCCCTAAAC
1 TT-TCAAAAATCACATTTTAACCCTTAAAC
31585257 TTT
1 TTT
31585260 TCTAAAGTTA
Statistics
Matches: 152, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
29 34 0.22
30 113 0.74
31 5 0.03
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.37
Consensus pattern (29 bp):
TTTCAAAAATCACATTTTAACCCTTAAAC
Found at i:31585131 original size:90 final size:90
Alignment explanation
Indices: 31585024--31585249 Score: 253
Period size: 90 Copynumber: 2.5 Consensus size: 90
31585014 AAACTTTGTA
* * * * *
31585024 AAAATTACATTCTAACCCTCGAA-TTTTTCAAACATCACATTTTTACCATTAAACTTT-CAAGAA
1 AAAATTACATTTTAACCCTCAAACTTTTCCAAA-ATCACATTTTAACCATCAAACTTTCCAA-AA
* **
31585087 ATCATATTTTGACCCTTAAAC-TTCTCT
64 ATCACATTTAAACCCTTAAACTTTC-CT
* * *
31585114 AAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTTAACCCTCAAACTTTCCAAAAAT
1 AAAATTACATTTTAACCCTCAAACTTTTCCAAAATCACATTTTAACCATCAAACTTTCCAAAAAT
* *
31585179 CACATTTAAACCTTTGAACTTTCCT
66 CACATTTAAACCCTTAAACTTTCCT
* * *
31585204 AAAATTGCATTTTAACCCT-AAACTTCTCCAAAATTACATTTTAACC
1 AAAATTACATTTTAACCCTCAAACTTTTCCAAAATCACATTTTAACC
31585250 CCTAAACTTT
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
89 26 0.22
90 78 0.66
91 14 0.12
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (90 bp):
AAAATTACATTTTAACCCTCAAACTTTTCCAAAATCACATTTTAACCATCAAACTTTCCAAAAAT
CACATTTAAACCCTTAAACTTTCCT
Found at i:31585237 original size:59 final size:59
Alignment explanation
Indices: 31585024--31585350 Score: 254
Period size: 60 Copynumber: 5.5 Consensus size: 59
31585014 AAACTTTGTA
* * * * * * * *
31585024 AAAATTACATTCTAACCCTCGAA-TTTTTCAAACATCACATTTTTACCATTAAACTTT-CA
1 AAAATTACATTTTAACCCT-AAACTTCTCCAAA-ATTACATTTTAACCCTTAAACTTTCCT
* * * *
31585083 AGAAATCATATTTTGACCCTTAAACTTCTCTAAAATTACATTTTAACCCTTAAACTTTTCC-
1 A-AAATTACATTTTAACCC-TAAACTTCTCCAAAATTACATTTTAACCCTTAAAC-TTTCCT
* * * *
31585144 AAAATTACATTTTAACCCTCAAACTT-TCCAAAAATCACATTTAAACCTTTGAACTTTCCT
1 AAAATTACATTTTAACCCT-AAACTTCTCC-AAAATTACATTTTAACCCTTAAACTTTCCT
* * *
31585204 AAAATTGCATTTTAACCCTAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTTTCT
1 AAAATTACATTTTAACCCTAAACTTCTCCAAAATTACATTTTAACCCTTAAACTTTCCT
* * * ** ** *
31585263 AAAGTTACATTTTGACCCTAAAGTAATCCAAAATTACCATTTT-ACCCTCGAAC-AT-CT
1 AAAATTACATTTTAACCCTAAACTTCTCCAAAATTA-CATTTTAACCCTTAAACTTTCCT
* *
31585320 AAAAATTACCATTTTACCCCTAAAATTCTCC
1 -AAAATTA-CATTTTAACCCTAAACTTCTCC
31585351 TAAGTCACAT
Statistics
Matches: 214, Mismatches: 42, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
57 2 0.01
58 7 0.03
59 93 0.43
60 100 0.47
61 11 0.05
62 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.36
Consensus pattern (59 bp):
AAAATTACATTTTAACCCTAAACTTCTCCAAAATTACATTTTAACCCTTAAACTTTCCT
Found at i:31585304 original size:30 final size:29
Alignment explanation
Indices: 31585092--31585310 Score: 201
Period size: 30 Copynumber: 7.4 Consensus size: 29
31585082 AAGAAATCAT
* * *
31585092 ATTTTGACCCTTAAACTTCTCTAAAATTAC
1 ATTTTAACCC-TAAACTTATCCAAAATTAC
*
31585122 ATTTTAACCCTTAAACTTTTCCAAAATTAC
1 ATTTTAACCC-TAAACTTATCCAAAATTAC
*
31585152 ATTTTAACCCTCAAACTT-TCCAAAAATCAC
1 ATTTTAACCCT-AAACTTATCC-AAAATTAC
* * * *
31585182 ATTTAAACCTTTGAACTT-TCCTAAAATTGC
1 ATTTTAACC-CTAAACTTATCC-AAAATTAC
*
31585212 ATTTTAACCCTAAACTTCTCCAAAATTAC
1 ATTTTAACCCTAAACTTATCCAAAATTAC
* * *
31585241 ATTTTAACCCCTAAACTTTTCTAAAGTTAC
1 ATTTTAA-CCCTAAACTTATCCAAAATTAC
* * *
31585271 ATTTTGACCCTAAAGTAATCCAAAATTACC
1 ATTTTAACCCTAAACTTATCCAAAATTA-C
31585301 ATTTT-ACCCT
1 ATTTTAACCCT
31585311 CGAACATCTA
Statistics
Matches: 160, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
29 45 0.28
30 114 0.71
31 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
ATTTTAACCCTAAACTTATCCAAAATTAC
Found at i:31585489 original size:29 final size:29
Alignment explanation
Indices: 31585408--31585489 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
31585398 TTAAATTTTC
* *
31585408 CAAAAATTTTAATTTTGATCCCCAAATTCCT
1 CAAAAATTTT-GTTTTGA-CCCCGAATTCCT
* * *
31585439 CAAAAATTATGTTTTCATCCCGAATT-CT
1 CAAAAATTTTGTTTTGACCCCGAATTCCT
*
31585467 CTAAAATTTTGTTTTTGACCCCG
1 CAAAAATTTTG-TTTTGACCCCG
31585490 TTTGTTTTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 11 0.27
29 16 0.39
30 5 0.12
31 9 0.22
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (29 bp):
CAAAAATTTTGTTTTGACCCCGAATTCCT
Found at i:31597428 original size:48 final size:49
Alignment explanation
Indices: 31597280--31597459 Score: 141
Period size: 48 Copynumber: 3.7 Consensus size: 49
31597270 CCGAAGAAAT
* * * * * * *
31597280 ATGAAGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACTTC
1 ATGAAGATGTGAAGAGAAAGGTTGAGGCCGCAACGACAAACTCGACAC--C
* * * * *
31597331 A-GAAGATGTTACGAGAAAGATTGAGGCCGCAACGACAAATTCGATACC
1 ATGAAGATGTGAAGAGAAAGGTTGAGGCCGCAACGACAAACTCGACACC
* * * * *
31597379 ATGAA-ATGTGATGAGAAAGGTTGAGGCTGTAATGGCAAACTCGACACC
1 ATGAAGATGTGAAGAGAAAGGTTGAGGCCGCAACGACAAACTCGACACC
* *
31597427 ATGAAGATTTGAAG-GAAAAGGTTGAGGTCGCAA
1 ATGAAGATGTGAAGAG-AAAGGTTGAGGCCGCAA
31597460 AGGTGAAACC
Statistics
Matches: 103, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
48 42 0.41
49 23 0.22
50 37 0.36
51 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (49 bp):
ATGAAGATGTGAAGAGAAAGGTTGAGGCCGCAACGACAAACTCGACACC
Found at i:31597818 original size:39 final size:38
Alignment explanation
Indices: 31597757--31598135 Score: 188
Period size: 39 Copynumber: 9.7 Consensus size: 38
31597747 GGAAGATTCT
* * *
31597757 GATCTCTTACCCTGATCATGGGGCAGATTGAAGCCATCC
1 GATCT-TTACCCCGAGCCTGGGGCAGATTGAAGCCATCC
* *
31597796 GATCATTTACCCCGAGCTTGGGGCAGA-T-CA-CCATCAGCC
1 GATC-TTTACCCCGAGCCTGGGGCAGATTGAAGCCAT---CC
* ** * *
31597835 AATCTCTTACCCTAAGCCTAGGGCAGATTGAAGCAATCC
1 GATCT-TTACCCCGAGCCTGGGGCAGATTGAAGCCATCC
* * * *
31597874 GATCCTTTACCCCGAGCGTGGGACA-AAT--CGCCATTAGCC
1 GAT-CTTTACCCCGAGCCTGGGGCAGATTGAAGCCA-T--CC
* * * *
31597913 AATCTCTTACCCCGAGCTTAGGGCAGATTGAAGTCATCC
1 GATCT-TTACCCCGAGCCTGGGGCAGATTGAAGCCATCC
* * *
31597952 GATCTTTTATCCCGAGCTTGGGGCAGA-T-CA-CCATCAGCC
1 GATC-TTTACCCCGAGCCTGGGGCAGATTGAAGCCAT---CC
* * * *
31597991 AATCTCTTACCCCGAGCCTAGGGCAAATTGAAGCCATTC
1 GATCT-TTACCCCGAGCCTGGGGCAGATTGAAGCCATCC
* *
31598030 GATCTTATACCCCGAGCTTGGGGCAGA-T-CA-CCATCAGC
1 GATCTT-TACCCCGAGCCTGGGGCAGATTGAAGCCATC--C
* * * *
31598068 TAGTCTCTTACCTCGAGCCTGGGACAGATTGAAGCCATTC
1 GA-TCT-TTACCCCGAGCCTGGGGCAGATTGAAGCCATCC
*
31598108 GATCTTTTACCCCAAGCCTGGGGCAGAT
1 GATC-TTTACCCCGAGCCTGGGGCAGAT
31598136 CATCGTCAGC
Statistics
Matches: 252, Mismatches: 55, Indels: 66
0.68 0.15 0.18
Matches are distributed among these distances:
36 14 0.06
37 4 0.02
38 12 0.05
39 191 0.76
40 13 0.05
41 4 0.02
42 14 0.06
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (38 bp):
GATCTTTACCCCGAGCCTGGGGCAGATTGAAGCCATCC
Found at i:31597859 original size:78 final size:78
Alignment explanation
Indices: 31597758--31598158 Score: 509
Period size: 78 Copynumber: 5.1 Consensus size: 78
31597748 GAAGATTCTG
* * * *
31597758 ATCTCTTACCCTGATCATGGGGCAGATTGAAGCCATCCGATCATTTACCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCTGAGCCTAGGGCAGATTGAAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
31597823 TCACCATCAGCCA
66 TCACCATCAGCCA
* * * * * *
31597836 ATCTCTTACCCTAAGCCTAGGGCAGATTGAAGCAATCCGATCCTTTACCCCGAGCGTGGGACAAA
1 ATCTCTTACCCTGAGCCTAGGGCAGATTGAAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
* *
31597901 TCGCCATTAGCCA
66 TCACCATCAGCCA
* * * *
31597914 ATCTCTTACCCCGAGCTTAGGGCAGATTGAAGTCATCCGATCTTTTATCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCTGAGCCTAGGGCAGATTGAAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
31597979 TCACCATCAGCCA
66 TCACCATCAGCCA
* * * *
31597992 ATCTCTTACCCCGAGCCTAGGGCAAATTGAAGCCATTCGATCTTATACCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCTGAGCCTAGGGCAGATTGAAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*
31598057 TCACCATCAGCTA
66 TCACCATCAGCCA
* * * *
31598070 GTCTCTTA-CCTCGAGCCT-GGGACAGATTGAAGCCATTCGATCTTTTACCCCAAGCCTGGGGCA
1 ATCTCTTACCCT-GAGCCTAGGG-CAGATTGAAGCCATCCGATCTTTTACCCCGAGCTTGGGGCA
* *
31598133 GATCATCGTCAGCCA
64 GATCACCATCAGCCA
* *
31598148 ATTTTTTACCC
1 ATCTCTTACCC
31598159 CACGATCGGG
Statistics
Matches: 278, Mismatches: 42, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
77 5 0.02
78 271 0.97
79 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (78 bp):
ATCTCTTACCCTGAGCCTAGGGCAGATTGAAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
TCACCATCAGCCA
Found at i:31598810 original size:4 final size:4
Alignment explanation
Indices: 31598801--31598827 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
31598791 TTTGAAAATA
31598801 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
31598828 AATCATATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:31598902 original size:15 final size:15
Alignment explanation
Indices: 31598878--31598910 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
31598868 ATTTAAAGTT
*
31598878 ATTGGTTGGATTTGA
1 ATTGGATGGATTTGA
31598893 ATTGGATGGATTTGA
1 ATTGGATGGATTTGA
31598908 ATT
1 ATT
31598911 TACAGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (15 bp):
ATTGGATGGATTTGA
Found at i:31599088 original size:53 final size:53
Alignment explanation
Indices: 31599006--31599106 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
31598996 AAAGCTCCGC
* * *
31599006 TTAGCGGCGTTTTTGGGGTAAGCGTCGCTAAAGACCATGTTCTTTAGCGTTCT
1 TTAGCGGCGTTTATGGGGTAAGCGCCGCTAAAGACCACGTTCTTTAGCGTTCT
*
31599059 TTAGCGGCGTTTATGGGAG-AAGCGCCGCTAAAGACCACGTTTTTTAGC
1 TTAGCGGCGTTTATGGG-GTAAGCGCCGCTAAAGACCACGTTCTTTAGC
