Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 173 of 325
Found at i:53169732 original size:54 final size:54
Alignment explanation
Indices: 53169588--53169722 Score: 182
Period size: 54 Copynumber: 2.5 Consensus size: 54
53169578 TTTACCCCTG
* * *
53169588 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTTGATTTACAGAATTATCG
1 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTTGATTTACAGAATTATCA
* * * *
53169642 TTTTATCGTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTA-CTA
1 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTTGATTTACAGAATTATC-A
*
53169696 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTA
53169723 AAATACCCTT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 67 0.99
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (54 bp):
TTTTACCCTCGATTTACAGAATTACTATTTTACCCTTGATTTACAGAATTATCA
Found at i:53169757 original size:54 final size:54
Alignment explanation
Indices: 53169699--53169838 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
53169689 ATTACTATTT
* ** *
53169699 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
53169753 TACCC-CTAGTTTGTAAAATCACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
53169807 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
53169839 CTGATTTACA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:53169861 original size:81 final size:81
Alignment explanation
Indices: 53169714--53169868 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
53169704 TCGATTTACA
* * * * *
53169714 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATCACCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATCACAAAA
53169779 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
* *
53169795 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTACAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TCACAA
53169858 AAATACCCTTG
64 AAATACCCTTG
53169869 ACTTTCTAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.03
80 6 0.09
81 57 0.88
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATCACAAAA
ATACCCTTGGTTTGTG
Found at i:53169862 original size:54 final size:52
Alignment explanation
Indices: 53169672--53169866 Score: 158
Period size: 54 Copynumber: 3.6 Consensus size: 52
53169662 ATTACTGTTT
* *** * ** *
53169672 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTA-A-AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* * *
53169726 TACCCTTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATCACCAAAA
1 TACCCTT-GATT-TAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAA
* * *
53169780 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTT-GATT-TAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
* *
53169834 TACCCCTGATTTACAAAGTTACAAAAATACCCT
1 TACCCTTGATTTA-AAA-TTACCAAAATACCCT
53169867 TGACTTTCTA
Statistics
Matches: 114, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
52 1 0.01
53 7 0.06
54 99 0.87
55 5 0.04
56 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (52 bp):
TACCCTTGATTTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
Found at i:53169910 original size:27 final size:27
Alignment explanation
Indices: 53169877--53169928 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
53169867 TGACTTTCTA
53169877 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
**
53169904 AAAATTACTGAAATACTTTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
53169929 GTTGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:53170020 original size:27 final size:27
Alignment explanation
Indices: 53169980--53170047 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
53169970 ATGCCCCTAT
*
53169980 TAGGGTAAAGTGACCGTAA-AGCCCCTG
1 TAGGGTAAAATGACCGTAATA-CCCCTG
53170007 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
*
53170034 TATGGTAAAATGAC
1 TAGGGTAAAATGAC
53170048 GAATATGCCC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTG
Found at i:53171122 original size:25 final size:25
Alignment explanation
Indices: 53171093--53171140 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53171083 TTATAATATG
* * *
53171093 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53171118 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53171141 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:53171202 original size:20 final size:20
Alignment explanation
Indices: 53171177--53171217 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
53171167 ATTTTGATAA
53171177 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
53171197 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
53171217 A
1 A
53171218 TACGAGATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:53171227 original size:20 final size:20
Alignment explanation
Indices: 53171184--53171227 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
53171174 TAAACATGAT
* *
53171184 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
*
53171204 ATGTATGATATGCATACGAG
1 ATGTATGATATGCACACGAG
53171224 ATGT
1 ATGT
53171228 TCATAAATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:53171353 original size:23 final size:24
Alignment explanation
Indices: 53171274--53171438 Score: 257
Period size: 23 Copynumber: 7.0 Consensus size: 24
53171264 AGGAAGTGAA
*
53171274 AAAATGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
53171298 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
53171322 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
53171346 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
53171369 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
53171392 AAAAGGGCTT-TGCCCCAGTTTTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
53171415 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
53171439 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 64 0.48
24 62 0.47
25 7 0.05
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:53171367 original size:47 final size:48
Alignment explanation
Indices: 53171274--53171438 Score: 257
Period size: 47 Copynumber: 3.5 Consensus size: 48
53171264 AGGAAGTGAA
*
53171274 AAAATGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
53171322 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
53171369 AAAAGGGCTT-TGCCCCAGTTATTAAAAGGGCTT-TGCCCCAGTTTTT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
53171415 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
53171439 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 3, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
46 31 0.28
47 48 0.44
48 31 0.28
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:53171607 original size:31 final size:31
Alignment explanation
Indices: 53171572--53171635 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
53171562 CGTTTACAGT
*
53171572 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
53171603 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
53171634 AA
1 AA
53171636 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:53178159 original size:38 final size:38
Alignment explanation
Indices: 53178099--53178208 Score: 157
Period size: 39 Copynumber: 2.9 Consensus size: 38
53178089 TAAAAATATG
* * * *
53178099 TATTAAAGATGTCCAAACTATGACATAATTAAAACTCT
1 TATTAATGATGTTCAAATTATGACATAATTAAAACTCA
*
53178137 TATTAATGATGTTCAGATTATGACATAATTAAAAACTCA
1 TATTAATGATGTTCAAATTATGACATAATT-AAAACTCA
*
53178176 TATTAATGATATTCAAATTATGACATAATTAAA
1 TATTAATGATGTTCAAATTATGACATAATTAAA
53178209 GATTCAAACT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
38 29 0.45
39 35 0.55
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (38 bp):
TATTAATGATGTTCAAATTATGACATAATTAAAACTCA
Found at i:53179152 original size:38 final size:38
Alignment explanation
Indices: 53179099--53179242 Score: 173
Period size: 38 Copynumber: 3.8 Consensus size: 38
53179089 GAGTTATATC
*
53179099 GTTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGGA
1 GTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGA
* * * *
53179137 ATTATTCAGGTTTTGTGCCTAGCAGGCTTAGTGTCGGT
1 GTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGA
* * * * *
53179175 GTTATTTAGGCTTTGTACCTAGTAGGCTTACTACC-GA
1 GTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGA
*
53179212 TGTTATTCAGGCTTTTTGCCTAGCAGGCTTA
1 -GTTATTCAGGCTTTGTGCCTAGCAGGCTTA
53179243 TTACCGGTGT
Statistics
Matches: 87, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
37 1 0.01
38 86 0.99
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.38
Consensus pattern (38 bp):
GTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGA
Found at i:53179232 original size:76 final size:76
Alignment explanation
Indices: 53179099--53179242 Score: 211
Period size: 76 Copynumber: 1.9 Consensus size: 76
53179089 GAGTTATATC
* * *
53179099 GTTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGGAATTATTCAGGTTTTGTGCCTAGCAGGC
1 GTTATTCAGGCTTTGTACCTAGTAGGCTTACTACCGGAATTATTCAGGTTTTGTGCCTAGCAGGC
53179164 TTAGTGTCGGT
66 TTAGTGTCGGT
* *
53179175 GTTATTTAGGCTTTGTACCTAGTAGGCTTACTACC-GATGTTATTCAGGCTTTT-TGCCTAGCAG
1 GTTATTCAGGCTTTGTACCTAGTAGGCTTACTACCGGA-ATTATTCAGG-TTTTGTGCCTAGCAG
53179238 GCTTA
64 GCTTA
53179243 TTACCGGTGT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
75 2 0.03
76 55 0.90
77 4 0.07
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.38
Consensus pattern (76 bp):
GTTATTCAGGCTTTGTACCTAGTAGGCTTACTACCGGAATTATTCAGGTTTTGTGCCTAGCAGGC
TTAGTGTCGGT
Found at i:53180354 original size:238 final size:237
Alignment explanation
Indices: 53179937--53180371 Score: 604
Period size: 238 Copynumber: 1.8 Consensus size: 237
53179927 AGCCTGAGAT
* * *
53179937 ACGGGCATGTGTCTCAGCTGTGTGTCATCTGGGATTTTCTTATATGCAAGTCAGTGAGTTACACG
1 ACGGGCATGTGTCTCAGCCGTGTGTCATCTGGGATTTCCTTATATGCAAGTCAGTAAGTTACACG
* * * * * *
53180002 TCCTAACACATGGCCTGGCATACGGGCGTGTGGGGCTATTTTAAGAGTTACGTGGCCTGATACAT
66 TCCTAACACATGGCCTGGAATACAGGCGTGTGGGGATATTTCAAGAGTTACATGGCCTGATACAG
* * * * * * *
53180067 AGGCGTGTGACATGGCCATGTGATCCTACTCAGAGAGTTACACAGGTGAGTACACGGGTTGGGAC
131 AGGCATGTGACACGCCCATATGACCCTACTAAGAGAGTTACACAGGTGAGTACACGGGCTGGGAC
