Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 33 of 295
Found at i:9863435 original size:7 final size:7
Alignment explanation
Indices: 9863423--9863450 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9863413 ACGTACATAT
9863423 GTCACGG
1 GTCACGG
9863430 GTCACGG
1 GTCACGG
9863437 GTCACGG
1 GTCACGG
9863444 GTCACGG
1 GTCACGG
9863451 ATTAAAGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.43, T:0.14
Consensus pattern (7 bp):
GTCACGG
Found at i:9864315 original size:27 final size:27
Alignment explanation
Indices: 9864284--9864337 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
9864274 AACCAATAGA
*
9864284 AGGATTTATAGTAGATTAATATAGAGT
1 AGGATTTATAGTAGATTAATACAGAGT
* *
9864311 AGGATTTCTAGTATATTAATACAGAGT
1 AGGATTTATAGTAGATTAATACAGAGT
9864338 TAGTGTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (27 bp):
AGGATTTATAGTAGATTAATACAGAGT
Found at i:9866364 original size:18 final size:18
Alignment explanation
Indices: 9866340--9866427 Score: 131
Period size: 18 Copynumber: 4.9 Consensus size: 18
9866330 CCGTTTATGG
*
9866340 TACTATTCACGTATACAA
1 TACTATTCACGTATACGA
*
9866358 CACTATTCACGTATACGA
1 TACTATTCACGTATACGA
*
9866376 TACTATTCACGTATACGG
1 TACTATTCACGTATACGA
*
9866394 TACTATTCACGTATACGG
1 TACTATTCACGTATACGA
*
9866412 TACTGTTCACGTATAC
1 TACTATTCACGTATAC
9866428 AATAGTTGGG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (18 bp):
TACTATTCACGTATACGA
Found at i:9873757 original size:19 final size:19
Alignment explanation
Indices: 9873733--9873772 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
9873723 ATAATGGTAA
9873733 TAAGAAAAACTGTTATACT
1 TAAGAAAAACTGTTATACT
9873752 TAAGAAAAACTGTTATACT
1 TAAGAAAAACTGTTATACT
9873771 TA
1 TA
9873773 GGTGAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (19 bp):
TAAGAAAAACTGTTATACT
Found at i:9880794 original size:27 final size:26
Alignment explanation
Indices: 9880734--9880795 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
9880724 ATTTTATTTT
9880734 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
9880760 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
9880788 ATTTTATT
1 ATTTTATT
9880796 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:9881964 original size:46 final size:46
Alignment explanation
Indices: 9881897--9881984 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
9881887 TATTCCCATA
9881897 TTCTTGAGTCTGCAGCAAATGCAGGAACTCGAAACCTA-TTTCCGTG
1 TTCTTGAGTCTGCAGCAAATGCAGGAACTCG-AACCTACTTTCCGTG
9881943 TTCTTGAGTCTGCAGCAAATGCAGGAACTCGAACCTACTTTC
1 TTCTTGAGTCTGCAGCAAATGCAGGAACTCGAACCTACTTTC
9881985 GTATTCTCGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
45 6 0.15
46 35 0.85
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (46 bp):
TTCTTGAGTCTGCAGCAAATGCAGGAACTCGAACCTACTTTCCGTG
Found at i:9885285 original size:16 final size:17
Alignment explanation
Indices: 9885264--9885297 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9885254 TTGGGTTTGA
*
9885264 TTTTA-TTATTTTGTTT
1 TTTTATTTATTTGGTTT
9885280 TTTTATTTATTTGGTTT
1 TTTTATTTATTTGGTTT
9885297 T
1 T
9885298 AGGACCGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTTATTTATTTGGTTT
Found at i:9885597 original size:45 final size:46
Alignment explanation
Indices: 9885547--9885653 Score: 119
Period size: 46 Copynumber: 2.3 Consensus size: 46
9885537 TGGGACTAAA
*
9885547 GGAGATAAGAATTG-GTAATTTCATCCTACTCTACTGCAACTTTAG
1 GGAGATAAGAATTGTGTAATTTCATCCTACTCTACTGCAACTTCAG
* ** * * *
9885592 GGAGATATGGTTTGTGTAGTTTTATCCTGCTCTACTGCAACTTCAG
1 GGAGATAAGAATTGTGTAATTTCATCCTACTCTACTGCAACTTCAG
*
9885638 AGAGATAA-AGATTGTG
1 GGAGATAAGA-ATTGTG
9885654 GCTTCGATCT
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
45 11 0.22
46 38 0.78
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (46 bp):
GGAGATAAGAATTGTGTAATTTCATCCTACTCTACTGCAACTTCAG
Found at i:9885879 original size:102 final size:102
Alignment explanation
Indices: 9885703--9885896 Score: 318
Period size: 102 Copynumber: 1.9 Consensus size: 102
9885693 TTATAGCTTT
*
9885703 GATCTACTCCGTTGGAACTTCAAGAAGGTAAAAATTAGTAATTTCAACCTGCTCCACTGCAACTT
1 GATCTACTCCGCTGGAACTTCAAGAAGGTAAAAATTAGTAATTTCAACCTGCTCCACTGCAACTT
*
9885768 CAGGGAGATAAGGCTGGTGGCTTCAATTTGTAGTTTC
66 CAGGGAGATAAGGCTAGTGGCTTCAATTTGTAGTTTC
* * * *
9885805 GATCTACTCCGCTGGAACTTCAAGGAGGTAAGAATTGGTAGTTTCAACCTGCTCCA-TCGCAACT
1 GATCTACTCCGCTGGAACTTCAAGAAGGTAAAAATTAGTAATTTCAACCTGCTCCACT-GCAACT
9885869 TCAGGGAGATAAGGCTAGTGGCTTCAAT
65 TCAGGGAGATAAGGCTAGTGGCTTCAAT
9885897 ATGCTTTACT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
101 1 0.01
102 84 0.99
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (102 bp):
GATCTACTCCGCTGGAACTTCAAGAAGGTAAAAATTAGTAATTTCAACCTGCTCCACTGCAACTT
CAGGGAGATAAGGCTAGTGGCTTCAATTTGTAGTTTC
Found at i:9886023 original size:143 final size:143
Alignment explanation
Indices: 9885863--9886225 Score: 528
Period size: 143 Copynumber: 2.5 Consensus size: 143
9885853 CTGCTCCATC
* * **
9885863 GCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATATGCTTTACTGCAACTTCAGGAAGATAAGAT
1 GCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
* ** * * *
9885928 TCGCCATAATTTGTAGCTTCAATCTATTCCACTGCAATTCTAGGGAAACAAGATTGGGTTTCTTC
66 CCGCCATAATTCATAGCTTCAATCTATTCCACTGCAACTCCAGGGAAACAAGATTCGGTTTCTTC
* *
9885993 AGTCTGGTCCGTT
131 AGTCTGCTCCGCT
* * *
9886006 GCAACTTTAGGGGGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGT
1 GCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
* * * *
9886071 CCGCCATAATTCATAGCTTCAATCTGTTCCACTGCAACTCCAGGGAAATAAGATTCGTTTTCTTT
66 CCGCCATAATTCATAGCTTCAATCTATTCCACTGCAACTCCAGGGAAACAAGATTCGGTTTCTTC
*
9886136 AGTCTGCTCTGCT
131 AGTCTGCTCCGCT
* *
9886149 GCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAGGAT
1 GCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
9886214 CCGCCATAATTC
66 CCGCCATAATTC
9886226 GTTAGGGGTG
Statistics
Matches: 195, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
143 195 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (143 bp):
GCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
CCGCCATAATTCATAGCTTCAATCTATTCCACTGCAACTCCAGGGAAACAAGATTCGGTTTCTTC
AGTCTGCTCCGCT
Found at i:9886199 original size:44 final size:45
Alignment explanation
Indices: 9886086--9886209 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 45
9886076 ATAATTCATA
* * * * * *
9886086 GCTTCAATCTGTTCCACTGCAACTCCAGGGAAATAAGATTCGTTT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGGTG
* * * **
9886131 TCTTTAGTCTGCTCTGCTGCAACTTCAGGGAGATAAGACT-GGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGGTG
*
9886175 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
9886210 GGATCCGCCA
Statistics
Matches: 62, Mismatches: 17, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
44 31 0.50
45 31 0.50
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (45 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGGTG
Found at i:9886603 original size:19 final size:19
Alignment explanation
Indices: 9886576--9886615 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9886566 CCAAAACCCT
* * *
9886576 CAAATTTTTTATTTTCCCC
1 CAAAATTTTTACTCTCCCC
9886595 CAAAATTTTTACTCTCCCC
1 CAAAATTTTTACTCTCCCC
9886614 CA
1 CA
9886616 CTTTCCCCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.33, G:0.00, T:0.42
Consensus pattern (19 bp):
CAAAATTTTTACTCTCCCC
Found at i:9887502 original size:53 final size:53
Alignment explanation
Indices: 9887439--9887547 Score: 182
Period size: 53 Copynumber: 2.1 Consensus size: 53
9887429 ACCCATATAA
* *
9887439 TTCGTAGCTTCAATCTGTTCCACTGCAACTCCAGGGAAATAATATTCACTTTC
1 TTCGTAGCTTCAATCTGTTCCACTACAACTCCAGGGAAATAAGATTCACTTTC
**
9887492 TTCGTAGCTTCAATCTGTTCCACTACAACTCCAGGGAAATAAGATTCGTTTTC
1 TTCGTAGCTTCAATCTGTTCCACTACAACTCCAGGGAAATAAGATTCACTTTC
9887545 TTC
1 TTC
9887548 AGTCTGTTCC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (53 bp):
TTCGTAGCTTCAATCTGTTCCACTACAACTCCAGGGAAATAAGATTCACTTTC
Found at i:9888124 original size:46 final size:46
Alignment explanation
Indices: 9888066--9888215 Score: 194
Period size: 46 Copynumber: 3.3 Consensus size: 46
9888056 AAATTTGGTT
* *
9888066 TCTTCCATCCATCCCACTGCAACTTAGGGGTATGGGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGATTTGTATCA
*
9888112 TCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGATTTGTATCT
1 TCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGATTTGTATCA
** * * * * *
9888158 TCTTCAATCCATCCCTTTACAACTAAGGAGTACATGATTTGTAT-A
1 TCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGATTTGTATCA
9888203 TTCTTCAATCCAT
1 -TCTTCAATCCAT
9888216 TGATCTGGGT
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 92 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGATTTGTATCA
Found at i:9889061 original size:12 final size:12
Alignment explanation
Indices: 9889046--9889102 Score: 64
Period size: 11 Copynumber: 4.9 Consensus size: 12
9889036 TCCTTTTTTA
*
9889046 TTTTTCTTTTCT
1 TTTTTCTTTTGT
*
9889058 TTTTTCTTTTAT
1 TTTTTCTTTTGT
*
9889070 TTTTT-TGTTGT
1 TTTTTCTTTTGT
*
9889081 TTTTT-TGTTGT
1 TTTTTCTTTTGT
9889092 TTTTTCTTTTG
1 TTTTTCTTTTG
9889103 AAGATACTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
11 20 0.50
