Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 257 of 356
Found at i:84404407 original size:27 final size:30
Alignment explanation
Indices: 84404377--84404438 Score: 94
Period size: 27 Copynumber: 2.2 Consensus size: 30
84404367 GGCCTCTCCA
84404377 TTTTTCTTTTTT-CTTTT-TCTTTTT-CCT
1 TTTTTCTTTTTTGCTTTTCTCTTTTTCCCT
*
84404404 TTTTTCTTTTTTGCTTTTCTTTTTTTCCCT
1 TTTTTCTTTTTTGCTTTTCTCTTTTTCCCT
84404434 TTTTT
1 TTTTT
84404439 TTTGAAATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 12 0.39
28 5 0.16
29 6 0.19
30 8 0.26
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.81
Consensus pattern (30 bp):
TTTTTCTTTTTTGCTTTTCTCTTTTTCCCT
Found at i:84404440 original size:27 final size:27
Alignment explanation
Indices: 84404377--84404441 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
84404367 GGCCTCTCCA
* *
84404377 TTTTTCTTTTTTCTTTTTCTTTTTCCTT
1 TTTTT-TTTTTGCTTTTTCTTTTTCCTC
*
84404405 TTTTCTTTTTTGCTTTTCTTTTTTTCC-C
1 TTTT-TTTTTTGCTTTT-TCTTTTTCCTC
84404433 TTTTTTTTT
1 TTTTTTTTT
84404442 GAAATAGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.16
28 18 0.56
29 9 0.28
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.82
Consensus pattern (27 bp):
TTTTTTTTTTGCTTTTTCTTTTTCCTC
Found at i:84406868 original size:210 final size:210
Alignment explanation
Indices: 84406506--84407469 Score: 1669
Period size: 210 Copynumber: 4.6 Consensus size: 210
84406496 ATATACAAGG
84406506 AATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTA
1 AATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTA
* * *
84406571 TATCTTTGATCTGCTCCCCGCCAAATACAGAGAGATAAGATCTGCCATCTTGGATCTGCTTCAAT
66 TATCTTTGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGCCATCTTGGATCTGCTTCAGT
* * *
84406636 GTAAACATCTGAAGGTGAGATCTGCTATGTATCCGCCTTCCATCAAAGTGGAAATGCCAGACTTT
131 GTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTC
* *
84406701 GATTTGTTCTCTAAA
196 GATTTGTTCTCTGAC
84406716 AATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTA
1 AATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTA
* *
84406781 TATCTTTGATCTGCTCCCTGCCGAATACAGAGAGAGAAGATCTGTCATCTTGGATCTGCTTCAGT
66 TATCTTTGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGCCATCTTGGATCTGCTTCAGT
*
84406846 GTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCGTCAAAGTGGAAATGCCAGACTTC
131 GTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTC
84406911 GATTTGTTCTCTGAC
196 GATTTGTTCTCTGAC
* *
84406926 AATACAAAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTAAAAGCCAAATCAGCTA
1 AATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTA
* ** * * *
84406991 TATCTTCGATCTTTTCCCCGCCGAATACGGAGAGATAAGATCTGCCATCTTGGATTTGCTTCAGT
66 TATCTTTGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGCCATCTTGGATCTGCTTCAGT
84407056 GTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTC
131 GTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTC
84407121 GATTTGTTCTCTGAC
196 GATTTGTTCTCTGAC
84407136 AATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTA
1 AATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTA
* * *
84407201 TATCTTCGATCTGCT-TCTCGCTGAATACAGAGAGATAAGATCTGCCATCTTGGATCTGCTTCAG
66 TATCTTTGATCTGCTCCCT-GCCGAATACAGAGAGATAAGATCTGCCATCTTGGATCTGCTTCAG
*
84407265 TGTAAACATTTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTT
130 TGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTT
*
84407330 TGATTTGTTCTCTGAC
195 CGATTTGTTCTCTGAC
*
84407346 AATACAGAAACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTA
1 AATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTA
* *
84407411 TATCTCTGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGC
66 TATCTTTGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGCCATCTTGGATCTGC
84407470 CTCGATGAAG
Statistics
Matches: 713, Mismatches: 39, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
209 1 0.00
210 710 1.00
211 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (210 bp):
AATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTA
TATCTTTGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGCCATCTTGGATCTGCTTCAGT
GTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTC
GATTTGTTCTCTGAC
Found at i:84412672 original size:46 final size:46
Alignment explanation
Indices: 84412619--84412778 Score: 239
Period size: 46 Copynumber: 3.5 Consensus size: 46
84412609 TATATATACA
* * * * * *
84412619 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
*
84412665 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
*
84412711 TATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
*
84412757 TATCTCATACACATTTCGCATT
1 CATCTCATACACATTTCGCATT
84412779 CATCACATTG
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 105 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.38
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
Found at i:84412830 original size:47 final size:47
Alignment explanation
Indices: 84412762--84412881 Score: 206
Period size: 47 Copynumber: 2.6 Consensus size: 47
84412752 ATATCTATCT
* * *
84412762 CATACACAT-TTCGCATTCATCACATTGGCCATTCGGCCTTATCGCA
1 CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
84412808 CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
84412855 CATACGCATGTTCACATTCATCACATT
1 CATACGCATGTTCACATTCATCACATT
84412882 AAAATCCTAA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 8 0.11
47 62 0.89
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.31
Consensus pattern (47 bp):
CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
Found at i:84412833 original size:23 final size:23
Alignment explanation
Indices: 84412806--84412880 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
84412796 GGCCTTATCG
84412806 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** * *
84412829 CACATTGGCCA--TTCGGCCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
84412851 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
84412876 CACAT
1 CACAT
84412881 TAAAATCCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 16 0.43
24 11 0.30
25 5 0.14
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:84423909 original size:12 final size:12
Alignment explanation
Indices: 84423889--84423990 Score: 75
Period size: 12 Copynumber: 8.3 Consensus size: 12
84423879 TCTTAAAATT
84423889 ATAAATAATATA
1 ATAAATAATATA
*
84423901 ATGAATAATATAAA
1 ATAAATAATAT--A
84423915 CATAAATAATATA
1 -ATAAATAATATA
84423928 ATAAATAATAT-
1 ATAAATAATATA
* *
84423939 AT-GATATACATA
1 ATAAATA-ATATA
* *
84423951 ATATATGATA-A
1 ATAAATAATATA
*
84423962 AAAAATAATATA
1 ATAAATAATATA
*
84423974 ATAAGTAATATA
1 ATAAATAATATA
84423986 TATAA
1 -ATAA
84423991 TAAAAGTAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
10 3 0.04
11 13 0.19
12 36 0.51
13 7 0.10
14 1 0.01
15 10 0.14
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (12 bp):
ATAAATAATATA
Found at i:84423999 original size:18 final size:17
Alignment explanation
Indices: 84423919--84424010 Score: 67
Period size: 16 Copynumber: 5.8 Consensus size: 17
84423909 TATAAACATA
84423919 AATAATATAAT-AAA-T
1 AATAATATAATAAAAGT
* *
84423934 AAT-ATATGATATACA-T
1 AATAATATAATA-AAAGT
* *
84423950 AAT-ATATGATAAAA-A
1 AATAATATAATAAAAGT
84423965 AATAATATAAT--AAGT
1 AATAATATAATAAAAGT
84423980 AATATATATAATAAAAGT
1 AATA-ATATAATAAAAGT
84423998 AA-AATATAATAAA
1 AATAATATAATAAA
84424011 TGCTATATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
14 8 0.12
15 12 0.19
16 37 0.58
17 1 0.02
18 6 0.09
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (17 bp):
AATAATATAATAAAAGT
Found at i:84424008 original size:25 final size:24
Alignment explanation
Indices: 84423979--84424044 Score: 60
Period size: 30 Copynumber: 2.5 Consensus size: 24
84423969 ATATAATAAG
84423979 TAATATATATAATAAAAGTAAAATA
1 TAATATATATAATAAAA-TAAAATA
*
84424004 TAATAAATGCTATATAATAAAATACAATA
1 TAAT--A---TATATAATAAAATAAAATA
84424033 TAAATATATATA
1 T-AATATATATA
84424045 GGAGAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
25 10 0.29
27 1 0.03
28 1 0.03
29 7 0.21
30 15 0.44
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (24 bp):
TAATATATATAATAAAATAAAATA
Found at i:84424018 original size:32 final size:30
Alignment explanation
Indices: 84423893--84424035 Score: 96
Period size: 32 Copynumber: 4.6 Consensus size: 30
84423883 AAAATTATAA
* *
84423893 ATAATATAATGAATAATATAA-ACATAAATAAT
1 ATAATAAAAT-AA-AATATAATAAATAAAT-AT
* *
84423925 ATAAT-AAATAATATATGATATACAT-AATAT
1 ATAATAAAATAAAATAT-A-ATAAATAAATAT
* * *
84423955 ATGATAAAAAAATAATATAATAAGTAATATAT
1 ATAATAAAATAA-AATATAATAAATAA-ATAT
**
84423987 ATAATAAAAGTAAAATATAATAAAT-GCTAT
1 ATAATAAAA-TAAAATATAATAAATAAATAT
*
84424017 ATAATAAAATACAATATAA
1 ATAATAAAATAAAATATAA
84424036 ATATATATAG
Statistics
Matches: 90, Mismatches: 13, Indels: 19
0.74 0.11 0.16
Matches are distributed among these distances:
29 13 0.14
30 25 0.28
31 14 0.16
32 36 0.40
33 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (30 bp):
ATAATAAAATAAAATATAATAAATAAATAT
Found at i:84424132 original size:23 final size:24
Alignment explanation
Indices: 84424088--84424132 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
84424078 TCAATAGTAT
*
84424088 TTTTAATAATAATATATGTATAGA
1 TTTTAATAATAATAAATGTATAGA
84424112 TTTTAA-AATAAATAAAT-TATA
1 TTTTAATAAT-AATAAATGTATA
84424133 TAAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
TTTTAATAATAATAAATGTATAGA
Found at i:84429097 original size:17 final size:17
Alignment explanation
Indices: 84429077--84429116 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
84429067 TGGTTTTTTG
* *
84429077 ATTTTTATTGTTTGTTT
1 ATTTTTATTATTTATTT
*
84429094 ATTTTTCTTATTTATTT
1 ATTTTTATTATTTATTT
84429111 ATTTTT
1 ATTTTT
84429117 GTTTTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.78
Consensus pattern (17 bp):
ATTTTTATTATTTATTT
Found at i:84429477 original size:16 final size:16
Alignment explanation
Indices: 84429456--84429489 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
84429446 GATAACTGAG
*
84429456 AAAATAAAATAAATTA
1 AAAATAAAATAAAGTA
84429472 AAAATAAAATAAAGTA
1 AAAATAAAATAAAGTA
84429488 AA
1 AA
84429490 GAACACACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAATAAAATAAAGTA
Found at i:84435175 original size:17 final size:18
