Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 96 of 204
Found at i:29975208 original size:13 final size:13
Alignment explanation
Indices: 29975190--29975214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29975180 TAATTCAAAA
29975190 TCAGCTAGCTAAC
1 TCAGCTAGCTAAC
29975203 TCAGCTAGCTAA
1 TCAGCTAGCTAA
29975215 ATTTAGACGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (13 bp):
TCAGCTAGCTAAC
Found at i:29976477 original size:17 final size:17
Alignment explanation
Indices: 29976448--29976480 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
29976438 TAGGCAGTAG
29976448 AAGAAAAGTAAGAGAAA
1 AAGAAAAGTAAGAGAAA
29976465 AAGAAGAAG-AAGAGAA
1 AAGAA-AAGTAAGAGAA
29976481 GGAATGGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (17 bp):
AAGAAAAGTAAGAGAAA
Found at i:29977143 original size:32 final size:32
Alignment explanation
Indices: 29977096--29977167 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
29977086 AACCGATTTT
* *
29977096 CTTTTCTTCTCCTTAATCTCAATCGATCCTTTC
1 CTTTTCTTCCCCTTAATCTCAATCCAT-CTTTC
*
29977129 CTTTT-TTCCCCTTAATCTCAATCCATCTTTT
1 CTTTTCTTCCCCTTAATCTCAATCCATCTTTC
29977160 CTTTTCTT
1 CTTTTCTT
29977168 TTCCCTAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 9 0.26
32 21 0.60
33 5 0.14
ACGTcount: A:0.14, C:0.32, G:0.01, T:0.53
Consensus pattern (32 bp):
CTTTTCTTCCCCTTAATCTCAATCCATCTTTC
Found at i:29977254 original size:21 final size:21
Alignment explanation
Indices: 29977221--29977260 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
29977211 CAACGTGGCA
*
29977221 AGTTAACTAGCCACGTCACTT
1 AGTTAACCAGCCACGTCACTT
* *
29977242 AGTTAACCGGCCATGTCAC
1 AGTTAACCAGCCACGTCAC
29977261 CTGTCCCGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (21 bp):
AGTTAACCAGCCACGTCACTT
Found at i:29977363 original size:30 final size:32
Alignment explanation
Indices: 29977294--29977363 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 32
29977284 AAAATGTTAA
*
29977294 TGAGTGATTGATTTGTCACTTTTCGATAACGT
1 TGAGTGACTGATTTGTCACTTTTCGATAACGT
* * *
29977326 T-AGTGACTGATTTGTTATTTTTTGA-AA-GT
1 TGAGTGACTGATTTGTCACTTTTCGATAACGT
29977355 TGAGTGACT
1 TGAGTGACT
29977364 AGGTTGAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 9 0.27
31 20 0.61
32 1 0.03
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.46
Consensus pattern (32 bp):
TGAGTGACTGATTTGTCACTTTTCGATAACGT
Found at i:29977402 original size:20 final size:20
Alignment explanation
Indices: 29977347--29977404 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
29977337 TTGTTATTTT
*
29977347 TTGAAAGTTGAGTGACTAGG
1 TTGAAAGTTGAGTGATTAGG
*
29977367 TTGAAAGTTGAGTGATTGGG
1 TTGAAAGTTGAGTGATTAGG
29977387 TTGAAAGTTGAGTGATTA
1 TTGAAAGTTGAGTGATTA
29977405 TTTTGTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.29, C:0.02, G:0.34, T:0.34
Consensus pattern (20 bp):
TTGAAAGTTGAGTGATTAGG
Found at i:29978850 original size:18 final size:18
Alignment explanation
Indices: 29978827--29978869 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
29978817 GCATTGATTC
29978827 TCAAAAGTATTTTTAGTG
1 TCAAAAGTATTTTTAGTG
*
29978845 TCAAAAGTATTTTTGGTG
1 TCAAAAGTATTTTTAGTG
29978863 TCAAAAG
1 TCAAAAG
29978870 CGTTTAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.40
Consensus pattern (18 bp):
TCAAAAGTATTTTTAGTG
Found at i:29979134 original size:21 final size:20
Alignment explanation
Indices: 29979077--29979135 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
29979067 TATTGAAATT
*
29979077 TATTTTAAATATATAATATTA
1 TATTTT-AATATTTAATATTA
* *
29979098 TATATTTAATGTTTTATTGATTA
1 TAT-TTTAAT-ATTTAAT-ATTA
29979121 TATTTTAATATTTAA
1 TATTTTAATATTTAA
29979136 AATATAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
21 10 0.33
22 13 0.43
23 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TATTTTAATATTTAATATTA
Found at i:29983181 original size:21 final size:21
Alignment explanation
Indices: 29983157--29983196 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
29983147 AATAAACATT
29983157 CTCA-ATTTCAATTCTAAATAA
1 CTCATATTTC-ATTCTAAATAA
*
29983178 CTCATTTTTCATTCTAAAT
1 CTCATATTTCATTCTAAAT
29983197 GTCTTCTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (21 bp):
CTCATATTTCATTCTAAATAA
Found at i:29993127 original size:24 final size:24
Alignment explanation
Indices: 29993100--29993162 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
29993090 TCACCTCGAT
29993100 CCTCGTAC-TCATCTTCATCTCAAC
1 CCTCGT-CGTCATCTTCATCTCAAC
* * * *
29993124 CCTCGCCTTCATCTTTATCTCGAC
1 CCTCGTCGTCATCTTCATCTCAAC
*
29993148 CTTCGTCGTCATCTT
1 CCTCGTCGTCATCTT
29993163 TGTCTCCATC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.14, C:0.40, G:0.08, T:0.38
Consensus pattern (24 bp):
CCTCGTCGTCATCTTCATCTCAAC
Found at i:29993163 original size:24 final size:24
Alignment explanation
Indices: 29993108--29993168 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
29993098 ATCCTCGTAC
* *
29993108 TCATCTTCATCTCAACCCTCGCCT
1 TCATCTTTATCTCAACCCTCGCCG
* * *
29993132 TCATCTTTATCTCGACCTTCGTCG
1 TCATCTTTATCTCAACCCTCGCCG
*
29993156 TCATCTTTGTCTC
1 TCATCTTTATCTC
29993169 CATCTCCTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.13, C:0.38, G:0.08, T:0.41
Consensus pattern (24 bp):
TCATCTTTATCTCAACCCTCGCCG
Found at i:29996048 original size:10 final size:10
Alignment explanation
Indices: 29996033--29996065 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
29996023 ATTTAATTTT
29996033 TATTTTTATA
1 TATTTTTATA
29996043 TATTTTT-TA
1 TATTTTTATA
*
29996052 AATTTTTATA
1 TATTTTTATA
29996062 TATT
1 TATT
29996066 AAAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTTTATA
Found at i:29996051 original size:17 final size:18
Alignment explanation
Indices: 29996029--29996065 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
29996019 AAGAATTTAA
29996029 TTTTT-ATTTTTATATAT
1 TTTTTAATTTTTATATAT
29996046 TTTTTAAATTTTTATATAT
1 TTTTT-AATTTTTATATAT
29996065 T
1 T
29996066 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
19 13 0.72
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTAATTTTTATATAT
Found at i:29999417 original size:74 final size:74
Alignment explanation
Indices: 29999296--29999475 Score: 315
Period size: 74 Copynumber: 2.4 Consensus size: 74
29999286 AAAAATTCAT
* *
29999296 CGTTCTCAATGGCTGGCGGTGATTCTACTTCTAAACCATCACCACCTAAAATTGAATGTTGAAAC
1 CGTTCTTAATGGCTGGTGGTGATTCTACTTCTAAACCATCACCACCTAAAATTGAATGTTGAAAC
29999361 TATCACCAC
66 TATCACCAC
*
29999370 CGTTCTTAATGGCTGGTGGCGATTCTACTTCTAAACCATCACCACCTAAAATTGAATGTTGAAAC
1 CGTTCTTAATGGCTGGTGGTGATTCTACTTCTAAACCATCACCACCTAAAATTGAATGTTGAAAC
*
29999435 TATCACCAT
66 TATCACCAC
*
29999444 CGTTCTTAATGGCTGGTAGTGATTCTACTTCT
1 CGTTCTTAATGGCTGGTGGTGATTCTACTTCT
29999476 CCACCACCTA
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 100 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (74 bp):
CGTTCTTAATGGCTGGTGGTGATTCTACTTCTAAACCATCACCACCTAAAATTGAATGTTGAAAC
TATCACCAC
Found at i:30001010 original size:32 final size:32
Alignment explanation
Indices: 30000946--30001012 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
30000936 CCAGACCTTA
* * * *
30000946 TGGGTCACACGGGCTGAGTTATTTGGGTCGTG
1 TGGGTCACACAGGCTGAGTTAATTAGGCCGTG
30000978 TGGGTCACACAGGCTGA-TTCAATTAGGCCGTG
1 TGGGTCACACAGGCTGAGTT-AATTAGGCCGTG
30001010 TGG
1 TGG
30001013 CCCTCACGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 2 0.07
32 28 0.93
ACGTcount: A:0.16, C:0.18, G:0.37, T:0.28
Consensus pattern (32 bp):
TGGGTCACACAGGCTGAGTTAATTAGGCCGTG
Found at i:30002727 original size:90 final size:88
Alignment explanation
Indices: 30002574--30002792 Score: 271
Period size: 90 Copynumber: 2.4 Consensus size: 88
30002564 TTAAGGGTGT
*
30002574 AAAAA-GCCCTCAAACTTTTTTAAGAAAAACAATTAAGCCCCTTCCTTTTTTTTTGTACTCAATT
1 AAAAAGGCCCTCAAA-TTTTTCAA-AAAAACAATTAAG-CCCTTCCTTTTTTTTTGTACTCAATT
** *
30002638 TTACACTTGAACTTTCAAAATGCATC
63 GGACACTTAAACTTTCAAAATGCATC
*
30002664 AAAAAGGCCCTCAAATTTCTTCAAAAAAAGCAATTAAGCCCTTGCTTTTTTTTT-TCACTCAATT
1 AAAAAGGCCCTCAAATTT-TTCAAAAAAA-CAATTAAGCCCTTCCTTTTTTTTTGT-ACTCAATT
** *
30002728 GGGTATTTAAACTTTCAAAATGCATC
63 GGACACTTAAACTTTCAAAATGCATC
* *
30002754 AAAAAGACCCTCAAAATTTTTGAAAAAAACAATTAAGCC
1 AAAAAGGCCCTC-AAATTTTTCAAAAAAACAATTAAGCC
30002793 ATGCTCTTAT
Statistics
Matches: 114, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
89 11 0.10
90 76 0.67
91 27 0.24
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (88 bp):
AAAAAGGCCCTCAAATTTTTCAAAAAAACAATTAAGCCCTTCCTTTTTTTTTGTACTCAATTGGA
CACTTAAACTTTCAAAATGCATC
Found at i:30003152 original size:17 final size:17
Alignment explanation
Indices: 30003130--30003250 Score: 68
Period size: 17 Copynumber: 6.8 Consensus size: 17
30003120 TTCTTACGAC
*
30003130 TTTATAAAATTTTATAT
1 TTTATAATATTTTATAT
* * *
30003147 TTTATATTTTTTTACGATT
1 TTTATAATATTTTA-TA-T
* *
30003166 TTTATAAAATTTTACAATTT
1 TTTATAATATTTT---ATAT
*
30003186 TTTATATATTTTTTATGAT
1 TTTATA-ATATTTTAT-AT
*
30003205 TTTAT-ATTTTTTATAAT
1 TTTATAATATTTTAT-AT
30003222 TTT-TAATATTTTAATAT
1 TTTATAATATTTT-ATAT
30003239 TTTATAAT-TTTT
1 TTTATAATATTTT
30003251 TTCTAATTTT
Statistics
Matches: 80, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
16 1 0.01
17 40 0.50
18 9 0.11
19 17 0.21
20 7 0.09
21 5 0.06
22 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTATAATATTTTATAT
Found at i:30003170 original size:19 final size:19
Alignment explanation
Indices: 30003146--30003233 Score: 74
Period size: 19 Copynumber: 4.6 Consensus size: 19
30003136 AAATTTTATA
30003146 TTTTATATTTTTTTACGAT
1 TTTTATATTTTTTTACGAT
*** *
30003165 TTTTATAAAATTTTACAATT
1 TTTTATATTTTTTTACGA-T
*
30003185 TTTTATATATTTTTTATGA-
1 TTTTATAT-TTTTTTACGAT
30003204 TTTTATATTTTTTATA--AT
1 TTTTATATTTTTT-TACGAT
30003222 TTTTAATATTTT
1 TTTT-ATATTTT
30003234 AATATTTTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 1 0.02
18 9 0.16
19 31 0.56
20 8 0.15
21 6 0.11
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATATTTTTTTACGAT
Found at i:30003197 original size:9 final size:9
Alignment explanation
Indices: 30003185--30003249 Score: 66