31599107 TGCGTTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 42 0.98
54 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.32
Consensus pattern (53 bp):
TTAGCGGCGTTTATGGGGTAAGCGCCGCTAAAGACCACGTTCTTTAGCGTTCT
Found at i:31600121 original size:24 final size:24
Alignment explanation
Indices: 31600077--31600128 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
31600067 TTTCTAGAAG
**
31600077 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAACATAATAT
* *
31600101 ATTTTGTATTTATTAACATAATTT
1 ATTTAGTATTTATTAACATAATAT
31600125 ATTT
1 ATTT
31600129 GACCTATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
ATTTAGTATTTATTAACATAATAT
Found at i:31600234 original size:23 final size:24
Alignment explanation
Indices: 31600208--31600260 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
31600198 CTCATAACAC
*
31600208 TTTTGAAGA-ATTTTGTTTTTACG
1 TTTTGAAGATATTTTGTTTTCACG
* * *
31600231 TTTTGAGGATTTTTTGTTTTCAGG
1 TTTTGAAGATATTTTGTTTTCACG
31600255 TTTTGA
1 TTTTGA
31600261 GGTTTAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.17, C:0.04, G:0.21, T:0.58
Consensus pattern (24 bp):
TTTTGAAGATATTTTGTTTTCACG
Found at i:31606681 original size:14 final size:14
Alignment explanation
Indices: 31606636--31606683 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
31606626 CCCTCTTCTC
*
31606636 TCTCCTTCTGTTAT
1 TCTCTTTCTGTTAT
* * *
31606650 TGCTCTTCCTTTTTT
1 T-CTCTTTCTGTTAT
31606665 TCTCTTTCTGTTAT
1 TCTCTTTCTGTTAT
31606679 TCTCT
1 TCTCT
31606684 CTCTATCCCC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.04, C:0.27, G:0.06, T:0.62
Consensus pattern (14 bp):
TCTCTTTCTGTTAT
Found at i:31624317 original size:52 final size:52
Alignment explanation
Indices: 31624238--31624646 Score: 545
Period size: 52 Copynumber: 7.8 Consensus size: 52
31624228 ATAAGGGTTC
* *
31624238 GATGACTAAGTGTTATCGTGAGTAAATGAATCCTTTACGGATTATGAGGTCT
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTATAAGGTCT
* * * *
31624290 AATGACTAAATGTCATCATGAGTAAATGAATCCTTTACGGATTATAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTATAAGGTCT
* * * *
31624342 GATGGCTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATTATAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTATAAGGTCT
*
31624394 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATTATAAGGT-T
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTATAAGGTCT
* * * * *
31624445 CGATGGCTAAGTGTCATCATGAGTATATGAATCCTTTACAGATTATGAGGTCT
1 -GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTATAAGGTCT
31624498 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTATAAGGTAC-
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTATAAGGT-CT
* * * * * **
31624550 AATGGCAAAGTGTCATCGTGAGTATATAAATCCTTTACGGATGGTAAGGT-T
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTATAAGGTCT
*
31624601 CGATGACTAAGTGTCATCGTGAGTACATGAATTCCTTTACGGATTA
1 -GATGACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATTA
31624647 AGAGGTCCAA
Statistics
Matches: 311, Mismatches: 40, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
52 297 0.95
53 14 0.05
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (52 bp):
GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTATAAGGTCT
Found at i:31624417 original size:104 final size:104
Alignment explanation
Indices: 31624228--31624654 Score: 604
Period size: 104 Copynumber: 4.1 Consensus size: 104
31624218 GTTGTAAATG
* * * * * **
31624228 ATAAGGGTTCGATGACTAAGTGTTATCGTGAGTAAATGAATCCTTTACGGATTATGAGGTCTAAT
1 ATAA-GGTCCGATGGCTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCGAT
* *
31624293 GACTAAATGTCATCATGAGTAAATGAATCCTTTACGGATT
65 GACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
*
31624333 ATAAGGTCCGATGGCTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATTATAAGGTCCGATG
1 ATAAGGTCCGATGGCTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCGATG
*
31624398 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACAGATT
66 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * * *
31624437 ATAAGGTTCGATGGCTAAGTGTCATCATGAGTATATGAATCCTTTACAGATTATGAGGTCTGATG
1 ATAAGGTCCGATGGCTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCGATG
31624502 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
66 ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
* * * * ** *
31624541 ATAAGGTACAATGGCAAAGTGTCATCGTGAGTATATAAATCCTTTACGGATGGTAAGGTTCGATG
1 ATAAGGTCCGATGGCTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCGATG
*
31624606 ACTAAGTGTCATCGTGAGTACATGAATTCCTTTACGGATT
66 ACTAAGTGTCATCGTGAGTAAATGAA-TCCTTTACGGATT
31624646 A-AGAGGTCC
1 ATA-AGGTCC
31624655 AACGACTATA
Statistics
Matches: 289, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
104 266 0.92
105 23 0.08
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (104 bp):
ATAAGGTCCGATGGCTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCCGATG
ACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATT
Found at i:31637260 original size:14 final size:14
Alignment explanation
Indices: 31637234--31637261 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31637224 ATCAAATAAC
31637234 ATCAATCTAATAGT
1 ATCAATCTAATAGT
31637248 ATCAATCTAATAGT
1 ATCAATCTAATAGT
31637262 GAAACGACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
ATCAATCTAATAGT
Found at i:31639348 original size:21 final size:20
Alignment explanation
Indices: 31639311--31639349 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31639301 GGTTTTAAAA
*
31639311 TAATTTTGAAAATGAATGTG
1 TAATTTTGAAAACGAATGTG
*
31639331 TAATTTTTAAATACGAATG
1 TAATTTTGAAA-ACGAATG
31639350 AACAGTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (20 bp):
TAATTTTGAAAACGAATGTG
Found at i:31639665 original size:29 final size:29
Alignment explanation
Indices: 31639633--31639895 Score: 211
Period size: 30 Copynumber: 8.9 Consensus size: 29
31639623 AATCGGGATC
31639633 AAAAATGGAATTTTTGGACA-TTTAGGGGT
1 AAAAATGGAATTTTTGGA-AGTTTAGGGGT
* * *
31639662 -AAAATGGTAATTTTTGAAAGTTTTGAGGT
1 AAAAATGG-AATTTTTGGAAGTTTAGGGGT
* *
31639691 CAAAAATGGAGTTTTTGGATGTTT-GAGGGT
1 -AAAAATGGAATTTTTGGAAGTTTAG-GGGT
* *
31639721 -AAAATGTAATTTTTGGAAGTTTTGGGGTT
1 AAAAATGGAATTTTTGGAAGTTTAGGGG-T
*
31639750 AAAAATGGAATTTTTGGAAGTTCAGGGGT
1 AAAAATGGAATTTTTGGAAGTTTAGGGGT
**
31639779 AAAAATATCAA-TTTTGGAAGTTTTA-GGGT
1 AAAAAT-GGAATTTTTGGAAG-TTTAGGGGT
* *
31639808 CAAAAATGGAATTTTTAGAAGTTT-GAGGGC
1 -AAAAATGGAATTTTTGGAAGTTTAG-GGGT
* * *
31639838 AAAAATGTAATTTTGGAGAAGTTTGAGGGTT
1 AAAAATGGAATTTTTG-GAAGTTT-AGGGGT
31639869 AAAATAT-G-ATTTTTGGATAGTTTAGGG
1 AAAA-ATGGAATTTTTGGA-AGTTTAGGG
31639896 ACCTTCAGAG
Statistics
Matches: 188, Mismatches: 27, Indels: 38
0.74 0.11 0.15
Matches are distributed among these distances:
28 30 0.16
29 63 0.34
30 79 0.42
31 13 0.07
32 3 0.02
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.37
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTTAGGGGT
Found at i:31639669 original size:59 final size:56
Alignment explanation
Indices: 31639599--31639851 Score: 217
Period size: 59 Copynumber: 4.3 Consensus size: 56
31639589 AGATATCCAA
** *
31639599 GGGTAAAATGGTAATTTTTAGAAAAATCGGGATCAAAAATGGAATTTTTGGACATTTAG
1 GGGTAAAATGGTAATTTTT-GAAATTTTGGG-TCAAAAATGGAATTTTTGGA-ATTTAG
* *
31639658 GGGTAAAATGGTAATTTTTGAAAGTTTTGAGGTCAAAAATGGAGTTTTTGG-ATGTTTG
1 GGGTAAAATGGTAATTTTTGAAA-TTTTG-GGTCAAAAATGGAATTTTTGGAAT-TTAG
* * *
31639716 AGGGTAAAAT-GTAATTTTTGGAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAGTTCAG
1 -GGGTAAAATGGTAATTTTT-GAAATTTT-GGGTCAAAAATGGAATTTTTGGAA-TTTAG
* * * *
31639775 GGGTAAAAAT-ATCAATTTTGGAAGTTTTAGGGTCAAAAATGGAATTTTTAGAAGTTTGAG
1 GGGT-AAAATGGT-AATTTTTGAAATTTT-GGGTCAAAAATGGAATTTTTGGAA-TTT-AG
**
31639835 GGCAAAAAT-GTAATTTT
1 GGGTAAAATGGTAATTTT
31639852 GGAGAAGTTT
Statistics
Matches: 164, Mismatches: 19, Indels: 23
0.80 0.09 0.11
Matches are distributed among these distances:
57 2 0.01
58 49 0.30
59 100 0.61
60 13 0.08
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (56 bp):
GGGTAAAATGGTAATTTTTGAAATTTTGGGTCAAAAATGGAATTTTTGGAATTTAG
Found at i:31639873 original size:59 final size:59
Alignment explanation
Indices: 31639631--31639896 Score: 266
Period size: 59 Copynumber: 4.5 Consensus size: 59
31639621 AAAATCGGGA
* *
31639631 TCAAAAATGGAATTTTTGGACA-TTT-AGGGGTAAAATGGTAATTTTTGAAAGTTTTGA-GG
1 TCAAAAATGGAATTTTTGGA-AGTTTGA-GGGAAAAAT-GTAATTTTTGGAAGTTTTGAGGG
* * *
31639690 TCAAAAATGGAGTTTTTGGATGTTTGAGGGTAAAATGTAATTTTTGGAAGTTTTG-GGG
1 TCAAAAATGGAATTTTTGGAAGTTTGAGGGAAAAATGTAATTTTTGGAAGTTTTGAGGG
* * *
31639748 TTAAAAATGGAATTTTTGGAAG-TTCAGGGGTAAAAATATCAA-TTTTGGAAGTTTT-AGGG
1 TCAAAAATGGAATTTTTGGAAGTTTGA-GGG-AAAAATGT-AATTTTTGGAAGTTTTGAGGG
* *
31639807 TCAAAAATGGAATTTTTAGAAGTTTGAGGGCAAAAATGTAATTTTGGAGAAG-TTTGAGGG
1 TCAAAAATGGAATTTTTGGAAGTTTGAGGG-AAAAATGTAATTTTTG-GAAGTTTTGAGGG
*
31639867 TTAAAATAT-G-ATTTTTGGATAGTTT-AGGGA
1 TCAAAA-ATGGAATTTTTGGA-AGTTTGAGGGA
31639897 CCTTCAGAGC
Statistics
Matches: 177, Mismatches: 17, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
57 3 0.02
58 45 0.25
59 102 0.58
60 25 0.14
61 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (59 bp):
TCAAAAATGGAATTTTTGGAAGTTTGAGGGAAAAATGTAATTTTTGGAAGTTTTGAGGG
Found at i:31640853 original size:25 final size:26
Alignment explanation
Indices: 31640825--31640884 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
31640815 TTCGATTTCT
*
31640825 TTATTTTAATATA-TTAGTATATTCA
1 TTATTTTAATATATTTAGTATAATCA
* *
31640850 TTA-TTAAATATATTTATTATAATCA
1 TTATTTTAATATATTTAGTATAATCA
31640875 TTATTATTAA
1 TTATT-TTAA
31640885 AAAAAACCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 8 0.29
25 16 0.57
26 1 0.04
27 3 0.11