Alignment explanation
Indices: 84435138--84435175 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
84435128 TTAGAAAATT
* *
84435138 TAATTTTATGGTTATAAA
1 TAATTTTATGGGTAAAAA
84435156 TAATTTT-TGGGTAAAAA
1 TAATTTTATGGGTAAAAA
84435173 TAA
1 TAA
84435176 ATATTTTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (18 bp):
TAATTTTATGGGTAAAAA
Found at i:84435183 original size:20 final size:21
Alignment explanation
Indices: 84435151--84435190 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
84435141 TTTTATGGTT
84435151 ATAAATAATTTTTGGGTAAAA
1 ATAAATAATTTTTGGGTAAAA
*
84435172 ATAAAT-ATTTTTGGTTAAA
1 ATAAATAATTTTTGGGTAAA
84435191 TTGGAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (21 bp):
ATAAATAATTTTTGGGTAAAA
Found at i:84437749 original size:13 final size:13
Alignment explanation
Indices: 84437731--84437755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84437721 AGGCTGACAC
84437731 GCCCATGTGGCCA
1 GCCCATGTGGCCA
84437744 GCCCATGTGGCC
1 GCCCATGTGGCC
84437756 CACAAGGCCC
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:0.12, C:0.40, G:0.32, T:0.16
Consensus pattern (13 bp):
GCCCATGTGGCCA
Found at i:84437843 original size:50 final size:50
Alignment explanation
Indices: 84437744--84437844 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
84437734 CATGTGGCCA
* * * *
84437744 GCCCATGTGGCCCACAAGGCCCAAATTGGCCTTGGCCGTGTGGATCACAC
1 GCCCATGTGGCCCACAAGGCCCAAATTGACCTAGCCCGTGTGCATCACAC
* * *
84437794 GCCCGTGTGGCCCACAAGGCCCAACTTGATCTAGCCCGTGTGTCA-CACAC
1 GCCCATGTGGCCCACAAGGCCCAAATTGACCTAGCCCGTGTG-CATCACAC
84437844 G
1 G
84437845 GCCTACCTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 42 0.98
51 1 0.02
ACGTcount: A:0.20, C:0.36, G:0.27, T:0.18
Consensus pattern (50 bp):
GCCCATGTGGCCCACAAGGCCCAAATTGACCTAGCCCGTGTGCATCACAC
Found at i:84437950 original size:24 final size:24
Alignment explanation
Indices: 84437923--84437969 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
84437913 CATCACATGG
*
84437923 CCTACCACACGGATGACCACACGC
1 CCTACCACACGGACGACCACACGC
*
84437947 CCTACCACACGGGCGACCACACG
1 CCTACCACACGGACGACCACACG
84437970 TCGGTGTGGC
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:0.28, C:0.47, G:0.19, T:0.06
Consensus pattern (24 bp):
CCTACCACACGGACGACCACACGC
Found at i:84447068 original size:44 final size:45
Alignment explanation
Indices: 84446963--84447071 Score: 123
Period size: 46 Copynumber: 2.4 Consensus size: 45
84446953 CACTTATGGC
* * *
84446963 ATGTTTGGTTGGAGGGAATGGAATAGATTTGTAATCAATAATTTA
1 ATGTTTGGTTGAATGGAATGGAATAGAGTTGTAATCAATAATTTA
* * * *
84447008 ATTTTTTGGTTGAATGGAATGGAATAGAGTTGTGAT-AGT-ATTCTT
1 A-TGTTTGGTTGAATGGAATGGAATAGAGTTGTAATCAATAATT-TA
84447053 ATGTTTGGTTGAATGGAAT
1 ATGTTTGGTTGAATGGAAT
84447072 TGTAACATCC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
44 20 0.37
45 5 0.09
46 29 0.54
ACGTcount: A:0.29, C:0.02, G:0.28, T:0.41
Consensus pattern (45 bp):
ATGTTTGGTTGAATGGAATGGAATAGAGTTGTAATCAATAATTTA
Found at i:84456549 original size:24 final size:24
Alignment explanation
Indices: 84456497--84456552 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
84456487 GAGTGTTATG
* * *
84456497 TGGAGGAAATCAAGGAGAGGATGG
1 TGGAGAAAATCAAGGAGAGAATGA
* *
84456521 GGGAGAAAATCAAGGAGAGAATTA
1 TGGAGAAAATCAAGGAGAGAATGA
84456545 TGGAGAAA
1 TGGAGAAA
84456553 TTTTAGGAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.39, T:0.12
Consensus pattern (24 bp):
TGGAGAAAATCAAGGAGAGAATGA
Found at i:84461444 original size:49 final size:48
Alignment explanation
Indices: 84461385--84461557 Score: 163
Period size: 49 Copynumber: 3.6 Consensus size: 48
84461375 TGTTGTGTGT
*
84461385 CAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATC-GCACCGATAGATGAAAGC
* * * * *
84461434 CAGTGTAAGACCTGTCTAGGACACGGCATCGC-CCTTGATATATAAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGCACC--GATAGATGAAAGC
* * ** ** *
84461483 CAATGTAAGACCTGTCTGGGACATGGCATCGAATTTGAT-G-TGCTACC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGCA-CCGATAGATGAAAGC
84461530 CAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
84461558 TTCGGCATCT
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
47 15 0.15
48 17 0.17
49 68 0.68
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGCACCGATAGATGAAAGC
Found at i:84464061 original size:28 final size:28
Alignment explanation
Indices: 84464023--84464225 Score: 287
Period size: 28 Copynumber: 7.5 Consensus size: 28
84464013 TAAATTGTGC
84464023 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
84464051 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
84464078 AG--CTTA--GTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
84464101 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
84464129 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
84464156 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
84464184 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
84464211 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84464226 GACTTAATAT
Statistics
Matches: 162, Mismatches: 7, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
23 19 0.12
25 6 0.04
27 68 0.42
28 69 0.43
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:84464079 original size:27 final size:27
Alignment explanation
Indices: 84464023--84464225 Score: 270
Period size: 27 Copynumber: 7.6 Consensus size: 27
84464013 TAAATTGTGC
84464023 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
84464051 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
84464078 AG--CTTA--GTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
84464101 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
84464129 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
84464156 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
84464184 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
84464211 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84464226 GACTTAATAT
Statistics
Matches: 159, Mismatches: 10, Indels: 13
0.87 0.05 0.07
Matches are distributed among these distances:
23 19 0.12
25 6 0.04
27 67 0.42
28 67 0.42
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:84464165 original size:55 final size:55
Alignment explanation
Indices: 84464023--84464225 Score: 299
Period size: 55 Copynumber: 3.8 Consensus size: 55
84464013 TAAATTGTGC
*
84464023 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
84464078 AG--CTTA--GTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
84464129 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
84464184 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
84464226 GACTTAATAT
Statistics
Matches: 134, Mismatches: 9, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
50 26 0.19
51 18 0.13
53 6 0.04
55 84 0.63
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:84472100 original size:28 final size:28
Alignment explanation
Indices: 84472062--84472264 Score: 269
Period size: 27 Copynumber: 7.5 Consensus size: 28
84472052 TAAATTGTGC
84472062 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
84472090 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
84472117 AG--CTTA--GTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
84472140 AGCACTAATTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
84472168 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
84472195 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* * *
84472223 AGCACTAAGTGTGTGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
84472250 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84472265 GACTTAATAT
Statistics
Matches: 159, Mismatches: 10, Indels: 13
0.87 0.05 0.07
Matches are distributed among these distances:
23 19 0.12
25 6 0.04
27 67 0.42
28 67 0.42
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:84472197 original size:55 final size:55
Alignment explanation
Indices: 84472062--84472264 Score: 281
Period size: 55 Copynumber: 3.8 Consensus size: 55
84472052 TAAATTGTGC
*
84472062 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
84472117 AG--CTTA--GTGCGAATTGACTATGTAGCACTAATTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
84472168 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
84472223 AGCACTAAGTGTGTGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
84472265 GACTTAATAT
Statistics
Matches: 131, Mismatches: 12, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
50 25 0.19
51 18 0.14
53 6 0.05
55 82 0.63
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:84475268 original size:23 final size:25
Alignment explanation
Indices: 84475240--84475287 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
84475230 TATTATTATT
84475240 AAAATAT-GAAT-TAATAAAAATAA
1 AAAATATAGAATATAATAAAAATAA
* *
84475263 AAAATATATAATATTATAAAAATAA
1 AAAATATAGAATATAATAAAAATAA
84475288 TATATAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
25 11 0.52
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAATATAGAATATAATAAAAATAA
Found at i:84483638 original size:17 final size:20
Alignment explanation
Indices: 84483616--84483654 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
84483606 CTCATTTTTG
84483616 TTTAATA-GCAT-TA-TTAA
1 TTTAATATGCATATATTTAA
84483633 TTTAATATGCATATATTTAA
1 TTTAATATGCATATATTTAA
84483653 TT
1 TT
84483655 ATTAATTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 2 0.11
20 6 0.32
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTAATATGCATATATTTAA
Found at i:84494106 original size:46 final size:47
Alignment explanation
Indices: 84494006--84494126 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
84493996 TATATCTCAA
* **
84494006 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAAT
1 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAAT
* * *
84494053 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-GT
1 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAAT
* * *
84494098 GGCTGATGCATATCCCATACATGTTTTAC
1 GGCTGATGCATGTCCCAGACATGTCTTAC
84494127 TCTAAGACAC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
45 1 0.02
46 62 0.98
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (47 bp):
GGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATAAT
