Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 14 of 54
Found at i:6431429 original size:24 final size:24
Alignment explanation
Indices: 6431402--6431448 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
6431392 CTGTTGCTCT
* *
6431402 TCCTGCTTCTACTGCTGCCCCTCC
1 TCCTACTTCGACTGCTGCCCCTCC
* *
6431426 TCCTACTTCGAGTGTTGCCCCTC
1 TCCTACTTCGACTGCTGCCCCTC
6431449 ATGTTGAGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.06, C:0.45, G:0.15, T:0.34
Consensus pattern (24 bp):
TCCTACTTCGACTGCTGCCCCTCC
Found at i:6431603 original size:24 final size:24
Alignment explanation
Indices: 6431576--6431636 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
6431566 AGATACAGAT
*
6431576 GCAGTCAATGTAGTTGGAGATCCA
1 GCAGTCAATGCAGTTGGAGATCCA
6431600 GCAGTCAATGCAGTTGGAGATCCA
1 GCAGTCAATGCAGTTGGAGATCCA
* *
6431624 GCGGGCAATGCAG
1 GCAGTCAATGCAG
6431637 ATGCAGACGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.20
Consensus pattern (24 bp):
GCAGTCAATGCAGTTGGAGATCCA
Found at i:6433245 original size:26 final size:26
Alignment explanation
Indices: 6433205--6433254 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
6433195 AACATTAATC
*
6433205 TGTATCATATCCATATTATTCTTTAT
1 TGTATCATATACATATTATTCTTTAT
*
6433231 TGTATCATTTACATATTATTCTTT
1 TGTATCATATACATATTATTCTTT
6433255 GTATTCATTC
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:0.26, C:0.14, G:0.04, T:0.56
Consensus pattern (26 bp):
TGTATCATATACATATTATTCTTTAT
Found at i:6435710 original size:23 final size:23
Alignment explanation
Indices: 6435658--6435712 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
6435648 TTCTTATTGA
* *
6435658 ATCGTGTGACTAGATGATATGGG
1 ATCGCGTGACTAGATGATATGGC
* *
6435681 ATCGCGTGACTAGATGATCTTGC
1 ATCGCGTGACTAGATGATATGGC
*
6435704 ATTGCGTGA
1 ATCGCGTGA
6435713 TTCACCTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.31
Consensus pattern (23 bp):
ATCGCGTGACTAGATGATATGGC
Found at i:6441467 original size:111 final size:112
Alignment explanation
Indices: 6441327--6441601 Score: 365
Period size: 111 Copynumber: 2.5 Consensus size: 112
6441317 ACGTAATCCC
* * ***
6441327 AAAAATCTACTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCACGTGCCACCACTCG
1 AAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCAAACGCCACCACTCG
* *
6441392 GGCTACAACAAGTAACGCAATATATAAAAA-TCAGTCATACA-AGCCT
66 CGCTACAACAAGTAACGCAATATATAAAAACT-AGTCACACACAGCCT
* * * *
6441438 AAAAAACTACTAAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCAAACGCCATCATTCT
1 AAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCAAACGCCACCACTCG
* * * *
6441503 CGCTACAACAGGTAATGCAATATATAAAAACTAGTCACGCACTGCCT
66 CGCTACAACAAGTAACGCAATATATAAAAACTAGTCACACACAGCCT
* * *
6441550 AAAAAACTACTGAACAAGAGCCTCAAAGCAACACATGATTTGCACAAGTCAA
1 AAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCAA
6441602 TCACGCACCG
Statistics
Matches: 143, Mismatches: 19, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
111 90 0.63
112 53 0.37
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.18
Consensus pattern (112 bp):
AAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCAAACGCCACCACTCG
CGCTACAACAAGTAACGCAATATATAAAAACTAGTCACACACAGCCT
Found at i:6442267 original size:30 final size:30
Alignment explanation
Indices: 6442231--6442288 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
6442221 ATCTCCTGCT
6442231 AGAATATGTGCAACTGGTCCCTCACACTCA
1 AGAATATGTGCAACTGGTCCCTCACACTCA
6442261 AGAATATGTGCAACTGGTCCCTCACACT
1 AGAATATGTGCAACTGGTCCCTCACACT
6442289 TAAAGGCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (30 bp):
AGAATATGTGCAACTGGTCCCTCACACTCA
Found at i:6442970 original size:48 final size:47
Alignment explanation
Indices: 6442889--6443076 Score: 153
Period size: 48 Copynumber: 3.8 Consensus size: 47
6442879 GTAACGCTTG
**
6442889 TCACGCAACGCT-AACAAATATTCAGTGTCGTAATGCCTATAAAGAAC
1 TCACGCAACGCTCAACAAATATTCAGTCACGTAATGCCTATAAA-AAC
* * * ***
6442936 TCACGCAATGCTCAACAAATATTCAGTCAGGTAATATTCAGTCACGTATTAACTG
1 TCACGCAACGCTCAACAAATATTCAGTCACGT-A-A-T--G-C-C-TATAAAAAC
* *
6442991 TCACGCAACACTCAACATATATTCAGTCACGTAATGCCTATAAAAAAC
1 TCACGCAACGCTCAACAAATATTCAGTCACGTAATGCCTAT-AAAAAC
* * * *
6443039 TCACGCAATGCTTAACAAATATTCAGGCACCTAATGCC
1 TCACGCAACGCTCAACAAATATTCAGTCACGTAATGCC
6443077 AAATAAACAG
Statistics
Matches: 109, Mismatches: 22, Indels: 19
0.73 0.15 0.13
Matches are distributed among these distances:
47 14 0.13
48 51 0.47
49 2 0.02
50 2 0.02
51 1 0.01
52 1 0.01
53 2 0.02
54 2 0.02
55 29 0.27
56 5 0.05
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (47 bp):
TCACGCAACGCTCAACAAATATTCAGTCACGTAATGCCTATAAAAAC
Found at i:6442994 original size:102 final size:103
Alignment explanation
Indices: 6442810--6443073 Score: 318
Period size: 102 Copynumber: 2.6 Consensus size: 103
6442800 AGGTAGCTAA
* * * ** * *
6442810 AGTCACGCAATGCCTACAAATAGGTCACACAATACTCAACAAATATTCAGTCACATAATATTAAG
1 AGTCACGTAATGCCTATAAAAAACTCACGCAATGCTCAACAAATATTCAGTCACATAATATTAAG
* *
6442875 TCACGTAACGCTTGTCACGCAACGCT-AACAAATATTC
66 TCACGTAACACTTGTCACGCAACACTCAACAAATATTC
** * ** *
6442912 AGTGTCGTAATGCCTATAAAGAACTCACGCAATGCTCAACAAATATTCAGTCAGGTAATATTCAG
1 AGTCACGTAATGCCTATAAAAAACTCACGCAATGCTCAACAAATATTCAGTCACATAATATTAAG
*
6442977 TCACGTATTA-AC-TGTCACGCAACACTCAACATATATTC
66 TCACGTA--ACACTTGTCACGCAACACTCAACAAATATTC
* * *
6443015 AGTCACGTAATGCCTATAAAAAACTCACGCAATGCTTAACAAATATTCAGGCACCTAAT
1 AGTCACGTAATGCCTATAAAAAACTCACGCAATGCTCAACAAATATTCAGTCACATAAT
6443074 GCCAAATAAA
Statistics
Matches: 137, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
102 73 0.53
103 63 0.46
104 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.25
Consensus pattern (103 bp):
AGTCACGTAATGCCTATAAAAAACTCACGCAATGCTCAACAAATATTCAGTCACATAATATTAAG
TCACGTAACACTTGTCACGCAACACTCAACAAATATTC
Found at i:6444199 original size:19 final size:19
Alignment explanation
Indices: 6444175--6444225 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
6444165 ATATTTTTAA
*
6444175 TATAAATTAATTATAT-TAT
1 TATAAATT-ATGATATCTAT
6444194 TATAAAATTATGATATCTAT
1 TAT-AAATTATGATATCTAT
6444214 TA-AAATT-TGATA
1 TATAAATTATGATA
6444226 CCTAAAGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 5 0.17
18 5 0.17
19 9 0.31
20 10 0.34
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (19 bp):
TATAAATTATGATATCTAT
Found at i:6444203 original size:20 final size:22
Alignment explanation
Indices: 6444164--6444216 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
6444154 TTAATTTTTA
*
6444164 TATATTTTTAATATAAATTAAT
1 TATATTATTAATATAAATTAAT
6444186 TATATTATT-ATA-AAATT-AT
1 TATATTATTAATATAAATTAAT
*
6444205 GATATCTATTAA
1 TATAT-TATTAA
6444217 AATTTGATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 6 0.22
20 9 0.33
21 4 0.15
22 8 0.30
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATTATTAATATAAATTAAT
Found at i:6445229 original size:15 final size:15
Alignment explanation
Indices: 6445209--6445270 Score: 60
Period size: 14 Copynumber: 4.3 Consensus size: 15
6445199 AACATATAAG
6445209 TAAATAAAATAAAAA
1 TAAATAAAATAAAAA
6445224 TAAAT-AAATAAATAA
1 TAAATAAAATAAA-AA
*
6445239 T-AATAATAAT-AATA
1 TAAATAA-AATAAAAA
*
6445253 TAAATAAAA-AAAAT
1 TAAATAAAATAAAAA
6445267 TAAA
1 TAAA
6445271 AAAGTTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
14 20 0.51
15 16 0.41
16 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATAAAATAAAAA
Found at i:6445709 original size:59 final size:59
Alignment explanation
Indices: 6445609--6445727 Score: 177
Period size: 59 Copynumber: 2.0 Consensus size: 59
6445599 GAACAAATAA
* *
6445609 TCTGTCTAAGATTCCTTTTGGAAGTTGAAAATCTAGGATCCAACACTCCTTTCACTCCC
1 TCTGTCTAAAATTCCTTTTGGAAGTTGAAAATCTAGAATCCAACACTCCTTTCACTCCC
* * *
6445668 TCTGTCTAAAATTCCTTTTGGATGTTGAGACA-CTAGAATCCAACACTCCTTTCATTCCC
1 TCTGTCTAAAATTCCTTTTGGAAGTTGA-AAATCTAGAATCCAACACTCCTTTCACTCCC
6445727 T
1 T
6445728 TTTCTATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 52 0.96
60 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (59 bp):
TCTGTCTAAAATTCCTTTTGGAAGTTGAAAATCTAGAATCCAACACTCCTTTCACTCCC
Found at i:6446593 original size:17 final size:16
Alignment explanation
Indices: 6446560--6446593 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6446550 CTTTAGCCTT
*
6446560 AATTTTTCATAATTTC
1 AATTTTTCATAACTTC
6446576 AATTTTTCATAGACTTC
1 AATTTTTCATA-ACTTC
6446593 A
1 A
6446594 TAATTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTTTTCATAACTTC
Found at i:6448264 original size:80 final size:79
Alignment explanation
Indices: 6448171--6448333 Score: 292
Period size: 80 Copynumber: 2.1 Consensus size: 79
6448161 TAAAATAATT
*
6448171 TATAGTTATAAAATAATTAATGTAGCTAAAGTAGAGAAAAAGTAGGAAATGTAAATATATATATA
1 TATAGTTATAAAATAATTAATGTAGCTAAAGTAGAGAAAAAGTAGGAAATGTAAAAATATATATA
6448236 TATAT-TATACTATA
66 TATATATATA-TATA
6448250 NTATAGTTATAAAATAATTAATGTAGCTAAAGTAGAGAAAAAGTAGGAAATGTAAAAATATATAT
1 -TATAGTTATAAAATAATTAATGTAGCTAAAGTAGAGAAAAAGTAGGAAATGTAAAAATATATAT
6448315 ATATATATATATATA
65 ATATATATATATATA
6448330 TATA
1 TATA
6448334 TAGTCATTAG
Statistics
Matches: 81, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
79 4 0.05
80 73 0.90
81 4 0.05
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.34
Consensus pattern (79 bp):
TATAGTTATAAAATAATTAATGTAGCTAAAGTAGAGAAAAAGTAGGAAATGTAAAAATATATATA
TATATATATATATA
Found at i:6448314 original size:2 final size:2
Alignment explanation
Indices: 6448307--6448335 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6448297 AAATGTAAAA