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (26 bp):
TTATTTTAATATATTTAGTATAATCA
Found at i:31641600 original size:6 final size:6
Alignment explanation
Indices: 31641589--31641668 Score: 73
Period size: 6 Copynumber: 14.0 Consensus size: 6
31641579 TTATAATAGT
*
31641589 TTTAAA TTTAAA TATAAA -TTAAA TTTAAA TTTAAGA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA
* *
31641635 TTTAAA -ATAAA TTT-AA TCTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA
31641669 ATGGGTTGAG
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
4 1 0.02
5 18 0.30
6 38 0.63
7 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:31641610 original size:17 final size:17
Alignment explanation
Indices: 31641591--31641668 Score: 113
Period size: 17 Copynumber: 4.6 Consensus size: 17
31641581 ATAATAGTTT
* *
31641591 TAAATTTAAATATAAAT
1 TAAATTTAAATTTAAAA
*
31641608 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAAA
31641625 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
31641642 TAAATTT-AATCTTAAAA
1 TAAATTTAAAT-TTAAAA
31641659 TAAATTTAAA
1 TAAATTTAAA
31641669 ATGGGTTGAG
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
16 3 0.05
17 50 0.91
18 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:31641615 original size:23 final size:23
Alignment explanation
Indices: 31641589--31641640 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
31641579 TTATAATAGT
31641589 TTTAAATTTAA-ATATAAATTAAA
1 TTTAAATTTAAGATA-AAATTAAA
*
31641612 TTTAAATTTAAGATAAATTTAAA
1 TTTAAATTTAAGATAAAATTAAA
31641635 TTTAAA
1 TTTAAA
31641641 ATAAATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTAAATTTAAGATAAAATTAAA
Found at i:31641667 original size:11 final size:11
Alignment explanation
Indices: 31641591--31641670 Score: 56
Period size: 11 Copynumber: 7.1 Consensus size: 11
31641581 ATAATAGTTT
31641591 TAAATTTAAATA
1 TAAATTTAAA-A
*
31641603 TAAA-TTAAATT
1 TAAATTTAAA-A
*
31641614 TAAATTTAAGA
1 TAAATTTAAAA
*
31641625 TAAATTTAAATT
1 TAAATTTAAA-A
* *
31641637 TAAA-ATAAAT
1 TAAATTTAAAA
*
31641647 TTAATCTTAAAA
1 TAAAT-TTAAAA
31641659 TAAATTTAAAA
1 TAAATTTAAAA
31641670 T
1 T
31641671 GGGTTGAGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
10 4 0.07
11 30 0.56
12 20 0.37
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:31649668 original size:23 final size:23
Alignment explanation
Indices: 31649642--31649810 Score: 114
Period size: 23 Copynumber: 7.4 Consensus size: 23
31649632 TTCGTTTAGA
31649642 GTTCGCAAACATGTTTGTTTAAC
1 GTTCGCAAACATGTTTGTTTAAC
* * **
31649665 GTTCGCGAACATGTTCGTTTATTT
1 GTTCGCAAACATGTTTGTTTA-AC
*
31649689 GTTCACAAACATGTTTGTTTAAC
1 GTTCGCAAACATGTTTGTTTAAC
* * * **
31649712 GTTCACGAACATG-TCGTTTATTT
1 GTTCGCAAACATGTTTGTTTA-AC
* **
31649735 ATTCGCAAACATGTTCATTTAAC
1 GTTCGCAAACATGTTTGTTTAAC
* *
31649758 GTTCGCGAACAT-TTTCATTTATA-
1 GTTCGCAAACATGTTT-GTTTA-AC
* *
31649781 -TTCACAAACATGTTTGTTT-AT
1 GTTCGCAAACATGTTTGTTTAAC
31649802 GTTCGCAAA
1 GTTCGCAAA
31649811 TGTTAACTAA
Statistics
Matches: 112, Mismatches: 26, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
20 1 0.01
22 27 0.24
23 59 0.53
24 25 0.22
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.41
Consensus pattern (23 bp):
GTTCGCAAACATGTTTGTTTAAC
Found at i:31649685 original size:46 final size:46
Alignment explanation
Indices: 31649647--31649800 Score: 213
Period size: 46 Copynumber: 3.3 Consensus size: 46
31649637 TTAGAGTTCG
*
31649647 CAAACATGTTTGTTTAACGTTCGCGAACATGTTCGTTTATTTGTTCA
1 CAAACATGTTTGTTTAACGTTCGCGAACATGTTCGTTTA-TTATTCA
* *
31649694 CAAACATGTTTGTTTAACGTTCACGAACATG-TCGTTTATTTATTCG
1 CAAACATGTTTGTTTAACGTTCGCGAACATGTTCGTTTA-TTATTCA
** * *
31649740 CAAACATGTTCATTTAACGTTCGCGAACATTTTCATTTA-TATTCA
1 CAAACATGTTTGTTTAACGTTCGCGAACATGTTCGTTTATTATTCA
31649785 CAAACATGTTTGTTTA
1 CAAACATGTTTGTTTA
31649801 TGTTCGCAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
45 19 0.20
46 40 0.42
47 36 0.38
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.42
Consensus pattern (46 bp):
CAAACATGTTTGTTTAACGTTCGCGAACATGTTCGTTTATTATTCA
Found at i:31650072 original size:25 final size:25
Alignment explanation
Indices: 31650043--31650098 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
31650033 AAAACACCAA
*
31650043 ATCAAAAAAATTATGAGTTTCACCC
1 ATCAAAAAAATTATAAGTTTCACCC
31650068 ATCAAAAAAATTATAAGTTTCACCC
1 ATCAAAAAAATTATAAGTTTCACCC
31650093 ATCAAA
1 ATCAAA
31650099 CTCAATAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (25 bp):
ATCAAAAAAATTATAAGTTTCACCC
Found at i:31657661 original size:49 final size:48
Alignment explanation
Indices: 31657592--31657687 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 48
31657582 TGCCATGTGA
**
31657592 AAAAAGTTAGAAACTCTTTATGTGACTAAGTCTCTAGCTAACCGTTTG
1 AAAAAGTTAGAAACTCTTTATACGACTAAGTCTCTAGCTAACCGTTTG
* *
31657640 AAAAAGTTTAGAAACTCTTTATACGACTAAGTCTCTGGCTAATCGTTT
1 AAAAAG-TTAGAAACTCTTTATACGACTAAGTCTCTAGCTAACCGTTT
31657688 AGTGTTGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 6 0.14
49 37 0.86
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (48 bp):
AAAAAGTTAGAAACTCTTTATACGACTAAGTCTCTAGCTAACCGTTTG
Found at i:31658050 original size:21 final size:21
Alignment explanation
Indices: 31658024--31658063 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
31658014 AAAGGCGTCG
31658024 CTATTATAAGAAGTTAAGTTA
1 CTATTATAAGAAGTTAAGTTA
31658045 CTATTATAAGAAGTTAAGT
1 CTATTATAAGAAGTTAAGT
31658064 CACATCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (21 bp):
CTATTATAAGAAGTTAAGTTA
Found at i:31665410 original size:30 final size:30
Alignment explanation
Indices: 31665353--31665411 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31665343 ATATACAAGT
*
31665353 AGACTAACTGCTACTAACTATTATAACAGA
1 AGACTAACTGCTACTAACGATTATAACAGA
31665383 AGACTAACTGCTACTAACAGATT-TAACAG
1 AGACTAACTGCTACTAAC-GATTATAACAG
31665412 TCTTAACAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.25
Consensus pattern (30 bp):
AGACTAACTGCTACTAACGATTATAACAGA
Found at i:31668525 original size:3 final size:3
Alignment explanation
Indices: 31668519--31668544 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31668509 TATTATTATT
31668519 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
31668545 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:31668549 original size:3 final size:3
Alignment explanation
Indices: 31668543--31668578 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
31668533 CATCATCATC
31668543 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
31668579 TTTTAGGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:31669292 original size:132 final size:132
Alignment explanation
Indices: 31669145--31669426 Score: 372
Period size: 132 Copynumber: 2.1 Consensus size: 132
31669135 AATTTTTAAC
* * * * * * *
31669145 AAAGTTTTGAATTTTTT-TAATTTTTTCAAAATAAAAGTTTGGATTTTTATGTAAAATAGTGATT
1 AAAGTTTT-AATTTTTTCTAACTATTTCAAAATAAAAATTTAGATTTTTAAGCAAAATAATGATT
* *
31669209 TTCTTT-AAAAAAGAGAAAATTTATATTCTT-AAAATTAAAAATCTATTTTTTTAGTTATTTTAA
65 TTCTTTAAAAAAAGAGAAAATTTAGATTCTTAAAAAATAAAAATCTA-TTTTTTAGTTATTTTAA
31669272 AGTAA
129 AG-AA
*
31669277 AAAGTTTTAATTTTTTCTAACTATTTCGAAATAAAAATTTAGATTTTTAAGCAAAATAATGATTT
1 AAAGTTTTAATTTTTTCTAACTATTTCAAAATAAAAATTTAGATTTTTAAGCAAAATAATGATTT
* *
31669342 TCTTTAAAAAAAAAGAGAAAGTTTAGATTTTTAAAAAAATAAAAATCTATTTTTTAGTTATTTTA
66 TCTTT--AAAAAAAGAGAAAATTTAGATTCTT-AAAAAATAAAAATCTATTTTTTAGTTATTTTA
31669407 AAGAA
128 AAGAA
*
31669412 AAAGTTTAAATTTTT
1 AAAGTTTTAATTTTT
31669427 AACAAAGTTT
Statistics
Matches: 131, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
131 8 0.06
132 53 0.40
135 37 0.28
136 19 0.15
137 14 0.11
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (132 bp):
AAAGTTTTAATTTTTTCTAACTATTTCAAAATAAAAATTTAGATTTTTAAGCAAAATAATGATTT
TCTTTAAAAAAAGAGAAAATTTAGATTCTTAAAAAATAAAAATCTATTTTTTAGTTATTTTAAAG
AA
Found at i:31678797 original size:85 final size:85
Alignment explanation
Indices: 31678668--31678825 Score: 226
Period size: 85 Copynumber: 1.9 Consensus size: 85
31678658 GAATTGGTCT
* * * *
31678668 ACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCATTATTTTGATCCACTTCTCTGTATCTCAT
1 ACTTCTCTGCATCTCATCAGGAAGATGATCACTTCATTACTTTGACCCACTTCTCTGTATCTCAT
31678733 CAGGAAGACGGATTTGGTTC
66 CAGGAAGACGGATTTGGTTC
* * * * * *
31678753 ACTTCTCTGCGTCTCATCAGGAAGATTATCACTTTATTGCTTTGACCCACTTCTTTGTATTTCAT
1 ACTTCTCTGCATCTCATCAGGAAGATGATCACTTCATTACTTTGACCCACTTCTCTGTATCTCAT
31678818 CAGGAAGA
66 CAGGAAGA
31678826 TGGGGGCTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (85 bp):
ACTTCTCTGCATCTCATCAGGAAGATGATCACTTCATTACTTTGACCCACTTCTCTGTATCTCAT
CAGGAAGACGGATTTGGTTC
Found at i:31679152 original size:210 final size:210
Alignment explanation
Indices: 31678414--31679674 Score: 1752
Period size: 209 Copynumber: 6.0 Consensus size: 210
31678404 AAGATAGGAA
* * * * *
31678414 TTTGAAGTTTTACTCACATGGAGCT-TCGCTTGATTAAATTGGTCTACTTCTCTTTATCTTATCA
1 TTTGAAGTTTCACTCACATTGAGCTCTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTTATCA
*
31678478 GGAAGATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTT
66 GGAAGATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTT
* * * *
31678543 CACTTCTCTACATCTCGTC-GGAAGATGACCACTTTATTGCTTCGATCCATTTCTTTGTATCTCA
131 CACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTCA
* *
31678607 TCAGGAAGATAAGGG
196 TCAAGAAGATGAGGG
* * *
31678622 TTTGAAGTTTTCACTTAGATTGAGCTCT-GCTTCATTGAATTGGTCTACTTCTCTGTATCTCATC
1 TTTGAAG-TTTCACTCACATTGAGCTCTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTTATC
31678686 AGGAAGATGA-TCGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGG
65 AGGAAGATGACT-GCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGG
* * * * * * *
31678750 TTCACTTCTCTGCGTCTCATCAGGAAGATTATCACTTTATTGCTTTGACCCACTTCTTTGTATTT
129 TTCACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCT
* *
31678815 CATCAGGAAGATGGGGG
194 CATCAAGAAGATGAGGG
* * * * *
31678832 CTTAAAGTTTCACTCACATTGAGCT-TCGCTTCATTGAATTGATGTACTTCTCTGTATTTTATCA
1 TTTGAAGTTTCACTCACATTGAGCTCTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTTATCA
* *
31678896 AGAAGATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTT
66 GGAAGATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTT
31678961 CACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTCA
131 CACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTCA
*
31679026 TCAAAAAGATGAGGG
196 TCAAGAAGATGAGGG
* *
31679041 TTTGAAGCTTTCACTCACATTGAGCTCT-GCTTCATTGAATTGGTCTACTTCTTTGTATCTCATC
1 TTTGAAG-TTTCACTCACATTGAGCTCTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTTATC
* *
31679105 AGGAAGATGACTGTTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGT
65 AGGAAGATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGT
* *
31679170 TCACTTCTCTGCATCTCGTCAAGAAGATGACCACTTTATTGCTTCGACCCACTTCTTTGTATCTC
130 TCACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTC
31679235 ATCAAGAAGATGAGGG
195 ATCAAGAAGATGAGGG
* * * *
31679251 TTTAAAGTTTTACTCACATTGAG-TTTCGCTTCATCGAATTGGTCTACTTCTCTGTATCTTATCA
1 TTTGAAGTTTCACTCACATTGAGCTCTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTTATCA
** * ** * * * * *
31679315 AAAAGATGGCCACTTTATTGTTTTGATACACTTCTCTATATCTCATCAGGAAGATGGATTTGGTT
66 GGAAGATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTT
* * *
31679380 CACTTATCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCTACTTCTCTATATCTCA
131 CACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTCA
*
31679445 TC-AGAATGATGGGGG
196 TCAAGAA-GATGAGGG
* *
31679460 TTTGAAGTTTTCACTCACATTGAGCTC-CGCTTCATTGAATTGGTTTACTTCTCTGTATCTTATT
1 TTTGAAG-TTTCACTCACATTGAGCTCTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTTATC
** * * * * *
31679524 AGGAAGAT-AGCCACTTCATTGTTTTGATCCGCTTCTCTGCATCTCATCAGGAAGATGGATTTTG
65 AGGAAGATGA-CTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGG
* * * * *
31679588 TTCACTTCTCTACATCTCATCAAGAAGATAACCACTTTATTGCTTCGACCCACTTCTCTATATCT
129 TTCACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCT
31679653 CATCAAGAAGAT-AGGGG
194 CATCAAGAAGATGA-GGG
31679670 TTTGA
1 TTTGA
31679675 TGTCTAAGTT
Statistics
Matches: 940, Mismatches: 98, Indels: 28
0.88 0.09 0.03
Matches are distributed among these distances:
208 15 0.02
209 489 0.52
210 430 0.46
211 6 0.01
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (210 bp):
TTTGAAGTTTCACTCACATTGAGCTCTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTTATCA
GGAAGATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTT
CACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTCA
TCAAGAAGATGAGGG
Found at i:31679179 original size:419 final size:419
Alignment explanation
Indices: 31678418--31679669 Score: 1880
Period size: 419 Copynumber: 3.0 Consensus size: 419
31678408 TAGGAATTTG
* * * * *
31678418 AAGTTTTACTCACATGGAGCTTCGCTTGATTAAATTGGTCTACTTCTCTTTATCTTATCAGGAAG
1 AAGTTTTACTCACATTGAGCTTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTTATCAAGAAG
*
31678483 ATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTT
66 ATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTT
* * * * *
31678548 CTCTACATCTCGTC-GGAAGATGACCACTTTATTGCTTCGATCCATTTCTTTGTATCTCATCAGG
131 CTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGA
* * *
31678612 AAGATAAGGGTTTGAAGTTTTCACTTAGATTGAGCTCTGCTTCATTGAATTGGTCTACTTCTCTG
196 AAGATGAGGGTTTGAAGTTTTCACTCACATTGAGCTCTGCTTCATTGAATTGGTCTACTTCTCTG
*
31678677 TATCTCATCAGGAAGATGA-TCGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGA
261 TATCTCATCAGGAAGATGACT-GCTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGA
* * * * *
31678741 CGGATTTGGTTCACTTCTCTGCGTCTCATCAGGAAGATTATCACTTTATTGCTTTGACCCACTTC
325 CGGATTTGGTTCACTTCTCTGCATCTCATCAAGAAGATAACCACTTTATTGCTTCGACCCACTTC
* *
31678806 TTTGTATTTCATCAGGAAGATGGGGGCTTA
390 TTTGTATCTCATCAAGAAGATGGGGGCTTA
* * * *
31678836 AAGTTTCACTCACATTGAGCTTCGCTTCATTGAATTGATGTACTTCTCTGTATTTTATCAAGAAG
1 AAGTTTTACTCACATTGAGCTTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTTATCAAGAAG
*
31678901 ATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAAGAAGACGGATTTGGTTCACTT
66 ATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTT
*
31678966 CTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAAA
131 CTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGA
* *
31679031 AAGATGAGGGTTTGAAGCTTTCACTCACATTGAGCTCTGCTTCATTGAATTGGTCTACTTCTTTG
196 AAGATGAGGGTTTGAAGTTTTCACTCACATTGAGCTCTGCTTCATTGAATTGGTCTACTTCTCTG
*
31679096 TATCTCATCAGGAAGATGACTGTTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGAC
261 TATCTCATCAGGAAGATGACTGCTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGAC
* *
31679161 GGATTTGGTTCACTTCTCTGCATCTCGTCAAGAAGATGACCACTTTATTGCTTCGACCCACTTCT
326 GGATTTGGTTCACTTCTCTGCATCTCATCAAGAAGATAACCACTTTATTGCTTCGACCCACTTCT
* *
31679226 TTGTATCTCATCAAGAAGATGAGGGTTTA
391 TTGTATCTCATCAAGAAGATGGGGGCTTA
* * *
31679255 AAGTTTTACTCACATTGAGTTTCGCTTCATCGAATTGGTCTACTTCTCTGTATCTTATCAAAAAG
1 AAGTTTTACTCACATTGAGCTTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTTATCAAGAAG
* ** * * * * *
31679320 ATGGCCACTTTATTGTTTTGATACACTTCTCTATATCTCATCAGGAAGATGGATTTGGTTCACTT
66 ATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTT
* * *
31679385 ATCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCTACTTCTCTATATCTCATCAGA
131 CTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGA
* * * *
31679450 ATGATGGGGGTTTGAAGTTTTCACTCACATTGAGCTCCGCTTCATTGAATTGGTTTACTTCTCTG
196 AAGATGAGGGTTTGAAGTTTTCACTCACATTGAGCTCTGCTTCATTGAATTGGTCTACTTCTCTG
* * ** * *
31679515 TATCTTATTAGGAAGAT-AGCCACTTCATTGTTTTGATCCGCTTCTCTGCATCTCATCAGGAAGA
261 TATCTCATCAGGAAGATGA-CTGCTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGA
* * *
31679579 TGGATTTTGTTCACTTCTCTACATCTCATCAAGAAGATAACCACTTTATTGCTTCGACCCACTTC
325 CGGATTTGGTTCACTTCTCTGCATCTCATCAAGAAGATAACCACTTTATTGCTTCGACCCACTTC
* * *
31679644 TCTATATCTCATCAAGAAGATAGGGG
390 TTTGTATCTCATCAAGAAGATGGGGG
31679670 TTTGATGTCT
Statistics
Matches: 755, Mismatches: 76, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
418 133 0.18
419 621 0.82
420 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (419 bp):
AAGTTTTACTCACATTGAGCTTCGCTTCATTGAATTGGTCTACTTCTCTGTATCTTATCAAGAAG
ATGACTGCTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTTCACTT
CTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGTATCTCATCAGA
AAGATGAGGGTTTGAAGTTTTCACTCACATTGAGCTCTGCTTCATTGAATTGGTCTACTTCTCTG
TATCTCATCAGGAAGATGACTGCTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGAC
GGATTTGGTTCACTTCTCTGCATCTCATCAAGAAGATAACCACTTTATTGCTTCGACCCACTTCT
TTGTATCTCATCAAGAAGATGGGGGCTTA
Found at i:31679983 original size:99 final size:97
Alignment explanation
Indices: 31679805--31680041 Score: 300
Period size: 99 Copynumber: 2.4 Consensus size: 97
31679795 CTCGTCATGT
* * * *
31679805 TTTTAAGGTACCGAGTTCACCGTTGTGACTTCAACCTTTCCCCTCATATTCTCATGGTACCAGAT
1 TTTTAAGGTATCGGGTTCACCGTTGTGACCTCAACCTTTCCCCTCATATTCTCATGGTACCAGAA
31679870 TTGCAGTTGCGGCCTCAATCTTTCCCATCACATC
66 TTGCAGTTGCGGCCTCAATC-TT-CCATCACATC
** * *
31679904 TTTTAAGGTATCGGGTTCGTCGTTGTGACCTCAACCTTTCCCTTCGTA-TCTTCATGGTACC-GA
1 TTTTAAGGTATCGGGTTCACCGTTGTGACCTCAACCTTTCCCCTCATATTC-TCATGGTACCAGA
*
31679967 ATT-CATCGTTGTGGCCTCAATCTTCCATCACATC
65 ATTGCA--GTTGCGGCCTCAATCTTCCATCACATC
* * *
31680001 TTCTAAGGTATTGGGTTCACCGTTGCGACCTCAACCTTTCC
1 TTTTAAGGTATCGGGTTCACCGTTGTGACCTCAACCTTTCC
31680042 TTTCAATTCT
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
97 48 0.40
98 8 0.07
99 65 0.54
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (97 bp):
TTTTAAGGTATCGGGTTCACCGTTGTGACCTCAACCTTTCCCCTCATATTCTCATGGTACCAGAA
TTGCAGTTGCGGCCTCAATCTTCCATCACATC
Found at i:31680053 original size:97 final size:99
Alignment explanation
Indices: 31679808--31680061 Score: 304
Period size: 97 Copynumber: 2.6 Consensus size: 99
31679798 GTCATGTTTT
* * * * *
31679808 TAAGGTACCGAGTTCACCGTTGTGACTTCAACCTTTCCCCTCATATTC-TCATGGTACCAGATTT
1 TAAGGTATCGGGTTCACCGTTGTGACCTCAACCTTTCCCTTCA-ATTCTTCATGGTACCAGAATT
*
31679872 GCAGTTGCGGCCTCAATCTTTCCCATCACATCTTT
65 GCAGTTGCGGCCTCAATCTTTCCCATCACATCTTC
** *
31679907 TAAGGTATCGGGTTCGTCGTTGTGACCTCAACCTTTCCCTTC-GTATCTTCATGGTACC-GAATT
1 TAAGGTATCGGGTTCACCGTTGTGACCTCAACCTTTCCCTTCAAT-TCTTCATGGTACCAGAATT
*
31679970 -CATCGTTGTGGCCTCAATC-TT-CCATCACATCTTC
65 GCA--GTTGCGGCCTCAATCTTTCCCATCACATCTTC
* * * *
31680004 TAAGGTATTGGGTTCACCGTTGCGACCTCAACCTTTCCTTTCAATTCTTCGTGGTACC
1 TAAGGTATCGGGTTCACCGTTGTGACCTCAACCTTTCCCTTCAATTCTTCATGGTACC
31680062 TGATTCGCCG
Statistics
Matches: 133, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
97 64 0.48
98 9 0.07
99 60 0.45
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (99 bp):
TAAGGTATCGGGTTCACCGTTGTGACCTCAACCTTTCCCTTCAATTCTTCATGGTACCAGAATTG
CAGTTGCGGCCTCAATCTTTCCCATCACATCTTC
Found at i:31680116 original size:49 final size:49
Alignment explanation
Indices: 31679820--31681223 Score: 545
Period size: 49 Copynumber: 28.7 Consensus size: 49
31679810 AGGTACCGAG
* * * * **
31679820 TTCACCGTTGTGACTTCAACCTTTCCCCTCATAT-TCTCATGGTACCAGA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCT-TCATGGTACTGGA
** * * * * * * *
31679869 TTTGCAGTTGCGGCCTCAATCTTTCCCATCACATCTTTTAAGGTA-TCGGG
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATC-TTCATGGTACT-GGA
