Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 235 of 313
Found at i:72458284 original size:25 final size:25
Alignment explanation
Indices: 72458242--72458306 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 25
72458232 GCAACGGATT
*
72458242 CATGTTAGGGG-TGTGACAACACGAG
1 CATGTGAGGGGTTG-GACAACACGAG
* *
72458267 CATGTGAGGGGTTGG---ACATGGG
1 CATGTGAGGGGTTGGACAACACGAG
72458289 CATGTGAGGGGTTGGACA
1 CATGTGAGGGGTTGGACA
72458307 CAGGCATGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 20 0.61
25 11 0.33
26 2 0.06
ACGTcount: A:0.23, C:0.12, G:0.43, T:0.22
Consensus pattern (25 bp):
CATGTGAGGGGTTGGACAACACGAG
Found at i:72458294 original size:22 final size:22
Alignment explanation
Indices: 72458266--72458316 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
72458256 GACAACACGA
**
72458266 GCATGTGAGGGGTTGGACATGG
1 GCATGTGAGGGGTTGGACACAG
72458288 GCATGTGAGGGGTTGGACACAG
1 GCATGTGAGGGGTTGGACACAG
72458310 GCATGTG
1 GCATGTG
72458317 GAAACTGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.12, G:0.47, T:0.22
Consensus pattern (22 bp):
GCATGTGAGGGGTTGGACACAG
Found at i:72462497 original size:21 final size:21
Alignment explanation
Indices: 72462471--72462527 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
72462461 AGCTAAGAAC
72462471 TGATAGGTAAATTTTCTTGCA
1 TGATAGGTAAATTTTCTTGCA
*
72462492 TGATAGGTAAATCTTCTTGCA
1 TGATAGGTAAATTTTCTTGCA
72462513 TGATAGGTAAATTTT
1 TGATAGGTAAATTTT
72462528 AACCATTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (21 bp):
TGATAGGTAAATTTTCTTGCA
Found at i:72462830 original size:8 final size:8
Alignment explanation
Indices: 72462817--72462841 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
72462807 AAATGTTGAT
72462817 AATTTTGG
1 AATTTTGG
72462825 AATTTTGG
1 AATTTTGG
72462833 AATTTTGG
1 AATTTTGG
72462841 A
1 A
72462842 TTTAGGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (8 bp):
AATTTTGG
Found at i:72462849 original size:15 final size:16
Alignment explanation
Indices: 72462817--72462849 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
72462807 AAATGTTGAT
*
72462817 AATTTTGGAATTTTGG
1 AATTTTGGAATTTAGG
72462833 AATTTTGG-ATTTAGG
1 AATTTTGGAATTTAGG
72462848 AA
1 AA
72462850 CTAAATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
AATTTTGGAATTTAGG
Found at i:72473131 original size:357 final size:358
Alignment explanation
Indices: 72472469--72473184 Score: 1281
Period size: 357 Copynumber: 2.0 Consensus size: 358
72472459 TTGCAATCAC
* * * *
72472469 TGACACTGGAAAGTGTAGTGACAGTTTGAGCCAAGAAGCATTACAACAGAAGTTGAGTGAGGATT
1 TGACACTGGAAAGTGCAGTGACAGTGTGAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
72472534 AGAGGAACTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAAGGTGAGGTTAGTA
66 AGAGGAACTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAAGGTGAGGTTAGTA
*
72472599 TGCATGTTTAAGTCTCAGATTAAATAGAGGAGTGATGCTGGGTAAGATATACATTGAACTTTATT
131 TGCATGTTTAAGTCTCAGATTAAACAGAGGAGTGATGCTGGGTAAGATATACATTGAACTTTATT
* *
72472664 GCTTCGGCAATCACCTATCCTTTTTATACCTTGTGAGCACTTTGTATTCTACTGAAGATTCATGT
196 GCTTCGACAATCACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTCTACTGAAGATTCATGT
*
72472729 TGGGGATCTCATTTTATCATTATCATATTTTATTTTATATTTTTCAAGTTATTGCATTGACAACT
261 TGGGGATCTCAGTTTATCATTATCATATTTTATTTTATATTTTTCAAGTTATTGCATTGACAACT
72472794 ATTCTCACAATTTATCTTGTTTCCATCTAGTTG
326 ATTCTCACAATTTATCTTGTTTCCATCTAGTTG
72472827 TGACACTGGAAAGTGCAGTGACAGTGTGAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
1 TGACACTGGAAAGTGCAGTGACAGTGTGAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
* * * * *
72472892 AGAGGAATTTA-TCCACTTGTTTTTAATAGTGTCGTATTTCCATCATCGGAAGGTGAGGTTAGTA
66 AGAGGAACTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAAGGTGAGGTTAGTA
72472956 TGCATGTTTAAGTCTCAGATTAAACAGAGGAGTGATGCTGGGTAAGATATACATTGAACTTTATT
131 TGCATGTTTAAGTCTCAGATTAAACAGAGGAGTGATGCTGGGTAAGATATACATTGAACTTTATT
* *
72473021 GCTTCGACAATCACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTTTACTGAAGATTTATGT
196 GCTTCGACAATCACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTCTACTGAAGATTCATGT
*
72473086 TGGGGATCTCAGTTTATCATTATCATATTTTATTTTATTTTTTTCAAGTTATTGCATTGACAACT
261 TGGGGATCTCAGTTTATCATTATCATATTTTATTTTATATTTTTCAAGTTATTGCATTGACAACT
72473151 ATTCTCACAATTTATCTTGTTTCCATCTAGTTG
326 ATTCTCACAATTTATCTTGTTTCCATCTAGTTG
72473184 T
1 T
72473185 TGCACCGACA
Statistics
Matches: 342, Mismatches: 16, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
357 271 0.79
358 71 0.21
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (358 bp):
TGACACTGGAAAGTGCAGTGACAGTGTGAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
AGAGGAACTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAAGGTGAGGTTAGTA
TGCATGTTTAAGTCTCAGATTAAACAGAGGAGTGATGCTGGGTAAGATATACATTGAACTTTATT
GCTTCGACAATCACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTCTACTGAAGATTCATGT
TGGGGATCTCAGTTTATCATTATCATATTTTATTTTATATTTTTCAAGTTATTGCATTGACAACT
ATTCTCACAATTTATCTTGTTTCCATCTAGTTG
Found at i:72478165 original size:22 final size:22
Alignment explanation
Indices: 72478124--72478166 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
72478114 CATCCATTTG
*
72478124 AAGGAGGCACACACTCGTGTGA
1 AAGGAGGCACAAACTCGTGTGA
72478146 AAGGAGGCACAAAGCT-GTGTG
1 AAGGAGGCACAAA-CTCGTGTG
72478167 GCTAAGGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.33, C:0.19, G:0.35, T:0.14
Consensus pattern (22 bp):
AAGGAGGCACAAACTCGTGTGA
Found at i:72482169 original size:22 final size:22
Alignment explanation
Indices: 72482144--72482189 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
72482134 GGTAGCGAAA
* * *
72482144 TGCGAAGCAGTAGGCACCGTAG
1 TGCGAAGCAATAAGCACCATAG
*
72482166 TGCGAATCAATAAGCACCATAG
1 TGCGAAGCAATAAGCACCATAG
72482188 TG
1 TG
72482190 AAAACCCCGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (22 bp):
TGCGAAGCAATAAGCACCATAG
Found at i:72493700 original size:5 final size:5
Alignment explanation
Indices: 72493690--72493732 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
72493680 TGACTCATTT
* *
72493690 TTTTA TTTTA TGTTA CTTTA TTTTA TTTTA TTTTA TCTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TT
72493733 GGGTTGTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:72507339 original size:20 final size:20
Alignment explanation
Indices: 72507314--72507362 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
72507304 TGAGTTATTT
*
72507314 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAATAAAC
*
72507334 AAGTAAG-AGAGTAAATAAAG
1 AAGTAAGCA-AGTAAATAAAC
72507354 AAG-AAGCAA
1 AAGTAAGCAA
72507363 AGACCATGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAATAAAC
Found at i:72524182 original size:26 final size:26
Alignment explanation
Indices: 72524153--72524213 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
72524143 AATTTACCAA
72524153 GGGTAAAATCATCAAAATTTTACTAG-
1 GGGTAAAATCATCAAAATTTTAC-AGT
*
72524179 GGGTAAAATCGTCAAAATTTTACAGT
1 GGGTAAAATCATCAAAATTTTACAGT
72524205 GGGTAAAAT
1 GGGTAAAAT
72524214 AGGTATGAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
25 2 0.06
26 31 0.94
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.30
Consensus pattern (26 bp):
GGGTAAAATCATCAAAATTTTACAGT
Found at i:72528539 original size:80 final size:79
Alignment explanation
Indices: 72528455--72528626 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
72528445 GGACTAAGAT
*
72528455 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
72528519 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
72528535 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
72528600 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
72528614 CCGAAGGCATTTG
1 CCGAAGGCATTTG
72528627 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:72528606 original size:39 final size:39
Alignment explanation
Indices: 72528402--72528624 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
72528392 TTGAATGCTG
* * * * *
72528402 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
72528442 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
72528481 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
72528522 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
72528562 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
72528601 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
72528625 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:72528644 original size:79 final size:80
Alignment explanation
Indices: 72528482--72528659 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
72528472 AGATACAAAT
* * * *
72528482 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
72528547 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
72528562 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
72528626 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
72528641 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
72528660 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:72533834 original size:13 final size:13
Alignment explanation
Indices: 72533818--72533847 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
72533808 TTAATATAAC
*
72533818 ATATATAACTTAT
1 ATATATAAATTAT
72533831 ATATATAAATTAT
1 ATATATAAATTAT
72533844 ATAT
1 ATAT
72533848 CTCTTGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATATAAATTAT
Found at i:72544510 original size:12 final size:13
Alignment explanation
Indices: 72544486--72544514 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
72544476 GGGCTATAAC
72544486 TATTGCATTTATT
1 TATTGCATTTATT
72544499 TATTGC-TTTATT
1 TATTGCATTTATT
72544511 TATT
1 TATT
72544515 CATCTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:72549130 original size:50 final size:50
Alignment explanation
Indices: 72549063--72549194 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 50
72549053 TTTTGAGGTT
* * *
72549063 ATGAGAGCTCTCACGTAATACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGCTCTCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* * * *
72549113 ATGAGAGGTCCTC-CGTAAGACCTTGTCTGGGACATGGCATGGGCACTGAT
1 ATGAGAGCT-CTCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* * * *
72549163 ATGAGAACTCCCATGTAAGACCATATCTGGGA
1 ATGAGAGCTCTCACGTAAGACCATGTCTGGGA
72549195 TATGACATTG
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
49 2 0.03
50 62 0.93
51 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAGAGCTCTCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:72549460 original size:20 final size:19
Alignment explanation
Indices: 72549435--72549482 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
72549425 TGAGTTATTT
72549435 AAGTAAGTATGTAACTAAAG
1 AAGTAAGTAT-TAACTAAAG
* *
72549455 AAGTAAGAGATTAAGTAAAG
1 AAGTAAG-TATTAACTAAAG
72549475 AAG-AAGTA
1 AAGTAAGTA
72549483 AAGATCATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 18 0.75