12 20 0.50
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTGT
Found at i:9896036 original size:15 final size:16
Alignment explanation
Indices: 9896016--9896049 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9896006 TTGGGTTTAA
*
9896016 TTTTA-TTATTTTGTT
1 TTTTATTTATTTGGTT
9896031 TTTTATTTATTTGGTT
1 TTTTATTTATTTGGTT
9896047 TTT
1 TTT
9896050 GGCTCAGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (16 bp):
TTTTATTTATTTGGTT
Found at i:9901477 original size:53 final size:53
Alignment explanation
Indices: 9901397--9901503 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
9901387 ATTCAAATGT
*
9901397 ATATAATACAATGGACCGGGTAACAAGTGTGATTGAGTTTCGGTCTGAATTAA
1 ATATAATACAATGGACCGGGTAACAAGTGTGACTGAGTTTCGGTCTGAATTAA
*
9901450 ATATAATACAATGGACCGGGTAACAAGTGTGACTGGGTTTCGGTCTGAATTAA
1 ATATAATACAATGGACCGGGTAACAAGTGTGACTGAGTTTCGGTCTGAATTAA
9901503 A
1 A
9901504 ATTTTGAGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (53 bp):
ATATAATACAATGGACCGGGTAACAAGTGTGACTGAGTTTCGGTCTGAATTAA
Found at i:9909783 original size:33 final size:33
Alignment explanation
Indices: 9909734--9909857 Score: 212
Period size: 33 Copynumber: 3.8 Consensus size: 33
9909724 TTTCTTCTTG
* *
9909734 ACATTCCAACTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
9909767 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
9909800 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
9909833 ACATTTCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
9909858 TGAAACAGAG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.31, C:0.42, G:0.09, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:9927734 original size:33 final size:33
Alignment explanation
Indices: 9927696--9927794 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
9927686 AACTGAGTAG
* *
9927696 GAGTGTTTGGTTGCTGGATAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
9927729 GAGTGTTTTGCTGTTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
9927762 GGGTGTTTTGTTGCTGGACAGGAGTTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
9927795 CAAGAAGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.17, C:0.07, G:0.41, T:0.34
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:9942602 original size:2 final size:2
Alignment explanation
Indices: 9942595--9942621 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9942585 GCCAACTGAT
9942595 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
9942622 TTGCTGATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9943819 original size:374 final size:375
Alignment explanation
Indices: 9943107--9943859 Score: 1382
Period size: 374 Copynumber: 2.0 Consensus size: 375
9943097 ATTGGTCAAT
9943107 TTGAGAAATGGATTAATCAGACTCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATT
1 TTGAGAAATGGATTAATCAGAC-CTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATT
*
9943172 CAATAGTTTTGTACGGTCTTGTAAAAAATTGTTACCAAAAGGAACAAAAAATTAAGACCATTCAT
65 CAATAGTTTTGTACGGTCTTGTAAAAAATTATTACCAAAAGGAACAAAAAATTAAGACCATTCAT
*
9943237 ACTAACCTGGGCAGCTCTTAAGTAATCAAGCTTCGATCCTCCTGTTGGAAGATGCATCGTTGATA
130 ACTAACCTGGGCAGCTCTTAAGCAATCAAGCTTCGATCCTCCTGTTGGAAGATGCATCGTTGATA
9943302 ATATTATTATCGTATAAAAATGATTCATATAATAGGTAAGAGGTCAGGCAAGTAAGAGCGGGTGG
195 ATATTATTATCGTATAAAAATGATTCATATAATAGGTAAGAGGTCAGGCAAGTAAGAGCGGGTGG
9943367 TGACTAAAATTAATCTCAAGAAAACTTATGATATATTGGATTGAAATTTTATAGAGGATGTACTT
260 TGACTAAAATTAATCTCAAGAAAACTTATGATATATTGGATTGAAATTTTATAGAGGATGTACTT
*
9943432 GTTGATATTGAGCAACTTAGTCAATTACATAATTTTGTATTGTGTCATAAA
325 GTTGATATTGAGCAACATAGTCAATTACATAATTTTGTATTGTGTCATAAA
*
9943483 TTGAGAAATGGATTAATCAGA-CTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGACAATTC
1 TTGAGAAATGGATTAATCAGACCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATTC
*
9943547 AATAGTTTTGTACGGTCTTGTAAAAAATTATTACCAAAAGGAACAAAAAATTAAGACCGTTCATA
66 AATAGTTTTGTACGGTCTTGTAAAAAATTATTACCAAAAGGAACAAAAAATTAAGACCATTCATA
* * *
9943612 CTAACGTGGGCAGTTCTTAAGCAATCAAGCTTCTATCCTCCTGTTGGAAGATGCATCGTTGATAA
131 CTAACCTGGGCAGCTCTTAAGCAATCAAGCTTCGATCCTCCTGTTGGAAGATGCATCGTTGATAA
* *
9943677 TATTATTATTGTATAAAAATGATTCATATAATATGTAAGAGGTCAGGCAAGTAAGAGCGGGTGGT
196 TATTATTATCGTATAAAAATGATTCATATAATAGGTAAGAGGTCAGGCAAGTAAGAGCGGGTGGT
* *
9943742 GACTAAAATTAATCTCGAGAAAACTTATGATATATTGGATTGGAATTTTATAGAGGATGTACTTG
261 GACTAAAATTAATCTCAAGAAAACTTATGATATATTGGATTGAAATTTTATAGAGGATGTACTTG
9943807 TTGATATTGAGCAACATAGTCAATTACATAATTTTGTATTGTGTCATAAA
326 TTGATATTGAGCAACATAGTCAATTACATAATTTTGTATTGTGTCATAAA
9943857 TTG
1 TTG
9943860 CTTTCTATGT
Statistics
Matches: 365, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
374 344 0.94
376 21 0.06
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (375 bp):
TTGAGAAATGGATTAATCAGACCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATTC
AATAGTTTTGTACGGTCTTGTAAAAAATTATTACCAAAAGGAACAAAAAATTAAGACCATTCATA
CTAACCTGGGCAGCTCTTAAGCAATCAAGCTTCGATCCTCCTGTTGGAAGATGCATCGTTGATAA
TATTATTATCGTATAAAAATGATTCATATAATAGGTAAGAGGTCAGGCAAGTAAGAGCGGGTGGT
GACTAAAATTAATCTCAAGAAAACTTATGATATATTGGATTGAAATTTTATAGAGGATGTACTTG
TTGATATTGAGCAACATAGTCAATTACATAATTTTGTATTGTGTCATAAA
Found at i:9946612 original size:24 final size:24
Alignment explanation
Indices: 9946580--9946628 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9946570 GTGAGGAAAT
9946580 AAAATAGTATGATATAAAAAGAAC
1 AAAATAGTATGATATAAAAAGAAC
9946604 AAAATAGTATGATATAAAAAGAAC
1 AAAATAGTATGATATAAAAAGAAC
9946628 A
1 A
9946629 GTAGTGTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.20
Consensus pattern (24 bp):
AAAATAGTATGATATAAAAAGAAC
Found at i:9949968 original size:2 final size:2
Alignment explanation
Indices: 9949961--9950042 Score: 62
Period size: 2 Copynumber: 42.0 Consensus size: 2
9949951 ATATTTTCTT
* * * *
9949961 AG AG AG AG AG AG AG AG GG AG AT ATG -G AG AG AG GG AG AG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG A-G AG AG AG AG AG AG AG AG AG
* * * *
9950003 AG AG AG AG A- AG -G AG AG AG AA AG GG AG AG AG GG GG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9950043 GGAGGGAGGG
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
1 3 0.05
2 59 0.95
ACGTcount: A:0.43, C:0.00, G:0.55, T:0.02
Consensus pattern (2 bp):
AG
Found at i:9950011 original size:22 final size:21
Alignment explanation
Indices: 9949962--9950088 Score: 74
Period size: 20 Copynumber: 6.1 Consensus size: 21
9949952 TATTTTCTTA
*
9949962 GAGAGAGAGAGAGAGGGAGATATG
1 GAGAGAGAG-GAGAGGGAG--AGG
*
9949986 GAGAGAG-GGAGAGGGAGAGA
1 GAGAGAGAGGAGAGGGAGAGG
* *
9950006 GAGAGA-AGGAGAGAGAAAGG
1 GAGAGAGAGGAGAGGGAGAGG
*
9950026 GAGAGAGGGGGAGAGAGG-GAGG
1 GAGAGA-GAGGAGAG-GGAGAGG
9950048 GAG-G-GAGG-GAGGGAGGAAGG
1 GAGAGAGAGGAGAGGGA-G-AGG
*
9950068 GAG-G-GAGG-GAGGGAGAAG
1 GAGAGAGAGGAGAGGGAGAGG
9950086 GAG
1 GAG
9950089 CATTAGGAGG
Statistics
Matches: 86, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
17 2 0.02
18 8 0.09
19 5 0.06
20 40 0.47
21 1 0.01
22 21 0.24
23 2 0.02
24 7 0.08
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.02
Consensus pattern (21 bp):
GAGAGAGAGGAGAGGGAGAGG
Found at i:9950045 original size:8 final size:8
Alignment explanation
Indices: 9949962--9950078 Score: 89
Period size: 8 Copynumber: 14.4 Consensus size: 8
9949952 TATTTTCTTA
*
9949962 GAGAGAGA
1 GAGAGAGG
9949970 GAGAGAGG
1 GAGAGAGG
* *
9949978 GAGATATG
1 GAGAGAGG
9949986 GAGAGA-G
1 GAGAGAGG
9949993 G-GAGAGG
1 GAGAGAGG
*
9950000 GAGAGAGA
1 GAGAGAGG
9950008 GAGA-AGG
1 GAGAGAGG
9950015 AGAGAGAAAGG
1 -GAGAG--AGG
9950026 GAGAGAGGGG
1 GAGAGA--GG
9950036 GAGAGAGG
1 GAGAGAGG
*
9950044 GAGGGAGG
1 GAGAGAGG
*
9950052 GAGGGAGG
1 GAGAGAGG
9950060 GAG-GAAGG
1 GAGAG-AGG
*
9950068 GAGGGAGG
1 GAGAGAGG
9950076 GAG
1 GAG
9950079 GGAGAAGGAG
Statistics
Matches: 92, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
6 4 0.04
7 7 0.08
8 64 0.70
9 1 0.01
10 13 0.14
11 3 0.03
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.02
Consensus pattern (8 bp):
GAGAGAGG
Found at i:9950049 original size:4 final size:4
Alignment explanation
Indices: 9950034--9950082 Score: 80
Period size: 4 Copynumber: 12.2 Consensus size: 4
9950024 GGGAGAGAGG
* *
9950034 GGGA GAGA GGGA GGGA GGGA GGGA GGGA GGAA GGGA GGGA GGGA GGGA
1 GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA
9950082 G
1 G
9950083 AAGGAGCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (4 bp):
GGGA
Found at i:9960762 original size:23 final size:23
Alignment explanation
Indices: 9960736--9960780 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9960726 ATTTTTATAA
9960736 ATATTAGTTATATATTATCTATT
1 ATATTAGTTATATATTATCTATT
* * *
9960759 ATATTATTTTTATCTTATCTAT
1 ATATTAGTTATATATTATCTAT
9960781 AAATTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATTAGTTATATATTATCTATT
Found at i:9960914 original size:15 final size:15
Alignment explanation
Indices: 9960894--9960925 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9960884 TATATATTAC
9960894 ATTCCCTCTTTTATT
1 ATTCCCTCTTTTATT
9960909 ATTCCCTCTTTTATT
1 ATTCCCTCTTTTATT
9960924 AT
1 AT
9960926 ACATTTTTAT
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:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTCCCTCTTTTATT
