Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 31 of 172
Found at i:9580890 original size:14 final size:14
Alignment explanation
Indices: 9580871--9580901 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9580861 ATGAGCACAT
9580871 CATTCTCTTTATGC
1 CATTCTCTTTATGC
9580885 CATTCTCTTTATGC
1 CATTCTCTTTATGC
9580899 CAT
1 CAT
9580902 AACCCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.29, G:0.06, T:0.48
Consensus pattern (14 bp):
CATTCTCTTTATGC
Found at i:9582704 original size:27 final size:27
Alignment explanation
Indices: 9582666--9582720 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
9582656 TTTGGGGTGC
*
9582666 TTTCATTGCATTTTTGGGCTTAAGTTG
1 TTTCATTGCATTTTTGAGCTTAAGTTG
*
9582693 TTTCATTGCATTTTTGAGCTTGAGTTG
1 TTTCATTGCATTTTTGAGCTTAAGTTG
9582720 T
1 T
9582721 GAACTTTAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.15, C:0.11, G:0.22, T:0.53
Consensus pattern (27 bp):
TTTCATTGCATTTTTGAGCTTAAGTTG
Found at i:9583088 original size:15 final size:15
Alignment explanation
Indices: 9583068--9583117 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
9583058 ATGTGAGTAA
9583068 AAATACAACCTAAAG
1 AAATACAACCTAAAG
**
9583083 AAATAC-A--TAACTC
1 AAATACAACCTAA-AG
9583096 AAATACAACCTAAAG
1 AAATACAACCTAAAG
9583111 AAATACA
1 AAATACA
9583118 TAACTCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
12 3 0.11
13 6 0.22
14 2 0.07
15 13 0.48
16 3 0.11
ACGTcount: A:0.60, C:0.20, G:0.04, T:0.16
Consensus pattern (15 bp):
AAATACAACCTAAAG
Found at i:9583100 original size:28 final size:28
Alignment explanation
Indices: 9583068--9583127 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
9583058 ATGTGAGTAA
9583068 AAATACAACCTAAAGAAATACATAACTC
1 AAATACAACCTAAAGAAATACATAACTC
9583096 AAATACAACCTAAAGAAATACATAACTC
1 AAATACAACCTAAAGAAATACATAACTC
9583124 AAAT
1 AAAT
9583128 TGACATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.58, C:0.20, G:0.03, T:0.18
Consensus pattern (28 bp):
AAATACAACCTAAAGAAATACATAACTC
Found at i:9584768 original size:18 final size:20
Alignment explanation
Indices: 9584731--9584779 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
9584721 ATTACAAAAT
*
9584731 AATTCAAAATAATTT-TTAA
1 AATTCAAAATAATTTATAAA
9584750 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTTATAAA
9584769 AATTTCAAAAT
1 AA-TTCAAAAT
9584780 TTATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 15 0.56
20 8 0.30
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTCAAAATAATTTATAAA
Found at i:9584813 original size:19 final size:19
Alignment explanation
Indices: 9584791--9584845 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
9584781 TATATTTTTT
9584791 TAAAAAATTATAAAAATTC
1 TAAAAAATTATAAAAATTC
* **
9584810 TAAAAAAATATAAAAAAGC
1 TAAAAAATTATAAAAATTC
*
9584829 T-AAAAATTTTAAAAATT
1 TAAAAAATTATAAAAATT
9584846 TTCTAAAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAAATTATAAAAATTC
Found at i:9598309 original size:47 final size:48
Alignment explanation
Indices: 9598226--9598319 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 48
9598216 GCTTAAAAAG
9598226 GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAAT
1 GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAAT
*
9598274 GTCACCCATCTATGCA-AAATGTTCAAAAGATTGAATTCACTTTTAA
1 GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAA
9598320 GTATGATTGG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 29 0.64
48 16 0.36
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (48 bp):
GTCACCCATCTATGCATAAATGTTCAAAAGAATGAATTCACTTTTAAT
Found at i:9610653 original size:60 final size:60
Alignment explanation
Indices: 9610558--9610673 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 60
9610548 CCTCAACAAC
*
9610558 CTGAGTACTGTCAGGAGCTGAATGGGAATCTGAACATA-CAGCAACTGGAGAAGAATCAAT
1 CTGAGTACTGCCAGGAGCTGAATGGGAATCTGAACA-AGCAGCAACTGGAGAAGAATCAAT
* * *
9610618 CTGAGTATTGCCAGGAGCTGAATGGGAAT-TAGAACAAGCATCAGCTGGAGAAGAAT
1 CTGAGTACTGCCAGGAGCTGAATGGGAATCT-GAACAAGCAGCAACTGGAGAAGAAT
9610674 GTGGTGTAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 2 0.04
60 48 0.96
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (60 bp):
CTGAGTACTGCCAGGAGCTGAATGGGAATCTGAACAAGCAGCAACTGGAGAAGAATCAAT
Found at i:9617000 original size:15 final size:15
Alignment explanation
Indices: 9616988--9617040 Score: 88
Period size: 15 Copynumber: 3.5 Consensus size: 15
9616978 GACTTCATGC
*
9616988 TTTGACTTGTCATCT
1 TTTGATTTGTCATCT
*
9617003 TTTGATTTGTCGTCT
1 TTTGATTTGTCATCT
9617018 TTTGATTTGTCATCT
1 TTTGATTTGTCATCT
9617033 TTTGATTT
1 TTTGATTT
9617041 TTTGCCATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.11, C:0.13, G:0.15, T:0.60
Consensus pattern (15 bp):
TTTGATTTGTCATCT
Found at i:9630164 original size:27 final size:26
Alignment explanation
Indices: 9630127--9630241 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
9630117 AGCATGGCTG
* *
9630127 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
9630153 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
9630181 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
9630208 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
9630235 CCAGAAC
1 CCAGAAC
9630242 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:9630186 original size:54 final size:54
Alignment explanation
Indices: 9630127--9630241 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
9630117 AGCATGGCTG
*
9630127 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
9630181 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
9630235 CCAGAAC
1 CCAGAAC
9630242 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:9631884 original size:26 final size:26
Alignment explanation
Indices: 9631848--9631957 Score: 161
Period size: 26 Copynumber: 4.2 Consensus size: 26
9631838 CATGAAATTC
9631848 TTATCATGAAACATTTACCTAACAC-A
1 TTATCATGAAACATTTACCTAAC-CTA
*
9631874 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
9631900 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
9631926 TTATCATTG-AACAATTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
9631952 TTATCA
1 TTATCA
9631958 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
25 1 0.01
26 76 0.96
27 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:9635573 original size:25 final size:25
Alignment explanation
Indices: 9635538--9635599 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
9635528 ATTTTTGTCT
* *
9635538 TTTTTGTTCACCCAACTATCTTGGA
1 TTTTTGGTCACCAAACTATCTTGGA
9635563 TTTTTGGTCACCAAACTATCTTGGA
1 TTTTTGGTCACCAAACTATCTTGGA
9635588 TTTTTGGTCACC
1 TTTTTGGTCACC
9635600 TATAACCCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (25 bp):
TTTTTGGTCACCAAACTATCTTGGA
Found at i:9635901 original size:6 final size:6
Alignment explanation
Indices: 9635890--9635918 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9635880 AGTTATTCTA
9635890 AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAAT
9635919 ATAGCTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:9644319 original size:40 final size:40
Alignment explanation
Indices: 9644214--9644359 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 40
9644204 GCTACTCGTT
* * *
9644214 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
9644254 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
9644294 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
9644335 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
9644360 CATCATTCAA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.03
40 77 0.85
41 11 0.12
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:9647133 original size:32 final size:32
Alignment explanation
Indices: 9647092--9647157 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
9647082 ATCAATTAAC
9647092 ATTATTTTATTCTCAATTTATCATATAACACA
1 ATTATTTTATTCTCAATTTATCATATAACACA
9647124 ATTATTTTATTCTCAATTTATCATATAACACA
1 ATTATTTTATTCTCAATTTATCATATAACACA
9647156 AT
1 AT
9647158 ATGCTTCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (32 bp):
ATTATTTTATTCTCAATTTATCATATAACACA
Found at i:9649948 original size:13 final size:14
Alignment explanation
Indices: 9649930--9650007 Score: 58
Period size: 13 Copynumber: 5.9 Consensus size: 14
9649920 GAAAAAAATT
*
9649930 TTATAT-GAATTAG
1 TTATATGGAAATAG
*
9649943 TTATATGGAAATAA
1 TTATATGGAAATAG
* *
9649957 ATATATGG-AATGG
1 TTATATGGAAATAG
*
9649970 TTATAT-G-AATCGG
1 TTATATGGAAAT-AG
9649983 TTATATGGAAATAG
1 TTATATGGAAATAG
*
9649997 ATATAT-GAAAT
1 TTATATGGAAAT
9650008 GGAACATTGG
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
12 4 0.08
13 27 0.51
14 19 0.36
15 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.37
Consensus pattern (14 bp):
TTATATGGAAATAG
Found at i:9649986 original size:40 final size:40
Alignment explanation
Indices: 9649930--9650009 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
9649920 GAAAAAAATT
* *
9649930 TTATATGAATTAGTTATATGGAAATAAATATATGGAATGG
1 TTATATGAATCAGTTATATGGAAATAAATATATGAAATGG
* *
9649970 TTATATGAATCGGTTATATGGAAATAGATATATGAAATGG
1 TTATATGAATCAGTTATATGGAAATAAATATATGAAATGG
9650010 AACATTGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.41, C:0.01, G:0.21, T:0.36
Consensus pattern (40 bp):
TTATATGAATCAGTTATATGGAAATAAATATATGAAATGG
Found at i:9655297 original size:7 final size:7
Alignment explanation
Indices: 9655280--9655322 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
9655270 TTCAAACTAC
9655280 TTTTTATT
1 TTTTTA-T
9655288 TTTTTATT
1 TTTTTA-T
9655296 TTTTTAT
1 TTTTTAT
*
9655303 TTTTTAA
1 TTTTTAT
9655310 TTTTTAT
1 TTTTTAT
9655317 TTTTTA
1 TTTTTA
9655323 GCAGATCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
7 19 0.58
8 14 0.42
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:9655321 original size:8 final size:8