6448307 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 A
6448336 GTCATTAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6449246 original size:13 final size:13
Alignment explanation
Indices: 6449228--6449258 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6449218 TTAATTTATT
6449228 AATAAAATAAAAA
1 AATAAAATAAAAA
*
6449241 AATAAAATAAACA
1 AATAAAATAAAAA
6449254 AATAA
1 AATAA
6449259 TAATTAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:6450162 original size:27 final size:26
Alignment explanation
Indices: 6450110--6450164 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
6450100 TCGTTGAGAG
*
6450110 AAGGGAAGGTGAAAGGCGGTGAAAGA
1 AAGGGAAGGTGAAAGGCAGTGAAAGA
* * *
6450136 AAGGGATGAGTGAACGGCAGTGGAAGA
1 AAGGGAAG-GTGAAAGGCAGTGAAAGA
6450163 AA
1 AA
6450165 AGGTAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.42, C:0.05, G:0.44, T:0.09
Consensus pattern (26 bp):
AAGGGAAGGTGAAAGGCAGTGAAAGA
Found at i:6453453 original size:23 final size:24
Alignment explanation
Indices: 6453414--6453472 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
6453404 TTGACTTAGT
6453414 TTTA-ATTT-TTTTAATTTATATTA
1 TTTATATTTATTTTAATTTAT-TTA
6453437 -TTATATTTATTTT-ATTTATTTA
1 TTTATATTTATTTTAATTTATTTA
6453459 TTTATATTCTATTT
1 TTTATATT-TATTT
6453473 ATTCATGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 6 0.19
23 17 0.53
24 9 0.28
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTATATTTATTTTAATTTATTTA
Found at i:6453483 original size:23 final size:23
Alignment explanation
Indices: 6453437--6453483 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6453427 ATTTATATTA
* *
6453437 TTATATTTATTTTATTTATTTAT
1 TTATATTTATTTTATTCATGTAT
6453460 TTATATTCTA-TTTATTCATGTAT
1 TTATATT-TATTTTATTCATGTAT
6453483 T
1 T
6453484 CTAAATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (23 bp):
TTATATTTATTTTATTCATGTAT
Found at i:6468213 original size:46 final size:46
Alignment explanation
Indices: 6468146--6468234 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
6468136 ACAAATCTTT
* *
6468146 CTTCAACAACGAAACTCTTGTTAGTCACATAATCAGCTACTCTTGC
1 CTTCAACAACGAAACTCTTGTTAGCCACATAATCAACTACTCTTGC
* *
6468192 CTTCAACAATGAAACTCTTGTTAGCCATATAATCAACTACTCT
1 CTTCAACAACGAAACTCTTGTTAGCCACATAATCAACTACTCT
6468235 GTTGCTTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (46 bp):
CTTCAACAACGAAACTCTTGTTAGCCACATAATCAACTACTCTTGC
Found at i:6478706 original size:17 final size:17
Alignment explanation
Indices: 6478666--6478716 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
6478656 TATATTATAT
*
6478666 ATATATACTAATACTTTTA
1 ATATATA-T-ATACTTTAA
*
6478685 GTATATATATACTTTAA
1 ATATATATATACTTTAA
*
6478702 ATATAAATATA-TTTA
1 ATATATATATACTTTA
6478717 TTTTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 17 0.61
18 1 0.04
19 6 0.21
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (17 bp):
ATATATATATACTTTAA
Found at i:6478762 original size:15 final size:17
Alignment explanation
Indices: 6478731--6478769 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
6478721 TTATTTTGTG
6478731 TTAATATTATAAAAATTA
1 TTAAT-TTATAAAAATTA
6478749 -TAATTTAT-AAAATTA
1 TTAATTTATAAAAATTA
6478764 TTAATT
1 TTAATT
6478770 ACAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.35
16 9 0.45
17 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATTTATAAAAATTA
Found at i:6478780 original size:2 final size:2
Alignment explanation
Indices: 6478773--6478801 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6478763 ATTAATTACA
6478773 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 A
6478802 CATACACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6479602 original size:15 final size:16
Alignment explanation
Indices: 6479577--6479606 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6479567 TACGTTAACA
6479577 TTATAAAAATTATAAT
1 TTATAAAAATTATAAT
6479593 TTAT-AAAATTATAA
1 TTATAAAAATTATAA
6479607 AATTCATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTATAAAAATTATAAT
Found at i:6482857 original size:15 final size:15
Alignment explanation
Indices: 6482837--6482898 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 15
6482827 ATGTGTTTGC
6482837 TTATTTAAGTTTATG
1 TTATTTAAGTTTATG
*
6482852 TTATTT-A-TTT-GG
1 TTATTTAAGTTTATG
* * **
6482864 ATCTTTGTGTTTA-G
1 TTATTTAAGTTTATG
6482878 TTATTTAAGTTTATG
1 TTATTTAAGTTTATG
6482893 TTATTT
1 TTATTT
6482899 TTTGGATATT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
12 5 0.14
13 3 0.09
14 14 0.40
15 13 0.37
ACGTcount: A:0.21, C:0.02, G:0.15, T:0.63
Consensus pattern (15 bp):
TTATTTAAGTTTATG
Found at i:6482861 original size:19 final size:19
Alignment explanation
Indices: 6482837--6482898 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
6482827 ATGTGTTTGC
6482837 TTATTTAAGTTTATGTTAT
1 TTATTTAAGTTTATGTTAT
** * *
6482856 TTATTTGGATCTTTGTGTTTAG
1 TTATTT--AAGTTTATG-TTAT
6482878 TTATTTAAGTTTATGTTAT
1 TTATTTAAGTTTATGTTAT
6482897 TT
1 TT
6482899 TTTGGATATT
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 11 0.34
20 6 0.19
21 6 0.19
22 9 0.28
ACGTcount: A:0.21, C:0.02, G:0.15, T:0.63
Consensus pattern (19 bp):
TTATTTAAGTTTATGTTAT
Found at i:6482923 original size:40 final size:41
Alignment explanation
Indices: 6482776--6482974 Score: 174
Period size: 40 Copynumber: 4.9 Consensus size: 41
6482766 TAACTAGTTG
* * * *
6482776 TTTGAATATTTAT-TTTAGTTATTTAAGTTTATGTTGTTGTTG
1 TTTGGATATTTATGTTTAGCTATTTAAGTTTATGTT-AT-TTA
* *
6482818 TTTGGATATATGTGTTT-GCTTATTTAAGTTTATGTTATTTA
1 TTTGGATATTTATGTTTAGC-TATTTAAGTTTATGTTATTTA
* * *
6482859 TTTGGATCTTTGTGTTTAGTTATTTAAGTTTATGTTATTT-
1 TTTGGATATTTATGTTTAGCTATTTAAGTTTATGTTATTTA
* * *
6482899 TTTGGATATTTATGTATAGCTATTTAAGTTTATATTGTTGTA
1 TTTGGATATTTATGTTTAGCTATTTAAGTTTATGTTATT-TA
* * ** *
6482941 --TGGATATTTGTTTTTAATTATTTAAGTCTATGTT
1 TTTGGATATTTATGTTTAGCTATTTAAGTTTATGTT
6482975 TAAGATCTTT
Statistics
Matches: 130, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
40 60 0.46
41 38 0.29
42 13 0.10
43 19 0.15
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.59
Consensus pattern (41 bp):
TTTGGATATTTATGTTTAGCTATTTAAGTTTATGTTATTTA
Found at i:6482973 original size:80 final size:83
Alignment explanation
Indices: 6482788--6482974 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 83
6482778 TGAATATTTA
* * * *
6482788 TTTTAGTTATTTAAGTTTATGTTGTTGTTGTTTGGATATATGTGTTTGCTTATTTAAGTTTATGT
1 TTTTAGTTATTTAAGTTTATGTTGATGTTGTTTGGATATATATGTTAGCTTATTTAAGTTTATAT
*
6482853 TATTTATTTGGATCTTTGT
66 TATTTA-TTGGATATTTGT
* *
6482872 GTTTAGTTATTTAAGTTTATGTT-AT-TT-TTTGGATATTTATGTATAGC-TATTTAAGTTTATA
1 TTTTAGTTATTTAAGTTTATGTTGATGTTGTTTGGATATATATGT-TAGCTTATTTAAGTTTATA
*
6482933 TTGTTGTA-TGGATATTTGT
65 TTATT-TATTGGATATTTGT
* *
6482952 TTTTAATTATTTAAGTCTATGTT
1 TTTTAGTTATTTAAGTTTATGTT
6482975 TAAGATCTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
80 30 0.33
81 30 0.33
82 7 0.08
83 1 0.01
84 22 0.24
ACGTcount: A:0.21, C:0.02, G:0.17, T:0.59
Consensus pattern (83 bp):
TTTTAGTTATTTAAGTTTATGTTGATGTTGTTTGGATATATATGTTAGCTTATTTAAGTTTATAT
TATTTATTGGATATTTGT
Found at i:6486560 original size:32 final size:32
Alignment explanation
Indices: 6486481--6486552 Score: 144
Period size: 32 Copynumber: 2.2 Consensus size: 32
6486471 CGAAAAAGAT
6486481 TAATGGAAGGGATTGAACAATGAAGATAAGTG
1 TAATGGAAGGGATTGAACAATGAAGATAAGTG
6486513 TAATGGAAGGGATTGAACAATGAAGATAAGTG
1 TAATGGAAGGGATTGAACAATGAAGATAAGTG
6486545 TAATGGAA
1 TAATGGAA
6486553 CGTATTGATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.44, C:0.03, G:0.31, T:0.22
Consensus pattern (32 bp):
TAATGGAAGGGATTGAACAATGAAGATAAGTG
Found at i:6492503 original size:143 final size:143
Alignment explanation
Indices: 6492243--6492515 Score: 429
Period size: 143 Copynumber: 1.9 Consensus size: 143
6492233 ACAAGACTAG
* *
6492243 AAATCATTAATAAAATGATAGATATCGCACGAGATTAGAAAATCATTCATTATTCAGAAAAGTAT
1 AAATCATTAATAAAATGATAGATATCACACGAGATTAGAAAATCATTCATTATTCAAAAAAGTAT
* * *
6492308 ATTCAATCTCATTGATTATTGTCAAACAAGTATAAAATTATTAGATATACTCTTTTTATTACATC
66 ATTCAATCTCATTGATTATTGCCAAACAAGTATAAAATTAGTAGATAGACTCTTTTTATTACATC
6492373 TATTATAGTACGA
131 TATTATAGTACGA
* * * * * *
6492386 AAATCATTGATAAGATGATGGGTGTCACACGAGATTAGAAAATCATTTATTATTCAAAAAAGTAT
1 AAATCATTAATAAAATGATAGATATCACACGAGATTAGAAAATCATTCATTATTCAAAAAAGTAT
* *
6492451 ATTCAATCTCATTGATTATTGCCAAACGAGTATAAAATTAGTAGATAGACTCTTTTTCTTACATC
66 ATTCAATCTCATTGATTATTGCCAAACAAGTATAAAATTAGTAGATAGACTCTTTTTATTACATC
6492516 AATTGTAAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 117 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (143 bp):
AAATCATTAATAAAATGATAGATATCACACGAGATTAGAAAATCATTCATTATTCAAAAAAGTAT
ATTCAATCTCATTGATTATTGCCAAACAAGTATAAAATTAGTAGATAGACTCTTTTTATTACATC
TATTATAGTACGA
Found at i:6494909 original size:5 final size:5
Alignment explanation
Indices: 6494895--6494942 Score: 69
Period size: 5 Copynumber: 9.6 Consensus size: 5
6494885 TTCCTTGTTA
* * *
6494895 TTTTC TTTTC CTTTC TTTTC TTTTC TTTTA TTTTT TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
6494943 CCTTCTTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:6494920 original size:20 final size:20
Alignment explanation
Indices: 6494895--6494955 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
6494885 TTCCTTGTTA
6494895 TTTTCTTTTCCTTTCTTTTC
1 TTTTCTTTTCCTTTCTTTTC
** *
6494915 TTTTCTTTTATTTTTTTTTC
1 TTTTCTTTTCCTTTCTTTTC
6494935 TTTTC-TTTCC-TTCTTTCTC