53180132 ACATCCATGTGTCCCTAAATCAAAGGTTACACAACCTGGGAC
196 ACATCCATGTGTCCCTAAATCAAAGGTTACACAACCTGGGAC
* * *
53180174 ACGGGCATGTGTCTCAGCCGTGTGTCATCTTGGAGTTTCCTTGTATGCAATTCAGTAAGTTACAT
1 ACGGGCATGTGTCTCAGCCGTGTGTCATCTGGGA-TTTCCTTATATGCAAGTCAGTAAGTTACA-
* * * *
53180239 GGT-CTAGCACATGGCCTGGAATACAGGCGTGTGGGGATATTTCGAGAGTTACATGGCTTGATAC
64 CGTCCTAACACATGGCCTGGAATACAGGCGTGTGGGGATATTTCAAGAGTTACATGGCCTGATAC
* *
53180303 ACGA-GCATGTGACACGCCCGTATGGCCCTACTAAGAGAGTTACACAGGTGAGTACACGGGCTGG
129 A-GAGGCATGTGACACGCCCATATGACCCTACTAAGAGAGTTACACAGGTGAGTACACGGGCTGG
53180367 GACAC
193 GACAC
53180372 GGCTGTGTAG
Statistics
Matches: 170, Mismatches: 25, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
237 32 0.19
238 135 0.79
239 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (237 bp):
ACGGGCATGTGTCTCAGCCGTGTGTCATCTGGGATTTCCTTATATGCAAGTCAGTAAGTTACACG
TCCTAACACATGGCCTGGAATACAGGCGTGTGGGGATATTTCAAGAGTTACATGGCCTGATACAG
AGGCATGTGACACGCCCATATGACCCTACTAAGAGAGTTACACAGGTGAGTACACGGGCTGGGAC
ACATCCATGTGTCCCTAAATCAAAGGTTACACAACCTGGGAC
Found at i:53182355 original size:16 final size:18
Alignment explanation
Indices: 53182336--53182374 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
53182326 CAGCCCTTTC
53182336 TCTTTTCGTTT-TTT-TT
1 TCTTTTCGTTTCTTTGTT
53182352 TC-TTT-GTTTCTTTGTT
1 TCTTTTCGTTTCTTTGTT
53182368 TCTTTTC
1 TCTTTTC
53182375 TTGTTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.21
15 6 0.32
16 6 0.32
17 3 0.16
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (18 bp):
TCTTTTCGTTTCTTTGTT
Found at i:53182585 original size:18 final size:18
Alignment explanation
Indices: 53182559--53182605 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
53182549 TAATACCAAG
*
53182559 AAAACAAACAAAAGTAAA
1 AAAAAAAACAAAAGTAAA
*
53182577 AAAAAAAAC--AAGTTAA
1 AAAAAAAACAAAAGTAAA
*
53182593 AAAAACAACAAAA
1 AAAAAAAACAAAA
53182606 CACAAACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 14 0.58
18 10 0.42
ACGTcount: A:0.79, C:0.11, G:0.04, T:0.06
Consensus pattern (18 bp):
AAAAAAAACAAAAGTAAA
Found at i:53187678 original size:28 final size:28
Alignment explanation
Indices: 53187613--53187713 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
53187603 ATAGTGAATC
*
53187613 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
53187642 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
53187670 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
53187700 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53187714 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53191105 original size:41 final size:41
Alignment explanation
Indices: 53191058--53191156 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
53191048 AGTGTATATG
* * *
53191058 CAGCTCATCTTCAGCTGAAGTTAGCTCAGAGTACTCTACAC
1 CAGCTCATCTTCAGCTCAAGATAGCTCAAAGTACTCTACAC
53191099 CAGCTCATCTTCAGCTCAAGATAGCTCAAAGTACTCTACAC
1 CAGCTCATCTTCAGCTCAAGATAGCTCAAAGTACTCTACAC
* *
53191140 CATCTCAT-GTCAGCTCA
1 CAGCTCATCTTCAGCTCA
53191157 CTCCACTTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 8 0.15
41 45 0.85
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.26
Consensus pattern (41 bp):
CAGCTCATCTTCAGCTCAAGATAGCTCAAAGTACTCTACAC
Found at i:53194996 original size:40 final size:41
Alignment explanation
Indices: 53194899--53195081 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
53194889 TCGAATGATG
* * *
53194899 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
* *
53194939 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
53194980 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAG-TACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
53195018 TCCGGG-TAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
53195056 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53195082 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
37 24 0.19
38 16 0.13
39 9 0.07
40 54 0.44
41 21 0.17
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:53195039 original size:77 final size:81
Alignment explanation
Indices: 53194899--53195079 Score: 230
Period size: 77 Copynumber: 2.3 Consensus size: 81
53194889 TCGAATGATG
* * * *
53194899 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCATT
*
53194963 TGTGCGAGTTACTAATT
66 TGTGCGAGTTACT-ATA
* *
53194980 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGT-ACTAAATCCGG-GTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCATT
53195040 TGTGCGAGTTACTATA
66 TGTGCGAGTTACTATA
* *
53195056 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53195080 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
76 11 0.12
77 36 0.40
78 4 0.04
79 9 0.10
80 12 0.13
81 17 0.19
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:53195088 original size:77 final size:79
Alignment explanation
Indices: 53194951--53195114 Score: 217
Period size: 77 Copynumber: 2.1 Consensus size: 79
53194941 CGGACTAAGA
** **
53194951 TCCGAAGGCATTTGTGCGAGTTACTAATTTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTA-CT
1 TCCGAAGGCATTTGTGCGAGTTACTAATAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCT
*
53195015 AAATCCGGGTAAGC
66 AAATCCGGGTAAAC
* *
53195029 -CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGC
1 TCCGAAGGCATTTGTGCGAGTTACTAATAACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTAGC
* *
53195092 TATATCCGGTTAAAC
65 TAAATCCGGGTAAAC
53195107 TCCGAAGG
1 TCCGAAGG
53195115 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
76 11 0.15
77 43 0.58
78 13 0.18
79 7 0.09
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGAAGGCATTTGTGCGAGTTACTAATAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCT
AAATCCGGGTAAAC
Found at i:53203110 original size:40 final size:39
Alignment explanation
Indices: 53203053--53203236 Score: 232
Period size: 40 Copynumber: 4.7 Consensus size: 39
53203043 TCGAATGATG
* *
53203053 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
53203093 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
53203132 TTCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
53203171 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
53203211 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53203237 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
38 24 0.19
39 23 0.18
40 73 0.57
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:53203192 original size:78 final size:80
Alignment explanation
Indices: 53203053--53203234 Score: 246
Period size: 78 Copynumber: 2.3 Consensus size: 80
53203043 TCGAATGATG
* *
53203053 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
53203118 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * **
53203132 TTCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
53203194 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
53203211 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53203235 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.56
79 28 0.31
80 11 0.12
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:53210231 original size:27 final size:28
Alignment explanation
Indices: 53210201--53210270 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53210191 ATAATAAGTC
*
53210201 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
53210228 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
53210256 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53210271 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53218140 original size:27 final size:28
Alignment explanation
Indices: 53218110--53218179 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53218100 ATAATAAGTC
*
53218110 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
53218137 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
53218165 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53218180 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53220204 original size:27 final size:27
Alignment explanation
Indices: 53220166--53220276 Score: 159
Period size: 27 Copynumber: 4.1 Consensus size: 27
53220156 TTCAGCGGTG
53220166 TTTCAATAATTCTACCCTACAGGGGTA
1 TTTCAATAATTCTACCCTACAGGGGTA
* *
53220193 TTTCAGTAATTCTACCCTACAGGGCTA
1 TTTCAATAATTCTACCCTACAGGGGTA
* *
53220220 TTTCAATAATTCTACCCTATAGGGATA
1 TTTCAATAATTCTACCCTACAGGGGTA
* * *
53220247 TTTCAGTATTTCTACCCTACAAGGGTA
1 TTTCAATAATTCTACCCTACAGGGGTA
53220274 TTT
1 TTT
53220277 TGGTAATTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (27 bp):
TTTCAATAATTCTACCCTACAGGGGTA
Found at i:53220284 original size:54 final size:54
Alignment explanation
Indices: 53220166--53220276 Score: 179
Period size: 54 Copynumber: 2.1 Consensus size: 54
53220156 TTCAGCGGTG
*
53220166 TTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGCTA
1 TTTCAATAATTCTACCCTACAGGGATATTTCAGTAATTCTACCCTACAGGGCTA
* *
53220220 TTTCAATAATTCTACCCTATAGGGATATTTCAGTATTTCTACCCTACAAGGG-TA
1 TTTCAATAATTCTACCCTACAGGGATATTTCAGTAATTCTACCCTAC-AGGGCTA
53220274 TTT
1 TTT
53220277 TGGTAATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
54 49 0.92
55 4 0.08
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (54 bp):
TTTCAATAATTCTACCCTACAGGGATATTTCAGTAATTCTACCCTACAGGGCTA
Found at i:53220303 original size:54 final size:52
Alignment explanation
Indices: 53220240--53220499 Score: 238
Period size: 54 Copynumber: 4.9 Consensus size: 52
53220230 TCTACCCTAT
** ** *
53220240 AGGGATATTTCAGTATTTCTACCCTACAAGGGTATTTTGGTAATTTTATAAATCG
1 AGGG-TATTTCAGTATTT-TACAAT-CAAGGGTATTTCAGTAATTTTACAAATCG
* * * * *
53220295 AGGGTATTTCAGTAATTTACAATCGACGGTATTTCAGTAATTTTATAAACCG
1 AGGGTATTTCAGTATTTTACAATCAAGGGTATTTCAGTAATTTTACAAATCG
* * *
53220347 -GGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTGCAAATCG
1 AGGGTA-TTTCAGT-ATTTTACAA-TCAAGGGTATTTCAGTAATTTTACAAATCG
* * * *
53220400 AGGGTATTTAAGTAATTTTGCAAATTAAGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGT-ATTTTAC-AATCAAGGGTATTTCAGTAATTTTACAAATCG
* *
53220454 AGGGTATTTCAGTAATTTTACAATCGATGGTATTTC-GATAATTTTA
1 AGGGTATTTCAGT-ATTTTACAATCAAGGGTATTTCAG-TAATTTTA
53220500 TAAACCGGGG
Statistics
Matches: 173, Mismatches: 25, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