21 2 0.08
ACGTcount: A:0.54, C:0.02, G:0.23, T:0.21
Consensus pattern (19 bp):
AAGTAAGTATTAACTAAAG
Found at i:72556706 original size:50 final size:50
Alignment explanation
Indices: 72556606--72557097 Score: 480
Period size: 50 Copynumber: 9.4 Consensus size: 50
72556596 GAGACCCTAT
* * * *
72556606 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCAC
1 GTAAGACCATGTCTGGGACATGCCATTGGC---ATCGA-G--ATGAGAGGTCCCAC
* *
72556662 GTAAGACCATGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCAC
* * * *
72556712 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCAC
1 GTAAGACCATGTCTGGGACATGCCATTGGC---ATCGA-G--ATGAGAGGTCCCAC
* *
72556768 GTAAGACCATGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCAC
* * * *
72556818 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCAC
1 GTAAGACCATGTCTGGGACATGCCATTGGC---ATCGA-G--ATGAGAGGTCCCAC
* *
72556874 GTAAGACCATGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCAC
* * * *
72556924 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCAC
1 GTAAGACCATGTCTGGGACATGCCATTGGC---ATCGA-G--ATGAGAGGTCCCAC
* *
72556980 GTAAGACCATGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCAC
* * * * ** *
72557030 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCAC
*
72557080 GTAAGACCATATCTGGGA
1 GTAAGACCATGTCTGGGA
72557098 TATGGAATTG
Statistics
Matches: 366, Mismatches: 52, Indels: 42
0.80 0.11 0.09
Matches are distributed among these distances:
50 187 0.51
52 4 0.01
53 28 0.08
54 3 0.01
56 144 0.39
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCAC
Found at i:72556791 original size:106 final size:106
Alignment explanation
Indices: 72556606--72557055 Score: 900
Period size: 106 Copynumber: 4.2 Consensus size: 106
72556596 GAGACCCTAT
72556606 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCACGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCACGTAAGACCA
72556671 TGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
66 TGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
72556712 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCACGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCACGTAAGACCA
72556777 TGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
66 TGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
72556818 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCACGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCACGTAAGACCA
72556883 TGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
66 TGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
72556924 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCACGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCACGTAAGACCA
72556989 TGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
66 TGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
72557030 GTAAGACCATGTCTGGGACATGGCAT
1 GTAAGACCATGTCTGGGACATGGCAT
72557056 GGGCACCGAT
Statistics
Matches: 344, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 344 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (106 bp):
GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCTCACGTAAGACCA
TGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
Found at i:72557158 original size:49 final size:49
Alignment explanation
Indices: 72556980--72557159 Score: 166
Period size: 50 Copynumber: 3.6 Consensus size: 49
72556970 GAGGTCTCAC
* * * * ** **
72556980 GTAAGACCATGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAGGAGAACTCCCAT
* * *
72557030 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAGGAGAACTCCCAT
* * *
72557080 GTAAGACCATATCTGGGATATGGAATTGGCA-GTACAGGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACG-ACAGGAGAAC-TCCCAT
* *
72557129 GTAAGACCATGTCTGGTACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
72557160 TGTTATTATC
Statistics
Matches: 108, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
48 4 0.04
49 36 0.33
50 68 0.63
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACGACAGGAGAACTCCCAT
Found at i:72558209 original size:30 final size:30
Alignment explanation
Indices: 72558168--72558231 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
72558158 TTGTTTACTT
72558168 ACTTGCGTATTTAAATAACTCATGATTATA
1 ACTTGCGTATTTAAATAACTCATGATTATA
*
72558198 ACTTGCTTATTTAAATAACTCATGATTATA
1 ACTTGCGTATTTAAATAACTCATGATTATA
72558228 ACTT
1 ACTT
72558232 CTCCTCCCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (30 bp):
ACTTGCGTATTTAAATAACTCATGATTATA
Found at i:72558535 original size:50 final size:50
Alignment explanation
Indices: 72558460--72558652 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 50
72558450 TTTCCTGTAC
* * **
72558460 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACATCTCATATCGG
* * ** * *
72558510 TGCCCATGCCATGTCCAAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACATCTCATATCGG
* * **
72558560 TGCCAACGCCATGTCCTAGACATGGTGTTACATGGGACATCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACATCTCAT-A--TC---GG
72558616 TGCCAATGCCATGT-CTCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCT-AGACATGGTCTTACATGGGA
72558653 TCCCATCCCC
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
50 79 0.69
53 2 0.02
55 2 0.02
56 32 0.28
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACATCTCATATCGG
Found at i:72561185 original size:23 final size:22
Alignment explanation
Indices: 72561153--72561199 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
72561143 ACTTAGGAAA
*
72561153 TTCTTATTTTTATTTTTTGTTTT
1 TTCTTA-TTTTATTTTTAGTTTT
* *
72561176 TTCTTCTTTTCTTTTTAGTTTT
1 TTCTTATTTTATTTTTAGTTTT
72561198 TT
1 TT
72561200 AATTATTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.06, C:0.09, G:0.04, T:0.81
Consensus pattern (22 bp):
TTCTTATTTTATTTTTAGTTTT
Found at i:72563193 original size:18 final size:17
Alignment explanation
Indices: 72563149--72563196 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
72563139 GGTTTATTGA
*
72563149 TTTAGTTCATTTGTTTAT
1 TTTAGTT-ATTTATTTAT
**
72563167 TTTTCTTATTTATATTAT
1 TTTAGTTATTTAT-TTAT
72563185 TTTAGTTATTTA
1 TTTAGTTATTTA
72563197 GTTTTCTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTAGTTATTTATTTAT
Found at i:72563253 original size:3 final size:3
Alignment explanation
Indices: 72563245--72563325 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
72563235 ATAGGGATTA
72563245 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
72563293 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
72563326 TAGACTTATT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:72564676 original size:45 final size:45
Alignment explanation
Indices: 72564627--72564845 Score: 287
Period size: 45 Copynumber: 4.9 Consensus size: 45
72564617 ATACCAGAAA
*
72564627 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* * *
72564672 CGAGTAAGACCATGACTAAAAGACGTTATGGAATCACAATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* * *
72564717 CAAGTAAGAACATGACTGAAAGACGTTATGGCATCACGATCCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* * *
72564762 CGAGTATGACCATGACTGAATGACGTTATGGCATCACGATTTTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* * ***
72564807 CGGGTAAGACCAT-AGCTAAAAGACACAATGGCATCACGA
1 CGAGTAAGACCATGA-CTGAAAGACGTTATGGCATCACGA
72564846 ATAAAAGGAA
Statistics
Matches: 151, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
44 1 0.01
45 150 0.99
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (45 bp):
CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
Found at i:72564882 original size:135 final size:135
Alignment explanation
Indices: 72564627--72564884 Score: 304
Period size: 135 Copynumber: 1.9 Consensus size: 135
72564617 ATACCAGAAA
*
72564627 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATCGAGTAAGACCATGACTAAA
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCATGACTAAA
*** *** * **
72564692 AGACGTTATGGAATCACAATTCTATCAAGTAAGAACATGACTGAAAGACGTTATGGCATCACGAT
66 AGACACAATGGAATCACAATAAAAGCAAGTAAGAACATGACTGAAAGACACTATGGCATCACGAT
72564757 CCTAT
131 CCTAT
* * * *
72564762 CGAGTATGACCATGACTGAATGACGTTATGGCATCACGATTTTATCGGGTAAGACCAT-AGCTAA
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCATGA-CTAA
* * * ** *
72564826 AAGACACAATGGCATCACGAATAAAAGGAA-TAAGACCATGGGTGAAATACACTATGGCA
65 AAGACACAATGGAATCAC-AATAAAAGCAAGTAAGAACATGACTGAAAGACACTATGGCA
72564885 ACTCGACAGA
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
134 1 0.01
135 94 0.93
136 6 0.06
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (135 bp):
CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCATGACTAAA
AGACACAATGGAATCACAATAAAAGCAAGTAAGAACATGACTGAAAGACACTATGGCATCACGAT
CCTAT
Found at i:72564883 original size:45 final size:47
Alignment explanation
Indices: 72564811--72564930 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 47
72564801 TTTTATCGGG
* * * *
72564811 TAAGACCATAGCTAAAAGACACAATGGCATCACGA-ATAAAA-GGAA
1 TAAGACCATGGCTGAAAGACACAATGGCAACACGACAGAAAACGGAA
* * * * *
72564856 TAAGACCATGGGTGAAATACACTATGGCAACTCGACAGAAAACTGAA
1 TAAGACCATGGCTGAAAGACACAATGGCAACACGACAGAAAACGGAA
* *
72564903 TAAGACCATGGTTGAAAGACACCATGGC
1 TAAGACCATGGCTGAAAGACACAATGGC
72564931 GCACTCCGAC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 28 0.46
46 5 0.08
47 28 0.46
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (47 bp):
TAAGACCATGGCTGAAAGACACAATGGCAACACGACAGAAAACGGAA
Found at i:72589425 original size:31 final size:32
Alignment explanation
Indices: 72589366--72589430 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
72589356 GGCAAATTAC
72589366 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
72589398 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
72589429 AA
1 AA
72589431 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:72595006 original size:11 final size:11
Alignment explanation
Indices: 72594992--72595087 Score: 76
Period size: 11 Copynumber: 9.0 Consensus size: 11
72594982 GCTTTTTTAC
72594992 TTTTTGCTTTT
1 TTTTTGCTTTT
*
72595003 TTTTTGCGCTTT
1 TTTTTGC-TTTT
**
72595015 TTACT-CTTTT
1 TTTTTGCTTTT
**
72595025 TTTGCGCTTTT
1 TTTTTGCTTTT
72595036 TTTTTGCTTTT
1 TTTTTGCTTTT
*
72595047 TTTGTG--TTT
1 TTTTTGCTTTT
*
72595056 TTTTTGC--TG
1 TTTTTGCTTTT
72595065 TTTTTGCTGTTT
1 TTTTTGCT-TTT
72595077 TTTTTGCTTTT
1 TTTTTGCTTTT
72595088 ATTTAAAGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
9 16 0.24
10 5 0.08
11 30 0.45
12 15 0.23
ACGTcount: A:0.01, C:0.11, G:0.14, T:0.74
Consensus pattern (11 bp):
TTTTTGCTTTT
Found at i:72595014 original size:20 final size:20
Alignment explanation
Indices: 72594991--72595036 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
72594981 CGCTTTTTTA
* *
72594991 CTTTTTGCTTTTTTTTTGCG
1 CTTTTTACTCTTTTTTTGCG
72595011 CTTTTTACTCTTTTTTTGCG
1 CTTTTTACTCTTTTTTTGCG
72595031 CTTTTT
1 CTTTTT