** * * * * *
31679919 TTCGTCGTTGTGACCTCAACCTTTCCCTTCGTATCTTCATGGTACCGAA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
* * * * * * * *
31679968 TTCATCGTTGTGGCCTCAATC-TT-CCATCACATCTTCTAAGGTATTGGG
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACTGGA
* * *
31680016 TTCACCGTTGCGACCTCAACCTTTCCTTTCA-ATTCTTCGTGGTACCT-GA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATA-TCTTCATGGTA-CTGGA
* * * *
31680065 TTCGCCGTTACGGCCTTAACCTTTCCTTTCATATCTTCATGGTACTGGA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
** ** * * * * * * * *
31680114 TTCACTATTGCTTCTTTAATCCTTT-CCATCGTATCTTTTAAGGTACCGGG
1 TTCACCGTTGCGGCCTCAA-CCTTTCCCTTCATATC-TTCATGGTACTGGA
** * * * *
31680164 TTCACCGTTATGGCCTCAACCTTTCCCTTTAAATCTTCATGGTACCGGG
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
* * * * * * *
31680213 TTCGCCATTGCGACCTCAACCTTTCCCATCACATCTTCACGGTATCAGG-
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTA-CTGGA
* ** * ** * * ** *
31680262 TTTATAGTTTCAACCTCAACCTTTTCCATCGCAT-TTCATAGTA-TCGGA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACT-GGA
*** * * * * *
31680310 TTCGTTGTTGCGGCCTTAATCTTT-CCTATCATATCTTTTAAGGTA-TCGGG
1 TTCACCGTTGCGGCCTCAACCTTTCCCT-TCATATC-TTCATGGTACT-GGA
* ** *
31680360 TTCTCTATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGG
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
** * * * * * *
31680409 TTCACTATTACGGGCTCAACCTTTCCTTTCAAATTTTCATGGTACCGGA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
* * * * * ** * *
31680458 TTCGCCATTACGACTTCAACCTTTTCAATT-ACAT-TTCATGGTACCGGA
1 TTCACCGTTGCGGCCTCAACC-TTTCCCTTCATATCTTCATGGTACTGGA
* * * ** * *
31680506 TTCATCGTTACGACCTCAACCTTTCCCAACACATCTTCATGGTA-TCGGG
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACT-GGA
* * * * ** * * *
31680555 TTTATCGTTGCGGCTTTAACCTTT-TTTATTACAT-TTCATGGTACTTGA
1 TTCACCGTTGCGGCCTCAACCTTTCCCT-TCATATCTTCATGGTACTGGA
** ** ** * * * *
31680603 TTCGTCGTTATGGCCTCAATTTTTCCCATCACATCTTCTAAGGTACCGGA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACTGGA
* * * * * * * * *
31680653 TTCACCATTACGACCTTAACTTTTCCTTTCATATCTTTATGGTACCGGG
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
** * * * * * *
31680702 TTCACCGTTGTTGCCTCAGCCTTTCTCATCGTAT-TTCATGGTACCGAA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
* * * * * * * * *
31680750 TTTACCGTTACGGCCTCAATCTTTTCCATCACATCTTTTAAGGTA-TCGGG
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATC-TTCATGGTACT-GGA
** * * * *
31680800 TTCGTCGTTGCGGCCTTAACCTTTCCCTTCATATCTTCATGATACCGGG
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
* * * * *
31680849 TTCATCGTTACGGCCTCAACTTTTCCCTTCATATCTTCATAGTA-TCGA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
* * * *
31680897 GTTCACCATTGCGGCCTCAACCTTTCCCTTTAAATCTTCATGGTA-TCGGG
1 -TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACT-GGA
** * * * ** * **
31680947 TTTGCCGTTGCGGCTTCAACTTTTCCCATCGCAT-TTCATGTTACCAGA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
* * ** * * * * * *
31680995 TTCACCGTTGTGGCCTTAATTTTTCCCATCACATCTTTTAAGGTACCGGG
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATC-TTCATGGTACTGGA
* * * * *
31681045 TTCGCCGTTGCGGCCTCAACCTTTCCCTTC-TAATTTTTATGATACTGGG
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCAT-ATCTTCATGGTACTGGA
* * * *
31681094 TTCACCGTTACGGCCTCAGCCTTTCCCATCGTAT-TTCATGGTACTGGA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
* * * * * * *
31681142 TTCGCCGTTGCGGCCTCAATCTTTCCCATCACATCTTTTAAGGTA-TCGA
1 TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATC-TTCATGGTACTGGA
* *
31681191 GTTCACCGTTGTGGCCTCAACCTTTCCATTCAT
1 -TTCACCGTTGCGGCCTCAACCTTTCCCTTCAT
31681224 GTTCTCATGT
Statistics
Matches: 999, Mismatches: 311, Indels: 89
0.71 0.22 0.06
Matches are distributed among these distances:
47 18 0.02
48 231 0.23
49 485 0.49
50 261 0.26
51 4 0.00
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (49 bp):
TTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACTGGA
Found at i:31680169 original size:148 final size:148
Alignment explanation
Indices: 31679989--31680256 Score: 340
Period size: 148 Copynumber: 1.8 Consensus size: 148
31679979 GGCCTCAATC
** * *
31679989 TTCCATCACATCTTCTAAGGTATTGGGTTCACCGTTGCGACCTCAACCTTT-CCTTTCAATTCTT
1 TTCCATCACATCTTCTAAGGTACCGGGTTCACCGTTACGACCTCAACCTTTCCCTTT-AAATCTT
* * * * * ** * *
31680053 CGTGGTACCTGATTCGCCGTTACGGCCTTAACCTTTCCTTTCATATCTTCATGGTACTGGATTCA
65 CATGGTACCGGATTCGCCATTACGACCTCAACCTTTCCCATCACATCTTCACGGTACTGGATTCA
31680118 CTATTGCTTCTTTAATCCT
130 CTATTGCTTCTTTAATCCT
** * * *
31680137 TTCCATCGTATCTTTTAAGGTACCGGGTTCACCGTTATGGCCTCAACCTTTCCCTTTAAATCTTC
1 TTCCATCACATCTTCTAAGGTACCGGGTTCACCGTTACGACCTCAACCTTTCCCTTTAAATCTTC
* *
31680202 ATGGTACCGGGTTCGCCATTGCGACCTCAACCTTTCCCATCACATCTTCACGGTA
66 ATGGTACCGGATTCGCCATTACGACCTCAACCTTTCCCATCACATCTTCACGGTA
31680257 TCAGGTTTAT
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
148 94 0.95
149 5 0.05
ACGTcount: A:0.18, C:0.30, G:0.15, T:0.37
Consensus pattern (148 bp):
TTCCATCACATCTTCTAAGGTACCGGGTTCACCGTTACGACCTCAACCTTTCCCTTTAAATCTTC
ATGGTACCGGATTCGCCATTACGACCTCAACCTTTCCCATCACATCTTCACGGTACTGGATTCAC
TATTGCTTCTTTAATCCT
Found at i:31680326 original size:245 final size:245
Alignment explanation
Indices: 31680070--31680941 Score: 621
Period size: 245 Copynumber: 3.6 Consensus size: 245
31680060 CCTGATTCGC
* * * ** * *
31680070 CGTTACGGCCTTAACCTTTCCTTTCATATC-TTCATGGTA-CTGGATTCACTATTGCTTCTTTAA
1 CGTTGCGGCCTTAACCTTTCCTATCATATCTTTCAAGGTATC-GGATTCACTATTGCGGCCTCAA
* * * *
31680133 TCCTTT-CCATCGTATCTTTTAAGGTACCGGGTTCACCGTTATGGCCTCAACCTTTCCCTTT-AA
65 -CCTTTCCCATCATATC-TTCAAGGTACCGGGTTCACCATTACGGCCTCAACCTTT-CCTTTCAA
* * *
31680196 ATCTTCATGGTACCGGGTTCGCCATTGCGACCTCAACCTTTCCCATCACATCTTCACGGTATCAG
127 ATCTTCATGGTACCGGATTCGCCATTACGACCTCAACCTTTCCAATCACAT-TTCACGGTA-CAG
* * * * * *
31680261 G-TTTATAGTTTCAACCTCAACCTTTTCCATCGCAT-TTCATAGTATCGGATTCGT
190 GATTCATAGTTACAACCTCAACCTTTCCCAACACATCTTCATAGTATCGGATTCAT
* * * * *
31680315 TGTTGCGGCCTTAATCTTTCCTATCATATCTTTTAAGGTATCGGGTTCTCTATTGCGGCCTCAAC
1 CGTTGCGGCCTTAACCTTTCCTATCATATCTTTCAAGGTATCGGATTCACTATTGCGGCCTCAAC
* * * * * *
31680380 CTTTCCCTTCATATCTTCATGGTACTGGGTTCACTATTACGGGCTCAACCTTTCCTTTCAAATTT
66 CTTTCCCATCATATCTTCAAGGTACCGGGTTCACCATTACGGCCTCAACCTTTCCTTTCAAATCT
* * * * *
31680445 TCATGGTACCGGATTCGCCATTACGACTTCAACCTTTTCAATTACATTTCATGGTACCGGATTCA
131 TCATGGTACCGGATTCGCCATTACGACCTCAACCTTTCCAATCACATTTCACGGTACAGGATTCA
* * * * *
31680510 TCGTTACGACCTCAACCTTTCCCAACACATCTTCATGGTATCGGGTTTAT
196 TAGTTACAACCTCAACCTTTCCCAACACATCTTCATAGTATCGGATTCAT
* ** * * * * **
31680560 CGTTGCGGCTTTAACCTTTTTTAT--TA-CATTTCATGGTA-CTTGATTC-GTCGTTATGGCCTC
1 CGTTGCGGCCTTAACCTTTCCTATCATATC-TTTCAAGGTATC-GGATTCACT-ATTGCGGCCTC
** * * * * * *
31680620 AATTTTTCCCATCACATCTTCTAAGGTACCGGATTCACCATTACGACCTTAACTTTTCCTTTCAT
63 AACCTTTCCCATCATATCTTC-AAGGTACCGGGTTCACCATTACGGCCTCAACCTTTCCTTTCAA
* * * * ** * ** * *
31680685 ATCTTTATGGTACCGGGTTCACCGTTGTTG-CCTCAGCCTTTCTC-ATCGTATTTCATGGTACCG
127 ATCTTCATGGTACCGGATTCGCCATT-ACGACCTCAACCTTTC-CAATCACATTTCACGGTACAG
* * ** ** * * * * * *
31680748 AATTTACCGTTACGGCCTCAATCTTTTCCATCACATCTT-TTAAGGTATCGGGTTCGT
190 GATTCATAGTTACAACCTCAACCTTTCCCAACACATCTTCAT-A-GTATCGGATTCAT
* * * * * *
31680805 CGTTGCGGCCTTAACCTTTCCCT-TCATATC-TTCATGATACCGGGTTCA-TCGTTACGGCCTCA
1 CGTTGCGGCCTTAACCTTT-CCTATCATATCTTTCAAGGTATCGGATTCACT-ATTGCGGCCTCA
* * * * *
31680867 ACTTTTCCCTTCATATCTTCATA-GTATCGAGTTCACCATTGCGGCCTCAACCTTTCCCTTT-AA
64 ACCTTTCCCATCATATCTTCA-AGGTACCGGGTTCACCATTACGGCCTCAACCTTT-CCTTTCAA
31680930 ATCTTCATGGTA
127 ATCTTCATGGTA
31680942 TCGGGTTTGC
Statistics
Matches: 495, Mismatches: 110, Indels: 44
0.76 0.17 0.07
Matches are distributed among these distances:
242 3 0.01
243 43 0.09
244 152 0.31
245 212 0.43
246 80 0.16
247 4 0.01
248 1 0.00
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (245 bp):
CGTTGCGGCCTTAACCTTTCCTATCATATCTTTCAAGGTATCGGATTCACTATTGCGGCCTCAAC
CTTTCCCATCATATCTTCAAGGTACCGGGTTCACCATTACGGCCTCAACCTTTCCTTTCAAATCT
TCATGGTACCGGATTCGCCATTACGACCTCAACCTTTCCAATCACATTTCACGGTACAGGATTCA
TAGTTACAACCTCAACCTTTCCCAACACATCTTCATAGTATCGGATTCAT
Found at i:31680923 original size:147 final size:148
Alignment explanation
Indices: 31679875--31681217 Score: 683
Period size: 147 Copynumber: 9.1 Consensus size: 148
31679865 CAGATTTGCA
* * * * *
31679875 GTTGCGGCCTCAATCTTTCCCATCACATCTTTTAAGGTATCGGGTTCGTCGTTGTGACCTCAACC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACC
* ** * *
31679940 TTTCCCTTCGTATCTTCATGGTACCGAATTCATCGTTGTGGCCTCAA-TCTT-CCATCACATCTT
66 TTTCCCTTCATATCTTCATGGTACCGGGTTCATCGTTGCGGCCTCAACTTTTCCCATCACATCTT
* *
31680003 C-TAAGGTATTGGGTTCACC
131 CAT-A-GTATCGAGTTCACC
* ** * * * * *
31680022 GTTGCGACCTCAACCTTTCCTTTCA-ATTCTTCGT--GGTACCTGATTCGCCGTTACGGCCTTAA
1 GTTGCGGCCTCAACCTTTCCCATCACA-TCTT-TTAAGGTACCGGGTTCGCCGTTGCGGCCTCAA
* * * * ** * * * **
31680084 CCTTTCCTTTCATATCTTCATGGTACTGGATTCA-CTATTGCTTCTTTAATCCTTT-CCATCGTA
64 CCTTTCCCTTCATATCTTCATGGTACCGGGTTCATC-GTTGCGGCCTCAA-CTTTTCCCATCACA
* * *
31680147 TCTT-TTAAGGTACCGGGTTCACC
127 TCTTCAT-A-GTATCGAGTTCACC
** * * * * * * *
31680170 GTTATGGCCTCAACCTTTCCCTTTAAATC-TTCATGGTACCGGGTTCGCCATTGCGACCTCAACC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACC
* * * * * * * * ** *
31680234 TTTCCCATCACATCTTCACGGTATCAGGTTTATAGTTTCAACCTCAACCTTTT-CCATCGCAT-T
66 TTTCCCTTCATATCTTCATGGTACCGGGTTCATCGTTGCGGCCTCAA-CTTTTCCCATCACATCT
***
31680297 TCATAGTATCG-GATTCGTT
130 TCATAGTATCGAG-TTCACC
* * * * * * **
31680316 GTTGCGGCCTTAATCTTTCCTATCATATCTTTTAAGGTATCGGGTTCTCTATTGCGGCCTCAACC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACC
* * * * * ** * *
31680381 TTTCCCTTCATATCTTCATGGTACTGGGTTCA-CTATTACGGGCTCAACCTTTCCTTTCAAATTT
66 TTTCCCTTCATATCTTCATGGTACCGGGTTCATC-GTTGCGGCCTCAACTTTTCCCATCACATCT
* * *
31680445 TCATGGTACCG-GATTCGCC
130 TCATAGTATCGAG-TTCACC
* * * * * * * * * * ** * *
31680464 ATTACGACTTCAACCTTTTCAATTACA--TTTCATGGTACCGGATTCATCGTTACGACCTCAACC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACC
** * * * * * ** *
31680527 TTTCCCAACACATCTTCATGGTATCGGGTTTATCGTTGCGGCTTTAACCTTTT-TTATTACAT-T
66 TTTCCCTTCATATCTTCATGGTACCGGGTTCATCGTTGCGGCCTCAA-CTTTTCCCATCACATCT
* * **
31680590 TCATGGTACTTGA-TTCGTC
130 TCATAGTA-TCGAGTTCACC
** ** * * * * * * * *
31680609 GTTATGGCCTCAATTTTTCCCATCACATCTTCTAAGGTACCGGATTCACCATTACGACCTTAACT
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACC
* * * ** * * * **
31680674 TTTCCTTTCATATCTTTATGGTACCGGGTTCACCGTTGTTGCCTCAGCCTTTCTCATCGTAT-TT
66 TTTCCCTTCATATCTTCATGGTACCGGGTTCATCGTTGCGGCCTCAACTTTTCCCATCACATCTT
* * * *
31680738 CATGGTACCGAATTTACC
131 CATAGTATCGAGTTCACC
* * * * * *
31680756 GTTACGGCCTCAATCTTTTCCATCACATCTTTTAAGGTATCGGGTTCGTCGTTGCGGCCTTAACC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACC
* * * *
31680821 TTTCCCTTCATATCTTCATGATACCGGGTTCATCGTTACGGCCTCAACTTTTCCCTTCATATCTT
66 TTTCCCTTCATATCTTCATGGTACCGGGTTCATCGTTGCGGCCTCAACTTTTCCCATCACATCTT
31680886 CATAGTATCGAGTTCACC
131 CATAGTATCGAGTTCACC
* * * * * * * * * *
31680904 ATTGCGGCCTCAACCTTTCCCTTTAAATC-TTCATGGTATCGGGTTTGCCGTTGCGGCTTCAACT
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACC
* ** * * * * * * *
31680968 TTTCCCATCGCAT-TTCATGTTACCAGATTCACCGTTGTGGCCTTAATTTTTCCCATCACATCTT
66 TTTCCCTTCATATCTTCATGGTACCGGGTTCATCGTTGCGGCCTCAACTTTTCCCATCACATCTT
* * * *
31681032 -TTAAGGTACCGGGTTCGCC
131 CAT-A-GTATCGAGTTCACC
* * * * * * *
31681051 GTTGCGGCCTCAACCTTTCCCTTCTA-AT-TTTTATGATACTGGGTTCACCGTTACGGCCTCAGC
1 GTTGCGGCCTCAACCTTTCCCATC-ACATCTTTTAAGGTACCGGGTTCGCCGTTGCGGCCTCAAC
* * * * **
31681114 CTTTCCCATCGTAT-TTCATGGTACTGGATTCGCCGTTGCGGCCTCAA-TCTTTCCCATCACATC
65 CTTTCCCTTCATATCTTCATGGTACCGGGTTCATCGTTGCGGCCTCAACT-TTTCCCATCACATC
*
31681177 TT-TTAAGGTATCGAGTTCACC
129 TTCAT-A-GTATCGAGTTCACC
*
31681198 GTTGTGGCCTCAACCTTTCC
1 GTTGCGGCCTCAACCTTTCC
31681218 ATTCATGTTC
Statistics
Matches: 904, Mismatches: 262, Indels: 60
0.74 0.21 0.05
Matches are distributed among these distances:
145 35 0.04
146 206 0.23
147 472 0.52
148 190 0.21
149 1 0.00
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.37
Consensus pattern (148 bp):
GTTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACC
TTTCCCTTCATATCTTCATGGTACCGGGTTCATCGTTGCGGCCTCAACTTTTCCCATCACATCTT
CATAGTATCGAGTTCACC
Found at i:31680985 original size:245 final size:246
Alignment explanation
Indices: 31680163--31681168 Score: 812
Period size: 245 Copynumber: 4.1 Consensus size: 246
31680153 AAGGTACCGG
* *
31680163 GTTCACCGTTATGGCCTCAACCTTTCCCTTT-AAATCTTCATGGTACCGGGTTCGCCATTGCGAC
1 GTTCACCATTACGGCCTCAACCTTTCCCTTTCAAATCTTCATGGTACCGGGTTCGCCATTGCGAC
* * * * ** * *
31680227 CTCAACCTTTCCCATCACATCTTCACGGTATCAGGTTTATAGTTTCAACCTCAACCTTTTCCATC
66 CTCAACCTTTCCCATCACAT-TTCATGGTACCAGATTCACCGTTACGACCTCAACCTTTTCCATC
* * * * * * *
31680292 GCA--TTTCATA-GTATCGGATTCGTTGTTGCGGCCTTAATCTTTCCTATCATATCTTTTAAGGT
130 ACATCTTTCA-AGGTATCGGGTTCGTCGTTGCGGCCTTAACCTTTCCTATCATATC-TTCATGAT
* * * * * *
31680354 ATCGGGTTC-TCTATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTA-CTGG
193 ACCGGGTTCATC-GTTACGGCCTCAACCTTTCCCATCATATCTTCATAGTATC-GA
* * * * *
31680408 GTTCACTATTACGGGCTCAACCTTT-CCTTTCAAATTTTCATGGTACCGGATTCGCCATTACGAC
1 GTTCACCATTACGGCCTCAACCTTTCCCTTTCAAATCTTCATGGTACCGGGTTCGCCATTGCGAC
* * * * * * * *
31680472 TTCAACCTTTTCAATTACATTTCATGGTACCGGATTCATCGTTACGACCTCAACCTTTCCCAACA
66 CTCAACCTTTCCCATCACATTTCATGGTACCAGATTCACCGTTACGACCTCAACCTTTTCCATCA
* ** * ** * * * *
31680537 CATC-TTCATGGTATCGGGTTTATCGTTGCGGCTTTAACCTTTTTTATTACAT-TTCATGGTACT
131 CATCTTTCAAGGTATCGGGTTCGTCGTTGCGGCCTTAACCTTTCCTATCATATCTTCATGATACC
* * * * ** * *
31680600 TGATTCGTCGTTATGGCCTCAATTTTTCCCATCACATCTTC-TAAGGTACCG-
196 GGGTTCATCGTTACGGCCTCAACCTTTCCCATCATATCTTCAT-A-GTATCGA
* * * * * * * *
31680651 GATTCACCATTACGACCTTAA-CTTTTCCTTTCATATCTTTATGGTACCGGGTTCACCGTTGTTG
1 G-TTCACCATTACGGCCTCAACCTTTCCCTTTCAAATCTTCATGGTACCGGGTTCGCCATTG-CG
* * ** * * *
31680715 -CCTCAGCCTTTCTCATCGTATTTCATGGTACC-GAATTTACCGTTACGGCCTCAATCTTTTCCA
64 ACCTCAACCTTTCCCATCACATTTCATGGTACCAG-ATTCACCGTTACGACCTCAACCTTTTCCA
*
31680778 TCACATCTTTTAAGGTATCGGGTTCGTCGTTGCGGCCTTAACCTTTCCCT-TCATATCTTCATGA
128 TCACATCTTTCAAGGTATCGGGTTCGTCGTTGCGGCCTTAACCTTT-CCTATCATATCTTCATGA
* *
31680842 TACCGGGTTCATCGTTACGGCCTCAACTTTTCCCTTCATATCTTCATAGTATCGA
192 TACCGGGTTCATCGTTACGGCCTCAACCTTTCCCATCATATCTTCATAGTATCGA
* * * * *
31680897 GTTCACCATTGCGGCCTCAACCTTTCCCTTT-AAATCTTCATGGTATCGGGTTTGCCGTTGCGGC
1 GTTCACCATTACGGCCTCAACCTTTCCCTTTCAAATCTTCATGGTACCGGGTTCGCCATTGCGAC
* * * * ** * * *
31680961 TTCAACTTTTCCCATCGCATTTCATGTTACCAGATTCACCGTTGTGGCCTTAA-TTTTTCCCATC
66 CTCAACCTTTCCCATCACATTTCATGGTACCAGATTCACCGTTACGACCTCAACCTTTT-CCATC
* * * * * *
31681025 ACATCTTTTAAGGTACCGGGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TC-TAATTTTTATGAT
130 ACATCTTTCAAGGTATCGGGTTCGTCGTTGCGGCCTTAACCTTT-CCTATCAT-ATCTTCATGAT
* * * * * *
31681088 ACTGGGTTCACCGTTACGGCCTCAGCCTTTCCCATCGTAT-TTCATGGTACTGGA
193 ACCGGGTTCATCGTTACGGCCTCAACCTTTCCCATCATATCTTCATAGTA-TCGA
* * * *
31681142 -TTCGCCGTTGCGGCCTCAATCTTTCCC
1 GTTCACCATTACGGCCTCAACCTTTCCC
31681169 ATCACATCTT
Statistics
Matches: 609, Mismatches: 129, Indels: 47
0.78 0.16 0.06
Matches are distributed among these distances:
242 1 0.00
243 42 0.07
244 182 0.30
245 327 0.54
246 56 0.09
247 1 0.00
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (246 bp):
GTTCACCATTACGGCCTCAACCTTTCCCTTTCAAATCTTCATGGTACCGGGTTCGCCATTGCGAC
CTCAACCTTTCCCATCACATTTCATGGTACCAGATTCACCGTTACGACCTCAACCTTTTCCATCA
CATCTTTCAAGGTATCGGGTTCGTCGTTGCGGCCTTAACCTTTCCTATCATATCTTCATGATACC
GGGTTCATCGTTACGGCCTCAACCTTTCCCATCATATCTTCATAGTATCGA
Found at i:31682184 original size:6 final size:6
Alignment explanation
Indices: 31682175--31682218 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
31682165 CGACCTCTCC
* *
31682175 CTTTTT CTTTTT CTTTTTT CCTTTT CTTTTTT CTTCTT CTTTTT
1 CTTTTT CTTTTT C-TTTTT CTTTTT C-TTTTT CTTTTT CTTTTT
31682219 AGGGTGAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 21 0.66
7 11 0.34
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:31682194 original size:13 final size:13
Alignment explanation
Indices: 31682176--31682218 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
31682166 GACCTCTCCC
31682176 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
*
31682189 TTTTTCCTTTTCT
1 TTTTTCTTTTTCT
*
31682202 TTTTTCTTCTTCT
1 TTTTTCTTTTTCT
31682215 TTTT
1 TTTT
31682219 AGGGTGAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:31683106 original size:19 final size:18
Alignment explanation
Indices: 31683082--31683120 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
31683072 TCATCTTGAC
31683082 TTTTTCTTCCTTTTCTTTT
1 TTTTTCTTCCTTTT-TTTT
*
31683101 TTTTTCTTTCTTTTTTTT
1 TTTTTCTTCCTTTTTTTT
31683119 TT
1 TT
31683121 ATATATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTCTTCCTTTTTTTT
Found at i:31683110 original size:14 final size:14
Alignment explanation
Indices: 31683093--31683119 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31683083 TTTTCTTCCT
31683093 TTTCTTTTTTTTTC
1 TTTCTTTTTTTTTC
31683107 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
31683120 TATATATTTT
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:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTCTTTTTTTTTC
Found at i:31688447 original size:300 final size:299
Alignment explanation
Indices: 31687906--31688792 Score: 1735
Period size: 300 Copynumber: 3.0 Consensus size: 299
31687896 GATCTAAAAA
31687906 AACATAAGTATTTTGATAATTTTTTTTATTTTCCCTTTTTGAAATCCTGTCTTTTTTAATTATTA
1 AACATAAGTATTTTGATAATTTTTTTTATTTTCCCTTTTTGAAATCCTGTCTTTTTTAATTATTA
31687971 CTCGTTTTTTTGATTTTTTTCTACAAATGCCTGAATAACAGAGTACCTCTCGAACATAGACGGGT
66 CTCGTTTTTTTGATTTTTTTCTACAAATGCCTGAATAACAGAGTACCTCTCGAACATAGACGGGT
31688036 TTAAAGGGACTCCATTCGTAGTGTCGATGACGACGGTTCAAGATCTAGGTATGTCTCCTCAACTC
131 TTAAAGGGACTCCATTCGTAGTGTCGATGACGACGGTTCAAGATCTAGGTATGTCTCCTCAACTC
31688101 CGTGTTCGTTTTTTTTATTTAATATTATATTTATTATGTATTGAATACTGATTTCGAAATAATAA
196 CGTGTTCGTTTTTTTTATTTAATATTATATTTATTATGTATTGAATACTGATTTCGAAATAATAA
31688166 ATAAATAAAGCTAACAAATATATATATATATATATATAT
261 ATAAATAAAGCTAACAAATATATATATATATATATATAT
31688205 AACATAAGTATTTTGATAATTTTTTTTATTTTCCCTTTTTGAAATCCTGTCTTTTTTAATTATTA
1 AACATAAGTATTTTGATAATTTTTTTTATTTTCCCTTTTTGAAATCCTGTCTTTTTTAATTATTA
31688270 CTCGTTTTTTTGATTTTTTTTCTACAAATGCCTGAATAACAGAGTACCTCTCGAACATAGACGGG
66 CTCGTTTTTTTGA-TTTTTTTCTACAAATGCCTGAATAACAGAGTACCTCTCGAACATAGACGGG
31688335 TTTAAAGGGACTCCATTCGTAGTGTCGATGACGACGGTTCAAGATCTAGGTATGTCTCCTCAACT
130 TTTAAAGGGACTCCATTCGTAGTGTCGATGACGACGGTTCAAGATCTAGGTATGTCTCCTCAACT
31688400 CCGTGTTCGTTTTTTTTATTTAATATTATATTTATTATGTATTGAATACTGATTTCGAAATAATA
195 CCGTGTTCGTTTTTTTTATTTAATATTATATTTATTATGTATTGAATACTGATTTCGAAATAATA
31688465 AATAAATAAAGCTAAC-AA-ATATATATATATATATATAT
260 AATAAATAAAGCTAACAAATATATATATATATATATATAT
31688503 AACATAAGTATTTTGATAA-TTTTTTTATTTTCCCTTTTTGAAATCCTGTCTTTTTTAATTATTA
1 AACATAAGTATTTTGATAATTTTTTTTATTTTCCCTTTTTGAAATCCTGTCTTTTTTAATTATTA
31688567 CTCGTTTTTTTGATTTTTTTCTACAAATGCCTGAATAACAGAGTACCTCTCGAACATAGACGGGT
66 CTCGTTTTTTTGATTTTTTTCTACAAATGCCTGAATAACAGAGTACCTCTCGAACATAGACGGGT
31688632 TTAAAGGGACTCCATTCGTAGTGTCGATGACGACGGTTCAAGATCTAGGTATGTCTCCTCAACTC