51 7 0.04
52 36 0.21
53 53 0.31
54 71 0.41
55 6 0.03
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (52 bp):
AGGGTATTTCAGTATTTTACAATCAAGGGTATTTCAGTAATTTTACAAATCG
Found at i:53220351 original size:26 final size:27
Alignment explanation
Indices: 53220268--53220529 Score: 279
Period size: 27 Copynumber: 9.9 Consensus size: 27
53220258 CTACCCTACA
** *
53220268 AGGGTATTTTGGTAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
53220295 AGGGTATTTCAGTAA-TTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
53220320 ACGGTATTTCAGTAATTTTATAAACCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
53220347 -GGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
*
53220373 AGGGTATTTCAGTAATTTTGCAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * **
53220400 AGGGTATTTAAGTAATTTTGCAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
53220427 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
53220454 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
53220480 ATGGTATTTC-GATAATTTTATAAACCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
*
53220507 -GGGTACTTT-GGTAATTTTACAAA
1 AGGGTA-TTTCAGTAATTTTACAAA
53220530 CTAGGGGTAT
Statistics
Matches: 198, Mismatches: 28, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
25 20 0.10
26 65 0.33
27 113 0.57
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:53224144 original size:17 final size:18
Alignment explanation
Indices: 53224102--53224150 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
53224092 AGTTGAAAAG
53224102 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
53224121 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
53224138 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
53224151 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:53225038 original size:40 final size:40
Alignment explanation
Indices: 53224972--53225138 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
53224962 AAATTGAATG
* * *
53224972 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
53225011 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
53225051 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
53225091 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
53225131 ATATCCGG
1 ATATCCGG
53225139 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:53232146 original size:17 final size:18
Alignment explanation
Indices: 53232104--53232152 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
53232094 AGTTGAAAAG
53232104 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
53232123 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
53232140 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
53232153 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:53233041 original size:40 final size:40
Alignment explanation
Indices: 53232975--53233141 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
53232965 AAATTGAATG
* * *
53232975 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
53233014 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
53233054 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
53233094 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
53233134 ATATCCGG
1 ATATCCGG
53233142 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:53241752 original size:42 final size:42
Alignment explanation
Indices: 53241694--53241843 Score: 142
Period size: 42 Copynumber: 3.5 Consensus size: 42
53241684 CATCAATAAT
* * *
53241694 GAACTCGGACCTCTCAACGAGCTCGGATGCCACATATATCAT
1 GAACTCGGACCACTCAACGAGCTCGGATGCCATATATATCAC
* * * * *
53241736 GAACTTGGACCACTCAACAAGTTTGGATTTCTCATATATATTTCAC
1 GAACTCGGACCACTCAACGAGCTCGGA-TGC-CATATATA--TCAC
* *
53241782 GAACTCGGA-CAGCTCAACGAGCTC-GATGTCATATATGTCAC
1 GAACTCGGACCA-CTCAACGAGCTCGGATGCCATATATATCAC
*
53241823 GAACTCGAACCACTCAACGAG
1 GAACTCGGACCACTCAACGAG
53241844 TTCTGACTTC
Statistics
Matches: 86, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
41 21 0.24
42 24 0.28
43 9 0.10
44 8 0.09
45 4 0.05
46 20 0.23
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
GAACTCGGACCACTCAACGAGCTCGGATGCCATATATATCAC
Found at i:53244294 original size:15 final size:14
Alignment explanation
Indices: 53244276--53244380 Score: 84
Period size: 15 Copynumber: 7.0 Consensus size: 14
53244266 GATAAGAAGA
*
53244276 CCAAAATAAAGAAAT
1 CCAAGATAAA-AAAT
53244291 CCAAGATAGAAAAAT
1 CCAAGATA-AAAAAT
*
53244306 CCAAGATGAATAAAT
1 CCAAGAT-AAAAAAT
53244321 CCAAGATACAAAAAT
1 CCAAGATA-AAAAAT
* * * *
53244336 ACAATATACGATAAT
1 CCAAGATA-AAAAAT
*
53244351 CCAAGATGAATAAAT
1 CCAAGAT-AAAAAAT
53244366 CCAAGATACAAAAAT
1 CCAAGATA-AAAAAT
53244381 ACAATATACG
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
14 2 0.03
15 66 0.92
16 4 0.06
ACGTcount: A:0.58, C:0.15, G:0.10, T:0.17
Consensus pattern (14 bp):
CCAAGATAAAAAAT
Found at i:53244321 original size:30 final size:30
Alignment explanation
Indices: 53244287--53244380 Score: 104
Period size: 30 Copynumber: 3.1 Consensus size: 30
53244277 CAAAATAAAG
53244287 AAATCCAAGATAGAAAAATCCAAGATGA-AT
1 AAATCCAAGATAGAAAAATCCAAGAT-ACAT
* * *
53244317 AAATCCAAGATACAAAAATACAATATACGAT
1 AAATCCAAGATAGAAAAATCCAAGATAC-AT
*
53244348 -AATCCAAGAT-GAATAAATCCAAGATACAA
1 AAATCCAAGATAGAA-AAATCCAAGATACAT
53244377 AAAT
1 AAAT
53244381 ACAATATACG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
29 4 0.08
30 47 0.89
31 2 0.04
ACGTcount: A:0.57, C:0.15, G:0.10, T:0.18
Consensus pattern (30 bp):
AAATCCAAGATAGAAAAATCCAAGATACAT
Found at i:53244367 original size:45 final size:45
Alignment explanation
Indices: 53244303--53244393 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
53244293 AAGATAGAAA
53244303 AATCCAAGATGAATAAATCCAAGATACAAAAATACAATATACGAT
1 AATCCAAGATGAATAAATCCAAGATACAAAAATACAATATACGAT
53244348 AATCCAAGATGAATAAATCCAAGATACAAAAATACAATATACGAT
1 AATCCAAGATGAATAAATCCAAGATACAAAAATACAATATACGAT
53244393 A
1 A
53244394 TCGTACCAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.56, C:0.15, G:0.09, T:0.20
Consensus pattern (45 bp):
AATCCAAGATGAATAAATCCAAGATACAAAAATACAATATACGAT
Found at i:53248211 original size:43 final size:43
Alignment explanation
Indices: 53248150--53248233 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
53248140 ATCACATGTA
*
53248150 TCGCATCCATTATGAACTCAGACCACTCAACGAGCTCGGATTC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATTC
*
53248193 TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGAT
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGAT
53248234 GCCACATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATTC
Found at i:53252630 original size:15 final size:15
Alignment explanation
Indices: 53252610--53252648 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
53252600 TATCATTTCA
53252610 ATATATAATTTAAAT
1 ATATATAATTTAAAT
*
53252625 ATATATAAATTTTAAT
1 ATATAT-AATTTAAAT
53252641 ATAT-TAAT
1 ATATATAAT
53252649 AATATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 7 0.32
16 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:53252638 original size:17 final size:17
Alignment explanation
Indices: 53252610--53252658 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
53252600 TATCATTTCA
53252610 ATATAT-AA-TTTAAAT
1 ATATATAAATTTTAAAT
53252625 ATATATAAATTTT-AAT
1 ATATATAAATTTTAAAT
53252641 ATATTAATAATATTTTAA
1 ATA-T-ATAA-ATTTTAA
53252659 TATTTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.21
16 8 0.29
17 4 0.14
18 4 0.14
19 5 0.18
20 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATAAATTTTAAAT
Found at i:53252653 original size:11 final size:11
Alignment explanation
Indices: 53252637--53252709 Score: 77
Period size: 11 Copynumber: 7.2 Consensus size: 11
53252627 ATATAAATTT
53252637 TAATATATTAA
1 TAATATATTAA
53252648 TAATAT-TT--
1 TAATATATTAA
*
53252656 TAATATTTTAA
1 TAATATATTAA
53252667 TAATAT-TTAA
1 TAATATATTAA
*
53252677 TAATATATAAA
1 TAATATATTAA
53252688 T-A-ATATTAA
1 TAATATATTAA
*
53252697 TAATATAATAA
1 TAATATATTAA
53252708 TA
1 TA
53252710 TAGAAAGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
8 6 0.11
9 9 0.17
10 14 0.26
11 24 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATATATTAA
Found at i:53252707 original size:21 final size:21
Alignment explanation
Indices: 53252637--53252703 Score: 86
Period size: 19 Copynumber: 3.3 Consensus size: 21
53252627 ATATAAATTT
*
53252637 TAATATATTAATAATATTT--
1 TAATATATAAATAATATTTAA
* *
53252656 TAATATTTTAATAATATTTAA
1 TAATATATAAATAATATTTAA
53252677 TAATATATAAATAATA-TTAA
1 TAATATATAAATAATATTTAA
53252697 TAATATA
1 TAATATA
53252704 ATAATATAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 18 0.42
20 11 0.26
21 14 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATATATAAATAATATTTAA
Found at i:53252723 original size:30 final size:29
Alignment explanation
Indices: 53252663--53252723 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 29
53252653 TTTTAATATT
* *
53252663 TTAATAATATTTAATAATATATAAATAATA
1 TTAATAATA-TTAATAATATAAAAAAAATA
53252693 TTAATAATA-TAATAATATAGAAAGAAAATA
1 TTAATAATATTAATAATATA-AAA-AAAATA
53252723 T
1 T
53252724 GTGTTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 10 0.37
29 2 0.07
30 15 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (29 bp):
TTAATAATATTAATAATATAAAAAAAATA
Found at i:53253370 original size:68 final size:67
Alignment explanation
Indices: 53253298--53253447 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
53253288 CATCATGTGT
* * * *
53253298 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
53253360 ATGTAG
62 ATGTAG
** * *
53253366 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
53253431 AG
66 AG
53253433 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
53253448 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:53253403 original size:64 final size:64
Alignment explanation
Indices: 53253322--53253493 Score: 186
Period size: 67 Copynumber: 2.7 Consensus size: 64
53253312 AGACATTATG
* *
53253322 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
53253386 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53253451 AA