72595037 TTTTGCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.02, C:0.17, G:0.11, T:0.70
Consensus pattern (20 bp):
CTTTTTACTCTTTTTTTGCG
Found at i:72595015 original size:27 final size:29
Alignment explanation
Indices: 72594971--72595024 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
72594961 GTAGGCAACT
72594971 TTTTTTTTTGCGCTTTTTTACT-TTTTGC
1 TTTTTTTTTGCGCTTTTTTACTCTTTTGC
72594999 TTTTTTTTTGCGC-TTTTTACTCTTTT
1 TTTTTTTTTGCGCTTTTTTACTCTTTT
72595025 TTTGCGCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.04, C:0.15, G:0.09, T:0.72
Consensus pattern (29 bp):
TTTTTTTTTGCGCTTTTTTACTCTTTTGC
Found at i:72595046 original size:21 final size:20
Alignment explanation
Indices: 72595033--72595087 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 20
72595023 TTTTTGCGCT
72595033 TTTTTTTTGCTTTTTTTG-TG
1 TTTTTTTTGC-TTTTTTGCTG
72595053 TTTTTTTTGCTGTTTTTGCTG
1 TTTTTTTTGCT-TTTTTGCTG
72595074 TTTTTTTTGCTTTT
1 TTTTTTTTGCTTTT
72595088 ATTTAAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.03
20 19 0.58
21 13 0.39
ACGTcount: A:0.00, C:0.07, G:0.15, T:0.78
Consensus pattern (20 bp):
TTTTTTTTGCTTTTTTGCTG
Found at i:72595066 original size:12 final size:12
Alignment explanation
Indices: 72595021--72595084 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
72595011 CTTTTTACTC
72595021 TTTTTTTGC-GCT
1 TTTTTTTGCTG-T
*
72595033 TTTTTTT--TGC
1 TTTTTTTGCTGT
72595043 TTTTTTTG-TGT
1 TTTTTTTGCTGT
72595054 TTTTTTTGCTG-
1 TTTTTTTGCTGT
72595065 --TTTTTGCTGT
1 TTTTTTTGCTGT
72595075 TTTTTTTGCT
1 TTTTTTTGCT
72595085 TTTATTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
9 9 0.20
10 7 0.16
11 11 0.25
12 17 0.39
ACGTcount: A:0.00, C:0.09, G:0.16, T:0.75
Consensus pattern (12 bp):
TTTTTTTGCTGT
Found at i:72595692 original size:32 final size:31
Alignment explanation
Indices: 72595630--72595723 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
72595620 AGGCAAATTA
72595630 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
72595661 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
72595693 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
72595724 AAAATTATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
31 31 0.50
32 31 0.50
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:72600281 original size:21 final size:21
Alignment explanation
Indices: 72600277--72600376 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 21
72600267 GCTTTTTTGC
72600277 TTTTTGCTTTTTTTTTTTGCGC-
1 TTTTTGCTTTT--TTTTTGCGCT
* *
72600299 TTTTTACTCTCTTTTTTGCGCT
1 TTTTTGCT-TTTTTTTTGCGCT
*
72600321 TTTTACT-CTTTTTTTTTACGCT
1 TTTT--TGCTTTTTTTTTGCGCT
**
72600343 TTTTTGCTTTTTTTTTG-TTT
1 TTTTTGCTTTTTTTTTGCGCT
*
72600363 TTTTTGCTATTTTT
1 TTTTTGCTTTTTTT
72600377 ACTGTTTTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
20 15 0.23
21 19 0.29
22 26 0.40
23 4 0.06
24 1 0.02
ACGTcount: A:0.04, C:0.14, G:0.09, T:0.73
Consensus pattern (21 bp):
TTTTTGCTTTTTTTTTGCGCT
Found at i:72600300 original size:15 final size:15
Alignment explanation
Indices: 72600255--72600303 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
72600245 GGTAGGCAAC
72600255 TTTTTTTTTTGCGCT
1 TTTTTTTTTTGCGCT
72600270 TTTTTGCTTTTT--GCT
1 TTTTT--TTTTTGCGCT
72600285 TTTTTTTTTTGCGCT
1 TTTTTTTTTTGCGCT
72600300 TTTT
1 TTTT
72600304 ACTCTCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 5 0.17
15 20 0.67
17 5 0.17
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (15 bp):
TTTTTTTTTTGCGCT
Found at i:72600384 original size:20 final size:19
Alignment explanation
Indices: 72600332--72600393 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
72600322 TTTACTCTTT
*
72600332 TTTTTTAC-GCTTTTTTGC
1 TTTTTTACTGTTTTTTTGC
**
72600350 TTTTTTTTTGTTTTTTTTGC
1 TTTTTTACTG-TTTTTTTGC
72600370 TATTTTTACTGTTTTTTTGC
1 T-TTTTTACTGTTTTTTTGC
72600390 TTTT
1 TTTT
72600394 ATTTAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 6 0.17
19 4 0.11
20 19 0.53
21 7 0.19
ACGTcount: A:0.05, C:0.10, G:0.10, T:0.76
Consensus pattern (19 bp):
TTTTTTACTGTTTTTTTGC
Found at i:72601000 original size:32 final size:32
Alignment explanation
Indices: 72600933--72601028 Score: 169
Period size: 31 Copynumber: 3.1 Consensus size: 32
72600923 GGCAAATTAC
*
72600933 AAGAGTAATTGAATCCTAATAAAAA-TCTTTC
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
72600964 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
72600996 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
72601027 AA
1 AA
72601029 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 38 0.60
32 25 0.40
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:72602195 original size:20 final size:19
Alignment explanation
Indices: 72602170--72602232 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 19
72602160 TAAATATCTT
72602170 TAATATTATTAATAATTTGA
1 TAATATTATTAATAATTT-A
*
72602190 TAATA-T-TTAAT-ATATAA
1 TAATATTATTAATAAT-TTA
* *
72602207 TGATATTATTTATAATTTA
1 TAATATTATTAATAATTTA
72602226 T-ATATTA
1 TAATATTA
72602233 ATTTTTATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
17 7 0.20
18 13 0.37
19 8 0.23
20 7 0.20
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
TAATATTATTAATAATTTA
Found at i:72603825 original size:10 final size:10
Alignment explanation
Indices: 72603810--72603834 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
72603800 TTTATAGTTC
72603810 ATTTTGATTA
1 ATTTTGATTA
72603820 ATTTTGATTA
1 ATTTTGATTA
72603830 ATTTT
1 ATTTT
72603835 TACTATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (10 bp):
ATTTTGATTA
Found at i:72612166 original size:226 final size:226
Alignment explanation
Indices: 72611772--72612452 Score: 1328
Period size: 226 Copynumber: 3.0 Consensus size: 226
72611762 TAAAATAGGG
72611772 TCATACGACCATGTGGCTAGGCCA-GTTAAAGCAAGGTTACATGGTCATGTTGCCAAGTCCTATA
1 TCATACGACCATGTGGCTAGGCCATG-TAAAGCAAGGTTACATGGTCATGTTGCCAAGTCCTATA
*
72611836 ACAAACTGTGGTCGTGTGGACTTAAATGTAAAATCCTACAAAAATTCGCACGGCCATATCGCCAA
65 ACAAACTGTGGTCGTGTGGACTTAAATGTAAAATCCTACAAACATTCGCACGGCCATATCGCCAA
72611901 GCCATGTGAGAGACTGTAATCAAGTTTAACCCAAACCACTATTATAATACAGAGCACATGGACAT
130 GCCATGTGAGAGACTGTAATCAAGTTTAACCCAAACCACTATTATAATACAGAGCACATGGACAT
72611966 GTCACTTGCCTGTGTGTGAGAAAATATGCCTT
195 GTCACTTGCCTGTGTGTGAGAAAATATGCCTT
72611998 TCATACGACCATGTGGCTAGGCCATGTAAAGCAAGGTTACATGGTCATGTTGCCAAGTCCTATAA
1 TCATACGACCATGTGGCTAGGCCATGTAAAGCAAGGTTACATGGTCATGTTGCCAAGTCCTATAA
72612063 CAAACTGTGGTCGTGTGGACTTAAATGTAAAATCCTACAAACATTCGCACGGCCATATCGCCAAG
66 CAAACTGTGGTCGTGTGGACTTAAATGTAAAATCCTACAAACATTCGCACGGCCATATCGCCAAG
72612128 CCATGTGAGAGACTGTAATCAAGTTTAACCCAAACCACTATTATAATACAGAGCACATGGACATG
131 CCATGTGAGAGACTGTAATCAAGTTTAACCCAAACCACTATTATAATACAGAGCACATGGACATG
72612193 TCACTTGCCTGTGTGTGAGAAAATATGCCTT
196 TCACTTGCCTGTGTGTGAGAAAATATGCCTT
*
72612224 TCATACGACTATGTGGCTAGGCCATGTAAAGCAAGGTTACATGGTCATGTTGCCAAGTCCTATAA
1 TCATACGACCATGTGGCTAGGCCATGTAAAGCAAGGTTACATGGTCATGTTGCCAAGTCCTATAA
72612289 CAAACTGTGGTCGTGTGGACTTAAATGTAAAATCCTACAAACATTCGCACGGCCATATCGCCAAG
66 CAAACTGTGGTCGTGTGGACTTAAATGTAAAATCCTACAAACATTCGCACGGCCATATCGCCAAG
72612354 CCATGTGAGAGACTGTAATCAAGTTTAACCCAAACCACTATTATAATACAGAGCACATGGACATG
131 CCATGTGAGAGACTGTAATCAAGTTTAACCCAAACCACTATTATAATACAGAGCACATGGACATG
72612419 TCACTTGCCTGTGTGTGAGAAAATATGCCTT
196 TCACTTGCCTGTGTGTGAGAAAATATGCCTT
72612450 TCA
1 TCA
72612453 AATCAAGTCA
Statistics
Matches: 452, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
226 451 1.00
227 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (226 bp):
TCATACGACCATGTGGCTAGGCCATGTAAAGCAAGGTTACATGGTCATGTTGCCAAGTCCTATAA
CAAACTGTGGTCGTGTGGACTTAAATGTAAAATCCTACAAACATTCGCACGGCCATATCGCCAAG
CCATGTGAGAGACTGTAATCAAGTTTAACCCAAACCACTATTATAATACAGAGCACATGGACATG
TCACTTGCCTGTGTGTGAGAAAATATGCCTT
Found at i:72621338 original size:7 final size:6
Alignment explanation
Indices: 72621299--72621368 Score: 76
Period size: 6 Copynumber: 12.0 Consensus size: 6
72621289 GACCCCTTCT
* *
72621299 ATTAAA A-T-AA A-TAAA ACTAAT ATTAAA ATTAAA GATTAAA GATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA -ATTAAA -ATTAAA
72621346 A-TAAA ATTAAA ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA
72621369 GACAAAGATA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
4 4 0.07
5 9 0.16
6 31 0.54
7 13 0.23
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (6 bp):
ATTAAA
Found at i:72621383 original size:6 final size:7
Alignment explanation
Indices: 72621320--72621387 Score: 71
Period size: 6 Copynumber: 10.9 Consensus size: 7
72621310 TAAAACTAAT
72621320 ATTAAA-
1 ATTAAAG
72621326 ATTAAAG
1 ATTAAAG
72621333 ATTAAAG
1 ATTAAAG
72621340 ATTAAA-
1 ATTAAAG
72621346 A-TAAA-
1 ATTAAAG
72621351 ATTAAA-
1 ATTAAAG
72621357 ATTAAA-
1 ATTAAAG
72621363 ATTAAAG
1 ATTAAAG
*
72621370 A-CAAAG
1 ATTAAAG
72621376 A-TAAAG
1 ATTAAAG
72621382 ATTAAA
1 ATTAAA
72621388 ATGAGAAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
5 5 0.09
6 33 0.59
7 18 0.32
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.26
Consensus pattern (7 bp):
ATTAAAG
Found at i:72621389 original size:37 final size:37
Alignment explanation
Indices: 72621307--72621377 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
72621297 CTATTAAAAT
* * *
72621307 AAATAAAACTAATATTAAAATTAAAGATTAAAGATTA
1 AAATAAAATTAAAATTAAAATTAAAGATCAAAGATTA
72621344 AAATAAAATTAAAATTAAAATTAAAGA-CAAAGAT
1 AAATAAAATTAAAATTAAAATTAAAGATCAAAGAT
72621378 AAAGATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 6 0.19
37 25 0.81
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.27
Consensus pattern (37 bp):
AAATAAAATTAAAATTAAAATTAAAGATCAAAGATTA
Found at i:72630646 original size:339 final size:341
Alignment explanation
Indices: 72629988--72630648 Score: 874
Period size: 339 Copynumber: 1.9 Consensus size: 341
72629978 GGATGATTAG
* *
72629988 GTAACATTTAACGTCTTTAAGTCTATGTAGTTTCTTGACACAATAGATGATTGCTCTGCAGTGTC
1 GTAACATTTAACGTCTTTAAGTCTATGGAGTTTCCTGACACAATAGATGATTGCTCTGCAGTGTC
* * *
72630053 CAATTTAGAGGATTTAATAGTGGAGAAGGAACTAAACTATGTTGAGGACCCACTGGAAAGAATTT
66 CAATTTAGAGGAATTAATAATGGAAAAGGAACTAAACTATGTTGAGGACCCACTGGAAAGAATTT
** * *
72630118 TGACATTGGATCCTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGCTAATCAA
131 TGACATCAGACCCTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGATAATCAA
* * * *
72630183 AGGGGATTTAATCCACAATCCTGTTTTGAATCTTTGGAGTTAGAAAAGATGGACTATTCTCAACC
196 AGCGGATTTAATCCACAATCCCGTTTTGAATCTTTGGAGTTAGAAAAGAGGGACTATCCTCAACC
* * * *
72630248 AAAAGCATCGATCAAAGAGCCATCTAAATTAGAACTCAAGGTATTACCTTCTCATTTAAAATGCG
261 AAAAGCATCAATCAAAGAGCCAACTAAATTAGAACTCAAAGTATTACCCTCTCATTTAAAATGCG
72630313 TATTCAGGACGACCAA
326 TATTCAGGACGACCAA
* * * * * *
72630329 GTAACATTTAATGTTTTTAAGTC-ATGCGA-TTTCCTGACACAATTGATTATTGTTCTGTAGTGT
1 GTAACATTTAACGTCTTTAAGTCTATG-GAGTTTCCTGACACAATAGATGATTGCTCTGCAGTGT