Period size: 9 Copynumber: 7.4 Consensus size: 9
30003175 TTTTACAATT
30003185 TTTTATATA
1 TTTTATATA
*
30003194 TTTTTTATGA
1 TTTTATAT-A
*
30003204 TTTTATATT
1 TTTTATATA
30003213 TTTTATA-A
1 TTTTATATA
30003221 TTTT-TAATA
1 TTTTAT-ATA
30003230 TTTTA-ATA
1 TTTTATATA
30003238 TTTTATA-A
1 TTTTATATA
30003246 TTTT
1 TTTT
30003250 TTTCTAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
7 1 0.02
8 18 0.38
9 20 0.43
10 8 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTATATA
Found at i:30003231 original size:36 final size:36
Alignment explanation
Indices: 30003175--30003265 Score: 105
Period size: 36 Copynumber: 2.5 Consensus size: 36
30003165 TTTTATAAAA
* *
30003175 TTTTACAATTTTTTATATATTTTTTATGATTTTAT-A-TT
1 TTTTATAA-TTTTTA-ATA-TTTTAAT-ATTTTATAATTT
30003213 TTTTATAATTTTTAATATTTTAATATTTTATAATTT
1 TTTTATAATTTTTAATATTTTAATATTTTATAATTT
*
30003249 TTTTCTAATTTTTAATA
1 TTTTATAATTTTTAATA
30003266 AAAGAAGGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
34 7 0.15
35 7 0.15
36 21 0.44
37 6 0.12
38 7 0.15
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (36 bp):
TTTTATAATTTTTAATATTTTAATATTTTATAATTT
Found at i:30003250 original size:9 final size:9
Alignment explanation
Indices: 30003163--30003250 Score: 58
Period size: 8 Copynumber: 9.7 Consensus size: 9
30003153 TTTTTTTACG
30003163 ATTTTTATAA
1 ATTTTTAT-A
* *
30003173 AATTTTACA
1 ATTTTTATA
30003182 ATTTTTTATA
1 A-TTTTTATA
*
30003192 TATTTTTTATG
1 -A-TTTTTATA
30003203 A-TTTTATA
1 ATTTTTATA
*
30003211 TTTTTTATA
1 ATTTTTATA
30003220 A-TTTT-TA
1 ATTTTTATA
*
30003227 ATATTT-TA
1 ATTTTTATA
30003235 ATATTTTATA
1 AT-TTTTATA
30003245 ATTTTT
1 ATTTTT
30003251 TTCTAATTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
7 3 0.05
8 17 0.27
9 16 0.26
10 17 0.27
11 9 0.15
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:30003251 original size:10 final size:10
Alignment explanation
Indices: 30003146--30003266 Score: 62
Period size: 10 Copynumber: 12.8 Consensus size: 10
30003136 AAATTTTATA
*
30003146 TTTTATATTT
1 TTTTATAATT
**
30003156 TTTTACGA-T
1 TTTTATAATT
**
30003165 TTTTATAAAA
1 TTTTATAATT
*
30003175 TTTTACAATT
1 TTTTATAATT
30003185 TTTTATATATT
1 TTTTATA-ATT
*
30003196 TTTTATGA--
1 TTTTATAATT
30003204 TTTTAT-ATT
1 TTTTATAATT
30003213 TTTTATAA--
1 TTTTATAATT
30003221 TTTT-TAA-T
1 TTTTATAATT
* *
30003229 ATTT-TAATA
1 TTTTATAATT
30003238 TTTTATAATTT
1 TTTTATAA-TT
*
30003249 TTTTCTAATT
1 TTTTATAATT
*
30003259 TTTAATAA
1 TTTTATAA
30003267 AAGAAGGGGC
Statistics
Matches: 84, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
7 4 0.05
8 16 0.19
9 16 0.19
10 31 0.37
11 17 0.20
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:30003259 original size:19 final size:19
Alignment explanation
Indices: 30003139--30003264 Score: 79
Period size: 18 Copynumber: 6.9 Consensus size: 19
30003129 CTTTATAAAA
30003139 TTTTAT-ATTTTAT-ATTT
1 TTTTATAATTTTATAATTT
* * **
30003156 TTTTACGATTTTTATAA-AA
1 TTTTA-TAATTTTATAATTT
* *
30003175 TTTTACAATTTTTTATATATT
1 TTTTATAATTTTATA-AT-TT
*
30003196 TTTTATGATTTTAT-A-TT
1 TTTTATAATTTTATAATTT
*
30003213 TTTTATAATTTT-TAATAT
1 TTTTATAATTTTATAATTT
*
30003231 TTTAAT-ATTTTATAATTT
1 TTTTATAATTTTATAATTT
*
30003249 TTTTCTAATTTT-TAAT
1 TTTTATAATTTTATAAT
30003265 AAAAGAAGGG
Statistics
Matches: 81, Mismatches: 18, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
16 1 0.01
17 24 0.30
18 26 0.32
19 18 0.22
20 1 0.01
21 11 0.14
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTATAATTT
Found at i:30003384 original size:85 final size:85
Alignment explanation
Indices: 30003273--30003439 Score: 250
Period size: 86 Copynumber: 2.0 Consensus size: 85
30003263 ATAAAAGAAG
** *
30003273 GGGCTTAATTGTTTTTTTTTTAAAGG-TTGAGGG-TCTTTTTGATGCATTTTGAAAGTTCAAGTA
1 GGGCTTAATTGTTTTTTTTGAAAAGGTTTGAGGGCT-TTTTTGATGCATTTTAAAAGTTCAAGTA
*
30003336 CTC-AATTGAGTGAAAAAATAA
65 C-CAAAATGAGTGAAAAAATAA
30003357 GGGCTTAATTGCTTTTTTTTGAAAAGGTTTGAGGGCTTTTTTGATGCATTTTAAAAGTTCAAGTA
1 GGGCTTAATTG-TTTTTTTTGAAAAGGTTTGAGGGCTTTTTTGATGCATTTTAAAAGTTCAAGTA
30003422 CCAAAATGAGTGAAAAAA
65 CCAAAATGAGTGAAAAAA
30003440 AGACTTATTT
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
84 11 0.15
85 14 0.19
86 49 0.65
87 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (85 bp):
GGGCTTAATTGTTTTTTTTGAAAAGGTTTGAGGGCTTTTTTGATGCATTTTAAAAGTTCAAGTAC
CAAAATGAGTGAAAAAATAA
Found at i:30003458 original size:85 final size:83
Alignment explanation
Indices: 30003276--30003461 Score: 222
Period size: 86 Copynumber: 2.2 Consensus size: 83
30003266 AAAGAAGGGG
*
30003276 CTTAATTGTTTTTTTTTTAAAGGTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACTCAA
1 CTTAATT-TTTTTTTTTTAAAGGTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACTCAA
* *
30003341 TTGAGTGAAAAAATAAGGG
65 ATGAGTGAAAAAATAAGGA
**
30003360 CTTAATTGCTTTTTTTTGAAAAGGTTTGAGGG-CTTTTTTGATGCATTTTAAAAGTTCAAGTAC-
1 CTTAATT--TTTTTTTTTTAAAGG-TTGAGGGTC-TTTTTGATGCATTTTAAAAGTTCAAGTACT
30003423 CAAAATGAGTG-AAAAA-AA-GA
62 C-AAATGAGTGAAAAAATAAGGA
*
30003443 CTT-ATTTTATTTTTTTAAA
1 CTTAATTTTTTTTTTTTAAA
30003462 ATTTGAAGAC
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
80 10 0.11
82 3 0.03
83 4 0.04
84 9 0.10
85 20 0.22
86 43 0.48
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (83 bp):
CTTAATTTTTTTTTTTTAAAGGTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACTCAAA
TGAGTGAAAAAATAAGGA
Found at i:30005184 original size:26 final size:27
Alignment explanation
Indices: 30005151--30005209 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
30005141 CTAAAAACAT
30005151 AAAAATAAAAAATAT-ATAA-TTTTTAA
1 AAAAATAAAAAATATGA-AATTTTTTAA
* *
30005177 AAAAATAAAAATTATGAAATTTTTTTA
1 AAAAATAAAAAATATGAAATTTTTTAA
30005204 AAAAAT
1 AAAAAT
30005210 TTTAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
AAAAATAAAAAATATGAAATTTTTTAA
Found at i:30005199 original size:25 final size:26
Alignment explanation
Indices: 30005151--30005199 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
30005141 CTAAAAACAT
*
30005151 AAAAATAAAAAATATATAATTTTTAA
1 AAAAATAAAAAATATATAAATTTTAA
30005177 AAAAAT-AAAAAT-TATGAAATTTT
1 AAAAATAAAAAATATAT-AAATTTT
30005200 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 12 0.57
26 6 0.29
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
AAAAATAAAAAATATATAAATTTTAA
Found at i:30006330 original size:34 final size:34
Alignment explanation
Indices: 30006287--30006355 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
30006277 TGAAAGAGTG
*
30006287 ACCAAAATACT-AAGTTTCGACAACAATAATAACT
1 ACCAAAATACTAAAATTT-GACAACAATAATAACT
*
30006321 ACCAAAATACTAAAATTTGATAACAATAATAACT
1 ACCAAAATACTAAAATTTGACAACAATAATAACT
30006355 A
1 A
30006356 AAAAAACCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 27 0.84
35 5 0.16
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.25
Consensus pattern (34 bp):
ACCAAAATACTAAAATTTGACAACAATAATAACT
Found at i:30006939 original size:16 final size:16
Alignment explanation
Indices: 30006918--30006953 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
30006908 TGGTTCGTTA
*
30006918 TAATGGAATAGAGGTG
1 TAATGGAATAGAGGCG
30006934 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
30006950 TAAT
1 TAAT
30006954 AGTAATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.33, T:0.25
Consensus pattern (16 bp):
TAATGGAATAGAGGCG
Found at i:30007212 original size:18 final size:18
Alignment explanation
Indices: 30007189--30007235 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
30007179 TTATTATTAA
30007189 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
30007207 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
30007225 AT-TAATATTAA
1 ATATAAT-TTAA
30007236 ATATTCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:30007316 original size:120 final size:120
Alignment explanation
Indices: 30007169--30007646 Score: 917
Period size: 120 Copynumber: 4.0 Consensus size: 120
30007159 TTAATCATAT
* *
30007169 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
30007234 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
30007289 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
30007354 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
30007409 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
30007474 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTAT-AAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
30007528 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTT-ATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
30007592 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
30007646 T
1 T
30007647 ATATAATCTA
Statistics
Matches: 355, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
118 56 0.16
119 70 0.20
120 229 0.65
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:30007536 original size:21 final size:21
Alignment explanation
Indices: 30007493--30007536 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
30007483 TATATGAATT
*
30007493 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
30007514 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
30007535 TA
1 TA
30007537 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:30007831 original size:9 final size:9
Alignment explanation
Indices: 30007817--30007844 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
30007807 CAAAAAGTTA
30007817 CATGAAATT
1 CATGAAATT
30007826 CATGAAATT
1 CATGAAATT
30007835 CATGAAATT
1 CATGAAATT
30007844 C
1 C
30007845 TATGTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
CATGAAATT
Found at i:30009120 original size:49 final size:49
Alignment explanation
Indices: 30009048--30009151 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
30009038 GAAAAAAAAC
* * *
30009048 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACAATTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACAATTTATA
*
30009097 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACAATTTATA
30009146 AAATTA
1 AAATTA
30009152 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACAATTTATA
Found at i:30011480 original size:15 final size:15
Alignment explanation