63 AA
* * * *
53253453 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
53253494 GTACAAGGGA
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
63 9 0.10
64 21 0.24
65 8 0.09
66 16 0.18
67 31 0.36
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53254598 original size:2 final size:2
Alignment explanation
Indices: 53254591--53254619 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
53254581 TCATGACATG
53254591 TA TA 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 TA TA T
53254620 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53264356 original size:22 final size:22
Alignment explanation
Indices: 53264329--53264372 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
53264319 AAAAATGATC
*
53264329 AAAATTATTCAAAATTTATTAT
1 AAAATTATTCAAAATTCATTAT
*
53264351 AAAATTATTTAAAATTCATTAT
1 AAAATTATTCAAAATTCATTAT
53264373 TTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAATTATTCAAAATTCATTAT
Found at i:53264430 original size:21 final size:22
Alignment explanation
Indices: 53264393--53264433 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
53264383 TAAGTCTAAA
*
53264393 ATAATTATTTTATAATAATTAT
1 ATAATTATTTTACAATAATTAT
53264415 ATAATT-TTTTACAATAATT
1 ATAATTATTTTACAATAATT
53264434 TTATCGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTATTTTACAATAATTAT
Found at i:53265977 original size:43 final size:43
Alignment explanation
Indices: 53265713--53265959 Score: 311
Period size: 43 Copynumber: 5.8 Consensus size: 43
53265703 GTGTATGCGA
* * * * *
53265713 GTAAGACCACGTTTAATACGTTGGCATTGATATATGATTACAT
1 GTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTACGT
* *
53265756 GTAAGACCACGT-T-AGGATGTTGGGA-CTGATATATGATTACGT
1 GTAAGACCACGTCTGA-GACGTTGGCATC-GATATATGATTACGT
*
53265798 GTAAGGCCACGTCTGAGACGTTGGCATCGATATATGATTACGT
1 GTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTACGT
* * * * * *
53265841 ATAAGACCACGACTGGGAGGTTGGCATCGATATGTAATTACGT
1 GTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTACGT
*
53265884 GTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACGT
1 GTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTACGT
*
53265927 GTAAGACCACGTCTGAGACGTTGGCATTGATAT
1 GTAAGACCACGTCTGAGACGTTGGCATCGATAT
53265960 GTGTTTATAA
Statistics
Matches: 177, Mismatches: 22, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 33 0.19
43 141 0.80
44 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
GTAAGACCACGTCTGAGACGTTGGCATCGATATATGATTACGT
Found at i:53270060 original size:43 final size:43
Alignment explanation
Indices: 53270012--53270180 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 43
53270002 TAGGGTTTCT
*
53270012 GATATGTG-TTCTAGTGTAAGACCATGTCTGGGACGTTGGCATC
1 GATATGTGATTCTA-TGTAAGACCATGTCTGGGACATTGGCATC
* * * *
53270055 GATATGTGATTATATGTAAGACCATGTCTAGGACATCGACATC
1 GATATGTGATTCTATGTAAGACCATGTCTGGGACATTGGCATC
* * * * * * *
53270098 G-TATTTGATTC-GTGTAACACCCTCTCTGGAACAATGGCATC
1 GATATGTGATTCTATGTAAGACCATGTCTGGGACATTGGCATC
* ** * *
53270139 GATATGAGATAGTATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGTGATTCTATGTAAGACCATGTCTGGGACATTGGCAT
53270181 TGTACGATAT
Statistics
Matches: 95, Mismatches: 28, Indels: 6
0.74 0.22 0.05
Matches are distributed among these distances:
41 22 0.23
42 14 0.15
43 55 0.58
44 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
GATATGTGATTCTATGTAAGACCATGTCTGGGACATTGGCATC
Found at i:53277519 original size:27 final size:27
Alignment explanation
Indices: 53277484--53277595 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
53277474 AGCATGGCTG
* *
53277484 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
53277510 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
* *
53277538 CCA-AAACAGAAATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
53277565 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
53277592 CCAG
1 CCAG
53277596 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:53277584 original size:54 final size:54
Alignment explanation
Indices: 53277488--53277594 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
53277478 TGGCTGCCAG
* *
53277488 AACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAA
1 AACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAA
* * *
53277542 AACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCA
1 AACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCA
53277595 GGACGCTTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (54 bp):
AACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAA
Found at i:53278867 original size:22 final size:22
Alignment explanation
Indices: 53278840--53278882 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
53278830 ATAGAAGAAG
* *
53278840 AAAAGAATAACAAATGGAGAGA
1 AAAAGAAAAACAAAAGGAGAGA
*
53278862 AAAAGAAAAATAAAAGGAGAG
1 AAAAGAAAAACAAAAGGAGAG
53278883 GAAGAGTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.23, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAAAAGGAGAGA
Found at i:53289683 original size:37 final size:37
Alignment explanation
Indices: 53289633--53289708 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
53289623 GCCACCTGAG
53289633 TTAGAAAAGATCCATAATGTATTCCATGTTTCGATGC
1 TTAGAAAAGATCCATAATGTATTCCATGTTTCGATGC
53289670 TTAGAAAAGATCCATAATGTATTCCATGTTTCGATGC
1 TTAGAAAAGATCCATAATGTATTCCATGTTTCGATGC
53289707 TT
1 TT
53289709 CATAGATATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (37 bp):
TTAGAAAAGATCCATAATGTATTCCATGTTTCGATGC
Found at i:53292497 original size:43 final size:41
Alignment explanation
Indices: 53292438--53292542 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 41
53292428 GGGTTTCTGA
* * * *
53292438 TATGTGTTCTCGTGTAAGACCACACCTGGGACGTTAGCATCG
1 TATGTGAT-TCGTGTAAGACCACACCTGGAACATCAGCATCG
***
53292480 ATATGTGATTACGTGTAAGACCATGTCTGGAACATCAGCATCG
1 -TATGTGATT-CGTGTAAGACCACACCTGGAACATCAGCATCG
*
53292523 TATTTGATTCGTGTAAGACC
1 TATGTGATTCGTGTAAGACC
53292543 CTGTCTGAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 11 0.21
42 9 0.17
43 33 0.62
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
TATGTGATTCGTGTAAGACCACACCTGGAACATCAGCATCG
Found at i:53295719 original size:39 final size:40
Alignment explanation
Indices: 53295665--53295798 Score: 191
Period size: 40 Copynumber: 3.4 Consensus size: 40
53295655 CAACCAAGTA
* * * *
53295665 CCTTCGGAATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
53295704 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
53295744 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53295784 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
53295799 TCGGTTATCA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 13 0.15
40 72 0.85
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:53295744 original size:40 final size:40
Alignment explanation
Indices: 53295691--53295806 Score: 196
Period size: 40 Copynumber: 2.9 Consensus size: 40
53295681 GGACATAGCT
*
53295691 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
53295731 ACTCGCACAAATGCCTTTGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
53295771 ACTCGCACAAATGCCTTCGGGACTTAGCTCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
53295807 CATTCGAATA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:53301909 original size:28 final size:28
Alignment explanation
Indices: 53301869--53301948 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 28
53301859 GCCATTGAAT
** * *
53301869 ACTCAATGCCTCGCACACTAAGTGGCAT
1 ACTCAATATCTCGCACACTAAGTGCCAC
* *
53301897 ACTCGATATCTCGCACAGTAAGTGCCAC
1 ACTCAATATCTCGCACACTAAGTGCCAC
53301925 ACTCAATATCTCGCACACTAAGTG
1 ACTCAATATCTCGCACACTAAGTG
53301949 TGCCATACAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (28 bp):
ACTCAATATCTCGCACACTAAGTGCCAC
Found at i:53302007 original size:40 final size:40
Alignment explanation
Indices: 53301935--53302033 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 40
53301925 ACTCAATATC
* *
53301935 TCGCACACTAAGTGTGCCATACATAGCTGAAGCTATCTCAAA
1 TCGCACACTAA--GTGCCATACATAGCCGAAGCTAACTCAAA
* * *
53301977 TCGCACACTAAGTGCCATATATAGCCGAAGCTAAGTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTAACTCAAA
*
53302017 TGGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
53302034 CAAATAGTCG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
40 40 0.78
42 11 0.22
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTAACTCAAA
Found at i:53303406 original size:14 final size:14
Alignment explanation
Indices: 53303387--53303413 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53303377 AATGTATCAT
53303387 CTTCATTAGCTCAA
1 CTTCATTAGCTCAA
53303401 CTTCATTAGCTCA
1 CTTCATTAGCTCA
53303414 TCTCTCCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (14 bp):
CTTCATTAGCTCAA
Found at i:53307365 original size:41 final size:41
Alignment explanation
Indices: 53307320--53307422 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
53307310 GATTCGAATA
* **
53307320 TATATATGACACTTAGTGTGCGAGACCGAGATAGCTTTGGC
1 TATATATGACACTTAGTGTGCGAGAACGAGATAGCTTCAGC
* * *
53307361 TATATACGATACTTAGTGTGCGAGAATGAGATAGCTTCAGC
1 TATATATGACACTTAGTGTGCGAGAACGAGATAGCTTCAGC
* *
53307402 TATGTATGGCACTTAGTGTGC
1 TATATATGACACTTAGTGTGC
53307423 AAGATTATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (41 bp):
TATATATGACACTTAGTGTGCGAGAACGAGATAGCTTCAGC
Found at i:53307501 original size:43 final size:43
Alignment explanation
Indices: 53307433--53307534 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 43
53307423 AAGATTATAA
* *
53307433 TACGTGGAAGACCATAGCTGGGCTATTGGCATCGATATGAGAT
1 TACGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAAAT
*
53307476 TTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAAAT
1 TACGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAAAT
* *
53307519 TACATGTATGACCATA
1 TACGTGTAAGACCATA
53307535 TCGGGGACAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (43 bp):
TACGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAAAT
Found at i:53310851 original size:16 final size:16
Alignment explanation