Alignment explanation
Indices: 9655280--9655314 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
9655270 TTCAAACTAC
9655280 TTTTTATT
1 TTTTTATT
9655288 TTTTTATT
1 TTTTTATT
9655296 TTTTTATT
1 TTTTTATT
*
9655304 TTTTAATT
1 TTTTTATT
9655312 TTT
1 TTT
9655315 ATTTTTTAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTATT
Found at i:9660721 original size:70 final size:70
Alignment explanation
Indices: 9660608--9660745 Score: 222
Period size: 70 Copynumber: 2.0 Consensus size: 70
9660598 TATGTGATTA
* *
9660608 CTAAAAATTATATTGGGTGCAAAATCAAGTTTCATTAAATTTTGGAATATGTAATTAGATCGTGG
1 CTAAAAATTAGATTGGGTGCAAAATCAAGTTTCATTAAATTTTGGAATATGTAATCAGATCGTGG
9660673 ACTTC
66 ACTTC
* * * *
9660678 CTAAAAATTAGATTGGGTGTAAAATTAGGTTTCATTAAATTTTGGAATATGTAATCAGATTGTGG
1 CTAAAAATTAGATTGGGTGCAAAATCAAGTTTCATTAAATTTTGGAATATGTAATCAGATCGTGG
9660743 ACT
66 ACT
9660746 ATCATTTCCA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (70 bp):
CTAAAAATTAGATTGGGTGCAAAATCAAGTTTCATTAAATTTTGGAATATGTAATCAGATCGTGG
ACTTC
Found at i:9662303 original size:7 final size:8
Alignment explanation
Indices: 9662284--9662326 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 8
9662274 TGCAAATGGT
9662284 AATTTTTAA
1 AATTTTT-A
9662293 TAATTTTTAA
1 -AATTTTT-A
9662303 TAATTTTTA
1 -AATTTTTA
9662312 AATTTTTA
1 AATTTTTA
9662320 AATTTTT
1 AATTTTT
9662327 TTTAATAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 15 0.45
9 1 0.03
10 17 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
AATTTTTA
Found at i:9662308 original size:20 final size:18
Alignment explanation
Indices: 9662283--9662320 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 18
9662273 TTGCAAATGG
9662283 TAATTTTTAATAATTTTTAA
1 TAATTTTT-A-AATTTTTAA
9662303 TAATTTTTAAATTTTTAA
1 TAATTTTTAAATTTTTAA
9662321 ATTTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 1 0.06
20 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TAATTTTTAAATTTTTAA
Found at i:9662326 original size:8 final size:10
Alignment explanation
Indices: 9662283--9662320 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
9662273 TTGCAAATGG
9662283 TAATTTTTAA
1 TAATTTTTAA
9662293 TAATTTTTAA
1 TAATTTTTAA
9662303 TAATTTTT-A
1 TAATTTTTAA
9662312 -AATTTTTAA
1 TAATTTTTAA
9662321 ATTTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 7 0.26
9 2 0.07
10 18 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:9667064 original size:15 final size:15
Alignment explanation
Indices: 9667044--9667117 Score: 121
Period size: 15 Copynumber: 4.9 Consensus size: 15
9667034 CAATGGCGAA
9667044 AAATCAAAAGATGAC
1 AAATCAAAAGATGAC
9667059 AAATCAAAAGATGAC
1 AAATCAAAAGATGAC
*
9667074 AAATCAAAAGACGAC
1 AAATCAAAAGATGAC
9667089 AAATCAAAAGATGAC
1 AAATCAAAAGATGAC
* *
9667104 AAGTCAAAACATGA
1 AAATCAAAAGATGA
9667118 AGTCGGAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 55 1.00
ACGTcount: A:0.59, C:0.15, G:0.14, T:0.12
Consensus pattern (15 bp):
AAATCAAAAGATGAC
Found at i:9671936 original size:10 final size:10
Alignment explanation
Indices: 9671909--9671948 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
9671899 TTAAATTCTA
9671909 AAAGATAAAT
1 AAAGATAAAT
9671919 ACAA-ATAAAT
1 A-AAGATAAAT
*
9671929 AAAGATAATT
1 AAAGATAAAT
9671939 AAAGATAAAT
1 AAAGATAAAT
9671949 GAGGATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:9673685 original size:40 final size:39
Alignment explanation
Indices: 9673617--9673694 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
9673607 ATATAGACAC
*
9673617 TTCATATAATCATTTCGTATATCTATTTCCACATAATCAA
1 TTCATATAACCATTTCGTATATCTATTT-CACATAATCAA
*
9673657 TTCATATAACCATTTCATGTA-ATC-ATTTCATATAATCA
1 TTCATATAACCATTTC--GTATATCTATTTCACATAATCA
9673695 TTCTGTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 9 0.26
40 19 0.56
41 3 0.09
42 3 0.09
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (39 bp):
TTCATATAACCATTTCGTATATCTATTTCACATAATCAA
Found at i:9673692 original size:13 final size:13
Alignment explanation
Indices: 9673593--9673758 Score: 110
Period size: 13 Copynumber: 12.7 Consensus size: 13
9673583 TGTCCATATC
9673593 CATATAAAT-ATTT
1 CATAT-AATCATTT
*
9673606 CATATAGA-CACTT
1 CATATA-ATCATTT
9673619 CATATAATCATTT
1 CATATAATCATTT
*
9673632 CGTAT-ATCTATTT
1 CATATAATC-ATTT
* *
9673645 CCACATAATCAATT
1 -CATATAATCATTT
*
9673659 CATATAACCATTT
1 CATATAATCATTT
*
9673672 CATGTAATCATTT
1 CATATAATCATTT
9673685 CATATAATCA-TT
1 CATATAATCATTT
* *
9673697 CTGTATAA-CTATTC
1 C-ATATAATC-ATTT
* * *
9673711 CATCTAAACACTT
1 CATATAATCATTT
*
9673724 CATAT-TTCCATTT
1 CATATAAT-CATTT
*
9673737 CATGTAATCATTT
1 CATATAATCATTT
9673750 CATATAATC
1 CATATAATC
9673759 CTTCTGTATA
Statistics
Matches: 116, Mismatches: 25, Indels: 24
0.70 0.15 0.15
Matches are distributed among these distances:
12 9 0.08
13 94 0.81
14 10 0.09
15 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.42
Consensus pattern (13 bp):
CATATAATCATTT
Found at i:9673742 original size:65 final size:65
Alignment explanation
Indices: 9673617--9673804 Score: 240
Period size: 65 Copynumber: 2.9 Consensus size: 65
9673607 ATATAGACAC
* * **
9673617 TTCATATAATCATT-TCGTATATCTATTTCCA-CATAATCAATTCATATAACCATTTCATGTAAT
1 TTCATATAATCATTCT-GTATAACTA-TTCCATC-TAAACAATTCATATTTCCATTTCATGTAAT
9673680 CAT
63 CAT
*
9673683 TTCATATAATCATTCTGTATAACTATTCCATCTAAACACTTCATATTTCCATTTCATGTAATCAT
1 TTCATATAATCATTCTGTATAACTATTCCATCTAAACAATTCATATTTCCATTTCATGTAATCAT
* *
9673748 TTCATATAATCCTTCTGTATAACCATTCCATCTAAA-AATTTCAT-TTTACCATTTCAT
1 TTCATATAATCATTCTGTATAACTATTCCATCTAAACAA-TTCATATTT-CCATTTCAT
9673805 TTACACATTT
Statistics
Matches: 110, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
64 4 0.04
65 82 0.75
66 23 0.21
67 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (65 bp):
TTCATATAATCATTCTGTATAACTATTCCATCTAAACAATTCATATTTCCATTTCATGTAATCAT
Found at i:9677357 original size:37 final size:37
Alignment explanation
Indices: 9677307--9677386 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
9677297 CTTATTACGA
* *
9677307 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
9677344 AGTCTTACCCGGACAAAATTCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
9677381 GGTCTT
1 AGTCTT
9677387 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:9677576 original size:47 final size:47
Alignment explanation
Indices: 9677517--9677861 Score: 480
Period size: 47 Copynumber: 7.4 Consensus size: 47
9677507 TATCACATTT
* * *
9677517 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
9677562 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
9677609 ATACACCTGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
9677656 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
9677703 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
** * *
9677750 ATATGCATGTTTACATTTATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
9677797 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCACAC
*
9677845 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
9677862 TATTCAATTA
Statistics
Matches: 269, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 241 0.90
48 20 0.07
49 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:9677631 original size:25 final size:25
Alignment explanation
Indices: 9677602--9677679 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 25
9677592 ACTCGGCCTT
9677602 ATCACACATACACCTGTTCACTTTC
1 ATCACACATACACCTGTTCACTTTC
*** * *
9677627 AT--CACATTGGCC-ATTCGGCTTT-
1 ATCACACATACACCTGTTC-ACTTTC
*
9677649 ATCACACATACACATGTTCACTTTC
1 ATCACACATACACCTGTTCACTTTC
9677674 ATCACA
1 ATCACA
9677680 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 5 0.14
23 11 0.30
24 10 0.27
25 11 0.30
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (25 bp):
ATCACACATACACCTGTTCACTTTC
Found at i:9679463 original size:13 final size:13
Alignment explanation
Indices: 9679445--9679469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9679435 TACTAAATTT
9679445 TCATGGATTCAAG
1 TCATGGATTCAAG
9679458 TCATGGATTCAA
1 TCATGGATTCAA
9679470 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:9682050 original size:27 final size:27
Alignment explanation
Indices: 9682020--9682074 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
9682010 CAATTTTGAG
9682020 ATGTTTTCCCCCATTGTTATGAACTAA
1 ATGTTTTCCCCCATTGTTATGAACTAA
*
9682047 ATGTTTTCCCCCATTTTTATGAACTAA
1 ATGTTTTCCCCCATTGTTATGAACTAA
9682074 A
1 A
9682075 ATCCTTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
ATGTTTTCCCCCATTGTTATGAACTAA
Found at i:9693448 original size:26 final size:24
Alignment explanation
Indices: 9693404--9693453 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
9693394 ATTTGTTTTA
*
9693404 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
9693428 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
9693454 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:9706269 original size:26 final size:26
Alignment explanation
Indices: 9706238--9706345 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
9706228 TGAAATGCCC
*
9706238 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
9706264 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
9706290 ATTATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
9706316 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9706342 ATCA
1 ATCA
9706346 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9713362 original size:26 final size:26
Alignment explanation
Indices: 9713331--9713438 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
9713321 TGAAATGCCC
*
9713331 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
9713357 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
9713383 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
9713409 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