Found at i:84513669 original size:46 final size:46
Alignment explanation
Indices: 84513514--84513723 Score: 146
Period size: 46 Copynumber: 4.5 Consensus size: 46
84513504 GCCGATGCCG
* * * *
84513514 TGTCCTAGACAAGTCTTACACTGGCTCTCATCTATCA-GTGTCGATGCCA
1 TGTCCCAGACATGTCTTACACTAGCTCTCA--TAACATG-GTCGATG-CA
* * * * * *
84513563 TGTCCAAGACAGGTCTTACAAT-GACACTC--AACAAGCT-GATGCCA
1 TGTCCCAGACATGTCTTACACTAG-CTCTCATAACATGGTCGATG-CA
* ** **
84513607 TGTCCCAGACAGGTCTTACACTAGCTCTTGTCTCAAT-G-CAGATGCA
1 TGTCCCAGACATGTCTTACACTAGCTCTCATAAC-ATGGTC-GATGCA
*
84513653 TGTCCCAGACATGTCTTACACTAGCTCTCATAACGTGGTCGATGCA
1 TGTCCCAGACATGTCTTACACTAGCTCTCATAACATGGTCGATGCA
*
84513699 TGTCCCAGACATGTCTTACTCTAGC
1 TGTCCCAGACATGTCTTACACTAGC
84513724 ACACATATCA
Statistics
Matches: 130, Mismatches: 21, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
44 30 0.23
45 6 0.05
46 64 0.49
47 6 0.05
48 1 0.01
49 23 0.18
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTAGCTCTCATAACATGGTCGATGCA
Found at i:84515604 original size:39 final size:39
Alignment explanation
Indices: 84515552--84515684 Score: 178
Period size: 39 Copynumber: 3.4 Consensus size: 39
84515542 TTTGAATCCT
* * * ***
84515552 GAAGTCTAGCTGAAGCACATAAGTGCTAAAAATAA-CCC
1 GAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCC
* *
84515590 TGAAGGCTAACTGAAGCACACAAGTGTTAAACGGAAGGCC
1 -GAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCC
84515630 GAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCC
1 GAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCC
84515669 GAAGGCTAACTGAAGC
1 GAAGGCTAACTGAAGC
84515685 TCATCAGAGC
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 81 0.98
40 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCC
Found at i:84515666 original size:21 final size:21
Alignment explanation
Indices: 84515602--84515666 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
84515592 AAGGCTAACT
*
84515602 GAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAACG
* *
84515623 GAAGGC-C-GAAG-GCT-AACT
1 GAA-GCACACAAGTGCTAAACG
84515641 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
84515662 GAAGC
1 GAAGC
84515667 CCGAAGGCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
17 2 0.06
18 7 0.21
19 5 0.15
20 6 0.18
21 12 0.35
22 2 0.06
ACGTcount: A:0.40, C:0.22, G:0.28, T:0.11
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:84517741 original size:46 final size:46
Alignment explanation
Indices: 84517688--84517863 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
84517678 TATTTGGGCA
84517688 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
84517734 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
84517781 TCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
84517827 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84517864 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.61
47 30 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:84517843 original size:93 final size:93
Alignment explanation
Indices: 84517684--84517856 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
84517674 GGGATATTTG
* *
84517684 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
84517749 TTGAGTTCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
84517777 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
84517841 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
84517857 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:84527484 original size:13 final size:13
Alignment explanation
Indices: 84527466--84527491 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84527456 GGGAGGCGCA
84527466 TAGTAGCCCTTAT
1 TAGTAGCCCTTAT
84527479 TAGTAGCCCTTAT
1 TAGTAGCCCTTAT
84527492 GCTATGCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TAGTAGCCCTTAT
Found at i:84551210 original size:27 final size:28
Alignment explanation
Indices: 84551158--84551210 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
84551148 TCAACAAGTA
*
84551158 TCAGTGCAGTCCTGGGCCGAAACCCTTC
1 TCAGTACAGTCCTGGGCCGAAACCCTTC
* *
84551186 TCAGTACAGT-CTGGGCTGAAGCCCT
1 TCAGTACAGTCCTGGGCCGAAACCCT
84551211 ATTCAATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.19, C:0.32, G:0.26, T:0.23
Consensus pattern (28 bp):
TCAGTACAGTCCTGGGCCGAAACCCTTC
Found at i:84553649 original size:7 final size:7
Alignment explanation
Indices: 84553637--84553663 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
84553627 CAAAATTTGT
84553637 TGATATG
1 TGATATG
84553644 TGATATG
1 TGATATG
84553651 TGATATG
1 TGATATG
84553658 TGATAT
1 TGATAT
84553664 TTTACCTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (7 bp):
TGATATG
Found at i:84554724 original size:20 final size:20
Alignment explanation
Indices: 84554699--84554739 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 20
84554689 GCAGCCCACA
84554699 AAAAGAAAAAGAAAAA-TAAG
1 AAAAG-AAAAGAAAAAGTAAG
84554719 AAAAGAAAAGAAAAAGTAAG
1 AAAAGAAAAGAAAAAGTAAG
84554739 A
1 A
84554740 GGAGGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (20 bp):
AAAAGAAAAGAAAAAGTAAG
Found at i:84561807 original size:34 final size:33
Alignment explanation
Indices: 84561769--84561833 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
84561759 GTTCCAGTTA
* *
84561769 GGGCCTTAGCCCAT-TACAGTATCAGTATCAGTGT
1 GGGCCTGAGCCCATCT-CAGTAACAGTA-CAGTGT
84561803 GGGCCTGAGCCCATCTCAGTAACAGTACAGT
1 GGGCCTGAGCCCATCTCAGTAACAGTACAGT
84561834 ACAAATATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 23 0.82
35 1 0.04
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (33 bp):
GGGCCTGAGCCCATCTCAGTAACAGTACAGTGT
Found at i:84564451 original size:43 final size:42
Alignment explanation
Indices: 84564390--84564648 Score: 236
Period size: 43 Copynumber: 6.1 Consensus size: 42
84564380 CCACAAAAGT
* *
84564390 TAAAGACCACGATCTTTAGCGGCGTTTTTTAAAAAAGCGCCGC
1 TAAAGACCAGGACCTTTAGCGGCGTTTTTTAAAAAA-CGCCGC
* *
84564433 TAAAGACCAGGACCTTTAGCGGCG-CTCTTAAAAAACGCCGC
1 TAAAGACCAGGACCTTTAGCGGCGTTTTTTAAAAAACGCCGC
* * * *
84564474 CAAAGACCAGGACCTTTAACGACGTTTTTTATAAAAGCGCCGC
1 TAAAGACCAGGACCTTTAGCGGCGTTTTTTA-AAAAACGCCGC
* *
84564517 TAAAGACCAGGACCTTTAGCGGCACTTTTATAAAAAACGCCGC
1 TAAAGACCAGGACCTTTAGCGGC-GTTTTTTAAAAAACGCCGC
* * * * * *
84564560 TATAGGCCTA-TACTTTTAGCGGCGCTTTTGTAAAAAACGTCGC
1 TAAAGACC-AGGACCTTTAGCGGCG-TTTTTTAAAAAACGCCGC
* *** * *
84564603 TGTAA-ACCTCAACTTTTAGCGGCGCGTTTTTAAAAAACGCCGC
1 T-AAAGACCAGGACCTTTAGCGGCG-TTTTTTAAAAAACGCCGC
84564646 TAA
1 TAA
84564649 TTTGCCCAGT
Statistics
Matches: 177, Mismatches: 32, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
41 27 0.15
42 14 0.08
43 128 0.72
44 8 0.05
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (42 bp):
TAAAGACCAGGACCTTTAGCGGCGTTTTTTAAAAAACGCCGC
Found at i:84564532 original size:84 final size:86
Alignment explanation
Indices: 84564391--84564559 Score: 261
Period size: 84 Copynumber: 2.0 Consensus size: 86
84564381 CACAAAAGTT
* * *
84564391 AAAGACCACGATCTTTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGC
1 AAAGACCACGACCTTTAACGACGTTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGC
*
84564456 GC-TCT-TAAAAAACGCCGCC
66 ACTTCTATAAAAAACGCCGCC
* *
84564475 AAAGACCAGGACCTTTAACGACGTTTTTTATAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGC
1 AAAGACCACGACCTTTAACGACGTTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGC
*
84564540 ACTTTTATAAAAAACGCCGC
66 ACTTCTATAAAAAACGCCGC
84564560 TATAGGCCTA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
84 61 0.80
85 2 0.03
86 13 0.17
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (86 bp):
AAAGACCACGACCTTTAACGACGTTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGC
ACTTCTATAAAAAACGCCGCC
Found at i:84564973 original size:21 final size:21
Alignment explanation
Indices: 84564944--84564989 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
84564934 TCCTGTTCTG
*
84564944 CTCCACCTCCCTCGCTGTTGC
1 CTCCACCTCCCTCGCTGCTGC
*
84564965 CTCCGCCTCCCTCGCTGCTGC
1 CTCCACCTCCCTCGCTGCTGC
84564986 CTCC
1 CTCC
84564990 TCTCTAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.57, G:0.15, T:0.26
Consensus pattern (21 bp):
CTCCACCTCCCTCGCTGCTGC
Found at i:84565579 original size:18 final size:18
Alignment explanation
Indices: 84565547--84565584 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
84565537 TACAATATAG
84565547 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
84565566 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
84565583 TA
1 TA
84565585 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:84571168 original size:21 final size:21
Alignment explanation
Indices: 84571144--84571183 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
84571134 AAATTAATTC
*
84571144 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
84571165 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
84571184 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:84573466 original size:133 final size:133
Alignment explanation
Indices: 84573246--84573497 Score: 486
Period size: 133 Copynumber: 1.9 Consensus size: 133
84573236 GAATTCAACA
84573246 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
*
84573311 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACGTCTAAATAACCAAAATATAACAATTTT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
84573376 ATT
131 ATT
*
84573379 ATATAAAACGTGAGCAACAAGACAGCATTAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
84573444 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
84573498 GGAATCACCA
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 117 1.00
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.20
Consensus pattern (133 bp):
ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
ATT
Found at i:84576891 original size:10 final size:11
Alignment explanation
Indices: 84576870--84576920 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
84576860 ACTAAACCAC
84576870 TTTTCATATATA
1 TTTT-ATATATA
84576882 TATTTATATATA
1 T-TTTATATATA
*
84576894 TTTTAAAATAATA
1 TTTT-ATAT-ATA
84576907 TTTTATATATA
1 TTTTATATATA
84576918 TTT
1 TTT
84576921 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:84576929 original size:15 final size:15
Alignment explanation
