Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold16
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: 5287347
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 8769 characters in sequence are not A, C, G, or T
File 31 of 35
Found at i:4499658 original size:126 final size:123
Alignment explanation
Indices: 4499426--4499858 Score: 488
Period size: 126 Copynumber: 3.5 Consensus size: 123
4499416 TATAATATCT
** * * * *
4499426 TAAACATGATTTTAACATATAAAATTATATGAATACAACACAAATTTATACTTTTTAACCAAAAA
1 TAAACATGATTTTAACACGTAAAATTATACGAATACAACATAAATTCATA-TTTTTATCCAAAAA
** * * *
4499491 ATACAAATTTATTTTGAAAGTCATATTTTTAATGTTTAATGAATTCATATTAAAAAAATCTAA
65 ATATGAATTTA-TTTAAAAATC--ATTTTTAATATTTAATGAATTCATATT-AAAAAATCTAA
4499554 TAAACATGA-TTTAACACGTAAAATTATACGAATACAACATAAATTCATATTTTTATCCAAAAAA
1 TAAACATGATTTTAACACGTAAAATTATACGAATACAACATAAATTCATATTTTTATCCAAAAAA
4499618 TATGAATTTAGTTTAAAAATCATGCTTTTAATATTTAATGAATTCATATT-AAAAATCTAA
66 TATGAATTTA-TTTAAAAATCAT--TTTTAATATTTAATGAATTCATATTAAAAAATCTAA
* * *
4499678 TAAACATGATTTTAACAC--AAAATTATACGAATA-AAC--ACATTCGTTTTTTTAT-CAAAAAA
1 TAAACATGATTTTAACACGTAAAATTATACGAATACAACATAAATTCATATTTTTATCCAAAAAA
* * *
4499737 TATGAATTTATTTACAACTATTATTTTTAATATTTAATGAATTCACATTAAAAAATCTAA
66 TATGAATTTATTTA-AA-AATCATTTTTAATATTTAATGAATTCATATTAAAAAATCTAA
* * * * * * **
4499797 TAAATATGATTTTAATATGTAAAATTATATGCATATAACATAAATTTGTATTTTT-TCCAAAA
1 TAAACATGATTTTAACACGTAAAATTATACGAATACAACATAAATTCATATTTTTATCCAAAA
4499859 TTATTTGTAT
Statistics
Matches: 267, Mismatches: 26, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
118 28 0.10
119 44 0.16
120 17 0.06
121 13 0.05
122 6 0.02
123 16 0.06
124 37 0.14
125 8 0.03
126 54 0.20
127 35 0.13
128 9 0.03
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (123 bp):
TAAACATGATTTTAACACGTAAAATTATACGAATACAACATAAATTCATATTTTTATCCAAAAAA
TATGAATTTATTTAAAAATCATTTTTAATATTTAATGAATTCATATTAAAAAATCTAA
Found at i:4504450 original size:11 final size:10
Alignment explanation
Indices: 4504434--4504485 Score: 52
Period size: 11 Copynumber: 4.9 Consensus size: 10
4504424 CTAGTTTTTA
4504434 TTTTTTTTC-
1 TTTTTTTTCT
*
4504443 TCTTTTTTCT
1 TTTTTTTTCT
4504453 TTCTTTTTTCAT
1 TT-TTTTTTC-T
4504465 TTTTTTCTCTCT
1 TTTTTT-T-TCT
4504477 TTTTTTTTC
1 TTTTTTTTC
4504486 CTAGCCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 8 0.22
10 3 0.08
11 12 0.33
12 11 0.31
13 2 0.06
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:4504461 original size:20 final size:20
Alignment explanation
Indices: 4504436--4504481 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
4504426 AGTTTTTATT
*
4504436 TTTTTTC-TCTTTTTTCTTTC
1 TTTTTTCAT-TTTTTTCTCTC
4504456 TTTTTTCATTTTTTTCTCTC
1 TTTTTTCATTTTTTTCTCTC
4504476 TTTTTT
1 TTTTTT
4504482 TTTCCTAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTCATTTTTTTCTCTC
Found at i:4504612 original size:16 final size:17
Alignment explanation
Indices: 4504581--4504614 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4504571 GCCGAATGGC
*
4504581 CATTACTTTTTCTTTTT
1 CATTACTTTTTATTTTT
4504598 CATTA-TTTTTATTTTT
1 CATTACTTTTTATTTTT
4504614 C
1 C
4504615 CCATTTTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (17 bp):
CATTACTTTTTATTTTT
Found at i:4507144 original size:19 final size:18
Alignment explanation
Indices: 4507103--4507154 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
4507093 CCTTCGTTGT
*
4507103 AAAAAAATTAATATATACA
1 AAAAAAATTAA-AAATACA
*
4507122 AAAAAAATTAAAAATTCA
1 AAAAAAATTAAAAATACA
4507140 GAAAATAAATTAAAA
1 -AAAA-AAATTAAAA
4507155 TTTTCAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.17
19 15 0.52
20 9 0.31
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAAAAATTAAAAATACA
Found at i:4507538 original size:161 final size:167
Alignment explanation
Indices: 4507280--4507805 Score: 505
Period size: 166 Copynumber: 3.2 Consensus size: 167
4507270 GAACAAGGAG
* * * * *
4507280 ATTTCAAAGAAAAAAATTC-AAAATTCATGAAAATGAATTGAA-TTTTCAAAACTAATTTAATGA
1 ATTTC-AAGAAAAGAATTCAAAAACTCATGAAAATGAA-TGAATTTTTGAAAAATAACTTAAT-A
** * * ** * * * *
4507343 -GAATTCCATGACATTA-TTAGATGAATTATAAAAATTTAAAATTGAAGAAAA-CCCCCCGAAAA
63 TGAATTAAATAATAACATTTA-ATGAATTTTAAAAATTTAAAAAT-AAGAAAATCCCCTCAAAAA
* * * *
4507405 CATTTATAGGA-TAGAAAA-T-T-CAATTTTTCAGAA-AA-A-T
126 CATTTATAGAAGTAGAAAACTCTGC-A-TTTTAAAAATAAGAGA
* * *
4507442 ATTTCAAGGAAA-AATTCAAAAACTCATGAGAATGAATGAATTTTTGATAAATAACTTAATATGT
1 ATTTCAAGAAAAGAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAACTTAATATG-
* *
4507506 AA-TAAATAATAACATTTAATGAATTTTAAAAA-TTAAAAACCAAGAAAATCCCCTTAAAAACAT
65 AATTAAATAATAACATTTAATGAATTTTAAAAATTTAAAAA-TAAGAAAATCCCCTCAAAAACAT
*
4507569 TTA-CGAAGTAGAAAACTCTGCATTTTAAAAATAAGAGA
129 TTATAGAAGTAGAAAACTCTGCATTTTAAAAATAAGAGA
* * *
4507607 ATTTCAAGAAAAGAATTCAAAAATTCATGAAAATGAATGAATTTTTGAAAAATAATTTACTATGA
1 ATTTCAAGAAAAGAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAACTTAATATGA
* *
4507672 ATTAAATAATAATATTTTATGAATTTTAAAAA-TTAAAAACTAAGAAAAATCCCCTCAAAAACAT
66 ATTAAATAATAACATTTAATGAATTTTAAAAATTTAAAAA-TAAG-AAAATCCCCTCAAAAACAT
* **
4507736 TTATA-AAGTAGAAAACTCCGCATTTTGGAAATAAGAGA
129 TTATAGAAGTAGAAAACTCTGCATTTTAAAAATAAGAGA
* *
4507774 ATTTCAAGAAAA-AATTTAAAAACTCATTAAAA
1 ATTTCAAGAAAAGAATTCAAAAACTCATGAAAA
4507806 ACTGATTTAA
Statistics
Matches: 305, Mismatches: 41, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
160 25 0.08
161 78 0.26
162 18 0.06
163 4 0.01
164 2 0.01
165 13 0.04
166 102 0.33
167 63 0.21
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (167 bp):
ATTTCAAGAAAAGAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAACTTAATATGA
ATTAAATAATAACATTTAATGAATTTTAAAAATTTAAAAATAAGAAAATCCCCTCAAAAACATTT
ATAGAAGTAGAAAACTCTGCATTTTAAAAATAAGAGA
Found at i:4507680 original size:166 final size:166
Alignment explanation
Indices: 4507442--4507805 Score: 543
Period size: 166 Copynumber: 2.2 Consensus size: 166
4507432 TCAGAAAAAT
* * *
4507442 ATTTCAAGGAAAAATTCAAAAACTCATGAGAATGAATGAATTTTTGATAAATAACTTAATATGTA
1 ATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAACTTAATATGTA
*
4507507 ATAAATAATAACATTTAATGAATTTTAAAAATTAAAAACCAAG-AAAATCCCCTTAAAAACATTT
66 ATAAATAATAACATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAACATTT
* *
4507571 ACGAAGTAGAAAACTCTGCATTTTAAAAATAAGAGA
131 ACAAAGTAGAAAACTCCGCATTTTAAAAATAAGAGA
* * *
4507607 ATTTCAAGAAAAGAATTCAAAAATTCATGAAAATGAATGAATTTTTGAAAAATAATTTACTATG-
1 ATTTCAAGAAAA-AATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAACTTAATATGT
* * *
4507671 AATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCTCAAAAACAT
65 AA-TAAATAATAACATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAACAT
* **
4507736 TTATAAAGTAGAAAACTCCGCATTTTGGAAATAAGAGA
129 TTACAAAGTAGAAAACTCCGCATTTTAAAAATAAGAGA
* *
4507774 ATTTCAAGAAAAAATTTAAAAACTCATTAAAA
1 ATTTCAAGAAAAAATTCAAAAACTCATGAAAA
4507806 ACTGATTTAA
Statistics
Matches: 178, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
165 13 0.07
166 102 0.57
167 63 0.35
ACGTcount: A:0.52, C:0.10, G:0.09, T:0.30
Consensus pattern (166 bp):
ATTTCAAGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAAATAACTTAATATGTA
ATAAATAATAACATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAACATTT
ACAAAGTAGAAAACTCCGCATTTTAAAAATAAGAGA
Found at i:4507924 original size:149 final size:149
Alignment explanation
Indices: 4507661--4507930 Score: 323
Period size: 149 Copynumber: 1.8 Consensus size: 149
4507651 TTGAAAAATA
* * * *
4507661 ATTTACTATGAATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCC
1 ATTTAATATAAATTAAATAATAATATTTTATGAATTTAAAAAATTAAAAACCAAGAAAAATCCCC
* * * * *
4507726 TCAAAAACATTTATAAAGTAGAAAACTCCGCATTTTGGAAATAAGAGAATTTCAAGAAAAAATTT
66 TCAAAAACATTTATAAAGAAGAAAACTCAGCATTTCGAAAACAAGAGAATTTCAAGAAAAAATTT
4507791 AAAAACTCATTAAAAACTG
131 AAAAACTCATTAAAAACTG
* * *
4507810 ATTTAATATAAATTAAATAATAATATTTTATGGATTTAAAAAATTACAAACCAAGAAAAATTCCT
1 ATTTAATATAAATTAAATAATAATATTTTATGAATTTAAAAAATTAAAAACCAAGAAAAA-TCCC
* * ** *
4507875 TTGAAATAA-A-TTATGGAGAAGAAATCTTCAG-ATTTCGAAAACCAA-AGAATTTCAAG
65 CTCAAA-AACATTTATAAAGAAGAAAAC-TCAGCATTTCGAAAA-CAAGAGAATTTCAAG
4507931 TGAAAAATGA
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
149 85 0.85
150 13 0.13
151 2 0.02
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (149 bp):
ATTTAATATAAATTAAATAATAATATTTTATGAATTTAAAAAATTAAAAACCAAGAAAAATCCCC
TCAAAAACATTTATAAAGAAGAAAACTCAGCATTTCGAAAACAAGAGAATTTCAAGAAAAAATTT
AAAAACTCATTAAAAACTG
Found at i:4511052 original size:34 final size:34
Alignment explanation
Indices: 4510997--4511062 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
4510987 AAATCGTTAC
* *
4510997 CTTTAAGGCAAAGGTATAACCTTACAA-CACTAT
1 CTTTAAGGCAAAGATAGAACCTTACAATCACTAT
* *
4511030 CTTTCAAGGCTAAGATAGAACCTTTCAATCACT
1 CTTT-AAGGCAAAGATAGAACCTTACAATCACT
4511063 CCGAGAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 4 0.15
34 19 0.70
35 4 0.15
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (34 bp):
CTTTAAGGCAAAGATAGAACCTTACAATCACTAT
Found at i:4511613 original size:20 final size:20
Alignment explanation
Indices: 4511590--4511641 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
4511580 TAATTCATAG
*
4511590 TGTATCGATACAAAGTAATT
1 TGTATCGATACAAAGCAATT
**
4511610 TGTATCGATACTTAGCAATT
1 TGTATCGATACAAAGCAATT
*
4511630 TGTATAGATACA
1 TGTATCGATACA
4511642 TCTAGGTACG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAGCAATT
Found at i:4512233 original size:20 final size:20
Alignment explanation
Indices: 4512208--4512246 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4512198 ATATTGGCCA
4512208 AATGTATCGATACATTAGGC
1 AATGTATCGATACATTAGGC
*
4512228 AATGTATCGATACCTTAGG
1 AATGTATCGATACATTAGG
4512247 GATTTAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTAGGC
Found at i:4514696 original size:16 final size:17
Alignment explanation
Indices: 4514662--4514708 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
4514652 TTCTTAGTGA
*
4514662 AAAAAAAACCAAAAGGAG
1 AAAAAAAA-GAAAAGGAG
*
4514680 AAAAGAAAGAAAA-GAG
1 AAAAAAAAGAAAAGGAG
4514696 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
4514709 AAAATAAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 15 0.58
17 4 0.15
18 7 0.27
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAGGAG
Found at i:4515375 original size:21 final size:21
Alignment explanation
Indices: 4515342--4515382 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4515332 CTAAGTAAAA
4515342 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
4515363 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
4515383 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:4515447 original size:20 final size:20
Alignment explanation
Indices: 4515418--4515491 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
4515408 CAAAACCCTG
4515418 AAAA-GTATCGATACACATT
1 AAAATGTATCGATACACATT
* *
4515437 TAAATGTATCGATACAGATT
1 AAAATGTATCGATACACATT
** * *
4515457 GCAA-GTATTGATACACA-C
1 AAAATGTATCGATACACATT
4515475 AAATATGTATCGATACA
1 AAA-ATGTATCGATACA
4515492 GGACATTGGC
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
18 1 0.02
19 15 0.36
20 26 0.62
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (20 bp):
AAAATGTATCGATACACATT
Found at i:4515552 original size:53 final size:53
Alignment explanation
Indices: 4515461--4515597 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
4515451 CAGATTGCAA
*
4515461 GTATTGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
4515515 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
4515568 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
4515598 TTGATAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:4515640 original size:10 final size:10
Alignment explanation
Indices: 4515621--4515651 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4515611 AATCTCATTT
4515621 TCACTGTTCA
1 TCACTGTTCA
*
4515631 TCACTATTCA
1 TCACTGTTCA
4515641 TCACTGTTCA
1 TCACTGTTCA
4515651 T
1 T
4515652 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:4515673 original size:21 final size:21
Alignment explanation
Indices: 4515647--4515687 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4515637 TTCATCACTG
4515647 TTCATGTATCGATACATCACC
1 TTCATGTATCGATACATCACC
4515668 TTCATGTATCGATACATCAC
1 TTCATGTATCGATACATCAC
4515688 TGTTCATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (21 bp):
TTCATGTATCGATACATCACC
Found at i:4516877 original size:29 final size:29
Alignment explanation
Indices: 4516793--4516878 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
4516783 AATTCCATGC
* * *
4516793 ATTTTAGGATCATTTAGGTTATTTTATGT
1 ATTTTAGGGTCATTTAAGTTATTTTATAT
* *
4516822 AATTTAGGGACCATTTAA--TAGTCTTTATAT
1 ATTTTAGGG-TCATTTAAGTTA-T-TTTATAT
4516852 ATTTTAGGGTCATTTAAGTTATTTTAT
1 ATTTTAGGGTCATTTAAGTTATTTTAT
4516879 GTAATCTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
28 2 0.04
29 20 0.44
30 21 0.47
31 2 0.04
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (29 bp):
ATTTTAGGGTCATTTAAGTTATTTTATAT
Found at i:4517000 original size:116 final size:116
Alignment explanation
Indices: 4516852--4517063 Score: 291
Period size: 116 Copynumber: 1.8 Consensus size: 116
4516842 GTCTTTATAT
* * * *
4516852 ATTTTAGGGTCATTTAAGTTATTTTATGTAATCTAAAGACCCTTTAGCATTTTCGATGCA-TTTA
1 ATTTTACGGTCATTTAAGCTATTTTATATAATCTAAAGACCATTTAGCATTTTCGATGCATTTTA
* * *
4516916 GGGTCATTAAGGTTATTCTACATAATCGAAGGACCATCTAGCATTCTCATGC
66 AGGCCATTAAGGTAATTCTACATAATC-AAGGACCATCTAGCATTCTCATGC
* ** *
4516968 ATTTTACGGTCATTTAGGCTATTTTATATAATCTAGGGACCATTTAGCATTTTCTATGCATTTTA
1 ATTTTACGGTCATTTAAGCTATTTTATATAATCTAAAGACCATTTAGCATTTTCGATGCATTTTA
* *
4517033 AGGCCATTTAGGTAATTTTACATAATCAAGG
66 AGGCCATTAAGGTAATTCTACATAATCAAGG
4517064 GTTAGTTTAG
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
116 56 0.68
117 26 0.32
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (116 bp):