9713435 ATCA
1 ATCA
9713439 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:9715250 original size:49 final size:49
Alignment explanation
Indices: 9715178--9715275 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
9715168 TCAGTCATAG
*
9715178 ATCGGTAGAAATAACCACCACTGATCGATGCCGATCCTTCAGCTTTGTT
1 ATCGGAAGAAATAACCACCACTGATCGATGCCGATCCTTCAGCTTTGTT
9715227 ATCGGAAGAAATAACCACCACTGATCGATGCCGATCCTTCAGCTTTGTT
1 ATCGGAAGAAATAACCACCACTGATCGATGCCGATCCTTCAGCTTTGTT
9715276 TAAAGCAGAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (49 bp):
ATCGGAAGAAATAACCACCACTGATCGATGCCGATCCTTCAGCTTTGTT
Found at i:9719316 original size:2 final size:2
Alignment explanation
Indices: 9719309--9719333 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9719299 GTCATGTATG
9719309 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9719334 TCTTAGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9719653 original size:81 final size:81
Alignment explanation
Indices: 9719553--9719763 Score: 377
Period size: 81 Copynumber: 2.6 Consensus size: 81
9719543 TGTGTGTGTA
*
9719553 TAATCATGTCAATTTTAATAATAATATTAGATGAATTTTTAGCATAAAGTACACATAGCATATTA
1 TAATCATGTCAATTTTAATAATAAAATTAGATGAATTTTTAGCATAAAGTACACATAGCATATTA
*
9719618 CATGTAATTGTTTGGT
66 CATGTAATTGTTTAGT
*
9719634 TAATCATGTCAATTTTAATAATAAAATTAGATGAATTTTTAGCATAAAGTACATATAGCATATTA
1 TAATCATGTCAATTTTAATAATAAAATTAGATGAATTTTTAGCATAAAGTACACATAGCATATTA
9719699 CATGTAATTGTTTAGT
66 CATGTAATTGTTTAGT
*
9719715 TAATCATGTCAATTTTAATAATAAAATTAGATGAATTTTTTAACATAAA
1 TAATCATGTCAATTTTAATAATAAAATTAGATGAA-TTTTTAGCATAAA
9719764 ATATCAGTTT
Statistics
Matches: 125, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 113 0.90
82 12 0.10
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (81 bp):
TAATCATGTCAATTTTAATAATAAAATTAGATGAATTTTTAGCATAAAGTACACATAGCATATTA
CATGTAATTGTTTAGT
Found at i:9725787 original size:24 final size:24
Alignment explanation
Indices: 9725760--9725819 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
9725750 ATTGTCACTA
9725760 TGAAATATCAAGTTCTTAGCTATT
1 TGAAATATCAAGTTCTTAGCTATT
9725784 TGAAATATCAAGTTCTTAGCTATT
1 TGAAATATCAAGTTCTTAGCTATT
*
9725808 TGAAGTAT-AAGT
1 TGAAATATCAAGT
9725820 GATGTATTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 4 0.11
24 31 0.89
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (24 bp):
TGAAATATCAAGTTCTTAGCTATT
Found at i:9727628 original size:16 final size:16
Alignment explanation
Indices: 9727607--9727654 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
9727597 CTGGCAATAG
9727607 TGAGGCTACTCTTCCC
1 TGAGGCTACTCTTCCC
*
9727623 TGAGGCTA----T-AC
1 TGAGGCTACTCTTCCC
9727634 TGAGGCTACTCTTCCC
1 TGAGGCTACTCTTCCC
9727650 TGAGG
1 TGAGG
9727655 ACCCTGACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
11 9 0.36
12 1 0.04
15 1 0.04
16 14 0.56
ACGTcount: A:0.17, C:0.29, G:0.25, T:0.29
Consensus pattern (16 bp):
TGAGGCTACTCTTCCC
Found at i:9731297 original size:20 final size:23
Alignment explanation
Indices: 9731272--9731320 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
9731262 ATATAAAATA
9731272 TTAAAATAA-ATA-AAT-ATTTT
1 TTAAAATAATATATAATGATTTT
*
9731292 TTAAAA-AATATATATTGATTTT
1 TTAAAATAATATATAATGATTTT
9731314 TTAAAAT
1 TTAAAAT
9731321 TATTTGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.08
20 9 0.38
21 2 0.08
22 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAAAATAATATATAATGATTTT
Found at i:9733957 original size:9 final size:9
Alignment explanation
Indices: 9733942--9734012 Score: 56
Period size: 9 Copynumber: 7.8 Consensus size: 9
9733932 AATAATTTTT
9733942 AAAATTTAA
1 AAAATTTAA
* *
9733951 AATATTTAT
1 AAAATTTAA
*
9733960 AAAATTAAA
1 AAAATTTAA
*
9733969 AAAATCTAA
1 AAAATTTAA
*
9733978 AATATATATAA
1 AA-A-ATTTAA
9733989 AAAAGTTT-A
1 AAAA-TTTAA
9733998 AAAA-TTAA
1 AAAATTTAA
9734006 AAAATTT
1 AAAATTT
9734013 TCTAGAATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
7 2 0.04
8 5 0.10
9 30 0.62
10 4 0.08
11 7 0.15
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (9 bp):
AAAATTTAA
Found at i:9733970 original size:18 final size:19
Alignment explanation
Indices: 9733925--9734008 Score: 61
Period size: 18 Copynumber: 4.5 Consensus size: 19
9733915 TTTACGAAAT
* *
9733925 AATTCAAAATAATTTTTAA
1 AATTAAAAATAATTTATAA
*
9733944 AATTTAAAAT-ATTTATAA
1 AATTAAAAATAATTTATAA
*
9733962 AATTAAAAA-AATCTA-AA
1 AATTAAAAATAATTTATAA
9733979 ATATATATAAAA-AAGTTTA-AA
1 A-AT-TA-AAAATAA-TTTATAA
9734000 AATTAAAAA
1 AATTAAAAA
9734009 ATTTTCTAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
17 3 0.05
18 25 0.45
19 13 0.24
20 8 0.15
21 6 0.11
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (19 bp):
AATTAAAAATAATTTATAA
Found at i:9736455 original size:32 final size:32
Alignment explanation
Indices: 9736419--9736480 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
9736409 TTTGTATGTG
9736419 TATTTAAAATATTTCACATAT-AAACATAATGA
1 TATTTAAAATATTTCACATATGAAA-ATAATGA
*
9736451 TATTTAAAATATTTTACATATGAAAATAAT
1 TATTTAAAATATTTCACATATGAAAATAAT
9736481 AATTGTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.40
Consensus pattern (32 bp):
TATTTAAAATATTTCACATATGAAAATAATGA
Found at i:9736838 original size:95 final size:95
Alignment explanation
Indices: 9736669--9736840 Score: 210
Period size: 95 Copynumber: 1.8 Consensus size: 95
9736659 ATAATTATTA
* * ** *
9736669 ATTTATTTATATAAATAAAAGAGTTATTAATTTTAAATATCTTAAAATAATTATTTATATAATAT
1 ATTTATTTATATAAATAAAAGAGTTATTAATTTAAAATATATTAAAATAAAAATTTATATAACAT
*
9736734 ATATTTTTATTATATAATTACATATTTAAT
66 ATATATTTATTATATAATTACATATTTAAT
9736764 ATTTGATTT-TATAAATAAAAGAGTTATTAA-TTAAAATATGAATTAAAAATTAAAAATTTA-A-
1 ATTT-ATTTATATAAATAAAAGAGTTATTAATTTAAAATAT--ATT-AAAA-TAAAAATTTATAT
9736825 AACA-ATATATTTATTA
61 AACATATATATTTATTA
9736841 ATTAAAAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
94 8 0.12
95 36 0.55
96 9 0.14
97 5 0.08
98 8 0.12
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (95 bp):
ATTTATTTATATAAATAAAAGAGTTATTAATTTAAAATATATTAAAATAAAAATTTATATAACAT
ATATATTTATTATATAATTACATATTTAAT
Found at i:9738341 original size:108 final size:109
Alignment explanation
Indices: 9738143--9738345 Score: 302
Period size: 108 Copynumber: 1.9 Consensus size: 109
9738133 ATAAGGTCCT
* * *
9738143 TCGGGGCGACACCTCAAGGAGGTTTAAGGTGTAAGACATAGCTCGACTTTGGCAACCAATAGAGT
1 TCGGGGCGACACCTCAAGGAGGTTTAAGGTGTAAGACATAGCTCGACTATGACAACCAACAGAGT
*
9738208 CCGCCAGGACATTAAACATGAGGTTATATTAAGCAAGACCATAG
66 CCACCAGGACATTAAACATGAGGTTATATTAAGCAAGACCATAG
* *
9738252 TCGGGG-GACACCTCAATGAGGTTTAAGGTGTCAA-ACATAGCTCGACTATGACAACCAACAGTG
1 TCGGGGCGACACCTCAAGGAGGTTTAAGGTGT-AAGACATAGCTCGACTATGACAACCAACAGAG
* * *
9738315 TCCACCAGGACCTTAAATATGGGGTTATATT
65 TCCACCAGGACATTAAACATGAGGTTATATT
9738346 GTTTAAGAGC
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
108 76 0.90
109 8 0.10
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (109 bp):
TCGGGGCGACACCTCAAGGAGGTTTAAGGTGTAAGACATAGCTCGACTATGACAACCAACAGAGT
CCACCAGGACATTAAACATGAGGTTATATTAAGCAAGACCATAG
Found at i:9740133 original size:6 final size:6
Alignment explanation
Indices: 9740122--9740205 Score: 86
Period size: 6 Copynumber: 14.2 Consensus size: 6
9740112 ATGTTACAAG
* *
9740122 GAAAAA GAAAAAA GAAAAA -AAAAG GAAAAA G-AAAA -AAAAT GAAAAA
1 GAAAAA G-AAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
*
9740168 TGAAAAA TGAAAAA G-AAAA TAAAAA GAAAAA GAAAAA G
1 -GAAAAA -GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G
9740206 CTGCAAATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
5 15 0.23
6 32 0.48
7 19 0.29
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (6 bp):
GAAAAA
Found at i:9740145 original size:17 final size:17
Alignment explanation
Indices: 9740123--9740204 Score: 85
Period size: 17 Copynumber: 4.6 Consensus size: 17
9740113 TGTTACAAGG
9740123 AAAAAGAAAAAAGAAAA
1 AAAAAGAAAAAAGAAAA
*
9740140 AAAAAGGAAAAAGAAAA
1 AAAAAGAAAAAAGAAAA
* *
9740157 AAAATGAAAAATGAAAAA
1 AAAAAGAAAAAAG-AAAA
*
9740175 TGAAAAAGAAAATAA-AAAG
1 --AAAAAGAAAA-AAGAAAA
9740194 AAAAAGAAAAA
1 AAAAAGAAAAA
9740205 GCTGCAAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
16 1 0.02
17 36 0.67
18 4 0.07
19 3 0.06
20 9 0.17
21 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (17 bp):
AAAAAGAAAAAAGAAAA
Found at i:9744846 original size:52 final size:53
Alignment explanation
Indices: 9744777--9744885 Score: 193
Period size: 52 Copynumber: 2.1 Consensus size: 53
9744767 GGAATATCTG
*
9744777 GTAATTTGTTTTAAAAGCTTAATACAGGTCTTAAATGAGAATCTGTAATTAA-
1 GTAATTTGCTTTAAAAGCTTAATACAGGTCTTAAATGAGAATCTGTAATTAAT
*
9744829 GTAATTTGCTTTGAAAGCTTAATACAGGTCTTAAATGAGAATCTGTAATTAAT
1 GTAATTTGCTTTAAAAGCTTAATACAGGTCTTAAATGAGAATCTGTAATTAAT
9744882 GTAA
1 GTAA
9744886 GAAAAGAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
52 50 0.93
53 4 0.07
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (53 bp):
GTAATTTGCTTTAAAAGCTTAATACAGGTCTTAAATGAGAATCTGTAATTAAT
Found at i:9747043 original size:16 final size:16
Alignment explanation
Indices: 9747022--9747065 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
9747012 GAGTTGTTGC
9747022 TGGTTTTGTTTTGTTT
1 TGGTTTTGTTTTGTTT
*
9747038 TGGTTTT-TTTTTTTT
1 TGGTTTTGTTTTGTTT
9747053 TGAGGTTTTGTTT
1 T--GGTTTTGTTT
9747066 AAGCATTAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 8 0.33
16 7 0.29
17 6 0.25
18 3 0.12
ACGTcount: A:0.02, C:0.00, G:0.23, T:0.75
Consensus pattern (16 bp):
TGGTTTTGTTTTGTTT
Found at i:9747045 original size:17 final size:17
Alignment explanation
Indices: 9747023--9747065 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
9747013 AGTTGTTGCT
9747023 GGTTTTGTTTTGTTTT--
1 GGTTTTGTTTT-TTTTGA
*
9747039 GGTTTTTTTTTTTTTGA
1 GGTTTTGTTTTTTTTGA
9747056 GGTTTTGTTT