Indices: 84576909--84576940 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
84576899 AAATAATATT
*
84576909 TTATATATATTTATC
1 TTATATACATTTATC
84576924 TTATATACATTTATC
1 TTATATACATTTATC
84576939 TT
1 TT
84576941 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:84578032 original size:41 final size:41
Alignment explanation
Indices: 84577975--84578358 Score: 551
Period size: 41 Copynumber: 9.4 Consensus size: 41
84577965 GGTTATGGGA
* *
84577975 TTTTTAGCGGCATTTTACCAAAAGCGCCACTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
84578016 TTTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCACTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
84578057 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCCCT-G
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
84578097 TTTTTAGCGGCGTTTTA-TAGAAAGTGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGG
* *
84578138 TTTTTATCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
84578179 TTTTTAGCGGCGTTTTA-CATAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGG
* * *
84578220 TTTTTAGCGGCGTTTTACCTAAGGCGCCGCTAATGCTCTAG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
84578261 TTTTTAGCGGCGTTTTACCTAAAGCGCCGTTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* * *
84578302 TTTTTAGCGGCGTTTTACCGAAAGCACCGCTAATGCTCT-A
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
*
84578342 TTTTTAGCGGCATTTTA
1 TTTTTAGCGGCGTTTTA
84578359 GTAAAAAACG
Statistics
Matches: 311, Mismatches: 27, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
40 52 0.17
41 258 0.83
42 1 0.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
Found at i:84578192 original size:122 final size:121
Alignment explanation
Indices: 84577975--84578358 Score: 579
Period size: 122 Copynumber: 3.1 Consensus size: 121
84577965 GGTTATGGGA
* *
84577975 TTTTTAGCGGCATTTTACCAAAAGCGCCACTAATGCTCTGGTTTTTAGCGGCGTTTTACCCAAAG
1 TTTTTAGCGGCATTTTA-CAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAG
* *
84578040 CGCCGCTAATGCACTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCCCTG
65 CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG
* * * *
84578097 TTTTTAGCGGCGTTTTATAGAAAGTGCCGCTAATGCTCTGGTTTTTATCGGCGTTTTACCTAAAG
1 TTTTTAGCGGCATTTTACA-AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAG
**
84578162 CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCTCTGG
65 CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-G
* * * *
84578220 TTTTTAGCGGCGTTTTACCTAAGGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCTAAAG
1 TTTTTAGCGGCATTTTA-CAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAG
* * *
84578285 CGCCGTTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCACCGCTAATGCTCTA
65 CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG
84578342 TTTTTAGCGGCATTTTA
1 TTTTTAGCGGCATTTTA
84578359 GTAAAAAACG
Statistics
Matches: 237, Mismatches: 22, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
121 1 0.00
122 125 0.53
123 111 0.47
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (121 bp):
TTTTTAGCGGCATTTTACAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCTAAAGC
GCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG
Found at i:84585005 original size:39 final size:40
Alignment explanation
Indices: 84584891--84585090 Score: 272
Period size: 39 Copynumber: 5.2 Consensus size: 40
84584881 AACCCAAGTA
* * * *
84584891 CCTTCGGGATTTAG-CCGGTTATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
84584930 CCTTC-GGACTTAGCCCGG--ATA-TAACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
84584965 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
84585004 CCTTC-GGATCTTAGTCCGGTTATAGTAACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCACAAATG
*
84585044 CCTTCGGGACTTAGCTCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
84585084 CCTTCGG
1 CCTTCGG
84585091 ATCTTAGTCC
Statistics
Matches: 144, Mismatches: 8, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
35 9 0.06
36 21 0.15
37 3 0.02
38 13 0.09
39 50 0.35
40 45 0.31
41 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:84585054 original size:79 final size:78
Alignment explanation
Indices: 84584891--84585106 Score: 325
Period size: 79 Copynumber: 2.8 Consensus size: 78
84584881 AACCCAAGTA
* * * * *
84584891 CCTTCGGGATTTAG-CCGGTTATAGCAACTCGCACAAATGCCTTCGGA-CTTAGCCCGG--ATAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATAT
84584952 AACTAGCACAATG
66 AACTAGCACAATG
84584965 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCA-AAATGCCTTCGGATCTTAGTCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATA-
84585029 TAACTAGCACAAATG
65 TAACTAGCAC-AATG
*
84585044 CCTTCGGGACTTAGCTCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTAT
84585107 CATCCGAATA
Statistics
Matches: 129, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
74 26 0.20
75 25 0.19
77 3 0.02
78 10 0.08
79 37 0.29
80 28 0.22
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGTTATAT
AACTAGCACAATG
Found at i:84586526 original size:13 final size:13
Alignment explanation
Indices: 84586510--84586537 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
84586500 TTTATTATTT
84586510 TTAACACAAAATA
1 TTAACACAAAATA
84586523 TTAACACAAAATA
1 TTAACACAAAATA
84586536 TT
1 TT
84586538 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:84587870 original size:43 final size:42
Alignment explanation
Indices: 84587753--84587870 Score: 103
Period size: 43 Copynumber: 2.8 Consensus size: 42
84587743 GATTTGAGAT
* * * **
84587753 TTACATATAAAACCATGTCTGGGACATTGGCATCGTATTTGA
1 TTACATGTAAGACCATGTCTGGGACGTTGGCATCGTATTAAA
* * * * * *
84587795 TTTCGTGTAAGACCTTATCTGGGATAG-AGGCATCGATATTAAA
1 TTACATGTAAGACCATGTCTGGGA-CGTTGGCATCG-TATTAAA
*
84587838 TTACATGTAAGACCATGTCCGGGACGTTGGCAT
1 TTACATGTAAGACCATGTCTGGGACGTTGGCAT
84587871 TGTACTTTTT
Statistics
Matches: 55, Mismatches: 18, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
42 26 0.47
43 29 0.53
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACGTTGGCATCGTATTAAA
Found at i:84602328 original size:38 final size:39
Alignment explanation
Indices: 84602220--84602371 Score: 130
Period size: 38 Copynumber: 3.9 Consensus size: 39
84602210 ATTTGATGTG
* * *
84602220 TATCCGGGCTTAAAGACCCGCAGG-CTATATGCTGGAAATA
1 TATCCGGG-TTAAAGTCCCGCAGGCCTA-GTGCTGGTAATA
* * * *
84602260 TATCCAGGTTAAA-TCCCGTAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAAGTCCCGCAGGCCTAGTGCTGGTAATA
* *
84602298 TATCCGGGTTAAA-TCCCGCAGGCCTAGTGCTAGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCCTAGTGCTGGTAATA
* * * * *
84602336 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 TATCCG-GGTTAAAGTCCCGCAGGCCTAGTGCTGGT
84602372 GTTATGTTTG
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
38 54 0.60
39 12 0.13
40 24 0.27
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (39 bp):
TATCCGGGTTAAAGTCCCGCAGGCCTAGTGCTGGTAATA
Found at i:84602368 original size:40 final size:38
Alignment explanation
Indices: 84602256--84602368 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 38
84602246 ATATGCTGGA
* *
84602256 AATATATCCAGGTTAAATCCCGTAGGCTTCGTGCTGGT
1 AATATATCCGGGTTAAATCCCGTAGGCTTCGTGCTAGT
* * *
84602294 AATATATCCGGGTTAAATCCCGCAGGCCTAGTGCTAGT
1 AATATATCCGGGTTAAATCCCGTAGGCTTCGTGCTAGT
* * *
84602332 ATTATATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCT
1 AATATATCCG-GGTTAAA-TCCCGTAGGCTTCGTGCT
84602369 GGTGTTATGT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
38 41 0.66
39 6 0.10
40 15 0.24
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (38 bp):
AATATATCCGGGTTAAATCCCGTAGGCTTCGTGCTAGT
Found at i:84613023 original size:42 final size:43
Alignment explanation
Indices: 84612946--84613037 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 43
84612936 TCTCGGGCGT
* * ** * *
84612946 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCTAGATAG
1 GGTCTTACACGAAATTCAATATCGATGCCAATGTCCCAGACAG
*
84612989 GGTCTTACACGAAATT-AGATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATTCA-ATATCGATGCCAATGTCCCAGACAG
84613031 GGTCTTA
1 GGTCTTA
84613038 TACATAAATC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
42 24 0.59
43 17 0.41
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
GGTCTTACACGAAATTCAATATCGATGCCAATGTCCCAGACAG
Found at i:84615271 original size:25 final size:25
Alignment explanation
Indices: 84615243--84615319 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
84615233 ATGGAATCGG
84615243 CCATATTATGAGAGCCAGTGTAAGA
1 CCATATTATGAGAGCCAGTGTAAGA
* * * * * *
84615268 CCATGTT-TG-GAACAAG-GCATCGG
1 CCATATTATGAGAGCCAGTGTA-AGA
*
84615291 CCACATTATGAGAGCCAGTGTAAGA
1 CCATATTATGAGAGCCAGTGTAAGA
84615316 CCAT
1 CCAT
84615320 GTTTAGAACA
Statistics
Matches: 34, Mismatches: 14, Indels: 8
0.61 0.25 0.14
Matches are distributed among these distances:
22 2 0.06
23 11 0.32
24 4 0.12
25 15 0.44
26 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (25 bp):
CCATATTATGAGAGCCAGTGTAAGA
Found at i:84615477 original size:144 final size:144
Alignment explanation
Indices: 84615211--84615528 Score: 356
Period size: 144 Copynumber: 2.2 Consensus size: 144
84615201 TATGTGTGCG
* * * * *
84615211 AATGTAAGACCATGTATGGGACATGGAATCGGCCATATTATGAGAGCCAGTGTAAGACCATGTTT
1 AATGTAAGACCATGTATGGGACATGGCATCGGCAATATTATGAGAGCCAGAGTAAAACCATGTCT
* * *
84615276 GGAACAAGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTAGAACATGGCATCAGCA
66 GGAACAAGGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCAGC-
**
84615341 AT-GTTATGAGAGCC
130 ATCGACATGAGAGCC
* *
84615355 AATGTAAGACCATG-ATTGGAACATGGCATCGGCAATGTTATGAGAGCCAGAGTAAAACCATGTC
1 AATGTAAGACCATGTA-TGGGACATGGCATCGGCAATATTATGAGAGCCAGAGTAAAACCATGTC
* * * ** * * *
84615419 TGGGACATGGCATCGG-CATGGA-GACGAGAGCTTGTGTAAGACCATGTCTGGGATATGGCATCA
65 TGGAACAAGGCATCGGCCA--CATGACGAGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCA
* *
84615482 GCCTCGACATGTGAGCC
128 GCATCGACATGAGAGCC
* *
84615499 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AATGTAAGACCATGTATGGGACATGGCATC
84615529 AACAATTTAC
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
143 4 0.03
144 139 0.97
145 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (144 bp):
AATGTAAGACCATGTATGGGACATGGCATCGGCAATATTATGAGAGCCAGAGTAAAACCATGTCT
GGAACAAGGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTCTAGAACATGGCATCAGCA
TCGACATGAGAGCC
Found at i:84615529 original size:48 final size:47
Alignment explanation
Indices: 84615213--84615528 Score: 305
Period size: 48 Copynumber: 6.6 Consensus size: 47
84615203 TGTGTGCGAA
* *
84615213 TGTAAGACCATGTATGGGACATGGAATCGGCCAT-ATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CATGA-TATGAGAGCCAG
* * * *
84615261 TGTAAGACCATGTTTGGAACAAGGCATCGGCCA-CATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CATGA-TATGAGAGCCAG
* * * * * *
84615309 TGTAAGACCATGTTTAGAACATGGCATCAGCAATGTTATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-ATGATATGAGAGCCAG
* *
84615357 TGTAAGACCATGAT-TGGAACATGGCATCGGCAATGTTATGAGAGCCAG
1 TGTAAGACCATG-TCTGGGACATGGCATCGGC-ATGATATGAGAGCCAG
* * * * **
84615405 AGTAAAACCATGTCTGGGACATGGCATCGGCATGGAGACGAGAGCTTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAT-GATATGAGAGCCAG
* * * * *
84615453 TGTAAGACCATGTCTGGGATATGGCATCAGCCTCGACATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAT-GATATGAGAGCCAG
84615501 TGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
84615529 AACAATTTAC
Statistics
Matches: 229, Mismatches: 33, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
47 4 0.02
48 224 0.98
49 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.22
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATGATATGAGAGCCAG
Found at i:84615983 original size:46 final size:46
Alignment explanation
Indices: 84615930--84616021 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
84615920 TTTTCATATA
84615930 GTGCCACCAAGCTAGCATCGGGAATCAAGGGACGTCGAAGGCATCG
1 GTGCCACCAAGCTAGCATCGGGAATCAAGGGACGTCGAAGGCATCG
*
84615976 GTGCCACCAAGCTAGCATCGGGAATCAAGGGACGTCGGAGGCATCG
1 GTGCCACCAAGCTAGCATCGGGAATCAAGGGACGTCGAAGGCATCG
84616022 ATCACACTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.27, C:0.26, G:0.34, T:0.13
Consensus pattern (46 bp):
GTGCCACCAAGCTAGCATCGGGAATCAAGGGACGTCGAAGGCATCG
Found at i:84618674 original size:49 final size:49
Alignment explanation
Indices: 84618604--84618791 Score: 223
Period size: 49 Copynumber: 3.8 Consensus size: 49
84618594 TGAGGTCATG
* * * *
84618604 TGTGTAGTACGAAGTGCAGGCTACTATGTGTACCAGATTTTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATATTTGGTCGCA
* * * * ***
84618653 TGTGCAGTACTAAGTGCAGGCTACTACGCGTACCTGATAACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT-A-TTTGGTCGCA
* * *
84618704 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATATTTGGTCGCA
*
84618753 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
84618792 GCTTCGGCTA
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 73 0.64
50 1 0.01
51 40 0.35
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATATTTGGTCGCA
Found at i:84618772 original size:100 final size:100
Alignment explanation
Indices: 84618599--84618797 Score: 317
Period size: 100 Copynumber: 2.0 Consensus size: 100
84618589 TATTATGAGG
* **
84618599 TCATGTGTGTAGTACGAAGTGCAGGCTACTATGTGTACCAGATTTTTGGTCGCATGTGCAGTACT
1 TCATGTGTGTAGTACGAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGCAGTACT
*
84618664 AAGTGCAGGCTACTACGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCAGATAACTTCGA
* * *
84618699 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCATGTGTGTAGTACGAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGCAGTACT
* *
84618764 AAGTGCAGGCTACTATGCGTACCAGATAGCTTCG
66 AAGTGCAGGCTACTACGCGTACCAGATAACTTCG
84618798 GCTACAAGTG
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (100 bp):
TCATGTGTGTAGTACGAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGCAGTACT
AAGTGCAGGCTACTACGCGTACCAGATAACTTCGA
Found at i:84621557 original size:16 final size:15
Alignment explanation
Indices: 84621508--84621557 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
84621498 GTGTTGTAAA
84621508 TTGGA-TTCTCTTATC
1 TTGGATTTCT-TTATC
* *
84621523 ATAGATTTCTTTATC
1 TTGGATTTCTTTATC
84621538 TTGGATTTCTTTATTC
1 TTGGATTTCTTTA-TC
84621554 TTGG
1 TTGG
84621558 CTTCTCTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:84623901 original size:49 final size:50
Alignment explanation
Indices: 84623834--84624080 Score: 223
Period size: 49 Copynumber: 5.0 Consensus size: 50
84623824 AGCTATTGTG
* *
84623834 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAGTT
* * * * ** * *
84623884 -GGTCGCATGTGTAGTACTAAATGGAGGCTACTATGCATACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGAT-AGTT
* * * * * * *
84623934 CGATCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTATCAGA-AGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATA-GTT
* *
84623984 AGGTCACGTGTGTAGTACTACA-TGCAGGCTACTACGTGTACCGGATA-AT
1 AGGTCACATGTGTAGTACTA-AGTGCAGGCTACTACGTGTACCGGATAGTT
* * * * *
84624033 GGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAG
84624081 CTTCGGCTAC
Statistics
Matches: 154, Mismatches: 36, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
48 1 0.01
49 78 0.51
50 41 0.27
51 34 0.22
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAGTT
Found at i:84629710 original size:47 final size:47
Alignment explanation
Indices: 84629621--84629712 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
84629611 GGTAAGGTGC
* * *
84629621 CGATGCCATGTCCTAGACATGGTATTACGCTAGCTCATATCTCATGT
1 CGATGCCATGTCCCAGACATGGTATTACACTAACTCATATCTCATGT
* * *
84629668 CGATTCCATGTCCCAGACTTGGTCTTACACTAACT-ATCATCTCAT
1 CGATGCCATGTCCCAGACATGGTATTACACTAACTCAT-ATCTCAT
84629713 AACCGGTACA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 2 0.05
47 36 0.95
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTATTACACTAACTCATATCTCATGT
Found at i:84629771 original size:46 final size:47
Alignment explanation
Indices: 84629721--84629838 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 47
84629711 ATAACCGGTA
* * *
84629721 CATGTCCCAGGCATGTCTTACACTTGCTTAC-C-TCTCAAGGCTAATG-
1 CATGTCCCAGACATGTCTTACACTAGC--ACTCGTCTCAAGGCCAATGC
* *
84629767 CATGTCTCAGACATGTCTTACACTAGCACTCGTCTCAATGCCAATGC
1 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGCCAATGC
*
84629814 CATGTCCTAGACATGGTCTTACACT
1 CATGTCCCAGACAT-GTCTTACACT
84629839 GGCTCTCATA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
44 2 0.03
45 1 0.02
46 36 0.59
47 12 0.20
48 10 0.16
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGCCAATGC
Found at i:84631638 original size:42 final size:42
Alignment explanation
Indices: 84631543--84631640 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
84631533 GCTCGTCACT
*
84631543 CACACGCCCATGTTTCGTCACACGGCCTACCACACAAGCGAC
1 CACACGCCCGTGTTTCGTCACACGGCCTACCACACAAGCGAC
*
84631585 CACACGCCCGTGTTTCGTCACACGGCCTACCACACAGGCGAC
1 CACACGCCCGTGTTTCGTCACACGGCCTACCACACAAGCGAC
*
84631627 CACACGTCCGTGTT
1 CACACGCCCGTGTT
84631641 GTGTCGACAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.22, C:0.42, G:0.19, T:0.16
Consensus pattern (42 bp):
CACACGCCCGTGTTTCGTCACACGGCCTACCACACAAGCGAC
Found at i:84633206 original size:17 final size:17
Alignment explanation
Indices: 84633184--84633224 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
84633174 GGTAAGAATA
84633184 AATTTTAATAAATTTTT
1 AATTTTAATAAATTTTT
** *
84633201 AATTTTTTTAATTTTTT
1 AATTTTAATAAATTTTT
84633218 AATTTTA
1 AATTTTA
84633225 TAGTTATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTTAATAAATTTTT
Found at i:84635196 original size:50 final size:50
Alignment explanation
Indices: 84635082--84635375 Score: 333
Period size: 50 Copynumber: 5.9 Consensus size: 50
84635072 CTAGTACGCA
* * * ** **
84635082 TAGTAGCCTGCATTTAGTACTACACATGCGACC-AATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
*
84635131 TAGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
*
84635181 TAGTAGCCTGAACTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
* * * ** * * * *
84635231 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATTAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATTTGATACACG
* * * * * *
84635282 TA-TAGCTTGCACTTAGTACTACACATGCGACC-AACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
*
84635330 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATTTGATA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATA
84635376 GGCAGCCACA
Statistics
Matches: 203, Mismatches: 38, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
48 10 0.05
49 57 0.28
50 126 0.62
51 10 0.05
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
Found at i:84635229 original size:24 final size:24
Alignment explanation
Indices: 84635151--84635229 Score: 58
Period size: 24 Copynumber: 3.2 Consensus size: 24
84635141 CACTTAGTAC
*
84635151 TACAAACGTGACCTAACCATTTGA
1 TACACACGTGACCTAACCATTTGA
*
84635175 T--ACACGTAGTAGCCTGAA-C-TTAGTA
1 TACACACGT-G-A-CCT-AACCATTTG-A
84635200 CTACACACGTGACCTAACCATTTGA
1 -TACACACGTGACCTAACCATTTGA
84635225 TACAC
1 TACAC
84635230 GTAGTAGCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 20
0.65 0.05 0.31
Matches are distributed among these distances:
22 5 0.12
23 1 0.02
24 12 0.29
25 10 0.24
26 7 0.17
27 1 0.02
28 6 0.14
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (24 bp):
TACACACGTGACCTAACCATTTGA
Found at i:84635927 original size:30 final size:30
Alignment explanation
Indices: 84635893--84635953 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
84635883 CCTTTAATAC
84635893 AAAC-TTTGACAAAATTAC-CATTTTGCCCCT
1 AAACTTTTG-CAAAATTACAC-TTTTGCCCCT
*
84635923 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
84635953 A
1 A
84635954 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:84637958 original size:46 final size:46
Alignment explanation
Indices: 84637905--84638064 Score: 239
Period size: 46 Copynumber: 3.5 Consensus size: 46
84637895 TATATATACA
* * * * * *
84637905 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
*
84637951 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
*
84637997 TATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
*
84638043 TATCTCATACACATTTCGCATT
1 CATCTCATACACATTTCGCATT
84638065 CATCACATTG
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 105 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.38
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
Found at i:84638116 original size:47 final size:47