1 TTTTCTTTTCCTTTCTTT-TC
6494954 TT
1 TT
6494956 CCTTCTTCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 5 0.15
19 7 0.21
20 22 0.65
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTCTTTTCCTTTCTTTTC
Found at i:6495304 original size:34 final size:34
Alignment explanation
Indices: 6495277--6495358 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
6495267 CACTTTTTGG
*
6495277 CCTCCAAAATCAGCAGAAAAATGGCACTTTCCAA
1 CCTCCAAAACCAGCAGAAAAATGGCACTTTCCAA
* * *
6495311 CCTCCAAAACCAGCAGAAAAATAGCTCTTTCCAG
1 CCTCCAAAACCAGCAGAAAAATGGCACTTTCCAA
* *
6495345 CCTCAAAAATCAGC
1 CCTCCAAAACCAGC
6495359 CCTTAAATGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.40, C:0.32, G:0.11, T:0.17
Consensus pattern (34 bp):
CCTCCAAAACCAGCAGAAAAATGGCACTTTCCAA
Found at i:6498981 original size:450 final size:450
Alignment explanation
Indices: 6498140--6499011 Score: 1593
Period size: 450 Copynumber: 1.9 Consensus size: 450
6498130 TATATGTTAN
* *
6498140 CACATATAGCTCTCATATATAGGTACTATTTGTTCAAGCAGCAATTTGTCAATTGCCTTAATGAT
1 CACATATAGCTCTCATATATAGGTACTATTTGTTCAAGCAGCAATTTATCAATTACCTTAATGAT
*
6498205 CGTGTGATCTTATCCATATATTTGCTTTCATGTGTTCCTAGTCAACAAGTCCAATATTTTAAGCA
66 CGTGTGATCTTATCCATATATTTGCTTTCATGTGTTCCTAGTCAACAAGTCCAATATTATAAGCA
6498270 TTTTACAAATGGAAGCGTAAGTTCAAGTAAACCAATGCAACCTGTAGCATATTATTCAAAGCTGC
131 TTTTACAAATGGAAGCGTAAGTTCAAGTAAACCAATGCAACCTGTAGCATATTATTCAAAGCTGC
* *
6498335 TTTGCCCCTTTTTGGCCTATGATTTAATATAAAAAATTCTTTTGGAACATTCTGTAATCTAGGTA
196 TTTGACCCTTTTTGGCCTATGATTTAATATAAAAAATTCTTTTGGAACATTCTCTAATCTAGGTA
*
6498400 GGTATTGGTAAAATACTTTTTTATATCAGATTATATAAGTTTGAAAAAGCAGTATAGATCATTAA
261 GGTATTGGTAAAATACTTTTTTATATCAGATTATATAAGTCTGAAAAAGCAGTATAGATCATTAA
* *
6498465 TTATTCATGATTAGAATTATCTTTTTTACTTGTGTACGTGATTTTGAGTTATATATGTATCATAA
326 TTATTCATGATTAGAATTATCTTTTTTACTTGTGTACGTGATTTTAAGTTATATACGTATCATAA
*
6498530 ATAATAACTCTTTATTATTTCATAAGTCTTATATATACGTGATTTTTAATTGCCCAAACC
391 ATAATAACTCTCTATTATTTCATAAGTCTTATATATACGTGATTTTTAATTGCCCAAACC
*
6498590 CACATATAGCTCTCATATATAGGTACTATTTGTTCAAGCTGCAATTTATCAATTACCTTAATGAT
1 CACATATAGCTCTCATATATAGGTACTATTTGTTCAAGCAGCAATTTATCAATTACCTTAATGAT
6498655 CGTGTGATCTTATCCATATATTTGCTTTCATGTGTTCCTAGTCAACAAGTCCAATATTATAAGCA
66 CGTGTGATCTTATCCATATATTTGCTTTCATGTGTTCCTAGTCAACAAGTCCAATATTATAAGCA
* **
6498720 -TTTACCAAATGGAAGCGTACGTTCAAGTAAATTAATGCAACCTGTAGCATATTATTCAAAGCTG
131 TTTTA-CAAATGGAAGCGTAAGTTCAAGTAAACCAATGCAACCTGTAGCATATTATTCAAAGCTG
*
6498784 CTTTGACCCTTTTTGGCGTATGATTTAATATAAAAAATTCTTTTGGAACATTCTCTAATCTAGGT
195 CTTTGACCCTTTTTGGCCTATGATTTAATATAAAAAATTCTTTTGGAACATTCTCTAATCTAGGT
6498849 AGGTATTGGTAAAATACTTTTTTATATCAGATTATATAAGTCTGAAAAAGCAGTATAGATCATTA
260 AGGTATTGGTAAAATACTTTTTTATATCAGATTATATAAGTCTGAAAAAGCAGTATAGATCATTA
*
6498914 ATTATTCATGATTAGAATTATCTTTTTTACTTGTGTACGTGATTTTAAGTTGTATACGTATCATA
325 ATTATTCATGATTAGAATTATCTTTTTTACTTGTGTACGTGATTTTAAGTTATATACGTATCATA
6498979 AATAATAACTCTCTATTATTTCATAAGTCTTAT
390 AATAATAACTCTCTATTATTTCATAAGTCTTAT
6499012 TTTGTTTATG
Statistics
Matches: 406, Mismatches: 15, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
449 4 0.01
450 402 0.99
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (450 bp):
CACATATAGCTCTCATATATAGGTACTATTTGTTCAAGCAGCAATTTATCAATTACCTTAATGAT
CGTGTGATCTTATCCATATATTTGCTTTCATGTGTTCCTAGTCAACAAGTCCAATATTATAAGCA
TTTTACAAATGGAAGCGTAAGTTCAAGTAAACCAATGCAACCTGTAGCATATTATTCAAAGCTGC
TTTGACCCTTTTTGGCCTATGATTTAATATAAAAAATTCTTTTGGAACATTCTCTAATCTAGGTA
GGTATTGGTAAAATACTTTTTTATATCAGATTATATAAGTCTGAAAAAGCAGTATAGATCATTAA
TTATTCATGATTAGAATTATCTTTTTTACTTGTGTACGTGATTTTAAGTTATATACGTATCATAA
ATAATAACTCTCTATTATTTCATAAGTCTTATATATACGTGATTTTTAATTGCCCAAACC
Found at i:6499424 original size:3 final size:3
Alignment explanation
Indices: 6499410--6499446 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
6499400 AGTTAAAAAC
* *
6499410 ACA ACA ATA ACA ACA ACA ACA ATA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
6499447 GAAAGCAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.68, C:0.27, G:0.00, T:0.05
Consensus pattern (3 bp):
ACA
Found at i:6499430 original size:15 final size:15
Alignment explanation
Indices: 6499410--6499446 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
6499400 AGTTAAAAAC
6499410 ACAACAATAACAACA
1 ACAACAATAACAACA
6499425 ACAACAATAACAACA
1 ACAACAATAACAACA
6499440 ACAACAA
1 ACAACAA
6499447 GAAAGCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.68, C:0.27, G:0.00, T:0.05
Consensus pattern (15 bp):
ACAACAATAACAACA
Found at i:6502774 original size:22 final size:21
Alignment explanation
Indices: 6502733--6502775 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6502723 CCTTTTTCAA
*
6502733 TTTTTTTTTCCATTTCTGTTT
1 TTTTTTTTTCCATTTATGTTT
6502754 TTTTTTTTTCCATTTGATGTTT
1 TTTTTTTTTCCATTT-ATGTTT
6502776 ATGGGCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (21 bp):
TTTTTTTTTCCATTTATGTTT
Found at i:6505029 original size:22 final size:21
Alignment explanation
Indices: 6504991--6505064 Score: 55
Period size: 22 Copynumber: 3.5 Consensus size: 21
6504981 TTGAGAGAAT
*
6504991 TTTTATTTATT-TGTATTTTTA
1 TTTT-TTTATTATTTATTTTTA
* *
6505012 TTTTTTTATTCATTTATTTATC
1 TTTTTTTATT-ATTTATTTTTA
* *
6505034 TTGTTTTATTA-TT-TTATTA
1 TTTTTTTATTATTTATTTTTA
6505053 TTTTTATTATTA
1 TTTTT-TTATTA
6505065 ATATTTATGT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
19 7 0.17
20 14 0.33
21 5 0.12
22 16 0.38
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (21 bp):
TTTTTTTATTATTTATTTTTA
Found at i:6505054 original size:33 final size:32
Alignment explanation
Indices: 6504992--6505054 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
6504982 TGAGAGAATT
*
6504992 TTTATTTATTTGTATTTTTATTTTTTTATTCA
1 TTTATTTATTTGTATTTTTATTTTATTATTCA
6505024 TTTATTTATCTTGT-TTTATTATTTTATTATT
1 TTTATTTAT-TTGTATTT-TTATTTTATTATT
6505055 TTTATTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (32 bp):
TTTATTTATTTGTATTTTTATTTTATTATTCA
Found at i:6505071 original size:22 final size:20
Alignment explanation
Indices: 6505004--6505072 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 20
6504994 TATTTATTTG
6505004 TATTT-TTATTTTTTTATT-
1 TATTTATTATTTTTTTATTA
*
6505022 CATTTATTTATCTTGTTTTATTA
1 TATTTA-TTAT-TT-TTTTATTA
6505045 T-TTTATTATTTTTATTATTAA
1 TATTTATTATTTTT-TTATT-A
6505066 TATTTAT
1 TATTTAT
6505073 GTAAATCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
18 4 0.10
19 2 0.05
20 11 0.27
21 8 0.20
22 16 0.39
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.72
Consensus pattern (20 bp):
TATTTATTATTTTTTTATTA
Found at i:6505347 original size:2 final size:2
Alignment explanation
Indices: 6505334--6505421 Score: 128
Period size: 2 Copynumber: 45.0 Consensus size: 2
6505324 TTGTCAATAA
*
6505334 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
6505376 -T AT AGN A- AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6505416 AT AT AT
1 AT AT AT
6505422 TTAATGGAAT
Statistics
Matches: 79, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
1 3 0.04
2 75 0.95
3 1 0.01
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6507659 original size:8 final size:8
Alignment explanation
Indices: 6507648--6507704 Score: 57
Period size: 8 Copynumber: 7.5 Consensus size: 8
6507638 TTTTTCTTTT
6507648 TTTTATAA
1 TTTTATAA
* *
6507656 TTTTTTTA
1 TTTTATAA
6507664 TTTT-T-A
1 TTTTATAA
*
6507670 TTTTTTAA
1 TTTTATAA
*
6507678 TTTTATAT
1 TTTTATAA
6507686 TTTTATAA
1 TTTTATAA
6507694 TTTT-TAA
1 TTTTATAA
6507701 TTTT
1 TTTT
6507705 TAAGTAAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
6 5 0.12
7 9 0.21
8 28 0.67
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTATAA
Found at i:6507684 original size:30 final size:30
Alignment explanation
Indices: 6507648--6507707 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
6507638 TTTTTCTTTT
* *
6507648 TTTTATAATTTTT-TTATTTTTATTTTTTAA
1 TTTTAT-ATTTTTATAATTTTTAATTTTTAA
6507678 TTTTATATTTTTATAATTTTTAATTTTTAA
1 TTTTATATTTTTATAATTTTTAATTTTTAA
6507708 GTAAATCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTTATATTTTTATAATTTTTAATTTTTAA
Found at i:6507705 original size:8 final size:8
Alignment explanation
Indices: 6507647--6507705 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 8
6507637 GTTTTTCTTT
6507647 TTTTTATAA
1 TTTTT-TAA
*
6507656 TTTTTTTA
1 TTTTTTAA
6507664 -TTTTT-A
1 TTTTTTAA
6507670 TTTTTTAA
1 TTTTTTAA
*
6507678 TTTTAT-A
1 TTTTTTAA
6507685 TTTTTATAA
1 TTTTT-TAA
6507694 -TTTTTAA
1 TTTTTTAA
6507701 TTTTT
1 TTTTT
6507706 AAGTAAATCT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
6 1 0.02
7 18 0.43
8 17 0.40
9 6 0.14
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTAA
Found at i:6507707 original size:7 final size:7
Alignment explanation
Indices: 6507657--6507707 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
6507647 TTTTTATAAT
*
6507657 TTTTTTA
1 TTTTTAA
*
6507664 TTTTTAT
1 TTTTTAA
6507671 TTTTTAA
1 TTTTTAA
*
6507678 TTTTATAT
1 TTTT-TAA
6507686 TTTTATAA
1 TTTT-TAA
6507694 TTTTTAA
1 TTTTTAA
6507701 TTTTTAA
1 TTTTTAA
6507708 GTAAATCTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
7 25 0.66
8 13 0.34
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTAA
Found at i:6512490 original size:4 final size:4
Alignment explanation
Indices: 6512481--6512510 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
6512471 ATATAGATGC
6512481 ATGA ATGA ATGA ATGA ATGA ATGA ATGA AT
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA AT