* * *
72630392 CTAATTTAGAGGAATTAATAATGGAAAAGGAACTCAACTATGTTGAGGACCCA-TTGAACA-AAT
65 CCAATTTAGAGGAATTAATAATGGAAAAGGAACTAAACTATGTTGAGGACCCACTGGAA-AGAAT
*
72630455 TTTGACATCAGACCCTCCGAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGATAATC
129 TTTGACATCAGACCCTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGATAATC
* * *
72630520 AAAGCGGATTTAATCTACAATCCCGTTTTGAATCTTTGGAGTTA-AAGAATAGGGATTATGCCT-
194 AAAGCGGATTTAATCCACAATCCCGTTTTGAATCTTTGGAGTTAGAA-AAGAGGGACTAT-CCTC
* * * *
72630583 AACCAAAAG-AGTCAATCGAGGAG-CAACATAAATTAGAATTGAAAGTACTT-CCCTCAT-ATTT
257 AACCAAAAGCA-TCAATCAAAGAGCCAAC-TAAATTAGAACTCAAAGTA-TTACCCTC-TCATTT
72630644 AAAAT
318 AAAAT
72630649 ATGTTTATTT
Statistics
Matches: 278, Mismatches: 34, Indels: 18
0.84 0.10 0.05
Matches are distributed among these distances:
338 6 0.02
339 164 0.59
340 86 0.31
341 22 0.08
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (341 bp):
GTAACATTTAACGTCTTTAAGTCTATGGAGTTTCCTGACACAATAGATGATTGCTCTGCAGTGTC
CAATTTAGAGGAATTAATAATGGAAAAGGAACTAAACTATGTTGAGGACCCACTGGAAAGAATTT
TGACATCAGACCCTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGATAATCAA
AGCGGATTTAATCCACAATCCCGTTTTGAATCTTTGGAGTTAGAAAAGAGGGACTATCCTCAACC
AAAAGCATCAATCAAAGAGCCAACTAAATTAGAACTCAAAGTATTACCCTCTCATTTAAAATGCG
TATTCAGGACGACCAA
Found at i:72634426 original size:8 final size:8
Alignment explanation
Indices: 72634413--72634450 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
72634403 AATTTTAATT
72634413 TTATTTAA
1 TTATTTAA
72634421 TTATTTAA
1 TTATTTAA
72634429 TT-TTTAAA
1 TTATTT-AA
72634437 GTTATTTAA
1 -TTATTTAA
72634446 TTATT
1 TTATT
72634451 AATGTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 3 0.11
8 17 0.63
9 4 0.15
10 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (8 bp):
TTATTTAA
Found at i:72634469 original size:24 final size:25
Alignment explanation
Indices: 72634417--72634469 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
72634407 TTAATTTTAT
*
72634417 TTAATTATTTAATTTTTAAAGTTAT
1 TTAATTATTTAATTTTTAAAGTTAA
*
72634442 TTAATTA-TTAATGTTTTATA-TTAA
1 TTAATTATTTAAT-TTTTAAAGTTAA
72634466 TTAA
1 TTAA
72634470 ATTTTTGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (25 bp):
TTAATTATTTAATTTTTAAAGTTAA
Found at i:72634472 original size:25 final size:25
Alignment explanation
Indices: 72634413--72634472 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
72634403 AATTTTAATT
*
72634413 TTATTTAATTATTTAATTTTTAAAG
1 TTATTAAATTATTTAATTTTTAAAG
* *
72634438 TTATTTAATTA-TTAATGTTTTATA-
1 TTATTAAATTATTTAAT-TTTTAAAG
72634462 TTAATTAAATT
1 TT-ATTAAATT
72634473 TTTGTGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (25 bp):
TTATTAAATTATTTAATTTTTAAAG
Found at i:72635352 original size:3 final size:3
Alignment explanation
Indices: 72635344--72635374 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
72635334 GAGGATCCTA
72635344 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
72635375 TCCCACAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:72641207 original size:51 final size:52
Alignment explanation
Indices: 72641094--72641218 Score: 175
Period size: 51 Copynumber: 2.4 Consensus size: 52
72641084 TGACTCAAAT
*
72641094 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCACAAGT
1 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCACAAGG
* * *
72641146 GTAGTGCTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTTGG-CTACAAGG
1 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-ACAAGG
72641197 GTGGTACTATGTGCAA-GCCACT
1 GTGGTACTATGTG-AAGGCCACT
72641219 GGGTATCTGT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
50 1 0.02
51 34 0.52
52 30 0.46
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (52 bp):
GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCACAAGG
Found at i:72643731 original size:30 final size:30
Alignment explanation
Indices: 72643697--72643772 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
72643687 TGGTTGACCC
* * *
72643697 ATCCCTTTTCATAATTCGATAACTAAAGTT
1 ATCCCTTTTCATAATTCGACAACCAAAGCT
*
72643727 ATCCCTTTTCATAGTTCGACAACCAAAGCT
1 ATCCCTTTTCATAATTCGACAACCAAAGCT
72643757 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
72643773 TGATGGTGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGACAACCAAAGCT
Found at i:72643913 original size:120 final size:119
Alignment explanation
Indices: 72643685--72643946 Score: 314
Period size: 120 Copynumber: 2.2 Consensus size: 119
72643675 GTAATAATAT
* *
72643685 GATGGTTGAC-CCATCCCTTTTCATAATTCGATAACTAAAGTTATCCCTTTTCATAGTTCGACAA
1 GATGGTTGTCACCATCCCTTTTCATAATTCGATAACTAAAGCTATCCCTTTTCATAGTTCGACAA
** * * *
72643749 CCAAAGCTATCCCTTTTCATAATTTGATGGTGGTCACCTTCCCTTTTCATTGTTC
66 CCAAAGCTATCCCTTTTCATAATTCAATAGTGG-CACCATCCCTTTTCATAGTTC
* * * * * *
72643804 GATGGTTGTCACCATGCCTTTTTATAATTTGATAGCTGAAGCTATCCC-TTTCTATAGTTCGATA
1 GATGGTTGTCACCATCCCTTTTCATAATTCGATAACTAAAGCTATCCCTTTTC-ATAGTTCGACA
* * *
72643868 GCCGAAGCTATCCCTTTTCATAGTTCAATAGTCGG-AGCCATCCCTTTTCATAGTTC
65 ACCAAAGCTATCCCTTTTCATAATTCAATAGT-GGCA-CCATCCCTTTTCATAGTTC
*
72643924 GATGGTCGTCACCATCCCTTTTC
1 GATGGTTGTCACCATCCCTTTTC
72643947 TTTGTTGATG
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 14 0.12
120 104 0.87
121 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (119 bp):
GATGGTTGTCACCATCCCTTTTCATAATTCGATAACTAAAGCTATCCCTTTTCATAGTTCGACAA
CCAAAGCTATCCCTTTTCATAATTCAATAGTGGCACCATCCCTTTTCATAGTTC
Found at i:72643964 original size:29 final size:30
Alignment explanation
Indices: 72643757--72643978 Score: 150
Period size: 30 Copynumber: 7.4 Consensus size: 30
72643747 AACCAAAGCT
* * *
72643757 ATCCCTTTTCATAATTTGATGGTGGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
* * *
72643787 TTCCCTTTTCATTGTTCGATGGTTGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
* * * * * * *
72643817 ATGCCTTTTTATAATTTGATAG-C-TGAAGCT
1 ATCCCTTTTCATAGTTCGATGGTCGT-CA-CC
* * * *
72643847 ATCCC-TTTCTATAGTTCGATAGCCG-AAGCT
1 ATCCCTTTTC-ATAGTTCGATGGTCGTCA-CC
* * *
72643877 ATCCCTTTTCATAGTTCAATAGTCG-GAGCC
1 ATCCCTTTTCATAGTTCGATGGTCGTCA-CC
72643907 ATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
* *
72643937 ATCCCTTTTCTTTGTT-GATGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
*
72643966 ATCCCTTTGCATA
1 ATCCCTTTTCATA
72643979 ATCTATAGCC
Statistics
Matches: 154, Mismatches: 31, Indels: 15
0.77 0.16 0.08
Matches are distributed among these distances:
28 1 0.01
29 27 0.18
30 120 0.78
31 6 0.04
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATGGTCGTCACC
Found at i:72649888 original size:7 final size:6
Alignment explanation
Indices: 72649838--72649964 Score: 53
Period size: 6 Copynumber: 20.3 Consensus size: 6
72649828 AAGTTGTAAT
* * * * **
72649838 AAAATA AAAA-A AGAAGA AAAAGA AAAGGC AAGTGA AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* * * * *
72649885 AAAA-A AGAGAATGA AAATGAGA AAAAGA AAAAG- AGAAGT GAGAGA AAACGA
1 AAAAGA A-A-AA-GA AAA--AGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
*
72649936 AAACGA AAAAGA GAAAATTGA AAAAGA AA
1 AAAAGA AAAAGA -AAAA--GA AAAAGA AA
72649965 TTGAGATTGA
Statistics
Matches: 92, Mismatches: 18, Indels: 22
0.70 0.14 0.17
Matches are distributed among these distances:
5 10 0.11
6 60 0.65
7 7 0.08
8 10 0.11
9 5 0.05
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.06
Consensus pattern (6 bp):
AAAAGA
Found at i:72649890 original size:27 final size:26
Alignment explanation
Indices: 72649845--72649964 Score: 77
Period size: 27 Copynumber: 4.3 Consensus size: 26
72649835 AATAAAATAA
*
72649845 AAAAAGAAGAAA-AAGAAAAG-GCAAGTG
1 AAAAAGAA-AAAGAAAAAAAGAG-AA-TG
72649872 AAAAAGAAAAAGAAAAAAAGAGAATG
1 AAAAAGAAAAAGAAAAAAAGAGAATG
72649898 AAAATGAGAAAAAG--AAAAAGAGAAGTGAG
1 AAAA--AGAAAAAGAAAAAAAGAGAA-T--G
* * *
72649927 AGAAAACGAAAACGAAAAAGAGAAAATTG
1 A-AAAA-GAAAAAGAAAAAAAGAGAA-TG
72649956 AAAAAGAAA
1 AAAAAGAAA
72649965 TTGAGATTGA
Statistics
Matches: 77, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
26 19 0.25
27 22 0.29
28 14 0.18
29 10 0.13
30 3 0.04
31 9 0.12
ACGTcount: A:0.70, C:0.03, G:0.23, T:0.05
Consensus pattern (26 bp):
AAAAAGAAAAAGAAAAAAAGAGAATG
Found at i:72649891 original size:14 final size:14
Alignment explanation
Indices: 72649872--72649921 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
72649862 AAGGCAAGTG
72649872 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
* *
72649886 AAAAAGAGAATGAA
1 AAAAAGAAAAAGAA
**
72649900 AATGAGAAAAAGAA
1 AAAAAGAAAAAGAA
*
72649914 AAAGAGAA
1 AAAAAGAA
72649922 GTGAGAGAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:72649917 original size:26 final size:25
Alignment explanation
Indices: 72649851--72649964 Score: 90
Period size: 29 Copynumber: 4.2 Consensus size: 25
72649841 ATAAAAAAAG
72649851 AAGAAAAAG-AAAAG-GCAAGTGAAA
1 AAGAAAAAGAAAAAGAG-AAGTGAAA
72649875 AAGAAAAAGAAAAAAAGAGAA-TGAAA
1 AAGAAAAAG--AAAAAGAGAAGTGAAA
72649901 ATGAGAAAAAGAAAAAGAGAAGTGAGAGAA
1 A--AGAAAAAGAAAAAGAGAAGT--GA-AA
* *
72649931 AACGAAAACGAAAAAGAGAAAATTGAAA
1 AA-GAAAAAGAAAAAGAG--AAGTGAAA
72649959 AAGAAA
1 AAGAAA
72649965 TTGAGATTGA
Statistics
Matches: 75, Mismatches: 2, Indels: 23
0.75 0.02 0.23
Matches are distributed among these distances:
24 9 0.12
26 16 0.21
27 12 0.16
28 14 0.19
29 18 0.24
30 3 0.04
31 3 0.04
ACGTcount: A:0.69, C:0.03, G:0.23, T:0.05
Consensus pattern (25 bp):
AAGAAAAAGAAAAAGAGAAGTGAAA
Found at i:72649970 original size:21 final size:20
Alignment explanation
Indices: 72649871--72649970 Score: 83
Period size: 21 Copynumber: 4.8 Consensus size: 20
72649861 AAAGGCAAGT
* *
72649871 GAAAAAGAAAAAGAAAAAAA
1 GAAAAAGAAAATGAGAAAAA
* *
72649891 GAGAATGAAAATGAGAAAAA
1 GAAAAAGAAAATGAGAAAAA
*
72649911 GAAAAAGAGAAGTGAGAGAAAA
1 GAAAAAGA-AAATGAGA-AAAA
* * *
72649933 CGAAAACGAAAAAGAGAAAATT
1 -GAAAAAGAAAATGAGAAAA-A
*
72649955 GAAAAAGAAATTGAGA
1 GAAAAAGAAAATGAGA
72649971 TTGAGAAAGG
Statistics
Matches: 62, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
20 22 0.35
21 23 0.37
22 10 0.16
23 7 0.11
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.07
Consensus pattern (20 bp):
GAAAAAGAAAATGAGAAAAA
Found at i:72662926 original size:40 final size:40
Alignment explanation
Indices: 72662868--72663197 Score: 431
Period size: 40 Copynumber: 8.3 Consensus size: 40
72662858 ATTTGAATGA
*
72662868 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
72662908 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
72662948 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
*
72662988 TATCCGGGCTAAGACCCGAAGGCATTTGTGCT--TG-TTGC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT-T
* *
72663026 TATACCTGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTT
1 TAT-CC-GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