Indices: 53310830--53310879 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
53310820 CTGTAACGCC
*
53310830 CCAAAAATCCTAAAAT
1 CCAAAAATCCTGAAAT
53310846 CCAAAAAT-CTCGAAAT
1 CCAAAAATCCT-GAAAT
*
53310862 CTAAAAATCCTGAAAT
1 CCAAAAATCCTGAAAT
53310878 CC
1 CC
53310880 CGAATTTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 2 0.07
16 25 0.86
17 2 0.07
ACGTcount: A:0.50, C:0.26, G:0.04, T:0.20
Consensus pattern (16 bp):
CCAAAAATCCTGAAAT
Found at i:53312584 original size:29 final size:29
Alignment explanation
Indices: 53312551--53312615 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
53312541 GTGACGAGAT
53312551 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53312580 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
53312609 CGGCACT
1 TGGCACT
53312616 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:53316025 original size:22 final size:24
Alignment explanation
Indices: 53315997--53316061 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 24
53315987 AAAATTGTAC
53315997 AGCACTAAGTGTGC-T-ATTCTAT
1 AGCACTAAGTGTGCGTGATTCTAT
53316019 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGC--G--TGATTCTAT
53316047 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53316062 AGCTGAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
22 14 0.38
26 1 0.03
27 1 0.03
28 21 0.57
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (24 bp):
AGCACTAAGTGTGCGTGATTCTAT
Found at i:53316052 original size:28 final size:28
Alignment explanation
Indices: 53316012--53316090 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
53316002 TAAGTGTGCT
*
53316012 ATTCTATAGCACTAAGTGTGCGAGTTTG-
1 ATTCTATAGCACTAAGTGTGCGAG-CTGA
53316040 ATTCTATAGCACTAAGTGTGCGAGCTGAA
1 ATTCTATAGCACTAAGTGTGCGAGCTG-A
* *
53316069 AATATATAGCACTAAGTGTGCG
1 ATTCTATAGCACTAAGTGTGCG
53316091 GATTCACTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.04
28 24 0.52
29 20 0.43
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (28 bp):
ATTCTATAGCACTAAGTGTGCGAGCTGA
Found at i:53316102 original size:29 final size:28
Alignment explanation
Indices: 53316016--53316094 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
53316006 TGTGCTATTC
* *
53316016 TATAGCACTAAGTGTGCGAGTTTGAT-TC
1 TATAGCACTAAGTGTGCG-GATTGATATA
* *
53316044 TATAGCACTAAGTGTGC-GAGCTGAAAATA
1 TATAGCACTAAGTGTGCGGA-TTG-ATATA
53316073 TATAGCACTAAGTGTGCGGATT
1 TATAGCACTAAGTGTGCGGATT
53316095 CACTATATGC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.02
27 2 0.05
28 18 0.43
29 19 0.45
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGGATTGATATA
Found at i:53323887 original size:30 final size:30
Alignment explanation
Indices: 53323851--53323951 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
53323841 GACAAGATTG
* * *
53323851 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
53323881 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
53323909 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
53323938 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
53323952 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:53323963 original size:29 final size:28
Alignment explanation
Indices: 53323880--53323955 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
53323870 AAAATTGTAC
* *
53323880 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
53323908 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
53323937 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
53323956 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:53326028 original size:24 final size:21
Alignment explanation
Indices: 53325978--53326027 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
53325968 TTAAGCAGAA
53325978 GCTGCTGCAACCTTCTTTCTT
1 GCTGCTGCAACCTTCTTTCTT
53325999 GCTGCTGCAACCTTCTTTCTT
1 GCTGCTGCAACCTTCTTTCTT
53326020 GCTGCTGC
1 GCTGCTGC
53326028 TACAGTACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.08, C:0.34, G:0.18, T:0.40
Consensus pattern (21 bp):
GCTGCTGCAACCTTCTTTCTT
Found at i:53326393 original size:46 final size:45
Alignment explanation
Indices: 53326315--53327545 Score: 870
Period size: 46 Copynumber: 27.1 Consensus size: 45
53326305 AAATAAGTAC
* *
53326315 TTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
*
53326361 TTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTGCAGCATT-AAACACTTCAATTTACAGCA-T
* *
53326408 TT-AACA-TCTCAA-TT--A--A--CAACACCTCAA-TTACAGCGA-
1 TTAAACACT-TCAATTTGCAGCATTAAACACTTCAATTTACAGC-AT
* * * * * * *
53326444 TAAAACA-TCTCAATGTCCAGCAACT-AACACTTCAATTTGCAGTAC
1 TTAAACACT-TCAATTTGCAGC-ATTAAACACTTCAATTTACAGCAT
*
53326489 TTAAACACTTCAATTTGCAACATTTAAGA-ACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAA-ACACTTCAATTTACAGCAT
* * * *
53326535 TTAAACATTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACT-TCAATTTACAGCAT
* * * * * * *
53326581 TTATACACCTCAA-TTACAGCGATAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACTTCAATTTGCAGC-ATTAAACACT-TCAATTTACAGCAT
* ** * * **
53326626 CTAACACACTTCAATTTTTAGTACTTAAACACTTCAATTTGCAATAT
1 TTAA-ACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* *
53326673 TTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * *
53326719 TCAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
53326765 TTAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACT-TCAATTTACAGCAT
* * * * * * *
53326811 TTATACACCTCAA-TTACAGCGATAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACTTCAATTTGCAGC-ATTAAACACT-TCAATTTACAGCAT
* * * * *
53326856 CTAAACACTTCAATTTGCAGTACTTAAACACTTTAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
*
53326902 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTA-AGGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACA-GCAT
* * * *
53326948 TCAAATACTTCAATTTACAGCACTTTAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
53326994 TTAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACT-TCAATTTACAGCAT
* * * * * *
53327040 TTATACACCTCAATTATAGC-GC-TAAAACA-TCTCAATGTCCAGCAAC
1 TTAAACACTTCAATT-T-GCAGCATTAAACACT-TCAATTTACAGC-AT
* * * *
53327086 TAAAACACTTCAATTTGCAACATTTTAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* *
53327132 TCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * *
53327178 TTAAACACTTCAATTTGTAGCACTTTAACA-TCTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACT-TCAATTTACAGCAT
* * * * * * *
53327224 TTATACACCTCAA-TTACAGCGATAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACTTCAATTTGCAGC-ATTAAACACT-TCAATTTACAGCAT
* * * *
53327269 CTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * *
53327315 TTAAGCACTTCAATTTACAGCATTTAAACAGTTCAATTTACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * *
53327361 TCAAACACTTCAATTTGCAGCACTTTAACACTTTAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * * *
53327407 TAAAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
* * * * *
53327453 TTATACACCTCAA-TTACAGCGATAAAACA-TCTCAATTT-CTAGCAA
1 TTAAACACTTCAATTTGCAGC-ATTAAACACT-TCAATTTAC-AGCAT
* * *
53327498 CTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCA-CAT
1 TTAAACACTTCAATTTGCAGCA-TTAAACACTTCAATTTACAGCAT
53327543 TTA
1 TTA
53327546 CTACTAATAT
Statistics
Matches: 941, Mismatches: 191, Indels: 107
0.76 0.15 0.09
Matches are distributed among these distances:
36 1 0.00
37 16 0.02
38 11 0.01
40 1 0.00
41 1 0.00
43 2 0.00
44 15 0.02
45 173 0.18
46 669 0.71
47 48 0.05
48 4 0.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (45 bp):
TTAAACACTTCAATTTGCAGCATTAAACACTTCAATTTACAGCAT
Found at i:53326413 original size:23 final size:22
Alignment explanation
Indices: 53326318--53327545 Score: 633
Period size: 23 Copynumber: 54.0 Consensus size: 22
53326308 TAAGTACTTA
*
53326318 AACACTTCAATTTGCAACATTT
1 AACACTTCAATTTGCAGCATTT
*
53326340 AAGCACTTCAATTTACAGCATTT
1 AA-CACTTCAATTTGCAGCATTT
*
53326363 AAACACTTCAATTTGCAGCATTCA
1 -AACACTTCAATTTGCAGCATT-T
53326387 AACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTTGCAGCA-TTT
*
53326410 AACA-TCTCAA-TT--A--A--C
1 AACACT-TCAATTTGCAGCATTT
* * **
53326425 AACACCTCAATTACAGC-G-ATAA
1 AACACTTCAATT--TGCAGCATTT
* * **
53326447 AACATC-TCAATGTCCAGCAACT
1 AACA-CTTCAATTTGCAGCATTT
* *
53326469 AACACTTCAATTTGCAGTACTTA
1 AACACTTCAATTTGCAGCA-TTT
*
53326492 AACACTTCAATTTGCAACATTT
1 AACACTTCAATTTGCAGCATTT
* *
53326514 AAGAACTTCAATTTACAGCATTT
1 AA-CACTTCAATTTGCAGCATTT
*
53326537 AAACATTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTGCAGCA-TTT
** *
53326561 AACA-TCTCAATTAACAACATTT
1 AACACT-TCAATTTGCAGCATTT
* * **
53326583 ATACACCTCAA-TTACAGCGATAA
1 A-ACACTTCAATTTGCAGC-ATTT
* * * *
53326606 AACA-TCTCAATGTCCAGCAACTA
1 AACACT-TCAATTTGCAGC-ATTT
** * *
53326629 ACACACTTCAATTTTTAGTACTTA
1 A-ACACTTCAATTTGCAGCA-TTT
**
53326653 AACACTTCAATTTGCAATATTT
1 AACACTTCAATTTGCAGCATTT
*
53326675 AAGCACTTCAATTTACAGCATTT
1 AA-CACTTCAATTTGCAGCATTT
* *
53326698 AAACACTTCAATTTACAGCATTCA
1 -AACACTTCAATTTGCAGCATT-T
*
53326722 AACACTTCAATTTGTAGCACTTT
1 AACACTTCAATTTGCAGCA-TTT
**
53326745 AACACTTCAATTTATAGCATTT
1 AACACTTCAATTTGCAGCATTT
53326767 AAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTGCAGCA-TTT
** *
53326791 AACA-TCTCAATTAACAACATTT
1 AACACT-TCAATTTGCAGCATTT
* * **
53326813 ATACACCTCAA-TTACAGCGATAA
1 A-ACACTTCAATTTGCAGC-ATTT
* * * *
53326836 AACA-TCTCAATGTCCAGCAACTA
1 AACACT-TCAATTTGCAGC-ATTT
* *
53326859 AACACTTCAATTTGCAGTACTTA
1 AACACTTCAATTTGCAGCA-TTT
* *
53326882 AACACTTTAATTTGCAACATTT
1 AACACTTCAATTTGCAGCATTT
*
53326904 AAACACTTCAATTTACAGCATTT
1 -AACACTTCAATTTGCAGCATTT
* *
53326927 AAACACTTCAATTT-AAGGCATTCA
1 -AACACTTCAATTTGCA-GCATT-T
* *
53326951 AATACTTCAATTTACAGCACTTT
1 AACACTTCAATTTGCAGCA-TTT
*
53326974 AACACTTCAATTTACAGCATTT
1 AACACTTCAATTTGCAGCATTT
53326996 AAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTGCAGCA-TTT
** *
53327020 AACA-TCTCAATTAACAACATTT
1 AACACT-TCAATTTGCAGCATTT
* **
53327042 ATACACCTCAATTATAGC-GC-TAA
1 A-ACACTTCAATT-T-GCAGCATTT
* * **
53327065 AACA-TCTCAATGTCCAGCAACTAA
1 AACACT-TCAATTTGCAGC-A-TTT
*
53327089 AACACTTCAATTTGCAACATTTT
1 AACACTTCAATTTGCAGCA-TTT
* * *