Indices: 30011469--30011500 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
30011459 AATAAATTGG
30011469 AATATTAAAAATAAA
1 AATATTAAAAATAAA
30011484 AATATTAAAAATAAA
1 AATATTAAAAATAAA
30011499 AA
1 AA
30011501 AAATTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AATATTAAAAATAAA
Found at i:30011792 original size:36 final size:36
Alignment explanation
Indices: 30011752--30011825 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
30011742 TAAAATTAAA
30011752 AATAAT-AAAAATAAACTGATTTGCACTAACTATTAC
1 AATAATCAAAAA-AAACTGATTTGCACTAACTATTAC
***
30011788 AATAATCACTCAAAACTGATTTGCACTAACTATTAC
1 AATAATCAAAAAAAACTGATTTGCACTAACTATTAC
30011824 AA
1 AA
30011826 CCACCTTAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 32 0.94
37 2 0.06
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.30
Consensus pattern (36 bp):
AATAATCAAAAAAAACTGATTTGCACTAACTATTAC
Found at i:30015737 original size:69 final size:70
Alignment explanation
Indices: 30015648--30015811 Score: 208
Period size: 70 Copynumber: 2.3 Consensus size: 70
30015638 GTTGTTTTAT
* * *
30015648 AGGTTTAGCTCAGACGGGTAACCTTACATGTATA-TACAACTTTGGCCAAACTATTTGATGTG-C
1 AGGTTTAGC-CCGACGGGTAACCTAACATGTACATTACAACTTTGGCCAAACTATTTGATGTGTC
30015711 AGAT-AA
65 A-ATAAA
* *
30015717 AGGTTTAGCCCGTACGGGTAACCTAACTTGTACATTACAACTTTGGCCAAGCTATTTGATGTGTC
1 AGGTTTAGCCCG-ACGGGTAACCTAACATGTACATTACAACTTTGGCCAAACTATTTGATGTGTC
30015782 AATAAA
65 AATAAA
* *
30015788 AAGTTTAGCCCGGACAGGTAACCT
1 AGGTTTAGCCC-GACGGGTAACCT
30015812 GACACAAATG
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
68 2 0.02
69 27 0.33
70 29 0.35
71 24 0.29
72 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (70 bp):
AGGTTTAGCCCGACGGGTAACCTAACATGTACATTACAACTTTGGCCAAACTATTTGATGTGTCA
ATAAA
Found at i:30019106 original size:17 final size:17
Alignment explanation
Indices: 30019084--30019119 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
30019074 GATTAAGGGG
*
30019084 AACAAAAATAAATAAAT
1 AACAAAAAGAAATAAAT
30019101 AACAAAAAGAAATAAAT
1 AACAAAAAGAAATAAAT
30019118 AA
1 AA
30019120 AGAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.14
Consensus pattern (17 bp):
AACAAAAAGAAATAAAT
Found at i:30020240 original size:14 final size:14
Alignment explanation
Indices: 30020218--30020260 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
30020208 AAAAAAATAC
*
30020218 AAACTAAGAAAGAA
1 AAACAAAGAAAGAA
30020232 AAACAAAGAAAGAA
1 AAACAAAGAAAGAA
**
30020246 AAGGAAAG-AAGAA
1 AAACAAAGAAAGAA
30020259 AA
1 AA
30020261 GAAGGAGACG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 7 0.27
14 19 0.73
ACGTcount: A:0.74, C:0.05, G:0.19, T:0.02
Consensus pattern (14 bp):
AAACAAAGAAAGAA
Found at i:30020257 original size:13 final size:14
Alignment explanation
Indices: 30020223--30020261 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
30020213 AATACAAACT
**
30020223 AAGAAAGAAAAACA
1 AAGAAAGAAAAGGA
30020237 AAGAAAGAAAAGGA
1 AAGAAAGAAAAGGA
30020251 AAG-AAGAAAAG
1 AAGAAAGAAAAG
30020262 AAGGAGACGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAAAGGA
Found at i:30020504 original size:12 final size:12
Alignment explanation
Indices: 30020487--30020511 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30020477 GAAAAAGGAT
30020487 TAAATTGTAAAA
1 TAAATTGTAAAA
30020499 TAAATTGTAAAA
1 TAAATTGTAAAA
30020511 T
1 T
30020512 TTGAGTAATA
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TAAATTGTAAAA
Found at i:30022216 original size:21 final size:21
Alignment explanation
Indices: 30022192--30022231 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30022182 CTAGGATGAT
*
30022192 TGTTTTAGCATGTTTTGAATG
1 TGTTTGAGCATGTTTTGAATG
* *
30022213 TGTTTGATCGTGTTTTGAA
1 TGTTTGAGCATGTTTTGAA
30022232 CAGGTTAAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.05, G:0.25, T:0.53
Consensus pattern (21 bp):
TGTTTGAGCATGTTTTGAATG
Found at i:30025368 original size:20 final size:20
Alignment explanation
Indices: 30025343--30025392 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
30025333 TAATGTATCG
30025343 ATATTTTGTGAAAGGTACCA
1 ATATTTTGTGAAAGGTACCA
* * * *
30025363 ATATTTCGTTAAGGGTATCA
1 ATATTTTGTGAAAGGTACCA
30025383 ATACTTTTGT
1 ATA-TTTTGT
30025393 TTTTTGCTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (20 bp):
ATATTTTGTGAAAGGTACCA
Found at i:30028475 original size:21 final size:21
Alignment explanation
Indices: 30028449--30028490 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30028439 ATTTTCCCTT
30028449 TCTCCTTTCTCTTCTAAGCAA
1 TCTCCTTTCTCTTCTAAGCAA
30028470 TCTCCTTTCTCTTCTAAGCAA
1 TCTCCTTTCTCTTCTAAGCAA
30028491 ATTTTCTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.05, T:0.43
Consensus pattern (21 bp):
TCTCCTTTCTCTTCTAAGCAA
Found at i:30029050 original size:15 final size:13
Alignment explanation
Indices: 30029024--30029049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30029014 TTAGGTTAGG
30029024 AGTGAGAGATATA
1 AGTGAGAGATATA
30029037 AGTGAGAGATATA
1 AGTGAGAGATATA
30029050 TGAATAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (13 bp):
AGTGAGAGATATA
Found at i:30031463 original size:12 final size:12
Alignment explanation
Indices: 30031446--30031472 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30031436 GTTAACCCTC
30031446 GATTATATTCTA
1 GATTATATTCTA
30031458 GATTATATTCTA
1 GATTATATTCTA
30031470 GAT
1 GAT
30031473 CCAAATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (12 bp):
GATTATATTCTA
Found at i:30035084 original size:18 final size:18
Alignment explanation
Indices: 30035063--30035099 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30035053 TGAATTGTCG
*
30035063 AATTCGAATAACTCAAAT
1 AATTCGAATAAATCAAAT
30035081 AATTCGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
30035099 A
1 A
30035100 TCAAACTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:30041089 original size:12 final size:12
Alignment explanation
Indices: 30041072--30041125 Score: 71
Period size: 11 Copynumber: 4.8 Consensus size: 12
30041062 AACTAATCCT
30041072 CTCTCAAATTTC
1 CTCTCAAATTTC
30041084 CTCTC-AATTTC
1 CTCTCAAATTTC
30041095 CTCTCAAA-TTC
1 CTCTCAAATTTC
30041106 CT-TCAAAATTT-
1 CTCTC-AAATTTC
30041117 CTCTCAAAT
1 CTCTCAAAT
30041126 CCATATTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.05
11 25 0.66
12 11 0.29
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:30041196 original size:51 final size:51
Alignment explanation
Indices: 30041087--30041184 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
30041077 AAATTTCCTC
*
30041087 TCAATTTCCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAAAT
1 TCAATTTTCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAAAT
* * * *
30041138 TCAATTTTCTCTCAAGTT-CTTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTTCTCTCAAATTCCTTC-AAAATTTCTCTCAAATCCATATTT
30041185 TTAAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 4 0.10
51 37 0.90
ACGTcount: A:0.29, C:0.24, G:0.01, T:0.46
Consensus pattern (51 bp):
TCAATTTTCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAAAT
Found at i:30046941 original size:125 final size:125
Alignment explanation
Indices: 30046695--30047116 Score: 580
Period size: 125 Copynumber: 3.4 Consensus size: 125
30046685 CAAACATGCT
* * * * *
30046695 ACTGTAGCAAAAGCGTGTCCACGTGGGCGCGATTTCACAAATTTTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGGTT
* *
30046760 GAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGACCA
66 GAAGCGATTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * *
30046820 ACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTTAAAAATTCTTCTTA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCATAA-AGCATCCTGGT
* * * * * *
30046884 TGAAGTGTTTTTTATACTATTTGCTTAGAAACGTCAACTTGAAATAATTT-TTTCAGGACCT
65 TGAAGCG-ATTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * *
30046945 ACTGTAGCAAAAGCGCGTTCATGTGGGCGCGATTT-AACAAATTCTTCTCATAAAGCATTCTGGT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAA-AAATTCTTCTCATAAAGCATCCTGGT
*
30047009 TGAAGCGATTTTATACTATTTGCTTAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCA
65 TGAAGCGATTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* *
30047070 ACTGTAGCAAAAGCGCGTCCAGGAGGGCGCGATTTCACAAATTCTTC
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTC
30047117 GCATCCACGT
Statistics
Matches: 256, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
124 42 0.16
125 174 0.68
126 40 0.16
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGGTT
GAAGCGATTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
Found at i:30047766 original size:20 final size:20
Alignment explanation
Indices: 30047721--30047805 Score: 59
Period size: 20 Copynumber: 4.2 Consensus size: 20
30047711 AAAATTACGA
*
30047721 AAAAAGATTCAAAATAATTT-T
1 AAAAAG-TTTAAAAT-ATTTAT
*
30047742 CAAAAGTTTAAAATATTTAT
1 AAAAAGTTTAAAATATTTAT
*
30047762 AAAAA-TTTCAAAAAAATTTAT
1 AAAAAGTTT--AAAATATTTAT
* *
30047783 AAAAAATCTAAAA-ATTATAT
1 AAAAAGTTTAAAATATT-TAT
30047803 AAA
1 AAA
30047806 GAAAGTTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
19 10 0.19
20 22 0.41
21 20 0.37
22 2 0.04
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAAGTTTAAAATATTTAT
Found at i:30047795 original size:21 final size:21
Alignment explanation
Indices: 30047751--30047796 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
30047741 TCAAAAGTTT
* *
30047751 AAAATATTTATAAAAATTTCA
1 AAAAAATTTATAAAAATCTCA
30047772 AAAAAATTTATAAAAAATCT-A
1 AAAAAATTTAT-AAAAATCTCA
30047793 AAAA
1 AAAA
30047797 TTATATAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAAATTTATAAAAATCTCA
Found at i:30047805 original size:11 final size:10
Alignment explanation
Indices: 30047750--30047805 Score: 51
Period size: 11 Copynumber: 5.4 Consensus size: 10
30047740 TTCAAAAGTT
30047750 TAAAATATTTA
1 TAAAA-ATTTA
30047761 TAAAAATTTCA
1 TAAAAATTT-A
*
30047772 AAAAAATTTA
1 TAAAAATTTA
* *
30047782 TAAAAA-ATC
1 TAAAAATTTA
30047791 TAAAAATTATA
1 TAAAAATT-TA
30047802 TAAA
1 TAAA
30047806 GAAAGTTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
9 7 0.19
10 10 0.28
11 19 0.53