6512511 CTTATGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
ATGA
Found at i:6514023 original size:2 final size:2
Alignment explanation
Indices: 6514016--6514047 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6514006 TTGTTAAATT
6514016 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6514048 ATGTGATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6517769 original size:2 final size:2
Alignment explanation
Indices: 6517762--6517789 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6517752 TTTCCCCCAA
6517762 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6517790 TGCTTGATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6523304 original size:3 final size:3
Alignment explanation
Indices: 6523296--6523332 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
6523286 TCCCATTCAA
*
6523296 TTC TTC TTC TTC TTC TTC TTC TTC CTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
6523333 TCCATTCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:6532669 original size:3 final size:3
Alignment explanation
Indices: 6532661--6532688 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6532651 CCACACTCTC
6532661 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
6532689 AGATCCTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:6544600 original size:21 final size:21
Alignment explanation
Indices: 6544535--6544603 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
6544525 ATAACATGTA
*
6544535 ACACGCTAACCATGGCTTGTC
1 ACACGCTAAACATGGCTTGTC
* * * * *
6544556 ACAGGGTTTTATACATGACGTGTC
1 ACA-CG--CTAAACATGGCTTGTC
6544580 ACACGCTAAACATGGCTTGTC
1 ACACGCTAAACATGGCTTGTC
6544601 ACA
1 ACA
6544604 GGTTTTTGCA
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
21 18 0.53
22 1 0.03
23 1 0.03
24 14 0.41
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (21 bp):
ACACGCTAAACATGGCTTGTC
Found at i:6544617 original size:45 final size:45
Alignment explanation
Indices: 6544507--6544617 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 45
6544497 GTAAATAGCG
** * *
6544507 TGTCACATATTTTTGTACATAACATGTAACACGCTAACCATGGCT
1 TGTCACAGGTTTTTGTACATGACATGTAACACGCTAAACATGGCT
* * * *
6544552 TGTCACAGGGTTTTATACATGACGTGTCACACGCTAAACATGGCT
1 TGTCACAGGTTTTTGTACATGACATGTAACACGCTAAACATGGCT
*
6544597 TGTCACAGGTTTTTGCACATG
1 TGTCACAGGTTTTTGTACATG
6544618 GTGTGTAACA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
TGTCACAGGTTTTTGTACATGACATGTAACACGCTAAACATGGCT
Found at i:6544632 original size:24 final size:24
Alignment explanation
Indices: 6544605--6544651 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
6544595 CTTGTCACAG
*
6544605 GTTTTTGCACATGGTGTGTAACAT
1 GTTTTTGCACATGGTATGTAACAT
*
6544629 GTTTTTGTACATGGTATGTAACA
1 GTTTTTGCACATGGTATGTAACA
6544652 CGCTAACGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (24 bp):
GTTTTTGCACATGGTATGTAACAT
Found at i:6544797 original size:45 final size:45
Alignment explanation
Indices: 6544733--6544905 Score: 211
Period size: 45 Copynumber: 3.8 Consensus size: 45
6544723 AGTTTTTGTA
* * * * ** *
6544733 CATGACTTGTTACAAGCTTTTGTATATGGTGTGTCACACGTTAAC
1 CATGGCTTGTCACAGGCTTTTGTACATGACGTGTCACACGCTAAC
* *
6544778 CATGGCTTGTCACAGGCTTTTGTATATGACGTGTAACACGCTAAC
1 CATGGCTTGTCACAGGCTTTTGTACATGACGTGTCACACGCTAAC
* * *
6544823 CATGGCTTGTCACAGGTTTTTATACATGACGTGTCACACGCTAAA
1 CATGGCTTGTCACAGGCTTTTGTACATGACGTGTCACACGCTAAC
* **
6544868 CATGGCTTGTCACAGGTTTTTGTACATGGTGTGTCACA
1 CATGGCTTGTCACAGGCTTTTGTACATGACGTGTCACA
6544906 TGTTTTTGTA
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 113 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (45 bp):
CATGGCTTGTCACAGGCTTTTGTACATGACGTGTCACACGCTAAC
Found at i:6544857 original size:24 final size:24
Alignment explanation
Indices: 6544823--6544920 Score: 85
Period size: 24 Copynumber: 4.2 Consensus size: 24
6544813 ACACGCTAAC
*
6544823 CATGGCTTGTCACAGGTTTTTATA
1 CATGGCGTGTCACAGGTTTTTATA
* * * *
6544847 CATGACGTGTCACACG---CTAAA
1 CATGGCGTGTCACAGGTTTTTATA
* *
6544868 CATGGCTTGTCACAGGTTTTTGTA
1 CATGGCGTGTCACAGGTTTTTATA
* * *
6544892 CATGGTGTGTCACATGTTTTTGTA
1 CATGGCGTGTCACAGGTTTTTATA
6544916 CATGG
1 CATGG
6544921 TATGTAACAC
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
21 16 0.28
24 41 0.72
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (24 bp):
CATGGCGTGTCACAGGTTTTTATA
Found at i:6544878 original size:21 final size:21
Alignment explanation
Indices: 6544813--6544881 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
6544803 ATGACGTGTA
*
6544813 ACACGCTAACCATGGCTTGTC
1 ACACGCTAAACATGGCTTGTC
* * * * *
6544834 ACAGGTTTTTATACATGACGTGTC
1 ACACG---CTAAACATGGCTTGTC
6544858 ACACGCTAAACATGGCTTGTC
1 ACACGCTAAACATGGCTTGTC
6544879 ACA
1 ACA
6544882 GGTTTTTGTA
Statistics
Matches: 34, Mismatches: 11, Indels: 6
0.67 0.22 0.12
Matches are distributed among these distances:
21 19 0.56
24 15 0.44
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (21 bp):
ACACGCTAAACATGGCTTGTC
Found at i:6544896 original size:114 final size:114
Alignment explanation
Indices: 6544778--6545088 Score: 426
Period size: 114 Copynumber: 2.7 Consensus size: 114
6544768 ACACGTTAAC
* * *
6544778 CATGGCTTGTCACAGGCTTTTGTATATGACGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
1 CATGGCTTGTCACATGTTTTTGTACATGACGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
*
6544843 TATACATGACGTGTCACACGCTAAACATGGCTTGTCACAGGTTTTTGTA
66 TATACATGACGTGTCACACACTAAACATGGCTTGTCACAGGTTTTTGTA
*** *
6544892 CATGG-TGTGTCACATGTTTTTGTACATGGTATGTAACACGCTAACCATGACTTGTCACAGGTTT
1 CATGGCT-TGTCACATGTTTTTGTACATGACGTGTAACACGCTAACCATGGCTTGTCACAGGTTT
* * * * * *
6544956 TTGTGCATGGCATGTAACACACTAACCATGGCTTGTCACAGGTTTTTGTA
65 TTATACATGACGTGTCACACACTAAACATGGCTTGTCACAGGTTTTTGTA
* * * * * *
6545006 CATGACGTGTCACATATTTTTGTACATGACGTATCACACGCTAACCATGGCTTGTCACAAGTTTT
1 CATGGCTTGTCACATGTTTTTGTACATGACGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
6545071 TATACATGACGTGTCACA
66 TATACATGACGTGTCACA
6545089 GATTTTTGTA
Statistics
Matches: 166, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
113 1 0.01
114 165 0.99
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (114 bp):
CATGGCTTGTCACATGTTTTTGTACATGACGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
TATACATGACGTGTCACACACTAAACATGGCTTGTCACAGGTTTTTGTA
Found at i:6544911 original size:69 final size:69
Alignment explanation
Indices: 6544830--6544965 Score: 191
Period size: 69 Copynumber: 2.0 Consensus size: 69
6544820 AACCATGGCT
* * *
6544830 TGTCACAGGTTTTTATACATGACGTGTCACACGCTAAACATGGCTTGTCACAGGTTTTTGTACAT
1 TGTCACAGGTTTTTATACATGACATGTAACACGCTAAACATGACTTGTCACAGGTTTTTGTACAT
6544895 GGTG
66 GGTG
* * ** * *
6544899 TGTCACATGTTTTTGTACATGGTATGTAACACGCTAACCATGACTTGTCACAGGTTTTTGTGCAT
1 TGTCACAGGTTTTTATACATGACATGTAACACGCTAAACATGACTTGTCACAGGTTTTTGTACAT
6544964 GG
66 GG
6544966 CATGTAACAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (69 bp):
TGTCACAGGTTTTTATACATGACATGTAACACGCTAAACATGACTTGTCACAGGTTTTTGTACAT
GGTG
Found at i:6544937 original size:159 final size:159
Alignment explanation
Indices: 6544718--6545019 Score: 435
Period size: 159 Copynumber: 1.9 Consensus size: 159
6544708 ATTTGAAGTT
* * * * * *
6544718 TCACAAGTTTTTGTACATGACTTGTTACAAGCTTTTGTATATGGTGTGTCACACGTTAACCATGG
1 TCACAAGTTTTTGTACATGACTTGTCACAAGCTTTTGTACATGGTATGTAACACGCTAACCATGA
* * *
6544783 CTTGTCACAGGCTTTTGTATATGACGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTTATAC
66 CTTGTCACAGGCTTTTGTACATGACATGTAACACACTAACCATGGCTTGTCACAGGTTTTTATAC
6544848 ATGACGTGTCACACGCTAAACATGGCTTG
131 ATGACGTGTCACACGCTAAACATGGCTTG
* * * *
6544877 TCACAGGTTTTTGTACATG-GTGTGTCACATGTTTTTGTACATGGTATGTAACACGCTAACCATG
1 TCACAAGTTTTTGTACATGACT-TGTCACAAGCTTTTGTACATGGTATGTAACACGCTAACCATG
* * * *
6544941 ACTTGTCACAGGTTTTTGTGCATGGCATGTAACACACTAACCATGGCTTGTCACAGGTTTTTGTA
65 ACTTGTCACAGGCTTTTGTACATGACATGTAACACACTAACCATGGCTTGTCACAGGTTTTTATA
6545006 CATGACGTGTCACA
130 CATGACGTGTCACA
6545020 TATTTTTGTA
Statistics
Matches: 125, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
158 1 0.01
159 124 0.99
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (159 bp):
TCACAAGTTTTTGTACATGACTTGTCACAAGCTTTTGTACATGGTATGTAACACGCTAACCATGA
CTTGTCACAGGCTTTTGTACATGACATGTAACACACTAACCATGGCTTGTCACAGGTTTTTATAC
ATGACGTGTCACACGCTAAACATGGCTTG
Found at i:6544948 original size:45 final size:45
Alignment explanation
Indices: 6544899--6545009 Score: 177
Period size: 45 Copynumber: 2.5 Consensus size: 45
6544889 GTACATGGTG
* * *
6544899 TGTCACATGTTTTTGTACATGGTATGTAACACGCTAACCATGACT
1 TGTCACAGGTTTTTGTACATGGCATGTAACACACTAACCATGACT
* *
6544944 TGTCACAGGTTTTTGTGCATGGCATGTAACACACTAACCATGGCT
1 TGTCACAGGTTTTTGTACATGGCATGTAACACACTAACCATGACT
6544989 TGTCACAGGTTTTTGTACATG
1 TGTCACAGGTTTTTGTACATG
6545010 ACGTGTCACA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (45 bp):
TGTCACAGGTTTTTGTACATGGCATGTAACACACTAACCATGACT
Found at i:6545010 original size:69 final size:69
Alignment explanation
Indices: 6544937--6545143 Score: 279
Period size: 69 Copynumber: 3.0 Consensus size: 69
6544927 ACACGCTAAC
* * * * * *
6544937 CATGACTTGTCACAGGTTTTTGTGCATGGCATGTAACACACTAACCATGGCTTGTCACAGGTTTT
1 CATGACGTGTCACAGATTTTTGTACATGACGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
6545002 TGTA
66 TGTA
* * * *
6545006 CATGACGTGTCACATATTTTTGTACATGACGTATCACACGCTAACCATGGCTTGTCACAAGTTTT
1 CATGACGTGTCACAGATTTTTGTACATGACGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