ATTTTACGGTCATTTAAGCTATTTTATATAATCTAAAGACCATTTAGCATTTTCGATGCATTTTA
AGGCCATTAAGGTAATTCTACATAATCAAGGACCATCTAGCATTCTCATGC
Found at i:4517051 original size:59 final size:59
Alignment explanation
Indices: 4516789--4517108 Score: 260
Period size: 58 Copynumber: 5.5 Consensus size: 59
4516779 AGCAAATTCC
* * ** *
4516789 ATGCATTTT-AGGATCATTTAGGTTATTTTATGTAATTTAGGGACCATTTAATAGTCTTTAT
1 ATGCATTTTAAGG-TCATTTAGGTTATTTTATATAATCTAGGGACCATTTAGCA-T-TTTCT
* * * ** * *
4516850 AT--ATTTTAGGGTCATTTAAGTTATTTTATGTAATCTAAAGACCCTTTAGCATTTTCG
1 ATGCATTTTAAGGTCATTTAGGTTATTTTATATAATCTAGGGACCATTTAGCATTTTCT
* * * * * * * *
4516907 ATGCA-TTTAGGGTCATTAAGGTTATTCTACATAATCGAAGGACCATCTAGCATTCTC-
1 ATGCATTTTAAGGTCATTTAGGTTATTTTATATAATCTAGGGACCATTTAGCATTTTCT
* *
4516964 ATGCATTTTACGGTCATTTAGGCTATTTTATATAATCTAGGGACCATTTAGCATTTTCT
1 ATGCATTTTAAGGTCATTTAGGTTATTTTATATAATCTAGGGACCATTTAGCATTTTCT
* * * * **
4517023 ATGCATTTTAAGGCCATTTAGGTAATTTTACATAATCAAGGG-TTAGTTTAGCATTTTC-
1 ATGCATTTTAAGGTCATTTAGGTTATTTTATATAATCTAGGGACCA-TTTAGCATTTTCT
* * * *
4517081 ATACTTTTTAA-GACATTTTGGTTATTTT
1 ATGCATTTTAAGGTCATTTAGGTTATTTT
4517109 CTCAGCATTT
Statistics
Matches: 211, Mismatches: 42, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
57 24 0.11
58 96 0.45
59 87 0.41
60 2 0.01
61 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.44
Consensus pattern (59 bp):
ATGCATTTTAAGGTCATTTAGGTTATTTTATATAATCTAGGGACCATTTAGCATTTTCT
Found at i:4518451 original size:79 final size:79
Alignment explanation
Indices: 4518346--4518552 Score: 254
Period size: 79 Copynumber: 2.6 Consensus size: 79
4518336 GAGATAATAA
* * * * * *
4518346 CGGGGTTAGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA
1 CGGGATTAGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAAT-A
* *
4518411 -TTAGGAAATAAAAT
65 TTTAGAAAATAAAAC
* * *
4518425 CGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGATTAGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAT
* *
4518490 TTTGAAAATAAAGC
66 TTAGAAAATAAAAC
* **
4518504 CGGGGTTAGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGATTAGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
4518553 GAAATAACGA
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 1 0.01
79 108 0.99
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (79 bp):
CGGGATTAGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATAT
TTAGAAAATAAAAC
Found at i:4518632 original size:51 final size:51
Alignment explanation
Indices: 4518571--4518678 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
4518561 GAGGTATGAG
* * * *
4518571 TATCCTTGATTGTGAAAAACTAGTGTTTTGGAAATAAAATCGGAGTTGGAA
1 TATCCCTGATTGTGAAAAACTAGTGTTTTAGAAATAAAACCGGAGTTCGAA
* * * * * *
4518622 TATCCCTGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTCGAG
1 TATCCCTGATTGTGAAAAACTAGTGTTTTAGAAATAAAACCGGAGTTCGAA
4518673 TATCCC
1 TATCCC
4518679 CTCGAGAATA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (51 bp):
TATCCCTGATTGTGAAAAACTAGTGTTTTAGAAATAAAACCGGAGTTCGAA
Found at i:4518759 original size:52 final size:51
Alignment explanation
Indices: 4518691--4519036 Score: 267
Period size: 51 Copynumber: 6.6 Consensus size: 51
4518681 CGAGAATAAT
4518691 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
* * * ** ** * *
4518742 GAGGGTTGGAGCATCCCC---T-CGAAAATAATGGGGTTGGAGTATCCCCGATGATTAA-C
1 G-GGGTTGGAGTATCCCCGATTATGAAAA-ATTGATGTTTTAG-A-----AAT-A-AAACC
* * * * * *
4518798 AGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATG-TTTTAGAAATAAAACC
* * * * * *
4518850 GGAGTTGGAGTATCCCCAATTAAAGGAAAATTGGTGTTTT-GAAAACAAAACC
1 GGGGTTGGAGTATCCCCGATT-ATGAAAAATTGATGTTTTAG-AAATAAAACC
* *
4518902 GGGGTTGGAGTATCCCCGATTGTGAAAAATT-AGTGTTTTAGAACTAAAACC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAACC
* *
4518953 GGGGTTGGAGTATCCCCGATTGTGAAAAATT-AGTGTTTTAGAACTAAAACC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAACC
*
4519004 GGGGTTGGAGTATTCCCGATTATGAAAAATTGA
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGA
4519037 GAAACTTAAC
Statistics
Matches: 235, Mismatches: 39, Indels: 41
0.75 0.12 0.13
Matches are distributed among these distances:
48 5 0.02
49 9 0.04
50 1 0.00
51 105 0.45
52 67 0.29
53 13 0.06
55 16 0.07
56 2 0.01
57 2 0.01
58 7 0.03
59 8 0.03
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACC
Found at i:4518779 original size:80 final size:79
Alignment explanation
Indices: 4518615--4518790 Score: 262
Period size: 80 Copynumber: 2.2 Consensus size: 79
4518605 TAAAATCGGA
* * * * * * *
4518615 GTTGGAATATCCCTGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTCGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTCGAGCATCCCC
*
4518680 TCGAGAATAATGGG
66 TCGAAAATAATGGG
*
4518694 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGGTTGGAGCATCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCG-GGGTTCGAGCATCCC
4518759 CTCGAAAATAATGGG
65 CTCGAAAATAATGGG
4518774 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
4518791 GATTAACAGG
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 43 0.49
80 44 0.51
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTCGAGCATCCCC
TCGAAAATAATGGG
Found at i:4518836 original size:237 final size:238
Alignment explanation
Indices: 4518415--4518918 Score: 653
Period size: 237 Copynumber: 2.1 Consensus size: 238
4518405 CGATGATTAG
* * *
4518415 GAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAG
1 GAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAA
* * * **
4518480 AAATCAATATTTTGAAAATAAAGCCGGGGTTAGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTA
66 AAATCAATATTTTGAAAATAAAACCGGGGTTAGAGCATCCCCTCGAAAATAACGGGGTTGGAGTA
*
4518545 TCCCCGATGAAATAACGAGGTATGAGTATCCTTGATTGTGAAAAACTAGTG-TTTTGGAAATAAA
131 TCCCCGATGAAATAACGAGGTATGAGTATCCTCGATTGTGAAAAACTAGTGTTTTTGGAAATAAA
** ** *
4518609 ATCGGAGTTGGAATATCCCTGATT-GTGGAGAATTGGTGTTTT
196 ATCGGAGTTGGAATATCCCCAATTAAAGGAAAATTGGTGTTTT
* * *
4518651 AGAAATAAAACCGGGGTTCGAGTATCCCCTC-GAGAATAATGGGGTTGGAGTATCCCCGATTATG
1 -GAAATAAAACCGGGGTTGGAGTATCCCCTCGGA-AATAACGGGGTTGGAGTATCCCCAATTATG
** * * *
4518715 AAAAATTGATGTTTT-AGAAATAAAACCGAGGGTTGGAGCATCCCCTCGAAAATAATGGGGTTGG
64 AAAAATCAATATTTTGA-AAATAAAACCG-GGGTTAGAGCATCCCCTCGAAAATAACGGGGTTGG
* * *
4518779 AGTATCCCCGATG-ATTAAC-AGGGT-TGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGA
127 AGTATCCCCGATGAAATAACGA-GGTAT-GAGTATCCTCGATTGTGAAAAACTAGTGTTTTTGGA
*
4518841 AATAAAATCGGAGTTGGAGTATCCCCAATTAAAGGAAAATTGGTGTTTT
190 AATAAAATCGGAGTTGGAATATCCCCAATTAAAGGAAAATTGGTGTTTT
*
4518890 GAAAACAAAACCGGGGTTGGAGTATCCCC
1 G-AAATAAAACCGGGGTTGGAGTATCCCC
4518919 GATTGTGAAA
Statistics
Matches: 231, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
236 5 0.02
237 109 0.47
238 77 0.33
239 40 0.17
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (238 bp):
GAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAA
AAATCAATATTTTGAAAATAAAACCGGGGTTAGAGCATCCCCTCGAAAATAACGGGGTTGGAGTA
TCCCCGATGAAATAACGAGGTATGAGTATCCTCGATTGTGAAAAACTAGTGTTTTTGGAAATAAA
ATCGGAGTTGGAATATCCCCAATTAAAGGAAAATTGGTGTTTT
Found at i:4518951 original size:51 final size:51
Alignment explanation
Indices: 4518799--4519034 Score: 312
Period size: 51 Copynumber: 4.6 Consensus size: 51
4518789 ATGATTAACA
* * * * *
4518799 GGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTG-TTTTAGAACTAAAACCG
* * ** * * *
4518851 GAGTTGGAGTATCCCCAATTAAAGGAAAATTGGTGTTTTGAAAAC-AAAACCG
1 GGGTTGGAGTATCCCCGATT-GTGAAAAATTAGTGTTTT-AGAACTAAAACCG
4518903 GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAACTAAAACCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAACTAAAACCG
4518954 GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAACTAAAACCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAACTAAAACCG
* *
4519005 GGGTTGGAGTATTCCCGATTATGAAAAATT
1 GGGTTGGAGTATCCCCGATTGTGAAAAATT
4519035 GAGAAACTTA
Statistics
Matches: 162, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
50 4 0.02
51 100 0.62
52 45 0.28
53 13 0.08
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAACTAAAACCG
Found at i:4521412 original size:13 final size:13
Alignment explanation
Indices: 4521394--4521419 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4521384 ACAAAGATCG
4521394 ATGTATCGATACA
1 ATGTATCGATACA
4521407 ATGTATCGATACA
1 ATGTATCGATACA
4521420 TTTCCTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4521475 original size:19 final size:18
Alignment explanation
Indices: 4521451--4521513 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
4521441 AGCAGTACAT
4521451 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
4521470 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
4521483 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
4521502 TGTATCGATACA
1 TGTATCGATACA
4521514 TTTTCTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:4521487 original size:32 final size:32
Alignment explanation
Indices: 4521446--4521515 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
4521436 TTCATAGCAG
4521446 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
*
4521478 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
4521510 TACATT
1 TACATT
4521516 TTCTGTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Found at i:4521488 original size:13 final size:13
Alignment explanation
Indices: 4521470--4521494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4521460 ACAAAACTTA
4521470 TGTATCGATACAT
1 TGTATCGATACAT
4521483 TGTATCGATACA
1 TGTATCGATACA
4521495 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4521543 original size:19 final size:19
Alignment explanation
Indices: 4521482--4521543 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
4521472 TATCGATACA
*
4521482 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ATTGT
* **
4521501 ATGTATCGATACATTTTCTGT
1 TTGTATCGATACA-AAT-TGT
4521522 TTGTATCGATACAAATTGT
1 TTGTATCGATACAAATTGT
4521541 TTG
1 TTG
4521544 AAATTCAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (19 bp):
TTGTATCGATACAAATTGT
Found at i:4528018 original size:273 final size:273
Alignment explanation
Indices: 4526821--4530064 Score: 2257
Period size: 273 Copynumber: 12.0 Consensus size: 273
4526811 TAAAAATCTT
* * * * * *
4526821 CACATTAATATTGCCAAACTCTTCCTTATTCCATCTCTTTAAAAATGACTTTACATTCTTTAGCC
1 CACATCAATATTGACAAACTCTTCTTTATTCCAAC-CTTTAAAAATGACTTTACCTTCTTTAGCT
* * * * *
4526886 TAATTTTGAGACAATGCCTTACGTCACCATCAATCTCCATATTTTCCCACACTTATTTAAGTTTT
65 TGATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTTTT
* * * * * * * * * *
4526951 TTAAGAAGACTATCATTAAACCAATAGTCAAACATTTTAAACAAG-CTTAGGCTTCACTTAGAGT
130 TTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAA-TAGTCTTAGGCCTCACTCAAAAT
* * * * * * *
4527015 GAT-TTGTAGCTAACAAAATAAGGCAATGATTGGAGATATTACTCG-TCAATACCCTTGAACTTA
194 GATCTT-CAACTAACAAAATGAGGCAATGATCGAAGATATTACTTGATCAACACCCTTGAACTTA
*
4527078 AGTTTTTAAAGGATAA
258 AGTTTTTAAAGAATAA
* * * * * * *
4527094 CACATCAATATTGCCAAATTATTTTTTATTCCAACTCTTCAAAAATGACTTTATCTTCCTTAGCT
1 CACATCAATATTGACAAACTCTTCTTTATTCCAAC-CTTTAAAAATGACTTTACCTTCTTTAGCT
* * * * ** * * *
4527159 TGGTTTTGAGATAATGCCTTACATCACTC-TCAATCTTTATAGTTTCCCATATTTGTTTAAGTTT
65 TGATCTTGAGACAATGCCCTACATCAC-CATCAATCTCCATATTTTCCCACACTTGTTTAAGTTT
* * * * * * * *
4527223 CTTAATAAGACTATCATGAAACCAATAATCAAACATTTGAAAT-GATCTTGGGCCTCATTCAAAA
129 TTTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAATAG-TCTTAGGCCTCACTCAAAA
* * * * * * *
4527287 TGATATGCAACTAAAAAAAAT-AGGGCAATGATCGAAGATGTTACTCG-TTAACACCCTTAAACT
193 TGATCTTCAACT-AACAAAATGA-GGCAATGATCGAAGATATTACTTGATCAACACCCTTGAACT
* **
4527350 TAAGTTTTCAAAGAATTT
256 TAAGTTTTTAAAGAATAA
* * * * *
4527368 TATATCAATATTGCCAAACTCTT-TTATATTCCAACTCTTAAAAAATGACTTTACCTTCCTTA-C
1 CACATCAATATTGACAAACTCTTCTT-TATTCCAAC-CTTTAAAAATGACTTTACCTTCTTTAGC
* * * * * *
4527431 ATTGATTTTGAAACAATGCCTTA-TTCACCATCAATCTCCATATTTTTCAACACTTGTTTAAGTT
64 -TTGATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTT
* * * * * * *
4527495 TTTTAACAAAATCATCATTAAACCAACAATCAAACATTTTAAATGGTCTTGGGCCTTACTTAGAA
128 TTTTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAATAGTCTTAGGCCTCACTCAAAA
* * * * * * * *
4527560 TGAT-TTGCAACTAAC--TA-G-GGTAATGA-CTGGAGACATTACTTG-TTAATACCCTCGAATT
193 TGATCTT-CAACTAACAAAATGAGGCAATGATC-GAAGATATTACTTGATCAACACCCTTGAACT
* *
4527618 TAAGCTTTTAAAGAATAG
256 TAAGTTTTTAAAGAATAA
* * * *
4527636 CACAGT-AATATTGTCAAACTCTTCTTTATTCCAACTTTTCAAAAATGACTTTA-TTTTTCTTAG
1 CACA-TCAATATTGACAAACTCTTCTTTATTCCAACCTTT-AAAAATGACTTTACCTTCT-TTAG
* * * * * * * *
4527699 CTTAATCTTGAGATAATGCCTTTCATCACAATGAATCTCCATATTTTCCCACATTTGATTAAGTT
63 CTTGATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTT
* * ** * * *
4527764 TCTAAATAAGGCTATCATTAAACTAACAATCAAATATTTTAAATAGTCTTAGGCCTCACTCAAAA
128 TTTTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAATAGTCTTAGGCCTCACTCAAAA
* * * * * **
4527829 TGAAT-TTTAGCTAACATAGTGAGGCAATGGTCGAAGATATTACTTGAAAAACACCCTTGAACTT
193 TG-ATCTTCAACTAACAAAATGAGGCAATGATCGAAGATATTACTTGATCAACACCCTTGAACTT
*
4527893 AAGTTTTTAATGAATAA
257 AAGTTTTTAAAGAATAA
* * *
4527910 CACATCAATATT-ACAAAATCTTATTTATTCCAACCATTTAAAAATGACTTTATCTTCTTTAGCT
1 CACATCAATATTGACAAACTCTTCTTTATTCCAACC-TTTAAAAATGACTTTACCTTCTTTAGCT
** * * * ** * * * *
4527974 CAATCTTGAGTCAATGCCCTACATAACCTTCAATCTTTATATTTTTCCACATTTATTTATGTTTT
65 TGATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTTTT
* * * *
4528039 TTAATAAGACCATCATTAAACTAACAATTAAACATTTTAAATAGTCTTAGGCC-CTATTCAAAAT
130 TTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAATAGTCTTAGGCCTC-ACTCAAAAT
* *
4528103 GATCTGCAACTAACAAAATG-GGCTAATGATCAAAGAAATGAATTATCAACACCCTAGAAATGAC
194 GATCTTCAACTAACAAAATGAGGC-AATGATC---G-AA-G-A-TAT---TA--CT-----TG--
* *
4528167 TTATCAACACCCTTGAACTTAAGTTTTTAAGGAATTA
239 --ATCAACACCCTTGAACTTAAGTTTTTAAAGAATAA
* * * * * *
4528204 CATATCAATATTGGCAAACTCTTCTTTATTCAAACTTTTCAAAAATGACTTTACTTTCCTTAGCT