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:30052281 original size:62 final size:62
Alignment explanation
Indices: 30052205--30052330 Score: 180
Period size: 62 Copynumber: 2.0 Consensus size: 62
30052195 GAGCAATACT
* * * *
30052205 TTCCTAGAATCTACTGGTATTAATATATGGTTCTTATGTCTAAATAGTATATCTTCGAGTTC
1 TTCCTAGAATCTACTAGTATTAATATATGATTCTTACGTCTAAATAGTAGATCTTCGAGTTC
* * * *
30052267 TTCCTAGAATCTACTATTATTGATATATGATTCTTCCGTCTAAATTGTAGATCTTCGAGTTC
1 TTCCTAGAATCTACTAGTATTAATATATGATTCTTACGTCTAAATAGTAGATCTTCGAGTTC
30052329 TT
1 TT
30052331 TTTAAAATAG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (62 bp):
TTCCTAGAATCTACTAGTATTAATATATGATTCTTACGTCTAAATAGTAGATCTTCGAGTTC
Found at i:30053044 original size:22 final size:22
Alignment explanation
Indices: 30053016--30053066 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
30053006 CTTTTTAATC
30053016 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
30053038 CTCTCAATTTCCTTCTAAAATT
1 CTCTCAATTTCCTTCCAAAATT
30053060 CTCTCAA
1 CTCTCAA
30053067 ATCCATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:30053114 original size:21 final size:20
Alignment explanation
Indices: 30053072--30053119 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
30053062 CTCAAATCCA
30053072 TTTTTTAAAACAATTAATAT
1 TTTTTTAAAACAATTAATAT
*
30053092 TTTTTTAAAATAATTTTAA-AT
1 TTTTTTAAAACAA--TTAATAT
30053113 TTTTTTA
1 TTTTTTA
30053120 TATTTTCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 12 0.48
21 9 0.36
22 4 0.16
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTTAAAACAATTAATAT
Found at i:30054188 original size:7 final size:7
Alignment explanation
Indices: 30054176--30054200 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30054166 AGTCGATTGA
30054176 TATTTAG
1 TATTTAG
30054183 TATTTAG
1 TATTTAG
30054190 TATTTAG
1 TATTTAG
30054197 TATT
1 TATT
30054201 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:30055165 original size:24 final size:24
Alignment explanation
Indices: 30055132--30055187 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
30055122 ATGCCGAACT
*
30055132 GGAAGAACCACAACCACCACCGGA
1 GGAAGAACCACAACCACCACCAGA
* * *
30055156 GGAAGGACCACAATCAGCACCAGA
1 GGAAGAACCACAACCACCACCAGA
30055180 GGAAGAAC
1 GGAAGAAC
30055188 AACCGCCGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.30, G:0.25, T:0.02
Consensus pattern (24 bp):
GGAAGAACCACAACCACCACCAGA
Found at i:30055409 original size:11 final size:10
Alignment explanation
Indices: 30055393--30055839 Score: 112
Period size: 9 Copynumber: 47.0 Consensus size: 10
30055383 AAATAAAAAC
30055393 CCTAAACTTAA
1 CCTAAA-TTAA
30055404 CCTAAATTAA
1 CCTAAATTAA
30055414 -CTAAA--AA
1 CCTAAATTAA
*
30055421 CCTTAATCTAA
1 CCTAAAT-TAA
30055432 CCTAAATTAA
1 CCTAAATTAA
*
30055442 -TTAAA--AA
1 CCTAAATTAA
*
30055449 CCCTAAACCTAA
1 -CCTAAA-TTAA
30055461 CCTAAATTAA
1 CCTAAATTAA
30055471 -CTAAA--AA
1 CCTAAATTAA
*
30055478 CCCTAATTTAA
1 -CCTAAATTAA
30055489 CCTAAATTAA
1 CCTAAATTAA
*
30055499 -TTAAA--AA
1 CCTAAATTAA
30055506 CACT-AATCTAA
1 C-CTAAAT-TAA
30055517 CCTAAATTAA
1 CCTAAATTAA
*
30055527 -TTAAA--AA
1 CCTAAATTAA
*
30055534 CCCTAAACCTAA
1 -CCTAAA-TTAA
30055546 CCTAAATTAA
1 CCTAAATTAA
30055556 -CTAAA--AA
1 CCTAAATTAA
30055563 CCCT-AATCTAA
1 -CCTAAAT-TAA
30055574 CCTAAATTAA
1 CCTAAATTAA
*
30055584 -TTAAA--AA
1 CCTAAATTAA
*
30055591 CCCTAAACCTAA
1 -CCTAAA-TTAA
30055603 CCTAAATTAA
1 CCTAAATTAA
** *
30055613 TTTAAA--AC
1 CCTAAATTAA
30055621 CCT-AATCTAA
1 CCTAAAT-TAA
30055631 CCTAAATTAA
1 CCTAAATTAA
*
30055641 -TTAAA--AA
1 CCTAAATTAA
*
30055648 CCCTAAACCTAA
1 -CCTAAA-TTAA
30055660 CCTAAATTAA
1 CCTAAATTAA
*
30055670 -CTAAA--AGC
1 CCTAAATTA-A
30055678 CCT-AATCTAA
1 CCTAAAT-TAA
30055688 CCTAAATTAA
1 CCTAAATTAA
*
30055698 -TTAAA--AA
1 CCTAAATTAA
*
30055705 CCCTAAACCTAA
1 -CCTAAA-TTAA
30055717 CCTAAATTAA
1 CCTAAATTAA
30055727 -CTAAA--AA
1 CCTAAATTAA
30055734 CCCT-AATCTAA
1 -CCTAAAT-TAA
30055745 CCTAAATTAA
1 CCTAAATTAA
*
30055755 -TTAAA--AA
1 CCTAAATTAA
*
30055762 CCCTAAAGCTAA
1 -CCTAAA-TTAA
30055774 CCTAAATTAA
1 CCTAAATTAA
30055784 -CTAAA--AA
1 CCTAAATTAA
30055791 CCCT-AATCTAA
1 -CCTAAAT-TAA
30055802 CCTAAATTAA
1 CCTAAATTAA
*
30055812 -TTAAA--AA
1 CCTAAATTAA
*
30055819 CCTAAACCTAA
1 CCTAAA-TTAA
30055830 CCTAAATTAA
1 CCTAAATTAA
30055840 TTTAAAACCC
Statistics
Matches: 325, Mismatches: 35, Indels: 153
0.63 0.07 0.30
Matches are distributed among these distances:
7 29 0.09
8 20 0.06
9 99 0.30
10 77 0.24
11 88 0.27
12 12 0.04
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (10 bp):
CCTAAATTAA
Found at i:30055474 original size:57 final size:57
Alignment explanation
Indices: 30055386--30055894 Score: 774
Period size: 57 Copynumber: 8.9 Consensus size: 57
30055376 TATAATAAAA
* * * * *
30055386 TAAAAACCCTAAACTTAACCTAAATTAACTAAAAA-CCTTAATCTAACCTAAATTAAT
1 TAAAAACCCTAATC-TAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
* * ** *
30055443 TAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCT-AATTTAACCTAAATTAAT
1 TAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
*
30055500 TAAAAACACTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
1 TAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
*
30055557 TAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAT
1 TAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
*
30055614 TTAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
1 TAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
*
30055671 TAAAAGCCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
1 TAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
*
30055728 TAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAAGCTAACCTAAATTAAC
1 TAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
*
30055785 TAAAAACCCTAATCTAACCTAAATTAATTAAAAA-CCTAAACCTAACCTAAATTAAT
1 TAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
* * * * *
30055841 TTAAAACCCTAAACCTAACCTAAATTAATTTAAAACCCT-AATCTAACTTAAATT
1 TAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATT
30055895 TTTTTGGCTT
Statistics
Matches: 424, Mismatches: 23, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
56 55 0.13
57 360 0.85
58 9 0.02
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (57 bp):
TAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAAC
Found at i:30055496 original size:85 final size:85
Alignment explanation
Indices: 30055386--30055894 Score: 706
Period size: 85 Copynumber: 6.0 Consensus size: 85
30055376 TATAATAAAA
* * *
30055386 TAAAAACCCTAAACTTAACCTAAATTAACTAAAAACCTTAATCTAACCTAAATTAATTAAAAACC
1 TAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCTAAATCTAACCTAAATTAATTAAAAACC
30055451 CTAAACCTAACCTAAATTAAC
66 CT-AACCTAACCTAAATTAAC
**
30055472 TAAAAACCCT-AATTTAACCTAAATTAATTAAAAACACT-AATCTAACCTAAATTAATTAAAAAC
1 TAAAAACCCTAAACCTAACCTAAATTAATTAAAAAC-CTAAATCTAACCTAAATTAATTAAAAAC
30055535 CCTAAACCTAACCTAAATTAAC
65 CCT-AACCTAACCTAAATTAAC
* * *
30055557 TAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAATTTAAAAC
1 TAAAAACCCTAAACCTAACCTAAATTAATTAAAAA-CCTAAATCTAACCTAAATTAATTAAAAAC
* *
30055621 CCTAATCTAACCTAAATTAAT
65 CCTAACCTAACCTAAATTAAC
* *
30055642 TAAAAACCCTAAACCTAACCTAAATTAACTAAAAGCCCT-AATCTAACCTAAATTAATTAAAAAC
1 TAAAAACCCTAAACCTAACCTAAATTAATTAAAA-ACCTAAATCTAACCTAAATTAATTAAAAAC
30055706 CCTAAACCTAACCTAAATTAAC
65 CCT-AACCTAACCTAAATTAAC
* * *
30055728 TAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAAAGCTAACCTAAATTAACTAAAAAC
1 TAAAAACCCTAAACCTAACCTAAATTAATTAAAAA-CCTAAATCTAACCTAAATTAATTAAAAAC
* *
30055792 CCTAATCTAACCTAAATTAAT
65 CCTAACCTAACCTAAATTAAC
* * *
30055813 TAAAAA-CCTAAACCTAACCTAAATTAATTTAAAACCCTAAACCTAACCTAAATTAATTTAAAAC
1 TAAAAACCCTAAACCTAACCTAAATTAA-TTAAAAACCTAAATCTAACCTAAATTAATTAAAAAC
* *
30055877 CCTAATCTAACTTAAATT
65 CCTAACCTAACCTAAATT
30055895 TTTTTGGCTT
Statistics
Matches: 386, Mismatches: 27, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
84 3 0.01
85 262 0.68
86 121 0.31
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (85 bp):
TAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCTAAATCTAACCTAAATTAATTAAAAACC
CTAACCTAACCTAAATTAAC
Found at i:30055921 original size:10 final size:10
Alignment explanation
Indices: 30055906--30055930 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30055896 TTTTGGCTTA
30055906 ATAATTTTAC
1 ATAATTTTAC
30055916 ATAATTTTAC
1 ATAATTTTAC
30055926 ATAAT
1 ATAAT
30055931 GTTAGATCTG
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:30061472 original size:51 final size:51
Alignment explanation
Indices: 30061396--30061591 Score: 259
Period size: 51 Copynumber: 3.8 Consensus size: 51
30061386 TTATTGCTTA
* *
30061396 GCCCTTGCGGTTGAGCCCCCGGTGTGGTAGCATAGATCCCACCGTGAAACT
1 GCCCTAGCGGTTGAGCCCCCGGTGTGGAAGCATAGATCCCACCGTGAAACT
* *
30061447 GCCCTTGCGGTTGAGCCCCCGGTGTGGAAGCATAGATCCCACCGCGAAACT
1 GCCCTAGCGGTTGAGCCCCCGGTGTGGAAGCATAGATCCCACCGTGAAACT
* * * *
30061498 GCCCTAGTGGTTGAGTCCCCGGTGTGGAAGCATAGATCCCACCATGAAATT
1 GCCCTAGCGGTTGAGCCCCCGGTGTGGAAGCATAGATCCCACCGTGAAACT
* * * * *
30061549 GGCCTAGTGGTTGAGTCCCCGGAGTGAAAGCAT-GAATCCCACC
1 GCCCTAGCGGTTGAGCCCCCGGTGTGGAAGCATAG-ATCCCACC
30061592 CAGAAACCGC
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 1 0.01
51 132 0.99
ACGTcount: A:0.21, C:0.30, G:0.29, T:0.20
Consensus pattern (51 bp):
GCCCTAGCGGTTGAGCCCCCGGTGTGGAAGCATAGATCCCACCGTGAAACT
Found at i:30067059 original size:8 final size:8
Alignment explanation
Indices: 30067047--30067083 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
30067037 TTTTAAAAAT
30067047 AATTTTTA
1 AATTTTTA
*
30067055 TATTTTTA
1 AATTTTTA
30067063 AA-TTTTA
1 AATTTTTA
30067070 AA-TTTTA
1 AATTTTTA
30067077 AATTTTT
1 AATTTTT
30067084 TAAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 14 0.54
8 12 0.46
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
AATTTTTA
Found at i:30067065 original size:19 final size:19
Alignment explanation
Indices: 30067010--30067065 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
30067000 ATTATTATAC
* *
30067010 TTTTTAATAATTTT-AATGA
1 TTTTT-ATATTTTTAAATAA
30067029 TTTTTA-ATTTTTAAAAATAA