Found at i:9961202 original size:19 final size:19
Alignment explanation
Indices: 9961178--9961220 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9961168 ATGTTTCTAT
9961178 TATTTAGTATTCCTTATA-A
1 TATTTA-TATTCCTTATATA
* *
9961197 TATTTATCTTTCTTATATA
1 TATTTATATTCCTTATATA
9961216 TATTT
1 TATTT
9961221 TTTATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (19 bp):
TATTTATATTCCTTATATA
Found at i:9961238 original size:15 final size:14
Alignment explanation
Indices: 9961196--9961238 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
9961186 ATTCCTTATA
*
9961196 ATATTTATCTTTCTT
1 ATATATATCTTT-TT
9961211 ATATATAT-TTTTT
1 ATATATATCTTTTT
9961224 ATATATATCTATTTT
1 ATATATATCT-TTTT
9961239 GTTTTTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 10 0.40
14 4 0.16
15 11 0.44
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (14 bp):
ATATATATCTTTTT
Found at i:9965397 original size:14 final size:14
Alignment explanation
Indices: 9965376--9965416 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
9965366 TTTCAACTTG
9965376 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
9965390 TGCAACTTGCAAAT
1 CACAACTTGCACAT
9965404 CACAACTTGCACA
1 CACAACTTGCACA
9965417 ATTAGGTAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:9966621 original size:2 final size:2
Alignment explanation
Indices: 9966616--9966678 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
9966606 ATATTCTCTT
9966616 AG AG AG AG AG AG AG 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 AG AG AG AG AG AG AG
9966658 AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG
9966679 GGAGGGAGGG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9970271 original size:17 final size:17
Alignment explanation
Indices: 9970249--9970282 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9970239 TTAATTTCCC
*
9970249 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
9970266 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
9970283 GATTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:9970374 original size:21 final size:23
Alignment explanation
Indices: 9970323--9970386 Score: 58
Period size: 26 Copynumber: 2.6 Consensus size: 23
9970313 TTCATGTGTA
9970323 ATATTTAATTTAAACTGTTTTAT
1 ATATTTAATTTAAACTGTTTTAT
* *
9970346 ATGTTATTTACTTTAAA-TTTTTATAT
1 A---TATTTAATTTAAACTGTTT-TAT
9970372 ATTATTTAATTTAAA
1 A-TATTTAATTTAAA
9970387 TTTCTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 1 0.03
24 13 0.38
25 4 0.12
26 16 0.47
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (23 bp):
ATATTTAATTTAAACTGTTTTAT
Found at i:9970376 original size:24 final size:24
Alignment explanation
Indices: 9970324--9970389 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
9970314 TCATGTGTAA
*
9970324 TATTTAATTTAAACTGTTTTATATGT
1 TATTTAATTTAAA-T-TTTTATATAT
*
9970350 TATTTACTTTAAATTTTTATATAT
1 TATTTAATTTAAATTTTTATATAT
9970374 TATTTAATTTAAATTT
1 TATTTAATTTAAATTT
9970390 CTTTTTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 24 0.65
25 1 0.03
26 12 0.32
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (24 bp):
TATTTAATTTAAATTTTTATATAT
Found at i:9975643 original size:42 final size:42
Alignment explanation
Indices: 9975584--9975668 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
9975574 GTATTCTACC
* *
9975584 TAAAAAGAAAGAGGCCAA-GATGAAAACCCACAAAGGGCGCAT
1 TAAAAAAAAAGAGGCCAATG-TGAAAACCCACAAAGGGCACAT
* *
9975626 TAAAAAAAAAGAGGCCAATGTGAAAACTCGCAAAGGGCACAT
1 TAAAAAAAAAGAGGCCAATGTGAAAACCCACAAAGGGCACAT
9975668 T
1 T
9975669 GAGACCAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.49, C:0.18, G:0.22, T:0.11
Consensus pattern (42 bp):
TAAAAAAAAAGAGGCCAATGTGAAAACCCACAAAGGGCACAT
Found at i:9976889 original size:66 final size:66
Alignment explanation
Indices: 9976778--9976902 Score: 214
Period size: 66 Copynumber: 1.9 Consensus size: 66
9976768 TATCATCCAT
* * *
9976778 AACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACACATTCA
1 AACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATCATTTGACACATTCA
9976843 C
66 C
*
9976844 AACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATCATTTGACA
1 AACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATCATTTGACA
9976903 TAAGCATAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (66 bp):
AACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATCATTTGACACATTCA
C
Found at i:9977153 original size:45 final size:44
Alignment explanation
Indices: 9977089--9977215 Score: 141
Period size: 44 Copynumber: 2.9 Consensus size: 44
9977079 AGAATTACAT
*
9977089 ATCTTGTCTCCCTGAAGTTGCGGTGGAACAGATCGAA-TCCAGCGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGT-CA-CGA
* * * * * *
9977134 ATCTTGTCTTCCTGAAGTTGTAGT-GAAGTAGGTTGAAGTCACTA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAA-CAGATCGAAGTCACGA
*
9977178 GTCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAG
9977216 ACGGTGAGCC
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
44 33 0.50
45 32 0.48
46 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (44 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGTCACGA
Found at i:9977359 original size:45 final size:45
Alignment explanation
Indices: 9977310--9977697 Score: 167
Period size: 45 Copynumber: 8.7 Consensus size: 45
9977300 AAGACGGTAG
* *
9977310 ATCTTGTCTCCCTAAAGTTGTAGTGGAGCAGATCGAATACAGTGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATACAGTGA
* * * *
9977355 ATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGT-CACT-A
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAA-TACAGTGA
* * * * * *
9977399 GTCTTGTCTCCCTGAAGTTGCAATGGAACAAATCGAAGACGGTGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATACAGTGA
** ** ** * ** *
9977444 GCCTTAAAC-CCCT-AAGCAGTAG-GGTAAAAG-GCTGAATTTACA--G-
1 ATCTT-GTCTCCCTGAAGTTGCAGTGG-AGCAGATC-GAA--TACAGTGA
* * * * ** * *
9977487 ATCTTATCACCCT-AAGTAGTAG-GGAAATAGATCGAAGACGGT-A
1 ATCTTGTCTCCCTGAAGTTGCAGTGG-AGCAGATCGAATACAGTGA
*
9977530 GATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATACAGCGA
1 -ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATACAGTGA
* * * * *
9977576 ATCTTGTCTTCCTGAAGTTGTAGTGAAGCAGATTGAAGT-CACT-A
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAA-TACAGTGA
* * * * * *
9977620 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CTGAAGATAGTAA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATC-GAATACAGTGA
* * * *
9977665 ATCTTATTTCCCTGAATTTGCAGTGGAACAGAT
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGAT
9977698 TGAAGCTAAA
Statistics
Matches: 254, Mismatches: 67, Indels: 43
0.70 0.18 0.12
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 27 0.11
44 89 0.35
45 126 0.50
46 8 0.03
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATACAGTGA
Found at i:9977437 original size:221 final size:221
Alignment explanation
Indices: 9977089--9977646 Score: 963
Period size: 221 Copynumber: 2.5 Consensus size: 221
9977079 AGAATTACAT
* * *
9977089 ATCTTGTCTCCCTGAAGTTGCGGTGGAACAGATCGAATCCAGCGAATCTTGTCTTCCTGAAGTTG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTG
* * *
9977154 TAGTGAAGTAGGTTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACG
66 TAGTGAAGCAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAAATCGAAGACG
*
9977219 GTGAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCA
131 GTGAGCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTACAGATCTTATCACCCTAAGCA
9977284 GTAGGGAAACAGATAGAAGACGGTAG
196 GTAGGGAAACAGATAGAAGACGGTAG
* * *
9977310 ATCTTGTCTCCCTAAAGTTGTAGTGGAGCAGATCGAATACAGTGAATCTTGTCTTCCTGAAGTTG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTG
* *
9977375 CAGTGAAGCAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAATGGAACAAATCGAAGACG
66 TAGTGAAGCAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAAATCGAAGACG
*
9977440 GTGAGCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTACAGATCTTATCACCCTAAGTA
131 GTGAGCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTACAGATCTTATCACCCTAAGCA
* *
9977505 GTAGGGAAATAGATCGAAGACGGTAG
196 GTAGGGAAACAGATAGAAGACGGTAG
9977531 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTG
* *
9977596 TAGTGAAGCAGATTGAAGTCACTAGTCTTATCTCCCTAAAGTTGCAGTGGA
66 TAGTGAAGCAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAGTGGA
9977647 GCAGACTGAA
Statistics
Matches: 315, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
221 315 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (221 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTG
TAGTGAAGCAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAAATCGAAGACG
GTGAGCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTACAGATCTTATCACCCTAAGCA
GTAGGGAAACAGATAGAAGACGGTAG
Found at i:9977668 original size:89 final size:89
Alignment explanation
Indices: 9977532--9977826 Score: 217
Period size: 89 Copynumber: 3.3 Consensus size: 89
9977522 AGACGGTAGA
* * * * *
9977532 TCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAATACAGCGAATCTTGTCTT-CCTGAAGTTG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGACAGCAAATCTTAT-TTCCCTGAAGTTG
*
9977596 TAGT-GAAGCAGATTGAAGTCACTAG
65 CAGTGGAA-CAGATTGAAGTCACTAG
* * *