1 CACATCAATATTGACAAACTCTTCTTTATTCCAACCTTT-AAAAATGACTTTACCTTCTTTAGCT
* * * * * *
4528269 TGATCTTTAAACAATGCCCTACATCACCATTAATCTCTATATTTTCTCATACTTGTTTAAGTTTT
65 TGATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTTTT
* * * * * *
4528334 TTAATAAGATCA-CATTAAACTAATAACCAAACATTTTAAATAGTCTTAAGCCTCACT-AAGAAT
130 TTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAATAGTCTTAGGCCTCACTCAA-AAT
* * * * ** ** * *
4528397 GATCTACAACTAATAAAATG-GAGCAATGAT-TAGAGACATTAC-ACATCAATGCCCCTAAACTT
194 GATCTTCAACTAACAAAATGAG-GCAATGATCGA-AGATATTACTTGATCAACACCCTTGAACTT
4528459 AAGTTTTTAAAGAATAA
257 AAGTTTTTAAAGAATAA
* * * * * * **
4528476 CACATTAATATTG-CTAAACTTTTCTTTTTTCCAATTCTTCAAAAGTGGTTTTACCTT-TTATAG
1 CACATCAATATTGAC-AAACTCTTCTTTATTCCAA-CCTTTAAAAATGACTTTACCTTCTT-TAG
* * * *
4528539 CTTGATCTTGAAATAATGCCCTACATCACCATCAATTTCCATATTTTCCCACACTTGTTTAGGTT
63 CTTGATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTT
* * * * * * * * * *
4528604 TCTCAATAAAACCATCATGAAACCAATAATTAAACATTTTAAATTA-TTTTTGGCCCCACTTAGA
128 TTTTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAA-TAGTCTTAGGCCTCACTCAAA
* * * * * *
4528668 ATGAT-TTGCAGCTAACAGAATGAGGCAATGATCGAAAATATTA-TTCA-AAAAACACCTTGAAC
192 ATGATCTT-CAACTAACAAAATGAGGCAATGATCGAAGATATTACTTGATCAACAC-CCTTGAAC
4528730 TTAAGTTTTTAAAGAATAA
255 TTAAGTTTTTAAAGAATAA
* * * *
4528749 CACATCAATATTGACAAACTCTTCTTTATTCCAAATCTTCAAAAATGACTTTAACTTCCTTAGCT
1 CACATCAATATTGACAAACTCTTCTTTATTCC-AACCTTTAAAAATGACTTTACCTTCTTTAGCT
* * * * *
4528814 TGATCTTAAGATAATGCCC-A-A--ACCTTCAATCTTCATATTTTTCCACA----TTTAAGTTTT
65 TGATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTTTT
* * * * *
4528871 TTAATAAAACCATCATTAAACCAACAATTAAACATTTTAAATGGT-TTTGG--GC-C-CAGAATG
130 TTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAATAGTCTTAGGCCTCACTCAAAATG
* * * * * * *
4528931 ATCTACAACTAACAAAATG-GCCTAATGATTGGAGACT-TTAC-TCATCAACACCTTTGAATTTA
195 ATCTTCAACTAACAAAATGAGGC-AATGATCGAAGA-TATTACTTGATCAACACCCTTGAACTTA
*
4528993 AGTTTTTAAAGAATTA
258 AGTTTTTAAAGAATAA
** * * * * * *
4529009 CATTTCAATATT-CCTAAACTTTTATTTATTCTAACTCTTCAAAAATGATTTTACCTT-TTT---
1 CACATCAATATTGAC-AAACTCTTCTTTATTCCAAC-CTTTAAAAATGACTTTACCTTCTTTAGC
* *** * **
4529069 TAGATCTTGAGACAATGCCCTACATCGTTATTAATCTTTATATTTTCCCACACTTGTTTAAGTTT
64 TTGATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTTT
* * * * * *
4529134 CTCAATAAAACCATCATTAAATCAACAATCAAACATCTTAAACAGTCTTAGGCCTCACTTAAAAT
129 TTTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAATAGTCTTAGGCCTCACTCAAAAT
* ** * * *
4529199 GATCTACAGGTAACAAAAT-AGGGCAATGATC-AGAGATATTA-TTCATCAATACCCTTAAACTT
194 GATCTTCAACTAACAAAATGA-GGCAATGATCGA-AGATATTACTTGATCAACACCCTTGAACTT
4529261 AAGTTTTTAAAGAATAA
257 AAGTTTTTAAAGAATAA
* * * * *
4529278 CACATTAATATT-ATTAAACTCTTGTTTATTCCAACTTTTCAAAAATGACTTTACCTT-TATGAG
1 CACATCAATATTGA-CAAACTCTTCTTTATTCCAACCTTT-AAAAATGACTTTACCTTCT-TTAG
* * * *
4529341 CTTGATCTTGAGAAAATGCTCTACATCACCACCAATCTCCATATTTTCCCACACTTATTTAAG--
63 CTTGATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTT
* * * * *
4529404 -----AT-----TATCATTAAATCAACAGTCAAACATTTTAAA-GGTCTT-GGACC-CACTTAAA
128 TTTTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAATAGTCTTAGG-CCTCACTCAAA
* * * * * * *
4529456 AAGATCTACAGCTAATAAAATG-GGACAA-GATCGGATATATTAC-TCATCAACACCCTTGAACT
192 ATGATCTTCAACTAACAAAATGAGG-CAATGATCGAAGATATTACTTGATCAACACCCTTGAACT
4529518 TAAG-TTTTAAAGAATAA
256 TAAGTTTTTAAAGAATAA
* * *
4529535 CACATCAATATTG-------C--C-----TCCAACTTTTCAAAATTG-CTTCACCTT-TTTAAGC
1 CACATCAATATTGACAAACTCTTCTTTATTCCAACCTTT-AAAAATGACTTTACCTTCTTT-AGC
* * * * *
4529584 TTGATCTTGAGATAATGCCCTCCATCACCATGAATTTTCATATTTTCCCACACTTGTTTAAGTTT
64 TTGATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTTT
* * * * *
4529649 CTCAAGAAGACCATCATTAAACCAATAATCAAACATTTTAAATAGTCTCTA-GCCTCACTCAAAA
129 TTTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAATAGTCT-TAGGCCTCACTCAAAA
* * * * * * * * *
4529713 TAATCTGCAGCTAACAAAACGGGGCAATGAT-GAGAGACATTAC-TCATCAACACTCTTAAACTT
193 TGATCTTCAACTAACAAAATGAGGCAATGATCGA-AGATATTACTTGATCAACACCCTTGAACTT
*
4529776 AAGTTTTTAAAAAATAA
257 AAGTTTTTAAAGAATAA
* * * * *
4529793 CACATCAATATTGCCAAACTCTTCTTTATTCCAGCTCTTCAAAAATGACTTT-GC--CTTTAGCG
1 CACATCAATATTGACAAACTCTTCTTTATTCCAAC-CTTTAAAAATGACTTTACCTTCTTTAGCT
* * * * * * *
4529855 TGATCTTGAGATAAGGCCCTACATCACCATCAATCTCTATATTTTCCCATAGTTGTTCAAGTTTC
65 TGATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTTTT
* * * * * * *
4529920 TCAATAAGATCATTATTAAACCAACAATCAAATATTTTAAATAATCTT-GTGCTTCACTCAAAAT
130 TTAATAAAACCATCATTAAACCAACAATCAAACATTTTAAATAGTCTTAG-GCCTCACTCAAAAT
* ** * * * * * * ** *
4529984 GATCTGCTGCAAACAAAATAAGGCAATGGTCGGAGACATTAC-TCATCAACACCCTTGATTTTGA
194 GATCTTCAACTAACAAAATGAGGCAATGATCGAAGATATTACTTGATCAACACCCTTGAACTTAA
*
4530048 GTTTTTAATGAATAA
259 GTTTTTAAAGAATAA
4530063 CA
1 CA
4530065 AGCATTCAGC
Statistics
Matches: 2370, Mismatches: 449, Indels: 307
0.76 0.14 0.10
Matches are distributed among these distances:
241 1 0.00
242 66 0.03
243 17 0.01
249 1 0.00
250 1 0.00
254 27 0.01
255 6 0.00
256 47 0.02
257 58 0.02
258 60 0.03
259 38 0.02
260 128 0.05
261 35 0.01
262 1 0.00
264 54 0.02
265 52 0.02
266 2 0.00
267 7 0.00
268 107 0.05
269 228 0.10
270 185 0.08
271 8 0.00
272 167 0.07
273 654 0.28
274 182 0.08
276 1 0.00
277 2 0.00
278 1 0.00
279 1 0.00
280 3 0.00
282 1 0.00
283 1 0.00
284 1 0.00
285 2 0.00
287 2 0.00
288 1 0.00
289 2 0.00
290 3 0.00
293 2 0.00
294 111 0.05
295 104 0.04
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.35
Consensus pattern (273 bp):
CACATCAATATTGACAAACTCTTCTTTATTCCAACCTTTAAAAATGACTTTACCTTCTTTAGCTT
GATCTTGAGACAATGCCCTACATCACCATCAATCTCCATATTTTCCCACACTTGTTTAAGTTTTT
TAATAAAACCATCATTAAACCAACAATCAAACATTTTAAATAGTCTTAGGCCTCACTCAAAATGA
TCTTCAACTAACAAAATGAGGCAATGATCGAAGATATTACTTGATCAACACCCTTGAACTTAAGT
TTTTAAAGAATAA
Found at i:4528164 original size:22 final size:22
Alignment explanation
Indices: 4528136--4528179 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4528126 TAATGATCAA
4528136 AGAAATGAATTATCAACACCCT
1 AGAAATGAATTATCAACACCCT
*
4528158 AGAAATGACTTATCAACACCCT
1 AGAAATGAATTATCAACACCCT
4528180 TGAACTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.23
Consensus pattern (22 bp):
AGAAATGAATTATCAACACCCT
Found at i:4529262 original size:529 final size:526
Alignment explanation
Indices: 4526891--4530065 Score: 1903
Period size: 542 Copynumber: 5.9 Consensus size: 526
4526881 TAGCCTAATT
* * * ** * * * *
4526891 TTGAGACAATGCCTTACGTCACCATCAATCTCCATATTTTCCCACACTTATTTAAGTTTTTTAAG
1 TTGAGATAATGCCCTACATCACCATCAAT-TTTATATTTTCCCACACTTGTTTAAGTTTCTCAAT
* * * * * * * *
4526956 AAGACTATCATTAAACCAATAGTCAAACATTTTAAACAAG-CTTAGGCTTCACTTAGAGTGATTT
65 AAAACCATCATTAAACCAATAATCAAACATTTTAAA-TAGTCTTAGGCCTCACTTAAAATGATCT
* * ** * * * *
4527020 GTAGCTAACAAAATAAGGCAATGATTGGAGATATTACTCGTCAATACCCTTGAACTTAAGTTTTT
129 GCAGCTAACAAAAT-GGGCAATGATCAGAGATATTATTCATCAACACCCTTAAACTTAAGTTTTT
* * * * * * *
4527085 AAAGGATAACACATCAATATTGCCAAATTATTTTTTATTCCAACTCTTCAAAAATGACTTTATCT
193 AAAGAATAACACATCAATATTGACAAACTCTTCTTTATTCCAAATCTTCAAAAATGACTTTAACT
* * * * * * * * * *
4527150 TCCTTAGCTTGGTTTTGAGATAATGCCTTACATCACTCTCAATCTTTATAGTTTCCCATATTTGT
258 TCCTTAGCTTGATCTTAAGAAAATGCC-CACAAC-CT-TCAATCTTCATATTTTTCCACA----T
* * * * * *
4527215 TTAAGTTTCTTAATAAGA-CTATCATGAAACCAATAATCAAACATTTGAAATGATCTTGGGCCTC
316 TTAAGTTTTTTAATAAGATC-ATCATTAAACCAACAATCAAACATTTTAAATGGT-TTTGGCC-C
* * * * * * * * * *
4527279 ATTCAAAATGATATGCAACTAAAAAAAATAGGGCAATGATCGAAGA-TGTTACTCGTTAACACCC
378 ACT-AGAATGATCTACAACT-AATAAAAT-GGACAATGATTGGAGACT-TTACTCATCAACACCC
* * *** *
4527343 TTAAACTTAAGTTTTCAAAGAAT-TTTATATCAATATTGCC-AAACTCTTTTATATTCCAACTCT
439 TTGAACTTAAGTTTTTAAAGAATAACAAT-TCAATATT-CCTAAACT-TTTT-T-TTTCAACTCT
* * * *
4527406 TAAAAAATGACTTTACCTTCCTTACATTGATT
499 TCAAAAATG-TTTTACCTT--TT-TATTGATC
* * * * ** * * * * *
4527438 TTGAAACAATGCCTTA-TTCACCATCAATCTCCATATTTTTCAACACTTGTTTAAGTTTTTTAAC
1 TTGAGATAATGCCCTACATCACCATCAAT-TTTATATTTTCCCACACTTGTTTAAGTTTCTCAAT
* * * * * * *
4527502 AAAATCATCATTAAACCAACAATCAAACATTTTAAATGGTCTTGGGCCTTACTTAGAATGATTTG
65 AAAACCATCATTAAACCAATAATCAAACATTTTAAATAGTCTTAGGCCTCACTTAAAATGATCTG
* * * * * * * * ** * *
4527567 CAACTAAC--TA-GGGTAATGA-CTGGAGACATTACTT-GTTAATACCCTCGAATTTAAGCTTTT
130 CAGCTAACAAAATGGGCAATGATC-AGAGATATTA-TTCATCAACACCCTTAAACTTAAGTTTTT
* * * * **
4527627 AAAGAATAGCACAGT-AATATTGTCAAACTCTTCTTTATTCCAACTTTTCAAAAATGACTTTATT
193 AAAGAATAACACA-TCAATATTGACAAACTCTTCTTTATTCCAAATCTTCAAAAATGACTTTAAC
* * * * ** * * *
4527691 TTTCTTAGCTTAATCTTGAGATAATGCCTTTCATC-ACAATGAATCTCCATATTTTCCCACATTT
257 TTCCTTAGCTTGATCTTAAGAAAATGCC---CA-CAACCTTCAATCTTCATATTTTTCCACA--T
* * * * * * *
4527755 GATTAAGTTTCTAAATAAG-GCTATCATTAAACTAACAATCAAATATTTTAAATAGTCTTAGGCC
316 --TTAAGTTTTTTAATAAGATC-ATCATTAAACCAACAATCAAACATTTTAAATGGT-TTTGGCC
* ** * * * * * * * * * **
4527819 TCACTCAAAATGAAT-TTTAGCTAACATAGTGAGGCAATGGTCGAAGA-TATTACTTGAAAAACA
377 -CACT-AGAATG-ATCTACAACTAATAAAATG-GACAATGATTGGAGACT-TTAC-TCATCAACA
* * * * *
4527882 CCCTTGAACTTAAGTTTTTAATGAATAACACA-TCAATATTACAAAATCTTATTTATTCCAAC-C
436 CCCTTGAACTTAAGTTTTTAAAGAATAACA-ATTCAATATTCCTAAA-CTT-TTTTTTTCAACTC
* * * **
4527945 ATTTAAAAATGACTTTATCTTCTTTAGCTCAATC
498 -TTCAAAAATG-TTTTACCTT-TTTA--TTGATC
* * * * * * * *
4527979 TTGAG-TCAATGCCCTACATAACCTTCAATCTTTATATTTTTCCACATTTATTTATGTTTTTTAA
1 TTGAGAT-AATGCCCTACATCACCATCAAT-TTTATATTTTCCCACACTTGTTTAAGTTTCTCAA
* * * *
4528043 TAAGACCATCATTAAACTAACAATTAAACATTTTAAATAGTCTTAGGCC-CTA-TTCAAAATGAT
64 TAAAACCATCATTAAACCAATAATCAAACATTTTAAATAGTCTTAGGCCTC-ACTT-AAAATGAT
* *
4528106 CTGCAACTAACAAAATGGGCTAATGATCAAAGAAATGAATTATCAACACCCTAGAAATGACTTAT
127 CTGCAGCTAACAAAATGGGC-AATGATC--AG--A-G-A-TAT--------T----AT---TCAT
* * * * *
4528171 CAACACCCTTGAACTTAAGTTTTTAAGGAATTACATATCAATATTGGCAAACTCTTCTTTATT-C
169 CAACACCCTTAAACTTAAGTTTTTAAAGAATAACACATCAATATTGACAAACTCTTCTTTATTCC
* *
4528235 AAACTTTTCAAAAATGACTTT-ACTTTCCTTAGCTTGATCTTTAA-ACAATGCCCTACATCACCA
234 AAA-TCTTCAAAAATGACTTTAAC-TTCCTTAGCTTGATC-TTAAGAAAATGCCC-ACA--ACC-
* * * *
4528298 TT-AATC-TCTATATTTTCTCATACTTGTTTAAGTTTTTTAATAAGATCA-CATTAAACTAATAA
292 TTCAATCTTC-ATATTTT-TC-CAC--ATTTAAGTTTTTTAATAAGATCATCATTAAACCAACAA
* * **
4528360 CCAAACATTTTAAATAGTCTTAAGCCTCACTAAGAATGATCTACAACTAATAAAATGGAGCAATG
352 TCAAACATTTTAAATGGT-TTTGGCC-CACT-AGAATGATCTACAACTAATAAAATGGA-CAATG
* * * ** * * *
4528425 ATTAGAGACATTACACATCAATGCCCCTAAACTTAAGTTTTTAAAGAATAACACATT-AATATTG
413 ATTGGAGACTTTACTCATCAACACCCTTGAACTTAAGTTTTTAAAGAATAACA-ATTCAATATTC
* *
4528489 CTAAACTTTTCTTTTTTCCAATTCTTCAAAAGTGGTTTTACCTTTTATAGCTTGATC
477 CTAAAC-TTT-TTTTTT-CAACTCTTCAAAAAT-GTTTTACCTTTT-TA--TTGATC
* * *
4528546 TTGAAATAATGCCCTACATCACCATCAATTTCCATATTTTCCCACACTTGTTTAGGTTTCTCAAT
1 TTGAGATAATGCCCTACATCACCATCAATTT-TATATTTTCCCACACTTGTTTAAGTTTCTCAAT
* * * * * * *
4528611 AAAACCATCATGAAACCAATAATTAAACATTTTAAATTA-TTTTTGGCCCCACTTAGAATGATTT
65 AAAACCATCATTAAACCAATAATCAAACATTTTAAA-TAGTCTTAGGCCTCACTTAAAATGATCT
* * * * *
4528675 GCAGCTAACAGAATGAGGCAATGATC-GAAAATATTATTCA-AAAAACACCTTGAACTTAAGTTT
129 GCAGCTAACAAAATG-GGCAATGATCAG-AGATATTATTCATCAACAC-CCTTAAACTTAAGTTT
4528738 TTAAAGAATAACACATCAATATTGACAAACTCTTCTTTATTCCAAATCTTCAAAAATGACTTTAA
191 TTAAAGAATAACACATCAATATTGACAAACTCTTCTTTATTCCAAATCTTCAAAAATGACTTTAA
*
4528803 CTTCCTTAGCTTGATCTTAAGATAATGCCCA-AACCTTCAATCTTCATATTTTTCCACATTTAAG
256 CTTCCTTAGCTTGATCTTAAGAAAATGCCCACAACCTTCAATCTTCATATTTTTCCACATTTAAG
* * * *
4528867 TTTTTTAATAAAACCATCATTAAACCAACAATTAAACATTTTAAATGGTTTTGGGCC-C-AGAAT
321 TTTTTTAATAAGATCATCATTAAACCAACAATCAAACATTTTAAATGGTTTTGGCCCACTAGAAT
* * * *
4528930 GATCTACAACTAACAAAATGGCCTAATGATTGGAGACTTTACTCATCAACACCTTTGAATTTAAG
386 GATCTACAACTAATAAAATGGAC-AATGATTGGAGACTTTACTCATCAACACCCTTGAACTTAAG
* *
4528995 TTTTTAAAGAATTACATTTCAATATTCCTAAACTTTTATTTATTCTAACTCTTCAAAAATGATTT
450 TTTTTAAAGAATAACAATTCAATATTCCTAAACTTTT-TTT-TTC-AACTCTTCAAAAATG-TTT
*
4529060 TACCTTTTT-TAGATC
511 TACCTTTTTATTGATC
* *** *
4529075 TTGAGACAATGCCCTACATCGTTATTAATCTTTATATTTTCCCACACTTGTTTAAGTTTCTCAAT
1 TTGAGATAATGCCCTACATCACCATCAAT-TTTATATTTTCCCACACTTGTTTAAGTTTCTCAAT
* * * * *
4529140 AAAACCATCATTAAATCAACAATCAAACATCTTAAACAGTCTTAGGCCTCACTTAAAATGATCTA
65 AAAACCATCATTAAACCAATAATCAAACATTTTAAATAGTCTTAGGCCTCACTTAAAATGATCTG
* *
4529205 CAGGTAACAAAATAGGGCAATGATCAGAGATATTATTCATCAATACCCTTAAACTTAAGTTTTTA
130 CAGCTAACAAAAT-GGGCAATGATCAGAGATATTATTCATCAACACCCTTAAACTTAAGTTTTTA
* * * * * *
4529270 AAGAATAACACATTAATATT-ATTAAACTCTTGTTTATTCCAACTTTTCAAAAATGACTTTACCT
194 AAGAATAACACATCAATATTGA-CAAACTCTTCTTTATTCCAAATCTTCAAAAATGACTTTAACT
** * * * ** * * *
4529334 TTATGAGCTTGATCTTGAGAAAATGCTCTACATCACCACCAATCTCCATATTTTCCCACACTT-A
258 TCCTTAGCTTGATCTTAAGAAAATGC-CCACA--ACCTTCAATCTTCATATTTTTCCACATTTAA
* * * * *
4529398 -----TT--TAAGATTATCATTAAATCAACAGTCAAACATTTTAAA-GGTCTTGGACCCACTTAA
320 GTTTTTTAATAAGATCATCATTAAACCAACAATCAAACATTTTAAATGGTTTTGG-CCCAC-TAG
* * * *
4529455 AAAGATCTACAGCTAATAAAATGGGACAA-GATCGGATA-TATTACTCATCAACACCCTTGAACT
383 AATGATCTACAACTAATAAAAT-GGACAATGATTGGAGACT-TTACTCATCAACACCCTTGAACT
* * *
4529518 TAAG-TTTTAAAGAATAACACA-TCAATATTGCCT---C---------CAACTTTTCAAAATTGC
446 TAAGTTTTTAAAGAATAACA-ATTCAATATT-CCTAAACTTTTTTTTTCAACTCTTCAAAAATGT
*
4529569 TTCACCTTTTTAAGCTTGATC
509 TTTACCTTTTT-A--TTGATC
* * *
4529590 TTGAGATAATGCCCTCCATCACCATGAATTTTCATATTTTCCCACACTTGTTTAAGTTTCTCAAG
1 TTGAGATAATGCCCTACATCACCATCAATTTT-ATATTTTCCCACACTTGTTTAAGTTTCTCAAT
* * *
4529655 AAGACCATCATTAAACCAATAATCAAACATTTTAAATAGTCTCTA-GCCTCACTCAAAATAATCT
65 AAAACCATCATTAAACCAATAATCAAACATTTTAAATAGTCT-TAGGCCTCACTTAAAATGATCT
* * * * *
4529719 GCAGCTAACAAAACGGGGCAATGATGAGAGACATTACTCATCAACACTCTTAAACTTAAGTTTTT
129 GCAGCTAACAAAA-TGGGCAATGATCAGAGATATTATTCATCAACACCCTTAAACTTAAGTTTTT
* * ** *
4529784 AAAAAATAACACATCAATATTGCCAAACTCTTCTTTATTCCAGCTCTTCAAAAATGACTTT-GC-