1 TTTTTATATTTTT--AAATAA
30067049 TTTTTATATTTTTAAAT
1 TTTTTATATTTTTAAAT
30067066 TTTAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 5 0.16
18 1 0.03
19 9 0.29
20 10 0.32
21 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTTATATTTTTAAATAA
Found at i:30067068 original size:28 final size:29
Alignment explanation
Indices: 30067015--30067071 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
30067005 TATACTTTTT
*
30067015 AATAATTTTAATGATTTTTAATTTTTAAA
1 AATAATTTTAATGATTTTTAAATTTTAAA
*
30067044 AATAATTTTTAT-ATTTTTAAATTTTAAA
1 AATAATTTTAATGATTTTTAAATTTTAAA
30067072 TTTTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
AATAATTTTAATGATTTTTAAATTTTAAA
Found at i:30067095 original size:45 final size:47
Alignment explanation
Indices: 30066997--30067096 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 47
30066987 AAAAATTATT
*
30066997 ATAATTATTATACTTTTTAATAATTTTAATGATTTTTAATTTTTAAAA
1 ATAATTATTATACTTTTTAATAATTTTAA-GATTTTAAATTTTTAAAA
*
30067045 ATAATTTTTATA-TTTTT-A-AATTTTAA-ATTTTAAATTTTTTAAAA
1 ATAATTATTATACTTTTTAATAATTTTAAGATTTTAAA-TTTTTAAAA
30067089 ATTAATTA
1 A-TAATTA
30067097 AATGCTGACA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
43 7 0.15
44 10 0.21
45 13 0.28
46 1 0.02
47 5 0.11
48 11 0.23
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (47 bp):
ATAATTATTATACTTTTTAATAATTTTAAGATTTTAAATTTTTAAAA
Found at i:30067682 original size:19 final size:20
Alignment explanation
Indices: 30067654--30067692 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
30067644 TAATATATAT
*
30067654 AAATACATAA-ATATTTTAA
1 AAATACATAATAAATTTTAA
*
30067673 AAATATATAATAAATTTTAA
1 AAATACATAATAAATTTTAA
30067693 TTTTATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATACATAATAAATTTTAA
Found at i:30067861 original size:22 final size:22
Alignment explanation
Indices: 30067821--30067881 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
30067811 CCTCCCATCC
* * *
30067821 CTGTCCCTGTCCCTCTCCCCTA
1 CTGTCTCTCTCCCTCTCCCCGA
30067843 CTGTCTCATCTCCCT-TCCCCGA
1 CTGTCTC-TCTCCCTCTCCCCGA
*
30067865 TTGTCTCTCTCCCTCTC
1 CTGTCTCTCTCCCTCTC
30067882 TGCTGGTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.21
22 20 0.61
23 6 0.18
ACGTcount: A:0.05, C:0.51, G:0.08, T:0.36
Consensus pattern (22 bp):
CTGTCTCTCTCCCTCTCCCCGA
Found at i:30067877 original size:21 final size:23
Alignment explanation
Indices: 30067830--30067881 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
30067820 CCTGTCCCTG
*
30067830 TCCCTCTCCCCTACTGTCTCATC
1 TCCCTCTCCCCGACTGTCTCATC
*
30067853 TCCCT-TCCCCGATTGTCTC-TC
1 TCCCTCTCCCCGACTGTCTCATC
30067874 TCCCTCTC
1 TCCCTCTC
30067882 TGCTGGTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 7 0.27
22 14 0.54
23 5 0.19
ACGTcount: A:0.06, C:0.52, G:0.06, T:0.37
Consensus pattern (23 bp):
TCCCTCTCCCCGACTGTCTCATC
Found at i:30074587 original size:7 final size:7
Alignment explanation
Indices: 30074575--30074599 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30074565 AGTCGATTGA
30074575 TATTTAG
1 TATTTAG
30074582 TATTTAG
1 TATTTAG
30074589 TATTTAG
1 TATTTAG
30074596 TATT
1 TATT
30074600 ATGTATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:30075775 original size:30 final size:25
Alignment explanation
Indices: 30075712--30075759 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
30075702 TATTTTGATA
30075712 TTATTTGATGTAATAAAATAAAAGT
1 TTATTTGATGTAATAAAATAAAAGT
30075737 TTATTTGATGTAATAAAATAAAA
1 TTATTTGATGTAATAAAATAAAA
30075760 AATTAGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAAAAGT
Found at i:30075805 original size:25 final size:25
Alignment explanation
Indices: 30075777--30075824 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
30075767 TATTTTGATA
*
30075777 TTATTTGATGTATTAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
30075802 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
30075825 ATTTTTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:30075841 original size:9 final size:9
Alignment explanation
Indices: 30075827--30075872 Score: 85
Period size: 9 Copynumber: 5.2 Consensus size: 9
30075817 AAATAGAAAT
30075827 TTTTGAATA
1 TTTTGAATA
30075836 TTTTGAATA
1 TTTTGAATA
30075845 TTTTGAATA
1 TTTTGAATA
30075854 TTTTGAATA
1 TTTTGAATA
30075863 TTTTG-ATA
1 TTTTGAATA
30075871 TT
1 TT
30075873 ATTTGAGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 5 0.14
9 32 0.86
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (9 bp):
TTTTGAATA
Found at i:30075847 original size:65 final size:66
Alignment explanation
Indices: 30075690--30075846 Score: 226
Period size: 65 Copynumber: 2.3 Consensus size: 66
30075680 TTCTTTGTAC
30075690 AAATATTTTGAATATTTTGATATTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAA
1 AAAT-TTTTGAATATTTTGATATTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAA
30075755 TA
65 TA
** * * * *
30075757 AAAAATTAG-TTATTTTGATATTATTTGATGTATTAAAATAGAAGTTTATTTGATGTAATAAAAT
1 AAATTTTTGAATATTTTGATATTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAAT
30075821 A
66 A
30075822 GAAATTTTTGAATATTTTGAATATT
1 -AAATTTTTGAATATTTTG-ATATT
30075847 TTGAATATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 53 0.69
66 9 0.12
67 10 0.13
68 5 0.06
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (66 bp):
AAATTTTTGAATATTTTGATATTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAAT
A
Found at i:30075934 original size:23 final size:23
Alignment explanation
Indices: 30075903--30077157 Score: 1267
Period size: 23 Copynumber: 56.2 Consensus size: 23
30075893 ATTAATACCC
* *
30075903 TTAACTTAAAAATCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30075926 TTAAATTAAAAACTCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
* *
30075947 TTAACTTAAAAACACTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
30075970 TTAAATT-AAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
30075992 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
30076013 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
30076036 TTAAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
*
30076058 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
30076081 TTAAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
*
30076103 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30076126 TTAACTTAAAAACCTTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
30076149 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30076172 TTTAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
** *
30076194 TTATCTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30076217 TTTAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* *
30076239 TTAACTTTAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
30076262 TTAAATT-AAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
30076284 TTAAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* *
30076306 TTAACTTTAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
** *
30076329 TTAAATT-AAAATTCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
* *
30076349 TTAACTTTAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30076372 TTAAATTAAAAACTCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
30076393 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30076416 TTAAATTAAAAACCTTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
30076437 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
30076460 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
30076483 TTTAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* * *
30076506 TTTAATTAAAAATCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
30076527 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
30076550 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
30076571 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
30076594 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
30076617 TTAACTT-AAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30076639 TTAACTTAAAAACCTTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
30076662 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30076685 TTAACTTAAAAACCTTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
30076708 TTAAATTAAAAACGCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30076731 TTTAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* *
30076753 TTAACTTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
* *
30076774 TTAACTTAAAAACCCTAACTTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30076797 TTTAATT-AAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* *
30076818 TTAACTTTAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30076841 TTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
30076864 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
30076887 -TAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
30076909 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30076932 TTAAATTAAAAACCTTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* * *
30076954 TTAACTTAAAAACTCTAAACTAA
1 TTAAATTAAAAACCCTAACCTAA
*
30076977 TTTAATTAAAAACCCTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
* **
30077001 --AACTTAAAAACCCTAACC-CG
1 TTAAATTAAAAACCCTAACCTAA
* *
30077021 TT-ACTTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
* * ***
30077041 TTAACTTAAAAACCATAACCCCC
1 TTAAATTAAAAACCCTAACCTAA
* *
30077064 TTAACTTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* *
30077086 TTAACTTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
* * *
30077107 TTAACTTTAAAACCCTAAACTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
30077130 TTTAATTAAAAACCCTAAACTAAA
1 TTAAATTAAAAACCCTAACCT-AA
30077154 TTAA
1 TTAA
30077158 TAATTTTACT
Statistics
Matches: 1045, Mismatches: 131, Indels: 111
0.81 0.10 0.09
Matches are distributed among these distances:
20 10 0.01
21 233 0.22
22 237 0.23
23 523 0.50
24 40 0.04
25 2 0.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
TTAAATTAAAAACCCTAACCTAA
Found at i:30076072 original size:45 final size:45
Alignment explanation
Indices: 30075903--30077157 Score: 1223