9977621 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CTGAAGATAGTAAATCTTATTTCCCTGAATTTG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATC-GAAGACAGCAAATCTTATTTCCCTGAAGTTG
* *
9977685 CAGTGGAACAGATTGAAGCTAAATTACAG
65 CAGTGGAACAGATTGAAG-T-CACT--AG
** * * * * * *
9977714 ATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATC--A-TCA-CAAATCTTATCTCTCTGAAGTTA
1 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGACAGCAAATCTTATTTCCCTGAAGTTG
* * * * * * *
9977775 CAGCGGAGCAGACTAAAGATAACAAA
65 CAGTGGAACAGATTGAAG-TCACTAG
*
9977801 TCTTATCTCCCTGAAGTTGCAGTGGA
1 TCTTATCTCCCTAAAGTTGCAGTGGA
9977827 ATAGATTAAA
Statistics
Matches: 164, Mismatches: 33, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
86 23 0.14
87 1 0.01
88 3 0.02
89 66 0.40
90 37 0.23
91 3 0.02
92 1 0.01
93 2 0.01
94 27 0.16
95 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (89 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGACAGCAAATCTTATTTCCCTGAAGTTGC
AGTGGAACAGATTGAAGTCACTAG
Found at i:9977736 original size:49 final size:46
Alignment explanation
Indices: 9977621--9977920 Score: 185
Period size: 45 Copynumber: 6.7 Consensus size: 46
9977611 AAGTCACTAG
* * * * * *
9977621 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGA-AGA-TAGTAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAACAAATTA-CAAA
* * * * *
9977666 TCTTATTTCCCTGAATTTGCAGTGGAACAGATTGAAGCTAAATTACAGA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA-C-AAATTACAAA
* * *
9977715 TCTTATCTCTTTGAAGTTGCAGTAGAGCAGA-T--C--ATCACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAACAAATTACAAA
* * * * *
9977756 TCTTATCTCTCTGAAGTTACAGCGGAGCAGACTAA-AGATAACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAACAAATTACAAA
* ** **
9977801 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTAAATTACGGA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA-C-AAATTACAAA
* *
9977850 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-T--CAAA--ACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAACAAATTACAAA
* * *
9977891 CCTTATCTCCCTGTAGTTGCAGTGGAGCAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAG
9977921 TGGATTGGAA
Statistics
Matches: 197, Mismatches: 44, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
41 61 0.31
42 1 0.01
43 3 0.02
44 2 0.01
45 62 0.31
46 3 0.02
48 2 0.01
49 61 0.31
50 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (46 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAACAAATTACAAA
Found at i:9977771 original size:41 final size:43
Alignment explanation
Indices: 9977531--9977920 Score: 157
Period size: 45 Copynumber: 8.7 Consensus size: 43
9977521 AAGACGGTAG
* * * *
9977531 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGA-ATACAGCGA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-CTACATA-A-CAA
* * * * * *
9977576 ATCTTGTCT-TCCTGAAGTTGTAGTGAAGCAGATTGA-AGTCACTA
1 ATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGACT-ACA-TAACAA
* * * * **
9977620 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACT--ACATAACAA
* * * * * * *
9977665 ATCTTATTTCCCTGAATTTGCAGTGGAACAGATTGAAGCTAAATTACAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGC--A--G-A-CTACATAACAA
* * *
9977714 ATCTTATCTCTTTGAAGTTGCAGTAGAGCAGA-T-CATCACAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACATAACAA
* * *
9977755 ATCTTATCTCTCTGAAGTTACAGCGGAGCAGACTAAAGATAACAA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACT--ACATAACAA
* ** * *
9977800 ATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTAA-ATTA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACA--TAACA--A
* * *
9977846 CGGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-T-CAAAACAA
1 ---ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACATAACAA
* * *
9977890 ACCTTATCTCCCTGTAGTTGCAGTGGAGCAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAG
9977921 TGGATTGGAA
Statistics
Matches: 258, Mismatches: 63, Indels: 52
0.69 0.17 0.14
Matches are distributed among these distances:
41 59 0.23
42 2 0.01
43 2 0.01
44 31 0.12
45 98 0.38
46 4 0.02
47 3 0.01
48 1 0.00
49 55 0.21
50 1 0.00
51 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACATAACAA
Found at i:9977794 original size:135 final size:135
Alignment explanation
Indices: 9977621--9977920 Score: 438
Period size: 135 Copynumber: 2.2 Consensus size: 135
9977611 AAGTCACTAG
* * ** * *
9977621 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTTCCCTGAATTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGAAGTTGC
* * * **
9977686 AGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCATC
66 AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAA
9977751 ACAAA
131 ACAAA
* * *
9977756 TCTTATCTCTCTGAAGTTACAGCGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGAAGTTGC
* *
9977821 AGTGGAATAGATTAAAGCTAAATTACGGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAA
66 AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAA
9977886 ACAAA
131 ACAAA
* *
9977891 CCTTATCTCCCTGTAGTTGCAGTGGAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
9977921 TGGATTGGAA
Statistics
Matches: 144, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
135 144 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (135 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGAAGTTGC
AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAA
ACAAA
Found at i:9979525 original size:17 final size:17
Alignment explanation
Indices: 9979503--9979536 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9979493 TTAATTTCGC
*
9979503 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
9979520 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
9979537 GATTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:9979624 original size:23 final size:23
Alignment explanation
Indices: 9979594--9979642 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
9979584 ATCTAAACTG
* *
9979594 TTTTATATGTTATTTACTTTAAA
1 TTTTATATATTATTTAATTTAAA
9979617 TTTTATATATTATTTAATTTAAA
1 TTTTATATATTATTTAATTTAAA
9979640 TTT
1 TTT
9979643 CTTTTTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTATATATTATTTAATTTAAA
Found at i:9979699 original size:23 final size:23
Alignment explanation
Indices: 9979604--9979759 Score: 72
Period size: 23 Copynumber: 6.6 Consensus size: 23
9979594 TTTTATATGT
* *
9979604 TATTTACTTTAAATTT-TATATA
1 TATTTATTTTAAATTTCTTTATA
* *
9979626 TTATTTAATTTAAATTTCTTTTTACA
1 -TATTTATTTTAAATTTC--TTTATA
* **
9979652 TATTATTATTTT-GAGCTC-TTA-A
1 TA-T-TTATTTTAAATTTCTTTATA
9979674 TATTTATTTTAAATTTCTTTATA
1 TATTTATTTTAAATTTCTTTATA
*
9979697 TA-TTATTCTAAACTTGTCTTTACATA
1 TATTTATTTTAAA-TT-TCTTT--ATA
*
9979723 TATTTATTTAAAATTGTC-TTATA
1 TATTTATTTTAAATT-TCTTTATA
* *
9979746 CAACTTATTTTAAA
1 -TATTTATTTTAAA
9979760 CTCTCTTATT
Statistics
Matches: 103, Mismatches: 16, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
20 7 0.07
21 4 0.04
22 15 0.15
23 26 0.25
24 15 0.15
25 4 0.04
26 18 0.17
27 14 0.14
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (23 bp):
TATTTATTTTAAATTTCTTTATA
Found at i:9979723 original size:24 final size:22
Alignment explanation
Indices: 9979677--9979723 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
9979667 CTCTTAATAT
* *
9979677 TTATTTTAAATTTCTTTATATA
1 TTATTCTAAATTTCTTTACATA
9979699 TTATTCTAAACTTGTCTTTACATA
1 TTATTCTAAA-TT-TCTTTACATA
9979723 T
1 T
9979724 ATTTATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 2 0.10
24 10 0.48
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATTCTAAATTTCTTTACATA
Found at i:9979723 original size:26 final size:27
Alignment explanation
Indices: 9979673--9979747 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 27
9979663 TGAGCTCTTA
*
9979673 ATATTTATTTTAAATT-TCTT-T--AT
1 ATATTTATTTAAAATTGTCTTATACAT
*
9979696 ATA-TTATTCTAAACTTGTCTT-TACAT
1 ATATTTATT-TAAAATTGTCTTATACAT
9979722 ATATTTATTTAAAATTGTCTTATACA
1 ATATTTATTTAAAATTGTCTTATACA
9979748 ACTTATTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
22 5 0.12
23 8 0.19
24 5 0.12
26 16 0.37
27 9 0.21
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (27 bp):
ATATTTATTTAAAATTGTCTTATACAT
Found at i:9980173 original size:254 final size:254
Alignment explanation
Indices: 9979724--9980239 Score: 1023
Period size: 254 Copynumber: 2.0 Consensus size: 254
9979714 CTTTACATAT
9979724 ATTTATTTAAAATTGTCTTATACAACTTATTTTAAACTCTCTTATTTGTTTAAAATTGTTTTATT
1 ATTTATTTAAAATTGTCTTATACAACTTATTTTAAACTCTCTTATTTGTTTAAAATTGTTTTATT
9979789 ATTGTTCATTTTGGTTTTTTTGACATAGTATTATATATATATATAATATCATCTATTTTAAATTG
66 ATTGTTCATTTTGGTTTTTTTGACATAGTATTATATATATATATAATATCATCTATTTTAAATTG
9979854 ATTTGTATATTGTCGATTTTAAATCTCTTTTTTCACATTATTTTAATCCCATTTATTGTCATTTT
131 ATTTGTATATTGTCGATTTTAAATCTCTTTTTTCACATTATTTTAATCCCATTTATTGTCATTTT
9979919 AAAATGGTTTTACATCTTATTCATTTTTATTTGCTTTATACCTTTTAAATTATTATTAA
196 AAAATGGTTTTACATCTTATTCATTTTTATTTGCTTTATACCTTTTAAATTATTATTAA
9979978 ATTTATTTAAAATTGTCTTATACAACTTATTTTAAACTCTCTTATTTGTTTAAAATTGTTTTATT
1 ATTTATTTAAAATTGTCTTATACAACTTATTTTAAACTCTCTTATTTGTTTAAAATTGTTTTATT
9980043 ATTGTTCATTTTGGTTTTTTTGACATAGTATTATATATATATATAATATCATCTATTTTAAATTG
66 ATTGTTCATTTTGGTTTTTTTGACATAGTATTATATATATATATAATATCATCTATTTTAAATTG