72663068 TATCCGGGTTAAGACCCAAAGGCAATTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
72663108 TATCCGGGCTAAGA-CCGAAGGCATTTGTGCAAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
72663147 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
72663187 TATCC-GGCTAA
1 TATCCGGGCTAA
72663198 ATTCCGAAGA
Statistics
Matches: 260, Mismatches: 19, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
37 3 0.01
38 3 0.01
39 41 0.16
40 201 0.77
41 5 0.02
42 5 0.02
43 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:72679014 original size:30 final size:30
Alignment explanation
Indices: 72678978--72679141 Score: 145
Period size: 30 Copynumber: 5.5 Consensus size: 30
72678968 ATGGTTGTCA
* * *
72678978 CTATCCCTTATCATAGTTTGATAGCCGAAG
1 CTATCCCTTTTCATAATTTGATAGTCGAAG
* *
72679008 CTATCCCTTTTCATAATTTGATGGTCGTCA-
1 CTATCCCTTTTCATAATTTGATAGTCG-AAG
* *
72679038 CCATCCCTTTTCATAATTTGATAGTTGAAG
1 CTATCCCTTTTCATAATTTGATAGTCGAAG
* * *
72679068 TTATCCCTTTTCATAATTTGATGGTCGTCA-
1 CTATCCCTTTTCATAATTTGATAGTCG-AAG
* * * **
72679098 CCATTCATTTTCATAATCCGATAG-CTGAAG
1 CTATCCCTTTTCATAATTTGATAGTC-GAAG
72679128 CTATCCCTTTTCAT
1 CTATCCCTTTTCAT
72679142 TGGTCGATGA
Statistics
Matches: 104, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
29 3 0.03
30 99 0.95
31 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (30 bp):
CTATCCCTTTTCATAATTTGATAGTCGAAG
Found at i:72679031 original size:60 final size:60
Alignment explanation
Indices: 72678967--72679141 Score: 251
Period size: 60 Copynumber: 2.9 Consensus size: 60
72678957 GTAAAATCAC
* * * * *
72678967 GATGGTTGTCACTATCCCTTATCATAGTTTGATAGCCGAAGCTATCCCTTTTCATAATTT
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATAATTT
* *
72679027 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGTTGAAGTTATCCCTTTTCATAATTT
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATAATTT
* * **
72679087 GATGGTCGTCACCATTCATTTTCATAATCCGATAGCTGAAGCTATCCCTTTTCAT
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCAT
72679142 TGGTCGATGA
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 102 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.40
Consensus pattern (60 bp):
GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATAATTT
Found at i:72687149 original size:8 final size:8
Alignment explanation
Indices: 72687136--72687164 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
72687126 TATATATACT
72687136 AAATAATA
1 AAATAATA
72687144 AAATAATA
1 AAATAATA
72687152 AAATAATA
1 AAATAATA
72687160 AAATA
1 AAATA
72687165 TCATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:72688851 original size:19 final size:20
Alignment explanation
Indices: 72688809--72688851 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
72688799 TCATGCTTTC
*
72688809 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
72688829 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
72688847 TATTC
1 TATTC
72688852 CACTTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:72695321 original size:27 final size:27
Alignment explanation
Indices: 72695290--72695497 Score: 226
Period size: 27 Copynumber: 7.7 Consensus size: 27
72695280 ATAATGGGCC
* *
72695290 TAAAATTATCGAAATACCCTTAATGGC
1 TAAAATTATCGAAATACCCTCAATGGG
*
72695317 TAAAATTATCGAAATACCCTCAAAGGG
1 TAAAATTATCGAAATACCCTCAATGGG
72695344 TAAAATTA-CTGAAATACCCTCAATGGG
1 TAAAATTATC-GAAATACCCTCAATGGG
*
72695371 TAAAATTATGGAAATACCCTCAATGGG
1 TAAAATTATCGAAATACCCTCAATGGG
* * **
72695398 TAAAATTACCAAAATACCCTTGATGGG
1 TAAAATTATCGAAATACCCTCAATGGG
*
72695425 TAAAATTACCGAAATACTCC-CGAA-GGG
1 TAAAATTATCGAAATAC-CCTC-AATGGG
* * *
72695452 TAAAATGA-CTGAAATACCCTCGATAGG
1 TAAAATTATC-GAAATACCCTCAATGGG
* *
72695479 TGAAATTACCGAAATACCC
1 TAAAATTATCGAAATACCC
72695498 CTAAAAGGTA
Statistics
Matches: 155, Mismatches: 18, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.03
27 146 0.94
28 4 0.03
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTCAATGGG
Found at i:72695426 original size:81 final size:80
Alignment explanation
Indices: 72695290--72695511 Score: 252
Period size: 81 Copynumber: 2.7 Consensus size: 80
72695280 ATAATGGGCC
* * * *
72695290 TAAAATTATCGAAATACCCTTAATGGCTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACTG
1 TAAAATTAT-GAAATACCCTCAATGGGTAAAATTACCGAAATACCCTCAAAGGGTAAAATTACCG
72695355 AAATAC-CCTC-AATGGG
65 AAATACTCC-CGAA-GGG
* ** *
72695371 TAAAATTATGGAAATACCCTCAATGGGTAAAATTACCAAAATACCCTTGATGGGTAAAATTACCG
1 TAAAATTAT-GAAATACCCTCAATGGGTAAAATTACCGAAATACCCTCAAAGGGTAAAATTACCG
72695436 AAATACTCCCGAAGGG
65 AAATACTCCCGAAGGG
* * * * *
72695452 TAAAATGACTGAAATACCCTCGATAGGTGAAATTACCGAAATACCC-CTAAAAGGTAAAAT
1 TAAAATTA-TGAAATACCCTCAATGGGTAAAATTACCGAAATACCCTC-AAAGGGTAAAAT
72695512 GACTATTATA
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
81 114 0.96
82 5 0.04
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (80 bp):
TAAAATTATGAAATACCCTCAATGGGTAAAATTACCGAAATACCCTCAAAGGGTAAAATTACCGA
AATACTCCCGAAGGG
Found at i:72695717 original size:26 final size:26
Alignment explanation
Indices: 72695688--72695737 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
72695678 TTGCCACATA
*
72695688 TACTGTTACTTGCAGCCTTGCTGCGT
1 TACTGTTACTAGCAGCCTTGCTGCGT
*
72695714 TACTGTTACTAGCAGCTTTGCTGC
1 TACTGTTACTAGCAGCCTTGCTGC
72695738 ATCATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (26 bp):
TACTGTTACTAGCAGCCTTGCTGCGT
Found at i:72703002 original size:16 final size:15
Alignment explanation
Indices: 72702975--72703008 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
72702965 ATAATTAGTA
*
72702975 TATAATTATATTTAT
1 TATAATTATATTAAT
72702990 TATAATATATATTAAT
1 TATAAT-TATATTAAT
72703006 TAT
1 TAT
72703009 TATGAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:72706401 original size:45 final size:45
Alignment explanation
Indices: 72706334--72706421 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
72706324 CTATTTTTGT
*
72706334 TATCATAAGAATAGTTGGGACTAATTTGAATGACATGTATACTGC
1 TATCATAAGAATAGTTGAGACTAATTTGAATGACATGTATACTGC
*
72706379 TATCATAAGAATAGTTGAGACTAATTTGAATGATATGTATACT
1 TATCATAAGAATAGTTGAGACTAATTTGAATGACATGTATACT
72706422 TAAGTAGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (45 bp):
TATCATAAGAATAGTTGAGACTAATTTGAATGACATGTATACTGC
Found at i:72709796 original size:13 final size:13
Alignment explanation
Indices: 72709760--72709798 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
72709750 TTTAGTTTTG
*
72709760 TAATTTGAAAGCT
1 TAATTTGAAAACT
72709773 TAAGTTTTGAAAACT
1 TAA--TTTGAAAACT
72709788 TAATTTGAAAA
1 TAATTTGAAAA
72709799 TTTGAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:72713479 original size:34 final size:34
Alignment explanation
Indices: 72713441--72713571 Score: 181
Period size: 34 Copynumber: 3.8 Consensus size: 34
72713431 TCACTTTTCT
*
72713441 TTTCTTGTAGGGAATCTCTCTTGTTCACACATCA
1 TTTCTTGTAGGGAATCTCTCCTGTTCACACATCA
** *
72713475 TTTCTTGTAGGGAATCTCTCCTGTTCACATTTTA
1 TTTCTTGTAGGGAATCTCTCCTGTTCACACATCA
* *
72713509 TTTTGTTGTAGGGAATCTCTCCTATTCACACATCA
1 -TTTCTTGTAGGGAATCTCTCCTGTTCACACATCA
* *
72713544 TTTCTTGCAGGGAATCTCTCCTATTCAC
1 TTTCTTGTAGGGAATCTCTCCTGTTCAC
72713572 GCATTATGTT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
34 56 0.66
35 29 0.34
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.42
Consensus pattern (34 bp):
TTTCTTGTAGGGAATCTCTCCTGTTCACACATCA
Found at i:72713556 original size:69 final size:68
Alignment explanation
Indices: 72713427--72713571 Score: 227
Period size: 69 Copynumber: 2.1 Consensus size: 68
72713417 AATTACAGAA
* * * *
72713427 CTATTCACTTTTCTTTTCTTGTAGGGAATCTCTCTTGTTCACACATCATTTCTTGTAGGGAATCT
1 CTATTCACTTTTATTTTCTTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCT
72713492 CTC
66 CTC
* *
72713495 CTGTTCACATTTTATTTTGTTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATC
1 CTATTCAC-TTTTATTTTCTTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATC
72713560 TCTC
65 TCTC
72713564 CTATTCAC
1 CTATTCAC
72713572 GCATTATGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 7 0.10
69 62 0.90
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.43
Consensus pattern (68 bp):
CTATTCACTTTTATTTTCTTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCT
CTC
Found at i:72713584 original size:69 final size:69
Alignment explanation
Indices: 72713445--72713595 Score: 212
Period size: 69 Copynumber: 2.2 Consensus size: 69
72713435 TTTTCTTTTC
* * * * **
72713445 TTGTAGGGAATCTCTCTTGTTCACACATCATTTCTTGTAGGGAATCTCTCCTGTTCACATTTTAT
1 TTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCCTATTCACACATTAT
*
72713510 TTTG
66 GTTG
*
72713514 TTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCCTATTCACGCATTAT
1 TTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCCTATTCACACATTAT
72713579 GTTG
66 GTTG
**
72713583 TTACAGGGAATCT
1 TTGTAGGGAATCT
72713596 ATCCAGTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (69 bp):
TTGTAGGGAATCTCTCCTATTCACACATCATTTCTTGCAGGGAATCTCTCCTATTCACACATTAT
GTTG
Found at i:72716426 original size:20 final size:23
Alignment explanation
Indices: 72716391--72716435 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
72716381 GAGCAAATTG
72716391 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
72716413 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
72716434 TT
1 TT
72716436 CTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:72720620 original size:29 final size:29
Alignment explanation
Indices: 72720582--72720924 Score: 302
Period size: 29 Copynumber: 11.8 Consensus size: 29
72720572 ATCGATTAAA
* *
72720582 GAAAATGGATAGTTTCGACCATCGACTAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
** * *
72720611 GAAAAGGGATGGTAACGACCATCAACAAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
* *
72720640 GAAAAGGGATGGTGAT-GACCATCAACTAT
1 GAAAAGGGATGGT-TTCGACCATCGACTAT
** ** *
72720669 GAAAAGGGATGGTGACGACCATAAAATAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
* * *
72720698 GAAAAGGGATAGTTTCGACTATCAACTAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
* * *
72720727 GAAAAGGGATGGTGAT-GATCATCGAATAT
1 GAAAAGGGATGGT-TTCGACCATCGACTAT
* * * *
72720756 GAAAAGGGATAGTTTTGACTATTGACTAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
* * *
72720785 GAAAAGGGATGGTGAT-GACCATCAAATAT
1 GAAAAGGGATGGT-TTCGACCATCGACTAT
*
72720814 GAAAAGGGA-GAGTTTCGACTATCGACTAT
1 GAAAAGGGATG-GTTTCGACCATCGACTAT
* * *
72720843 GAAAAGGGATGGTGAT-GACCATTGATTAT
1 GAAAAGGGATGGT-TTCGACCATCGACTAT
* *
72720872 GAAAAGGGATGGTTCCGACCATCGAATAT
1 GAAAAGGGATGGTTTCGACCATCGACTAT
72720901 GAAAAGGGATGGTTAT-GACCATCG
1 GAAAAGGGATGGTT-TCGACCATCG
72720925 TTTAGCACAC
Statistics
Matches: 254, Mismatches: 49, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
28 3 0.01
29 246 0.97
30 5 0.02
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (29 bp):