Period size: 45 Copynumber: 28.1 Consensus size: 45
30075893 ATTAATACCC
* * * *
30075903 TTAACTTAAAAATCCTAACCTAATTAAATTAAAAACTCTAACC--C
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
* *
30075947 TTAACTTAAAAACACTAACCTAATTAAATT-AAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
* *
30075992 TTAAATTAAAAACCCTAACC-CTTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCAATTAACTTAAAAACCCTAACCTAA
* *
30076036 TTAAATTAAAAACCCTAAACC-CTTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCT-AACCAATTAACTTAAAAACCCTAACCTAA
* *
30076081 TTAAATTAAAAACCCTAAACC-CTTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCT-AACCAATTAACTTAAAAACCCTAACCTAA
* *
30076126 TTAACTTAAAAACCTTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
* * *
30076172 TTTAA-TTAAAAACCCTAAACC-CTTATCTTAAAAACTCTAACCTAA
1 -TTAACTTAAAAACCCT-AACCAATTAACTTAAAAACCCTAACCTAA
* *
30076217 TTTAA-TTAAAAACCCTAAACC-CTTAACTTTAAAACCCTAACCTAA
1 -TTAACTTAAAAACCCT-AACCAATTAACTTAAAAACCCTAACCTAA
* * *
30076262 TTAAATT-AAAACCCTAACCTAATTAAATTAAAAACCCTAAACC--C
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCT-AACCTAA
* * ** *
30076306 TTAACTTTAAAACCCTAACCTAATTAAATT-AAAATTCTAACC--C
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
* * * *
30076349 TTAACTTTAAAACCCTAACCTAATTAAATTAAAAACTCTAACC--C
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
* * *
30076393 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCTTAACC--C
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
*
30076437 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
* *
30076483 TTTAA-TTAAAAACCCTAACCTAATTTAA-TTAAAAATCCTAACC--C
1 -TTAACTTAAAAACCCTAACC-AA-TTAACTTAAAAACCCTAACCTAA
* *
30076527 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
*
30076571 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
*
30076617 TTAACTT-AAAACCCTAACCTAATTAACTTAAAAACCTTAACCTAA
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
* *
30076662 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCTTAACCTAA
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
* * *
30076708 TTAAATTAAAAACGCTAACCTAATTTAA-TTAAAAACCCTAAACC--C
1 TTAACTTAAAAACCCTAACC-AA-TTAACTTAAAAACCCT-AACCTAA
* *
30076753 TTAACTTAAAAACCCTAACC-CTTAACTTAAAAACCCTAACTTAA
1 TTAACTTAAAAACCCTAACCAATTAACTTAAAAACCCTAACCTAA
* *
30076797 TTTAA-TT-AAAACCCTAAACC-CTTAACTTTAAAACCCTAACCTAA
1 -TTAACTTAAAAACCCT-AACCAATTAACTTAAAAACCCTAACCTAA
* *
30076841 TTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
*
30076887 -TAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTAA
* * * * *
30076932 TTAAATTAAAAACCTTAAACC-CTTAACTTAAAAACTCTAAACTAA
1 TTAACTTAAAAACCCT-AACCAATTAACTTAAAAACCCTAACCTAA
* * **
30076977 TTTAA-TTAAAAACCCTAAACC-CTAAACTTAAAAACCCTAACC-CG
1 -TTAACTTAAAAACCCT-AACCAATTAACTTAAAAACCCTAACCTAA
* * ***
30077021 TT-ACTTAAAAACCCTAACC-CTTAACTTAAAAACCATAACCCCC
1 TTAACTTAAAAACCCTAACCAATTAACTTAAAAACCCTAACCTAA
* *
30077064 TTAACTTAAAAACCCTAAACC-CTTAACTTAAAAACCCTAACC--C
1 TTAACTTAAAAACCCT-AACCAATTAACTTAAAAACCCTAACCTAA
* * *
30077107 TTAACTTTAAAACCCTAAACTAATTTAA-TTAAAAACCCTAAACTAAA
1 TTAACTTAAAAACCCT-AACCAA-TTAACTTAAAAACCCTAACCT-AA
30077154 TTAA
1 TTAA
30077158 TAATTTTACT
Statistics
Matches: 1089, Mismatches: 76, Indels: 89
0.87 0.06 0.07
Matches are distributed among these distances:
42 31 0.03
43 123 0.11
44 319 0.29
45 401 0.37
46 183 0.17
47 32 0.03
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (45 bp):
TTAACTTAAAAACCCTAACCAATTAACTTAAAAACCCTAACCTAA
Found at i:30077277 original size:54 final size:54
Alignment explanation
Indices: 30077213--30077509 Score: 179
Period size: 54 Copynumber: 5.2 Consensus size: 54
30077203 TTGGTACTAA
30077213 CAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTAT
* * * * ** * ** * *
30077267 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-ATT-TTGACTGGTACTAA
1 CAATTAATAATTTTATA-T-A-AT-TTGATA-ATTT-TACTAATCATTAAT-AC-AAT-TTAT
30077328 CAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTAT
* * * * ** ** * ** * *
30077382 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTA-ACTGGTACTAA
1 CAATTAATAATTTTATA-T-A-AT-TTGATA-ATTT-TACTAATCATTAATAC-AAT-TTAT
*
30077443 CAATTAATAATTTTATATAATTTGA-AATTTTTACTAACCATTAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTAT
30077497 CAATTAATAATTT
1 CAATTAATAATTT
30077510 CACAAACTTA
Statistics
Matches: 173, Mismatches: 49, Indels: 42
0.66 0.19 0.16
Matches are distributed among these distances:
54 49 0.28
55 15 0.09
56 17 0.10
57 11 0.06
58 13 0.08
59 17 0.10
60 15 0.09
61 36 0.21
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (54 bp):
CAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTAT
Found at i:30077342 original size:61 final size:60
Alignment explanation
Indices: 30077152--30077457 Score: 194
Period size: 54 Copynumber: 5.2 Consensus size: 60
30077142 CCCTAAACTA
* * *
30077152 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCTTGGTACTAAC
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-ATTTTAC-TGGTACTAAC
* * * * ** * ** * *
30077214 AATTAATAATTTTATA-T-A-AT-TTGATA-ATTT-TACTAATCATTAATAC-AAT-TTATC
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-ATT-TTACTGGTACTAAC
30077268 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAAC
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTT-ACTGGTACTAAC
* * * * ** * ** * *
30077329 AATTAATAATTTTATA-T-A-AT-TTGATA-ATTT-TACTAATCATTAATAC-AAT-TTATC
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-ATT-TTACTGGTACTAAC
*
30077383 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAACTGGTACTAAC
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTT-ACTGGTACTAAC
30077444 AATTAATAATTTTA
1 AATTAATAATTTTA
30077458 TATAATTTGA
Statistics
Matches: 174, Mismatches: 49, Indels: 43
0.65 0.18 0.16
Matches are distributed among these distances:
54 36 0.21
55 8 0.05
56 17 0.10
57 15 0.09
58 16 0.09
59 20 0.11
60 12 0.07
61 36 0.21
62 14 0.08
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (60 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTTACTGGTACTAAC
Found at i:30077360 original size:115 final size:115
Alignment explanation
Indices: 30077152--30077509 Score: 637
Period size: 115 Copynumber: 3.1 Consensus size: 115
30077142 CCCTAAACTA
* **
30077152 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCTTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAAC-TGGTACTAACAAT
30077217 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
* *
30077268 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAACTGGTACTAACAATT
30077333 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
30077383 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAACTGGTACTAACAATT
*
30077448 AATAATTTTATATAATTTGA-AATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
30077498 AATTAATAATTT
1 AATTAATAATTT
30077510 CACAAACTTA
Statistics
Matches: 234, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
114 2 0.01
115 185 0.79
116 47 0.20
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (115 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAACTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
Found at i:30085042 original size:54 final size:54
Alignment explanation
Indices: 30084954--30085058 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
30084944 TGGGACACAC
* *
30084954 GGCCGTGTCTCAGTCTGTATAACTCACTGACTTGAGACACACAATCGTGTCGTA
1 GGCCATGTCTCAGGCTGTATAACTCACTGACTTGAGACACACAATCGTGTCGTA
* * * * *
30085008 GGCCATGTGTCAGGCTGTGTAACTCTCTGACTTGATACACACGATCGTGTC
1 GGCCATGTCTCAGGCTGTATAACTCACTGACTTGAGACACACAATCGTGTC
30085059 ACAGACCGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.29
Consensus pattern (54 bp):
GGCCATGTCTCAGGCTGTATAACTCACTGACTTGAGACACACAATCGTGTCGTA
Found at i:30097239 original size:16 final size:18
Alignment explanation
Indices: 30097201--30097241 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30097191 GAATTTTATG
*
30097201 AAATTATATATCACTATT
1 AAATTATATAACACTATT
30097219 AAATTATATAACA-TATT
1 AAATTATATAACACTATT
30097236 -AATTAT
1 AAATTAT
30097242 TTTAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 4 0.18
18 12 0.55
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTATATAACACTATT
Found at i:30097329 original size:90 final size:91
Alignment explanation
Indices: 30097070--30097367 Score: 492
Period size: 91 Copynumber: 3.3 Consensus size: 91
30097060 ATGATTTTAG
* *
30097070 TAAATTCATATAAGAATATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
30097135 ATTTAATATTAATTATTTTAAATTATA
65 ATTTAATATTAATTATTTTAAATTATA
*
30097162 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
30097227 -TAACATATTAATTATTTTAAATTATA
66 TTTA-ATATTAATTATTTTAAATTATA
* *
30097253 TAAATTCATATAA-AAAAATTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
30097317 TTTAATAATAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
30097343 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
30097368 GTTATAATTA
Statistics
Matches: 192, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
90 83 0.43
91 93 0.48
92 16 0.08
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:30097406 original size:17 final size:17
Alignment explanation
Indices: 30097384--30097436 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
30097374 ATTATTTTAA
30097384 ATTTTATTAAATCATAT
1 ATTTTATTAAATCATAT
30097401 ATTTTAATTAAA--ATAT
1 ATTTT-ATTAAATCATAT
*
30097417 ATTTTA-TAGTATCATAT
1 ATTTTATTA-AATCATAT
30097434 ATT
1 ATT
30097437 ATGGTTTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 2 0.06
15 2 0.06
16 9 0.29
17 12 0.39
18 6 0.19
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTTATTAAATCATAT
Found at i:30097418 original size:16 final size:17
Alignment explanation
Indices: 30097384--30097422 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
30097374 ATTATTTTAA
30097384 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAA-CATAT
30097401 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAACATAT
30097417 ATTTTA
1 ATTTTA
30097423 TAGTATCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTAATTAAACATAT
Found at i:30097482 original size:61 final size:61