9980108 ATTTGTATATTGTCGATTTTAAATCTCTTTTTTCACATTATTTTAATCCCATTTATTGTCATTTT
131 ATTTGTATATTGTCGATTTTAAATCTCTTTTTTCACATTATTTTAATCCCATTTATTGTCATTTT
9980173 AAAATGGTTTTACATCTTATTCATTTTTATTTGCTTTATACCTTTTAAATTATTATTAA
196 AAAATGGTTTTACATCTTATTCATTTTTATTTGCTTTATACCTTTTAAATTATTATTAA
*
9980232 ATTCATTT
1 ATTTATTT
9980240 GCCTTTAATT
Statistics
Matches: 261, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
254 261 1.00
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.55
Consensus pattern (254 bp):
ATTTATTTAAAATTGTCTTATACAACTTATTTTAAACTCTCTTATTTGTTTAAAATTGTTTTATT
ATTGTTCATTTTGGTTTTTTTGACATAGTATTATATATATATATAATATCATCTATTTTAAATTG
ATTTGTATATTGTCGATTTTAAATCTCTTTTTTCACATTATTTTAATCCCATTTATTGTCATTTT
AAAATGGTTTTACATCTTATTCATTTTTATTTGCTTTATACCTTTTAAATTATTATTAA
Found at i:9982745 original size:6 final size:6
Alignment explanation
Indices: 9982736--9982779 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
9982726 TGCGGCTGTG
9982736 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GC
1 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GC
9982780 ACCAGCTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.18, T:0.32
Consensus pattern (6 bp):
GCTCCT
Found at i:9983135 original size:2 final size:2
Alignment explanation
Indices: 9983128--9983158 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9983118 CAAGAAACCA
9983128 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9983159 ACGAGTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9989313 original size:24 final size:23
Alignment explanation
Indices: 9989282--9989328 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
9989272 ATTACATGAT
*
9989282 TATTCTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTGGGTTGGA
9989305 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGTGTGTTTGGGTTGGA
9989329 ATCCGTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.36, T:0.49
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGGA
Found at i:10005940 original size:38 final size:38
Alignment explanation
Indices: 10005884--10005963 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
10005874 GATGTGTATT
* * *
10005884 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
10005922 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
10005960 CGGG
1 CGGG
10005964 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:10006016 original size:43 final size:43
Alignment explanation
Indices: 10005935--10006166 Score: 342
Period size: 43 Copynumber: 5.4 Consensus size: 43
10005925 GATAAATCCC
* * * *
10005935 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
*
10005976 GCAGGCCTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
*
10006019 GCAGGCTTAGTGCCGGTGATGTGTATTTAGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
* *
10006062 GCAGGCTTCGTGCCAGTGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
* *
10006105 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
* *
10006148 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
10006167 AATGATATGT
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 16 0.09
42 2 0.01
43 158 0.90
ACGTcount: A:0.13, C:0.23, G:0.34, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
Found at i:10006550 original size:45 final size:42
Alignment explanation
Indices: 10006483--10006590 Score: 110
Period size: 45 Copynumber: 2.5 Consensus size: 42
10006473 TTGACTTGAT
** *
10006483 TATTCGGGCCTTTAAGCTTAGCAAACTATAATACCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGT--GA-AC
** *
10006528 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
10006570 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
10006591 ACAGGCGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.24
44 7 0.13
45 32 0.58
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
Found at i:10019442 original size:19 final size:19
Alignment explanation
Indices: 10019418--10019456 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
10019408 TTTTCTTTGT
10019418 ACGTATAAGCATGTTTTTA
1 ACGTATAAGCATGTTTTTA
10019437 ACGTATAAGCATGTTTTTA
1 ACGTATAAGCATGTTTTTA
10019456 A
1 A
10019457 GTCTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (19 bp):
ACGTATAAGCATGTTTTTA
Found at i:10021866 original size:30 final size:31
Alignment explanation
Indices: 10021832--10021898 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
10021822 TGGCCCAAGA
* * *
10021832 GTAAATACTCAAAACTTGAGGGATTAA-AGT
1 GTAAATACTAAAAACTTGAAGGACTAATAGT
* *
10021862 GTAAA-ATTAAAAAGTTGAAGGACTAATAGT
1 GTAAATACTAAAAACTTGAAGGACTAATAGT
10021892 GTAAATA
1 GTAAATA
10021899 TTTTAAGGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 16 0.53
30 13 0.43
31 1 0.03
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAAATACTAAAAACTTGAAGGACTAATAGT
Found at i:10022176 original size:20 final size:19
Alignment explanation
Indices: 10022125--10022178 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
10022115 AATTAGATAA
10022125 TTATTATTTATTTAATATT
1 TTATTATTTATTTAATATT
* ** *
10022144 TTAATAAGATATTTATTATT
1 TT-ATTATTTATTTAATATT
10022164 TTATTATTTTATTTA
1 TTATTA-TTTATTTA
10022179 GTATATATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTATTATTTATTTAATATT
Found at i:10024570 original size:7 final size:7
Alignment explanation
Indices: 10024556--10024586 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
10024546 ATTTTATTTA
10024556 ATTT-TT
1 ATTTCTT
10024562 ATTTCTT
1 ATTTCTT
10024569 ATTTCTT
1 ATTTCTT
10024576 ATTTCTT
1 ATTTCTT
10024583 ATTT
1 ATTT
10024587 TATTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTCTT
Found at i:10024579 original size:14 final size:13
Alignment explanation
Indices: 10024556--10024591 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
10024546 ATTTTATTTA
10024556 ATTTTTATTTCTT
1 ATTTTTATTTCTT
10024569 ATTTCTTATTTCTT
1 ATTT-TTATTTCTT
10024583 A-TTTTATTT
1 ATTTTTATTT
10024592 TATTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 6 0.27
14 10 0.45
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (13 bp):
ATTTTTATTTCTT
Found at i:10030273 original size:17 final size:17
Alignment explanation
Indices: 10030247--10030284 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
10030237 TTTTTTAAGG
10030247 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
10030264 AAAACGAATGAATCTTA
1 AAAACAAATGAATCTTA
10030281 AAAA
1 AAAA
10030285 TAAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.61, C:0.11, G:0.08, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:10041112 original size:45 final size:45
Alignment explanation
Indices: 10041048--10041137 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
10041038 AGGCTCGAGA
*
10041048 AATCCAATATTAGAGAACTAGATGATGTGGAAATAAATTATTCAT
1 AATCCAATATTAGAGAACTAGATGATGTGGAAATAAATGATTCAT
10041093 AATCCAATATTAGAGAACTAGATGATGTGGAAATAAATGATTCAT
1 AATCCAATATTAGAGAACTAGATGATGTGGAAATAAATGATTCAT
10041138 TCCCTGAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (45 bp):
AATCCAATATTAGAGAACTAGATGATGTGGAAATAAATGATTCAT
Found at i:10043094 original size:45 final size:46
Alignment explanation
Indices: 10043030--10043134 Score: 185
Period size: 45 Copynumber: 2.3 Consensus size: 46
10043020 TAATTATCTT
*
10043030 ATTTTATTTTTCTTTTATTTTTAAGATTCATTCG-TTTTAAGATTC
1 ATTTTATTTTCCTTTTATTTTTAAGATTCATTCGTTTTTAAGATTC
10043075 ATTTTATTTTCCTTTTATTTTTAAGATTCATTCGTTTTTAAGATTC
1 ATTTTATTTTCCTTTTATTTTTAAGATTCATTCGTTTTTAAGATTC
*
10043121 ATTTTGTTTTCCTT
1 ATTTTATTTTCCTT
10043135 AAAAAAACAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 33 0.58
46 24 0.42
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (46 bp):
ATTTTATTTTCCTTTTATTTTTAAGATTCATTCGTTTTTAAGATTC
Found at i:10043129 original size:18 final size:18
Alignment explanation
Indices: 10043087--10043130 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
10043077 TTTATTTTCC
*
10043087 TTTTATTTTTAAGATTCA
1 TTTTGTTTTTAAGATTCA
*
10043105 -TTCGTTTTTAAGATTCA
1 TTTTGTTTTTAAGATTCA
10043122 TTTTGTTTT
1 TTTTGTTTT
10043131 CCTTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.64
Consensus pattern (18 bp):
TTTTGTTTTTAAGATTCA
Found at i:10043130 original size:17 final size:17
Alignment explanation
Indices: 10043048--10043130 Score: 54
Period size: 17 Copynumber: 5.2 Consensus size: 17
10043038 TTTCTTTTAT
*
10043048 TTTTAAGATTCA-TTCG
1 TTTTAAGATTCATTTTG
*
10043064 TTTTAAGATTCATTTTA
1 TTTTAAGATTCATTTTG
** *
10043081 TTTT--CCTT--TTAT-
1 TTTTAAGATTCATTTTG
*
10043093 TTTTAAGATTCA-TTCG
1 TTTTAAGATTCATTTTG
10043109 TTTTTAAGATTCATTTTG
1 -TTTTAAGATTCATTTTG
10043127 TTTT
1 TTTT
10043131 CCTTAAAAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 15
0.66 0.14 0.20
Matches are distributed among these distances:
12 4 0.08
13 3 0.06
14 2 0.04
15 3 0.06
16 12 0.24
17 22 0.45
18 3 0.06
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.60
Consensus pattern (17 bp):
TTTTAAGATTCATTTTG
Found at i:10044861 original size:13 final size:13
Alignment explanation
Indices: 10044843--10044867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10044833 AAGTAATCGA
10044843 ACACGGGCGTGTT
1 ACACGGGCGTGTT
10044856 ACACGGGCGTGT
1 ACACGGGCGTGT
10044868 CCCTGCCGAG