193 AAAGAATAACACATCAATATTGACAAACTCTTCTTTATTCCAAATCTTCAAAAATGACTTTAACT
* * * * * * * *
4529847 -CTTTAGCGTGATCTTGAGATAAGGCCCTACATCACCATCAATC-TCTATATTTTCCCATAGTTG
258 TCCTTAGCTTGATCTTAAGAAAATGCCC-ACA--ACCTTCAATCTTC-ATATTTTTCCACA--T-
* * * * ** * *
4529910 TTCAAGTTTCTCAATAAGATCATTATTAAACCAACAATCAAATATTTTAAATAATCTTGTGCTTC
316 TT-AAGTTTTTTAATAAGATCATCATTAAACCAACAATCAAACATTTTAAATGGTTTTG-GC-CC
* * ** * * * * *
4529975 ACTCAAAATGATCTGCTGCAAACAAAATAAGG-CAATGGTCGGAGACATTACTCATCAACACCCT
378 ACT-AGAATGATCTACAACTAATAAAAT--GGACAATGATTGGAGACTTTACTCATCAACACCCT
** * *
4530039 TGATTTTGAGTTTTTAATGAATAACAA
440 TGAACTTAAGTTTTTAAAGAATAACAA
4530066 GCATTCAGCA
Statistics
Matches: 2116, Mismatches: 368, Indels: 308
0.76 0.13 0.11
Matches are distributed among these distances:
511 12 0.01
512 58 0.03
513 1 0.00
514 4 0.00
515 224 0.11
516 2 0.00
517 1 0.00
522 1 0.00
524 40 0.02
525 40 0.02
526 50 0.02
527 71 0.03
528 38 0.02
529 240 0.11
530 10 0.00
531 2 0.00
532 13 0.01
533 133 0.06
535 1 0.00
536 1 0.00
537 24 0.01
538 27 0.01
539 3 0.00
540 11 0.01
541 81 0.04
542 340 0.16
543 10 0.00
544 15 0.01
545 99 0.05
546 112 0.05
547 16 0.01
548 3 0.00
550 1 0.00
551 1 0.00
552 2 0.00
553 2 0.00
560 3 0.00
561 2 0.00
563 2 0.00
564 2 0.00
565 5 0.00
566 56 0.03
567 219 0.10
568 129 0.06
569 6 0.00
570 3 0.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (526 bp):
TTGAGATAATGCCCTACATCACCATCAATTTTATATTTTCCCACACTTGTTTAAGTTTCTCAATA
AAACCATCATTAAACCAATAATCAAACATTTTAAATAGTCTTAGGCCTCACTTAAAATGATCTGC
AGCTAACAAAATGGGCAATGATCAGAGATATTATTCATCAACACCCTTAAACTTAAGTTTTTAAA
GAATAACACATCAATATTGACAAACTCTTCTTTATTCCAAATCTTCAAAAATGACTTTAACTTCC
TTAGCTTGATCTTAAGAAAATGCCCACAACCTTCAATCTTCATATTTTTCCACATTTAAGTTTTT
TAATAAGATCATCATTAAACCAACAATCAAACATTTTAAATGGTTTTGGCCCACTAGAATGATCT
ACAACTAATAAAATGGACAATGATTGGAGACTTTACTCATCAACACCCTTGAACTTAAGTTTTTA
AAGAATAACAATTCAATATTCCTAAACTTTTTTTTTCAACTCTTCAAAAATGTTTTACCTTTTTA
TTGATC
Found at i:4529740 original size:515 final size:515
Alignment explanation
Indices: 4528169--4529903 Score: 1506
Period size: 529 Copynumber: 3.3 Consensus size: 515
4528159 GAAATGACTT
* * * * * *
4528169 ATCAACACCCTTGAACTTAAGTTTTTAAGGAATTACATATCAATATTGGCAAACTCTTCTTTATT
1 ATCAAAACCCTTAAACTTAAGTTTTTAAAGAATAACACATCAATATT-ACAAACTCTTCTTTATT
* * * * * *
4528234 CAAACTTTTCAAAAATGACTTTACTTTCCTTAGCTTGATCTTTAAACAATGCCCTACATCACCAT
65 CCAACTCTTCAAAAATGACTTTACCTT--TTAGCTTGATCTTGAGATAATG-CCTACATCACCAT
* * * * * * * * *
4528299 TAATCTCTATATTTTCTCATACTTGTTTAAGTTTTTTAATAA-GATCACATTAAACTAATAACCA
127 CAATCTCCATATTTTCCCACAC----TTAA--TTTATAA-AACCAT--CATTAAACCAACAATCA
* * * *
4528363 AACATTTTAAATAGTCTTAAGCCTCACTAAGAATGATCTACAACTAATAAAATGGAGC-AATGAT
183 AACATTTTAAATGGTCTT-GGCC-C-C-AA-AAAGATCTACAACTAACAAAATGGA-CTAATGAT
** * * ** * * * *
4528427 TAGAGACATTACACATCAATGCCCCTAAACTTAAGTTTTTAAAGAATAACACATTAATATTGCTA
242 CGGAGACTTTACTCATCAACACCCTTGAACTTAAGTTTTTAAAGAATAACACATCAATATTCCT-
* * ** * *
4528492 AACTTTTCTTTTTTCCAATTCTTCAAAAGTGGTTTTACC-TTTTATAGCTTGATCTTGAAATAAT
306 -AC---TC-----T--AACTCTTCAAAAATGACTTCACCTTTTTA-AGCTTGATCTTGAGATAAT
* *
4528556 GCCCTACATCACCATCAATTTCCATATTTTCCCACACTTGTTTAGGTTTCTCAATAAAACCATCA
359 GCCCTACATCACCATCAATTTTCATATTTTCCCACACTTGTTTAAGTTTCTCAATAAAACCATCA
* * * * * * * * *
4528621 TGAAACCAATAATTAAACATTTTAAATTATTTTTGGCCCCACTTAGAATGATTTGCAGCTAACAG
424 TTAAACCAATAATCAAACATTTTAAA-TAGTCTTAGCCTCACTTAAAATGATCTGCAGCTAACAA
* *
4528686 AATGAGGCAATGATC-GAAAATATTATTC
488 AATGGGGCAATGATCAG-AGATATTATTC
* *
4528714 A-AAAAACACCTTGAACTTAAGTTTTTAAAGAATAACACATCAATATTGACAAACTCTTCTTTAT
1 ATCAAAAC-CCTTAAACTTAAGTTTTTAAAGAATAACACATCAATATT-ACAAACTCTTCTTTAT
* * * * *
4528778 TCCAAATCTTCAAAAATGACTTTAACTTCCTTAGCTTGATCTTAAGATAATGCC--CA-AACCTT
64 TCCAACTCTTCAAAAATGACTTTACCTT--TTAGCTTGATCTTGAGATAATGCCTACATCACCAT
* * * *
4528840 CAATCTTCATATTTTTCCACATTTAAGTTTTTTAATAAAACCATCATTAAACCAACAATTAAACA
127 CAATCTCCATATTTTCCCACACTTAA----TTT-ATAAAACCATCATTAAACCAACAATCAAACA
* * * * * *
4528905 TTTTAAATGGTTTTGGGCCCAGAATGATCTACAACTAACAAAATGGCCTAATGATTGGAGACTTT
187 TTTTAAATGGTCTTGGCCCCAAAAAGATCTACAACTAACAAAATGGACTAATGATCGGAGACTTT
* * * **
4528970 ACTCATCAACACCTTTGAATTTAAGTTTTTAAAGAATTACATTTCAATATTCCTAAACTTTTATT
252 ACTCATCAACACCCTTGAACTTAAGTTTTTAAAGAATAACACATCAATATTCCT--AC-------
* * * * *
4529035 TATTCTAACTCTTCAAAAATGATTTTACCTTTTT----TAGATCTTGAGACAATGCCCTACATCG
308 ---TCTAACTCTTCAAAAATGACTTCACCTTTTTAAGCTTGATCTTGAGATAATGCCCTACATCA
** * * *
4529096 TTATTAATCTTT-ATATTTTCCCACACTTGTTTAAGTTTCTCAATAAAACCATCATTAAATCAAC
370 CCATCAAT-TTTCATATTTTCCCACACTTGTTTAAGTTTCTCAATAAAACCATCATTAAACCAAT
* * * * *
4529160 AATCAAACATCTTAAACAGTCTTAGGCCTCACTTAAAATGATCTACAGGTAACAAAATAGGGCAA
434 AATCAAACATTTTAAATAGTCTTA-GCCTCACTTAAAATGATCTGCAGCTAACAAAATGGGGCAA
4529225 TGATCAGAGATATTATTC
498 TGATCAGAGATATTATTC
* * * *
4529243 ATCAATACCCTTAAACTTAAGTTTTTAAAGAATAACACATTAATATTATTAAACTCTTGTTTATT
1 ATCAAAACCCTTAAACTTAAGTTTTTAAAGAATAACACATCAATATTA-CAAACTCTTCTTTATT
* * *
4529308 CCAACTTTTCAAAAATGACTTTACCTTTATGAGCTTGATCTTGAGAAAATGCTCTACATCACCAC
65 CCAACTCTTCAAAAATGACTTTACCTTT-T-AGCTTGATCTTGAGATAATGC-CTACATCACCAT
* ** * *
4529373 CAATCTCCATATTTTCCCACACTT-A-TT-TAAGATTATCATTAAATCAACAGTCAAACATTTTA
127 CAATCTCCATATTTTCCCACACTTAATTTATAAAACCATCATTAAACCAACAATCAAACATTTTA
* * *
4529435 AA-GGTCTTGGACCCACTTAAAAAGATCTACAGCTAATAAAATGGGAC-AA-GATCGGATA-TAT
192 AATGGTCTTGG-CCC-C--AAAAAGATCTACAACTAACAAAAT-GGACTAATGATCGGAGACT-T
4529496 TACTCATCAACACCCTTGAACTTAAG-TTTTAAAGAATAACACATCAATATTGCCT-C-C-AACT
251 TACTCATCAACACCCTTGAACTTAAGTTTTTAAAGAATAACACATCAATATT-CCTACTCTAACT
* * * *
4529557 TTTCAAAATTG-CTTCACCTTTTTAAGCTTGATCTTGAGATAATGCCCTCCATCACCATGAATTT
315 CTTCAAAAATGACTTCACCTTTTTAAGCTTGATCTTGAGATAATGCCCTACATCACCATCAATTT
* *
4529621 TCATATTTTCCCACACTTGTTTAAGTTTCTCAAGAAGACCATCATTAAACCAATAATCAAACATT
380 TCATATTTTCCCACACTTGTTTAAGTTTCTCAATAAAACCATCATTAAACCAATAATCAAACATT
* * * * *
4529686 TTAAATAGTCTCTAGCCTCACTCAAAATAATCTGCAGCTAACAAAACGGGGCAATGATGAGAGAC
445 TTAAATAGTCT-TAGCCTCACTTAAAATGATCTGCAGCTAACAAAATGGGGCAATGATCAGAGAT
*
4529751 ATTACTC
509 ATTATTC
* * * *
4529758 ATCAACACTCTTAAACTTAAGTTTTTAAAAAATAACACATCAATATTGCCAAACTCTTCTTTATT
1 ATCAAAACCCTTAAACTTAAGTTTTTAAAGAATAACACATCAATATT-ACAAACTCTTCTTTATT
* * * *
4529823 CCAGCTCTTCAAAAATGACTTTGCC-TTTAGCGTGATCTTGAGATAAGGCCCTACATCACCATCA
65 CCAACTCTTCAAAAATGACTTTACCTTTTAGCTTGATCTTGAGATAATG-CCTACATCACCATCA
*
4529887 ATCTCTATATTTTCCCA
129 ATCTCCATATTTTCCCA
4529904 TAGTTGTTCA
Statistics
Matches: 990, Mismatches: 160, Indels: 113
0.78 0.13 0.09
Matches are distributed among these distances:
511 10 0.01
512 59 0.06
513 3 0.00
514 5 0.01
515 224 0.23
516 2 0.00
524 8 0.01
525 33 0.03
526 24 0.02
527 38 0.04
528 28 0.03
529 235 0.24
530 8 0.01
532 4 0.00
533 127 0.13
534 5 0.01
535 2 0.00
536 1 0.00
537 6 0.01
538 29 0.03
539 6 0.01
540 9 0.01
541 19 0.02
542 2 0.00
544 6 0.01
545 97 0.10
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (515 bp):
ATCAAAACCCTTAAACTTAAGTTTTTAAAGAATAACACATCAATATTACAAACTCTTCTTTATTC
CAACTCTTCAAAAATGACTTTACCTTTTAGCTTGATCTTGAGATAATGCCTACATCACCATCAAT
CTCCATATTTTCCCACACTTAATTTATAAAACCATCATTAAACCAACAATCAAACATTTTAAATG
GTCTTGGCCCCAAAAAGATCTACAACTAACAAAATGGACTAATGATCGGAGACTTTACTCATCAA
CACCCTTGAACTTAAGTTTTTAAAGAATAACACATCAATATTCCTACTCTAACTCTTCAAAAATG
ACTTCACCTTTTTAAGCTTGATCTTGAGATAATGCCCTACATCACCATCAATTTTCATATTTTCC
CACACTTGTTTAAGTTTCTCAATAAAACCATCATTAAACCAATAATCAAACATTTTAAATAGTCT
TAGCCTCACTTAAAATGATCTGCAGCTAACAAAATGGGGCAATGATCAGAGATATTATTC
Found at i:4532899 original size:14 final size:15
Alignment explanation
Indices: 4532875--4532917 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
4532865 TTTAATTGTT
4532875 AAAATATATTTTTTG
1 AAAATATATTTTTTG
*
4532890 AAAA-ATATTTATTG
1 AAAATATATTTTTTG
4532904 AAATATATATTTTT
1 AAA-ATATATTTTT
4532918 CCTATGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.50
15 5 0.21
16 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
AAAATATATTTTTTG
Found at i:4533560 original size:70 final size:70
Alignment explanation
Indices: 4533478--4533614 Score: 179
Period size: 71 Copynumber: 2.0 Consensus size: 70
4533468 TTTATTAAAA
* * * * * *
4533478 GTATTATTTA-TTTTTATTTGTAGAAGTTTAAATTTATTTTTTA-TTATATTATGTACGTTTAAA
1 GTATAATTTATTTTTTATTTGTAAAAATTTAAATGTATTTTTTAGGTATAATATG-A-GTTTAAA
4533541 TTTTCAG
64 TTTTCAG
*
4533548 GTATAATTTATTTTTTATTTGTAAAAATTTAAATGTGTTTTTTAGGTATAATATGAGTTTAAATT
1 GTATAATTTATTTTTTATTTGTAAAAATTTAAATGTATTTTTTAGGTATAATATGAGTTTAAATT
4533613 TT
66 TT
4533615 TATAGTGTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
70 20 0.34
71 30 0.52
72 8 0.14
ACGTcount: A:0.31, C:0.01, G:0.11, T:0.57
Consensus pattern (70 bp):
GTATAATTTATTTTTTATTTGTAAAAATTTAAATGTATTTTTTAGGTATAATATGAGTTTAAATT
TTCAG
Found at i:4533729 original size:11 final size:11
Alignment explanation
Indices: 4533706--4533774 Score: 75
Period size: 11 Copynumber: 6.1 Consensus size: 11
4533696 TACGAACTTT
4533706 AAAGAAGAAAAG
1 AAAGAA-AAAAG
*
4533718 AAGGAAAAAAG
1 AAAGAAAAAAG
*
4533729 AAAGATGAAAAG
1 AAAGA-AAAAAG
*
4533741 AAAAAAAAAAG
1 AAAGAAAAAAG
*
4533752 AAAGAGAAAAG
1 AAAGAAAAAAG
*
4533763 AAAAAAAAAAG
1 AAAGAAAAAAG
4533774 A
1 A
4533775 GGAAGGTGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
11 33 0.70
12 14 0.30
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.01
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:4533760 original size:22 final size:22
Alignment explanation
Indices: 4533706--4533774 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 22
4533696 TACGAACTTT
**
4533706 AAAGAAGAAAAGAAGGAAAAAAG
1 AAAG-AGAAAAGAAAAAAAAAAG
4533729 AAAGATGAAAAGAAAAAAAAAAG
1 AAAGA-GAAAAGAAAAAAAAAAG
4533752 AAAGAGAAAAGAAAAAAAAAAG
1 AAAGAGAAAAGAAAAAAAAAAG
4533774 A
1 A
4533775 GGAAGGTGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
22 19 0.44
23 24 0.56
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.01
Consensus pattern (22 bp):
AAAGAGAAAAGAAAAAAAAAAG
Found at i:4537898 original size:22 final size:20
Alignment explanation
Indices: 4537850--4537902 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
4537840 AAAACTCAGA
* *
4537850 ATGTATCGATACAATGAGAT
1 ATGTATCGATACAATGAAAC
4537870 ATGTATCGATACAATTGTAAAC
1 ATGTATCGATACAA-TG-AAAC
4537892 ATGTATCGATA
1 ATGTATCGATA
4537903 TATTTACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 14 0.48
21 2 0.07
22 13 0.45
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGAAAC
Found at i:4538023 original size:21 final size:20
Alignment explanation
Indices: 4537971--4538025 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
4537961 ACATTTTAGG
4537971 TATGTATCGATACATTCACT
1 TATGTATCGATACATTCACT
* *
4537991 TATGTATTGATACATTTA-T
1 TATGTATCGATACATTCACT
4538010 TATTTGTATCGATACA
1 TA--TGTATCGATACA
4538026 AATTATAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 16 0.53
21 11 0.37
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
TATGTATCGATACATTCACT
Found at i:4539840 original size:20 final size:20
Alignment explanation
Indices: 4539812--4539882 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
4539802 CTCTCATTTC
*
4539812 TATCAATACACATGAAAATG
1 TATCGATACACATGAAAATG
* *
4539832 TATCGATACATAT-AGCAATG
1 TATCGATACACATGA-AAATG
*
4539852 TATCGATACATCATGTGAAA-G
1 TATCGATACA-CATG-AAAATG
4539873 TATCGATACA
1 TATCGATACA
4539883 TTTCATTGGC
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.02
20 25 0.61
21 13 0.32
22 2 0.05
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.28
Consensus pattern (20 bp):
TATCGATACACATGAAAATG
Found at i:4539937 original size:21 final size:21
Alignment explanation
Indices: 4539911--4539964 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
4539901 ACCCTCAATA
**
4539911 GTATCGATACACTTTGTA-AAT
1 GTATCGATACA-TTTCCAGAAT
4539932 GTATCGATACATTTCCAGAAT
1 GTATCGATACATTTCCAGAAT
4539953 GTATCGATACAT
1 GTATCGATACAT
4539965 GGAGTTCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
GTATCGATACATTTCCAGAAT
Found at i:4541545 original size:13 final size:13
Alignment explanation
Indices: 4541527--4541579 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
4541517 CGATACATGG
4541527 TACATTGTATCGA
1 TACATTGTATCGA
*
4541540 TACATTATATCGA
1 TACATTGTATCGA
4541553 TACA-TG-AT-G-
1 TACATTGTATCGA
4541562 -A-ATTGTATCGA
1 TACATTGTATCGA
4541573 TACATTG
1 TACATTG
4541580 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 2 0.06
13 20 0.62
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:4541556 original size:33 final size:33
Alignment explanation
Indices: 4541514--4541578 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
4541504 CCATTGTTTG
*
4541514 TATCGATACATGGT-ACATTGTATCGATACATTA
1 TATCGATACATGATGA-ATTGTATCGATACATTA
4541547 TATCGATACATGATGAATTGTATCGATACATT
1 TATCGATACATGATGAATTGTATCGATACATT
4541579 GCTTGTAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (33 bp):
TATCGATACATGATGAATTGTATCGATACATTA
Found at i:4549653 original size:30 final size:30
Alignment explanation
Indices: 4549617--4549677 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
4549607 AGGGGAGAAA
*
4549617 TTTTTTTAATCTAGGAGGAGAAAATCTCGT
1 TTTTTTTAATCCAGGAGGAGAAAATCTCGT
* *
4549647 TTTTTTTAATCCAGGGGGAGAAAATTTCGT
1 TTTTTTTAATCCAGGAGGAGAAAATCTCGT
4549677 T
1 T
4549678 AACCGATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (30 bp):
TTTTTTTAATCCAGGAGGAGAAAATCTCGT
Found at i:4550331 original size:20 final size:20
Alignment explanation
Indices: 4550306--4550359 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
4550296 CTACCACTGT
* *
4550306 TTGTATAGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
4550326 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
4550346 TTGTATCGATACAT
1 TTGTATCGATACAT
4550360 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:4551909 original size:152 final size:157