*
6545071 TATA
66 TGTA
* * * *
6545075 CATGACGTGTCACAGATTTTTGTATATGACGTGTAACACGTTAACCATGGCTTGTTACAGATTTT
1 CATGACGTGTCACAGATTTTTGTACATGACGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
6545140 TGTA
66 TGTA
6545144 TATGGCATGT
Statistics
Matches: 118, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 118 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (69 bp):
CATGACGTGTCACAGATTTTTGTACATGACGTGTAACACGCTAACCATGGCTTGTCACAGGTTTT
TGTA
Found at i:6545016 original size:24 final size:24
Alignment explanation
Indices: 6544989--6545108 Score: 95
Period size: 24 Copynumber: 5.1 Consensus size: 24
6544979 AACCATGGCT
6544989 TGTCACAGGTTTTTGTACATGACG
1 TGTCACAGGTTTTTGTACATGACG
**
6545013 TGTCACATATTTTTGTACATGACG
1 TGTCACAGGTTTTTGTACATGACG
* * * * * *
6545037 TATCACACG---CT-AACCATGGCT
1 TGTCACAGGTTTTTGTA-CATGACG
* *
6545058 TGTCACAAGTTTTTATACATGACG
1 TGTCACAGGTTTTTGTACATGACG
* *
6545082 TGTCACAGATTTTTGTATATGACG
1 TGTCACAGGTTTTTGTACATGACG
6545106 TGT
1 TGT
6545109 AACACGTTAA
Statistics
Matches: 72, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.01
21 13 0.18
24 57 0.79
25 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (24 bp):
TGTCACAGGTTTTTGTACATGACG
Found at i:6556148 original size:108 final size:108
Alignment explanation
Indices: 6556015--6556220 Score: 349
Period size: 108 Copynumber: 1.9 Consensus size: 108
6556005 AGAAATTTTT
* *
6556015 AGTAAATTTAAATAAAAGGTAAATTGGGTAAGAGTTGAATAATTTCAGAAGAATGTGTATTTGTA
1 AGTAAATTTAAATAAAAGGTAAATTGGGTAAGAGTTGAATAATTTCAAAAGAATGTGTATTTATA
*
6556080 AATTGTGAAAGTTGTAACTAAATCAACATATTTTGTTAATTTG
66 AATTGTGAAAGTTGTAAATAAATCAACATATTTTGTTAATTTG
* *
6556123 AGTAAATTTAAATAAAATGTCAATTGGGTAAGAGTTGAATAATTTCAAAAGAATGTGTATTTATA
1 AGTAAATTTAAATAAAAGGTAAATTGGGTAAGAGTTGAATAATTTCAAAAGAATGTGTATTTATA
* *
6556188 AATTGTGAGAGTTGTAAATAAATCAATATATTT
66 AATTGTGAAAGTTGTAAATAAATCAACATATTT
6556221 AATCATTTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 91 1.00
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.37
Consensus pattern (108 bp):
AGTAAATTTAAATAAAAGGTAAATTGGGTAAGAGTTGAATAATTTCAAAAGAATGTGTATTTATA
AATTGTGAAAGTTGTAAATAAATCAACATATTTTGTTAATTTG
Found at i:6557231 original size:16 final size:16
Alignment explanation
Indices: 6557210--6557242 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6557200 TTAAAAAAAA
6557210 AAACTCTAAGGTATTT
1 AAACTCTAAGGTATTT
6557226 AAACTCTAAGGTATTT
1 AAACTCTAAGGTATTT
6557242 A
1 A
6557243 GTATTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (16 bp):
AAACTCTAAGGTATTT
Found at i:6564522 original size:2 final size:2
Alignment explanation
Indices: 6564515--6564548 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6564505 TTCGTCTTTA
*
6564515 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6564549 GAAGAGAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6567550 original size:15 final size:15
Alignment explanation
Indices: 6567520--6567563 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
6567510 AAATTTTTGT
6567520 AAATAATATTATAATTA
1 AAATAATA--ATAATTA
*
6567537 AATTAATAATAATTA
1 AAATAATAATAATTA
6567552 AAATAATAATAA
1 AAATAATAATAA
6567564 ATTTATTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 18 0.72
17 7 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATAATAATAATTA
Found at i:6571779 original size:6 final size:6
Alignment explanation
Indices: 6571721--6571766 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
6571711 TGTTGTCAAT
6571721 AACCAA AACCAA AACCAA AACCAA AACCAA AACCAA AACCAA AACC
1 AACCAA AACCAA AACCAA AACCAA AACCAA AACCAA AACCAA AACC
6571767 CAAGCCAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (6 bp):
AACCAA
Found at i:6585850 original size:12 final size:12
Alignment explanation
Indices: 6585816--6585872 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 12
6585806 TTTAATTATT
6585816 ATTATTATATATA
1 ATTATT-TATATA
*
6585829 TATAATTTTATATA
1 -ATTA-TTTATATA
6585843 ATTATTTATATA
1 ATTATTTATATA
6585855 ATTACTTT-T-TA
1 ATTA-TTTATATA
6585866 ATTATTT
1 ATTATTT
6585873 TTAATGTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 3 0.08
11 6 0.15
12 13 0.33
13 6 0.15
14 9 0.23
15 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTATTTATATA
Found at i:6587149 original size:59 final size:60
Alignment explanation
Indices: 6587053--6587169 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 60
6587043 TTCGTCCCTG
**
6587053 ATTATTTGCTTTTGAGGTAAGACAAGATGCTTGTCAAGGCTAGTTAGCATCTTCATCCTA
1 ATTATTTGCTTTTGAGGTAAGACAAGATGCTCATCAAGGCTAGTTAGCATCTTCATCCTA
*
6587113 ATTATTTGCTTTTGAGG-AAGACAAGATGCTCATCAAGGCTTGTTAGCATCTTCATCC
1 ATTATTTGCTTTTGAGGTAAGACAAGATGCTCATCAAGGCTAGTTAGCATCTTCATCC
6587170 GTGCACAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
59 37 0.69
60 17 0.31
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (60 bp):
ATTATTTGCTTTTGAGGTAAGACAAGATGCTCATCAAGGCTAGTTAGCATCTTCATCCTA
Found at i:6590818 original size:3 final size:3
Alignment explanation
Indices: 6590810--6590845 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
6590800 TCAAGATCCA
*
6590810 CTG CTG CTG CTG TTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
6590846 ATCAGCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.31, G:0.33, T:0.36
Consensus pattern (3 bp):
CTG
Found at i:6593181 original size:26 final size:26
Alignment explanation
Indices: 6593152--6593205 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 26
6593142 AGATATAGAT
*
6593152 TCTGTATGTGCAAATATCTATGCATG
1 TCTGTATGTGCAAATATCTACGCATG
6593178 TC----TGTGCAAATATCTACGCATG
1 TCTGTATGTGCAAATATCTACGCATG
*
6593200 TTTGTA
1 TCTGTA
6593206 CCCCCATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 8
0.69 0.06 0.25
Matches are distributed among these distances:
22 20 0.91
26 2 0.09
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (26 bp):
TCTGTATGTGCAAATATCTACGCATG
Found at i:6593183 original size:22 final size:22
Alignment explanation
Indices: 6593158--6593200 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6593148 AGATTCTGTA
*
6593158 TGTGCAAATATCTATGCATGTC
1 TGTGCAAATATCTACGCATGTC
6593180 TGTGCAAATATCTACGCATGT
1 TGTGCAAATATCTACGCATGT
6593201 TTGTACCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (22 bp):
TGTGCAAATATCTACGCATGTC
Found at i:6613639 original size:77 final size:77
Alignment explanation
Indices: 6613549--6613699 Score: 230
Period size: 77 Copynumber: 2.0 Consensus size: 77
6613539 CTAGGCTTAT
** *
6613549 ATTTTAAAATTATTTTTCTTTTTTCCTCGTAGAGTAAATTTAAATTTTCTTAGAGAGTAAAAAAT
1 ATTTTAAAATTATTTTAATTTTTCCCTCGTAGAGTAAATTTAAATTTTCTTAGAGAGTAAAAAAT
*
6613614 GCATTTCTTCAA
66 ACATTTCTTCAA
* * * *
6613626 ATTTTAAAGTTATTTTAATTTTTCCCTCGTCGAGTAAATTTAAATTTTCTTATAGAGTAAAAGAT
1 ATTTTAAAATTATTTTAATTTTTCCCTCGTAGAGTAAATTTAAATTTTCTTAGAGAGTAAAAAAT
6613691 ACATTTCTT
66 ACATTTCTT
6613700 AATTGTCTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (77 bp):
ATTTTAAAATTATTTTAATTTTTCCCTCGTAGAGTAAATTTAAATTTTCTTAGAGAGTAAAAAAT
ACATTTCTTCAA
Found at i:6613724 original size:77 final size:76
Alignment explanation
Indices: 6613567--6613726 Score: 198
Period size: 77 Copynumber: 2.1 Consensus size: 76
6613557 ATTATTTTTC
* *
6613567 TTTTTTCCTCGTAGAGTAAATTTAAATTTTCTTAGAGAGTAAAAAATGCATTTCTTCAAATTTTA
1 TTTTTCCCTCGTAGAGTAAATTTAAATTTTCTTAGAGAGTAAAAAATACATTTCTT-AAATTTTA
**
6613632 AAGTTATTTTAA
65 AAGTTAAATTAA
* * *
6613644 TTTTTCCCTCGTCGAGTAAATTTAAATTTTCTTATAGAGTAAAAGATACATTTCTT-AATTGTCT
1 TTTTTCCCTCGTAGAGTAAATTTAAATTTTCTTAGAGAGTAAAAAATACATTTCTTAAATT-T-T
*
6613708 AAATTTAAAATT-A
64 AAAGTT-AAATTAA
6613721 TTTTTC
1 TTTTTC
6613727 TTTTTTCCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
75 4 0.06
76 1 0.01
77 64 0.89
78 3 0.04
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (76 bp):
TTTTTCCCTCGTAGAGTAAATTTAAATTTTCTTAGAGAGTAAAAAATACATTTCTTAAATTTTAA
AGTTAAATTAA
Found at i:6614863 original size:24 final size:23
Alignment explanation
Indices: 6614823--6614878 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
6614813 TATATATAAT
6614823 ATATTACT-ATTTATTATAGATATGA
1 ATATTA-TAATTTATTATA-A-ATGA
*
6614848 ATTTTATAATTT-TTATAAATGA
1 ATATTATAATTTATTATAAATGA
6614870 ATATTATAA
1 ATATTATAA
6614879 CGTGTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 12 0.43
23 1 0.04
24 6 0.21
25 9 0.32
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (23 bp):
ATATTATAATTTATTATAAATGA
Found at i:6618736 original size:281 final size:275
Alignment explanation
Indices: 6618185--6618735 Score: 786
Period size: 281 Copynumber: 2.0 Consensus size: 275
6618175 CTTGGCTGAA
* *
6618185 GAGAGGATGGAGATATAGAAGGGATAAAAAGAAGAGCAAAAGGAAGGAAGAGGAAGACAGGGATG
1 GAGAGGATGGAGAAATAGAAGGGATAAAAAGAAGAGCAAAAGGAAGCAAGAGGAAGACAGGGATG
6618250 GTGCTTGGTAGGAACTAGGGAGGTTGTTGCCTTGAAGGGTACTACTACTAATAAGTTTGCTTTTG
66 GTGCTTGGTAGGAACTAGGGAGGTTGTTGCCTTGAAGGGTACTACTACTAATAAGTTTGCTTTTG
*
6618315 GAGTTGAAAACAATGTCTACGATTGAAGAGTTGAAGGGGAAAAACAACATAGAAAAAATTAGAAC
131 GAGTTGAAAACAATGACTACGATTGAAGAGTTGAAGGGGAAAAACAACATAGAAAAAATTAGAAC
*
6618380 GACAGACAACTGGGGAGAAAAACAAGGGATAGACTTTGAACCTAAACTGAGAATGGTAGGCATAG
196 GACAGACAACTGGGGAGAAAAACAAGGGATAGACTTTGAACCAAAACTGAGAATGGTAGGCATAG
6618445 AAAG-AAAAAAATCT
261 AAAGAAAAAAAATCT
* * *
6618459 GAGAGGATGGAGAAATAGAAGGGATAAAAAGAAGAGCAAAGGGAAGCTAGAGGAAGACATGGATG
1 GAGAGGATGGAGAAATAGAAGGGATAAAAAGAAGAGCAAAAGGAAGCAAGAGGAAGACAGGGATG
* * * * * *
6618524 GTGCTTGCCGCTTGGGAGGGACTAGGGAGGTTTTTGCTTTGAGGGGTACTACTATTTATAAGTTT