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:10064175 original size:12 final size:12
Alignment explanation
Indices: 10064158--10064182 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10064148 AAGGAAAGGG
10064158 TAAGGCCTTGAT
1 TAAGGCCTTGAT
10064170 TAAGGCCTTGAT
1 TAAGGCCTTGAT
10064182 T
1 T
10064183 TCAATTAACA
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:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TAAGGCCTTGAT
Found at i:10069311 original size:24 final size:24
Alignment explanation
Indices: 10069291--10069339 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
10069281 GATTATTGAC
*
10069291 AACCTTTCATTTGCAACTATTAGA
1 AACCTTTCATTTACAACTATTAGA
*
10069315 AGCCTTTCATTTACAACTATTAGA
1 AACCTTTCATTTACAACTATTAGA
10069339 A
1 A
10069340 CACTATCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (24 bp):
AACCTTTCATTTACAACTATTAGA
Found at i:10083534 original size:33 final size:33
Alignment explanation
Indices: 10083484--10083546 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
10083474 GGTGTCACAC
10083484 GCGTGGAGCGTGATGACCAAGGCTGAGGGGCAT
1 GCGTGGAGCGTGATGACCAAGGCTGAGGGGCAT
* *
10083517 GCGTGGAGTGTGGTGACCAAGGCTGAGGGG
1 GCGTGGAGCGTGATGACCAAGGCTGAGGGG
10083547 TATGGTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.19, C:0.16, G:0.49, T:0.16
Consensus pattern (33 bp):
GCGTGGAGCGTGATGACCAAGGCTGAGGGGCAT
Found at i:10090593 original size:3 final size:3
Alignment explanation
Indices: 10090573--10090621 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
10090563 TCTACCTCTA
* * *
10090573 CTT CTT GCTT CCT CTT CTT CTT TTT CTT CTT CTT CTT CTT CTT TTT
1 CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
10090619 CTT
1 CTT
10090622 TTTTGAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:10095281 original size:70 final size:70
Alignment explanation
Indices: 10095190--10095338 Score: 178
Period size: 70 Copynumber: 2.1 Consensus size: 70
10095180 ACTATCTTCC
* *
10095190 CAATTTTTAAAATCCCCAAATCGTGAAATTCCCTAAATCCTTAACCTT-CGAAATCTTTATTG-A
1 CAATTTTT-AAATCCCCAAATCGTGAAA-TACCTAAATCCTTAACATTCCGAAATC-TTATTGAA
10095253 ATCCCTAA
63 ATCCCTAA
* * * * * *
10095261 CAATCTTTAAATCCCTAAATCTTGAAATACCTAAATCGTTAGCATTCCGAAATCTTCTTGAAATC
1 CAATTTTTAAATCCCCAAATCGTGAAATACCTAAATCCTTAACATTCCGAAATCTTATTGAAATC
10095326 CCTAA
66 CCTAA
10095331 -AATTTTTA
1 CAATTTTTA
10095339 CGAATCAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
69 27 0.40
70 33 0.49
71 7 0.10
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (70 bp):
CAATTTTTAAATCCCCAAATCGTGAAATACCTAAATCCTTAACATTCCGAAATCTTATTGAAATC
CCTAA
Found at i:10095283 original size:16 final size:16
Alignment explanation
Indices: 10095252--10095297 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
10095242 ATCTTTATTG
*
10095252 AATCCCTAACAATCTTTA
1 AATCCCT-A-AATCTTGA
10095270 AATCCCTAAATCTTGA
1 AATCCCTAAATCTTGA
*
10095286 AATACCTAAATC
1 AATCCCTAAATC
10095298 GTTAGCATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 18 0.69
17 1 0.04
18 7 0.27
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.30
Consensus pattern (16 bp):
AATCCCTAAATCTTGA
Found at i:10095445 original size:39 final size:39
Alignment explanation
Indices: 10095391--10095468 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
10095381 AGCTTCAACA
10095391 ATCATGAGAGTTTCTGCAACCCAAAATATAAAGGTAGGT
1 ATCATGAGAGTTTCTGCAACCCAAAATATAAAGGTAGGT
10095430 ATCATGAGAGTTTCTGCAACCCAAAATATAAAGGTAGGT
1 ATCATGAGAGTTTCTGCAACCCAAAATATAAAGGTAGGT
10095469 GCTTTCTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (39 bp):
ATCATGAGAGTTTCTGCAACCCAAAATATAAAGGTAGGT
Found at i:10096390 original size:33 final size:33
Alignment explanation
Indices: 10096353--10096432 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
10096343 TGATGAAGGA
*
10096353 GTAGAATCTGATGGTGAAGGTGATCTAGAAAAG
1 GTAGAATCTGATGGGGAAGGTGATCTAGAAAAG
* * * * *
10096386 GTAGAATCTGGTGGGGAGGGTGATGTAGGAGAG
1 GTAGAATCTGATGGGGAAGGTGATCTAGAAAAG
* *
10096419 GTACAAGCTGATGG
1 GTAGAATCTGATGG
10096433 AGAGGGTGTG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.30, C:0.06, G:0.41, T:0.23
Consensus pattern (33 bp):
GTAGAATCTGATGGGGAAGGTGATCTAGAAAAG
Found at i:10096618 original size:51 final size:51
Alignment explanation
Indices: 10096549--10096699 Score: 221
Period size: 51 Copynumber: 3.0 Consensus size: 51
10096539 GTTGCTGCAA
* *
10096549 ATGAATATGCTGGTGATTTTGTAACATCAAATGGGGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAAATGGAGTGGATAATGTTGCTG
* *
10096600 ATGAATATGTTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAAATGGAGTGGATAATGTTGCTG
* ** * *
10096651 ATGAATATGCTAGTGATTTTGCAACATCTGACGGACTGGATAATGTTGC
1 ATGAATATGCTGGTGATTTTGCAACATCAAATGGAGTGGATAATGTTGC
10096700 CGCTACACAC
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 91 1.00
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (51 bp):
ATGAATATGCTGGTGATTTTGCAACATCAAATGGAGTGGATAATGTTGCTG
Found at i:10098599 original size:14 final size:14
Alignment explanation
Indices: 10098580--10098609 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10098570 AAATATTAAG
10098580 TAAATTTTTTATTT
1 TAAATTTTTTATTT
10098594 TAAATTTTTTATTT
1 TAAATTTTTTATTT
10098608 TA
1 TA
10098610 TTTTGTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TAAATTTTTTATTT
Found at i:10099810 original size:12 final size:12
Alignment explanation
Indices: 10099795--10099819 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10099785 CCTCAATGTC
10099795 AACAGCTCTACT
1 AACAGCTCTACT
10099807 AACAGCTCTACT
1 AACAGCTCTACT
10099819 A
1 A
10099820 CCACCATTAT
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:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (12 bp):
AACAGCTCTACT
Found at i:10100403 original size:23 final size:23
Alignment explanation
Indices: 10100373--10100416 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10100363 CGGAAAGATT
*
10100373 AAGGATTTCACGATTTGGTTCTA
1 AAGGATTTCACGATTTCGTTCTA
*
10100396 AAGGATTTCATGATTTCGTTC
1 AAGGATTTCACGATTTCGTTC
10100417 CTAATAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (23 bp):
AAGGATTTCACGATTTCGTTCTA
Found at i:10103101 original size:7 final size:7
Alignment explanation
Indices: 10103091--10103123 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
10103081 ATCATCTATT
10103091 CATTTAA
1 CATTTAA
10103098 CATTTAA
1 CATTTAA
10103105 CATTTAA
1 CATTTAA
*
10103112 CATTTCA
1 CATTTAA
10103119 CATTT
1 CATTT
10103124 TCATTTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (7 bp):
CATTTAA
Found at i:10103189 original size:13 final size:13
Alignment explanation
Indices: 10103171--10103216 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
10103161 TATTTATATC
10103171 CATATAAACATTT
1 CATATAAACATTT
*
10103184 CATATAAACACTT
1 CATATAAACATTT
10103197 CATAT-AACTATTT
1 CATATAAAC-ATTT
10103210 CTATATA
1 C-ATATA
10103217 TGTAGCACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 3 0.11
13 21 0.75
14 4 0.14
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.39
Consensus pattern (13 bp):
CATATAAACATTT
Found at i:10103695 original size:27 final size:26
Alignment explanation
Indices: 10103658--10103772 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
10103648 AGCATGGCTG
* *
10103658 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
10103684 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
10103712 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
10103739 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
10103766 CCAGAAC
1 CCAGAAC
10103773 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:10103717 original size:54 final size:54
Alignment explanation
Indices: 10103658--10103772 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
10103648 AGCATGGCTG
*
10103658 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
10103712 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
10103766 CCAGAAC
1 CCAGAAC
10103773 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:10103936 original size:28 final size:26
Alignment explanation
Indices: 10103875--10103936 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
10103865 AAATTAACCC
* * * *
10103875 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTACAACAGTAATTTTCCACA
10103901 TAGGGGTACAACAGTAATTTTCCATACA
1 TAGGGGTACAACAGTAATTTTCC--ACA
10103929 TAGGGGTA
1 TAGGGGTA
10103937 TTATAGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.67
28 10 0.33
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (26 bp):
TAGGGGTACAACAGTAATTTTCCACA
Found at i:10105419 original size:26 final size:26
Alignment explanation
Indices: 10105383--10105492 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
10105373 CATGAAATTC
10105383 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
10105409 TTATGATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10105435 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
10105461 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10105487 TTATCA
1 TTATCA
10105493 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10105937 original size:40 final size:40
Alignment explanation
Indices: 10105837--10105970 Score: 160