Alignment explanation
Indices: 4551547--4551968 Score: 500
Period size: 163 Copynumber: 2.7 Consensus size: 157
4551537 TTCCTCTTTC
* * *
4551547 GAAAATATCATTTCGTACCTTAATGAAAACTCGAAAAGATACGAAAAGTTTTTGAAATCTTTTAT
1 GAAAATACCATTTCGTACCTTAATGGAAACTCGAAAAGATACGAAAGGTTTTTGAAATCTTTTAT
*
4551612 ACCCCTACGGACCCCCATAGGAATATAAAAGATTAAAAATGATTAAAATTTATTTCAATTACAAA
66 ACCCCTACGGA-CCCCATAGGAATATAAAAGATTAAAAATGACTAAAATTTATTTCAATTACAAA
4551677 AGAGTTAGTTTAATTTGATTTTATTTATTTTT
130 AGAG-TAGTTTAATTTGA---TATTTATTTTT
* * * *
4551709 GAAAAATACCATTTCGTACCTTACTAGAAA-T-GCAAAATGATACAAAAGGTTTTTTAAATCTTT
1 G-AAAATACCATTTCGTACCTTAATGGAAACTCG-AAAA-GATACGAAAGGTTTTTGAAATCTTT
* * **
4551772 TATACCCCTACGGATCCCCATAGGAATATAAAAAATCAAAAATGACTAAAATTTATTTTGATTA-
63 TATACCCCTACGGA-CCCCATAGGAATATAAAAGATTAAAAATGACTAAAATTTATTTCAATTAC
** * *
4551836 TGAA-AG-CG-TTAATTT-A-ATTTGTTTTT
127 AAAAGAGTAGTTTAATTTGATATTTATTTTT
* * *
4551862 GAAAATACCATTTCGTACCTTAATGGAAACTCGAAAAGATATGAAAGGCTATTGAAATCTTTTAT
1 GAAAATACCATTTCGTACCTTAATGGAAACTCGAAAAGATACGAAAGGTTTTTGAAATCTTTTAT
* * *
4551927 ACCTCTACAGACCCCTGTAGGAATATAAAAGATTAAAAATGA
66 ACCCCTACGGACCCC-ATAGGAATATAAAAGATTAAAAATGA
4551969 TTAATATGGA
Statistics
Matches: 225, Mismatches: 29, Indels: 22
0.82 0.11 0.08
Matches are distributed among these distances:
151 4 0.02
152 81 0.36
153 15 0.07
154 1 0.00
157 1 0.00
158 7 0.03
159 1 0.00
161 3 0.01
162 8 0.04
163 104 0.46
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (157 bp):
GAAAATACCATTTCGTACCTTAATGGAAACTCGAAAAGATACGAAAGGTTTTTGAAATCTTTTAT
ACCCCTACGGACCCCATAGGAATATAAAAGATTAAAAATGACTAAAATTTATTTCAATTACAAAA
GAGTAGTTTAATTTGATATTTATTTTT
Found at i:4552828 original size:24 final size:23
Alignment explanation
Indices: 4552762--4552822 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
4552752 TAGTTTTTAT
* *
4552762 TTCTATTTTTT-TCCT-ATTTTC
1 TTCTATTTTTTCTCTTGCTTTTC
4552783 TTCTATTTTTTCTCTTGCTTTTC
1 TTCTATTTTTTCTCTTGCTTTTC
4552806 TTTCT-TTCTTTTCTCTT
1 -TTCTATT-TTTTCTCTT
4552823 TTTTTTTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 11 0.32
22 3 0.09
23 7 0.21
24 13 0.38
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (23 bp):
TTCTATTTTTTCTCTTGCTTTTC
Found at i:4553516 original size:167 final size:164
Alignment explanation
Indices: 4553124--4553692 Score: 602
Period size: 164 Copynumber: 3.5 Consensus size: 164
4553114 ATATATATAA
* * * * *
4553124 AAAAAATTCAAAACTCATGAAACA--AATTAAATTTATCGAAACTAATTT--TATGGAAGTTAAA
1 AAAAAATTAAAAACTAATGAAA-ATGAATT-AATTTTTCAAAACTGATTTAATAT-GAA-TTAAA
* * * * * * * *
4553185 TAACAATATTAGATGAA-TTTAAAAATTTAAAATCGAGAAAAATCCTCTCAAAAATATTTATGGA
62 TGATAATATTTGATGAATTTTAAAAA-TTAAAATCAAGAAAAATCCCCTCGAAAACATTTACGGA
* * * * *
4553249 ATAGAAAACTCGGTTTTTCAACAATGAGAAATTTCAAGG
126 GTAGAAAACTCTGTATTTCAAAAATAAGAAATTTCAAGG
* * * *
4553288 AAAAAATTAAAAACTAATGAAAGTAAATGAATTTTTTAAAACTGATTTAATATGAATTAAATGAT
1 AAAAAATTAAAAACTAATGAAAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATGAT
* *
4553353 GATGTTTGATGAATTTTAAAAATTAAAAGTCAAGAAAAATCACCCT-GAAAACATTTACGGAGTA
66 AATATTTGATGAATTTTAAAAATTAAAA-TCAAGAAAAATC-CCCTCGAAAACATTTACGGAGTA
* *
4553417 AAAAACTCTGTATTTCAAAAATAAGAAAAATTCAAGG
129 GAAAACTCTGTATTTCAAAAATAAG-AAATTTCAAGG
* * ** *
4553454 AAAAAATTGAAAAA-TGCACGAAAATGAATTAATTTTTCAAAAAGGATTTAATATGAATTAAATT
1 AAAAAATT-AAAAACT-AATGAAAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATG
* * *
4553518 ATAATATTTGGTGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTTCGAAAACATTTACGGAGT
64 ATAATATTTGATGAATTTTAAAAATT-AAAATCAAGAAAAATCCCCTCGAAAACATTTACGGAGT
4553583 AGAAAACT-TCGTATTTCAAAAA-AAGAAATTTCAA-G
128 AGAAAACTCT-GTATTTCAAAAATAAGAAATTTCAAGG
* * *
4553618 AAAAAATTCAAAAACTTATGAAAATGAATTAATTTTTCAAAACTGATTTAATA-GAAAGTAAATA
1 AAAAAATT-AAAAACTAATGAAAATGAATTAATTTTTCAAAACTGATTTAATATG-AATTAAATG
4553682 ATAATATTTGA
64 ATAATATTTGA
4553693 AAATTTTTTA
Statistics
Matches: 341, Mismatches: 49, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
163 1 0.00
164 122 0.36
165 68 0.20
166 32 0.09
167 114 0.33
168 4 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (164 bp):
AAAAAATTAAAAACTAATGAAAATGAATTAATTTTTCAAAACTGATTTAATATGAATTAAATGAT
AATATTTGATGAATTTTAAAAATTAAAATCAAGAAAAATCCCCTCGAAAACATTTACGGAGTAGA
AAACTCTGTATTTCAAAAATAAGAAATTTCAAGG
Found at i:4556297 original size:14 final size:14
Alignment explanation
Indices: 4556278--4556323 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
4556268 ACATATGTGA
4556278 AAAATATATATTTT
1 AAAATATATATTTT
4556292 AAAATATAT-TTCTT
1 AAAATATATATT-TT
* *
4556306 AAAAAACATATTTT
1 AAAATATATATTTT
4556320 AAAA
1 AAAA
4556324 ATTAAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATATATATTTT
Found at i:4556742 original size:150 final size:151
Alignment explanation
Indices: 4556556--4556852 Score: 388
Period size: 150 Copynumber: 2.0 Consensus size: 151
4556546 TTGATTCAGT
**
4556556 TTTTTAATCATTACTCATTATATTATAACATGTATTTTTAAAATAAATAAAATAATAAA-TTTCA
1 TTTTTAATCATTACTCATTATATTATAACACATATTTTTAAAATAAATAAAATAATAAATTTTCA
* * *
4556620 TATATAATACCCGTTA-TAA-TGCAAAAACTCCTTT-CATTTAATAATTAAGAA-ATATTAAAAT
66 TATATAATACCCGTTACAAAGTG-AAAAA-T-CTTTACACTTAATAATTAA-AAGACATTAAAAT
*
4556681 TAAAAATGTATTAAAATTGACATAA
127 TAAAAATATATTAAAATTGACATAA
* * * *
4556706 TTTTTAATTATTATTTATTATATTATAACACATATTTTTAAAATAAATAAAATAATAAATTTTTA
1 TTTTTAATCATTACTCATTATATTATAACACATATTTTTAAAATAAATAAAATAATAAATTTTCA
* * * *
4556771 TTTATAATATCTGTTACAAAGTGAAAAATTTTTACACTTAATAATTAAAAGTACATTAAAATTAA
66 TATATAATACCCGTTACAAAGTGAAAAATCTTTACACTTAATAATTAAAAG-ACATTAAAATTAA
4556836 AAATATATTAAAATTGA
130 AAATATATTAAAATTGA
4556853 TATGTAAATT
Statistics
Matches: 127, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
150 59 0.46
151 31 0.24
152 35 0.28
153 2 0.02
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (151 bp):
TTTTTAATCATTACTCATTATATTATAACACATATTTTTAAAATAAATAAAATAATAAATTTTCA
TATATAATACCCGTTACAAAGTGAAAAATCTTTACACTTAATAATTAAAAGACATTAAAATTAAA
AATATATTAAAATTGACATAA
Found at i:4556835 original size:17 final size:17
Alignment explanation
Indices: 4556803--4556850 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
4556793 GAAAAATTTT
*
4556803 TACACTTAATAATTAAAAG
1 TACA-TTAA-AATTAAAAA
4556822 TACATTAAAATTAAAAA
1 TACATTAAAATTAAAAA
*
4556839 TATATTAAAATT
1 TACATTAAAATT
4556851 GATATGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 19 0.70
18 4 0.15
19 4 0.15
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (17 bp):
TACATTAAAATTAAAAA
Found at i:4560268 original size:8 final size:9
Alignment explanation
Indices: 4560248--4560275 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
4560238 TACCACCTCT
4560248 CCCCACTGC
1 CCCCACTGC
4560257 CCCCACTGC
1 CCCCACTGC
4560266 CCCCACTGC
1 CCCCACTGC
4560275 C
1 C
4560276 GTCGCGGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.68, G:0.11, T:0.11
Consensus pattern (9 bp):
CCCCACTGC
Found at i:4563795 original size:20 final size:19
Alignment explanation
Indices: 4563770--4563825 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
4563760 AAATATTCAT
4563770 ATTATTAATTATATTTTTAA
1 ATTATTAATTATATTTTT-A
*
4563790 ATTATT-ATTATAAATTTTTT
1 ATTATTAATTAT--ATTTTTA
*
4563810 ATTATTAATAATATTT
1 ATTATTAATTATATTT
4563826 ATTCAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 9 0.29
20 12 0.39
21 10 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTATTAATTATATTTTTA
Found at i:4563882 original size:13 final size:13
Alignment explanation
Indices: 4563850--4563874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4563840 TACAAATTTT
4563850 AATTTTATTAAAA
1 AATTTTATTAAAA
4563863 AATTTTATTAAA
1 AATTTTATTAAA
4563875 TATATTTACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTTTATTAAAA
Found at i:4566152 original size:35 final size:34
Alignment explanation
Indices: 4566098--4566163 Score: 114
Period size: 35 Copynumber: 1.9 Consensus size: 34
4566088 CCTTACAACA
*
4566098 CTATCTTTTCGAAGGCTAAGATAGAACCTTTTCT
1 CTATCTTTTCAAAGGCTAAGATAGAACCTTTTCT
4566132 CTATCTTTTACAAAGGCTAAGATAGAACCTTT
1 CTATCTTTT-CAAAGGCTAAGATAGAACCTTT
4566164 CAATCACTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (34 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTTTTCT
Found at i:4567351 original size:49 final size:49
Alignment explanation
Indices: 4567288--4567391 Score: 190
Period size: 49 Copynumber: 2.1 Consensus size: 49
4567278 TGTAAGATGT
4567288 TATTTCCTTCTTTGAAAACAATTTTACTCCCCCTTAATGAAAGATTCTC
1 TATTTCCTTCTTTGAAAACAATTTTACTCCCCCTTAATGAAAGATTCTC
* *
4567337 TATTTCCTTTTTTGAAAACAATTTTACTCCCTCTTAATGAAAGATTCTC
1 TATTTCCTTCTTTGAAAACAATTTTACTCCCCCTTAATGAAAGATTCTC
4567386 TATTTC
1 TATTTC
4567392 TCCCTCTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (49 bp):
TATTTCCTTCTTTGAAAACAATTTTACTCCCCCTTAATGAAAGATTCTC
Found at i:4571914 original size:3 final size:3
Alignment explanation
Indices: 4571900--4571936 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
4571890 TGAGTCAACC
* *
4571900 TCA TCA TTA TCA TCA TCA TCA TCA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
4571937 TGATGGTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (3 bp):
TCA
Found at i:4577024 original size:79 final size:79
Alignment explanation
Indices: 4576889--4577226 Score: 303
Period size: 79 Copynumber: 4.3 Consensus size: 79
4576879 TATTTTGGAC
* * * * ** *
4576889 ATAAAACCGGGAG-TGGAGTATC-CCATCGAAAATAAC-GAGTTCAGAGCATCTTCAATTGTGGA
1 ATAAAACCGGG-GTTGGAGTATCTCC-TCGGAAATAACAGGGTT-GGAGTATCCCCAATTGTGAA
4576951 AAATCAGTGTTTTGAAA
63 AAATCAGTGTTTTGAAA
* * * *
4576968 ATAAAATTC-GGGTTGGAGCATCTCCTCGGAAATAACAAGGTTGAAGTATCCCCAATTGTGAAAA
1 ATAAAA-CCGGGGTTGGAGTATCTCCTCGGAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAA
4577032 ATC-GATGTTTT-AGAA
65 ATCAG-TGTTTTGA-AA
* * * ** *
4577047 ATAAAACCGGGGTTAGAGTATCTTCTCGAAAATAACAGGGTTGGAGTATCTTCGATTGTGAAAAA
1 ATAAAACCGGGGTTGGAGTATCTCCTCGGAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAA
* *
4577112 TTAGTGTTTTGGAA
66 TCAGTGTTTTGAAA
** * * * * * * *
4577126 ATAAAACCGGGGTTGGAGTAT-TCTCTTAGAAACAGCGGGGTTGGAGTATCCCCGATTATGGAAT
1 ATAAAACCGGGGTTGGAGTATCTC-CTCGGAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAA
*
4577190 ATCAATGTTTTGAAA
65 ATCAGTGTTTTGAAA
4577205 ATAAAACCGGGGTTGGAGTATC
1 ATAAAACCGGGGTTGGAGTATC
4577227 CCCAATTGTG
Statistics
Matches: 209, Mismatches: 39, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
78 5 0.02
79 197 0.94
80 7 0.03
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
ATAAAACCGGGGTTGGAGTATCTCCTCGGAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAA
TCAGTGTTTTGAAA
Found at i:4577177 original size:158 final size:158
Alignment explanation
Indices: 4576889--4577228 Score: 377
Period size: 158 Copynumber: 2.2 Consensus size: 158
4576879 TATTTTGGAC
*
4576889 ATAAAACCGGGAG-TGGAGTATCCCATCGAAAATAACGAGTTCAGAGCATCTTCAATTGTGGAAA
1 ATAAAACCGGG-GTTGGAGTATCCCATCGAAAATAACGAGTTCAGAGCATCTTCAATTGTGAAAA
* * *
4576953 ATCAGTGTTTTGAAAATAAAATTCGGGTTGGAGCATCTCCTCGGAAATAACAAGGTTGAAGTATC
65 ATCAGTGTTTTGAAAATAAAATCCGGGTTGGAGCATCTCCTCAGAAACAACAAGGTTGAAGTATC
* *
4577018 CCCAATTGTGAAAAATCGATGTTTT-AGAA
130 CCCAATTATGAAAAATCAATGTTTTGA-AA
* * * * * *
4577047 ATAAAACCGGGGTTAGAGTATCTTC-TCGAAAATAACAGGGTT-GGAGTATCTTCGATTGTGAAA
1 ATAAAACCGGGGTTGGAGTATC-CCATCGAAAATAAC-GAGTTCAGAGCATCTTCAATTGTGAAA
* * * * * ** *
4577110 AATTAGTGTTTTGGAAATAAAA-CCGGGGTTGGAGTAT-TCTCTTAGAAACAGCGGGGTTGGAGT
64 AATCAGTGTTTTGAAAATAAAATCC-GGGTTGGAGCATCTC-CTCAGAAACAACAAGGTTGAAGT
* * *
4577173 ATCCCCGATTATGGAATATCAATGTTTTGAAA
127 ATCCCCAATTATGAAAAATCAATGTTTTGAAA
4577205 ATAAAACCGGGGTTGGAGTATCCC
1 ATAAAACCGGGGTTGGAGTATCCC
4577229 CAATTGTGAA
Statistics
Matches: 151, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
157 5 0.03
158 140 0.93
159 6 0.04
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (158 bp):
ATAAAACCGGGGTTGGAGTATCCCATCGAAAATAACGAGTTCAGAGCATCTTCAATTGTGAAAAA
TCAGTGTTTTGAAAATAAAATCCGGGTTGGAGCATCTCCTCAGAAACAACAAGGTTGAAGTATCC
CCAATTATGAAAAATCAATGTTTTGAAA
Found at i:4577257 original size:51 final size:51
Alignment explanation
Indices: 4577161--4577278 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
4577151 TTAGAAACAG
* * * * *
4577161 CGGGGTTGGAGTATCCCCGATTATGGAATATCAATGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAAAAATAAAAC
* ** *
4577212 CGGGGTTGGAGTATCCCCAATTGTGAAAAATTGATATTTTAAAAATAAAAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAAAAATAAAAC
*
4577263 CAGGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
4577279 TCTTAGAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAAAAATAAAAC
Found at i:4577297 original size:79 final size:79
Alignment explanation
Indices: 4577212--4577685 Score: 546
Period size: 79 Copynumber: 6.0 Consensus size: 79
4577202 AAAATAAAAC
*
4577212 CGGGGTTGGAGTATCCCCAATTGTGAAAAATTGATATTTTAAAAATAAAATCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAAAAATAAAATCAGGGTTGGAGTAT
*
4577277 CCTCTTAGAAATAA
66 CCCCTTAGAAATAA
* * * *
4577291 CAGGGTTGGAATATCCCCGATTGTGAAAAATAGATATTTTAAAAATAAAATCAGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAAAAATAAAATCAGGGTTGGAGTAT
* *
4577356 TCTCTTAGAAATAA
66 CCCCTTAGAAATAA
* * * ** *
4577370 CGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAA-CTGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAAAAATAAAATC-AGGGTTGGAGTA
*
4577434 TCCCCTCAGAAATAA
65 TCCCCTTAGAAATAA
** * * ** *
4577449 CGGGGTTGGAGTATCCTTGATTATTG-AAAATT-AGTGTTTTGGAAATAAAA-CTAGAGTTGGAG
1 CGGGGTTGGAGTATCCCCGATT-GTGAAAAATTGA-TATTTTAAAAATAAAATC-AGGGTTGGAG
4577511 TATCCCCTT-GAAAATAA
63 TATCCCCTTAG-AAATAA
* * * * * *
4577528 CGGGGTTAGAGTATCCCCGATTGTGGAAAATCGATATTTTGAAAATAAAATTAAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAAAAATAAAATCAGGGTTGGAGTAT
4577593 CCCCTT-GAAAATAA
66 CCCCTTAG-AAATAA
* * * *