131 TTAAAGGGACTCCATTCGTAGTGTCGATGACGACGGTTCAAGATCTAGGTATGTCTCCTCAACTC
31688697 CGTGTTCGTTTTTTTTTATTTAATATTATATTTATTATGTATTGAATACTGATTTCGAAATAATA
196 CGTGTTCG-TTTTTTTTATTTAATATTATATTTATTATGTATTGAATACTGATTTCGAAATAATA
31688762 AATAAATAAAGCTAACAAATATATATATATA
260 AATAAATAAAGCTAACAAATATATATATATA
31688793 ATGAATAAAT
Statistics
Matches: 584, Mismatches: 0, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
296 125 0.21
297 130 0.22
298 41 0.07
299 91 0.16
300 197 0.34
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.43
Consensus pattern (299 bp):
AACATAAGTATTTTGATAATTTTTTTTATTTTCCCTTTTTGAAATCCTGTCTTTTTTAATTATTA
CTCGTTTTTTTGATTTTTTTCTACAAATGCCTGAATAACAGAGTACCTCTCGAACATAGACGGGT
TTAAAGGGACTCCATTCGTAGTGTCGATGACGACGGTTCAAGATCTAGGTATGTCTCCTCAACTC
CGTGTTCGTTTTTTTTATTTAATATTATATTTATTATGTATTGAATACTGATTTCGAAATAATAA
ATAAATAAAGCTAACAAATATATATATATATATATATAT
Found at i:31689377 original size:12 final size:12
Alignment explanation
Indices: 31689355--31689379 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31689345 TAAATTAAAA
31689355 TAAAATTTAATT
1 TAAAATTTAATT
31689367 TAAAATTTAATT
1 TAAAATTTAATT
31689379 T
1 T
31689380 TTATTCTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAATTTAATT
Found at i:31693332 original size:61 final size:61
Alignment explanation
Indices: 31693248--31693381 Score: 252
Period size: 61 Copynumber: 2.2 Consensus size: 61
31693238 CATAACACTA
31693248 TATGAGAATGT-AAGATTTTGGGGTGATCGAAATGTTGAGAATTCAAACAACATAATCTTAG
1 TATG-GAATGTAAAGATTTTGGGGTGATCGAAATGTTGAGAATTCAAACAACATAATCTTAG
31693309 TATGGAATGTAAAGATTTTGGGGTGATCGAAATGTTGAGAATTCAAACAACATAATCTTAG
1 TATGGAATGTAAAGATTTTGGGGTGATCGAAATGTTGAGAATTCAAACAACATAATCTTAG
31693370 TATGGAATGTAA
1 TATGGAATGTAA
31693382 CATTACGGGC
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
60 6 0.08
61 66 0.92
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.31
Consensus pattern (61 bp):
TATGGAATGTAAAGATTTTGGGGTGATCGAAATGTTGAGAATTCAAACAACATAATCTTAG
Found at i:31699432 original size:18 final size:19
Alignment explanation
Indices: 31699409--31699444 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31699399 TCAACAGTAA
*
31699409 ATCCTCC-TTCTCCCAATC
1 ATCCTCCATACTCCCAATC
31699427 ATCCTCCATACTCCCAAT
1 ATCCTCCATACTCCCAAT
31699445 ATCAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.22, C:0.47, G:0.00, T:0.31
Consensus pattern (19 bp):
ATCCTCCATACTCCCAATC
Found at i:31719999 original size:2 final size:2
Alignment explanation
Indices: 31719994--31720018 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31719984 GAGAGACAAT
31719994 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
31720019 TCAGACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:31722928 original size:18 final size:18
Alignment explanation
Indices: 31722901--31722935 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31722891 ATTTAATAAT
* *
31722901 ATAATTACTATAATAAAA
1 ATAATAACTACAATAAAA
31722919 ATAATAACTACAATAAA
1 ATAATAACTACAATAAA
31722936 CAACTGATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAATAACTACAATAAAA
Found at i:31723126 original size:13 final size:13
Alignment explanation
Indices: 31723108--31723134 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31723098 ATTAATTTTT
31723108 TATATATTTTAAA
1 TATATATTTTAAA
31723121 TATATATTTTAAA
1 TATATATTTTAAA
31723134 T
1 T
31723135 TTTATGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATATTTTAAA
Found at i:31723948 original size:31 final size:30
Alignment explanation
Indices: 31723910--31724007 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 30
31723900 TTAATATAAC
*
31723910 ATTTGGTATCTGAATTTGAAATTTTTTCCTA
1 ATTTGGTATCTGAAATTG-AATTTTTTCCTA
* * *
31723941 ATTTGGTACCT-AAATTG--TTTTTGACCCA
1 ATTTGGTATCTGAAATTGAATTTTT-TCCTA
* *
31723969 ATTTGGTATTTGAACTTGACATTTTTTCCTA
1 ATTTGGTATCTGAAATTGA-ATTTTTTCCTA
31724000 ATTTGGTA
1 ATTTGGTA
31724008 CCTAATCTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
27 5 0.09
28 12 0.23
29 5 0.09
30 5 0.09
31 21 0.40
32 5 0.09
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTTGGTATCTGAAATTGAATTTTTTCCTA
Found at i:31724002 original size:59 final size:60
Alignment explanation
Indices: 31723910--31724036 Score: 193
Period size: 59 Copynumber: 2.1 Consensus size: 60
31723900 TTAATATAAC
*
31723910 ATTTGGTATCTGAATTTGAAATTTTTTCCTAATTTGGTACCTAA-ATTGTTTTTGACCCA
1 ATTTGGTATCTGAACTTGAAATTTTTTCCTAATTTGGTACCTAATATTGTTTTTGACCCA
* * * * *
31723969 ATTTGGTATTTGAACTTGACATTTTTTCCTAATTTGGTACCTAATCTTTTTTTTGACCTA
1 ATTTGGTATCTGAACTTGAAATTTTTTCCTAATTTGGTACCTAATATTGTTTTTGACCCA
31724029 ATTTGGTA
1 ATTTGGTA
31724037 CCTAATCTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
59 41 0.67
60 20 0.33
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (60 bp):
ATTTGGTATCTGAACTTGAAATTTTTTCCTAATTTGGTACCTAATATTGTTTTTGACCCA
Found at i:31724032 original size:88 final size:88
Alignment explanation
Indices: 31723937--31724129 Score: 291
Period size: 88 Copynumber: 2.2 Consensus size: 88
31723927 GAAATTTTTT
* *
31723937 CCTAATTTGGTACCTAAAT-TGTTTTTGACCCAATTTGGTATTTGAACTTGACATTTTTTCCTAA
1 CCTAATTTGGTACCTAAATCTGTTTTTGACCCAATTTGGTACTTGAACTTGACACTTTTTCCTAA
*
31724001 TTTGGTACCTAATCTTTTTTTTGA
66 TTTGGTACCTAAAC-TTTTTTTGA
* * *
31724025 CCTAATTTGGTACCT-AATCTTTTTTTGACTCAATTTGGTACTTGAACTTGACACTTTTTCTTAA
1 CCTAATTTGGTACCTAAATCTGTTTTTGACCCAATTTGGTACTTGAACTTGACACTTTTTCCTAA
31724089 TTTGGTACCTAAACTTTTTTTGA
66 TTTGGTACCTAAACTTTTTTTGA
* *
31724112 CCCAATTTGATACCTAAA
1 CCTAATTTGGTACCTAAA
31724130 CTTGGCATTT
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
87 25 0.26
88 70 0.74
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (88 bp):
CCTAATTTGGTACCTAAATCTGTTTTTGACCCAATTTGGTACTTGAACTTGACACTTTTTCCTAA
TTTGGTACCTAAACTTTTTTTGA
Found at i:31724095 original size:59 final size:60
Alignment explanation
Indices: 31724025--31724170 Score: 186
Period size: 59 Copynumber: 2.4 Consensus size: 60
31724015 TTTTTTTTGA
* * * * *
31724025 CCTAATTTGGTACCTAATCTTTTTTTGACTCAATTTGGTACTTGAACTTGACA-CTTTTT
1 CCTAATTTGGTACCTAAACTTTTTTTGACCCAATTTGATACCTAAACTTGACATCTTTTT
* * *
31724084 CTTAATTTGGTACCTAAACTTTTTTTGACCCAATTTGATACCTAAACTTGGCATTTTTTTT
1 CCTAATTTGGTACCTAAACTTTTTTTGACCCAATTTGATACCTAAACTTGACA-TCTTTTT
* *
31724145 CCTAACTTGGTACCTAAGCTTTTTTT
1 CCTAATTTGGTACCTAAACTTTTTTT
31724171 TTTTTTAGAT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 46 0.62
61 28 0.38
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (60 bp):
CCTAATTTGGTACCTAAACTTTTTTTGACCCAATTTGATACCTAAACTTGACATCTTTTT
Found at i:31724130 original size:28 final size:28
Alignment explanation
Indices: 31723940--31724132 Score: 133
Period size: 28 Copynumber: 6.6 Consensus size: 28
31723930 ATTTTTTCCT
31723940 AATTTGGTACCTAAA-TTGTTTTTGACCC
1 AATTTGGTACCTAAACTT-TTTTTGACCC
** * * *
31723968 AATTTGGTATTTGAACTTGACATTTTT-TCCT
1 AATTTGGTACCTAAACTT----TTTTTGACCC
* *
31723999 AATTTGGTACCTAATCTTTTTTTTGACCT
1 AATTTGGTACCTAAAC-TTTTTTTGACCC
* *
31724028 AATTTGGTACCTAATCTTTTTTTGACTC
1 AATTTGGTACCTAAACTTTTTTTGACCC
* * **
31724056 AATTTGGTACTTGAACTTGACACTTTTT--CTT
1 AATTTGGTACCTAAACTT-----TTTTTGACCC
31724087 AATTTGGTACCTAAACTTTTTTTGACCC
1 AATTTGGTACCTAAACTTTTTTTGACCC
*
31724115 AATTTGATACCTAAACTT
1 AATTTGGTACCTAAACTT
31724133 GGCATTTTTT
Statistics
Matches: 130, Mismatches: 22, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
26 5 0.04
28 60 0.46
29 21 0.16
31 32 0.25
32 7 0.05
33 5 0.04
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.47
Consensus pattern (28 bp):
AATTTGGTACCTAAACTTTTTTTGACCC
Found at i:31724383 original size:31 final size:31
Alignment explanation
Indices: 31724348--31724479 Score: 117
Period size: 31 Copynumber: 4.3 Consensus size: 31
31724338 AAAAGATTAG
*
31724348 GTACCAAATTAGGAAAAAGTGTCAAGTTCAA
1 GTACCAAATTAGGAAAAAGTGTCAAGTTTAA
** ****
31724379 GTACCAAATT--GAACCA-CAAAAAGTTTAA
1 GTACCAAATTAGGAAAAAGTGTCAAGTTTAA
* * ** *
31724407 ATACCAACTTAAAAGAAAAGTGTCAAGTTTAG
1 GTACCAAATTAGGA-AAAAGTGTCAAGTTTAA
*
31724439 GTACCAAATTAGGAAAAAATGTCAAGTTTAA
1 GTACCAAATTAGGAAAAAGTGTCAAGTTTAA
31724470 GTACCAAATT
1 GTACCAAATT
31724480 GAATAAAAAA
Statistics
Matches: 74, Mismatches: 23, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
28 15 0.20
29 4 0.05
30 1 0.01
31 37 0.50
32 17 0.23
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (31 bp):
GTACCAAATTAGGAAAAAGTGTCAAGTTTAA
Found at i:31724400 original size:60 final size:60
Alignment explanation
Indices: 31724337--31724448 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 60
31724327 TTAATATTAA
** **
31724337 AAAAAGATTAGGTACCAAATTAGGA-AAAAGTGTCAAGTTCAAGTACCAAATTGAACCAC
1 AAAAAGATTAAATACCAAATTAAAAGAAAAGTGTCAAGTTCAAGTACCAAATTGAACCAC
* * * *
31724396 AAAAAGTTTAAATACCAACTTAAAAGAAAAGTGTCAAGTTTAGGTACCAAATT
1 AAAAAGATTAAATACCAAATTAAAAGAAAAGTGTCAAGTTCAAGTACCAAATT
31724449 AGGAAAAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 19 0.43
60 25 0.57
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.23
Consensus pattern (60 bp):
AAAAAGATTAAATACCAAATTAAAAGAAAAGTGTCAAGTTCAAGTACCAAATTGAACCAC
Found at i:31724437 original size:32 final size:31
Alignment explanation
Indices: 31724399--31724514 Score: 104
Period size: 31 Copynumber: 3.9 Consensus size: 31
31724389 GAACCACAAA
* *
31724399 AAGTTTAAATACCAACTTA-AAAGAAAAGTGTC
1 AAGTTTAAGTACCAAATTAGAAA-AAAA-TGTC
* *
31724431 AAGTTTAGGTACCAAATTAGGAAAAAATGTC
1 AAGTTTAAGTACCAAATTAGAAAAAAATGTC
31724462 AAGTTTAAGTACCAAATT-GAATAAAAA----
1 AAGTTTAAGTACCAAATTAGAA-AAAAATGTC
31724489 AAGTTT-AGATACCAAATTA-AAAAAAA
1 AAGTTTAAG-TACCAAATTAGAAAAAAA
31724515 GTATAAATTC