GAAAAGGGATGGTTTCGACCATCGACTAT
Found at i:72720672 original size:58 final size:56
Alignment explanation
Indices: 72720582--72720923 Score: 346
Period size: 58 Copynumber: 5.9 Consensus size: 56
72720572 ATCGATTAAA
* * * * *
72720582 GAAAATGGATAGTTTCGACCATCGACTATGAAAAGGGATGGTAACGACCATCAACAAT
1 GAAAAGGGATGGTTT-GACCATCAACTATGAAAAGGGATGGTGATGACCATCAA-AAT
* * *
72720640 GAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGACGACCATAAAATAT
1 GAAAAGGGATGGT-TTGACCATCAACTATGAAAAGGGATGGTGATGACCATCAAA-AT
* * * *
72720698 GAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTGATGATCATCGAATAT
1 GAAAAGGGATGGTTT-GACCATCAACTATGAAAAGGGATGGTGATGACCATC-AAAAT
* * **
72720756 GAAAAGGGATAGTTTTGACTATTGACTATGAAAAGGGATGGTGATGACCATCAAATAT
1 GAAAAGGGAT-GGTTTGACCATCAACTATGAAAAGGGATGGTGATGACCATCAAA-AT
* * * **
72720814 GAAAAGGGA-GAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATTGATTAT
1 GAAAAGGGATG-GTTT-GACCATCAACTATGAAAAGGGATGGTGATGACCA-TCAAAAT
* *
72720872 GAAAAGGGATGGTTCCGACCATCGAA-TATGAAAAGGGATGGTTATGACCATC
1 GAAAAGGGATGGTT-TGACCATC-AACTATGAAAAGGGATGGTGATGACCATC
72720924 GTTTAGCACA
Statistics
Matches: 243, Mismatches: 29, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
56 1 0.00
57 8 0.03
58 224 0.92
59 10 0.04
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (56 bp):
GAAAAGGGATGGTTTGACCATCAACTATGAAAAGGGATGGTGATGACCATCAAAAT
Found at i:72720729 original size:87 final size:87
Alignment explanation
Indices: 72720598--72720923 Score: 358
Period size: 87 Copynumber: 3.7 Consensus size: 87
72720588 GGATAGTTTC
* * * *
72720598 GACCATCGACTATGAAAAGGGATGGTAACGACCATCAACAATGAAAAGGGATGGTGATGACCATC
1 GACCATTGAATATGAAAAGGGATGGTATCGACCATCAACTATGAAAAGGGATGGTGATGACCATC
*
72720663 AACTATGAAAAGGGATGGTGAC
66 AACTATGAAAAGGGATGGTGAT
** * * * *
72720685 GACCATAAAATATGAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTGATGATCATC
1 GACCATTGAATATGAAAAGGGATGGTATCGACCATCAACTATGAAAAGGGATGGTGATGACCATC
* **
72720750 GAA-TATGAAAAGGGATAGTTTT
66 -AACTATGAAAAGGGATGGTGAT
* * * * *
72720772 GACTATTGACTATGAAAAGGGATGGTGAT-GACCATCAAATATGAAAAGGGA-GAGT-TTCGACT
1 GACCATTGAATATGAAAAGGGATGGT-ATCGACCATCAACTATGAAAAGGGATG-GTGAT-GACC
*
72720834 ATCGACTATGAAAAGGGATGGTGAT
63 ATCAACTATGAAAAGGGATGGTGAT
* *
72720859 GACCATTGATTATGAAAAGGGATGGT-TCCGACCATCGAA-TATGAAAAGGGATGGTTATGACCA
1 GACCATTGAATATGAAAAGGGATGGTAT-CGACCATC-AACTATGAAAAGGGATGGTGATGACCA
72720922 TC
64 TC
72720924 GTTTAGCACA
Statistics
Matches: 197, Mismatches: 32, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 186 0.94
88 7 0.04
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.23
Consensus pattern (87 bp):
GACCATTGAATATGAAAAGGGATGGTATCGACCATCAACTATGAAAAGGGATGGTGATGACCATC
AACTATGAAAAGGGATGGTGAT
Found at i:72720786 original size:116 final size:116
Alignment explanation
Indices: 72720582--72720922 Score: 468
Period size: 116 Copynumber: 2.9 Consensus size: 116
72720572 ATCGATTAAA
* * * * *
72720582 GAAAATGGATAGTTTCGACCATCGACTATGAAAAGGGATGGTAACGACCATC-AACAATGAAAAG
1 GAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATCGAA-TATGAAAAG
* * *
72720646 GGATGGTGATGACCATCAACTATGAAAAGGGATGGTGACGACCATAAAATAT
65 GGATGGTTATGACCATCGACTATGAAAAGGGATGGTGATGACCATAAAATAT
* *
72720698 GAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTGATGATCATCGAATATGAAAAGG
1 GAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGG
* * * * *
72720763 GATAGTTTTGACTATTGACTATGAAAAGGGATGGTGATGACCATCAAATAT
66 GATGGTTATGACCATCGACTATGAAAAGGGATGGTGATGACCATAAAATAT
* * *
72720814 GAAAAGGGAGAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATTGATTATGAAAAGG
1 GAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGG
** * *
72720879 GATGGTTCCGACCATCGAATATGAAAAGGGATGGTTATGACCAT
66 GATGGTTATGACCATCGACTATGAAAAGGGATGGTGATGACCAT
72720923 CGTTTAGCAC
Statistics
Matches: 197, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
116 195 0.99
117 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (116 bp):
GAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGG
GATGGTTATGACCATCGACTATGAAAAGGGATGGTGATGACCATAAAATAT
Found at i:72721063 original size:20 final size:20
Alignment explanation
Indices: 72721038--72721076 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
72721028 TTATGAAAGG
72721038 AACGATTTAAGTGATGTTAA
1 AACGATTTAAGTGATGTTAA
72721058 AACGATTTAAGTGATGTTA
1 AACGATTTAAGTGATGTTA
72721077 TGTTTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (20 bp):
AACGATTTAAGTGATGTTAA
Found at i:72722288 original size:99 final size:99
Alignment explanation
Indices: 72722124--72722310 Score: 302
Period size: 99 Copynumber: 1.9 Consensus size: 99
72722114 TGAAAGCTAG
*
72722124 TCAGAGATCTATCACACTATCCATAGATTTTATCGATAGATTTTTATGCTTTGGTCACAGTTATA
1 TCAGAGATCCATCACACTATCCATAGATTTTATCGATAGATTTTTATGCTTTGGTCACAGTTATA
*
72722189 ATGACATGTATAGGTGTTTTATGTTGGAAGCTCA
66 ATAACATGTATAGGTGTTTTATGTTGGAAGCTCA
* * * * *
72722223 TCAGAGATCCATCACACTATCCATTGATTTTATCGGTATATTTTTATGCTTTGGTCGCGGTTATA
1 TCAGAGATCCATCACACTATCCATAGATTTTATCGATAGATTTTTATGCTTTGGTCACAGTTATA
*
72722288 ATAACATGTGTAGGTGTTTTATG
66 ATAACATGTATAGGTGTTTTATG
72722311 CTTGATGATA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (99 bp):
TCAGAGATCCATCACACTATCCATAGATTTTATCGATAGATTTTTATGCTTTGGTCACAGTTATA
ATAACATGTATAGGTGTTTTATGTTGGAAGCTCA
Found at i:72724569 original size:29 final size:30
Alignment explanation
Indices: 72724479--72724656 Score: 148
Period size: 30 Copynumber: 6.0 Consensus size: 30
72724469 CATGATTGTT
*
72724479 GTCACCATCCCTTTTCATAGTTCAATAGTC
1 GTCACCATCCCTTTTCATAGTTCGATAGTC
* * * *
72724509 G-AAGCTATCCCTTATCATAATTCGATAGTC
1 GTCA-CCATCCCTTTTCATAGTTCGATAGTC
* *
72724539 GTCACCATCCCTTTTCATTGTT-TATAGTC
1 GTCACCATCCCTTTTCATAGTTCGATAGTC
* * *
72724568 GTCACCATCCTTTTTCATTGTT-GATGGTC
1 GTCACCATCCCTTTTCATAGTTCGATAGTC
* * * *
72724597 GTCACCATCCGTTTTCACAATTCGATAGCC
1 GTCACCATCCCTTTTCATAGTTCGATAGTC
* * * *
72724627 G-AAGCTATCCCTTTTCGTATTTCGATAGTC
1 GTCA-CCATCCCTTTTCATAGTTCGATAGTC
72724657 AAAGCTATCC
Statistics
Matches: 117, Mismatches: 27, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
29 52 0.44
30 64 0.55
31 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.38
Consensus pattern (30 bp):
GTCACCATCCCTTTTCATAGTTCGATAGTC
Found at i:72724662 original size:30 final size:30
Alignment explanation
Indices: 72724617--72724674 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
72724607 GTTTTCACAA
*
72724617 TTCGATAGCCGAAGCTATCCCTTTTCGTAT
1 TTCGATAGCCAAAGCTATCCCTTTTCGTAT
*
72724647 TTCGATAGTCAAAGCTATCCCTTTTCGT
1 TTCGATAGCCAAAGCTATCCCTTTTCGT
72724675 TGGTCGACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.38
Consensus pattern (30 bp):
TTCGATAGCCAAAGCTATCCCTTTTCGTAT
Found at i:72727147 original size:138 final size:137
Alignment explanation
Indices: 72726894--72727164 Score: 434
Period size: 138 Copynumber: 2.0 Consensus size: 137
72726884 CCATCAAGCC
* * * *
72726894 ACTTGATGATCTCTTTCTTAACAAAATCCTTCATGATTGGATTCAACCTTCTTTTTTGTTCAATA
1 ACTTAATGATCTCTTTCTTAACAAAATCCTTCATGATTAGATTCAACCTCCTTTGTTGTTCAATA
* *
72726959 GAATTTCTATGGCAATCTTCCAGTAAAATTTTATGCATACAGAAAGTAGGGTTGATTCCCTTGAT
66 GAATTTCTATGGAAATCCTCCAGTAAAATTTTATGCATACAGAAAGTAGGG-TGATTCCCTTGAT
72727024 GTCGGAAA
130 GTCGGAAA
** *
72727032 ACTTAATGATCTCTTTCTTAACAACTTCTTTCATGATTAGATTCAACCTCCTTTGTTGTTCAATA
1 ACTTAATGATCTCTTTCTTAACAAAATCCTTCATGATTAGATTCAACCTCCTTTGTTGTTCAATA
* *
72727097 GAATTTCTATGGAAATCCTCCAGTAAAATTTTATGGATACAGATAGTAGGGTGATTCCCTTGATG
66 GAATTTCTATGGAAATCCTCCAGTAAAATTTTATGCATACAGAAAGTAGGGTGATTCCCTTGATG
72727162 TCG
131 TCG
72727165 ACAATTTTCA
Statistics
Matches: 122, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
137 17 0.14
138 105 0.86
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (137 bp):
ACTTAATGATCTCTTTCTTAACAAAATCCTTCATGATTAGATTCAACCTCCTTTGTTGTTCAATA
GAATTTCTATGGAAATCCTCCAGTAAAATTTTATGCATACAGAAAGTAGGGTGATTCCCTTGATG
TCGGAAA
Found at i:72738661 original size:18 final size:18
Alignment explanation
Indices: 72738638--72738672 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
72738628 CAAGAATAGT
72738638 AAGCATAAAAATAGTTTC
1 AAGCATAAAAATAGTTTC
*
72738656 AAGCATGAAAATAGTTT
1 AAGCATAAAAATAGTTT
72738673 GGCACATCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATAAAAATAGTTTC
Found at i:72740837 original size:60 final size:60
Alignment explanation
Indices: 72740744--72740870 Score: 173
Period size: 60 Copynumber: 2.1 Consensus size: 60
72740734 AAGGAGGAAG
* * * **
72740744 TACTGGCAGTTTATCTGCATCATTGGTGGCTTGAACACATTGCTGGCAGCTTGTCTGCAC
1 TACTGGTAGTTTATCTGCATCATTCGTAGCTTGAACACATAACTGGCAGCTTGTCTGCAC
* * * *
72740804 TACTGGTAGTTTATCTGCATTATTCGTAGCTTGACCACATAACTGGCATCTTGTCTGCAT
1 TACTGGTAGTTTATCTGCATCATTCGTAGCTTGAACACATAACTGGCAGCTTGTCTGCAC
72740864 TACTGGT
1 TACTGGT
72740871 GGCTTGTCCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (60 bp):
TACTGGTAGTTTATCTGCATCATTCGTAGCTTGAACACATAACTGGCAGCTTGTCTGCAC
Found at i:72743118 original size:27 final size:27
Alignment explanation
Indices: 72743088--72743265 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
72743078 ATATTGAGTC
* * * *
72743088 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
72743115 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72743142 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
72743170 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
72743197 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
72743224 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72743251 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72743266 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:72743227 original size:82 final size:81
Alignment explanation
Indices: 72743109--72743264 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
72743099 TGCTATATAA
* *
72743109 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
72743174 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
72743191 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
72743255 CACTTAGTGC
65 CACTTAGTGC
72743265 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:72751309 original size:27 final size:27
Alignment explanation
Indices: 72751279--72751511 Score: 270
Period size: 27 Copynumber: 8.6 Consensus size: 27
72751269 ATATTGAGCC
* * *
72751279 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
72751306 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
72751333 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
72751361 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
72751388 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
* ** * *
72751416 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
72751443 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* * *
72751470 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