1 GGTTTTGTTT
9747066 AAGCATTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.17
16 10 0.43
17 9 0.39
ACGTcount: A:0.02, C:0.00, G:0.23, T:0.74
Consensus pattern (17 bp):
GGTTTTGTTTTTTTTGA
Found at i:9755884 original size:16 final size:17
Alignment explanation
Indices: 9755859--9755910 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
9755849 CATATAATGC
9755859 ATAAAA-AATATTTAAA
1 ATAAAATAATATTTAAA
*
9755875 A-AAAATAATATTCAAA
1 ATAAAATAATATTTAAA
* *
9755891 ATAAGATAATTATTTTAA
1 ATAAAATAA-TATTTAAA
9755909 AT
1 AT
9755911 CTCTCCACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 6 0.21
18 8 0.28
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
ATAAAATAATATTTAAA
Found at i:9756625 original size:19 final size:19
Alignment explanation
Indices: 9756601--9756673 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
9756591 AATCTTCAGG
9756601 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9756620 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
9756639 AATATTTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9756658 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
9756674 AAATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9758125 original size:27 final size:25
Alignment explanation
Indices: 9758062--9758130 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
9758052 TGTACATATA
* *
9758062 TGCTTACACGAGCTATGAATAAGTG
1 TGCTTACACGAGCTGTGAATAAGGG
*
9758087 TGCTCACACGAGCTGTGAA-AATGGG
1 TGCTTACACGAGCTGTGAATAA-GGG
9758112 CCTGCTTACACGAGCTGTG
1 --TGCTTACACGAGCTGTG
9758131 GAGTATCCGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 19 0.51
27 16 0.43
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (25 bp):
TGCTTACACGAGCTGTGAATAAGGG
Found at i:9760265 original size:45 final size:45
Alignment explanation
Indices: 9760187--9760287 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
9760177 ATCTGTATTA
** * * * *
9760187 TTTTGTTGTGTACCAATAACCATAGGTAGATTCCATTTATAGTGT
1 TTTTGTTGTGTACCAATAACCATAGACAAATTCCATCTACAATGT
* *
9760232 TTTTGTTGTGTACCCATAACCATAGACAAATTCCATCTGCAATGT
1 TTTTGTTGTGTACCAATAACCATAGACAAATTCCATCTACAATGT
9760277 TTTTGTTGTGT
1 TTTTGTTGTGT
9760288 GTCCATAGCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (45 bp):
TTTTGTTGTGTACCAATAACCATAGACAAATTCCATCTACAATGT
Found at i:9763430 original size:26 final size:28
Alignment explanation
Indices: 9763401--9763480 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 28
9763391 ATGATGCACA
*
9763401 AAAAAATTTAAAA-A-ATGATATATATG
1 AAAAAATTTAAAATAGATAATATATATG
*
9763427 AAAAATTTTAAAATAGATAATATATAT-
1 AAAAAATTTAAAATAGATAATATATATG
* * * *
9763454 ATAATAGTGTAAAATAAATAATATATA
1 A-AAAAATTTAAAATAGATAATATATA
9763481 AAAAACCTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.27
27 2 0.04
28 31 0.69
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (28 bp):
AAAAAATTTAAAATAGATAATATATATG
Found at i:9763796 original size:26 final size:26
Alignment explanation
Indices: 9763738--9763840 Score: 93
Period size: 26 Copynumber: 3.9 Consensus size: 26
9763728 GTATAAAAGC
*
9763738 TTAAAATAAATAATATGTGGAAAAAGAACT
1 TTAAAATAAATAATATAT--AAAAAG-A-T
*
9763768 TTAAAATAAATAATATATAAAAAGTT
1 TTAAAATAAATAATATATAAAAAGAT
** * *
9763794 TTAACGTGAATAATATATAAAAA-AC
1 TTAAAATAAATAATATATAAAAAGAT
*
9763819 TTAAAATGAATAATA-ATAAAAA
1 TTAAAATAAATAATATATAAAAA
9763841 AAATAGTTCT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.11
25 13 0.20
26 21 0.33
28 6 0.09
30 17 0.27
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAAAAGAT
Found at i:9763842 original size:25 final size:25
Alignment explanation
Indices: 9763758--9763842 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
9763748 TAATATGTGG
*
9763758 AAAAAGAACTTTAAAATAAATAATATAT
1 AAAAA-AAC-TTAAAATGAATAATA-AT
*** **
9763786 AAAAAGTTTTAACGTGAATAAT-AT
1 AAAAAAACTTAAAATGAATAATAAT
9763810 ATAAAAAACTTAAAATGAATAATAAT
1 A-AAAAAACTTAAAATGAATAATAAT
9763836 AAAAAAA
1 AAAAAAA
9763843 ATAGTTCTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
24 3 0.07
25 22 0.50
26 14 0.32
28 5 0.11
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.27
Consensus pattern (25 bp):
AAAAAAACTTAAAATGAATAATAAT
Found at i:9768290 original size:20 final size:20
Alignment explanation
Indices: 9768253--9768290 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9768243 TGATGGGGAG
*
9768253 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
9768273 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
9768291 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:9769737 original size:71 final size:71
Alignment explanation
Indices: 9769621--9769763 Score: 250
Period size: 71 Copynumber: 2.0 Consensus size: 71
9769611 ATCAAATTTA
**
9769621 TTTATAAAGATCTGGACGACTCAAATAAGAGACTTGATCGTGGAAAAGAAAAGATATCGGATTAA
1 TTTATAAAGATCTGGACGACTCAAATAAGAGACTTGATCGTGGAAAAGAAAAGATATCAAATTAA
*
9769686 TGAAAT
66 TAAAAT
*
9769692 TTTATAAAGATCTGGACGACTCAAATATGAGACTTGATCGTGGAAAAGAAAAGATATCAAATTAA
1 TTTATAAAGATCTGGACGACTCAAATAAGAGACTTGATCGTGGAAAAGAAAAGATATCAAATTAA
9769757 TAAAAT
66 TAAAAT
9769763 T
1 T
9769764 ATAAACACAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.27
Consensus pattern (71 bp):
TTTATAAAGATCTGGACGACTCAAATAAGAGACTTGATCGTGGAAAAGAAAAGATATCAAATTAA
TAAAAT
Found at i:9770297 original size:46 final size:46
Alignment explanation
Indices: 9770245--9770426 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
9770235 AGTGTGCTCT
*
9770245 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
9770291 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
9770337 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
9770383 ATGACA-GAAAATGGGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
9770427 TCATGTCAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:9771239 original size:20 final size:20
Alignment explanation
Indices: 9771190--9771241 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
9771180 TGGGTAGGGG
** *
9771190 ACACGGGCGCATCCCGAAGC
1 ACACGGGCGTGTCCCCAAGC
9771210 ACACGGGCGTGTCCCCAAGC
1 ACACGGGCGTGTCCCCAAGC
9771230 ACACGGGCGTGT
1 ACACGGGCGTGT
9771242 GCTATGTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.37, G:0.33, T:0.10
Consensus pattern (20 bp):
ACACGGGCGTGTCCCCAAGC
Found at i:9771259 original size:23 final size:23
Alignment explanation
Indices: 9771229--9771288 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
9771219 TGTCCCCAAG
9771229 CACACGGGCGTGTGCTATGTCTT
1 CACACGGGCGTGTGCTATGTCTT
9771252 CACACGGGCGTGTGCTATGTCTT
1 CACACGGGCGTGTGCTATGTCTT
9771275 CACACGGGCGTGTG
1 CACACGGGCGTGTG
9771289 AGACACTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (23 bp):
CACACGGGCGTGTGCTATGTCTT
Found at i:9776371 original size:12 final size:12
Alignment explanation
Indices: 9776349--9776384 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
9776339 TGGGATATGC
*
9776349 AATGAATGAATG
1 AATGCATGAATG
*
9776361 GATGCATGAATG
1 AATGCATGAATG
9776373 AATGCATGAATG
1 AATGCATGAATG
9776385 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:9776371 original size:16 final size:17
Alignment explanation
Indices: 9776345--9776376 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9776335 AGTATGGGAT
9776345 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
9776362 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
9776377 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:9779785 original size:46 final size:46
Alignment explanation
Indices: 9779725--9779982 Score: 329
Period size: 46 Copynumber: 5.6 Consensus size: 46
9779715 ATGAAATGTG
9779725 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * * ** *
9779771 TAAGACCATAGTTGAGAGATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* ** *
9779817 GAAGACCATGGTTGAAAGATACCATGGCAGTGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * *
9779863 TAAGACTATGGTTGAAAGATACCATGACAACGTGACATGAATAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * *
9779909 TAAGACCATGGTTGAAAGATACCATGGTAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAA
* * *
9779955 TAAGACCATAGTTGAAAGACACTATGGC
1 TAAGACCATGGTTGAAAGATACCATGGC
9779983 GTCATGTCAA
Statistics
Matches: 180, Mismatches: 31, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
45 4 0.02
46 176 0.98
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
Found at i:9779963 original size:138 final size:138
Alignment explanation
Indices: 9779715--9779982 Score: 403
Period size: 138 Copynumber: 1.9 Consensus size: 138
9779705 GCTCTCTGAA
** *
9779715 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAAAGAATAAGACCAT
* * * * *
9779780 AGTTGAGAGATACCATGGCAACATGACGGGAAATGAAGAAGACCATGGTTGAAAGATACCATGGC
66 AGTTGAAAGATACCATGGCAACATGACAGAAAATGAAGAAGACCATAGTTGAAAGACACCATGGC
9779845 AGTGTGAC
131 AGTGTGAC
* *
9779853 ATGAAATGAATAAGACTATGGTTGAAAGATACCATGACAACGTGACATGAATAGAATAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAAAGAATAAGACCAT
* * *
9779918 GGTTGAAAGATACCATGGTAACATGACAGAAAATG-AGTAAGACCATAGTTGAAAGACACTATGG
66 AGTTGAAAGATACCATGGCAACATGACAGAAAATGAAG-AAGACCATAGTTGAAAGACACCATGG
9779982 C
130 C
9779983 GTCATGTCAA
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
137 2 0.02
138 114 0.98
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.20
Consensus pattern (138 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACGTGACATGAAAAGAATAAGACCAT
AGTTGAAAGATACCATGGCAACATGACAGAAAATGAAGAAGACCATAGTTGAAAGACACCATGGC
AGTGTGAC
Found at i:9784000 original size:82 final size:81
Alignment explanation
Indices: 9783884--9784039 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
9783874 AAATTGTACA
* * * *
9783884 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
9783948 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