53327112 AGCACTTCAATTTACAGCATTCA
1 AACACTTCAATTTGCAGCATT-T
53327135 AACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTTGCAGCA-TTT
*
53327158 AACACTTCAATTTACAGCATTT
1 AACACTTCAATTTGCAGCATTT
*
53327180 AAACACTTCAATTTGTAGCACTTT
1 -AACACTTCAATTTGCAGCA-TTT
** *
53327204 AACA-TCTCAATTAACAACATTT
1 AACACT-TCAATTTGCAGCATTT
* * **
53327226 ATACACCTCAA-TTACAGCGATAA
1 A-ACACTTCAATTTGCAGC-ATTT
* * * *
53327249 AACA-TCTCAATGTCCAGCAACTA
1 AACACT-TCAATTTGCAGC-ATTT
* *
53327272 AACACTTCAATTTGCAGTACTTA
1 AACACTTCAATTTGCAGCA-TTT
*
53327295 AACACTTCAATTTGCAACATTT
1 AACACTTCAATTTGCAGCATTT
*
53327317 AAGCACTTCAATTTACAGCATTT
1 AA-CACTTCAATTTGCAGCATTT
* * * *
53327340 AAACAGTTCAATTTACAACATTCA
1 -AACACTTCAATTTGCAGCATT-T
53327364 AACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTTGCAGCA-TTT
* * *
53327387 AACACTTTAATTTACAGCATTAA
1 AACACTTCAATTTGCAGCATT-T
53327410 AACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTTGCAGCA-TTT
* ** *
53327433 AACATTTCAATTAACAACATTT
1 AACACTTCAATTTGCAGCATTT
* * **
53327455 ATACACCTCAA-TTACAGCGATAA
1 A-ACACTTCAATTTGCAGC-ATTT
* *
53327478 AACA-TCTCAATTT-CTAGCAACTA
1 AACACT-TCAATTTGC-AGC-ATTT
* *
53327501 AACACTTCAATTTGCAGTACTTA
1 AACACTTCAATTTGCAGCA-TTT
53327524 AACACTTCAATTTGCA-CATTT
1 AACACTTCAATTTGCAGCATTT
53327545 A
1 A
53327546 CTACTAATAT
Statistics
Matches: 939, Mismatches: 178, Indels: 179
0.72 0.14 0.14
Matches are distributed among these distances:
15 8 0.01
16 1 0.00
18 1 0.00
20 4 0.00
21 8 0.01
22 142 0.15
23 704 0.75
24 68 0.07
25 3 0.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (22 bp):
AACACTTCAATTTGCAGCATTT
Found at i:53327539 original size:229 final size:230
Alignment explanation
Indices: 53326469--53327527 Score: 1033
Period size: 229 Copynumber: 4.6 Consensus size: 230
53326459 TCCAGCAACT
* * * * * *
53326469 AACACTTCAATTTGCAGTACTT-AAACACTTCAATTTGCAACA-TTTAAGAACTTCAATTTACAG
1 AACACTTCAATTTACAGCA-TTCAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTAACAA
** * ** ** *
53326532 CATTTAAACATTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAA-TT
64 CATTTAAACACCTCAATTTACAGCACTAAAACATCTCAATTAACAACAACTAAACACCTCAATTT
* * * ** ** *
53326596 ACAGCGA-TAAAACATCTCAATGTCCAGCAACTAACACACTTCAATTTTTAGTACTTAAACACTT
129 GCAG-TACTAAAACATCTCAATGTCCAACATTTAA-ACACTTCAATTTGCAGCACTTAAACACTT
* * * *
53326660 CAATTTGCAATATTTAAGCACTTCAATTTACAGCATTTA
192 CAATTTACAACATTCAAACACTTCAATTTACAGCATTTA
* * * *
53326699 AACACTTCAATTTACAGCATTCAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTATAGCA
1 AACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAACA
* * ** ** * *
53326764 TTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAA-TTAC
66 TTTAAACACCTCAATTTACAGCACTAAAACATCTCAATTAACAACAACTAAACACCTCAATTTGC
* * ** * *
53326828 AGCGA-TAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTTAA
131 AG-TACTAAAACATCTCAATGTCCAACATTTAAACACTTCAATTTGCAGCACTTAAACACTTCAA
* *
53326892 TTTGCAACATTTAAACACTTCAATTTACAGCATTTA
195 TTTACAACATTCAAACACTTCAATTTACAGCATTTA
* * * *
53326928 AACACTTCAATTTA-AGGCATTCAAATACTTCAATTTACAGCACTTTAACACTTCAATTTACAGC
1 AACACTTCAATTTACA-GCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAAC
* * ** ** *
53326992 ATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTAT
65 ATTTAAACACCTCAATTTACAGCACTAAAACATCTCAATTAACAACAACTAAACACCTCAATT-T
* * * * * * *
53327057 AGC-G--CTAAAACATCTCAATGTCCAGCAACTAAAACACTTCAATTTGCAACATTTTAGCACTT
129 -GCAGTACTAAAACATCTCAATGTCCAAC-ATTTAAACACTTCAATTTGCAGCACTTAAACACTT
* *
53327119 CAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTT-
192 CAATTTACAACATTCAAACACTTCAATTTACAGCA-TTTA
* *
53327158 AACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAACA-TCTCAATTAACAAC
1 AACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTAACAAC
* * * *
53327222 ATTTATACACCTCAA-TTACAGCGA-TAAAACATCTCAATGT-CCAGCAACTAAACACTTCAATT
65 ATTTAAACACCTCAATTTACAGC-ACTAAAACATCTCAAT-TAACAACAACTAAACACCTCAATT
* * * * * * *
53327284 TGCAGTACTTAAACA-CTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACAGTT
128 TGCAGTACTAAAACATC-TCAATGTCCAACATTTAAACACTTCAATTTGCAGCACTTAAACACTT
*
53327348 CAATTTACAACATTCAAACACTTCAATTTGCAGCACTTT-
192 CAATTTACAACATTCAAACACTTCAATTTACAGCA-TTTA
* * *
53327387 AACACTTTAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAACA
1 AACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAACA
* * * *
53327452 TTTATACACCTCAA-TTACAGCGA-TAAAACATCTCAATT-TCTAGCAACTAAACACTTCAATTT
66 TTTAAACACCTCAATTTACAGC-ACTAAAACATCTCAATTAAC-AACAACTAAACACCTCAATTT
*
53327514 GCAGTACTTAAACA
129 GCAGTACTAAAACA
53327528 CTTCAATTTG
Statistics
Matches: 746, Mismatches: 64, Indels: 39
0.88 0.08 0.05
Matches are distributed among these distances:
227 2 0.00
228 5 0.01
229 438 0.59
230 289 0.39
231 11 0.01
232 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (230 bp):
AACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTAACAACA
TTTAAACACCTCAATTTACAGCACTAAAACATCTCAATTAACAACAACTAAACACCTCAATTTGC
AGTACTAAAACATCTCAATGTCCAACATTTAAACACTTCAATTTGCAGCACTTAAACACTTCAAT
TTACAACATTCAAACACTTCAATTTACAGCATTTA
Found at i:53330745 original size:30 final size:29
Alignment explanation
Indices: 53330651--53330752 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
53330641 TATAGTGAAT
* * *
53330651 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
53330680 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
53330708 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
53330738 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
53330753 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:53335704 original size:40 final size:40
Alignment explanation
Indices: 53335659--53335825 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53335649 CGGAATATAA
53335659 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53335699 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53335739 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53335779 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53335818 CCGGATAT
1 CCGGATAT
53335826 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53338539 original size:40 final size:41
Alignment explanation
Indices: 53338433--53338615 Score: 237
Period size: 41 Copynumber: 4.5 Consensus size: 41
53338423 TCAGTGATAT
*
53338433 TCAGGCTTCTTTGCCTAGCAGGCTTTATGCCGGTGTATTATA
1 TCAGGCTT-ATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
* **
53338475 TCAGGCTTATTGCCTAGCAAGCTTTATATCGGTGTATTATA
1 TCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
53338516 TCAGG-TTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
1 TCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
* * * * *
53338556 TCAGGCCTATTGTCTAGCAGGCTCTGTGCTGGTGTATTATA
1 TCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
53338597 -CTAGGCTT-TATGCCTAGCA
1 TC-AGGCTTAT-TGCCTAGCA
53338616 AATTTTATGT
Statistics
Matches: 124, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
40 39 0.31
41 77 0.62
42 8 0.06
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
TCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
Found at i:53345778 original size:66 final size:66
Alignment explanation
Indices: 53345598--53345759 Score: 306
Period size: 66 Copynumber: 2.5 Consensus size: 66
53345588 GCCTAGCCAT
* *
53345598 TTTATCTCATAGCTCTCTTGTCTACATGGTGTCCTTCATCTAGAACACACATGCGACCTAGCTAC
1 TTTATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCATCTAGAACACACATGCGACCTAGCTAC
53345663 A
66 A
53345664 TTTATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCATCTAGAACACACATGCGACCTAGCTAC
1 TTTATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCATCTAGAACACACATGCGACCTAGCTAC
53345729 A
66 A
53345730 TTTATCCCGTAGCTCTCTTGTCTACATGGT
1 TTTATCCCGTAGCTCTCTTGTCTACATGGT
53345760 ATACATCCCG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 94 1.00
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.35
Consensus pattern (66 bp):
TTTATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCATCTAGAACACACATGCGACCTAGCTAC
A
Found at i:53348987 original size:29 final size:29
Alignment explanation
Indices: 53348954--53349038 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
53348944 TACATGTGAT
* *
53348954 TTGGGCCTAACGGGCCATATGAATATGAA
1 TTGGGCCTGATGGGCCATATGAATATGAA
* *
53348983 TTGGGCCTGATGGGCCATATGAATGTAAA
1 TTGGGCCTGATGGGCCATATGAATATGAA
53349012 TTGGGCCTGATGGGCCATAT-AA-ATGAA
1 TTGGGCCTGATGGGCCATATGAATATGAA
53349039 ATTGAACCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 3 0.06
28 2 0.04
29 45 0.90
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATGAATATGAA
Found at i:53350994 original size:68 final size:70
Alignment explanation
Indices: 53350922--53351119 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
53350912 ACACCCTGTA
* * * *
53350922 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
53350984 ATAAAT
65 ATAAAT
*
53350990 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
53351055 ATAAAT
65 ATAAAT
*
53351061 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
53351120 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:53351033 original size:41 final size:41
Alignment explanation
Indices: 53350988--53351105 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
53350978 TGAAAGATAA
53350988 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
53351029 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
53351059 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
53351100 ATGTAG
1 ATGTAG
53351106 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:53351045 original size:71 final size:71
Alignment explanation
Indices: 53350956--53351119 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
53350946 GAGATGTATC
53350956 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53351021 AGGACA
66 AGGACA
53351027 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53351092 AGGACA
66 AGGACA
53351098 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
53351120 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:53354924 original size:9 final size:9
Alignment explanation