Alignment explanation
Indices: 30097417--30097604 Score: 176
Period size: 61 Copynumber: 3.1 Consensus size: 61
30097407 ATTAAAATAT
**
30097417 ATTTTATAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
1 ATTTTATAGTATCATATATTATAATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
* * * * *
30097478 ATTTTATTAAGT-T-ATATATTTTAATTAT-AATATATTTA-ATAATAATTATGTTAA--ATT-A
1 ATTTTA-T-AGTATCATATATTATAATT-TGAGTAAATTCATATAAGAA-TA--TTAATTATTAA
*
30097536 -T
60 GA
* *
30097537 ATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGA
1 ATTTTATAGTATCATATATTATAATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
30097598 ATTTTAT
1 ATTTTAT
30097605 TAAATTATAT
Statistics
Matches: 97, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
57 6 0.06
58 3 0.03
59 29 0.30
60 14 0.14
61 35 0.36
62 3 0.03
63 7 0.07
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (61 bp):
ATTTTATAGTATCATATATTATAATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
Found at i:30097512 original size:16 final size:16
Alignment explanation
Indices: 30097491--30097537 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
30097481 TTATTAAGTT
30097491 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
30097507 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
30097522 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
30097538 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:30097517 original size:15 final size:15
Alignment explanation
Indices: 30097491--30097537 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
30097481 TTATTAAGTT
30097491 ATATATTTTAATTATA
1 ATATA-TTTAATTATA
*
30097507 ATATATTTAATAATA
1 ATATATTTAATTATA
30097522 AT-TATGTTAAATTATA
1 ATATAT-TT-AATTATA
30097538 TTTTATAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 3 0.11
15 13 0.48
16 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:30097538 original size:120 final size:121
Alignment explanation
Indices: 30097408--30097654 Score: 442
Period size: 120 Copynumber: 2.0 Consensus size: 121
30097398 TATATTTTAA
* *
30097408 TTAAAATATATTTTATAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTAT
1 TTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTAT
*
30097473 TAAGAATTTTATTAAGTTATATATTTTAATTATAATATATTTAATAATAATTATG-
66 TAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
* *
30097528 TTAAATTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTAT
1 TTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTAT
30097593 TAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
66 TAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
30097649 TTAAAT
1 TTAAAT
30097655 ATGATTAAAT
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
120 115 0.95
121 6 0.05
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (121 bp):
TTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTAT
TAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
Found at i:30097632 original size:16 final size:16
Alignment explanation
Indices: 30097611--30097652 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30097601 TTATTAAATT
*
30097611 ATATATTTTAATTATA
1 ATATATTTTAATAATA
30097627 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
30097642 AT-TATGTTTAA
1 ATATAT-TTTAA
30097653 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:30097637 original size:15 final size:15
Alignment explanation
Indices: 30097602--30097643 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30097592 TTAAGAATTT
*
30097602 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30097616 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30097630 TATTTAATAATAAT
1 TATTTAATTATAAT
30097644 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30101884 original size:23 final size:23
Alignment explanation
Indices: 30101858--30101976 Score: 139
Period size: 23 Copynumber: 5.2 Consensus size: 23
30101848 AGTGCCACAT
30101858 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
30101881 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
30101904 TGAAATATAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
** * * *
30101927 TGATATGTAGTTGTAGTTACAAC
1 TGATATGTAGCCGAAGCTACCAC
* * *
30101950 TGAAATGTAGTCGAAACTACCAC
1 TGATATGTAGCCGAAGCTACCAC
30101973 TGAT
1 TGAT
30101977 CAATAACACT
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:30101932 original size:46 final size:46
Alignment explanation
Indices: 30101865--30101976 Score: 161
Period size: 46 Copynumber: 2.4 Consensus size: 46
30101855 CATTGATATG
*
30101865 TAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATA
1 TAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACAACTGAAATA
** * *
30101911 TAGCCGAAGCTACCACTGATATGTAGTTGTAGTTACAACTGAAATG
1 TAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACAACTGAAATA
* *
30101957 TAGTCGAAACTACCACTGAT
1 TAGCCGAAGCTACCACTGAT
30101977 CAATAACACT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (46 bp):
TAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACAACTGAAATA
Found at i:30104354 original size:25 final size:27
Alignment explanation
Indices: 30104301--30104364 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
30104291 TCTCTTACTC
* *
30104301 TTTATATTTATATTTTTTTTATTTCAT
1 TTTATATTTATATTTTTTTAAATTCAT
*
30104328 TTTAT-TTTA-ATTTTTTTAAATTGAT
1 TTTATATTTATATTTTTTTAAATTCAT
* *
30104353 TTAATAATTATA
1 TTTATATTTATA
30104365 AATATATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 17 0.57
26 7 0.23
27 6 0.20
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTATATTTATATTTTTTTAAATTCAT
Found at i:30108869 original size:18 final size:19
Alignment explanation
Indices: 30108820--30108870 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
30108810 CATTTGTTTG
30108820 TATAAATTATAATTGTATAAT
1 TATAAA-TAT-ATTGTATAAT
* * *
30108841 TTTAAAAATATTG-ATTAT
1 TATAAATATATTGTATAAT
30108859 TATAAATATATT
1 TATAAATATATT
30108871 AGTAAGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 14 0.56
19 4 0.16
20 2 0.08
21 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
TATAAATATATTGTATAAT
Found at i:30115844 original size:42 final size:41
Alignment explanation
Indices: 30115795--30115918 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 41
30115785 ATGCTATCAT
* *
30115795 GTATCGATACCAATAGCCCAGCTATAGTCTTACACGAATCTC
1 GTATCGATGCCAATAGCCCAGC-ATGGTCTTACACGAATCTC
* * * *
30115837 GTATCGATGCCAATATCCCAAACATGGTCTTACATGAATATC
1 GTATCGATGCCAATAGCCC-AGCATGGTCTTACACGAATCTC
* *
30115879 ATATCGATGTCAAT-GTCCCAGACATGGTCTTACACGAATC
1 GTATCGATGCCAATAG-CCCAG-CATGGTCTTACACGAATC
30115919 ACATCTTAGT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 64 0.96
43 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (41 bp):
GTATCGATGCCAATAGCCCAGCATGGTCTTACACGAATCTC
Found at i:30120712 original size:33 final size:33
Alignment explanation
Indices: 30120650--30120712 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
30120640 TTTCATGATC
* *
30120650 CATTTCAATTCAATTCCATTTTCATATCATTTT
1 CATTTCAATTCAATTCCATGTTCAAATCATTTT
*
30120683 CATTTCAATTTC-ATTTCATGTTCAAATCAT
1 CATTTCAA-TTCAATTCCATGTTCAAATCAT
30120713 ATATCCCCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.49
Consensus pattern (33 bp):
CATTTCAATTCAATTCCATGTTCAAATCATTTT
Found at i:30120972 original size:61 final size:61
Alignment explanation
Indices: 30120907--30121053 Score: 285
Period size: 61 Copynumber: 2.4 Consensus size: 61
30120897 CATCCAAAAC
30120907 TCATAAAAATAAAATAAAATAAATATAACTAGTCTTAGTAAACTAAATATTCTAAAGCTAT
1 TCATAAAAATAAAATAAAATAAATATAACTAGTCTTAGTAAACTAAATATTCTAAAGCTAT
30120968 TCATAAAAATAAAATAAAATAAATATAACTAGTCTTAGTAAACTAAATATTCTAAAGCTAT
1 TCATAAAAATAAAATAAAATAAATATAACTAGTCTTAGTAAACTAAATATTCTAAAGCTAT
30121029 TCATAAAAATAAAATAAAATGAAAT
1 TCATAAAAATAAAATAAAAT-AAAT
30121054 GAAATAAGAT
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
61 81 0.95
62 4 0.05
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (61 bp):
TCATAAAAATAAAATAAAATAAATATAACTAGTCTTAGTAAACTAAATATTCTAAAGCTAT
Found at i:30120982 original size:28 final size:28
Alignment explanation
Indices: 30120951--30121044 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 28
30120941 TTAGTAAACT
30120951 AAATATTCTAAAGCTATTCATAAAAATA
1 AAATATTCTAAAGCTATTCATAAAAATA
** * * *
30120979 AAATAAAATAAATATAA-CTAGTCTTAGTAAACTA
1 AAAT---AT-TCTA-AAGCTATTCATA--AAAATA
30121013 -AATATTCTAAAGCTATTCATAAAAATA
1 AAATATTCTAAAGCTATTCATAAAAATA
30121040 AAATA
1 AAATA
30121045 AAATGAAATG
Statistics
Matches: 47, Mismatches: 10, Indels: 18
0.63 0.13 0.24
Matches are distributed among these distances:
27 5 0.11
28 10 0.21
29 9 0.19
30 2 0.04
31 2 0.04
32 9 0.19
33 5 0.11
34 5 0.11
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (28 bp):
AAATATTCTAAAGCTATTCATAAAAATA
Found at i:30121885 original size:18 final size:18
Alignment explanation
Indices: 30121862--30121898 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30121852 ATTATATATT
*
30121862 ATAATATTAATTATTAAA
1 ATAATATTAATTAATAAA
*
30121880 ATAATATTATTTAATAAA
1 ATAATATTAATTAATAAA
30121898 A
1 A
30121899 AAGGTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAATATTAATTAATAAA
Found at i:30124481 original size:21 final size:21
Alignment explanation
Indices: 30124452--30124558 Score: 123
Period size: 21 Copynumber: 5.2 Consensus size: 21
30124442 TTTTAGTTTT
*
30124452 TGTTTAGCTCTTTCGAGCTTC
1 TGTTCAGCTCTTTCGAGCTTC
*
30124473 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTTCGAGCTTC
* *
30124494 TGTTCAACTCTTAT-GAGTTTC
1 TGTTCAGCTCTT-TCGAGCTTC
*
30124515 TGTTGAGCTCTTAT-GAGCTTC
1 TGTTCAGCTCTT-TCGAGCTTC
30124536 TGTTCAG--CTTTCGAGCTTC
1 TGTTCAGCTCTTTCGAGCTTC
30124555 TGTT
1 TGTT
30124559 GGCATGTTCA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
18 1 0.01
19 14 0.19
21 60 0.80
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.45
Consensus pattern (21 bp):
TGTTCAGCTCTTTCGAGCTTC
Found at i:30144082 original size:19 final size:20
Alignment explanation
Indices: 30144033--30144087 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
30144023 TTTTCTTAAT
*