4577607 TGGGGTTGAAGTATCTCCGATTGTGAAAAATCGATATTTTAAAAATAAAATCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAAAAATAAAATCAGGGTTGGAGTAT
* *
4577672 TCCCTCAGAAATAA
66 CCCCTTAGAAATAA
4577686 TGTGGTCCAT
Statistics
Matches: 342, Mismatches: 45, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
78 4 0.01
79 334 0.98
80 4 0.01
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.30
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAAAAATAAAATCAGGGTTGGAGTAT
CCCCTTAGAAATAA
Found at i:4577336 original size:130 final size:130
Alignment explanation
Indices: 4577082--4577355 Score: 327
Period size: 130 Copynumber: 2.1 Consensus size: 130
4577072 TCGAAAATAA
** * * ** *
4577082 CAGGGTTGGAGTATCTTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
1 CAGGGTTGGAGTATCCCCAATTGTGAAAAATTAGTATTTTAAAAATAAAACCAGGGTTGGAGTAT
* * * * * * * *
4577147 TCTCTTAGAAACAGCGGGGTTGGAGTATCCCCGATTATGGAATATCAATGTTTTGAAAATAAAAC
66 CCTCTTAGAAACAACAGGGTTGGAATATCCCCGATTATGAAAAATCAATATTTTAAAAATAAAAC
* *
4577212 CGGGGTTGGAGTATCCCCAATTGTGAAAAATT-GATATTTTAAAAATAAAATCAGGGTTGGAGTA
1 CAGGGTTGGAGTATCCCCAATTGTGAAAAATTAG-TATTTTAAAAATAAAACCAGGGTTGGAGTA
* *
4577276 TCCTCTTAGAAATAACAGGGTTGGAATATCCCCGATTGTGAAAAAT-AGATATTTTAAAAATAAA
65 TCCTCTTAGAAACAACAGGGTTGGAATATCCCCGATTATGAAAAATCA-ATATTTTAAAAATAAA
*
4577340 AT
129 AC
*
4577342 CAGGATTGGAGTAT
1 CAGGGTTGGAGTAT
4577356 TCTCTTAGAA
Statistics
Matches: 120, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
129 2 0.02
130 118 0.98
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (130 bp):
CAGGGTTGGAGTATCCCCAATTGTGAAAAATTAGTATTTTAAAAATAAAACCAGGGTTGGAGTAT
CCTCTTAGAAACAACAGGGTTGGAATATCCCCGATTATGAAAAATCAATATTTTAAAAATAAAAC
Found at i:4577376 original size:209 final size:209
Alignment explanation
Indices: 4577006--4577438 Score: 573
Period size: 209 Copynumber: 2.1 Consensus size: 209
4576996 GAAATAACAA
* * * * *
4577006 GGTTGAAGTATCCCCAATTGTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCTT
1 GGTTGGAGTATCCCCAATTGTGAAAAATCGATATTTTAAAAATAAAACCAGGGTTAGAGTATCCT
* * ** * ** *
4577071 CTCGAAAATAACAGGGTTGGAGTATCTTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGG
66 CTAGAAAATAACAGGGTTGGAATATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAACCAG
* * * *
4577136 GGTTGGAGTATTCTCTTAGAAACAGCGGGGTTGGAGTATCCCCGATTATGGAATATCAATGTTTT
131 GATTGGAGTATTCTCTTAGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATGTTTT
4577201 GAAAATAAAACCGG
196 GAAAATAAAACCGG
* * *
4577215 GGTTGGAGTATCCCCAATTGTGAAAAATTGATATTTTAAAAATAAAATCAGGGTTGGAGTATCCT
1 GGTTGGAGTATCCCCAATTGTGAAAAATCGATATTTTAAAAATAAAACCAGGGTTAGAGTATCCT
*
4577280 CTTAG-AAATAACAGGGTTGGAATATCCCCGATTGTGAAAAA-TAGATATTTTAAAAATAAAATC
66 C-TAGAAAATAACAGGGTTGGAATATCCCCGATTGTGAAAAATTAG-TATTTTAAAAATAAAACC
* * * ***
4577343 AGGATTGGAGTATTCTCTTAGAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTT
129 AGGATTGGAGTATTCTCTTAGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATGTT
* *
4577408 TTGGAAATAAAACTGG
194 TTGAAAATAAAACCGG
4577424 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
4577439 TCAGAAATAA
Statistics
Matches: 193, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
208 3 0.02
209 188 0.97
210 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (209 bp):
GGTTGGAGTATCCCCAATTGTGAAAAATCGATATTTTAAAAATAAAACCAGGGTTAGAGTATCCT
CTAGAAAATAACAGGGTTGGAATATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAACCAG
GATTGGAGTATTCTCTTAGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATGTTTT
GAAAATAAAACCGG
Found at i:4577457 original size:288 final size:288
Alignment explanation
Indices: 4576960--4577517 Score: 739
Period size: 288 Copynumber: 1.9 Consensus size: 288
4576950 AAAATCAGTG
* *
4576960 TTTTGAAAATAAAATTCGGGTTGGAGCATCTCCTCGGAAATAACAAGGTTGAAGTATCCCCAATT
1 TTTTAAAAATAAAATTCGGGTTGGAGCATCTCCTCAGAAATAACAAGGTTGAAGTATCCCCAATT
* * * * * *
4577025 GTGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCTTCTCGAAAATAACAGGGTTG
66 GTGAAAAATAGATATTTTAAAAATAAAACCAGGATTAGAGTATCTTCTAGAAAATAACAGGGTTG
* * * *
4577090 GAGTATCTTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATTCTCTTAG
131 GAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAG
* * * *
4577155 AAACAGCGGGGTTGGAGTATCCCCGATTATGGAATATCAATGTTTTGAAAATAAAACCGGGGTTG
196 AAACAACGGGGTTGGAGTATCCCCGATTATGGAAAATCAATGTTTTGAAAATAAAACCAGAGTTG
4577220 GAGTATCCCCAATTGTGAAAAATTGATA
261 GAGTATCCCCAATTGTGAAAAATTGATA
* * * *
4577248 TTTTAAAAATAAAA-TCAGGGTTGGAGTATC-CTCTTAGAAATAACAGGGTTGGAA-TATCCCCG
1 TTTTAAAAATAAAATTC-GGGTTGGAGCATCTC-CTCAGAAATAACAAGGTT-GAAGTATCCCCA
* * *
4577310 ATTGTGAAAAATAGATATTTTAAAAATAAAATCAGGATTGGAGTAT-TCTCTTAG-AAATAACGG
63 ATTGTGAAAAATAGATATTTTAAAAATAAAACCAGGATTAGAGTATCT-TC-TAGAAAATAACAG
* *
4577373 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATCCC
126 GGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCC
* ** * * * * *
4577438 CTCAGAAATAACGGGGTTGGAGTATCCTTGATTATTGAAAATTAGTGTTTTGGAAATAAAACTAG
191 CTCAGAAACAACGGGGTTGGAGTATCCCCGATTATGGAAAATCAATGTTTTGAAAATAAAACCAG
4577503 AGTTGGAGTATCCCC
256 AGTTGGAGTATCCCC
4577518 TTGAAAATAA
Statistics
Matches: 232, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
287 4 0.02
288 223 0.96
289 5 0.02
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (288 bp):
TTTTAAAAATAAAATTCGGGTTGGAGCATCTCCTCAGAAATAACAAGGTTGAAGTATCCCCAATT
GTGAAAAATAGATATTTTAAAAATAAAACCAGGATTAGAGTATCTTCTAGAAAATAACAGGGTTG
GAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCAG
AAACAACGGGGTTGGAGTATCCCCGATTATGGAAAATCAATGTTTTGAAAATAAAACCAGAGTTG
GAGTATCCCCAATTGTGAAAAATTGATA
Found at i:4580160 original size:50 final size:51
Alignment explanation
Indices: 4580046--4580162 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
4580036 AAAAATGCCT
* * *
4580046 GAATGTATCGATATATTGAGAAATGTATCAATACATCTAGGTTAAAACCCA
1 GAATGTATCGATACAATGAGAAATGTATCAATACATCTAGGGTAAAACCCA
*
4580097 GAATGTATCGATACAATGA-AAGATGTATCGATACATCT-GGGTAAAACCCA
1 GAATGTATCGATACAATGAGAA-ATGTATCAATACATCTAGGGTAAAACCCA
4580147 GAATGTATCGATACAA
1 GAATGTATCGATACAA
4580163 ATTGTGAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 29 0.48
51 32 0.52
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (51 bp):
GAATGTATCGATACAATGAGAAATGTATCAATACATCTAGGGTAAAACCCA
Found at i:4580793 original size:43 final size:42
Alignment explanation
Indices: 4580744--4580903 Score: 202
Period size: 43 Copynumber: 3.8 Consensus size: 42
4580734 CTTTGAAGAC
* * *
4580744 AAAGGAAA-AAGAGTATGTCCTGCTCTTCGAGGACATAGGAAA
1 AAAGGAAATAA-AGTGTGTCCTGCTCTTTGAGGACAAAGGAAA
*
4580786 AGAAGGAAATTAAA-TGTGTCCTGCTCTTTGAGGACAAAGGAGA
1 A-AAGGAAA-TAAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAA
4580829 AAAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACCAAAGG-AA
1 AAAGGAAATAAAGTGTGTCCTGCTCTTTGAGGA-CAAAGGAAA
* *
4580871 AAA-GAAATAAAGTGCGTCCTGCTCTTTGGGGAC
1 AAAGGAAATAAAGTGTGTCCTGCTCTTTGAGGAC
4580904 TAGAAGGTGC
Statistics
Matches: 106, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
40 1 0.01
41 31 0.29
42 32 0.30
43 39 0.37
44 1 0.01
45 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (42 bp):
AAAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAA
Found at i:4581333 original size:240 final size:238
Alignment explanation
Indices: 4580887--4581392 Score: 651
Period size: 240 Copynumber: 2.1 Consensus size: 238
4580877 ATAAAGTGCG
* *
4580887 TCCTGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGGAAAAAGAAAACGTCCT
1 TCCTGCT-TTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTT-GAAAAAGAAAACGTCCT
* * * *
4580952 GCTTTTTAAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTAGCATGCTCTT
64 ACTCTTTAAGGACTAGAAGATG-CACCAACTTGTGTAGGCTTTGAAAGGAAAGTA-CATACTCTT
* * * ** * * *
4581017 TGAGGATTGGAAGGTGCCACCAAGTTGTGTGGTTTTTAAAAGGGAAAGGTATCCTACTCTTTGAG
127 TGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTAAG
*
4581082 GACTTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
192 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
* *
4581129 TCCTGCTATTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAAGAAAAAGGTGTC
1 TCCTGCT-TTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAAG-AAAA--CGTC
* *
4581192 CTACTCTTTAAGGACTAGAAGGTG-ACCAACTTGTGTAGGCTTTGAAAGGAAAACGT-CCTACTC
62 CTACTCTTTAAGGACTAGAAGATGCACCAACTTGTGTAGGCTTTGAAAGG-AAA-GTACATACTC
* * *
4581255 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCGTCCTGCTCTTTA
125 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTA
*
4581320 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
190 AGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
* * *
4581369 TCTTGCTTCTTAAGGACTGAAAGG
1 TCCTGCTT-TTGAGGACTAAAAGG
4581393 ATAAAAGGTT
Statistics
Matches: 231, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
239 6 0.03
240 153 0.66
241 3 0.01
242 69 0.30
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (238 bp):
TCCTGCTTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTGAAAAAGAAAACGTCCTAC
TCTTTAAGGACTAGAAGATGCACCAACTTGTGTAGGCTTTGAAAGGAAAGTACATACTCTTTGAG
GACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTAAGGACT
GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
Found at i:4581382 original size:61 final size:60
Alignment explanation
Indices: 4580887--4581392 Score: 517
Period size: 61 Copynumber: 8.4 Consensus size: 60
4580877 ATAAAGTGCG
** * * *
4580887 TCCTGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGGAAAAAGAAAA--CG
1 TCCTGCTCTTTAAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTT--AAAAGGAAAAGGCA
* * * *
4580948 TCCTGCTTTTTAAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GTA
1 TCCTGCTCTTTAAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * * * * ** * *
4581007 GCATGCTCTTTGAGGATTGGAAGGTGCCACCAAGTTGTGTGGTTTTTAAAAGGGAAAGGTA
1 TCCTGCTCTTTAAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * *
4581068 TCCTACTCTTTGAGGACTTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
1 TCCTGCTCTTTAAGGAC-TAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * **
4581129 TCCTGCTATTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGTG
1 TCCTGCTCTTTAAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * *
4581190 TCCTACTCTTTAAGGACTAGAAGGTG--ACCAACTTGTGTAGGCTTTGAAAGGAAAA--CG
1 TCCTGCTCTTTAAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * *
4581247 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCG
1 TCCTGCTCTTTAAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
4581308 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTAAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
4581369 TCTTGCT-TCTTAAGGACTGAAAGG
1 TCCTGCTCT-TTAAGGACT-AAAGG
4581393 ATAAAAGGTT
Statistics
Matches: 380, Mismatches: 52, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
57 26 0.07
58 3 0.01
59 98 0.26
60 6 0.02
61 245 0.64
62 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTAAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
Found at i:4594885 original size:79 final size:79
Alignment explanation
Indices: 4594786--4595742 Score: 988
Period size: 79 Copynumber: 12.1 Consensus size: 79
4594776 TATTTTAGAG
* * * * * *
4594786 ATAAAACCAAGGGTGGAGTATCCCCTCAAAAATAACGTGGTCGGAGCATCCCCGATTGTGGAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAA
4594851 TT-AGTGTTTTGAAA
66 TTGA-TGTTTTGAAA
* * * * * *
4594865 ATAAAACTGAGGTTAGAGTATCCCCTCAGAAATAACGGGGTGGGAGTATCCCCAATTATGAAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAA
*
4594930 TCGATGTTTT-AGAA
66 TTGATGTTTTGA-AA
* * * *
4594944 ATAAAACC-AGGGTTGGAGTATCCCCT-A-AAAAAACAGGGTTAGAGTATCCCCGATTGTGAAAA
1 ATAAAACCGA-GGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAA
*
4595006 ATTGGTGTTTTG-AA
65 ATTGATGTTTTGAAA
* * * * ** * * *
4595020 ATAAAATCGGGGTTGAAGTATCCTCTC-GAAAATAACAAGGTTGAAGTATCCTCGATTGCGGAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTGTGGAAA
*
4595084 ATTGGTGTTTT-AGAA
65 ATTGATGTTTTGA-AA
* * * * * * *
4595099 ATAAAACTGGGGTTAGAGTATCCCCTC-GAAAATAACAGGGTTAGAGTATCCCCGATTATGAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTGTGGAAA
4595163 ATTGATGTTTTGAAA
65 ATTGATGTTTTGAAA
* * *
4595178 ATAAAACCAAAGTTGGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATTGT-GAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAA
4595242 CTTGATGTTTTGAAA
66 -TTGATGTTTTGAAA
* *
4595257 ATAAAACCG-GAGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCTGATTGTGGAAA
1 ATAAAACCGAG-GTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAA
* *
4595321 ATTGATATTTTAAAA
65 ATTGATGTTTTGAAA
* * * *
4595336 ATAAAAGC-AGGGTTGGAGTAT-CCCTCGGAAATGACGGGGTTGGAGTATCCCCGATTGTGAAAA
1 ATAAAACCGA-GGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAA
*
4595399 ATCGATGTTTTGAAA
65 ATTGATGTTTTGAAA
* * * * * *
4595414 ATAAAACAGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTCGAAGTATCCCTGATTGTGAAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAA
*
4595479 TTGATGTTTTAAGTTTTGGAA
66 TTGA-----T--GTTTTGAAA
* * *
4595500 ATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAA
* *
4595565 TCGATGTTTTGGAA
66 TTGATGTTTTGAAA
* * * * * * *
4595579 ATAAAACC-ATGGTTGGAGTGTCCCCTCAAAAATAACGAGATTGGAGTATCCTCGGTTGTGAAAA
1 ATAAAACCGA-GGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAA
* *
4595643 AATGATGTTTTGGAA
65 ATTGATGTTTTGAAA
* * * * *
4595658 ATTAAACCGGGGTTGGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCTCGATTGTAGAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAA
* *
4595723 TCGATGTTTTAAAA
66 TTGATGTTTTGAAA
4595737 ATAAAA
1 ATAAAA
4595743 ACATGAATGA
Statistics
Matches: 735, Mismatches: 115, Indels: 56
0.81 0.13 0.06
Matches are distributed among these distances:
76 23 0.03
77 38 0.05
78 113 0.15
79 481 0.65
80 9 0.01
81 1 0.00
84 1 0.00
86 69 0.09
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
ATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAA
TTGATGTTTTGAAA