9783965 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
9784030 TGCGAGTTGA
65 TGCGAATTGA
9784040 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:9784007 original size:55 final size:52
Alignment explanation
Indices: 9783883--9784036 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
9783873 TAAATTGTAC
* *
9783883 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
9783936 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
9783991 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
9784037 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:9784041 original size:27 final size:27
Alignment explanation
Indices: 9783884--9784039 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
9783874 AAATTGTACA
*
9783884 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
9783911 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
9783938 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
9783965 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
9783993 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
9784020 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
9784040 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:9784050 original size:27 final size:27
Alignment explanation
Indices: 9783876--9784060 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
9783866 GCGGGATTAA
*
9783876 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
9783903 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
9783930 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
9783957 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
9783985 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
9784012 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
9784039 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
9784061 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:9784051 original size:82 final size:81
Alignment explanation
Indices: 9783876--9784060 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
9783866 GCGGGATTAA
* * * *
9783876 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
9783941 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
9783957 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
9784021 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
9784039 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
9784061 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:9790520 original size:22 final size:22
Alignment explanation
Indices: 9790495--9790538 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
9790485 GTGTAAAAGT
9790495 TGCTAGAAGAATTAAATAGCTC
1 TGCTAGAAGAATTAAATAGCTC
9790517 TGCTAGAAGAATTAAATAGCTC
1 TGCTAGAAGAATTAAATAGCTC
9790539 AATTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (22 bp):
TGCTAGAAGAATTAAATAGCTC
Found at i:9791883 original size:37 final size:38
Alignment explanation
Indices: 9791838--9791912 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 38
9791828 TATATACATT
*
9791838 AAGGATGTGGAATGGATAGGAGAACGAGG-AAAATATA
1 AAGGATGTGGAATGGAGAGGAGAACGAGGAAAAATATA
* *
9791875 AAGGATGTGGAATGGAGAGGAGGAGGAGGAAAAATATA
1 AAGGATGTGGAATGGAGAGGAGAACGAGGAAAAATATA
9791913 TATGAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 26 0.76
38 8 0.24
ACGTcount: A:0.45, C:0.01, G:0.39, T:0.15
Consensus pattern (38 bp):
AAGGATGTGGAATGGAGAGGAGAACGAGGAAAAATATA
Found at i:9794336 original size:20 final size:21
Alignment explanation
Indices: 9794297--9794336 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9794287 GTTATAATGA
* *
9794297 CCACACGGGCGTGTTGCCCTT
1 CCACACCGGCATGTTGCCCTT
9794318 CCACACCGGCATG-TGCCCT
1 CCACACCGGCATGTTGCCCT
9794337 GTTTCAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.42, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACCGGCATGTTGCCCTT
Found at i:9799514 original size:11 final size:11
Alignment explanation
Indices: 9799493--9799523 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
9799483 CCAATTTATG
9799493 AAAAT-AAATA
1 AAAATAAAATA
9799503 AAAATAAAATA
1 AAAATAAAATA
9799514 AAAATAAAAT
1 AAAATAAAAT
9799524 GAAATAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:9820129 original size:119 final size:119
Alignment explanation
Indices: 9819181--9820100 Score: 1651
Period size: 119 Copynumber: 7.7 Consensus size: 119
9819171 ATATTCACAA
9819181 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
9819246 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
66 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
9819300 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
9819365 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
66 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
9819419 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * * *
9819484 ACAAGAAACAAATTGAGGACATAGCAGATTTGACTTTCAGACGTTCTCAAATAT
66 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
* * * *
9819538 AGCAGATCTAACCTTCAGATGTTTCTACTGAAGCAGATCCAAGATAATTTGGTATTCTTGTGTTT
1 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * * * **
9819603 ACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAATAT
66 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
** * *
9819657 AACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATTCTTGTGTTT
1 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
9819722 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
66 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
9819776 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
9819841 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
66 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
9819895 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
9819960 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
66 ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
9820014 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * *
9820079 ACAAGGAACAAATCGAGGACAT
66 ACAAGAAACAAATTGAAGACAT
9820101 TGCAAATATG
Statistics
Matches: 772, Mismatches: 29, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 772 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (119 bp):
GGCAGATCTAACCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
ACAAGAAACAAATTGAAGACATAGCAGATTTGGCTCTCAGACATTCTCAAATAT
Found at i:9820193 original size:83 final size:83
Alignment explanation
Indices: 9820053--9820318 Score: 329
Period size: 83 Copynumber: 3.2 Consensus size: 83
9820043 GAAGCAGATC
* * * *
9820053 CAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATTGCAAATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
*
9820118 AATTTTCTCAAACAGACT
66 AATATTCTCAAACAGACT
* * *
9820136 CAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCTAGGACATTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
* *
9820201 AATGTTCTCAAACAAACT
66 AATATTCTCAAACAGACT
* * * * *
9820219 CAAGATGGTTTGGCATCCTTGTTCTTACAAGGGAA-AAATCGAGGAC-TGGTAGATATAACTCTC
1 CAAGATGATTTGGCATCCTTGTGCTTACAA-GGAACAAATCGAGGACATTGCAGATATGACTCTC
* * *
9820282 AAACATTCTCAAACGGATT
65 AAATATTCTCAAACAGACT
* *
9820301 CAAGTTGATTCGGCATCC
1 CAAGATGATTTGGCATCC
9820319 CTACAAATTG
Statistics
Matches: 159, Mismatches: 23, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
82 43 0.27
83 112 0.70
84 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (83 bp):
CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATATTCTCAAACAGACT
Found at i:9829132 original size:77 final size:77
Alignment explanation
Indices: 9829005--9829153 Score: 289
Period size: 77 Copynumber: 1.9 Consensus size: 77
9828995 CGTATCTCTA
9829005 GATCTATTAAGAATGGTAAAACAGGAGGAGAAACAAATCATGCCACATGAAAAAGAGGCAATAGA
1 GATCTATTAAGAATGGTAAAACAGGAGGAGAAACAAATCATGCCACATGAAAAAGAGGCAATAGA
9829070 GAATATACACTC
66 GAATATACACTC
*
9829082 GATCTATTAAGAATGGTAAAATAGGAGGAGAAACAAATCATGCCACATGAAAAAGAGGCAATAGA
1 GATCTATTAAGAATGGTAAAACAGGAGGAGAAACAAATCATGCCACATGAAAAAGAGGCAATAGA
9829147 GAATATA
66 GAATATA
9829154 GCCCTAGAGG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.17
Consensus pattern (77 bp):
GATCTATTAAGAATGGTAAAACAGGAGGAGAAACAAATCATGCCACATGAAAAAGAGGCAATAGA
GAATATACACTC
Found at i:9833519 original size:119 final size:119
Alignment explanation
Indices: 9833308--9833780 Score: 770
Period size: 119 Copynumber: 4.0 Consensus size: 119
9833298 AATTGAAGAC
* *
9833308 AGCAGATCTAGA-CTTCAGACATTTATGCTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
1 AGCAGATCTA-ACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
*
9833372 TACAAGAAACAAATTGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
65 TACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
9833427 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
*
9833492 ACAAGAAACAAATTGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
* *
9833546 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
*
9833611 ACAAGAAACAAATCGAAGACATAGCAGATTTTG-CTCTCAGACGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGA-TTTGACTCTCAGACGTTCTCAAATAT
* * * *
9833665 GGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCTAAGATGATTTGGTATTCTTTTGTTT
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * * * *
9833730 ACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
9833781 CAGACTCAAG
Statistics
Matches: 335, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
118 4 0.01
119 327 0.98
120 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (119 bp):
AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
Found at i:9833822 original size:83 final size:83
Alignment explanation
Indices: 9833705--9834382 Score: 869
Period size: 83 Copynumber: 8.0 Consensus size: 83
9833695 AAGCAGATCT
* * * * * * *
9833705 AAGATGATTTGGTATTCTTTTGTTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCAA
9833770 ATGTTCTCAAACAGACTC
66 ATGTTCTCAAACAGACTC