Alignment explanation
Indices: 84638048--84638167 Score: 206
Period size: 47 Copynumber: 2.6 Consensus size: 47
84638038 ATATCTATCT
* * *
84638048 CATACACAT-TTCGCATTCATCACATTGGCCATTCGGCCTTATCGCA
1 CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
84638094 CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
84638141 CATACGCATGTTCACATTCATCACATT
1 CATACGCATGTTCACATTCATCACATT
84638168 AAAATCCTAA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 8 0.11
47 62 0.89
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.31
Consensus pattern (47 bp):
CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
Found at i:84638119 original size:23 final size:23
Alignment explanation
Indices: 84638092--84638166 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
84638082 GGCCTTATCG
84638092 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** * *
84638115 CACATTGGCCA--TTCGGCCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
84638137 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
84638162 CACAT
1 CACAT
84638167 TAAAATCCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 16 0.43
24 11 0.30
25 5 0.14
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:84663703 original size:42 final size:43
Alignment explanation
Indices: 84663656--84663745 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
84663646 AGATCATTTT
* *
84663656 TGGGACA-TCGACATC-GTATTTGATTTCATGTAAGACC-CTGTC
1 TGGGACAGT-GACATCAATATTTGATTACATGTAAGACCAC-GTC
*
84663698 TGGGACAGTGGCATCAATATTTGATTACATGTAAGACCACGTC
1 TGGGACAGTGACATCAATATTTGATTACATGTAAGACCACGTC
84663741 TGGGA
1 TGGGA
84663746 TGTTGGATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 12 0.29
43 29 0.69
44 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
TGGGACAGTGACATCAATATTTGATTACATGTAAGACCACGTC
Found at i:84665710 original size:27 final size:27
Alignment explanation
Indices: 84665675--84665729 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
84665665 TGAGAGATAC
84665675 AGCGTATTATTGGTGGAAGACGTTGAT
1 AGCGTATTATTGGTGGAAGACGTTGAT
84665702 AGCGTATTATTGGTGGAAGACGTTGAT
1 AGCGTATTATTGGTGGAAGACGTTGAT
84665729 A
1 A
84665730 TCAGTGGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.07, G:0.33, T:0.33
Consensus pattern (27 bp):
AGCGTATTATTGGTGGAAGACGTTGAT
Found at i:84668823 original size:46 final size:46
Alignment explanation
Indices: 84668734--84668823 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
84668724 ACAACTCAAC
*
84668734 GGCCGTAAATATTACAGCAACGCTGCCAGTTAACAGAATGGCTAAA
1 GGCCGTAAATATTACAGCAACGCTGCCAGTTAACAGAACGGCTAAA
* *
84668780 GGCCGTAAATATTACAGCAACGCTGCCAGTTGACTGAACGGCTA
1 GGCCGTAAATATTACAGCAACGCTGCCAGTTAACAGAACGGCTA
84668824 TAAGCCATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (46 bp):
GGCCGTAAATATTACAGCAACGCTGCCAGTTAACAGAACGGCTAAA
Found at i:84669080 original size:27 final size:27
Alignment explanation
Indices: 84669032--84669084 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
84669022 CATTCTACCA
* *
84669032 TACAGGGGTATTACGGTCATTTTACAC
1 TACAAGGGTATTACAGTCATTTTACAC
* *
84669059 TACAAGGGTATTTCAGTGATTTTACA
1 TACAAGGGTATTACAGTCATTTTACA
84669085 AACTGAGGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTACAGTCATTTTACAC
Found at i:84673590 original size:43 final size:44
Alignment explanation
Indices: 84673432--84673601 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 44
84673422 ATAGGATTCT
* * *
84673432 GATATGTGATTTCGTGTAAGACCACGTCTGGGA-TGTTGGCATC
1 GATATGTGATTACATGTAAGACCACGTCTGGGACAGTTGGCATC
* * **
84673475 GAT-TAGAGATTTACGTGTAAGACCATTTCTGGG-CA-TTGGCATC
1 GATAT-GTGA-TTACATGTAAGACCACGTCTGGGACAGTTGGCATC
* * *
84673518 -ATATTTGATTTCATGTAAGACC-CTATCTGGGACAG-TGGCATC
1 GATATGTGATTACATGTAAGACCAC-GTCTGGGACAGTTGGCATC
*
84673560 GATATTTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 GATATGTGATTACATGTAAGACCACGTCTGGGACAGTTGGCAT
84673602 TCTACGAGCT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
41 18 0.17
42 15 0.14
43 50 0.48
44 21 0.20
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (44 bp):
GATATGTGATTACATGTAAGACCACGTCTGGGACAGTTGGCATC
Found at i:84675772 original size:31 final size:31
Alignment explanation
Indices: 84675734--84675794 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
84675724 GTGACCATAT
84675734 TCGCCTTTCCCTGGTGGTAGTCAATCACTAG
1 TCGCCTTTCCCTGGTGGTAGTCAATCACTAG
*
84675765 TCGCCTTTCCCTGGTTGTAGTCAATCACTA
1 TCGCCTTTCCCTGGTGGTAGTCAATCACTA
84675795 ACTCGTAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.16, C:0.30, G:0.20, T:0.34
Consensus pattern (31 bp):
TCGCCTTTCCCTGGTGGTAGTCAATCACTAG
Found at i:84681644 original size:19 final size:20
Alignment explanation
Indices: 84681620--84681657 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
84681610 GGTACCATCA
84681620 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
84681639 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
84681658 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:84681998 original size:93 final size:93
Alignment explanation
Indices: 84681887--84682057 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
84681877 GCCCCTATGT
*
84681887 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
84681952 CGACTTCAGATGCCTAGTTACAACTCAC
66 CGACTTCAGATGCCTAGTTACAACTCAC
* * * *
84681980 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
* *
84682045 CGAGTTCGGATGC
66 CGACTTCAGATGC
84682058 TCATCCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGACTTCAGATGCCTAGTTACAACTCAC
Found at i:84682054 original size:46 final size:46
Alignment explanation
Indices: 84681885--84682054 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
84681875 CCGCCCCTAT
* * * *
84681885 GTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
* * * * * * *
84681931 ATGAACTCGGACTCAACTCAACGACTTCAGATGCCTAGTTACA-AC-TCA
1 GTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-ATTTGCATCCATAA
*
84681979 -CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
84682024 GTGAACTCGGACTCAACTCAACGAGTTCGGA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGA
84682055 TGCTCATCCA
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 2 0.02
46 54 0.55
47 26 0.26
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
Found at i:84682073 original size:46 final size:46
Alignment explanation
Indices: 84681885--84682073 Score: 140
Period size: 46 Copynumber: 4.1 Consensus size: 46
84681875 CCGCCCCTAT
* * * * *
84681885 GTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCAT-AA
1 GTGAACTCGGACTCAACTCAACGAGTTC-GGCATGCTCATCCATCTA
* * * * *
84681931 ATGAACTCGGACTCAACTCAACGACTTCAG-ATGC-CTAGTTACAACTCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGCATGCTC-A--TCCATCT-A
* * *
84681979 -CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AA
1 GTGAACTCGGACTCAACTCAACGAGTTCGG-CATGCT-CATCCATCTA
84682024 GTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCATCCATCCTA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGCATGCTCATCCAT-CTA
84682070 GTGA
1 GTGA
84682074 CATGTCACTT
Statistics
Matches: 111, Mismatches: 19, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
43 1 0.01
44 13 0.12
45 3 0.03
46 60 0.54
47 29 0.26
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGCATGCTCATCCATCTA
Found at i:84682510 original size:30 final size:30
Alignment explanation
Indices: 84682476--84682535 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
84682466 ATTTAATACG
84682476 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
84682506 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
84682536 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:84684491 original size:6 final size:6
Alignment explanation
Indices: 84684480--84684757 Score: 218
Period size: 6 Copynumber: 45.8 Consensus size: 6
84684470 AACCAAAATG
* *
84684480 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATT AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
84684528 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAACC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
84684577 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC
* * * *
84684625 AAAATC AGAATC AGAATC AGAATT AGGTGAT- AGAATA AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* * *
84684674 AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAACC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
84684722 AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
84684758 GTGAATACAA
Statistics
Matches: 219, Mismatches: 28, Indels: 50
0.74 0.09 0.17
Matches are distributed among these distances:
5 18 0.08
6 180 0.82
7 15 0.07
8 6 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:84684493 original size:30 final size:30
Alignment explanation
Indices: 84684480--84684757 Score: 356
Period size: 30 Copynumber: 9.4 Consensus size: 30
84684470 AACCAAAATG
*
84684480 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
84684510 AGAATTAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
84684540 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
* *
84684571 AGAACCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
84684601 AGAATCAGAATCA-ATATTAGTAACAAAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
84684631 AGAATCAGAATCAGAATTAGGT----G-AT-
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
* *
84684656 AGAATAAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
84684686 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
84684716 AGAACCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
84684747 AGAATCAGAAT
1 AGAATCAGAAT
84684758 GTGAATACAA
Statistics
Matches: 215, Mismatches: 20, Indels: 25
0.83 0.08 0.10
Matches are distributed among these distances:
24 2 0.01
25 17 0.08
26 2 0.01
28 1 0.00
29 4 0.02
30 138 0.64
31 51 0.24
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:84684580 original size:85 final size:85
Alignment explanation
Indices: 84684480--84684757 Score: 448
Period size: 85 Copynumber: 3.2 Consensus size: 85
84684470 AACCAAAATG
*
84684480 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATTAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
84684545 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