Found at i:4600108 original size:19 final size:19
Alignment explanation
Indices: 4600084--4600136 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
4600074 AATGGCCTGC
*
4600084 ATGTATCGATACATTAAAA
1 ATGTATCGACACATTAAAA
4600103 ATGTATCGACACATTAAAA
1 ATGTATCGACACATTAAAA
4600122 ATGTATCGACACATT
1 ATGTATCGACACATT
4600137 GGGATCCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.30
Consensus pattern (19 bp):
ATGTATCGACACATTAAAA
Found at i:4600360 original size:75 final size:75
Alignment explanation
Indices: 4600195--4600374 Score: 190
Period size: 75 Copynumber: 2.5 Consensus size: 75
4600185 CATCTGAAAA
** *
4600195 TGTATCGATACATTT---ACTTATGTATCGATGTAATTTTTCGACTAGAATAAAAAATTTGCCTC
1 TGTATCGATACATTTGAGACTTATGTATCGATACAATTTTTCGACCAGAATAAAAAATTTGCCTC
4600257 AACATGGTCC
66 AACATGGTCC
** * * * * * ** *
4600267 TCCATTGATGCATATGAGACTTATTTATCGATACAATTTTTTGACCAGAATGCAAAATTTGCCTT
1 TGTATCGATACATTTGAGACTTATGTATCGATACAATTTTTCGACCAGAATAAAAAATTTGCCTC
4600332 AACATGGTCC
66 AACATGGTCC
* *
4600342 TGTATCAATACATTTGAGAC--ATGTATCAATACA
1 TGTATCGATACATTTGAGACTTATGTATCGATACA
4600375 TTCACTTATG
Statistics
Matches: 84, Mismatches: 21, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
72 10 0.12
73 11 0.13
75 63 0.75
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (75 bp):
TGTATCGATACATTTGAGACTTATGTATCGATACAATTTTTCGACCAGAATAAAAAATTTGCCTC
AACATGGTCC
Found at i:4600409 original size:21 final size:20
Alignment explanation
Indices: 4600362--4600413 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
4600352 CATTTGAGAC
* *
4600362 ATGTATCAATACATTCACTT
1 ATGTATCGATACATTCACTA
4600382 ATGTATCGATACATTCACTA
1 ATGTATCGATACATTCACTA
4600402 ATTGTATCGATA
1 A-TGTATCGATA
4600414 TAAATTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:4602477 original size:31 final size:31
Alignment explanation
Indices: 4602409--4602470 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
4602399 TTTTAAAAAA
*
4602409 AATGCTCCGAAACAAGAGCTAAAACTGTTAT
1 AATGCTCCGAAACAAGAGCTAAAACTATTAT
* * *
4602440 AATGCTCCTAAACAAGAGTTTAAACTATTAT
1 AATGCTCCGAAACAAGAGCTAAAACTATTAT
4602471 GGTGCTCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (31 bp):
AATGCTCCGAAACAAGAGCTAAAACTATTAT
Found at i:4606703 original size:20 final size:20
Alignment explanation
Indices: 4606678--4606717 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4606668 GTTACAAGCA
*
4606678 ATGTATCGATACAATTTATC
1 ATGTATCGATACAATGTATC
4606698 ATGTATCGATACAATGTATC
1 ATGTATCGATACAATGTATC
4606718 GATACATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATGTATC
Found at i:4606714 original size:13 final size:13
Alignment explanation
Indices: 4606676--4606728 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
4606666 TCGTTACAAG
4606676 CAATGTATCGATA
1 CAATGTATCGATA
4606689 CAAT-T-T--AT-
1 CAATGTATCGATA
4606697 C-ATGTATCGATA
1 CAATGTATCGATA
4606709 CAATGTATCGATA
1 CAATGTATCGATA
*
4606722 CATTGTA
1 CAATGTA
4606729 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 2 0.06
8 2 0.06
9 3 0.09
11 3 0.09
12 2 0.06
13 21 0.64
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:4606716 original size:33 final size:33
Alignment explanation
Indices: 4606676--4606744 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
4606666 TCGTTACAAG
*
4606676 CAATGTATCGATACAATT-TATCATGTATCGATA
1 CAATGTATCGATAC-ATTGTACCATGTATCGATA
4606709 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGTACCATGTATCGATA
4606742 CAA
1 CAA
4606745 ATAGTGGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 3 0.09
33 31 0.91
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTGTACCATGTATCGATA
Found at i:4606817 original size:19 final size:19
Alignment explanation
Indices: 4606773--4606828 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
4606763 CTGCCAATCT
**
4606773 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
4606793 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
4606812 CATGTATCGATACAATG
1 CATGTATCGATACAATG
4606829 TATTGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:4607427 original size:21 final size:21
Alignment explanation
Indices: 4607381--4607463 Score: 112
Period size: 21 Copynumber: 3.9 Consensus size: 21
4607371 AGTTTACGTT
* * *
4607381 TTTCTCCCCTTTAGTTAAAGAA
1 TTTCTCCCCCTTAATCAAA-AA
*
4607403 TTTCTCCCCTTTAATCAAAAA
1 TTTCTCCCCCTTAATCAAAAA
*
4607424 TTTCTCCCCCTTAATCAAAGA
1 TTTCTCCCCCTTAATCAAAAA
4607445 TTTCTCCCCCTTAATCAAA
1 TTTCTCCCCCTTAATCAAA
4607464 TCTAAAAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 40 0.70
22 17 0.30
ACGTcount: A:0.29, C:0.30, G:0.04, T:0.37
Consensus pattern (21 bp):
TTTCTCCCCCTTAATCAAAAA
Found at i:4615478 original size:20 final size:21
Alignment explanation
Indices: 4615453--4615506 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
4615443 GTTACAAGCA
*
4615453 ATGTATCGATACAATT-CATC
1 ATGTATCGATACAATTGCACC
* *
4615473 ATGTATCAATAC-ATTGTACC
1 ATGTATCGATACAATTGCACC
4615493 ATGTATCGATACAA
1 ATGTATCGATACAA
4615507 ACAGTGGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.11
20 24 0.86
21 1 0.04
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATTGCACC
Found at i:4615582 original size:19 final size:19
Alignment explanation
Indices: 4615535--4615590 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
4615525 CAGCCAATCT
**
4615535 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
4615555 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
4615574 CATGCATCGATACAATG
1 CATGTATCGATACAATG
4615591 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:4616086 original size:31 final size:31
Alignment explanation
Indices: 4616029--4616087 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
4616019 GTTAAACCCC
* *
4616029 ATTGACCTAAATACAGAATGATCCAAACCTA
1 ATTGACCTAAATACAAAATGACCCAAACCTA
*
4616060 ATTGACCTAAAT-CTAAAATTACCCAAAC
1 ATTGACCTAAATAC-AAAATGACCCAAAC
4616088 TCAAAACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.24
Consensus pattern (31 bp):
ATTGACCTAAATACAAAATGACCCAAACCTA
Found at i:4617168 original size:50 final size:50
Alignment explanation
Indices: 4617109--4617206 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 50
4617099 ATATTGTTGG
* *
4617109 AGATAGACTATGACTAAGAATTCTTCTTTAGTTTATAATTATAGGATTGA
1 AGATAGACTATGACTAAGAATTCTCCTTTAGTTTATAATTATAAGATTGA
* *
4617159 AGATTGACTATGACTAAGATTTCTCCTTTAGTTTATAATTATAAGATT
1 AGATAGACTATGACTAAGAATTCTCCTTTAGTTTATAATTATAAGATT
4617207 CATAATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (50 bp):
AGATAGACTATGACTAAGAATTCTCCTTTAGTTTATAATTATAAGATTGA
Found at i:4617168 original size:79 final size:79
Alignment explanation
Indices: 4617030--4617176 Score: 242
Period size: 79 Copynumber: 1.9 Consensus size: 79
4617020 TCTTAATTGA
*
4617030 AGATCGACTATGACTAAGAAATCTCTTTTAGTTTATAATTATAAGATTGAAGATCGACTATGACT
1 AGATAGACTATGACTAAGAAATCTCTTTTAGTTTATAATTATAAGATTGAAGATCGACTATGACT
4617095 AAGGATATTGTTGG
66 AAGGATATTGTTGG
* * *
4617109 AGATAGACTATGACTAAGAATTCT-TCTTTAGTTTATAATTATAGGATTGAAGATTGACTATGAC
1 AGATAGACTATGACTAAGAAATCTCT-TTTAGTTTATAATTATAAGATTGAAGATCGACTATGAC
4617173 TAAG
65 TAAG
4617177 ATTTCTCCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 1 0.02
79 62 0.98
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (79 bp):
AGATAGACTATGACTAAGAAATCTCTTTTAGTTTATAATTATAAGATTGAAGATCGACTATGACT
AAGGATATTGTTGG
Found at i:4621447 original size:20 final size:21
Alignment explanation
Indices: 4621407--4621460 Score: 85
Period size: 20 Copynumber: 2.6 Consensus size: 21
4621397 TTTTATAATT
4621407 TGTATCGATACA-AGTAGTGAA
1 TGTATCGATACATAG-AGTGAA
4621428 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATAGAGTGAA
4621448 TGTATCGATACAT
1 TGTATCGATACAT
4621461 GCCTGAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.59
21 12 0.38
22 1 0.03
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATAGAGTGAA
Found at i:4621467 original size:20 final size:20
Alignment explanation
Indices: 4621424--4621474 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4621414 ATACAAGTAG
*
4621424 TGAATGTATCGATACATAAG
1 TGAATGTATCGATACATAAC
**
4621444 TGAATGTATCGATACATGCC
1 TGAATGTATCGATACATAAC
4621464 TGAAATGTATC
1 TG-AATGTATC
4621475 AATATAAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
TGAATGTATCGATACATAAC
Found at i:4621571 original size:20 final size:21
Alignment explanation
Indices: 4621528--4621574 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4621518 CATAAGTAAA
***
4621528 TGTATCGATACATTTATTGTT
1 TGTATCGATACATTTATCCAT
4621549 TGTATCGATACA-TTATCCAT
1 TGTATCGATACATTTATCCAT
4621569 TGTATC
1 TGTATC
4621575 AATGCATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.47
Consensus pattern (21 bp):
TGTATCGATACATTTATCCAT
Found at i:4626987 original size:13 final size:13
Alignment explanation
Indices: 4626969--4626994 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4626959 CAATTTTTTA
4626969 TGTATCGATACAT
1 TGTATCGATACAT
4626982 TGTATCGATACAT
1 TGTATCGATACAT
4626995 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4627059 original size:21 final size:21
Alignment explanation
Indices: 4627033--4627108 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4627023 CTGCCAAGAA
4627033 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
4627054 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
4627074 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
*
4627095 ATGTATTGATACAT
1 ATGTATCGATACAT
4627109 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:4627078 original size:20 final size:20
Alignment explanation
Indices: 4627053--4627126 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
4627043 ACATCTTTTT
4627053 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
4627073 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
*
4627094 CATGTATTGATACATTGCAA
1 CATGTATCGATACATTGCAA
4627114 CATGTATCGATAC
1 CATGTATCGATAC
4627127 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:4627090 original size:41 final size:41
Alignment explanation
Indices: 4627033--4627126 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4627023 CTGCCAAGAA
4627033 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
4627074 ATGTATCGATACATCTTTTTCATGTATTGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4627115 ATGTATCGATAC
1 ATGTATCGATAC
4627127 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:4629595 original size:13 final size:13
Alignment explanation
Indices: 4629577--4629615 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
4629567 ATAATCACCC
*
4629577 TGTATCGATACAG
1 TGTATCGATACAA
4629590 TGTATCGATACAA
1 TGTATCGATACAA
4629603 TGTATCGATACAA
1 TGTATCGATACAA
4629616 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4633557 original size:21 final size:21
Alignment explanation
Indices: 4633528--4633572 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4633518 AAGTTTTCAT
*
4633528 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4633548 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4633570 TTT
1 TTT
4633573 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4635795 original size:13 final size:13
Alignment explanation
Indices: 4635777--4635802 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4635767 CAATTTTTTG
4635777 TGTATCGATACAT
1 TGTATCGATACAT
4635790 TGTATCGATACAT
1 TGTATCGATACAT
4635803 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4635867 original size:21 final size:21
Alignment explanation
Indices: 4635841--4635916 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4635831 CTGCCAAGAA
*
4635841 ATGTATCAATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
4635862 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
4635882 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
4635903 ATGTATCGATACAT
1 ATGTATCGATACAT
4635917 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:4635886 original size:20 final size:20
Alignment explanation
Indices: 4635861--4635934 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
4635851 ACATCTTTTT
4635861 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
4635881 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
4635902 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
4635922 CATGTATCGATAC
1 CATGTATCGATAC
4635935 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:4635898 original size:41 final size:41
Alignment explanation
Indices: 4635841--4635934 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4635831 CTGCCAAGAA
*
4635841 ATGTATCAATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4635882 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
4635923 ATGTATCGATAC
1 ATGTATCGATAC
4635935 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:4642804 original size:54 final size:54
Alignment explanation
Indices: 4642666--4642921 Score: 168
Period size: 54 Copynumber: 4.8 Consensus size: 54
4642656 AACTTTTGAT
* ** * *
4642666 ACGGCATCATTTTCAATAACACCAAGTCACACTTACCAAATTTTGATCTCTACC
1 ACGGCATCATTTTCAGTAATGCCAAGTCACACTTACCAAATTCTAATCTCTACC
* ** *
4642720 ACGGCGTCATTTTCAGTAATGCTTAGTCACACTTACCAAATTCTAAT-TATTACC
1 ACGGCATCATTTTCAGTAATGCCAAGTCACACTTACCAAATTCTAATCT-CTACC
* * * * * * *
4642774 ACGGTATCATTTTTAGTGATGCCAAATCACAC-T---AAATTTTGAT-TGCCACC
1 ACGGCATCATTTTCAGTAATGCCAAGTCACACTTACCAAATTCTAATCT-CTACC
* * ** *
4642824 ACAGCATCATTATT-AGTGACACCAAGTCACACTTACCAAATTCTGATCATC-ACC
1 ACGGCATCATT-TTCAGTAATGCCAAGTCACACTTACCAAATTCTAATC-TCTACC
* * * * ** *
4642878 ACGGCATCACTATCAATGATGTTAAGTCACACTTATCAAATTCT
1 ACGGCATCATTTTCAGTAATGCCAAGTCACACTTACCAAATTCT
4642922 GATCGCCATC
Statistics
Matches: 157, Mismatches: 36, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
50 36 0.23
51 3 0.02
53 3 0.02
54 113 0.72
55 1 0.01
56 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (54 bp):
ACGGCATCATTTTCAGTAATGCCAAGTCACACTTACCAAATTCTAATCTCTACC