9833788 AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCAA
9833853 ATGTTCTCAAACAGACTC
66 ATGTTCTCAAACAGACTC
9833871 AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCAA
9833936 ATGTTCTCAAACAGACTC
66 ATGTTCTCAAACAGACTC
9833954 AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCAA
9834019 ATGTTCTCAAACAGACTC
66 ATGTTCTCAAACAGACTC
9834037 AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCAA
9834102 ATGTTCTCAAACAGACTC
66 ATGTTCTCAAACAGACTC
** * * * * *
9834120 AAGATGGTTTGGCATCCTTGTGCTTACAATTTTGCTCTCAGACGTTCTCA-AATATGGCAGATCT
1 AAGATGGTTTGGCATCCTTGTGCTTACAA---TG--AACA-A--ATCT-AGGACATTGCAGATAT
* * * *
9834184 AAC-CTTCAGATGTTTATACTGAAGCAGA-TC
57 GACTC-TCAAATG--T-T-CTCAAACAGACTC
* * * * * * *
9834214 TAAGATGATTTGGTATTCTTTTGTTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 -AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCA
*
9834279 AATGTTCTCAAACAAACTC
65 AATGTTCTCAAACAGACTC
* * * * * *
9834298 AAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCAAGGAC-TGGTAGATATAACTCTCAA
1 AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCAA
** * *
9834362 ACATTCTCAAACGGATTC
66 ATGTTCTCAAACAGACTC
9834380 AAG
1 AAG
9834383 TTGATTCGGC
Statistics
Matches: 525, Mismatches: 52, Indels: 37
0.86 0.08 0.06
Matches are distributed among these distances:
82 32 0.06
83 399 0.76
84 3 0.01
85 1 0.00
86 3 0.01
87 20 0.04
88 3 0.01
89 2 0.00
90 3 0.01
91 21 0.04
92 2 0.00
93 1 0.00
94 3 0.01
95 32 0.06
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (83 bp):
AAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCTAGGACATTGCAGATATGACTCTCAA
ATGTTCTCAAACAGACTC
Found at i:9834394 original size:82 final size:83
Alignment explanation
Indices: 9834215--9834395 Score: 193
Period size: 82 Copynumber: 2.2 Consensus size: 83
9834205 AAGCAGATCT
* * * * * * * *
9834215 AAGATGATTTGGTATTCTTTTGTTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAA
1 AAGATGATTCGGCATCCTTGTGCTTACAAGGAACAAATCAAGGACATGGCAGATATAACTCTCAA
**
9834280 ATGTTCTCAAACAAACTC
66 ACATTCTCAAACAAACTC
* * * *
9834298 AAGATGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCAAGGAC-TGGTAGATATAACTCTCAA
1 AAGATGATTCGGCATCCTTGTGCTTACAAGGAACAAATCAAGGACATGGCAGATATAACTCTCAA
** *
9834362 ACATTCTCAAACGGATTC
66 ACATTCTCAAACAAACTC
*
9834380 AAGTTGATTCGGCATC
1 AAGATGATTCGGCATC
9834396 TCTACAAATT
Statistics
Matches: 80, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
82 42 0.52
83 38 0.47
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (83 bp):
AAGATGATTCGGCATCCTTGTGCTTACAAGGAACAAATCAAGGACATGGCAGATATAACTCTCAA
ACATTCTCAAACAAACTC
Found at i:9841509 original size:24 final size:24
Alignment explanation
Indices: 9841477--9841534 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
9841467 GTGTTTTACA
9841477 ATTGAAATTGATTG-ATTTAGTATGTG
1 ATTG-AATTGATTGAATTTA-TAT-TG
*
9841503 A-TGAATTTATTGAATTTATATTG
1 ATTGAATTGATTGAATTTATATTG
9841526 ATTGAATTG
1 ATTGAATTG
9841535 GTATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 3 0.11
24 17 0.61
25 7 0.25
26 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (24 bp):
ATTGAATTGATTGAATTTATATTG
Found at i:9841798 original size:40 final size:40
Alignment explanation
Indices: 9841732--9841829 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
9841722 GGATTAATTT
* * *
9841732 GATGAGGCACTAGGTGCC-AA-T-TTACTTCGATTTAACC
1 GATGAGACACTGGGTGCCAAATTATTACTTCGAATTAACC
* *
9841769 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGCCAAATTATTACTTCGAATTAACC
*
9841809 GATGAGGCACTGGGTGCCAAA
1 GATGAGACACTGGGTGCCAAA
9841830 CTGGTGAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 15 0.29
38 2 0.04
39 1 0.02
40 33 0.65
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (40 bp):
GATGAGACACTGGGTGCCAAATTATTACTTCGAATTAACC
Found at i:9844505 original size:32 final size:32
Alignment explanation
Indices: 9844468--9844533 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
9844458 ATATGCGATG
9844468 GTCGCTGAACCATGTAAAATATAGCATACATA
1 GTCGCTGAACCATGTAAAATATAGCATACATA
*
9844500 GTCGCTGAACCATGTAAAATATATCATACATA
1 GTCGCTGAACCATGTAAAATATAGCATACATA
9844532 GT
1 GT
9844534 GTAAAACCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (32 bp):
GTCGCTGAACCATGTAAAATATAGCATACATA
Found at i:9845804 original size:21 final size:22
Alignment explanation
Indices: 9845766--9845810 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
9845756 TTGAGTTTTG
*
9845766 ATTTCATATTATTATATTAATT
1 ATTTAATATTATTATATTAATT
*
9845788 ATTTAATATTA-TATATTCATT
1 ATTTAATATTATTATATTAATT
9845809 AT
1 AT
9845811 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTAATATTATTATATTAATT
Found at i:9845863 original size:44 final size:43
Alignment explanation
Indices: 9845782--9845864 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 43
9845772 TATTATTATA
* *
9845782 TTAATTATTTAATATTATATATTCATTATATTTTTATTAAAGG
1 TTAATTATTTAATATGATATATTCATTATATTATTATTAAAGG
*
9845825 TTAATTATTTTAAATATGATA-ATTC-TTTTACTTATTATTA
1 TTAATTA-TTT-AATATGATATATTCATTATA-TTATTATTA
9845865 TATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
43 11 0.32
44 15 0.44
45 8 0.24
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (43 bp):
TTAATTATTTAATATGATATATTCATTATATTATTATTAAAGG
Found at i:9845952 original size:22 final size:22
Alignment explanation
Indices: 9845922--9845963 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9845912 TTTTACATAC
9845922 TATATTATTATGTT-ATTTTAG
1 TATATTATTATGTTAATTTTAG
*
9845943 TATAGTTATTATTTTAATTTT
1 TATA-TTATTATGTTAATTTT
9845964 CACTTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TATATTATTATGTTAATTTTAG
Found at i:9848262 original size:16 final size:18
Alignment explanation
Indices: 9848226--9848262 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9848216 TTAGTTTTTG
*
9848226 TATTTTGTTATAGTTATT
1 TATTTTGTTATAGTAATT
9848244 TATTTTGTTA-A-TAATT
1 TATTTTGTTATAGTAATT
9848260 TAT
1 TAT
9848263 GGGATTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TATTTTGTTATAGTAATT
Found at i:9848429 original size:16 final size:18
Alignment explanation
Indices: 9848393--9848429 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9848383 TTAGTTTTTG
*
9848393 TATTTTGTTATAGTTATT
1 TATTTTGTTATAGTAATT
9848411 TATTTTGTTA-A-TAATT
1 TATTTTGTTATAGTAATT
9848427 TAT
1 TAT
9848430 GGGATTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TATTTTGTTATAGTAATT
Found at i:9848472 original size:167 final size:170
Alignment explanation
Indices: 9848196--9848529 Score: 638
Period size: 167 Copynumber: 2.0 Consensus size: 170
9848186 NNNNNNNNNN
9848196 TATGATTAGGTTATAAATTGTTAGTTTTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTT
1 TATGATTAGGTTATAAATTGTTAGTTTTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTT
*
9848261 ATGGGATTAAGTTACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGGTTTTTTAGTAATGTA
66 ATGGGATTAAGTTACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTA
9848326 A-TTTAAAAAAA-AA-TTTATAGTTATTTTGTTAGTAATT
131 ATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATT
9848363 TATGATTAGGTTATAAATTGTTAGTTTTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTT
1 TATGATTAGGTTATAAATTGTTAGTTTTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTT
9848428 ATGGGATTAAGTTACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTA
66 ATGGGATTAAGTTACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTA
9848493 ATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTA
131 ATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTA
9848530 GTTTGTTTTG
Statistics
Matches: 163, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
167 130 0.80
168 10 0.06
169 2 0.01
170 21 0.13
ACGTcount: A:0.29, C:0.01, G:0.18, T:0.52
Consensus pattern (170 bp):
TATGATTAGGTTATAAATTGTTAGTTTTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTT
ATGGGATTAAGTTACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTA
ATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATT
Found at i:9848584 original size:122 final size:119
Alignment explanation
Indices: 9848413--9848648 Score: 418
Period size: 122 Copynumber: 2.0 Consensus size: 119
9848403 TAGTTATTTA
* *
9848413 TTTTGTTAATAATTTATGGGATTAAGTTACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGA
1 TTTTGCTAATAATTTATGGGATTAAGTTACAAATTGTCAGTGTTTAGTGGTTTAGGGTATTGTGA
9848478 TTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAGTTTG
66 TTTTTTAGTAATGTAA-TTTAAAAAAA-AA-TTTATAGTTATTTTGTTAGTAGTTTG
*
9848535 TTTTGCTAATAATTTATGGGATTAAGTTACAAATTGTCAGTGTTTAGTGGTTTAGGGTATTGTGG
1 TTTTGCTAATAATTTATGGGATTAAGTTACAAATTGTCAGTGTTTAGTGGTTTAGGGTATTGTGA
9848600 TTTTTTAGTAATGTAATTTAAAAAAAAATTTATAGTTATTTTGTTAGTA
66 TTTTTTAGTAATGTAATTTAAAAAAAAATTTATAGTTATTTTGTTAGTA
9848649 ATTTATGATT
Statistics
Matches: 111, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
119 21 0.19
120 2 0.02
121 10 0.09
122 78 0.70
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (119 bp):
TTTTGCTAATAATTTATGGGATTAAGTTACAAATTGTCAGTGTTTAGTGGTTTAGGGTATTGTGA
TTTTTTAGTAATGTAATTTAAAAAAAAATTTATAGTTATTTTGTTAGTAGTTTG
Found at i:9848718 original size:16 final size:18
Alignment explanation
Indices: 9848682--9848718 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9848672 TTAGTTTTTG
*
9848682 TATTTTGTTATAGTTATT
1 TATTTTGTTATAGTAATT
9848700 TATTTTGTTA-A-TAATT
1 TATTTTGTTATAGTAATT
9848716 TAT
1 TAT
9848719 GGGATTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TATTTTGTTATAGTAATT
Found at i:9848771 original size:289 final size:289
Alignment explanation
Indices: 9848246--9848815 Score: 1122
Period size: 289 Copynumber: 2.0 Consensus size: 289
9848236 TAGTTATTTA
* *
9848246 TTTTGTTAATAATTTATGGGATTAAGTTACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGG
1 TTTTGCTAATAATTTATGGGATTAAGTTACAAATTGTCAGTGTTTAGTGGTTTAGGGTATTGTGG