66 GTGCTTG--G--T---AGGAACTAGGGAGGTTGTTGCCTTGAAGGGTACTACTACTAATAAGTTT
* * * * *
6618589 GCTTTTGGAGTT-AAAAGCTATGACTATGATTGAAGATTTGAA-GGGAAAAATAACATCGAAAAA
124 GCTTTTGGAGTTGAAAA-CAATGACTACGATTGAAGAGTTGAAGGGGAAAAACAACATAGAAAAA
* * * * * *
6618652 GTTAGAAGGGCAGACAATTGGGGAGAAAAACAAGGGATAGAC-TTGAACCAAAACTGGGAGTGGT
188 ATTAGAACGACAGACAACTGGGGAGAAAAACAAGGGATAGACTTTGAACCAAAACTGAGAATGGT
6618716 AGGCATAGAAAGAAAAAAAA
253 AGGCATAGAAAGAAAAAAAA
6618736 AATCTGACTT
Statistics
Matches: 244, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
274 67 0.27
276 1 0.00
278 1 0.00
279 31 0.13
280 68 0.28
281 76 0.31
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.20
Consensus pattern (275 bp):
GAGAGGATGGAGAAATAGAAGGGATAAAAAGAAGAGCAAAAGGAAGCAAGAGGAAGACAGGGATG
GTGCTTGGTAGGAACTAGGGAGGTTGTTGCCTTGAAGGGTACTACTACTAATAAGTTTGCTTTTG
GAGTTGAAAACAATGACTACGATTGAAGAGTTGAAGGGGAAAAACAACATAGAAAAAATTAGAAC
GACAGACAACTGGGGAGAAAAACAAGGGATAGACTTTGAACCAAAACTGAGAATGGTAGGCATAG
AAAGAAAAAAAATCT
Found at i:6633705 original size:16 final size:14
Alignment explanation
Indices: 6633673--6633779 Score: 53
Period size: 14 Copynumber: 7.3 Consensus size: 14
6633663 TTAGATTAGA
6633673 ATTTAGTTATTTTT
1 ATTTAGTTATTTTT
*
6633687 AGTTA---ATTTTCT
1 ATTTAGTTATTTT-T
6633699 ATTTAGTTTATTTTT
1 ATTTAG-TTATTTTT
* *
6633714 ATTAAGTTATTTTA
1 ATTTAGTTATTTTT
6633728 ATTTTATGTTTATTTATCTT
1 A-TTTA-G-TTA-TT-T-TT
6633748 AATTTAGTTATTATTT
1 -ATTTAGTTATT-TTT
*
6633764 A-TTAGTT-TTTAT
1 ATTTAGTTATTTTT
6633776 ATTT
1 ATTT
6633780 TTGTAGAATT
Statistics
Matches: 73, Mismatches: 7, Indels: 27
0.68 0.07 0.25
Matches are distributed among these distances:
11 5 0.07
12 8 0.11
13 4 0.05
14 18 0.25
15 10 0.14
16 8 0.11
17 7 0.10
18 5 0.07
19 2 0.03
20 5 0.07
21 1 0.01
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (14 bp):
ATTTAGTTATTTTT
Found at i:6633757 original size:35 final size:36
Alignment explanation
Indices: 6633689--6633759 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
6633679 TTATTTTTAG
* * *
6633689 TTAATTTTCTATTTAGTTTATTTTTATTAAGTTATT
1 TTAATTTTATATTTAGTTTATCTTAATTAAGTTATT
* *
6633725 TTAATTTTATGTTTA-TTTATCTTAATTTAGTTATT
1 TTAATTTTATATTTAGTTTATCTTAATTAAGTTATT
6633760 ATTTATTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 17 0.57
36 13 0.43
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (36 bp):
TTAATTTTATATTTAGTTTATCTTAATTAAGTTATT
Found at i:6637927 original size:2 final size:2
Alignment explanation
Indices: 6637920--6637961 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
6637910 NNNNNNNNNN
6637920 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6637962 ATTTTTGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6641427 original size:2 final size:2
Alignment explanation
Indices: 6641420--6641445 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6641410 TGGTCAAGAA
6641420 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6641446 TGTCATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6653361 original size:18 final size:19
Alignment explanation
Indices: 6653330--6653366 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
6653320 AATGAACGGT
6653330 AATAATTAATTTAAATAAA
1 AATAATTAATTTAAATAAA
6653349 AATAATT-ATTTAAATAAA
1 AATAATTAATTTAAATAAA
6653367 GAGTGCGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAATTAATTTAAATAAA
Found at i:6654990 original size:63 final size:63
Alignment explanation
Indices: 6654883--6655010 Score: 204
Period size: 63 Copynumber: 2.0 Consensus size: 63
6654873 AATTATAGAC
* * *
6654883 AAATCACTTTCTGTCAAGCTCCATTAATTCTAACGAAGATTTTTTTGGTGGCTATAATTAATT
1 AAATCAATTTCTGTCAAGCTCCATTAATTCTAACAAAGAATTTTTTGGTGGCTATAATTAATT
*
6654946 AAATCAATTTCTGTCAAGGC-CCATTAATTCTAACAAAGAATTTTTTGGTGGTTATAATTAATT
1 AAATCAATTTCTGTCAA-GCTCCATTAATTCTAACAAAGAATTTTTTGGTGGCTATAATTAATT
6655009 AA
1 AA
6655011 GTCTTCTCAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 58 0.97
64 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (63 bp):
AAATCAATTTCTGTCAAGCTCCATTAATTCTAACAAAGAATTTTTTGGTGGCTATAATTAATT
Found at i:6658167 original size:84 final size:84
Alignment explanation
Indices: 6658020--6658183 Score: 220
Period size: 84 Copynumber: 2.0 Consensus size: 84
6658010 ATTTTGATTG
* * * * *
6658020 ACTTATGACTTATATCATCAAATTCTGCCATCAAGAAAGCGAGTCAAGCTACAGTCTTATCAATT
1 ACTTATGACTTATATCATCAAATTCTACCACCAAGAAAACAAGTCAAGCTACACTCTTATCAATT
*
6658085 TAATTGTCTTCAATAGAGC
66 CAATTGTCTTCAATAGAGC
* * * * *
6658104 ACTTATGACTTATATCCTCAAATTCTACCACCTAGAAAACAAGTTAAGCTACCCTCTTGTCAATT
1 ACTTATGACTTATATCATCAAATTCTACCACCAAGAAAACAAGTCAAGCTACACTCTTATCAATT
*
6658169 CAATTGTTTTCAATA
66 CAATTGTCTTCAATA
6658184 AGACATTTCG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 68 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (84 bp):
ACTTATGACTTATATCATCAAATTCTACCACCAAGAAAACAAGTCAAGCTACACTCTTATCAATT
CAATTGTCTTCAATAGAGC
Found at i:6659123 original size:49 final size:49
Alignment explanation
Indices: 6659059--6659201 Score: 241
Period size: 49 Copynumber: 2.9 Consensus size: 49
6659049 TACTATTTTC
6659059 TTTACTTGCACACCAAGTAGGTTTAGATTTAGTTAGCTATTATAATTAT
1 TTTACTTGCACACCAAGTAGGTTTAGATTTAGTTAGCTATTATAATTAT
* * *
6659108 TTTACTTGTAAACCAAGTAGGTTTAGATTTAGTTGGCTATTATAATTAT
1 TTTACTTGCACACCAAGTAGGTTTAGATTTAGTTAGCTATTATAATTAT
* *
6659157 TTTACTTACACACCAAGTAGGTTTAGGTTTAGTTAGCTATTATAA
1 TTTACTTGCACACCAAGTAGGTTTAGATTTAGTTAGCTATTATAA
6659202 ATAGCCCTTA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (49 bp):
TTTACTTGCACACCAAGTAGGTTTAGATTTAGTTAGCTATTATAATTAT
Found at i:6663298 original size:27 final size:27
Alignment explanation
Indices: 6663268--6663322 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
6663258 GTTCTCCCTT
6663268 AGGTAATCCCAAATCCAATATTGGATG
1 AGGTAATCCCAAATCCAATATTGGATG
* * *
6663295 AGGTAATCTCAAATCCCATATTTGATG
1 AGGTAATCCCAAATCCAATATTGGATG
6663322 A
1 A
6663323 ATCCTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (27 bp):
AGGTAATCCCAAATCCAATATTGGATG
Found at i:6666480 original size:9 final size:9
Alignment explanation
Indices: 6666468--6666535 Score: 55
Period size: 9 Copynumber: 6.9 Consensus size: 9
6666458 CATCCCGATT
*
6666468 TTTTTTTTT
1 TTTTTTTTA
6666477 TTTTTTTTA
1 TTTTTTTTA
6666486 TTTTTTTTA
1 TTTTTTTTA
*
6666495 TTTTATTTAA
1 TTTT-TTTTA
6666505 TTTATATTTATA
1 TTT-T-TTT-TA
*
6666517 TTTATATTTA
1 TTT-TTTTTA
6666527 TTTATTTTT
1 TTT-TTTTT
6666536 TAATTTATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
9 21 0.41
10 17 0.33
11 7 0.14
12 6 0.12
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:6666489 original size:14 final size:14
Alignment explanation
Indices: 6666466--6666502 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
6666456 GCCATCCCGA
6666466 TTTTTT-TTTTTTT
1 TTTTTTATTTTTTT
6666479 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
*
6666493 TATTTTATTT
1 TTTTTTATTT
6666503 AATTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (14 bp):
TTTTTTATTTTTTT
Found at i:6666512 original size:16 final size:16
Alignment explanation
Indices: 6666481--6666543 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 16
6666471 TTTTTTTTTT
*
6666481 TTTTATTT--TTTTTA
1 TTTTATTTAATTTATA
6666495 TTTTATTTAATTTATA
1 TTTTATTTAATTTATA
6666511 TTTATATTTATATTTAT-
1 TTT-TATTTA-ATTTATA
*
6666528 TTATTTTTTAATTTAT
1 TT-TTATTTAATTTAT
6666544 GTGTTTACAC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 8 0.19
16 14 0.33
17 13 0.31
18 7 0.17
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTAATTTATA
Found at i:6666513 original size:6 final size:6
Alignment explanation
Indices: 6666493--6666527 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
6666483 TTATTTTTTT
6666493 TATTT- TATTTA -ATTTA TATTTA TATTTA TATTTA T
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA T
6666528 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TATTTA
Found at i:6666541 original size:12 final size:11
Alignment explanation
Indices: 6666494--6666543 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
6666484 TATTTTTTTT
6666494 ATTT-TATTTA
1 ATTTATATTTA
6666504 ATTTATATTTA
1 ATTTATATTTA
6666515 TATTTATATTT-
1 -ATTTATATTTA
*
6666526 ATTTATTTTTTA
1 ATTTA-TATTTA
6666538 ATTTAT
1 ATTTAT
6666544 GTGTTTACAC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
10 9 0.26
11 11 0.31
12 15 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:6666541 original size:22 final size:23
Alignment explanation
Indices: 6666482--6666543 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
6666472 TTTTTTTTTT
*
6666482 TTTATTTTTTTTATTT-TATTTAA
1 TTTA-TTTTTTAATTTATATTTAA
*
6666505 TTTA-TATTTATATTTATATTT-A
1 TTTATTTTTTA-ATTTATATTTAA
6666527 TTTATTTTTTAATTTAT
1 TTTATTTTTTAATTTAT
6666544 GTGTTTACAC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 4 0.12
22 15 0.45
23 14 0.42
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTATTTTTTAATTTATATTTAA
Found at i:6667322 original size:49 final size:49
Alignment explanation
Indices: 6667265--6667358 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
6667255 TACTATTTTC
* *
6667265 TTTACTTGCACACCAAGTAGGTTTAGATTTAGTTGGCTATTATAATTAA
1 TTTACTTGCACACCAAGGAGGTTTAGATTTAGTTAGCTATTATAATTAA
* * *
6667314 TTTACTTGCACACTAAGGAGGTTTAGGTTTAGTTAGTTATTATAA
1 TTTACTTGCACACCAAGGAGGTTTAGATTTAGTTAGCTATTATAA
6667359 ATAGCCCTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (49 bp):
TTTACTTGCACACCAAGGAGGTTTAGATTTAGTTAGCTATTATAATTAA