30144033 AATAATTCTAAAAA-AAGTAA
1 AATAATT-TAAAAATAAATAA
*
30144053 AAGAATATTAAAAATAAAT-A
1 AATAAT-TTAAAAATAAATAA
30144073 AATAATTTAAAAATA
1 AATAATTTAAAAATA
30144088 TATTAATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 9 0.30
20 17 0.57
21 4 0.13
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AATAATTTAAAAATAAATAA
Found at i:30144951 original size:31 final size:31
Alignment explanation
Indices: 30144913--30145040 Score: 104
Period size: 31 Copynumber: 4.2 Consensus size: 31
30144903 AACTACACCA
*
30144913 TTAGTCACTAAACTATGT-GTAAGTTTTCATT
1 TTAGTCACTAAACTAT-TAGAAAGTTTTCATT
* * ** * *
30144944 TTGGTCACTTAACTA--A-AAAAATTACAAT
1 TTAGTCACTAAACTATTAGAAAGTTTTCATT
* *
30144972 TTGGTCACTAAACTATTCGAAAGTTTTCATT
1 TTAGTCACTAAACTATTAGAAAGTTTTCATT
* *
30145003 TAAGTCACTAAACTATTTAG-AAGTTTTTATT
1 TTAGTCACTAAACTA-TTAGAAAGTTTTCATT
30145034 TTAGTCA
1 TTAGTCA
30145041 TTAGATTATT
Statistics
Matches: 74, Mismatches: 18, Indels: 10
0.73 0.18 0.10
Matches are distributed among these distances:
28 21 0.28
31 50 0.68
32 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.41
Consensus pattern (31 bp):
TTAGTCACTAAACTATTAGAAAGTTTTCATT
Found at i:30146165 original size:18 final size:18
Alignment explanation
Indices: 30146109--30146165 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 18
30146099 GTGAATGATG
*
30146109 ATGAGAGAAAAACAAAGAG
1 ATGAGAGAAAAACAAAG-T
30146128 ATAGATGAAGAAAAAC-AAGT
1 AT-GA-G-AGAAAAACAAAGT
30146148 ATGAGAGAAAAACAAAGT
1 ATGAGAGAAAAACAAAGT
30146166 GAAGGAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 4 0.12
20 4 0.12
21 4 0.12
22 8 0.24
ACGTcount: A:0.61, C:0.05, G:0.23, T:0.11
Consensus pattern (18 bp):
ATGAGAGAAAAACAAAGT
Found at i:30147686 original size:165 final size:165
Alignment explanation
Indices: 30147414--30147743 Score: 606
Period size: 165 Copynumber: 2.0 Consensus size: 165
30147404 TACCATTAAG
30147414 GAATGATTCAATATACGAACTTACTTGAACTCATAACAACTTCTAACACGATTAGACCACTATTC
1 GAATGATTCAATATACGAACTTACTTGAACTCATAACAACTTCTAACACGATTAGACCACTATTC
* *
30147479 CGCTACTTTGACTTTTTCGTGATTTGTGTCCGTTCGAGTTGTTTCTTGATCTAGATAAATAATTT
66 CGCTACTTTGACTTTTTCGTGATTTGTGTCCATTCAAGTTGTTTCTTGATCTAGATAAATAATTT
* *
30147544 TATTCAATTAAACTCATTCCAGCATTTAAAATAAT
131 TATTCAACTAAACTCATTCCAGCATATAAAATAAT
* *
30147579 GAATGATTCAATATACGAACTTACTTTAACTCATAACAACTTCTGACACGATTAGACCACTATTC
1 GAATGATTCAATATACGAACTTACTTGAACTCATAACAACTTCTAACACGATTAGACCACTATTC
30147644 CGCTACTTTGACTTTTTCGTGATTTGTGTCCATTCAAGTTGTTTCTTGATCTAGATAAATAATTT
66 CGCTACTTTGACTTTTTCGTGATTTGTGTCCATTCAAGTTGTTTCTTGATCTAGATAAATAATTT
30147709 TATTCAACTAAACTCATTCCAGCATATAAAATAAT
131 TATTCAACTAAACTCATTCCAGCATATAAAATAAT
30147744 CAATTTAACT
Statistics
Matches: 159, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 159 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (165 bp):
GAATGATTCAATATACGAACTTACTTGAACTCATAACAACTTCTAACACGATTAGACCACTATTC
CGCTACTTTGACTTTTTCGTGATTTGTGTCCATTCAAGTTGTTTCTTGATCTAGATAAATAATTT
TATTCAACTAAACTCATTCCAGCATATAAAATAAT
Found at i:30149728 original size:19 final size:20
Alignment explanation
Indices: 30149704--30149741 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30149694 CACTTATCTA
30149704 ACTTTA-AGACAATTTAAAC
1 ACTTTAGAGACAATTTAAAC
*
30149723 ACTTTAGAGAGAATTTAAA
1 ACTTTAGAGACAATTTAAA
30149742 ATCATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (20 bp):
ACTTTAGAGACAATTTAAAC
Found at i:30149897 original size:22 final size:22
Alignment explanation
Indices: 30149843--30149885 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
30149833 GGACTTGGGA
30149843 CAGTTGT-TGTGTCACAAGTCCT
1 CAGTTGTGT-TGTCACAAGTCCT
30149865 CAGTTGTGTTGTCACAAGTCC
1 CAGTTGTGTTGTCACAAGTCC
30149886 CTGTTATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (22 bp):
CAGTTGTGTTGTCACAAGTCCT
Found at i:30151386 original size:11 final size:11
Alignment explanation
Indices: 30151370--30151402 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
30151360 TATGTTATTT
30151370 TATAATAAAAA
1 TATAATAAAAA
30151381 TATAATAAATAA
1 TATAATAAA-AA
30151393 -ATAATAAAAA
1 TATAATAAAAA
30151403 GTAAGTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.10
11 17 0.81
12 2 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TATAATAAAAA
Found at i:30154278 original size:2 final size:2
Alignment explanation
Indices: 30154273--30154309 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30154263 ACACACACAA
30154273 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30154310 AGAGCACTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30154804 original size:25 final size:26
Alignment explanation
Indices: 30154776--30154843 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
30154766 TCCATATTTT
* *
30154776 AAATAAAAATATAAAATTAT-GAAAA
1 AAATAAAAATATAAAATAATCCAAAA
* *
30154801 AAATAAAAAAATAAAA-AATCCTAAA
1 AAATAAAAATATAAAATAATCCAAAA
30154826 AAATAAAAATA-AAAATAA
1 AAATAAAAATATAAAATAA
30154844 AAATGATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 6 0.17
25 30 0.83
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.19
Consensus pattern (26 bp):
AAATAAAAATATAAAATAATCCAAAA
Found at i:30155117 original size:17 final size:18
Alignment explanation
Indices: 30155095--30155140 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
30155085 CAAAGCAAAT
30155095 AAATTACTAAAA-ATTA-A
1 AAATTA-TAAAATATTATA
30155112 AAATTA-AAAATATTATA
1 AAATTATAAAATATTATA
30155129 AAATTATAAAAT
1 AAATTATAAAAT
30155141 CAATTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.15
16 4 0.15
17 13 0.50
18 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTATAAAATATTATA
Found at i:30155909 original size:36 final size:36
Alignment explanation
Indices: 30155843--30155914 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
30155833 TGAACTTTGA
* **
30155843 ATTTTTTTAAATATTTTTAATATCATTTTTATTTTT
1 ATTTTTTTAAAAATTTAAAATATCATTTTTATTTTT
*
30155879 ATTTTTTTAAAAATTTAAAAT-TTATATTTTATTTTT
1 ATTTTTTTAAAAATTTAAAATATCAT-TTTTATTTTT
30155915 CAAAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 3 0.10
36 28 0.90
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (36 bp):
ATTTTTTTAAAAATTTAAAATATCATTTTTATTTTT
Found at i:30155931 original size:29 final size:29
Alignment explanation
Indices: 30155861--30155931 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
30155851 AAATATTTTT
* **
30155861 AATATCATTTTTATTTTTATTTTTTTAAA
1 AATATAATTTTTATTTTTATTTTTCAAAA
* **
30155890 AATTTAAAATTTATATTTTATTTTTCAAAA
1 AATATAATTTTTAT-TTTTATTTTTCAAAA
30155920 AATAT-ATTTTTA
1 AATATAATTTTTA
30155932 ATTACTTTGT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
AATATAATTTTTATTTTTATTTTTCAAAA
Found at i:30176829 original size:16 final size:17
Alignment explanation
Indices: 30176798--30176845 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
30176788 AAAGTGATTG
*
30176798 AAAAAAGTACAGAAAAA-
1 AAAAAA-TACAAAAAAAT
*
30176815 AGAAAATACAAAAAAAT
1 AAAAAATACAAAAAAAT
30176832 AAAAAATA-AAAAAA
1 AAAAAATACAAAAAA
30176846 TTATTATGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.08
Consensus pattern (17 bp):
AAAAAATACAAAAAAAT
Found at i:30185388 original size:18 final size:18
Alignment explanation
Indices: 30185367--30185404 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
30185357 TGAATTTTCG
*
30185367 AATTCGAAT-AACTTGAAT
1 AATTCAAATAAAC-TGAAT
30185385 AATTCAAATAAACTGAAT
1 AATTCAAATAAACTGAAT
30185403 AA
1 AA
30185405 ATTATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (18 bp):
AATTCAAATAAACTGAAT
Found at i:30190589 original size:15 final size:15
Alignment explanation
Indices: 30190564--30190599 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
30190554 AAATTAACAA
30190564 TAATATTAATATAAAT
1 TAAT-TTAATATAAAT
*
30190580 TAATTTAATATAATT
1 TAATTTAATATAAAT
30190595 TAATT
1 TAATT
30190600 ATAAAAGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTTAATATAAAT
Found at i:30190755 original size:8 final size:9
Alignment explanation
Indices: 30190728--30190757 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30190718 AAAGCTGTAA
30190728 AAAATTAAT
1 AAAATTAAT
30190737 AAAATTAAT
1 AAAATTAAT
30190746 AAAA-TAAT
1 AAAATTAAT
30190754 AAAA
1 AAAA
30190758 ATAGGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATTAAT
Found at i:30190794 original size:20 final size:20
Alignment explanation
Indices: 30190769--30190807 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30190759 TAGGAATTAC
30190769 AAAAAAAATATAAAAATATG
1 AAAAAAAATATAAAAATATG
* *
30190789 AAAAAATATTTAAAAATAT
1 AAAAAAAATATAAAAATAT
30190808 AGAACCTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAAAAAATATAAAAATATG
Found at i:30195734 original size:14 final size:14
Alignment explanation
Indices: 30195700--30195817 Score: 66
Period size: 13 Copynumber: 8.6 Consensus size: 14
30195690 CGTTTGGGGT
30195700 GGAGGGTACTCGTG
1 GGAGGGTACTCGTG
* *
30195714 AGA-GGTAGTCGTG
1 GGAGGGTACTCGTG
*
30195727 GGAGGGTACTC-TCACA
1 GGAGGGTACTCGT---G
* *
30195743 AGAAGGTA-TCGTG
1 GGAGGGTACTCGTG
** *
30195756 AAAGGGTACTCATG
1 GGAGGGTACTCGTG
* * *
30195770 GGAAGGTACT-ATT
1 GGAGGGTACTCGTG
30195783 GGAGGGTAC-CGTG
1 GGAGGGTACTCGTG
*
30195796 GAAGGGTACTCGTG
1 GGAGGGTACTCGTG
30195810 GGAGGGTA
1 GGAGGGTA
30195818 TCATAGAAGG
Statistics
Matches: 76, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
13 37 0.49
14 30 0.39
15 2 0.03
16 7 0.09
ACGTcount: A:0.25, C:0.13, G:0.42, T:0.21
Consensus pattern (14 bp):
GGAGGGTACTCGTG
Found at i:30195829 original size:40 final size:40
Alignment explanation
Indices: 30195743--30195831 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
30195733 TACTCTCACA
*
30195743 AGAA-GGTATCGTGAAAGGGTACTCATGGGAAGGTACTAT
1 AGAAGGGTACCGTGAAAGGGTACTCATGGGAAGGTACTAT
* * * * *
30195782 TGGAGGGTACCGTGGAAGGGTACTCGTGGGAGGGTA-TCAT
1 AGAAGGGTACCGTGAAAGGGTACTCATGGGAAGGTACT-AT
30195822 AGAAGGGTAC
1 AGAAGGGTAC
30195832 TTGCAAAAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.08
40 37 0.93
ACGTcount: A:0.28, C:0.11, G:0.39, T:0.21
Consensus pattern (40 bp):
AGAAGGGTACCGTGAAAGGGTACTCATGGGAAGGTACTAT
Done.