9848311 TTTTTTAGTAATGTAATTTAAAAAAAAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTA
66 TTTTTTAGTAATGTAATTTAAAAAAAAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTA
9848376 TAAATTGTTAGTTTTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTTATGGGATTAAGTT
131 TAAATTGTTAGTTTTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTTATGGGATTAAGTT
9848441 ACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTAATTTTAAAAAAAT
196 ACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTAATTTTAAAAAAAT
9848506 AATTTTATAGTTATTTTGTTAGTAGTTTG
261 AATTTTATAGTTATTTTGTTAGTAGTTTG
9848535 TTTTGCTAATAATTTATGGGATTAAGTTACAAATTGTCAGTGTTTAGTGGTTTAGGGTATTGTGG
1 TTTTGCTAATAATTTATGGGATTAAGTTACAAATTGTCAGTGTTTAGTGGTTTAGGGTATTGTGG
9848600 TTTTTTAGTAATGTAATTTAAAAAAAAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTA
66 TTTTTTAGTAATGTAATTTAAAAAAAAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTA
9848665 TAAATTGTTAGTTTTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTTATGGGATTAAGTT
131 TAAATTGTTAGTTTTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTTATGGGATTAAGTT
9848730 ACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTAATTTTAAAAAAAT
196 ACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTAATTTTAAAAAAAT
9848795 AATTTTATAGTTATTTTGTTA
261 AATTTTATAGTTATTTTGTTA
9848816 CTAATTTATG
Statistics
Matches: 279, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
289 279 1.00
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.51
Consensus pattern (289 bp):
TTTTGCTAATAATTTATGGGATTAAGTTACAAATTGTCAGTGTTTAGTGGTTTAGGGTATTGTGG
TTTTTTAGTAATGTAATTTAAAAAAAAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTA
TAAATTGTTAGTTTTTGTATTTTGTTATAGTTATTTATTTTGTTAATAATTTATGGGATTAAGTT
ACAAATTGTTAGTGTTTAGTGGTTTAGGGTATTGTGATTTTTTAGTAATGTAATTTTAAAAAAAT
AATTTTATAGTTATTTTGTTAGTAGTTTG
Found at i:9848947 original size:105 final size:104
Alignment explanation
Indices: 9848699--9849199 Score: 607
Period size: 103 Copynumber: 4.8 Consensus size: 104
9848689 TTATAGTTAT
* * * *
9848699 TTATTTTGTTAATAATTTATGGGATTAAG-T-TACAAATTGTTAGTGTTTAGTGGTTTAGGGTAT
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTA---G-TTAGGGTTT
*
9848762 TGTGATTTTTTAGTAATGTAA--TTTTAAAAAAATAATTTTATAG
60 TGTGATTTTTTAGTAATATAATTTTTTAAAAAAATAATTTTATAG
* * * *
9848805 TTATTTTGTTACTAATTTATGGGATTAGG-T-TACAAATTGTTAGTGTTTAATATAGGGTGTTGT
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGT-TAGGGTTTTGT
* **
9848868 GATTTTTTAGTAATCTAATTTTTTTTAAAAATAATTTTATAG
63 GATTTTTTAGTAATATAATTTTTTAAAAAAATAATTTTATAG
*
9848910 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTA-GGGTTTTGTGA
9848975 TTTTTTAGTAATAT-ATTTTTT-AAAAAATAATTTTATAG
65 TTTTTTAGTAATATAATTTTTTAAAAAAATAATTTTATAG
*
9849013 TTATTTTGTTAGTAATTTATGATTA-GTTATATAAATTGTTAGTGTTTAGTTATGAG-TTT-TGA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTA-GGGTTTTGTGA
* * * *
9849075 TTTTTTTTGTAATGT-ATTTCTAAAAAATAATAATTTTATAG
65 -TTTTTTAGTAATATAATTTTTTAAAAA-AATAATTTTATAG
*
9849116 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAG-TTAGGGTTTTGTGA
9849181 TTTTTT--TAATATAATTTTT
65 TTTTTTAGTAATATAATTTTT
9849200 ATATAATGTA
Statistics
Matches: 359, Mismatches: 22, Indels: 30
0.87 0.05 0.07
Matches are distributed among these distances:
100 3 0.01
101 20 0.06
102 35 0.10
103 118 0.33
104 41 0.11
105 92 0.26
106 50 0.14
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.54
Consensus pattern (104 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTAGGGTTTTGTGAT
TTTTTAGTAATATAATTTTTTAAAAAAATAATTTTATAG
Found at i:9854267 original size:5 final size:6
Alignment explanation
Indices: 9854244--9854274 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
9854234 TTAAATCTAC
9854244 TAAAAA TTAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA -TAAAAA TAAAAA TAAAAA TAAAAA
9854275 GTAGTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:9856204 original size:13 final size:13
Alignment explanation
Indices: 9856186--9856211 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9856176 AAGTAATGAA
9856186 TTAAAAATAAATT
1 TTAAAAATAAATT
9856199 TTAAAAATAAATT
1 TTAAAAATAAATT
9856212 GTTTGAGCTG
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAAATAAATT
Found at i:9861439 original size:276 final size:274
Alignment explanation
Indices: 9860848--9861634 Score: 1186
Period size: 277 Copynumber: 2.8 Consensus size: 274
9860838 AACAAGATTT
* *
9860848 AGTCCAAATAAACAACAAAAACAATACAACAAGATTATAATAAAAAGAACATAAGTAAAAGTCTA
1 AGTCCAAATAAACTACAAAAA-AATACAACAAGATTATAATAAAAA-AACATAAGTAAAAGTCCA
* *
9860913 AGTAAACAACATGAGTCGAAA-TAAACAACAACACTATAATAAAAAAAATATAAGCAAAAGTCCA
64 AGTAAACAACATGAGTC-AAAGTAAACAACAACATTATAA-AAAAAAAACATAAGCAAAAGTCCA
* * *
9860977 AAATATAATAGAAACCTACACCAG-TCAAAAAAAAAAAAGAACACAACAAAAGTCCAATTAACCA
127 AAATACAATAGAAATCTACACCAGACCAAAAAAAAAAAAGAACACAACAAAAGTCCAATTAACCA
*
9861041 ACAACAATAACAAACCAAACCAAACTAATAACAATAACACATTAGTTCAAAAACCATTATAGAAT
192 ACAACAATAACAAACCAAACCAAACTAATAACAATAACACATCAGTTCAAAAACCATTATAGAAT
9861106 AGTTCAAGTTTCTTCATG
257 AGTTCAAGTTTCTTCATG
* *
9861124 AGTCTAAATAAACATTA-AAAACAATACAACAAGATTATAATAAAAAAACATAAGTAAAAGTCCA
1 AGTCCAAATAAAC--TACAAAAAAATACAACAAGATTATAATAAAAAAACATAAGTAAAAGTCCA
*
9861188 AGTAAACAACATGAGTCAAAGTAAACAACAATATTATATAACAAAAAAACATAAGCAAAAGTCCA
64 AGTAAACAACATGAGTCAAAGTAAACAACAACATTATA-AA-AAAAAAACATAAGCAAAAGTCCA
* *
9861253 AAATACAATAGAAATCTACACCAGACCAAAAAGAAAAAAGAACACAACAAAAATCCAATTAACCA
127 AAATACAATAGAAATCTACACCAGACCAAAAAAAAAAAAGAACACAACAAAAGTCCAATTAACCA
*
9861318 ACAACAATAACAAACCAAACCAAACTAATAACAATAACAGATCAGTTCAAAAACCATTATAGAAT
192 ACAACAATAACAAACCAAACCAAACTAATAACAATAACACATCAGTTCAAAAACCATTATAGAAT
*
9861383 AGTTTAAGTTTCTTCATG
257 AGTTCAAGTTTCTTCATG
* *
9861401 AGTCCAAATAAACTACAAAAAAATACAATAATATTATAATAAAAAAACATAAGTAAAAGTCCAAG
1 AGTCCAAATAAACTACAAAAAAATACAACAAGATTATAATAAAAAAACATAAGTAAAAGTCCAAG
* * * * * *
9861466 TAAATAGCATGACTCGAAGTAAATAACAACATTAAAATAAAAAAAACATAAGCAAAAGTCCAAAA
66 TAAACAACATGAGTCAAAGTAAACAACAACATTATAA-AAAAAAAACATAAGCAAAAGTCCAAAA
* * **
9861531 TGCAATAGAAATCTACACCA-ATCCAAACAAACAAAAAAAAACACAACAAAAGTTTAATTAACCA
130 TACAATAGAAATCTACACCAGA-CCAAA-AAA-AAAAAAGAACACAACAAAAGTCCAATTAACCA
*
9861595 ACAACAACAACAAACCAAACCAAACTAATAACAATAACAC
192 ACAACAATAACAAACCAAACCAAACTAATAACAATAACAC
9861635 CATTATAGAA
Statistics
Matches: 466, Mismatches: 34, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
274 4 0.01
275 103 0.22
276 159 0.34
277 199 0.43
278 1 0.00
ACGTcount: A:0.58, C:0.18, G:0.07, T:0.17
Consensus pattern (274 bp):
AGTCCAAATAAACTACAAAAAAATACAACAAGATTATAATAAAAAAACATAAGTAAAAGTCCAAG
TAAACAACATGAGTCAAAGTAAACAACAACATTATAAAAAAAAAACATAAGCAAAAGTCCAAAAT
ACAATAGAAATCTACACCAGACCAAAAAAAAAAAAGAACACAACAAAAGTCCAATTAACCAACAA
CAATAACAAACCAAACCAAACTAATAACAATAACACATCAGTTCAAAAACCATTATAGAATAGTT
CAAGTTTCTTCATG
Found at i:9861924 original size:19 final size:20
Alignment explanation
Indices: 9861900--9861944 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
9861890 TAAAGTTAAA
*
9861900 TTATTTAATCATTTTTA-TT
1 TTATTTAATCATTTTAATTT
* *
9861919 TTATTTTATTATTTTAATTT
1 TTATTTAATCATTTTAATTT
9861939 TTATTT
1 TTATTT
9861945 CTTTCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATTTAATCATTTTAATTT
Found at i:9861932 original size:13 final size:12
Alignment explanation
Indices: 9861910--9861944 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
9861900 TTATTTAATC
9861910 ATTTTTATTTTA
1 ATTTTTATTTTA
*
9861922 TTTTATTATTTTA
1 ATTT-TTATTTTA
9861935 ATTTTTATTT
1 ATTTTTATTT
9861945 CTTTCTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:9864598 original size:123 final size:123
Alignment explanation
Indices: 9864377--9864617 Score: 437
Period size: 123 Copynumber: 2.0 Consensus size: 123
9864367 GGTAGTGAAA
* * *
9864377 GAGGTATTAGAGGAAGTGTTCGAAGTTAGGATAAGGGAGGCTAGTGAAACTCTGTAAGATAGGTG
1 GAGGTATTAGAGGAAGTGTTCGAAGCTAGGATAAGGGAGACTAGTGAAACTCTATAAGATAGGTG
9864442 CGTGGATTGTGGGAAGAAAAGAGATCGCAGTCCTCTGAGGTTGGAGCCTCATTGAGGG
66 CGTGGATTGTGGGAAGAAAAGAGATCGCAGTCCTCTGAGGTTGGAGCCTCATTGAGGG
9864500 GAGGTATTAGAGGAAGTGTTCGAAGCTAGGATAAGGGAGACTAGTGAAACTCTATAAGATAGGTG
1 GAGGTATTAGAGGAAGTGTTCGAAGCTAGGATAAGGGAGACTAGTGAAACTCTATAAGATAGGTG
* *
9864565 CGTGGATTGTGGGAAGAAAAGAGATTGCGGTCCTCTGAGGTTGGAGCCTCATT
66 CGTGGATTGTGGGAAGAAAAGAGATCGCAGTCCTCTGAGGTTGGAGCCTCATT
9864618 CTTCGAAGCG
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.29, C:0.11, G:0.36, T:0.24
Consensus pattern (123 bp):
GAGGTATTAGAGGAAGTGTTCGAAGCTAGGATAAGGGAGACTAGTGAAACTCTATAAGATAGGTG
CGTGGATTGTGGGAAGAAAAGAGATCGCAGTCCTCTGAGGTTGGAGCCTCATTGAGGG
Found at i:9866052 original size:19 final size:21
Alignment explanation
Indices: 9866012--9866052 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9866002 CGGGCATGTA
*
9866012 TGGCCTTCACATAGGCGTGTG
1 TGGCCTCCACATAGGCGTGTG
*
9866033 TGGCCTCCACATAGGTGTGT
1 TGGCCTCCACATAGGCGTGT
9866053 AGACCACTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (21 bp):
TGGCCTCCACATAGGCGTGTG
Found at i:9869736 original size:21 final size:20
Alignment explanation
Indices: 9869719--9869755 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9869709 GAGCAAAAGG
9869719 ACAGAG-AAACGAGCCAAAA
1 ACAGAGAAAACGAGCCAAAA
*
9869738 ACAGAGAAAACGGGCCAA
1 ACAGAGAAAACGAGCCAA
9869756 CGTGGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.54, C:0.22, G:0.24, T:0.00
Consensus pattern (20 bp):
ACAGAGAAAACGAGCCAAAA
Found at i:9872262 original size:19 final size:19
Alignment explanation
Indices: 9872238--9872295 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
9872228 AAGGAAAATG
9872238 GAGCGAAAATCATTCAATA
1 GAGCGAAAATCATTCAATA
*
9872257 GAGCGAAACAT-ATGCAAATA
1 GAGCGAAA-ATCATTC-AATA
9872277 GAGCGAAAATCATTCAATA
1 GAGCGAAAATCATTCAATA