Indices: 53354910--53354950 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
53354900 TTTTCCTATC
53354910 TCTTTTTCT
1 TCTTTTTCT
53354919 TCTTTTTCT
1 TCTTTTTCT
*
53354928 TCTTTTTCA
1 TCTTTTTCT
53354937 TCTTTTTCT
1 TCTTTTTCT
53354946 TCTTT
1 TCTTT
53354951 CACTTTCTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (9 bp):
TCTTTTTCT
Found at i:53354975 original size:52 final size:53
Alignment explanation
Indices: 53354912--53355011 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 53
53354902 TTCCTATCTC
*
53354912 TTTTTCTTCTTTT-TCTTC-TTTTTCATCTTTTTCTTCTTTC-ACTTTCTTCACTT
1 TTTTTCTTCTTTTCTC-TCGTTTTCCATCTTTTT-TT-TTTCAACTTTCTTCACTT
*
53354965 TTTTTC-TCTTTTCTCTCGTTTTCCCTCTTTTTTTTTTCAACTTTCTT
1 TTTTTCTTCTTTTCTCTCGTTTTCCATCTTTTTTTTTTCAACTTTCTT
53355012 TTCTTTTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
51 4 0.10
52 18 0.43
53 20 0.48
ACGTcount: A:0.05, C:0.25, G:0.01, T:0.69
Consensus pattern (53 bp):
TTTTTCTTCTTTTCTCTCGTTTTCCATCTTTTTTTTTTCAACTTTCTTCACTT
Found at i:53354976 original size:10 final size:10
Alignment explanation
Indices: 53354908--53354996 Score: 58
Period size: 9 Copynumber: 8.9 Consensus size: 10
53354898 AATTTTCCTA
53354908 TCTCTTTTTC
1 TCTCTTTTTC
53354918 T-TCTTTTTC
1 TCTCTTTTTC
53354927 T-TCTTTTTC
1 TCTCTTTTTC
*
53354936 ATCTTTTTCTTC
1 -TCTCTTT-TTC
* **
53354948 TTTCACTTTC
1 TCTCTTTTTC
* *
53354958 TTCACTTTTTT
1 -TCTCTTTTTC
53354969 TCTC-TTTTC
1 TCTCTTTTTC
*
53354978 TCTCGTTTTC
1 TCTCTTTTTC
*
53354988 CCTCTTTTT
1 TCTCTTTTT
53354997 TTTTTCAACT
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
9 25 0.42
10 20 0.33
11 12 0.20
12 3 0.05
ACGTcount: A:0.03, C:0.27, G:0.01, T:0.69
Consensus pattern (10 bp):
TCTCTTTTTC
Found at i:53355018 original size:52 final size:51
Alignment explanation
Indices: 53354908--53355022 Score: 137
Period size: 51 Copynumber: 2.2 Consensus size: 51
53354898 AATTTTCCTA
*
53354908 TCTCTTTTTCTTCTTTTTCTTCTTTTTCATCTTTTTCTTCTTTCACTTTCT
1 TCTCTTTTTCTTCTTTTTCTTCTTTTCCATCTTTTTCTTCTTTCACTTTCT
* *
53354959 TCACTTTTT-TTCTCTTTTCTCTCGTTTTCCCTCTTTTT-TT-TTTCAACTTTCT
1 TCTCTTTTTCTTCT-TTTTCT-TC-TTTTCCATCTTTTTCTTCTTTC-ACTTTCT
*
53355011 TTTCTTTTTCTT
1 TCTCTTTTTCTT
53355023 TCATTTGGTC
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
50 4 0.07
51 18 0.33
52 18 0.33
53 14 0.26
ACGTcount: A:0.04, C:0.25, G:0.01, T:0.70
Consensus pattern (51 bp):
TCTCTTTTTCTTCTTTTTCTTCTTTTCCATCTTTTTCTTCTTTCACTTTCT
Found at i:53358773 original size:39 final size:38
Alignment explanation
Indices: 53358706--53358801 Score: 92
Period size: 38 Copynumber: 2.5 Consensus size: 38
53358696 AAAATGTCCA
*
53358706 AAACTAAGACACATTAAAATGCCTATTTAATATGTAAC
1 AAACTAAGACACATTAAAATGCCTATTTAAAATGTAAC
* *
53358744 AAACTAAGACATATTTAAAA--CCTGCATTTAAAATGT-TC
1 AAACTAAGACACA-TTAAAATGCCT--ATTTAAAATGTAAC
*
53358782 -AGCTTAAGACACATTAAAAT
1 AAAC-TAAGACACATTAAAAT
53358802 AACTATTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
37 11 0.23
38 21 0.44
39 16 0.33
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (38 bp):
AAACTAAGACACATTAAAATGCCTATTTAAAATGTAAC
Found at i:53361809 original size:22 final size:23
Alignment explanation
Indices: 53361779--53361821 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
53361769 TGAATCATTT
53361779 TTCTCACTTTTTCCTCTTTTTTA
1 TTCTCACTTTTTCCTCTTTTTTA
**
53361802 TTCT-ACTTTTTTTTCTTTTT
1 TTCTCACTTTTTCCTCTTTTT
53361822 CTTTTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (23 bp):
TTCTCACTTTTTCCTCTTTTTTA
Found at i:53361822 original size:6 final size:6
Alignment explanation
Indices: 53361811--53361856 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
53361801 ATTCTACTTT
* *
53361811 TTTTTC TTTTTC TTTTTC ATTCTT- TTTTTC TTGTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTT
53361857 GATTTTTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 4 0.12
6 26 0.76
7 4 0.12
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:53362233 original size:22 final size:22
Alignment explanation
Indices: 53362205--53362250 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
53362195 ACTTGTGACG
53362205 TTGGTGCAACTTCCTCCGTCAA
1 TTGGTGCAACTTCCTCCGTCAA
53362227 TTGGTGCAACTTCCTCCGTCAA
1 TTGGTGCAACTTCCTCCGTCAA
53362249 TT
1 TT
53362251 ATCATTCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.35
Consensus pattern (22 bp):
TTGGTGCAACTTCCTCCGTCAA
Found at i:53366477 original size:13 final size:12
Alignment explanation
Indices: 53366459--53366501 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
53366449 TTGGTGTCGA
53366459 TTTTTTCTTCCT
1 TTTTTTCTTCCT
*
53366471 CTTTTTTCCTCCAT
1 -TTTTTTCTTCC-T
53366485 TTTCTTTCTTCCT
1 TTT-TTTCTTCCT
53366498 TTTT
1 TTTT
53366502 GCTTTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 1 0.04
13 17 0.65
14 8 0.31
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTTCTTCCT
Found at i:53367921 original size:65 final size:65
Alignment explanation
Indices: 53367817--53367939 Score: 201
Period size: 65 Copynumber: 1.9 Consensus size: 65
53367807 CCCCTAAGGT
* * *
53367817 TAAGGTTAACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTAACCTGAATGCATATTTGACAGTTACTATTTACTGCATGCCATATTATTATTATCTGA
* *
53367882 TAAGGTTGACCTGAATGCATATTTGACAGTTACTATTTACTGTATGCCATATTATTAT
1 TAAGGTTAACCTGAATGCATATTTGACAGTTACTATTTACTGCATGCCATATTATTAT
53367940 CTAATGCATA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (65 bp):
TAAGGTTAACCTGAATGCATATTTGACAGTTACTATTTACTGCATGCCATATTATTATTATCTGA
Found at i:53370105 original size:39 final size:37
Alignment explanation
Indices: 53370037--53370131 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
53370027 AAAATGTCCA
*
53370037 AAACTAAGACACATTAAAACGCCTCTTTAATATGTAAT
1 AAACTAAGACACATTAAAAC-CCTCTTTAAAATGTAAT
*
53370075 AAACTAAGACATATTTAAAA-CCTGCATTTAAAATGT--T
1 AAACTAAGACACA-TTAAAACCCT-C-TTTAAAATGTAAT
*
53370112 CAACTTAAGACACATTAAAA
1 AAAC-TAAGACACATTAAAA
53370132 TAACTATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
37 13 0.27
38 21 0.43
39 15 0.31
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.28
Consensus pattern (37 bp):
AAACTAAGACACATTAAAACCCTCTTTAAAATGTAAT
Found at i:53373221 original size:39 final size:39
Alignment explanation
Indices: 53373165--53373240 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
53373155 TGCAGAACAC
53373165 ATATTAATGATGCTCAAACTATGACATAATTAAAGACTT
1 ATATTAATGATGCTCAAACTATGACATAATTAAAGACTT
*
53373204 ATATTAATGATGTTCAAACTATGACATAATTAAAGAC
1 ATATTAATGATGCTCAAACTATGACATAATTAAAGAC
53373241 ACAAGCTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (39 bp):
ATATTAATGATGCTCAAACTATGACATAATTAAAGACTT
Found at i:53374929 original size:53 final size:55
Alignment explanation
Indices: 53374865--53375017 Score: 175
Period size: 53 Copynumber: 2.8 Consensus size: 55
53374855 TTCCTTTTTA
53374865 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG-
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATTGT
* * * * * *
53374918 AACTCACCATTGCCATGCCTTGGCAAGGTCTTACATGGGATCTTTGCCTTATTGT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATTGT
** ** * * *
53374973 AGTTTGTCAATGCCATGTCCTGACATGGTCTTACTTGGTATCCTT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
53375018 AAACCCTAAT
Statistics
Matches: 79, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.57
54 2 0.03
55 32 0.41
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (55 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATTGT
Found at i:53379566 original size:25 final size:24
Alignment explanation
Indices: 53379538--53379588 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
53379528 TCTGTAAACC
*
53379538 AGTTGAAAGAA-AAAGAAGAGAACAA
1 AGTTGAAA-AAGAAAGAAAAGAA-AA
53379563 AGTTGAAAAAGAAAGAAAAGAAAA
1 AGTTGAAAAAGAAAGAAAAGAAAA
53379587 AG
1 AG
53379589 AAAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.08
Consensus pattern (24 bp):
AGTTGAAAAAGAAAGAAAAGAAAA
Found at i:53379595 original size:24 final size:23
Alignment explanation
Indices: 53379568--53379687 Score: 81
Period size: 24 Copynumber: 5.1 Consensus size: 23
53379558 AACAAAGTTG
53379568 AAAAAGAAAGAAAAGAAAAAGAA
1 AAAAAGAAAGAAAAGAAAAAGAA
*
53379591 AAAAAGAAATGAGAAA-AGAAAGAA
1 AAAAAGAAA-GA-AAAGAAAAAGAA
*
53379615 AAAATAGCAAA-AGAAAG-AAAAGAG
1 AAAA-AG-AAAGA-AAAGAAAAAGAA
* *
53379639 AAAACG--AGAAAAGAAAAACAA
1 AAAAAGAAAGAAAAGAAAAAGAA
53379660 GAAAAAGAAAATGAAAA-AGAAAAGAA
1 -AAAAAG-AAA-GAAAAGA-AAAAGAA
53379686 AA
1 AA
53379688 GTTTGATTGC
Statistics
Matches: 76, Mismatches: 8, Indels: 24
0.70 0.07 0.22
Matches are distributed among these distances:
20 5 0.07
21 6 0.08
22 5 0.07
23 10 0.13
24 27 0.36
25 9 0.12
26 14 0.18
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.03
Consensus pattern (23 bp):
AAAAAGAAAGAAAAGAAAAAGAA
Found at i:53379615 original size:35 final size:34
Alignment explanation
Indices: 53379543--53379688 Score: 120
Period size: 35 Copynumber: 4.1 Consensus size: 34
53379533 AAACCAGTTG
* * *
53379543 AAAGAAAAAGAAGAGAACAAAGTTGAAAAAGAAAGA
1 AAAGAAAAAGAAAAAAAGAAA--TGAAAAAGAAAGA
53379579 AAAGAAAAAGAAAAAAAGAAATGAGAAAAGAAAG-
1 AAAGAAAAAGAAAAAAAGAAATGA-AAAAGAAAGA
* *
53379613 AAA-AAATAGCAAAAGAAAGAAAAGAGAAAACG--AGA
1 AAAGAAAAAG-AAAA-AAAGAAATGA-AAAA-GAAAGA
*
53379648 AAAGAAAAACAAGAAAAAGAAAATGAAAAAGAAAAGA
1 AAAGAAAAAGAA-AAAAAG-AAATGAAAAAG-AAAGA
53379685 AAAG
1 AAAG
53379689 TTTGATTGCA
Statistics
Matches: 91, Mismatches: 8, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
33 5 0.05
34 13 0.14
35 36 0.40
36 30 0.33
37 7 0.08
ACGTcount: A:0.74, C:0.03, G:0.20, T:0.03
Consensus pattern (34 bp):
AAAGAAAAAGAAAAAAAGAAATGAAAAAGAAAGA
Found at i:53379706 original size:5 final size:5
Alignment explanation
Indices: 53379569--53379688 Score: 76
Period size: 5 Copynumber: 24.0 Consensus size: 5
53379559 ACAAAGTTGA
53379569 AAAAG -AAAG AAAAG AAAA- AGAAA- AAAAG AAATGAG AAAAG -AAAG
1 AAAAG AAAAG AAAAG AAAAG A-AAAG AAAAG AAA--AG AAAAG AAAAG
* ** *
53379613 AAAA- AATAG CAAAAG -AAAG AAAAG AGAAA- ACGAG AAAAG AAAA- ACAAG
1 AAAAG AAAAG -AAAAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG
53379661 AAAAAG AAAATG AAAAAG AAAAG AAAAG
1 -AAAAG AAAA-G -AAAAG AAAAG AAAAG
53379689 TTTGATTGCA
Statistics
Matches: 92, Mismatches: 8, Indels: 30
0.71 0.06 0.23
Matches are distributed among these distances:
4 23 0.25
5 47 0.51
6 13 0.14
7 9 0.10
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:53382150 original size:15 final size:15
Alignment explanation
Indices: 53382130--53382177 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
53382120 TCAAAGATAG
53382130 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
53382145 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
53382159 GTTTATGGATATAAA
1 GTTTATGGATATGAA
53382174 GTTT
1 GTTT
53382178 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:53382193 original size:29 final size:29
Alignment explanation
Indices: 53382124--53382183 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
53382114 AAGGATTCAA
* *
53382124 AGATAGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
53382153 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
53382182 AG
1 AG
53382184 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:53383203 original size:14 final size:14
Alignment explanation
Indices: 53383161--53383205 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
53383151 TTAAAGAAGC
53383161 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
53383175 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
53383188 AACTCATTTAATTA
1 AACTCATTAAATTA
53383202 AACT
1 AACT
53383206 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:53385449 original size:30 final size:28
Alignment explanation
Indices: 53385396--53385451 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
53385386 TTCTTCCACG
* *
53385396 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
53385424 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
53385452 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:53386506 original size:18 final size:18
Alignment explanation
Indices: 53386479--53386513 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
53386469 TATGTTCAAA
53386479 TTTTCAAATTTTGTTTTTT
1 TTTTCAAATTTT-TTTTTT
53386498 TTTTC-AATTTTTTTTT
1 TTTTCAAATTTTTTTTT
53386514 GAAACTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTCAAATTTTTTTTTT
Found at i:53386798 original size:29 final size:29
Alignment explanation
Indices: 53386729--53386788 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
53386719 AAGGATTCAA
* *
53386729 AGATAGGTTTATGGATATGAAGTTTATGT
1 AGATCGGTTTATGGATATAAAGTTTATGT
*
53386758 AGATCGGTTTATGGATATAAAGTTTTTGT
1 AGATCGGTTTATGGATATAAAGTTTATGT
53386787 AG
1 AG
53386789 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.42
Consensus pattern (29 bp):
AGATCGGTTTATGGATATAAAGTTTATGT
Found at i:53387807 original size:14 final size:14
Alignment explanation
Indices: 53387765--53387809 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
53387755 TTAAAGAAGC
53387765 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
53387779 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
53387792 AACTCATTTAATTA
1 AACTCATTAAATTA
53387806 AACT
1 AACT
53387810 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:53389488 original size:15 final size:15
Alignment explanation
Indices: 53389468--53389515 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
53389458 TCAAAGGTGG
53389468 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
53389483 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
53389498 -TTTATGGATATAAA
1 GTTTATGGATATGAA
53389512 GTTT
1 GTTT
53389516 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:53394181 original size:43 final size:42
Alignment explanation
Indices: 53394094--53394194 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
53394084 TTTACGTGTG
* ** *
53394094 AGACCATGTCTGGGACATCGGCATCATATTTGATTTTGTGTA
1 AGACCCTGTCTGGGACATCGGCATCATATTTGATTTCATATA
53394136 AGACCCTGTCTGGGACA-CTGGCATCGATATTTG-TTTACATATA
1 AGACCCTGTCTGGGACATC-GGCATC-ATATTTGATTT-CATATA
53394179 AGACCAC-GTCTGGGAC
1 AGACC-CTGTCTGGGAC
53394195 GTTGGCATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
41 1 0.02
42 25 0.49
43 24 0.47
44 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (42 bp):
AGACCCTGTCTGGGACATCGGCATCATATTTGATTTCATATA
Found at i:53394201 original size:43 final size:42
Alignment explanation
Indices: 53394094--53394202 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 42
53394084 TTTACGTGTG
* * ** *
53394094 AGACCATGTCTGGGACATCGGCATCATATTTGATTTTGTGTA
1 AGACCACGTCTGGGACATTGGCATCATATTTGATTTCATATA
*
53394136 AGACC-CTGTCTGGGACACTGGCATCGATATTTG-TTTACATATA
1 AGACCAC-GTCTGGGACATTGGCATC-ATATTTGATTT-CATATA
*
53394179 AGACCACGTCTGGGACGTTGGCAT
1 AGACCACGTCTGGGACATTGGCAT
53394203 TATACGAGCT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
42 24 0.44
43 30 0.55
44 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
AGACCACGTCTGGGACATTGGCATCATATTTGATTTCATATA
Found at i:53398062 original size:31 final size:31
Alignment explanation
Indices: 53398024--53398085 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
53398014 CTGATCTAAG
53398024 TCTGTATTTTGCCTTTCTTGATCTAAATGTA
1 TCTGTATTTTGCCTTTCTTGATCTAAATGTA
53398055 TCTGTATTTTGCCTTTCTTGATCTAAATGTA
1 TCTGTATTTTGCCTTTCTTGATCTAAATGTA
53398086 ATCAAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (31 bp):
TCTGTATTTTGCCTTTCTTGATCTAAATGTA
Found at i:53406129 original size:29 final size:28
Alignment explanation
Indices: 53406046--53406121 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
53406036 CACTAATGAC
* *
53406046 AGCACTAAGTGTGCGTGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
53406074 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
53406103 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
53406122 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:53413720 original size:29 final size:29
Alignment explanation
Indices: 53413687--53413751 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
53413677 GTGACGAGAT
53413687 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
53413716 TGGCACTAAGTGTGCATGTTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
53413745 CGGCACT
1 TGGCACT
53413752 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:53418176 original size:40 final size:40
Alignment explanation
Indices: 53418117--53418247 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
53418107 CGGGACTTTA
* * *
53418117 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
53418157 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
53418197 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
53418237 CCCGGATATAA
1 CCCGGATATAA
53418248 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:53418280 original size:39 final size:40
Alignment explanation
Indices: 53418134--53418284 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
53418124 ATCACGATTT
* * * *
53418134 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
53418174 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
53418214 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
53418253 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
53418285 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:53425378 original size:40 final size:40
Alignment explanation
Indices: 53425305--53425487 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
53425295 CCGCACCAAG
* * * * *
53425305 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
53425344 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
53425384 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
53425424 GCCTTCGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-T
* *
53425464 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
53425488 CATTCAATTT
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 13 0.11
40 99 0.84
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:53429333 original size:29 final size:29
Alignment explanation
Indices: 53429294--53429368 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
53429284 GGTTGAGAGA
* *
53429294 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
53429323 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
53429352 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
53429369 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:53434595 original size:40 final size:40
Alignment explanation
Indices: 53434447--53434637 Score: 212
Period size: 40 Copynumber: 4.8 Consensus size: 40
53434437 TTTGAATGGT
* * * *
53434447 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAA
53434488 ATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
*
53434526 A-CCGGGTTAA-TCCCGAAGGCATTTGTGCGAGTTCCCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
* * **
53434564 ATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGATATTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-A
* * * *
53434605 A-CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
53434638 CGCTATATCC
Statistics
Matches: 129, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
37 3 0.02
38 41 0.32
39 24 0.19
40 55 0.43
41 6 0.05
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:53441071 original size:29 final size:29
Alignment explanation
Indices: 53441032--53441106 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
53441022 GGTTGAGAGA
* *
53441032 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
53441061 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
53441090 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
53441107 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:53452868 original size:16 final size:16
Alignment explanation
Indices: 53452847--53452889 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
53452837 ATGTATCGGT
53452847 AAAAGTCGAAATACCA
1 AAAAGTCGAAATACCA
* * *
53452863 AAAAGTCTAAATGCCG
1 AAAAGTCGAAATACCA
*
53452879 AAAAGCCGAAA
1 AAAAGTCGAAA
53452890 GTTCGGCTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (16 bp):
AAAAGTCGAAATACCA
Done.