*
84684565 AGAATCAGAACCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAAAAT
1 AGAAT------CAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAAT
*
84684630 CAGAATCAGAATCAGAATTAGGTGAT
60 CAGAATCAGAATCAGAATTAGGTGAC
* * *
84684656 AGAATAAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAC
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
84684721 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
84684741 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
84684758 GTGAATACAA
Statistics
Matches: 178, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
85 96 0.54
91 82 0.46
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:84684588 original size:91 final size:91
Alignment explanation
Indices: 84684480--84684757 Score: 460
Period size: 91 Copynumber: 3.1 Consensus size: 91
84684470 AACCAAAATG
*
84684480 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATTAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
84684545 CAGAATCAGAATTAGGTGACAGAATC
66 CAGAATCAGAATTAGGTGACAGAATC
* *
84684571 AGAACCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAAAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
84684636 CAGAATCAGAATTAGGT----G-AT-
66 CAGAATCAGAATTAGGTGACAGAATC
* * *
84684656 AGAATAAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAC
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
84684721 CAGAATCAGAATTAGGTGACAGAATC
66 CAGAATCAGAATTAGGTGACAGAATC
84684747 AGAATCAGAAT
1 AGAATCAGAAT
84684758 GTGAATACAA
Statistics
Matches: 172, Mismatches: 9, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
85 77 0.45
86 2 0.01
87 1 0.01
89 1 0.01
90 2 0.01
91 89 0.52
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (91 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGACAGAATC
Found at i:84684912 original size:27 final size:26
Alignment explanation
Indices: 84684875--84684940 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
84684865 AGCATAGCTG
*
84684875 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
84684901 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
84684928 CCAGAATCAGATA
1 CCAGAA-CAGATA
84684941 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:84684945 original size:27 final size:27
Alignment explanation
Indices: 84684875--84684948 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
84684865 AGCATAGCTG
* *
84684875 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
84684901 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
84684928 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
84684949 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:84684955 original size:27 final size:27
Alignment explanation
Indices: 84684899--84684956 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
84684889 GTGACAGAGT
* * *
84684899 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
84684926 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
84684953 CACC
1 CACC
84684957 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:84685295 original size:27 final size:26
Alignment explanation
Indices: 84685262--84685321 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
84685252 ATCGATCAAT
*
84685262 AGATATTGTGATAAAGTCACCAAATAC
1 AGATATTGTGATAAAGCCACCAAA-AC
* * *
84685289 AGATATTGTGGTAGAGCCACCAGAAC
1 AGATATTGTGATAAAGCCACCAAAAC
84685315 AGATATT
1 AGATATT
84685322 TGTGGCATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (26 bp):
AGATATTGTGATAAAGCCACCAAAAC
Found at i:84685324 original size:27 final size:26
Alignment explanation
Indices: 84685287--84685341 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
84685277 GTCACCAAAT
*
84685287 ACAGATATTGTGGTAGAGCCACCAGA
1 ACAGATATTGTGGCAGAGCCACCAGA
*
84685313 ACAGATATTTGTGGCATAGCCACCAGA
1 ACAGATA-TTGTGGCAGAGCCACCAGA
84685340 AC
1 AC
84685342 GCTTCCTCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (26 bp):
ACAGATATTGTGGCAGAGCCACCAGA
Found at i:84685570 original size:27 final size:27
Alignment explanation
Indices: 84685540--84685707 Score: 185
Period size: 27 Copynumber: 6.3 Consensus size: 27
84685530 GGGGCAAAAT
* * *
84685540 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
84685567 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
84685594 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
84685621 GATAATTCTACCCTAC-AGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
84685647 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * * *
84685674 AGTAATTCTATCCTATAGGGGTCTTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
84685701 AGTAATT
1 GGTAATT
84685708 TCACAATCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.18
27 100 0.82
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:84685707 original size:80 final size:80
Alignment explanation
Indices: 84685541--84685707 Score: 201
Period size: 80 Copynumber: 2.1 Consensus size: 80
84685531 GGGCAAAATG
* * * *
84685541 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACC
84685606 CTACAAGGGTATTTC
66 CTACAAGGGTATTTC
* * * * *
84685621 GATAATTCTACCCTAC-AGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTAT
1 G-TAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTAC
* * *
84685685 CCTATAGGGGTCTTTC
65 CCTACAAGGGTATTTC
84685701 AGTAATT
1 -GTAATT
84685708 TCACAATCAA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
80 60 0.82
81 13 0.18
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (80 bp):
GTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACC
CTACAAGGGTATTTC
Found at i:84685720 original size:53 final size:53
Alignment explanation
Indices: 84685555--84685722 Score: 166
Period size: 53 Copynumber: 3.2 Consensus size: 53
84685545 TTTTACCCCA
* **
84685555 CAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGT-ATTTCTACCCT
1 CAAGGGTATTTC-GTAATTCTACCCTATAGGGGTATTTCGGTAATTTCTACAAT
* * *
84685608 ACAAGGGTATTTCGATAATTCTACCCTACA-GGGTATTTTGGTAA-TTCTATCCTAT
1 -CAAGGGTATTTCG-TAATTCTACCCTATAGGGGTATTTCGGTAATTTCTA--CAAT
* * *
84685663 -AAGGGTATTTCAGTAATTCTATCCTATAGGGGTCTTTCAGTAATTTC-ACAAT
1 CAAGGGTATTTC-GTAATTCTACCCTATAGGGGTATTTCGGTAATTTCTACAAT
84685715 CAAGGGTA
1 CAAGGGTA
84685723 AAACGGTAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
52 3 0.03
53 48 0.51
54 39 0.41
55 5 0.05
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (53 bp):
CAAGGGTATTTCGTAATTCTACCCTATAGGGGTATTTCGGTAATTTCTACAAT
Found at i:84685742 original size:27 final size:27
Alignment explanation
Indices: 84685712--84686040 Score: 412
Period size: 27 Copynumber: 12.2 Consensus size: 27
84685702 GTAATTTCAC
*
84685712 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
84685739 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
84685766 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
84685793 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
84685820 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
84685847 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
84685874 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
84685901 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
84685928 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
84685955 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
84685982 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
84686009 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
84686036 AATCG
1 AATCG
84686041 GGAGTACTTT
Statistics
Matches: 256, Mismatches: 40, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.01
27 250 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:84687821 original size:6 final size:6
Alignment explanation
Indices: 84687810--84687913 Score: 63
Period size: 6 Copynumber: 17.3 Consensus size: 6
84687800 CTTTTCTTAG
* * * * *
84687810 TTTTAT TTTTAT TTCTCAT TTTTAT CTTTGT CTTTAAT TTTTA- TTTAAT
1 TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT
* * * *
84687859 TTTGAT TTTAAT ATTTAAT TTTGA- TTTTAT TTTT-T ATTTTA- TTTTAT
1 TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT
84687906 TTTTAT TT
1 TTTTAT TT
84687914 ATTTTAATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
5 14 0.18
6 49 0.64
7 14 0.18
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (6 bp):
TTTTAT
Found at i:84687832 original size:19 final size:18
Alignment explanation
Indices: 84687810--84687913 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
84687800 CTTTTCTTAG
*
84687810 TTTTATTTTTATTTCTCAT
1 TTTTATTTTTATTT-TGAT
* * *
84687829 TTTTATCTTTGTCTTTAAT
1 TTTTATTTTTAT-TTTGAT
*
84687848 TTTTA-TTTAATTTTGAT
1 TTTTATTTTTATTTTGAT
* *
84687865 TTTAATATTTAATTTTGA-
1 TTTTAT-TTTTATTTTGAT
84687883 TTTTATTTTTTATTTT-A-
1 TTTTA-TTTTTATTTTGAT
84687900 TTTTATTTTTATTT
1 TTTTATTTTTATTT
84687914 ATTTTAATAA
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
16 9 0.13
17 15 0.21
18 15 0.21
19 30 0.42
20 2 0.03
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTATTTTTATTTTGAT
Found at i:84687858 original size:11 final size:11
Alignment explanation
Indices: 84687842--84687918 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
84687832 TATCTTTGTC
84687842 TTTAATTTTTA
1 TTTAATTTTTA
*
84687853 TTTAATTTTGA
1 TTTAATTTTTA
*
84687864 TTTTAATATTTAA
1 -TTTAAT-TTTTA
*
84687877 TTTTGA-TTTTA
1 -TTTAATTTTTA
**
84687888 TTTTTTATTTTA
1 TTTAAT-TTTTA
*
84687900 TTTTATTTTTA
1 TTTAATTTTTA
84687911 TTT-ATTTT
1 TTTAATTTT
84687919 AATAAAGGGG
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
10 8 0.15
11 22 0.40
12 16 0.29
13 9 0.16
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTAATTTTTA
Found at i:84690870 original size:14 final size:14
Alignment explanation
Indices: 84690851--84690897 Score: 85
Period size: 14 Copynumber: 3.4 Consensus size: 14
84690841 AATCATTTAA
84690851 AATATTGATAAACT
1 AATATTGATAAACT
84690865 AATATTGATAAACT
1 AATATTGATAAACT
*
84690879 AATATTGATAAACC
1 AATATTGATAAACT
84690893 AATAT
1 AATAT
84690898 ACTAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (14 bp):
AATATTGATAAACT
Found at i:84694028 original size:40 final size:40
Alignment explanation
Indices: 84693972--84694189 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
84693962 TGGATGATAA
* * * *
84693972 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-C