9872296 ATTCAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (19 bp):
GAGCGAAAATCATTCAATA
Found at i:9872447 original size:3 final size:3
Alignment explanation
Indices: 9872441--9872485 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
9872431 ACTAATAATT
*
9872441 AAG AAG AAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AAGG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG AA
9872486 TGGTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:9872785 original size:9 final size:9
Alignment explanation
Indices: 9872773--9872809 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9872763 ATATAGTTTA
*
9872773 TATTCGATT
1 TATTCGAAT
9872782 TATTCGAAT
1 TATTCGAAT
*
9872791 TATTCGAGT
1 TATTCGAAT
9872800 TATTCGAAT
1 TATTCGAAT
9872809 T
1 T
9872810 CGAAAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9872796 original size:18 final size:18
Alignment explanation
Indices: 9872773--9872809 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9872763 ATATAGTTTA
*
9872773 TATTCGATTTATTCGAAT
1 TATTCGAGTTATTCGAAT
9872791 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
9872809 T
1 T
9872810 CGAAAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:9876775 original size:14 final size:14
Alignment explanation
Indices: 9876756--9876784 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9876746 CATACACAGC
9876756 TCTTGAACTCCATG
1 TCTTGAACTCCATG
9876770 TCTTGAACTCCATG
1 TCTTGAACTCCATG
9876784 T
1 T
9876785 TCTTCACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.38
Consensus pattern (14 bp):
TCTTGAACTCCATG
Found at i:9877396 original size:103 final size:103
Alignment explanation
Indices: 9877217--9877629 Score: 817
Period size: 103 Copynumber: 4.0 Consensus size: 103
9877207 GAATAGAAAA
*
9877217 AAAGTTACATAAAGTTTTTAATGTAATTTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
1 AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
9877282 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
66 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
9877320 AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
1 AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
9877385 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
66 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
9877423 AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
1 AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
9877488 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
66 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
9877526 AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
1 AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
9877591 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
66 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
9877629 A
1 A
9877630 CATTCTATTT
Statistics
Matches: 309, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 309 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (103 bp):
AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
Found at i:9878413 original size:27 final size:27
Alignment explanation
Indices: 9878374--9878505 Score: 90
Period size: 27 Copynumber: 4.9 Consensus size: 27
9878364 AAAATTAAGC
*
9878374 ACCAGTGGTGCCTATCAGATAGGCGT-A
1 ACCAGTGGCGCCTATCAGATAGGC-TCA
* * *
9878401 ACCAGTGGCGCCTGTTAGATAGGCTCC
1 ACCAGTGGCGCCTATCAGATAGGCTCA
* * *
9878428 ACCAGTCGCGCCTA-CTAGATAGACTCC
1 ACCAGTGGCGCCTATC-AGATAGGCTCA
* * * *
9878455 ACCAGTCGCACCTA-CTAGATAGACTCC
1 ACCAGTGGCGCCTATC-AGATAGGCTCA
* * *
9878482 ACTAGTTGCGCCTACCAGATAGGC
1 ACCAGTGGCGCCTATCAGATAGGC
9878506 ACTACCTACC
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 87 0.98
28 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.20
Consensus pattern (27 bp):
ACCAGTGGCGCCTATCAGATAGGCTCA
Found at i:9878909 original size:22 final size:25
Alignment explanation
Indices: 9878884--9878928 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
9878874 TTAATTCATT
9878884 AAATA-ATATATTT-TG-TAATTTC
1 AAATATATATATTTGTGCTAATTTC
9878906 AAATATATATATTTGTGCTAATT
1 AAATATATATATTTGTGCTAATT
9878929 AAATGATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 8 0.40
24 2 0.10
25 5 0.25
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (25 bp):
AAATATATATATTTGTGCTAATTTC
Found at i:9878932 original size:23 final size:20
Alignment explanation
Indices: 9878881--9878932 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 20
9878871 TTTTTAATTC
9878881 ATTAAATAATATATTTTGTA
1 ATTAAATAATATATTTTGTA
9878901 ATTTCAAATATATATATTTGTGCTA
1 A-TT-AAATA-ATATATTT-TG-TA
9878926 ATTAAAT
1 ATTAAAT
9878933 GATGATTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 1 0.04
21 2 0.07
22 5 0.19
23 12 0.44
24 4 0.15
25 3 0.11
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (20 bp):
ATTAAATAATATATTTTGTA
Found at i:9881446 original size:27 final size:28
Alignment explanation
Indices: 9881408--9881547 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
9881398 AGCATGGCTG
* *
9881408 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
9881434 CCAGATATAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
9881462 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
9881489 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
9881516 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
9881543 CCAGA
1 CCAGA
9881548 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:9883204 original size:26 final size:26
Alignment explanation
Indices: 9883168--9884031 Score: 1692
Period size: 26 Copynumber: 33.2 Consensus size: 26
9883158 CATGAAATTC
9883168 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883194 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883220 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883246 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883272 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883298 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883324 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883350 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883376 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883402 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883428 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883454 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883480 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883506 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883532 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883558 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883584 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883610 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883636 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883662 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883688 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883714 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883740 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883766 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883792 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883818 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883844 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883870 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883896 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883922 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9883948 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9883974 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
9884000 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9884026 TTATCA
1 TTATCA
9884032 ATTTGTATCA
Statistics
Matches: 836, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 836 1.00
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9888098 original size:18 final size:18
Alignment explanation
Indices: 9888075--9888116 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
9888065 AAGTTGTGAT
9888075 AATTATAATTTAAATTAC
1 AATTATAATTTAAATTAC
9888093 AATTATAATTTAAATTAC
1 AATTATAATTTAAATTAC
9888111 AATTAT
1 AATTAT
9888117 TAGTGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTATAATTTAAATTAC
Found at i:9917599 original size:39 final size:39
Alignment explanation
Indices: 9917545--9917625 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
9917535 GGATGATACA
*
9917545 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
9917584 AAGCCTGCGGGACTTTAGTCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
9917623 AAG
1 AAG
9917626 TCCGCGGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.21
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:9918006 original size:39 final size:39
Alignment explanation
Indices: 9917952--9918041 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 39
9917942 GGGTTCTGTA
*
9917952 CCGGATATATTTCCAGCACGAAGCCTCCGGGACTTTAGC
1 CCGGATACATTTCCAGCACGAAGCCTCCGGGACTTTAGC
* *
9917991 CCGGATAGATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1 CCGGATACATTTCCAGCACGAAGCCTCCGGGACTTTAGC
*
9918030 CCAGATACATTT
1 CCGGATACATTT
9918042 TCAGTGTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CCGGATACATTTCCAGCACGAAGCCTCCGGGACTTTAGC
Found at i:9924767 original size:11 final size:10
Alignment explanation
Indices: 9924751--9924809 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
9924741 TCTGTTATAT
9924751 TTATATTTTTA
1 TTATA-TTTTA
*
9924762 TTATATGTTA
1 TTATATTTTA
9924772 -TATATTTTTA
1 TTATA-TTTTA
9924782 TTATATTTTA
1 TTATATTTTA
*
9924792 TT-TATTCTA
1 TTATATTTTA
*
9924801 CTATATTTT
1 TTATATTTT
9924810 TATATGTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 11 0.28
10 20 0.50
11 9 0.22
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (10 bp):
TTATATTTTA
Done.