Period size: 40 Copynumber: 3.4 Consensus size: 40
10105827 TATAGCCAAA
* * *
10105837 TCATATAAACATTTCATATATTTATTTCCATACAATCAAT
1 TCATATAACCATTTCATATATATATTTCCATATAATCAAT
* * *
10105877 TCACATAACCATTCCATATATCTATTTCCATATAATCAAT
1 TCATATAACCATTTCATATATATATTTCCATATAATCAAT
** * **
10105917 TCATATAACCATTTTGTATATATGTTTAAATATAATCAAT
1 TCATATAACCATTTCATATATATATTTCCATATAATCAAT
*
10105957 TCATATAACAATTT
1 TCATATAACCATTT
10105971 GAAATATTCA
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.40, C:0.17, G:0.01, T:0.42
Consensus pattern (40 bp):
TCATATAACCATTTCATATATATATTTCCATATAATCAAT
Found at i:10107204 original size:21 final size:22
Alignment explanation
Indices: 10107179--10107230 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
10107169 TTTAAATTAC
*
10107179 TTATTAATTATTTAATAT-TTT
1 TTATTAATTATTTAACATGTTT
*
10107200 TTATTACA-AATTTAACATGTTT
1 TTATTA-ATTATTTAACATGTTT
10107222 TTA-TAATTA
1 TTATTAATTA
10107231 AAATCAGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
TTATTAATTATTTAACATGTTT
Found at i:10109580 original size:12 final size:12
Alignment explanation
Indices: 10109565--10109594 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10109555 ATTAATTAAA
10109565 TAAATTAGAAAT
1 TAAATTAGAAAT
*
10109577 TAAATTGGAAAT
1 TAAATTAGAAAT
10109589 TAAATT
1 TAAATT
10109595 CAGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:10110462 original size:5 final size:5
Alignment explanation
Indices: 10110438--10110472 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
10110428 ATAATTTAAC
*
10110438 ATAAA ATTAA ATAAA TATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA -ATAAA ATAAA ATAAA ATAA
10110473 GATTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (5 bp):
ATAAA
Found at i:10110464 original size:21 final size:21
Alignment explanation
Indices: 10110424--10110472 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
10110414 AATTTTAGCC
* *
10110424 TTAAAT-AATTTAACATAAAA
1 TTAAATAAATATAAAATAAAA
10110444 TTAAATAAATATAAAATAAAA
1 TTAAATAAATATAAAATAAAA
*
10110465 TAAAATAA
1 TTAAATAA
10110473 GATTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
TTAAATAAATATAAAATAAAA
Found at i:10117747 original size:18 final size:18
Alignment explanation
Indices: 10117724--10117775 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
10117714 TATTATAAAA
10117724 TTTTTATACATTTTTA-AT
1 TTTTTA-ACATTTTTATAT
*
10117742 TTTTTACCATTTTTATATT
1 TTTTTAACATTTTTATA-T
10117761 TTTTTAACAATTTTT
1 TTTTTAAC-ATTTTT
10117776 TTTAATTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 8 0.28
18 7 0.24
19 8 0.28
20 6 0.21
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTAACATTTTTATAT
Found at i:10134401 original size:34 final size:34
Alignment explanation
Indices: 10134358--10134427 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
10134348 GTGCGATTTT
10134358 ATACATGATATTTTAGTTTGATTCAATTTTTACA
1 ATACATGATATTTTAGTTTGATTCAATTTTTACA
10134392 ATACATGATATTTTAGTTTGATTCAATTTTTACA
1 ATACATGATATTTTAGTTTGATTCAATTTTTACA
10134426 AT
1 AT
10134428 CATTAACAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.50
Consensus pattern (34 bp):
ATACATGATATTTTAGTTTGATTCAATTTTTACA
Found at i:10135764 original size:63 final size:63
Alignment explanation
Indices: 10135661--10135801 Score: 194
Period size: 63 Copynumber: 2.3 Consensus size: 63
10135651 TCACAATACG
* * * * * *
10135661 CACACGAAAT-ATTCCCCACATCAACACCTTCAGCTCCAGTTTATTTTACACAAGCATCACAT
1 CACACGCAATCATTCCCCACATCAACACATTCAACACCAGTTTATTTTACACAAGCACCACAA
* * *
10135723 CACACGCAATCATTCTCTACATCAACACATTCAACACCAGTTTATTTTCCACAAGCACCACAA
1 CACACGCAATCATTCCCCACATCAACACATTCAACACCAGTTTATTTTACACAAGCACCACAA
10135786 CACACGCAATCATTCC
1 CACACGCAATCATTCC
10135802 ATGTATCAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
62 9 0.13
63 59 0.87
ACGTcount: A:0.35, C:0.35, G:0.06, T:0.24
Consensus pattern (63 bp):
CACACGCAATCATTCCCCACATCAACACATTCAACACCAGTTTATTTTACACAAGCACCACAA
Found at i:10140926 original size:47 final size:47
Alignment explanation
Indices: 10140875--10140964 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
10140865 CACAGTTTGT
* *
10140875 CATTTGGCCACAATAT-ATATATACACTTTCACGTTCATCACATTGGC
1 CATTTGGCC-CAATATCATATATACACATTCACATTCATCACATTGGC
** *
10140922 CATTTGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CATTTGGCCCAATATCATATATACACATTCACATTCATCACAT
10140965 AAAATTCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 3 0.08
47 34 0.92
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.36
Consensus pattern (47 bp):
CATTTGGCCCAATATCATATATACACATTCACATTCATCACATTGGC
Found at i:10148657 original size:26 final size:26
Alignment explanation
Indices: 10148627--10148678 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
10148617 AATACTAAGA
* *
10148627 TAAATATTATTTATCTTAATGATAAT
1 TAAATAATATTTATATTAATGATAAT
*
10148653 TAAATAATATTTATATTTATGATAAT
1 TAAATAATATTTATATTAATGATAAT
10148679 ACTATTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (26 bp):
TAAATAATATTTATATTAATGATAAT
Found at i:10149782 original size:16 final size:16
Alignment explanation
Indices: 10149761--10149792 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10149751 TATTTTCTTC
10149761 CATTTACTTTCAAATA
1 CATTTACTTTCAAATA
10149777 CATTTACTTTCAAATA
1 CATTTACTTTCAAATA
10149793 GCACATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
CATTTACTTTCAAATA
Found at i:10150648 original size:9 final size:9
Alignment explanation
Indices: 10150634--10150740 Score: 60
Period size: 10 Copynumber: 11.4 Consensus size: 9
10150624 CATGTAATAA
10150634 AAAAATTAT
1 AAAAATTAT
10150643 -AAAA--AT
1 AAAAATTAT
*
10150649 AAAAATCAAT
1 AAAAAT-TAT
*
10150659 AAAAGTTAT
1 AAAAATTAT
*
10150668 AAATATTATT
1 AAAAATTA-T
*
10150678 AAAATTTAAT
1 AAAAATT-AT
10150688 AAAAA-TATT
1 AAAAATTA-T
10150697 AAAAATTATT
1 AAAAATTA-T
*
10150707 AAAAATTTGT
1 AAAAA-TTAT
*
10150717 AAAAATCATAA
1 AAAAAT--TAT
10150728 AAAAATTAT
1 AAAAATTAT
10150737 AAAA
1 AAAA
10150741 TGCATCAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
6 2 0.03
7 4 0.05
8 5 0.07
9 22 0.29
10 33 0.43
11 10 0.13
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:10150680 original size:19 final size:18
Alignment explanation
Indices: 10150630--10150741 Score: 75
Period size: 19 Copynumber: 5.9 Consensus size: 18
10150620 GTCACATGTA
*
10150630 ATAAAAAAATTATAAAA--
1 ATAAAAATATTA-AAAATT
* *
10150647 ATAAAAATCAATAAAAGTT
1 ATAAAAAT-ATTAAAAATT
* *
10150666 ATAAATATTATTAAAATTT
1 ATAAA-AATATTAAAAATT
10150685 AATAAAAATATTAAAAATT
1 -ATAAAAATATTAAAAATT
* *
10150704 ATTAAAAATTTGTAAAAATC
1 A-TAAAAATAT-TAAAAATT
*
10150724 ATAAAAAAATTATAAAAT
1 ATAAAAATATTA-AAAAT
10150742 GCATCAAAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
17 10 0.13
18 6 0.08
19 44 0.59
20 15 0.20
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
ATAAAAATATTAAAAATT
Found at i:10150711 original size:10 final size:10
Alignment explanation
Indices: 10150648--10150740 Score: 68
Period size: 10 Copynumber: 9.5 Consensus size: 10
10150638 ATTATAAAAA
* *
10150648 TAAAAATCAA
1 TAAAAATTAT
*
10150658 TAAAAGTTA-
1 TAAAAATTAT
*
10150667 TAAATATTAT
1 TAAAAATTAT
* *
10150677 TAAAATTTAA
1 TAAAAATTAT
10150687 TAAAAA-TAT
1 TAAAAATTAT
10150696 TAAAAATTAT
1 TAAAAATTAT
10150706 TAAAAATT-T
1 TAAAAATTAT
*
10150715 GTAAAAATCAT
1 -TAAAAATTAT
*
10150726 AAAAAAATTA-
1 -TAAAAATTAT
10150736 TAAAA
1 TAAAA
10150741 TGCATCAAAA
Statistics
Matches: 65, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
9 20 0.31
10 37 0.57
11 8 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:10150719 original size:29 final size:32
Alignment explanation
Indices: 10150665--10150740 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 32
10150655 CAATAAAAGT
*
10150665 TATAAATATTATT-AAAATTTAATAAAAAT-A
1 TATAAAAATTATTAAAAATTTAATAAAAATCA
*
10150695 T-TAAAAATTATTAAAAATTT-GTAAAAATCA
1 TATAAAAATTATTAAAAATTTAATAAAAATCA
*
10150725 TAAAAAAATTA-TAAAA
1 TATAAAAATTATTAAAA
10150741 TGCATCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 17 0.43
30 15 0.38
31 8 0.20
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (32 bp):
TATAAAAATTATTAAAAATTTAATAAAAATCA
Found at i:10150980 original size:20 final size:19
Alignment explanation
Indices: 10150926--10150980 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
10150916 TGGTATGATA
*
10150926 ATTTTTATAATTAT-TTTAC
1 ATTTTTAT-ATTTTCTTTAC
*
10150945 GTATTTTATA-TTTCTTTAC
1 AT-TTTTATATTTTCTTTAC
10150964 ATTTTTATCATTTTCTT
1 ATTTTTAT-ATTTTCTT
10150981 ACAACTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 12 0.41
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTTATATTTTCTTTAC
Found at i:10151047 original size:19 final size:19
Alignment explanation
Indices: 10150925--10151058 Score: 71
Period size: 19 Copynumber: 6.9 Consensus size: 19
10150915 TTGGTATGAT
10150925 AATTTTTATAATTATTTTAC
1 AATTTTTATAATT-TTTTAC
*
10150945 -GTATTTTAT-ATTTCTTTAC
1 AAT-TTTTATAATTT-TTTAC
*
10150964 -ATTTTTATCATTTTCTTAC
1 AATTTTTATAATTTT-TTAC
* * * *
10150983 AACTTTATAAAAGTTTATAC
1 AA-TTTTTATAATTTTTTAC
* *
10151003 AATTTTT-TTATATTTCTA-
1 AATTTTTATAAT-TTTTTAC
*
10151021 TATATTTTATAATTTTTTAC
1 AAT-TTTTATAATTTTTTAC