Found at i:6675222 original size:5 final size:5
Alignment explanation
Indices: 6675212--6675238 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
6675202 CAATCTCAAG
6675212 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
6675239 CAATCAGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:6676737 original size:45 final size:46
Alignment explanation
Indices: 6676686--6676828 Score: 134
Period size: 45 Copynumber: 3.2 Consensus size: 46
6676676 TTCCAGAAGT
* *
6676686 AAGTCTTCGTTAATCACTTCATCCAAAATACTC-AAAAA-CAAAGGC
1 AAGTCTTC-TTCATCACTTCATCCAAAATACTCAAAAAACCAAAAGC
* ** *
6676731 AAGTCTTCATCCCCCACTTCATCCAAAATTCTCAAAAAACCAAAAGC
1 AAGTCTTC-TTCATCACTTCATCCAAAATACTCAAAAAACCAAAAGC
* * * *
6676778 AAGTCTTCATCATCCACTTCATCC-AAATTC-CAGAAAA-CAAAAGA
1 AAGTCTTCTTCAT-CACTTCATCCAAAATACTCAAAAAACCAAAAGC
6676822 AAGTCTT
1 AAGTCTT
6676829 TGTCAATCAT
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
44 13 0.16
45 33 0.40
46 12 0.15
47 24 0.29
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (46 bp):
AAGTCTTCTTCATCACTTCATCCAAAATACTCAAAAAACCAAAAGC
Found at i:6676798 original size:47 final size:46
Alignment explanation
Indices: 6676700--6676828 Score: 174
Period size: 47 Copynumber: 2.8 Consensus size: 46
6676690 CTTCGTTAAT
* * *
6676700 CACTTCATCCAAAATACTC-AAAAACAAAGGCAAGTCTTCATCCCC
1 CACTTCATCCAAAATTCTCAAAAAACAAAAGCAAGTCTTCATCACC
*
6676745 CACTTCATCCAAAATTCTCAAAAAACCAAAAGCAAGTCTTCATCATC
1 CACTTCATCCAAAATTCTCAAAAAA-CAAAAGCAAGTCTTCATCACC
* *
6676792 CACTTCATCC-AAATTC-CAGAAAACAAAAGAAAGTCTT
1 CACTTCATCCAAAATTCTCAAAAAACAAAAGCAAGTCTT
6676829 TGTCAATCAT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 13 0.17
45 24 0.32
46 11 0.14
47 28 0.37
ACGTcount: A:0.43, C:0.29, G:0.06, T:0.22
Consensus pattern (46 bp):
CACTTCATCCAAAATTCTCAAAAAACAAAAGCAAGTCTTCATCACC
Found at i:6685277 original size:134 final size:135
Alignment explanation
Indices: 6685026--6685286 Score: 445
Period size: 134 Copynumber: 1.9 Consensus size: 135
6685016 AAGATGATTA
* *
6685026 ATAAAATGACATATTTTCTTACTTCCCTAATATTATGCACCTAATAAATCTCTATTTTTTATCAC
1 ATAAAATGACATATTTTCTCACTTCCCTAATATTATGCACCTAATAAATCTATATTTTTTATCAC
*
6685091 TTTCCAATTTCCACAATATTATTAATTCTCAATTATTTCTCCTATTTCCAATCAACGTAATAAAT
66 TTTCCAATTCCCACAATATTATTAATTCTCAATTATTTCTCCTATTTCCAATCAACGTAATAAAT
6685156 AATTC
131 AATTC
*
6685161 ATAAAATGACATATTTTCTCACTTCCCTAATATTATGTACCTAATAAATCTATA-TTTTTATCAC
1 ATAAAATGACATATTTTCTCACTTCCCTAATATTATGCACCTAATAAATCTATATTTTTTATCAC
* *
6685225 -TTCTCAATTCCCACAATATTATTAATTCTCAATTATTTCTTCTATTTTCAATCAACGTAATA
66 TTTC-CAATTCCCACAATATTATTAATTCTCAATTATTTCTCCTATTTCCAATCAACGTAATA
6685287 TGTATTTAAT
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
133 3 0.03
134 65 0.55
135 51 0.43
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.43
Consensus pattern (135 bp):
ATAAAATGACATATTTTCTCACTTCCCTAATATTATGCACCTAATAAATCTATATTTTTTATCAC
TTTCCAATTCCCACAATATTATTAATTCTCAATTATTTCTCCTATTTCCAATCAACGTAATAAAT
AATTC
Found at i:6687555 original size:45 final size:47
Alignment explanation
Indices: 6687491--6687639 Score: 148
Period size: 45 Copynumber: 3.3 Consensus size: 47
6687481 TTCCAGAAGT
* * *
6687491 AAGTCTTCGTTAATCACTTCATCCAAAATACTC-AAAAA-CAAAGGC
1 AAGTCTTCGTCAACCACTTCATCCAAAATACTCAAAAAACCAAAAGC
* *
6687536 AAGTCTTCGTCCACCACTTCATCCAAAATTCTCAAAAAACCAAAAGC
1 AAGTCTTCGTCAACCACTTCATCCAAAATACTCAAAAAACCAAAAGC
* * * * *
6687583 AAGTCTTCAG-CATCCACTTCATTC-AAAT-TTCAGAAAA-CAAAAGA
1 AAGTCTTC-GTCAACCACTTCATCCAAAATACTCAAAAAACCAAAAGC
*
6687627 AAGTCTTTGTCAA
1 AAGTCTTCGTCAA
6687640 TCATATCCCC
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
43 1 0.01
44 15 0.17
45 36 0.41
46 9 0.10
47 25 0.29
48 1 0.01
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.25
Consensus pattern (47 bp):
AAGTCTTCGTCAACCACTTCATCCAAAATACTCAAAAAACCAAAAGC
Found at i:6687603 original size:47 final size:45
Alignment explanation
Indices: 6687505--6687633 Score: 149
Period size: 45 Copynumber: 2.9 Consensus size: 45
6687495 CTTCGTTAAT
* *
6687505 CACTTCATCCAAAATACTC-AAAAACAAAGGCAAGTCTTCGTCCAC
1 CACTTCATCCAAAATTCTCAAAAAACAAAAGCAAGTCTTCG-CCAC
6687550 CACTTCATCCAAAATTCTCAAAAAACCAAAAGCAAGTCTTCAG-CATC
1 CACTTCATCCAAAATTCTCAAAAAA-CAAAAGCAAGTCTTC-GCCA-C
* * *
6687597 CACTTCATTC-AAATT-TCAGAAAACAAAAGAAAGTCTT
1 CACTTCATCCAAAATTCTCAAAAAACAAAAGCAAGTCTT
6687634 TGTCAATCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
44 13 0.17
45 25 0.33
46 12 0.16
47 24 0.32
48 1 0.01
ACGTcount: A:0.43, C:0.27, G:0.08, T:0.22
Consensus pattern (45 bp):
CACTTCATCCAAAATTCTCAAAAAACAAAAGCAAGTCTTCGCCAC
Found at i:6689960 original size:47 final size:44
Alignment explanation
Indices: 6689841--6689995 Score: 179
Period size: 45 Copynumber: 3.4 Consensus size: 44
6689831 TCCTAAATTC
* *
6689841 CAAAAGGAAGTCTTCGTTAACCACTTCATCCAAAATTCTCAAAAA
1 CAAAAGCAAGTCTTCG-TCACCACTTCATCCAAAATTCTCAAAAA
* *
6689886 CAAAGGCAAGTCTTGGTCCACCACTTCATCCAAAATTCTCGAAAAA
1 CAAAAGCAAGTCTTCGT-CACCACTTCATCCAAAATTCTC-AAAAA
*
6689932 CCAAAAGCAAGTCTTCATCATCCACTTCATCC-AAATTC-CAGAAAA
1 -CAAAAGCAAGTCTTCGTCA-CCACTTCATCCAAAATTCTCA-AAAA
* *
6689977 CAAAAGAAAGTCTTTGTCA
1 CAAAAGCAAGTCTTCGTCA
6689996 ATAAGGGAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
44 18 0.19
45 39 0.41
46 13 0.14
47 25 0.26
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.23
Consensus pattern (44 bp):
CAAAAGCAAGTCTTCGTCACCACTTCATCCAAAATTCTCAAAAA
Found at i:6691533 original size:27 final size:27
Alignment explanation
Indices: 6691476--6691535 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 27
6691466 AAAACAAAAG
6691476 AAAATTTTTGTCAACCATCTCCCCAAC
1 AAAATTTTTGTCAACCATCTCCCCAAC
6691503 -AAATTTTTGTCAACCATCTCCCCAAC
1 AAAATTTTTGTCAACCATCTCCCCAAC
6691529 AAAATTT
1 AAAATTT
6691536 ACTTTAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 26 0.81
27 6 0.19
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (27 bp):
AAAATTTTTGTCAACCATCTCCCCAAC
Found at i:6694566 original size:18 final size:18
Alignment explanation
Indices: 6694543--6694606 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
6694533 ATGCCTTGAT
*
6694543 ATACATATATGTATATAC
1 ATACATATATGTATATAA
*
6694561 ATACATATATGTACATAA
1 ATACATATATGTATATAA
* * *
6694579 ATATATGTATGTATATAT
1 ATACATATATGTATATAA
*
6694597 GTACATATAT
1 ATACATATAT
6694607 ACATACATTT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (18 bp):
ATACATATATGTATATAA
Found at i:6694583 original size:26 final size:26
Alignment explanation
Indices: 6694554--6694625 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
6694544 TACATATATG
*
6694554 TATATACATACATATATGTACATAAA
1 TATATACATATATATATGTACATAAA
** * *
6694580 TATATGTATGTATATATGTACATATA
1 TATATACATATATATATGTACATAAA
* *
6694606 TACATACATTTATATATGTA
1 TATATACATATATATATGTA
6694626 TGTCATAACG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (26 bp):
TATATACATATATATATGTACATAAA
Found at i:6694607 original size:14 final size:14
Alignment explanation
Indices: 6694544--6694625 Score: 73
Period size: 14 Copynumber: 6.1 Consensus size: 14
6694534 TGCCTTGATA
* *
6694544 TACATATATGTATA
1 TACATATATATATG
*
6694558 TACATACATATATG
1 TACATATATATATG
*
6694572 TACATAAATATATG
1 TACATATATATATG
*
6694586 T--ATGTATATATG
1 TACATATATATATG
*
6694598 TACATATATACA--
1 TACATATATATATG
*
6694610 TACATTTATATATG
1 TACATATATATATG
6694624 TA
1 TA
6694626 TGTCATAACG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
12 20 0.37
14 34 0.63
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (14 bp):
TACATATATATATG
Found at i:6697003 original size:65 final size:64
Alignment explanation
Indices: 6696899--6697027 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 64
6696889 CGTGCTTCTA
6696899 GCTTTTTTTTTCTTTTTAAATTTTGGTTTAATTTATTTATTAATCATTATTAAGAAAGGTGTCT
1 GCTTTTTTTTTCTTTTTAAATTTTGGTTTAATTTATTTATTAATCATTATTAAGAAAGGTGTCT
6696963 NGCTTTTTTTTTCTTTTTAAATTTTGGTTTAATTTATTTATTAATCATTATTAAGAAAGGTGTCT
1 -GCTTTTTTTTTCTTTTTAAATTTTGGTTTAATTTATTTATTAATCATTATTAAGAAAGGTGTCT
6697028 ACAATATATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.57
Consensus pattern (64 bp):
GCTTTTTTTTTCTTTTTAAATTTTGGTTTAATTTATTTATTAATCATTATTAAGAAAGGTGTCT
Found at i:6697043 original size:2 final size:2
Alignment explanation
Indices: 6697031--6697077 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
6697021 GGTGTCTACA
6697031 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6697070 AT AT -T AT A
1 AT AT AT AT A
6697078 AACATCTACC
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
1 4 0.10
2 37 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6706030 original size:20 final size:21
Alignment explanation
Indices: 6705985--6706030 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
6705975 ATTTTTCTTT
*
6705985 TAAAAGTGATTTTTTTTAAAA
1 TAAAAGTGATTTTTATTAAAA
*
6706006 -AAAAATGA-TTTTATTAACAA
1 TAAAAGTGATTTTTATTAA-AA
6706026 TAAAA
1 TAAAA
6706031 CCAATATGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 8 0.38
20 9 0.43
21 4 0.19
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (21 bp):
TAAAAGTGATTTTTATTAAAA
Found at i:6707655 original size:16 final size:16
Alignment explanation
Indices: 6707634--6707666 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6707624 TCAATTTATG
6707634 ATAAAT-CAATATATTC
1 ATAAATACAA-ATATTC
6707650 ATAAATACAAATATTC
1 ATAAATACAAATATTC
6707666 A
1 A
6707667 ATATTAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAATACAAATATTC
Found at i:6708191 original size:3 final size:3