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
84694012 CCGGGCTAATTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
84694052 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84694092 CCGGGCTAAGTCCCGAAGGCATTCGTTCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
84694132 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
84694172 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
84694190 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.10
40 144 0.90
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:84702425 original size:40 final size:40
Alignment explanation
Indices: 84702243--84702444 Score: 255
Period size: 40 Copynumber: 5.0 Consensus size: 40
84702233 GGATGATAAT
* * * *
84702243 CGGGCTAAGTCCCGAAGGCATTTGGGCTAGTGACTAGT-CC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATC
* *
84702283 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
84702323 CGGGCTATGTCCCGAAGGCATTTGTGCGTGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
84702363 CGAGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
84702403 CGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
84702443 CG
1 CG
84702445 ATTAAATCTC
Statistics
Matches: 145, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
39 3 0.02
40 142 0.98
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:84707509 original size:18 final size:18
Alignment explanation
Indices: 84707463--84707509 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
84707453 GAAATGAAAG
**
84707463 AAAGAGAACATGCAAAATTA
1 AAAGAGAA-A-GCAAAAGAA
84707483 AAA-AGAAAGCAAAAGAA
1 AAAGAGAAAGCAAAAGAA
84707500 AAAGAGAAAG
1 AAAGAGAAAG
84707510 AAGAGAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 10 0.42
18 7 0.29
19 4 0.17
20 3 0.12
ACGTcount: A:0.68, C:0.06, G:0.19, T:0.06
Consensus pattern (18 bp):
AAAGAGAAAGCAAAAGAA
Found at i:84710164 original size:42 final size:43
Alignment explanation
Indices: 84710100--84710211 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 43
84710090 ATCAATTTGA
* * *
84710100 GATTTACGTGTAAGACCATGTCTGGGACA-TCGGCA-TAGTATTT
1 GATTT-CGTGTAAGACCCTGTCTGGGACAGT-AGCATTAATATTT
84710143 GATTTCGTGTAAGACCCTGTCTGGGACAGTAGCATTAATATTT
1 GATTTCGTGTAAGACCCTGTCTGGGACAGTAGCATTAATATTT
* *
84710186 GATTACATGTAAGACCAC-GTCTGGGA
1 GATTTCGTGTAAGACC-CTGTCTGGGA
84710212 TGTTGTCATT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
42 25 0.41
43 35 0.57
44 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCCTGTCTGGGACAGTAGCATTAATATTT
Found at i:84720432 original size:29 final size:29
Alignment explanation
Indices: 84720400--84720455 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
84720390 AACCATCTAG
*
84720400 TCAAAAATATTTCTTCAGAACCCATCCCC
1 TCAAAAATATTTCTTCAAAACCCATCCCC
* * *
84720429 TCAAAACTATTTTTTCAAAATCCATCC
1 TCAAAAATATTTCTTCAAAACCCATCC
84720456 TGTACAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (29 bp):
TCAAAAATATTTCTTCAAAACCCATCCCC
Found at i:84725745 original size:19 final size:18
Alignment explanation
Indices: 84725710--84725745 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
84725700 GAAGCAAGCA
*
84725710 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
84725728 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
84725746 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:84728570 original size:14 final size:16
Alignment explanation
Indices: 84728541--84728572 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
84728531 TTTTCTATCC
84728541 TATTTTGATAATTATT
1 TATTTTGATAATTATT
84728557 TATTTT-AT-ATTATT
1 TATTTTGATAATTATT
84728571 TA
1 TA
84728573 AATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TATTTTGATAATTATT
Found at i:84728577 original size:26 final size:26
Alignment explanation
Indices: 84728511--84728577 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
84728501 ACTTTAACAA
*
84728511 ATATTATTTCAATAATTAATTTTTCT
1 ATATTATTTAAATAATTAATTTTTCT
** ** *
84728537 ATCCTATTTTGATAATT-ATTTATTTT
1 ATATTATTTAAATAATTAATTT-TTCT
84728563 ATATTATTTAAATAA
1 ATATTATTTAAATAA
84728578 AAAAACTCGT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (26 bp):
ATATTATTTAAATAATTAATTTTTCT
Found at i:84728717 original size:46 final size:46
Alignment explanation
Indices: 84728649--84728740 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
84728639 ATAGGTGATG
*
84728649 TTGGTACTTACTAATTACGTGAACTCTTTTATCAAATTACATTAAT
1 TTGGTACTTACTAATTACGTGAAATCTTTTATCAAATTACATTAAT
** *
84728695 TTGGTACTTGTTAATTATGTGAAATCTTTTATCAAATTACATTAAT
1 TTGGTACTTACTAATTACGTGAAATCTTTTATCAAATTACATTAAT
84728741 ATATTAAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.46
Consensus pattern (46 bp):
TTGGTACTTACTAATTACGTGAAATCTTTTATCAAATTACATTAAT
Found at i:84729901 original size:28 final size:29
Alignment explanation
Indices: 84729839--84729906 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 29
84729829 TTAAGGATTA
84729839 TATAAAATTCTTAAAAATTTATTAAAATAT
1 TATAAAATT-TTAAAAATTTATTAAAATAT
*
84729869 TATAAAATTTTGAAAA-TTA-TAGAAA-AT
1 TATAAAATTTTAAAAATTTATTA-AAATAT
84729896 GTATAAAATTT
1 -TATAAAATTT
84729907 ATTAAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
27 4 0.11
28 16 0.46
29 6 0.17
30 9 0.26
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (29 bp):
TATAAAATTTTAAAAATTTATTAAAATAT
Found at i:84729960 original size:10 final size:9
Alignment explanation
Indices: 84729839--84729965 Score: 62
Period size: 10 Copynumber: 13.3 Consensus size: 9
84729829 TTAAGGATTA
84729839 TATAAAATT
1 TATAAAATT
84729848 CT-TAAAAATT
1 -TAT-AAAATT
84729858 TATTAAAATAT
1 TA-TAAAAT-T
84729869 TATAAAATT
1 TATAAAATT
84729878 T-TGAAAATT
1 TAT-AAAATT
* *
84729887 ATAGAAAATG
1 -TATAAAATT
84729897 TATAAAATT
1 TATAAAATT
*
84729906 TATTAAATAT
1 TATAAAAT-T
* *
84729916 AATAATATT
1 TATAAAATT
*
84729925 T-TAAAAAAT
1 TAT-AAAATT
**
84729934 TATAAAAAC
1 TATAAAATT
*
84729943 TATTAAATGT
1 TATAAAAT-T
84729953 TATAAAATAT
1 TATAAAAT-T
84729963 TAT
1 TAT
84729966 TAATTTGTTA
Statistics
Matches: 89, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
8 2 0.02
9 41 0.46
10 42 0.47
11 4 0.04
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (9 bp):
TATAAAATT
Found at i:84729961 original size:47 final size:47
Alignment explanation
Indices: 84729835--84729962 Score: 127
Period size: 47 Copynumber: 2.7 Consensus size: 47
84729825 ATTTTTAAGG
* * *
84729835 ATTATATAAAATTCT-TAAAAATTTATTAAAATATTATAAAATTTTGAAA
1 ATTATAGAAAA-TCTAT-AAAATTTA-TAAAATATAATAAAATTTTAAAA
* * *
84729884 ATTATAGAAAATGTATAAAATTTATTAAATATAATAATATTTTAAAAA
1 ATTATAGAAAATCTATAAAATTTATAAAATATAATAAAATTTT-AAAA
*
84729932 ATTATA-AAAA-CTATTAAATGTTATAAAATAT
1 ATTATAGAAAATCTATAAAAT-TTATAAAATAT
84729963 TATTAATTTG
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
46 7 0.10
47 30 0.45
48 19 0.28
49 11 0.16
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (47 bp):
ATTATAGAAAATCTATAAAATTTATAAAATATAATAAAATTTTAAAA
Found at i:84730013 original size:9 final size:9
Alignment explanation
Indices: 84729995--84730096 Score: 55
Period size: 10 Copynumber: 10.8 Consensus size: 9
84729985 AAAATATTAA
*
84729995 ATAAATATT
1 ATAAAAATT
84730004 ATAAAAA-T
1 ATAAAAATT
* *
84730012 -TAGAAATG
1 ATAAAAATT
84730020 ATAGAAAATTAT
1 ATA-AAAA-T-T
*
84730032 ATAAAAATA
1 ATAAAAATT
* *
84730041 ATTAAAATG
1 ATAAAAATT
84730050 ATAAAAAATCT
1 AT-AAAAAT-T
84730061 ATAAAAATT
1 ATAAAAATT
84730070 AATAAAAACTT
1 -ATAAAAA-TT
* *
84730081 ATTAAAAGT
1 ATAAAAATT
84730090 ATAAAAA
1 ATAAAAA
84730097 GTTGTAAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
7 5 0.07
8 1 0.01
9 25 0.35
10 28 0.39
11 9 0.13
12 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (9 bp):
ATAAAAATT
Found at i:84730051 original size:30 final size:30
Alignment explanation
Indices: 84730009--84730077 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
84729999 ATATTATAAA
*
84730009 AATTAGAAATGATAGAAAAT-TATATAAAAAT
1 AATTA-AAATGATAAAAAATCTATA-AAAAAT
*
84730040 AATTAAAATGATAAAAAATCTATAAAAATT
1 AATTAAAATGATAAAAAATCTATAAAAAAT
*
84730070 AATAAAAA
1 AATTAAAA
84730078 CTTATTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 25 0.74
31 9 0.26
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (30 bp):
AATTAAAATGATAAAAAATCTATAAAAAAT
Found at i:84730429 original size:21 final size:20
Alignment explanation
Indices: 84730392--84730431 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
84730382 TTAAAAAGTT
* *
84730392 TAAAAATTATTAGAAATTAG
1 TAAAAATTATAAAAAATTAG
84730412 TAAAATATTATAAAAAATTA
1 TAAAA-ATTATAAAAAATTA
84730432 TATAAGTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
TAAAAATTATAAAAAATTAG
Found at i:84732713 original size:14 final size:14
Alignment explanation
Indices: 84732694--84732723 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84732684 TCAATATTAC
84732694 AAAATTAAATTATA
1 AAAATTAAATTATA
*
84732708 AAAATTAAATTTTA
1 AAAATTAAATTATA
84732722 AA
1 AA
84732724 TTTCAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATTAAATTATA
Found at i:84732723 original size:21 final size:22
Alignment explanation
Indices: 84732698--84732745 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 22
84732688 TATTACAAAA
84732698 TTAAATTATAAAAATTAA-AT-T
1 TTAAATT-TAAAAATTAACATAT
*
84732719 TTAAATTTCAAAATTAACATAT
1 TTAAATTTAAAAATTAACATAT
84732741 TTAAA
1 TTAAA
84732746 CCTGAAAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 9 0.38
22 6 0.25
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAATTTAAAAATTAACATAT
Found at i:84734780 original size:46 final size:46
Alignment explanation
Indices: 84734730--84734903 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
84734720 TGGTTGAGCA
* *
84734730 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
84734776 TCCGAACTCGTTGAGTTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAG-TTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
84734822 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
84734870 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
84734904 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
44 5 0.05
45 2 0.02
46 48 0.44
47 28 0.26
48 19 0.18
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Done.