*
72751497 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
72751512 GTACAATTTA
Statistics
Matches: 178, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
27 128 0.72
28 50 0.28
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:72751371 original size:55 final size:54
Alignment explanation
Indices: 72751279--72751511 Score: 279
Period size: 55 Copynumber: 4.3 Consensus size: 54
72751269 ATATTGAGCC
* * * * *
72751279 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAAT
*
72751333 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAAT
* ** * *
72751388 CGCACACTTAGTGCTACATAGTCAGACTCGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCA-ACTCGCACACTTAGTGCTACATAGTCAAAT
* ** * *
72751443 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCTACATAGTCAAAT
*
72751497 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
72751512 GTACAATTTA
Statistics
Matches: 154, Mismatches: 21, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
54 57 0.37
55 97 0.63
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAAT
Found at i:72751446 original size:82 final size:82
Alignment explanation
Indices: 72751279--72751510 Score: 279
Period size: 82 Copynumber: 2.8 Consensus size: 82
72751269 ATATTGAGCC
* * * *
72751279 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAAATCGCACACTTAG
*
72751344 TGCTACATAGTCAAACT
66 TGCCACATAGTCAAACT
* * *
72751361 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAGACTCGCACTCTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCA-AATCGCACACTTA
* * *
72751426 GTGCCGCATGGTC-AATT
65 GTGCCACATAGTCAAACT
* ** * * *
72751443 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTGAGTGCAACATAGTCAAATCGCACCCTTA
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCTACATAGTCAAATCGCACACTTA
72751507 GTGC
65 GTGC
72751511 TGTACAATTT
Statistics
Matches: 130, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
81 16 0.12
82 93 0.72
83 21 0.16
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAAATCGCACACTTAG
TGCCACATAGTCAAACT
Found at i:72765592 original size:40 final size:40
Alignment explanation
Indices: 72765494--72765756 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
72765484 TCCTCGTTCA
* * * ** *
72765494 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
72765533 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
72765573 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
72765613 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
72765653 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
72765693 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
72765733 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
72765757 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:72773540 original size:40 final size:40
Alignment explanation
Indices: 72773440--72773704 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
72773430 GCTCCTCGTT
* * * *
72773440 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
72773480 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
72773519 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
72773559 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
72773599 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
72773639 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
72773680 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
72773705 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:72773664 original size:80 final size:80
Alignment explanation
Indices: 72773407--72773704 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
72773397 AAATCACGTA
* ** * * *
72773407 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
72773469 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
72773485 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
72773548 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
72773565 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
72773629 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
72773645 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
72773705 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:72773713 original size:41 final size:41
Alignment explanation
Indices: 72773636--72773713 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
72773626 TTTGTATCTC
* * *
72773636 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
72773677 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
72773714 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:72776077 original size:63 final size:63
Alignment explanation
Indices: 72775988--72776145 Score: 199
Period size: 63 Copynumber: 2.5 Consensus size: 63
72775978 TGTCTCTGTG
* * * * *
72775988 GATGCCATGGAGTCTTTCATCAATGGTCTTACAATGATCCGCCACCCTAGCATACTATCATAT
1 GATGCCATGGAGTCTTTCATCCATGGTCTTACAATAATCCACCACACTAGCATACTATCATAC
* * * * * * * *
72776051 GATGTCATGCAGTCTTTCATCCATGGTCTTACAATAATCCACTATATTGGCGTGCTATCATAC
1 GATGCCATGGAGTCTTTCATCCATGGTCTTACAATAATCCACCACACTAGCATACTATCATAC
72776114 GATGCCATGGAGTCTTTCATCCATGGTCTTAC
1 GATGCCATGGAGTCTTTCATCCATGGTCTTAC
72776146 TCATTATACC
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 80 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (63 bp):
GATGCCATGGAGTCTTTCATCCATGGTCTTACAATAATCCACCACACTAGCATACTATCATAC
Found at i:72780410 original size:27 final size:27
Alignment explanation
Indices: 72780268--72780399 Score: 214
Period size: 27 Copynumber: 4.9 Consensus size: 27
72780258 CGGATGATTG
*
72780268 AAATACCCCCGAAGGGTAAAATGACCA
1 AAATACCCTCGAAGGGTAAAATGACCA
* *
72780295 AAATACCCT-AAAGGGTAAAATAACCA
1 AAATACCCTCGAAGGGTAAAATGACCA
72780321 AAATACCCTCGAAGGGTAAAATGACCA
1 AAATACCCTCGAAGGGTAAAATGACCA
72780348 AAATACCCTCGAAGGGTAAAATGACCA
1 AAATACCCTCGAAGGGTAAAATGACCA
72780375 AAATACCCTCGTAA-GGTAAAATGAC
1 AAATACCCTCG-AAGGGTAAAATGAC
72780400 TGATATACCC
Statistics
Matches: 98, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
26 24 0.24
27 72 0.73
28 2 0.02
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.15
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATGACCA
Found at i:72790846 original size:33 final size:34
Alignment explanation
Indices: 72790809--72790880 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
72790799 GAGTTAGTTT
*
72790809 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
* *
72790842 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
72790876 ATTAA
1 ATTAA
72790881 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:72791981 original size:12 final size:12
Alignment explanation
Indices: 72791964--72791988 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72791954 CTTTATACAC
72791964 ATTACACATTGA
1 ATTACACATTGA
72791976 ATTACACATTGA
1 ATTACACATTGA
72791988 A
1 A
72791989 ATCAGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATTACACATTGA
Found at i:72794014 original size:27 final size:27
Alignment explanation
Indices: 72793975--72794149 Score: 228
Period size: 27 Copynumber: 6.5 Consensus size: 27
72793965 TCGTGGGCGG
*
72793975 ATGACTGAGATA-CCCTCGAAGGGTAAA
1 ATGACTGAAATACCCCT-GAAGGGTAAA
* *
72794002 ATGACCGAAATACCCTTGAAGGGTAAA
1 ATGACTGAAATACCCCTGAAGGGTAAA
* * *
72794029 ATAACTAAAATACCCCTAAAGGGTAAA
1 ATGACTGAAATACCCCTGAAGGGTAAA
*
72794056 ATGACTGAAATACCCCTAAAGGGTAAA
1 ATGACTGAAATACCCCTGAAGGGTAAA
72794083 ATGACTGAAATACCCCTGAAGGGTAAA
1 ATGACTGAAATACCCCTGAAGGGTAAA
* *
72794110 ATGA-TCGAAATACCCCCGTAGGGTAAA
1 ATGACT-GAAATACCCCTGAAGGGTAAA
*
72794137 ATGACTGATATAC
1 ATGACTGAAATAC
72794150 ACCTAAGAGT
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 126 0.96
28 4 0.03
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (27 bp):
ATGACTGAAATACCCCTGAAGGGTAAA
Found at i:72794456 original size:33 final size:33
Alignment explanation
Indices: 72794405--72794470 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
72794395 GCATTATTAC
* * *
72794405 ACTGTTACTGTATTGGGCT-AAGGCCCACACTGT
1 ACTGATACTGAATAGGGCTCAA-GCCCACACTGT
*
72794438 ACTGATACTGAATAGGGCTCAAGCCCAGACTGT
1 ACTGATACTGAATAGGGCTCAAGCCCACACTGT
72794471 TACTACATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (33 bp):
ACTGATACTGAATAGGGCTCAAGCCCACACTGT
Found at i:72796636 original size:12 final size:12
Alignment explanation
Indices: 72796619--72796644 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72796609 TTTTATTTTC
72796619 TTTTCAATTCTT
1 TTTTCAATTCTT
72796631 TTTTCAATTCTT
1 TTTTCAATTCTT
72796643 TT
1 TT
72796645 CCAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCAATTCTT
Found at i:72797631 original size:27 final size:27
Alignment explanation
Indices: 72797600--72797852 Score: 223
Period size: 27 Copynumber: 9.4 Consensus size: 27
72797590 CTAATAGATG
72797600 AAAATGACTGAAATACCCCTATAGGGT
1 AAAATGACTGAAATACCCCTATAGGGT
*
72797627 AAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCTATAGGGT
* *
72797654 AAAATAACTTAAATA-CCCTCATAGGGT
1 AAAATGACTGAAATACCCCT-ATAGGGT
* ** *
72797681 AAAATGACTGAAATGCCCAAATAGGAT
1 AAAATGACTGAAATACCCCTATAGGGT
*
72797708 AAAATAACTGAAATA-CCCTCATAGGGT
1 AAAATGACTGAAATACCCCT-ATAGGGT
* * *
72797735 AACATGATTGAAATACCCCCATAGGGT
1 AAAATGACTGAAATACCCCTATAGGGT
* * *
72797762 AACATGA-TCGAAATAACCCC-ATAAGAT
1 AAAATGACT-GAAAT-ACCCCTATAGGGT
* *
72797789 AAAATGA-TCAAAATACCCCTATAGTGT
1 AAAATGACT-GAAATACCCCTATAGGGT
* **
72797816 AAAATAACTGTTATACCCC--TAGGAGAT
1 AAAATGACTGAAATACCCCTATAGG-G-T
72797843 AAAATGACTG
1 AAAATGACTG
72797853 TTATGGCCTT
Statistics
Matches: 184, Mismatches: 32, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.02
26 12 0.07
27 158 0.86
28 11 0.06
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.22
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCTATAGGGT
Found at i:72797678 original size:54 final size:53
Alignment explanation
Indices: 72797600--72797852 Score: 260
Period size: 54 Copynumber: 4.7 Consensus size: 53
72797590 CTAATAGATG
*
72797600 AAAATGACTGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCATAGGGT
1 AAAATAACTGAAATACCCC-ATAGGGTAAAATGACTGAAATACCCCCATAGGGT
* * ** *
72797654 AAAATAACTTAAATACCCTCATAGGGTAAAATGACTGAAATGCCCAAATAGGAT
1 AAAATAACTGAAATACCC-CATAGGGTAAAATGACTGAAATACCCCCATAGGGT
* *
72797708 AAAATAACTGAAATACCCTCATAGGGTAACATGATTGAAATACCCCCATAGGGT
1 AAAATAACTGAAATACCC-CATAGGGTAAAATGACTGAAATACCCCCATAGGGT
* * * * * * *
72797762 AACATGA-TCGAAATAACCCCATAAGATAAAATGA-TCAAAATACCCCTATAGTGT
1 AAAATAACT-GAAAT-ACCCCATAGGGTAAAATGACT-GAAATACCCCCATAGGGT
**
72797816 AAAATAACTGTTATACCCC-TAGGAGATAAAATGACTG
1 AAAATAACTGAAATACCCCATAGG-G-TAAAATGACTG
72797853 TTATGGCCTT
Statistics
Matches: 163, Mismatches: 28, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
52 3 0.02
53 7 0.04
54 146 0.90
55 7 0.04
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.22
Consensus pattern (53 bp):