*
10151041 GATTTTTATAATCTTTTT
1 AATTTTTATAAT-TTTTT
10151059 CTAACTTTTA
Statistics
Matches: 87, Mismatches: 16, Indels: 22
0.70 0.13 0.18
Matches are distributed among these distances:
18 11 0.13
19 45 0.52
20 22 0.25
21 9 0.10
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTTTATAATTTTTTAC
Found at i:10151105 original size:31 final size:30
Alignment explanation
Indices: 10151064--10151125 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
10151054 TTTTTCTAAC
* *
10151064 TTTTAATAAAAATTAAATATTTTTTATATTT
1 TTTTAAT-AAAATTAAATATTTTATAAATTT
* *
10151095 TTTTATTAAAATTTAATATTTTATAAATTT
1 TTTTAATAAAATTAAATATTTTATAAATTT
10151125 T
1 T
10151126 ATTTTTTATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTAATAAAATTAAATATTTTATAAATTT
Found at i:10151126 original size:17 final size:16
Alignment explanation
Indices: 10151103--10151141 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10151093 TTTTTTATTA
*
10151103 AAATTTAATATTTTAT
1 AAATTTTATATTTTAT
*
10151119 AAATTTTATTTTTTAT
1 AAATTTTATATTTTAT
*
10151135 CAATTTT
1 AAATTTT
10151142 TTGTCACATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
AAATTTTATATTTTAT
Found at i:10154713 original size:40 final size:40
Alignment explanation
Indices: 10154658--10154739 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
10154648 TGGAATGGAT
10154658 TATGGAATGCTCTCAACCAACCACAACTCACAAGCATAGC
1 TATGGAATGCTCTCAACCAACCACAACTCACAAGCATAGC
10154698 TATGGAATGCTCTCAACCAACCACAACTCACAAGCATAGC
1 TATGGAATGCTCTCAACCAACCACAACTCACAAGCATAGC
10154738 TA
1 TA
10154740 CCATTCAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.38, C:0.32, G:0.12, T:0.18
Consensus pattern (40 bp):
TATGGAATGCTCTCAACCAACCACAACTCACAAGCATAGC
Found at i:10160475 original size:8 final size:8
Alignment explanation
Indices: 10160454--10160511 Score: 89
Period size: 8 Copynumber: 7.1 Consensus size: 8
10160444 CATTCTTTAA
10160454 TTTAATTT
1 TTTAATTT
**
10160462 GGTAATTT
1 TTTAATTT
10160470 TTTAATTT
1 TTTAATTT
10160478 TTTAATTT
1 TTTAATTT
10160486 TTTAATTT
1 TTTAATTT
10160494 TTTAATTT
1 TTTAATTT
10160502 TTTAAATTT
1 TTT-AATTT
10160511 T
1 T
10160512 AGTCCTCACA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
8 39 0.87
9 6 0.13
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (8 bp):
TTTAATTT
Found at i:10165184 original size:42 final size:42
Alignment explanation
Indices: 10165137--10165221 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
10165127 TTTAGTAGAG
10165137 AATTTGAAATTCCTAAGAAATTTATAAATTTGACAAATTCAT
1 AATTTGAAATTCCTAAGAAATTTATAAATTTGACAAATTCAT
10165179 AATTTGAAATTCCTAAGAAATTTATAAATTTGACAAATTCAT
1 AATTTGAAATTCCTAAGAAATTTATAAATTTGACAAATTCAT
10165221 A
1 A
10165222 CTTTTTATGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (42 bp):
AATTTGAAATTCCTAAGAAATTTATAAATTTGACAAATTCAT
Found at i:10166999 original size:6 final size:7
Alignment explanation
Indices: 10166984--10167009 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10166974 TGATAAATAT
10166984 AAATTAA
1 AAATTAA
10166991 AAATTAA
1 AAATTAA
10166998 AAATTAA
1 AAATTAA
10167005 AAATT
1 AAATT
10167010 TTATATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATTAA
Found at i:10167107 original size:20 final size:20
Alignment explanation
Indices: 10167079--10167129 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
10167069 TTTCTATATG
*
10167079 ATAATATAATATTAAAATAA
1 ATAAAATAATATTAAAATAA
* *
10167099 ATAAAATAA-AATAAAATTA
1 ATAAAATAATATTAAAATAA
*
10167118 ATTAAA-AATATT
1 ATAAAATAATATT
10167130 CTTATAGATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
20 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAATAATATTAAAATAA
Found at i:10170486 original size:53 final size:53
Alignment explanation
Indices: 10170405--10170555 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
10170395 CTTACACGGT
* *
10170405 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
10170460 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
10170513 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
10170556 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:10175819 original size:48 final size:48
Alignment explanation
Indices: 10175748--10175841 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
10175738 TAAATATTTA
10175748 TAAAAATATTCATGGTTCATTTTATAACACCGAGATATCGATACTTTT
1 TAAAAATATTCATGGTTCATTTTATAACACCGAGATATCGATACTTTT
*
10175796 TAAAAATATTTATGGTTCATTTTATAACACCGAGATATCGATACTT
1 TAAAAATATTCATGGTTCATTTTATAACACCGAGATATCGATACTT
10175842 GTTTTCTTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (48 bp):
TAAAAATATTCATGGTTCATTTTATAACACCGAGATATCGATACTTTT
Found at i:10177418 original size:32 final size:31
Alignment explanation
Indices: 10177379--10177450 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 31
10177369 TCACCTTACA
* *
10177379 AATTTGTAGCAAACG-GTCTATTTCGGTATTT
1 AATTTGTAGCAAACGATTC-ATTTCGGTAATT
10177410 AATATTGTAGCAAACGATTCATTTCGGTAATT
1 AAT-TTGTAGCAAACGATTCATTTCGGTAATT
10177442 AATTTGTAG
1 AATTTGTAG
10177451 GGTGACCCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 9 0.24
32 26 0.70
33 2 0.05
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (31 bp):
AATTTGTAGCAAACGATTCATTTCGGTAATT
Found at i:10178014 original size:124 final size:125
Alignment explanation
Indices: 10177850--10178080 Score: 311
Period size: 124 Copynumber: 1.9 Consensus size: 125
10177840 AAGCTTAATC
* * *
10177850 TATTGTTGCCTCCTATAAACCTTAAACCACAAAACATAACAAAAATATTAGTTATAACACCACAA
1 TATTGTTGCCTCCTATAAACCCTAAACCACAAAACATAACAAAAACATTACTTATAACACCACAA
* * * * *
10177915 A-TAATCTTAAACCCTAAACAAATAAATGATAGTTATAAAAAGTTTACCAGACTCAAATA
66 AGTAACCCTAAACCCTAAACAAATAAAAGATAATTAAAAAAAGTTTACCAGACTCAAATA
* * * * * *
10177974 TATTGTTGCCTCCTCTGAACCCTAAGCCACAAAATATAACAAAACCATTACTTGTAACACCACAA
1 TATTGTTGCCTCCTATAAACCCTAAACCACAAAACATAACAAAAACATTACTTATAACACCACAA
* *
10178039 AGTAACCCTAAATCCTAAACAAGTAAAAGATAATTAAAAAAA
66 AGTAACCCTAAACCCTAAACAAATAAAAGATAATTAAAAAAA
10178081 TTACCTTTGA
Statistics
Matches: 90, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
124 57 0.63
125 33 0.37
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.25
Consensus pattern (125 bp):
TATTGTTGCCTCCTATAAACCCTAAACCACAAAACATAACAAAAACATTACTTATAACACCACAA
AGTAACCCTAAACCCTAAACAAATAAAAGATAATTAAAAAAAGTTTACCAGACTCAAATA
Found at i:10179283 original size:22 final size:21
Alignment explanation
Indices: 10179258--10179300 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10179248 TAGTCACATA
10179258 ATAAATTATTAATATAATAAAT
1 ATAAATTATT-ATATAATAAAT
* *
10179280 ATAATTTATTATTTAATAAAT
1 ATAAATTATTATATAATAAAT
10179301 TATTTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAATTATTATATAATAAAT
Found at i:10179912 original size:14 final size:14
Alignment explanation
Indices: 10179893--10179931 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
10179883 CCAGAAAAGT
10179893 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
10179907 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
10179921 AAGTCATTTTC
1 AAATCATTTTC
10179932 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:10180264 original size:30 final size:30
Alignment explanation
Indices: 10180230--10180292 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
10180220 ACTTATTTTA
*
10180230 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
10180260 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
10180290 TTG
1 TTG
10180293 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.02, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:10180444 original size:11 final size:11
Alignment explanation
Indices: 10180415--10180445 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10180405 TATATATATT
*
10180415 TAAAAATGATA
1 TAAAAATTATA
10180426 TAAAAATTATA
1 TAAAAATTATA
10180437 TAAAAATTA
1 TAAAAATTA
10180446 ATACAGGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:10180701 original size:19 final size:18
Alignment explanation
Indices: 10180679--10180718 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10180669 AACATAATGA
*
10180679 TATATATAATATATTTTAT
1 TATATATAACATA-TTTAT
*
10180698 TATATATTACATATTTAT
1 TATATATAACATATTTAT
10180716 TAT
1 TAT
10180719 TTTATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATATAACATATTTAT
Found at i:10180711 original size:21 final size:21
Alignment explanation
Indices: 10180678--10180728 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
10180668 TAACATAATG
10180678 ATATATATAATATATT-TTATT
1 ATATATATAATAT-TTATTATT
10180699 ATATAT-TACATATTTATTATT
1 ATATATATA-ATATTTATTATT
* *
10180720 TTATTTATA
1 ATATATATA
10180729 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 4 0.16
21 19 0.76
22 2 0.08
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATATATAATATTTATTATT
Found at i:10180754 original size:16 final size:17
Alignment explanation
Indices: 10180722--10180755 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10180712 TTATTATTTT
10180722 ATTTATATAAATAAAAA
1 ATTTATATAAATAAAAA
*
10180739 ATTTAT-TAATTAAAAA
1 ATTTATATAAATAAAAA
10180755 A
1 A
10180756 AGGAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTTATATAAATAAAAA
Done.