Found at i:4642957 original size:158 final size:161
Alignment explanation
Indices: 4642684--4643014 Score: 393
Period size: 158 Copynumber: 2.1 Consensus size: 161
4642674 ATTTTCAATA
* * * * *
4642684 ACACCAAGTCACACTTACCAAATTTTGATCTCTACCACGGCGTCATTTTCAGTAATGCTTAGTCA
1 ACACCAAGTCACACTTACCAAATTCTGATCTCTACCACGGCATCACTATCAATAATGCTTAGTCA
* ** * * * *
4642749 CACTTACCAAATTCTAATTATTACCACGGTATCATTTTTAGTGATGCCAAATCACA-C-T-AAAT
66 CACTTACCAAATTCTAATCACCACCAAGGCATCATTATTAGTGACGCCAAATCACACCATCAAAT
* * *
4642811 TTTGATTGCCACCACAGCATCATTATTAGTG
131 TCTGATCGCCACCACAGCATCATTATTAGCG
*
4642842 ACACCAAGTCACACTTACCAAATTCTGATCATC-ACCACGGCATCACTATCAATGATG-TTAAGT
1 ACACCAAGTCACACTTACCAAATTCTGATC-TCTACCACGGCATCACTATCAATAATGCTT-AGT
* * * * *
4642905 CACACTTATCAAATTCTGATCGCCATCAAGGCATCATTATTAGTGACGCCAAATCCCACCTATCA
64 CACACTTACCAAATTCTAATCACCACCAAGGCATCATTATTAGTGACGCCAAATCACACC-ATCA
**
4642970 AATTCTGATCGCCACCATGGCATCATTATTAGCG
128 AATTCTGATCGCCACCACAGCATCATTATTAGCG
4643004 ACACCAAGTCA
1 ACACCAAGTCA
4643015 TTTCTATCAA
Statistics
Matches: 144, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
157 2 0.01
158 97 0.67
159 3 0.02
161 1 0.01
162 41 0.28
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (161 bp):
ACACCAAGTCACACTTACCAAATTCTGATCTCTACCACGGCATCACTATCAATAATGCTTAGTCA
CACTTACCAAATTCTAATCACCACCAAGGCATCATTATTAGTGACGCCAAATCACACCATCAAAT
TCTGATCGCCACCACAGCATCATTATTAGCG
Found at i:4642995 original size:54 final size:54
Alignment explanation
Indices: 4642771--4643010 Score: 218
Period size: 54 Copynumber: 4.5 Consensus size: 54
4642761 TCTAATTATT
* * * * *
4642771 ACCACGGTATCATTTTTAGTGATGCCAAATCACA-C--T-AAATTTTGATTGCC
1 ACCACGGCATCATTATTAGTGACGCCAAATCACACCTATCAAATTCTGATCGCC
* * * * * **
4642821 ACCACAGCATCATTATTAGTGACACCAAGTCACACTTACCAAATTCTGATCATC
1 ACCACGGCATCATTATTAGTGACGCCAAATCACACCTATCAAATTCTGATCGCC
* * * * ** * *
4642875 ACCACGGCATCACTATCAATGATGTTAAGTCACACTTATCAAATTCTGATCGCC
1 ACCACGGCATCATTATTAGTGACGCCAAATCACACCTATCAAATTCTGATCGCC
* * *
4642929 ATCAAGGCATCATTATTAGTGACGCCAAATCCCACCTATCAAATTCTGATCGCC
1 ACCACGGCATCATTATTAGTGACGCCAAATCACACCTATCAAATTCTGATCGCC
* * *
4642983 ACCATGGCATCATTATTAGCGACACCAA
1 ACCACGGCATCATTATTAGTGACGCCAA
4643011 GTCATTTCTA
Statistics
Matches: 148, Mismatches: 38, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
50 28 0.19
54 120 0.81
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (54 bp):
ACCACGGCATCATTATTAGTGACGCCAAATCACACCTATCAAATTCTGATCGCC
Found at i:4643108 original size:85 final size:85
Alignment explanation
Indices: 4643003--4643189 Score: 356
Period size: 85 Copynumber: 2.2 Consensus size: 85
4642993 CATTATTAGC
*
4643003 GACACCAAGTCATTTCTATCAAATGAAGACTATATGTCCACCACAATGGCACTATAGTAGTTAGA
1 GACACCAAGTCATTTCTATCAAATGAAGACTATACGTCCACCACAATGGCACTATAGTAGTTAGA
4643068 TAAGCTACTTAACATTCATT
66 TAAGCTACTTAACATTCATT
4643088 GACACCAAGTCATTTCTATCAAATGAAGACTATACGTCCACCACAATGGCACTATAGTAGTTAGA
1 GACACCAAGTCATTTCTATCAAATGAAGACTATACGTCCACCACAATGGCACTATAGTAGTTAGA
4643153 TAAGCTACTTAACATTCATT
66 TAAGCTACTTAACATTCATT
4643173 GACACCAAGTCACTTTC
1 GACACCAAGTCA-TTTC
4643190 AATACCCTAG
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
85 96 0.96
86 4 0.04
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (85 bp):
GACACCAAGTCATTTCTATCAAATGAAGACTATACGTCCACCACAATGGCACTATAGTAGTTAGA
TAAGCTACTTAACATTCATT
Found at i:4649698 original size:20 final size:20
Alignment explanation
Indices: 4649655--4649700 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
4649645 AAATCTTTTG
4649655 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
4649676 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
4649696 CAAAA
1 CAAAA
4649701 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:4651435 original size:60 final size:61
Alignment explanation
Indices: 4651351--4651497 Score: 271
Period size: 60 Copynumber: 2.4 Consensus size: 61
4651341 ATTTTTGATA
4651351 TGAATTAC-TTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCG
1 TGAATTACTTTG-TTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCG
4651412 TGAATTACTTTGTT-AGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCG
1 TGAATTACTTTGTTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCG
4651472 TGAATTACTTTGTTAAGGGGGAGAAT
1 TGAATTACTTTGTTAAGGGGGAGAAT
4651498 GTATGAATTT
Statistics
Matches: 84, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
60 60 0.71
61 21 0.25
62 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.34, T:0.26
Consensus pattern (61 bp):
TGAATTACTTTGTTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCG
Found at i:4652220 original size:34 final size:32
Alignment explanation
Indices: 4652160--4652222 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 32
4652150 GCCAAACTTG
**
4652160 TATCGATACACAAAGTATGTATCGATACAATA
1 TATCGATACACAAAACATGTATCGATACAATA
4652192 TATCGATACACAAAAACATTGTATCGATACA
1 TATCGATACAC-AAAACA-TGTATCGATACA
4652223 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 11 0.41
33 4 0.15
34 12 0.44
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.27
Consensus pattern (32 bp):
TATCGATACACAAAACATGTATCGATACAATA
Found at i:4654944 original size:119 final size:119
Alignment explanation
Indices: 4654733--4654970 Score: 476
Period size: 119 Copynumber: 2.0 Consensus size: 119
4654723 AACACAACCT
4654733 TATGTAAACAAAGAAATTATACAAACAAAAATTGCCTTTAAGTAGACTGGTGTTTGTGAAAGAAT
1 TATGTAAACAAAGAAATTATACAAACAAAAATTGCCTTTAAGTAGACTGGTGTTTGTGAAAGAAT
4654798 GAGCTCAAAATAAATACAAAAGAGCTTTCGAAAAATAACAACAATGAATACAAA
66 GAGCTCAAAATAAATACAAAAGAGCTTTCGAAAAATAACAACAATGAATACAAA
4654852 TATGTAAACAAAGAAATTATACAAACAAAAATTGCCTTTAAGTAGACTGGTGTTTGTGAAAGAAT
1 TATGTAAACAAAGAAATTATACAAACAAAAATTGCCTTTAAGTAGACTGGTGTTTGTGAAAGAAT
4654917 GAGCTCAAAATAAATACAAAAGAGCTTTCGAAAAATAACAACAATGAATACAAA
66 GAGCTCAAAATAAATACAAAAGAGCTTTCGAAAAATAACAACAATGAATACAAA
4654971 AGCTCTTGAA
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.24
Consensus pattern (119 bp):
TATGTAAACAAAGAAATTATACAAACAAAAATTGCCTTTAAGTAGACTGGTGTTTGTGAAAGAAT
GAGCTCAAAATAAATACAAAAGAGCTTTCGAAAAATAACAACAATGAATACAAA
Found at i:4655269 original size:19 final size:18
Alignment explanation
Indices: 4655242--4655277 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4655232 GTTTGAAGCA
4655242 ATGTATCGATACAATTATC
1 ATGTATCGATAC-ATTATC
*
4655261 ATGTGTCGATACATTAT
1 ATGTATCGATACATTAT
4655278 ATCGATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
ATGTATCGATACATTATC
Found at i:4655286 original size:32 final size:33
Alignment explanation
Indices: 4655245--4655306 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
4655235 TGAAGCAATG
* *
4655245 TATCGATACAAT-TATCATGTGTCGATACATTA
1 TATCGATACAATGTACCATGTATCGATACATTA
*
4655277 TATCGATACAATGTGCCATGTATCGATACA
1 TATCGATACAATGTACCATGTATCGATACA
4655307 AACAGTAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (33 bp):
TATCGATACAATGTACCATGTATCGATACATTA
Found at i:4655360 original size:19 final size:19
Alignment explanation
Indices: 4655336--4655385 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
4655326 CTATCAGTTT
**
4655336 CATGTATCGATACAATGTC
1 CATGTATCGATACAATGAA
*
4655355 CATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
*
4655374 CATGTATTGATA
1 CATGTATCGATA
4655386 TATTGTATCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:4655393 original size:32 final size:33
Alignment explanation
Indices: 4655357--4655418 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
4655347 ACAATGTCCA
*
4655357 TGTATCAATACAATG-A-ACATGTATTGATATAT
1 TGTATCAATACAAAGCATA-ATGTATTGATATAT
*
4655389 TGTATCGATACAAAGCATAATGTATTGATA
1 TGTATCAATACAAAGCATAATGTATTGATA
4655419 CATCTGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 13 0.50
33 12 0.46
34 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (33 bp):
TGTATCAATACAAAGCATAATGTATTGATATAT
Found at i:4655990 original size:27 final size:27
Alignment explanation
Indices: 4655960--4656044 Score: 73
Period size: 31 Copynumber: 2.9 Consensus size: 27
4655950 TTATACAAAT
4655960 AATATTATATTACATTATTAAAATATA
1 AATATTATATTACATTATTAAAATATA
*
4655987 AATATGTATGTT-CAATAATATTCAAAATATA
1 AATAT-TATATTAC-AT--TATT-AAAATATA
* *
4656018 AATATTGAAAATTATATTATTAAAATA
1 AATATT--ATATTACATTATTAAAATA
4656045 ATTTTATACT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
27 6 0.13
28 7 0.15
29 6 0.13
30 9 0.20
31 13 0.28
32 5 0.11
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (27 bp):
AATATTATATTACATTATTAAAATATA
Found at i:4656102 original size:44 final size:46
Alignment explanation
Indices: 4656016--4656102 Score: 108
Period size: 44 Copynumber: 1.9 Consensus size: 46
4656006 ATTCAAAATA
* *
4656016 TAAATATTGAAAATTATATTATTAAAATAATTTTATACTAATATTT
1 TAAATATTGAAAATTATAATATTAAAATAATTTTATAATAATATTT
* *
4656062 TAAAT-TTTAAAATTA-AATATT-AAATATTTTTATTAATAATA
1 TAAATATTGAAAATTATAATATTAAAATAATTTTA-TAATAATA
4656103 ATATCTAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 10 0.28
44 12 0.33
45 9 0.25
46 5 0.14
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (46 bp):
TAAATATTGAAAATTATAATATTAAAATAATTTTATAATAATATTT
Found at i:4656814 original size:11 final size:11
Alignment explanation
Indices: 4656798--4656832 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
4656788 ATATTTATTA
4656798 TATTTAATTTT
1 TATTTAATTTT
4656809 TATTTAATTTT
1 TATTTAATTTT
4656820 ATATTTAATTTT
1 -TATTTAATTTT
4656832 T
1 T
4656833 TAAAAATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTTAATTTT
Found at i:4656826 original size:12 final size:12
Alignment explanation
Indices: 4656795--4656831 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
4656785 TTGATATTTA
4656795 TTATATTTAATT
1 TTATATTTAATT
4656807 TT-TATTTAATT
1 TTATATTTAATT
4656818 TTATATTTAATT
1 TTATATTTAATT
4656830 TT
1 TT
4656832 TTAAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.46
12 13 0.54
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATATTTAATT
Found at i:4658485 original size:161 final size:162
Alignment explanation
Indices: 4658197--4658526 Score: 529
Period size: 160 Copynumber: 2.0 Consensus size: 162
4658187 AAATTTTCCA
* *
4658197 AAAAAATGATGAGATGAAAAAAATATTATTCTTTATTCTCTATCATTCTTTTTTTTTAAATAAGT
1 AAAAAATGATGAAATAAAAAAAATATTATTCTTTATTCTCTATCATTCTTTTTTTTTAAATAAGT
4658262 TTATTCTTTATCATTCTCAATTAAAGCAAATATCTTTATATTTGATTTATTG-AAAGAAAAAAAA
66 TTATTCTTTATCATTCTCAATTAAAGCAAATATCTTTATATTTGATTTATTGAAAAGAAAAAAAA
4658326 CTAAGTATAAGAAGTATACTATTGTCCCTCAT
131 CTAAGTATAAGAAGTATACTATTGTCCCTCAT
* * *
4658358 AAAAAATGATGAAATAAAAAAAATATTGTTCTTTCTTCTCTATCATTC-TTTTTTTTAGATAAGT
1 AAAAAATGATGAAATAAAAAAAATATTATTCTTTATTCTCTATCATTCTTTTTTTTTAAATAAGT
* * * * *
4658422 TTATTTTTTATCATTTTCAATTGAAGTAAATATCTTTATATTTGATTTATTGTTTAAAAAAAAAA
66 TTATTCTTTATCATTCTCAATTAAAGCAAATATCTTTATATTTGATTTATTG---AAAAGAAAAA
4658487 AAACTAAGTATAAGAAGTATACTATTGTCCCTCAT
128 AAACTAAGTATAAGAAGTATACTATTGTCCCTCAT
4658522 AAAAA
1 AAAAA
4658527 GATATTTACT
Statistics
Matches: 155, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
160 63 0.41
161 44 0.28
164 48 0.31
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (162 bp):
AAAAAATGATGAAATAAAAAAAATATTATTCTTTATTCTCTATCATTCTTTTTTTTTAAATAAGT
TTATTCTTTATCATTCTCAATTAAAGCAAATATCTTTATATTTGATTTATTGAAAAGAAAAAAAA
CTAAGTATAAGAAGTATACTATTGTCCCTCAT
Found at i:4659656 original size:40 final size:40
Alignment explanation
Indices: 4659610--4659686 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
4659600 TAGACATAGA
*
4659610 TTATTTCGAGCTTGGTAATATTAAGTTTACATCTTTTAAG
1 TTATTTCAAGCTTGGTAATATTAAGTTTACATCTTTTAAG
**
4659650 TTATTTCAAGCTTGGTAATATTTGGTTTACATCTTTT
1 TTATTTCAAGCTTGGTAATATTAAGTTTACATCTTTT
4659687 TGGATTCATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (40 bp):
TTATTTCAAGCTTGGTAATATTAAGTTTACATCTTTTAAG
Found at i:4660483 original size:3 final size:3
Alignment explanation
Indices: 4660475--4660502 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4660465 AACTTCCCCC
4660475 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
4660503 CCCTGTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:4663130 original size:39 final size:39
Alignment explanation
Indices: 4663087--4663164 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
4663077 ACCAAGATGA
4663087 TAAGGACAAGTTGGAGAAAGAAGGCAAAGAAGCTAGGGT
1 TAAGGACAAGTTGGAGAAAGAAGGCAAAGAAGCTAGGGT
* *
4663126 TAAGGACGAGTTGGAGAAAGAAGGCAAGGAAGCTAGGGT
1 TAAGGACAAGTTGGAGAAAGAAGGCAAAGAAGCTAGGGT
4663165 GAGTAACGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.41, C:0.08, G:0.38, T:0.13
Consensus pattern (39 bp):
TAAGGACAAGTTGGAGAAAGAAGGCAAAGAAGCTAGGGT
Found at i:4667302 original size:13 final size:13
Alignment explanation
Indices: 4667284--4667340 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
4667274 CATAAAGTAT
4667284 TGTATCGATACAA
1 TGTATCGATACAA
4667297 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
4667312 GTGTTGTATCAATACAA
1 ----TGTATCGATACAA
4667329 TGTATCGATACA
1 TGTATCGATACA
4667341 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4667321 original size:19 final size:17
Alignment explanation
Indices: 4667262--4667363 Score: 76
Period size: 19 Copynumber: 6.1 Consensus size: 17
4667252 ATTTCAACGA
4667262 TTTGTATCGATACATAAAG
1 TTTGTATCGATAC--AAAG
4667281 TATTGTATCGATAC-AA-
1 T-TTGTATCGATACAAAG
4667297 --TGTATCGATACATAAG
1 TTTGTATCGATACA-AAG
*
4667313 TGTTGTATCAATAC-AA-
1 T-TTGTATCGATACAAAG
4667329 --TGTATCGATACATAAG
1 TTTGTATCGATACA-AAG
4667345 TTTTGTATCGATACAAAG
1 -TTTGTATCGATACAAAG
4667363 T
1 T
4667364 AAGCTACTGC
Statistics
Matches: 68, Mismatches: 2, Indels: 28
0.69 0.02 0.29
Matches are distributed among these distances:
13 21 0.31
15 4 0.06
17 5 0.07
18 3 0.04
19 23 0.34
20 12 0.18
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (17 bp):
TTTGTATCGATACAAAG
Done.