AAAATAACTGAAATACCCCATAGGGTAAAATGACTGAAATACCCCCATAGGGT
Found at i:72797693 original size:81 final size:81
Alignment explanation
Indices: 72797600--72797824 Score: 260
Period size: 81 Copynumber: 2.8 Consensus size: 81
72797590 CTAATAGATG
*
72797600 AAAATGACTGAAATACCCCTATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATAACTT-
1 AAAATGACTGAAATACCCC-ATAGGATAAAATGACTGAAATACCCCCATAGGGTAAAATAACTTG
*
72797664 AAATACCCTCATAGGGT
65 AAATACCCCCATAGGGT
* * * * * *
72797681 AAAATGACTGAAATGCCCAAATAGGATAAAATAACTGAAATACCCTCATAGGGTAACATGA-TTG
1 AAAATGACTGAAATACCC-CATAGGATAAAATGACTGAAATACCCCCATAGGGTAAAATAACTTG
72797745 AAATACCCCCATAGGGT
65 AAATACCCCCATAGGGT
* * * * *
72797762 AACATGA-TCGAAATAACCCCATAAGATAAAATGA-TCAAAATACCCCTATAGTGTAAAATAACT
1 AAAATGACT-GAAAT-ACCCCATAGGATAAAATGACT-GAAATACCCCCATAGGGTAAAATAACT
72797825 GTTATACCCC
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
80 4 0.03
81 111 0.93
82 4 0.03
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (81 bp):
AAAATGACTGAAATACCCCATAGGATAAAATGACTGAAATACCCCCATAGGGTAAAATAACTTGA
AATACCCCCATAGGGT
Found at i:72798262 original size:28 final size:29
Alignment explanation
Indices: 72798213--72798357 Score: 165
Period size: 28 Copynumber: 5.2 Consensus size: 29
72798203 TATTGCACTG
* *
72798213 CACTG-TTATTGTATTGGGCTAAGGCTCA
1 CACTGATTACTGTATTGGGCTAAGGCCCA
* * *
72798241 CATTGATT-CTGTATTGGACTAAGCCCCA
1 CACTGATTACTGTATTGGGCTAAGGCCCA
* * *
72798269 CGCTG-TTACTGTATTAGACTAAGGCCCA
1 CACTGATTACTGTATTGGGCTAAGGCCCA
*
72798297 CACTGATT-CTGTATTGGGCTAAGGCCTA
1 CACTGATTACTGTATTGGGCTAAGGCCCA
*
72798325 CACT-ATTACTGTATTGGGCTAAGGACCA
1 CACTGATTACTGTATTGGGCTAAGGCCCA
72798353 CACTG
1 CACTG
72798358 TACTGTCACT
Statistics
Matches: 97, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
27 5 0.05
28 88 0.91
29 4 0.04
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (29 bp):
CACTGATTACTGTATTGGGCTAAGGCCCA
Found at i:72798304 original size:56 final size:56
Alignment explanation
Indices: 72798213--72798357 Score: 191
Period size: 56 Copynumber: 2.6 Consensus size: 56
72798203 TATTGCACTG
* * *
72798213 CACTGTTATTGTATTGGGCTAAGGCTCACATTGATTCTGTATTGGACTAAGCCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGACTAAGCCCCA
* * * * * *
72798269 CGCTGTTACTGTATTAGACTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGACTAAGCCCCA
* *
72798325 CACTATTACTGTATTGGGCTAAGGACCACACTG
1 CACTGTTACTGTATTGGGCTAAGGCCCACACTG
72798358 TACTGTCACT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (56 bp):
CACTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGACTAAGCCCCA
Found at i:72805397 original size:16 final size:16
Alignment explanation
Indices: 72805376--72805432 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
72805366 TCCTATAGTG
72805376 TCACAATTTATAGTTT
1 TCACAATTTATAGTTT
*
72805392 TCACAATTCTATTG-TT
1 TCACAATT-TATAGTTT
*
72805408 TCA-AAGTCTATAGTTT
1 TCACAA-TTTATAGTTT
72805424 TCAC-ATTTA
1 TCACAATTTA
72805433 AACAACACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
15 9 0.27
16 20 0.61
17 4 0.12
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.47
Consensus pattern (16 bp):
TCACAATTTATAGTTT
Found at i:72805423 original size:15 final size:16
Alignment explanation
Indices: 72805368--72805428 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
72805358 CTATAGTCTC
*
72805368 CTATAGTGTCACAA-T
1 CTATAGTTTCACAAGT
* *
72805383 TTATAGTTTTCACAATT
1 CTATAG-TTTCACAAGT
*
72805400 CTATTGTTTCA-AAGT
1 CTATAGTTTCACAAGT
72805415 CTATAGTTTTCACA
1 CTATAG-TTTCACA
72805429 TTTAAACAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
15 13 0.36
16 17 0.47
17 6 0.17
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (16 bp):
CTATAGTTTCACAAGT
Found at i:72806893 original size:20 final size:20
Alignment explanation
Indices: 72806870--72806911 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
72806860 CATAAATTAA
* *
72806870 TTAATTAAATAAAATTTTAT
1 TTAAGTAAATAAAATTATAT
72806890 TTAAGTAAATAAAATTATAT
1 TTAAGTAAATAAAATTATAT
72806910 TT
1 TT
72806912 CACTTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAAGTAAATAAAATTATAT
Found at i:72823067 original size:43 final size:43
Alignment explanation
Indices: 72823017--72823103 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
72823007 CCATAAGTTA
*
72823017 ACCTATACATGTCATTATAACCTTGATTACGACATCAAAATCT
1 ACCTATACATGTCATTATAACCTTGATCACGACATCAAAATCT
72823060 ACCTATACATGTCATTATAACCTTGATCACGACATCAAAATCT
1 ACCTATACATGTCATTATAACCTTGATCACGACATCAAAATCT
72823103 A
1 A
72823104 AAAATATAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (43 bp):
ACCTATACATGTCATTATAACCTTGATCACGACATCAAAATCT
Found at i:72833270 original size:20 final size:22
Alignment explanation
Indices: 72833213--72833272 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
72833203 TTGAGTAACA
* *
72833213 AAAT-CATACCAAGGGCATCAT
1 AAATGCATAACAAGGGCACCAT
*
72833234 AAATGCATAACAGGGGCACCA-
1 AAATGCATAACAAGGGCACCAT
*
72833255 AAGTGCA-AACAAGGGCAC
1 AAATGCATAACAAGGGCAC
72833273 TGAAGTTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 10 0.30
21 10 0.30
22 13 0.39
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (22 bp):
AAATGCATAACAAGGGCACCAT
Found at i:72841036 original size:14 final size:14
Alignment explanation
Indices: 72841017--72841063 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
72841007 AAATGCAAAG
72841017 TATGAAGTGAAATA
1 TATGAAGTGAAATA
* * *
72841031 TATGAAATG-AGTT
1 TATGAAGTGAAATA
*
72841044 TATGAAGTGAAATG
1 TATGAAGTGAAATA
72841058 TATGAA
1 TATGAA
72841064 ATGAGTTTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (14 bp):
TATGAAGTGAAATA
Found at i:72841048 original size:27 final size:27
Alignment explanation
Indices: 72841017--72841072 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
72841007 AAATGCAAAG
72841017 TATGAAGTGAAATATATGAAATGAGTT
1 TATGAAGTGAAATATATGAAATGAGTT
*
72841044 TATGAAGTGAAATGTATGAAATGAGTT
1 TATGAAGTGAAATATATGAAATGAGTT
72841071 TA
1 TA
72841073 GCAACAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (27 bp):
TATGAAGTGAAATATATGAAATGAGTT
Found at i:72842579 original size:20 final size:20
Alignment explanation
Indices: 72842554--72842605 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
72842544 AATCAAGTGC
*
72842554 AAATGATTTTAACCATGTCA
1 AAATGATTTTAACCAAGTCA
* *
72842574 AAATGATTTCAATCAAGTCA
1 AAATGATTTTAACCAAGTCA
*
72842594 AAATCATTTTAA
1 AAATGATTTTAA
72842606 AATAATTTTC
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:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (20 bp):
AAATGATTTTAACCAAGTCA
Found at i:72849073 original size:33 final size:33
Alignment explanation
Indices: 72849016--72849078 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
72849006 GTTTAGTTGG
*
72849016 GCCTTAGCCCATTACAGTACCAGTATCAGTGTA
1 GCCTTAGCCCATTACAGTACCAGTAACAGTGTA
*
72849049 GCCTTAGTCCATTACAGTGA-CAGTAACAGT
1 GCCTTAGCCCATTACAGT-ACCAGTAACAGT
72849079 TTAGAAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (33 bp):
GCCTTAGCCCATTACAGTACCAGTAACAGTGTA
Found at i:72854457 original size:50 final size:50
Alignment explanation
Indices: 72854345--72854591 Score: 219
Period size: 50 Copynumber: 4.8 Consensus size: 50
72854335 ATTTGGGTAA
* *
72854345 AGAGATCCCATGGAAGACCATGTCTGGGACATGGCTTTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
* *
72854401 AGAGGTCCCATGGCAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
72854451 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * *
72854501 AGAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * ** *
72854550 AAACATCCCATGTAAGACCATGTCTGTAACATGGCTTTGGCA
1 AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCA
72854592 TGTTATTATC
Statistics
Matches: 164, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 82 0.50
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGGAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:72857476 original size:27 final size:27
Alignment explanation
Indices: 72857445--72857644 Score: 133
Period size: 27 Copynumber: 7.4 Consensus size: 27
72857435 AAATATTGTT
72857445 AAATGACTGAATTACCCCCAGAGGGTA
1 AAATGACTGAATTACCCCCAGAGGGTA
* *
72857472 AAATGA-TCGAATTACCCTC-GAAGGTTA
1 AAATGACT-GAATTACCCCCAG-AGGGTA
* * *
72857499 AAATGACTGAAATACCCTACA-ATGGTA
1 AAATGACTGAATTACCC-CCAGAGGGTA
* **
72857526 AATTGACCAAATTACCCCC-GAAGGGTA
1 AAATGACTGAATTACCCCCAG-AGGGTA
* * * *
72857553 AAATGACCGAAATACCCCTAAAGGGTA
1 AAATGACTGAATTACCCCCAGAGGGTA
* * *
72857580 AAATGA-TGAAATTGCCCCTATAGGGTA
1 AAATGACTG-AATTACCCCCAGAGGGTA
* * *
72857607 AAATGACCGTAA-TAACCCCATAGGGTA
1 AAATGACTG-AATTACCCCCAGAGGGTA
*
72857634 AAATGAATGAA
1 AAATGACTGAA
72857645 ATACACGTGT
Statistics
Matches: 135, Mismatches: 28, Indels: 21
0.73 0.15 0.11
Matches are distributed among these distances:
26 6 0.04
27 124 0.92
28 5 0.04
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (27 bp):
AAATGACTGAATTACCCCCAGAGGGTA
Found at i:72857526 original size:54 final size:54
Alignment explanation
Indices: 72857445--72857639 Score: 184
Period size: 54 Copynumber: 3.6 Consensus size: 54
72857435 AAATATTGTT
* * * * *
72857445 AAATGACTGAATTACCC-CCAGAGGGTAAAATGATCGAATTACCCTCGAAGGTTA
1 AAATGACTGAAATACCCTACA-AGGGTAAAATGATCAAATTACCCCCGAAGGGTA
* * *
72857499 AAATGACTGAAATACCCTACAATGGTAAATTGACCAAATTACCCCCGAAGGGTA
1 AAATGACTGAAATACCCTACAAGGGTAAAATGATCAAATTACCCCCGAAGGGTA
* * * *
72857553 AAATGACCGAAATACCCCTA-AAGGGTAAAATGATGAAATT-GCCCCTATAGGGTA
1 AAATGACTGAAATA-CCCTACAAGGGTAAAATGATCAAATTACCCCCGA-AGGGTA
* *
72857607 AAATGACCGTAATAACCC--CATAGGGTAAAATGA
1 AAATGACTGAAAT-ACCCTACA-AGGGTAAAATGA
72857640 ATGAAATACA
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
53 6 0.05
54 105 0.88
55 8 0.07
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (54 bp):
AAATGACTGAAATACCCTACAAGGGTAAAATGATCAAATTACCCCCGAAGGGTA
Found at i:72857607 original size:81 final size:83
Alignment explanation
Indices: 72857445--72857648 Score: 199
Period size: 81 Copynumber: 2.5 Consensus size: 83
72857435 AAATATTGTT
* * * * *
72857445 AAATGACTG-AATTACCCCCAGAGGGTAAAATGATCGAATTA-CCCTCGAAGGTTAAAATGACTG
1 AAATGACCGAAATTACCCCCAGAGGGTAAAATGAACGAAATACCCCTCAAAGGGTAAAATGACTG
*
72857508 AAATACCCTACAATGGTA
66 AAATACCCTACAAGGGTA
* *
72857526 AATTGACC-AAATTACCCCC-GAAGGGTAAAATGACCGAAATACCCCT-AAAGGGTAAAATGA-T
1 AAATGACCGAAATTACCCCCAG-AGGGTAAAATGAACGAAATACCCCTCAAAGGGTAAAATGACT
* *
72857587 GAAATTGCCCCTA-TAGGGTA
65 GAAA-T-ACCCTACAAGGGTA
* * * *
72857607 AAATGACCGTAA-TAACCCCATAGGGTAAAATGAATGAAATAC
1 AAATGACCGAAATTACCCCCAGAGGGTAAAATGAACGAAATAC
72857649 ACGTGTAAGG
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
80 6 0.06
81 84 0.83
82 11 0.11
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (83 bp):
AAATGACCGAAATTACCCCCAGAGGGTAAAATGAACGAAATACCCCTCAAAGGGTAAAATGACTG
AAATACCCTACAAGGGTA
Done.