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
26 7 0.09
27 17 0.23
30 2 0.03
31 26 0.35
32 20 0.27
33 2 0.03
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.25
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAGAAAAAAATGTC
Found at i:31724501 original size:27 final size:25
Alignment explanation
Indices: 31724462--31724514 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 25
31724452 AAAAAATGTC
31724462 AAGTTTAAGTACCAAATTGAATAAAAA
1 AAGTTTAAGTACCAAATT-AA-AAAAA
31724489 AAGTTT-AGATACCAAATTAAAAAAA
1 AAGTTTAAG-TACCAAATTAAAAAAA
31724514 A
1 A
31724515 GTATAAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 6 0.24
26 4 0.16
27 15 0.60
ACGTcount: A:0.58, C:0.08, G:0.09, T:0.25
Consensus pattern (25 bp):
AAGTTTAAGTACCAAATTAAAAAAA
Found at i:31725587 original size:60 final size:57
Alignment explanation
Indices: 31725455--31725639 Score: 180
Period size: 60 Copynumber: 3.2 Consensus size: 57
31725445 TTAATATAAT
* * *
31725455 ATTTGGTACCTGAATTTGATATATTTT-TTAATTTGGTACCT-AA-TTTTTTTGACCCA
1 ATTTGGTA-CTGAACTTGACAT-TTTTCTTAATTTGGTACCTAAACTTTTTTTGATCCA
* *
31725511 ATTTGGTACTTAAACTTGACACTTTTTCTTAATTTGATACCTAAACTTTTTTTGGATCCA
1 ATTTGGTAC-TGAACTTGACA-TTTTTCTTAATTTGGTACCTAAACTTTTTTT-GATCCA
* * * *
31725571 ATTTGGTATCTGAACTT-AGCATTTTTCCTAATTTGGTACCTAAGCATTTTTTTATATTCA
1 ATTTGGTA-CTGAACTTGA-CATTTTTCTTAATTTGGTACCTAAAC-TTTTTTT-GATCCA
31725631 ATTTGGTAC
1 ATTTGGTAC
31725640 CAAAATTTAT
Statistics
Matches: 108, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
55 1 0.01
56 20 0.19
57 14 0.13
58 2 0.02
59 30 0.28
60 40 0.37
61 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (57 bp):
ATTTGGTACTGAACTTGACATTTTTCTTAATTTGGTACCTAAACTTTTTTTGATCCA
Found at i:31725903 original size:31 final size:30
Alignment explanation
Indices: 31725847--31725982 Score: 100
Period size: 31 Copynumber: 4.5 Consensus size: 30
31725837 GGACCCCAAA
* * * *
31725847 AAGTTTAAGTACCAACTTGAAAAAAATAGTC
1 AAGTTTAGGTACCAATTTGGAAAAAGT-GTC
*
31725878 AAGTTTAGGTACCAATTTAGGAAAAAGTGAC
1 AAGTTTAGGTACCAATTT-GGAAAAAGTGTC
* * **
31725909 AAGTTT-GAGCACCAAATTGGACAAAA---AA
1 AAGTTTAG-GTACCAATTTGGA-AAAAGTGTC
31725937 AAGTTTAGGTACCAAATTTGGAAAAAGTGTC
1 AAGTTTAGGTACC-AATTTGGAAAAAGTGTC
* *
31725968 AAGTTCAGATACCAA
1 AAGTTTAGGTACCAA
31725983 ATGTTATATT
Statistics
Matches: 83, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
28 15 0.18
29 8 0.10
30 6 0.07
31 47 0.57
32 7 0.08
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (30 bp):
AAGTTTAGGTACCAATTTGGAAAAAGTGTC
Found at i:31727074 original size:40 final size:40
Alignment explanation
Indices: 31727029--31727109 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
31727019 TTGGTCCCTC
**
31727029 TCAA-TTCTGAATTTGAGCAAATTAGTCCCTCTCAAAAAAA
1 TCAATTTC-GAATTTGAGCAAATTAACCCCTCTCAAAAAAA
31727069 TCAATTTCGAATTTGAGCAAATTAACCCCTCTCAAAAAAA
1 TCAATTTCGAATTTGAGCAAATTAACCCCTCTCAAAAAAA
31727109 T
1 T
31727110 TGGAGCAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 35 0.92
41 3 0.08
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (40 bp):
TCAATTTCGAATTTGAGCAAATTAACCCCTCTCAAAAAAA
Found at i:31727693 original size:5 final size:5
Alignment explanation
Indices: 31727683--31727707 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
31727673 GGGAAAAGAG
31727683 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
31727708 CAAAGAGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:31728568 original size:26 final size:27
Alignment explanation
Indices: 31728537--31728601 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 27
31728527 AGTAAAAATA
31728537 ATTTAAAATTTCTATATAAAAATATTT
1 ATTTAAAATTTCTATATAAAAATATTT
* *
31728564 A-TTAAAA-TACTATATAAAATTATTT
1 ATTTAAAATTTCTATATAAAAATATTT
*
31728589 ATTTGAAATTTCT
1 ATTTAAAATTTCT
31728602 TTTTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 17 0.53
26 11 0.34
27 4 0.12
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTTAAAATTTCTATATAAAAATATTT
Found at i:31731806 original size:21 final size:21
Alignment explanation
Indices: 31731782--31731831 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
31731772 CAATGCAGAT
* *
31731782 TTCTACAGATACAAGTGATAG
1 TTCTACAGATACAAGTGACAC
*
31731803 TTCTACCGATACAAGTGACAC
1 TTCTACAGATACAAGTGACAC
31731824 TTCTACAG
1 TTCTACAG
31731832 GCACAAGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (21 bp):
TTCTACAGATACAAGTGACAC
Found at i:31735127 original size:28 final size:28
Alignment explanation
Indices: 31735047--31735161 Score: 99
Period size: 28 Copynumber: 4.1 Consensus size: 28
31735037 AAAGGTGTCC
* *
31735047 TTTGACAGAGATT-GCCACAAAGGCATCC
1 TTTGACAGAG-TTAGCCACAAAGGCTTCT
* * * *
31735075 TTTGATAAAGTCAGCCATAAAGGCTTCT
1 TTTGACAGAGTTAGCCACAAAGGCTTCT
*
31735103 TTTGACAGAGTTAGGCACAAAGGCTTCT
1 TTTGACAGAGTTAGCCACAAAGGCTTCT
* * * *
31735131 TTCGAGAG-GTTCGCCACAAAGGTGTTCT
1 TTTGACAGAGTTAGCCACAAAGG-CTTCT
31735159 TTT
1 TTT
31735162 CTAGAGATAT
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
27 13 0.19
28 55 0.81
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (28 bp):
TTTGACAGAGTTAGCCACAAAGGCTTCT
Found at i:31737602 original size:2 final size:2
Alignment explanation
Indices: 31737595--31737628 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
31737585 GCTATAGATA
* *
31737595 AT AT AT AT AT AT TT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31737629 TTATCTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:31737613 original size:10 final size:10
Alignment explanation
Indices: 31737598--31737632 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
31737588 ATAGATAATA
31737598 TATATATATTT
1 TATATATA-TT
31737609 ATATATATATT
1 -TATATATATT
31737620 TATATATATT
1 TATATATATT
31737630 TAT
1 TAT
31737633 CTATTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 2 0.09
12 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATATATT
Found at i:31737613 original size:12 final size:12
Alignment explanation
Indices: 31737596--31737628 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
31737586 CTATAGATAA
31737596 TATATATATATT
1 TATATATATATT
31737608 TATATATATATT
1 TATATATATATT
31737620 TATATATAT
1 TATATATAT
31737629 TTATCTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATATATATT
Found at i:31737893 original size:22 final size:22
Alignment explanation
Indices: 31737852--31737894 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31737842 TTTTTCTTGT
* *
31737852 TCTTCTTCTTTTTGTGATAATA
1 TCTTCTTCTTTCTCTGATAATA
*
31737874 TCTTCTTCTTTCTCTTATAAT
1 TCTTCTTCTTTCTCTGATAAT
31737895 TTGTTAATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.19, G:0.05, T:0.60
Consensus pattern (22 bp):
TCTTCTTCTTTCTCTGATAATA
Found at i:31738060 original size:17 final size:17
Alignment explanation
Indices: 31738038--31738070 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31738028 TTTAGGTTCC
31738038 TTTGAAAGCTT-TAAAAA
1 TTTGAAA-CTTCTAAAAA
31738055 TTTGAAACTTCTAAAA
1 TTTGAAACTTCTAAAA
31738071 GAAGTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (17 bp):
TTTGAAACTTCTAAAAA
Found at i:31741565 original size:6 final size:6
Alignment explanation
Indices: 31741554--31741593 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
31741544 TTTGTACTAA
* *
31741554 AATTCG AATTCG AATTCG AATTCG AGTTCG AGTTCG AATT
1 AATTCG AATTCG AATTCG AATTCG AATTCG AATTCG AATT
31741594 GATAATTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (6 bp):
AATTCG
Found at i:31743539 original size:14 final size:14
Alignment explanation
Indices: 31743520--31743554 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
31743510 TGTTTAACTG
*
31743520 AAAATGGTTTCTGA
1 AAAATGATTTCTGA
*
31743534 AAAATGATTTTTGA
1 AAAATGATTTCTGA
31743548 AAAATGA
1 AAAATGA
31743555 ATTGCTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:31746898 original size:158 final size:158
Alignment explanation
Indices: 31746610--31746932 Score: 520
Period size: 158 Copynumber: 2.0 Consensus size: 158
31746600 ATCTCTGTAT
* * * * *
31746610 CATGTAGTGCTCACACGAGCTGTGAAATGGGTCTGCTCACATGAGCTGTGGGTCGAGATGTTAGT
1 CATGTAATGCTCACACGAGCTGTGAAATGGGCCTGCTCACACGAGCTGTGGGTCAAGATGTTAGG
* * *
31746675 CTACACAATGCTGCTCACACGAGCTGTGGAGAATTCGCAACATATGTCGGATCTCAGCCATCGGT
66 CTACACAATACTGCTCACACGAGCTGTGGAGAATCCGCAACAAATGTCGGATCTCAGCCATCGGT
*
31746740 AAGACATCTAAGACCAGCATCCATATAA
131 AAGACATCTAAGACCAGCACCCATATAA
* *
31746768 CATGTAATGCTCACACGAGCTGTGGAGTGGGCCTGCTCACACGAGCTGTGGGTCAAGATGTTAGG
1 CATGTAATGCTCACACGAGCTGTGAAATGGGCCTGCTCACACGAGCTGTGGGTCAAGATGTTAGG
* *
31746833 CTACACAATATTGCTCACACGAGCTGTGGAGAATCCGCAACAAATGTCGGATCTTAGCCATCGGT
66 CTACACAATACTGCTCACACGAGCTGTGGAGAATCCGCAACAAATGTCGGATCTCAGCCATCGGT
*
31746898 AGGACATCTAAGACCAGCACCCATATAA
131 AAGACATCTAAGACCAGCACCCATATAA
31746926 CATGTAA
1 CATGTAA
31746933 ATCTCGAAAT
Statistics
Matches: 151, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
158 151 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (158 bp):
CATGTAATGCTCACACGAGCTGTGAAATGGGCCTGCTCACACGAGCTGTGGGTCAAGATGTTAGG
CTACACAATACTGCTCACACGAGCTGTGGAGAATCCGCAACAAATGTCGGATCTCAGCCATCGGT
AAGACATCTAAGACCAGCACCCATATAA
Found at i:31750250 original size:19 final size:20
Alignment explanation
Indices: 31750212--31750251 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
31750202 TCCCAGAAAT
*
31750212 CCAGAAGGAGAAAGAACCCA
1 CCAGAAGGACAAAGAACCCA
*
31750232 CCAGAA-GACAAATAACCCA
1 CCAGAAGGACAAAGAACCCA
31750251 C
1 C
31750252 AAAAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.50, C:0.30, G:0.17, T:0.03
Consensus pattern (20 bp):
CCAGAAGGACAAAGAACCCA
Done.