Alignment explanation
Indices: 6708183--6708210 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6708173 AATTGGAATG
6708183 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6708211 CAATTAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6709387 original size:12 final size:13
Alignment explanation
Indices: 6709360--6709397 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
6709350 TGTATCACAT
*
6709360 TTAAGTATATTAAA
1 TTAA-TATAATAAA
6709374 TTAAT-TAATAAA
1 TTAATATAATAAA
6709386 TTAATATAATAA
1 TTAATATAATAA
6709398 TAGAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 7 0.32
14 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
TTAATATAATAAA
Found at i:6711060 original size:21 final size:21
Alignment explanation
Indices: 6711026--6711066 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6711016 TAAAACTATT
*
6711026 TCTAAAATATAAAGTTAATTA
1 TCTAAAATATAAAGATAATTA
6711047 TCTATAAATA-AAAGATAATT
1 TCTA-AAATATAAAGATAATT
6711067 CATGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (21 bp):
TCTAAAATATAAAGATAATTA
Found at i:6712577 original size:81 final size:81
Alignment explanation
Indices: 6712462--6712776 Score: 433
Period size: 81 Copynumber: 3.9 Consensus size: 81
6712452 AATTTGATTT
* * *
6712462 TTATCTCTAAATTATC---ATTCA-TTAGAGATAAATTAGATAATCAATAATTAAATTTTGATTG
1 TTATCTCTAAATTATCTTGATTTATTTAGAGATAAATTAGATGACCAATAATTAAATTTTGATTG
*
6712523 ATCAAAAATATGAATA
66 GTCAAAAATATGAATA
* * *
6712539 TTATTTTTAAATTATCTTGATTTATTTAGAGATAAATTAGATGACCAATAATTAAATTATGATTG
1 TTATCTCTAAATTATCTTGATTTATTTAGAGATAAATTAGATGACCAATAATTAAATTTTGATTG
* *
6712604 GTCCAAAATATGAATC
66 GTCAAAAATATGAATA
* * * *
6712620 TTATCTCTAAATTATATTGATTTATTTAGATACAAATTGGATGACCAATAATTAAATTTTGATTG
1 TTATCTCTAAATTATCTTGATTTATTTAGAGATAAATTAGATGACCAATAATTAAATTTTGATTG
6712685 GTCAAAAATATGAATA
66 GTCAAAAATATGAATA
* * * *
6712701 TTATCTCTAAACTA-CATTGATTTATTTAGAGAAAAATTGGATGACTAATAATTAAATTTTGATT
1 TTATCTCTAAATTATC-TTGATTTATTTAGAGATAAATTAGATGACCAATAATTAAATTTTGATT
6712765 GGTCAAAAATAT
65 GGTCAAAAATAT
6712777 AATTTTTTTT
Statistics
Matches: 210, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
77 14 0.07
80 4 0.02
81 192 0.91
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (81 bp):
TTATCTCTAAATTATCTTGATTTATTTAGAGATAAATTAGATGACCAATAATTAAATTTTGATTG
GTCAAAAATATGAATA
Found at i:6716189 original size:21 final size:23
Alignment explanation
Indices: 6716155--6716198 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
6716145 TTTTAGTGGT
6716155 ATAAGAGCTTTTT-GTTTTAAAG
1 ATAAGAGCTTTTTGGTTTTAAAG
6716177 ATAAGAG-TTTTTGGTTTTAAAG
1 ATAAGAGCTTTTTGGTTTTAAAG
6716199 TTATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (23 bp):
ATAAGAGCTTTTTGGTTTTAAAG
Found at i:6724088 original size:81 final size:82
Alignment explanation
Indices: 6723880--6724089 Score: 338
Period size: 81 Copynumber: 2.6 Consensus size: 82
6723870 CTAAATTATC
*
6723880 ATTTA-TTAGAGAT-AAATTAGATGACCAATAATTAAATTTTGATTGGCCAAAAATATGAATATT
1 ATTTATTTAGAGATCAAATTAGATGACCAATAATTAAATTTTGATTGGTCAAAAATATGAATATT
*
6723943 ATCTCTAAATTATCTTG
66 ATCTCTAAATTACCTTG
*
6723960 ATTTATTTAGAGA-CAAATTAGATGACCAATTATTAAATTTTGATTGGTCAAAAATATGAATATT
1 ATTTATTTAGAGATCAAATTAGATGACCAATAATTAAATTTTGATTGGTCAAAAATATGAATATT
6724024 ATCTCTAAATTACCTTG
66 ATCTCTAAATTACCTTG
* * *
6724041 ATTTATTTAGA-ATCAAATTGGATGAGCAATAATTAAATTTTAATTGGTC
1 ATTTATTTAGAGATCAAATTAGATGACCAATAATTAAATTTTGATTGGTC
6724090 TAATTTAAAT
Statistics
Matches: 120, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
80 6 0.05
81 114 0.95
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (82 bp):
ATTTATTTAGAGATCAAATTAGATGACCAATAATTAAATTTTGATTGGTCAAAAATATGAATATT
ATCTCTAAATTACCTTG
Found at i:6725084 original size:13 final size:14
Alignment explanation
Indices: 6725066--6725100 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
6725056 AATATCTCAT
6725066 TTGAGATATG-TTA
1 TTGAGATATGCTTA
6725079 TTGAGATATGCTTA
1 TTGAGATATGCTTA
6725093 TTGAGATA
1 TTGAGATA
6725101 GGAAATTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.31, C:0.03, G:0.23, T:0.43
Consensus pattern (14 bp):
TTGAGATATGCTTA
Found at i:6738199 original size:34 final size:34
Alignment explanation
Indices: 6738108--6738220 Score: 118
Period size: 34 Copynumber: 3.3 Consensus size: 34
6738098 ACACTAGTTA
* *
6738108 TTACATGCCAAGGTTAAAGCTTTACCACCAGATG
1 TTACATGCCAAGGTTAAAGCTTCACCACCAAATG
* * * * * *
6738142 TTGCATGTCAATGTCAAAACTTCACCATCAAATG
1 TTACATGCCAAGGTTAAAGCTTCACCACCAAATG
* * * *
6738176 TTACACGCCAAGGTTAAAGCTTCAACACCATATA
1 TTACATGCCAAGGTTAAAGCTTCACCACCAAATG
6738210 TTACATGCCAA
1 TTACATGCCAA
6738221 AGCTTCATTC
Statistics
Matches: 60, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (34 bp):
TTACATGCCAAGGTTAAAGCTTCACCACCAAATG
Found at i:6739647 original size:245 final size:243
Alignment explanation
Indices: 6739213--6739697 Score: 844
Period size: 245 Copynumber: 2.0 Consensus size: 243
6739203 ATTTCTCTGG
*
6739213 ACCTTCCCATCGTACTAGTGGACTTCGGAGGTATCTTTTCACCTAGGGAGTTTACCGATGAAACT
1 ACCTTCCCATCGTACTAGTGGACTTCGGAGGTATCTTTTCACCTAAGGAGTTTACCGATGAAACT
*
6739278 CTCATTCGCAAGCTTTCTCGGAAAGTCCCATCATAGGAGCTTATACCCGTATATAGAATATATCT
66 CGCATTCGCAAGCTTTCTCGGAAAGTCCCATCATAGGAGCTTATACCCGTATATAGAATATATCT
* *
6739343 ATATGCCATGACATTTAACAATGCGACCATGATACGTGATGCACTCACAATTATAATGTTTGTTC
131 ATATGCCATGACATTTAACAATGCAACAATGATACGTGATGCACTCACAATTATAATGTTTGTTC
6739408 CTTATTTTATTATTTCTCCATGTGAGTGTATGCACGTTGTTTTTTANCAA
196 CTTATTTTATTATTTCTCCATGTGAGTGTATGCACG-TGTTTTTTA-CAA
* * *
6739458 ACCTTCCCATCGTACTGGTGGAGTTCGGAGGTATCTTTTCACCTAAGGAGTTTGCCGATGAAACT
1 ACCTTCCCATCGTACTAGTGGACTTCGGAGGTATCTTTTCACCTAAGGAGTTTACCGATGAAACT
* *
6739523 CGCCTTTGCAAGCTTTCTCGGAAAGTCCCATCATAGGAGCTTATACCCGTATATAGAATATATCT
66 CGCATTCGCAAGCTTTCTCGGAAAGTCCCATCATAGGAGCTTATACCCGTATATAGAATATATCT
* * *
6739588 ATATGCCATGACATTTAACAATGCAACAATGGTACGTGATGCACTCATAATTTTAATGTTTGTTC
131 ATATGCCATGACATTTAACAATGCAACAATGATACGTGATGCACTCACAATTATAATGTTTGTTC
6739653 CTTATTTTATTATTTCTCCATGTGAGTGTATGCACGTGTTTTTTA
196 CTTATTTTATTATTTCTCCATGTGAGTGTATGCACGTGTTTTTTA
6739698 TTTACTTATT
Statistics
Matches: 228, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
244 9 0.04
245 219 0.96
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (243 bp):
ACCTTCCCATCGTACTAGTGGACTTCGGAGGTATCTTTTCACCTAAGGAGTTTACCGATGAAACT
CGCATTCGCAAGCTTTCTCGGAAAGTCCCATCATAGGAGCTTATACCCGTATATAGAATATATCT
ATATGCCATGACATTTAACAATGCAACAATGATACGTGATGCACTCACAATTATAATGTTTGTTC
CTTATTTTATTATTTCTCCATGTGAGTGTATGCACGTGTTTTTTACAA
Found at i:6740160 original size:3 final size:3
Alignment explanation
Indices: 6740154--6740229 Score: 73
Period size: 3 Copynumber: 24.7 Consensus size: 3
6740144 TTATTGTTGT
* * * *
6740154 TTA TTA TTA -TA TTC TTAA TTA TTG TTA TTA TTA TTT TTG TTCA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TT-A TTA
*
6740200 CTTT TTA TTA TTA TTA TTA TTA TTA TTA TT
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6740230 TATTTTAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
2 2 0.03
3 52 0.87
4 6 0.10
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6740185 original size:9 final size:9
Alignment explanation
Indices: 6740138--6740229 Score: 52
Period size: 9 Copynumber: 10.6 Consensus size: 9
6740128 ATATCATTTT
6740138 TTATTGTTA
1 TTATTGTTA
*
6740147 TTGTTG-T-
1 TTATTGTTA
*
6740154 TTATTATTA
1 TTATTGTTA
*
6740163 -TATTCTTAA
1 TTATTGTT-A
6740172 TTATTGTTA
1 TTATTGTTA
6740181 TTA---TTA
1 TTATTGTTA
*
6740187 TTTTTGTTCA
1 TTATTGTT-A
*
6740197 TTACTTTTTA
1 TTA-TTGTTA
*
6740207 TTATTATTA
1 TTATTGTTA
*
6740216 TTATTATTA
1 TTATTGTTA
6740225 TTATT
1 TTATT
6740230 TATTTTAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 18
0.71 0.10 0.20
Matches are distributed among these distances:
6 5 0.08
7 4 0.06
8 8 0.12
9 31 0.48
10 13 0.20
11 4 0.06
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.67
Consensus pattern (9 bp):
TTATTGTTA
Found at i:6741264 original size:16 final size:16
Alignment explanation
Indices: 6741238--6741290 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
6741228 CTCTGTTCTT
6741238 TTTTTTAAATTTTATTA
1 TTTTTT-AATTTTATTA
*
6741255 TTTTTTAATTTTTTTA
1 TTTTTTAATTTTATTA
* *
6741271 TTATGTT-ATTTGATTA
1 TT-TTTTAATTTTATTA
6741287 TTTT
1 TTTT
6741291 ATTTTTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 1 0.03
16 20 0.67
17 9 0.30
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTTTTAATTTTATTA
Found at i:6741709 original size:100 final size:100
Alignment explanation
Indices: 6741526--6741739 Score: 306
Period size: 100 Copynumber: 2.1 Consensus size: 100
6741516 ATGAATGTAT
* * **
6741526 CCGGAGGTTTTGAAGATGTTCCCGAAGGTTTTAGAAGAAAAGGTTGTTCCTCATCTCAGAATAAG
1 CCGGAGGTTTTGGA-ATGTACCCGAAGGTTTTAGAAGAAAAACTTGTTCCTCATCTCAGAATAAG
6741591 GCTACATAACTTTGAAGAAATCTTGAAA-CAAATTAC
65 GCTACATAACTTTGAAGAAATCTTGAAACCAAA-TAC
* * *
6741627 CCGGAGGTTTTAGGAATGTACCCGGAGGTTTTAGAAGAAAAACTTGTT-CTCATCTTAGAATGAG
1 CCGGAGGTTTT-GGAATGTACCCGAAGGTTTTAGAAGAAAAACTTGTTCCTCATCTCAGAATAAG
6741691 GCTACATAACTTTGAAGAAATCTTGAAACCAAATAC
65 GCTACATAACTTTGAAGAAATCTTGAAACCAAATAC
**
6741727 CTAGAGGTTTTGG
1 CCGGAGGTTTTGG
6741740 GAATATACTT
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
99 2 0.02
100 54 0.53
101 44 0.43
102 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (100 bp):
CCGGAGGTTTTGGAATGTACCCGAAGGTTTTAGAAGAAAAACTTGTTCCTCATCTCAGAATAAGG
CTACATAACTTTGAAGAAATCTTGAAACCAAATAC
Done.