Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 15 of 93
Found at i:6950618 original size:9 final size:8
Alignment explanation
Indices: 6950577--6950629 Score: 52
Period size: 9 Copynumber: 6.1 Consensus size: 8
6950567 CCCTTAGTAC
6950577 TTATTATT
1 TTATTATT
6950585 ATTATTATT
1 -TTATTATT
6950594 ATTATTATAT
1 -TTATTAT-T
6950604 TTATTATT
1 TTATTATT
*
6950612 TTCATTACT
1 TT-ATTATT
*
6950621 TCATTATT
1 TTATTATT
6950629 T
1 T
6950630 CTTTTTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
8 9 0.23
9 29 0.74
10 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (8 bp):
TTATTATT
Found at i:6952293 original size:120 final size:119
Alignment explanation
Indices: 6952043--6952351 Score: 426
Period size: 120 Copynumber: 2.6 Consensus size: 119
6952033 CCTTTTAAAT
* * * *
6952043 AGGTTTGATTTAAAAATTGAAATTTCTAGAATTGATCTAGGTTTGACCTATATCAAAACAGATTT
1 AGGTTCGATTTAAAAATTGAAATTCCTAGAATTGATCTAGGTTCGACCTATATCAAAACAGATTC
6952108 GATTTAAAAATTTAAAATTCTTAGACTTGACCTAGGCTCGACCTATATCAAAAC
66 GATTTAAAAATTTAAAATTCTTAGACTTGACCTAGGCTCGACCTATATCAAAAC
* * * *
6952162 AAGTTCGATTTAAAAATTGAAATTCCTAGATTTGA-CTTGGGTTCGACCTATATCAAAACAGGTT
1 AGGTTCGATTTAAAAATTGAAATTCCTAGAATTGATC-TAGGTTCGACCTATATCAAAACAGATT
* *
6952226 CGATTTAAAAACTTTGAAATTCTTAGACTTGACCTAGGTTCGACCTATATCAAAAC
65 CGATTTAAAAA-TTTAAAATTCTTAGACTTGACCTAGGCTCGACCTATATCAAAAC
* * * *
6952282 AGGTTCGATTTAAAAATTGAAATTCCTA-AACTTGACCTAGGCTT-GACCTTTGTCAAAACAGTT
1 AGGTTCGATTTAAAAATTGAAATTCCTAGAA-TTGATCTAGG-TTCGACCTATATCAAAACAGAT
*
6952345 TCAATTT
64 TCGATTT
6952352 TAAATTCTCT
Statistics
Matches: 168, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
118 1 0.01
119 66 0.39
120 98 0.58
121 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.35
Consensus pattern (119 bp):
AGGTTCGATTTAAAAATTGAAATTCCTAGAATTGATCTAGGTTCGACCTATATCAAAACAGATTC
GATTTAAAAATTTAAAATTCTTAGACTTGACCTAGGCTCGACCTATATCAAAAC
Found at i:6952342 original size:59 final size:59
Alignment explanation
Indices: 6952043--6952351 Score: 379
Period size: 59 Copynumber: 5.2 Consensus size: 59
6952033 CCTTTTAAAT
* * * * *
6952043 AGGTTTGATTTAAAAATTGAAATTTCTAGAATTGATCTAGGTTTGACCTATATCAAAAC
1 AGGTTCGATTTAAAAATTGAAATTCCTAGACTTGACCTAGGCTTGACCTATATCAAAAC
* * * * *
6952102 AGATTTGATTTAAAAATTTAAAATTCTTAGACTTGACCTAGGCTCGACCTATATCAAAAC
1 AGGTTCGATTTAAAAA-TTGAAATTCCTAGACTTGACCTAGGCTTGACCTATATCAAAAC
* * * *
6952162 AAGTTCGATTTAAAAATTGAAATTCCTAGATTTGA-CTTGGGTTCGACCTATATCAAAAC
1 AGGTTCGATTTAAAAATTGAAATTCCTAGACTTGACCTAGGCTT-GACCTATATCAAAAC
*
6952221 AGGTTCGATTTAAAAACTTTGAAATTCTTAGACTTGACCTAGG-TTCGACCTATATCAAAAC
1 AGGTTCGATTTAAAAA--TTGAAATTCCTAGACTTGACCTAGGCTT-GACCTATATCAAAAC
* * *
6952282 AGGTTCGATTTAAAAATTGAAATTCCTAAACTTGACCTAGGCTTGACCTTTGTCAAAAC
1 AGGTTCGATTTAAAAATTGAAATTCCTAGACTTGACCTAGGCTTGACCTATATCAAAAC
* *
6952341 AGTTTCAATTT
1 AGGTTCGATTT
6952352 TAAATTCTCT
Statistics
Matches: 217, Mismatches: 27, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
58 5 0.02
59 106 0.49
60 51 0.24
61 51 0.24
62 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.35
Consensus pattern (59 bp):
AGGTTCGATTTAAAAATTGAAATTCCTAGACTTGACCTAGGCTTGACCTATATCAAAAC
Found at i:6953175 original size:77 final size:73
Alignment explanation
Indices: 6953005--6953665 Score: 527
Period size: 77 Copynumber: 8.9 Consensus size: 73
6952995 TCTAACAAGT
* * * *
6953005 GTGGCGTGTCACCCTATAATACTGCAACGACTTAACGTGTCACGACAAGATGTCAACAACATC--
1 GTGGCGTGTCACCCTATAATACTGCAATGACTCAGCGTGTCACGACAAGATGTCAACGACATCTG
6953068 -TTGGAAGC
66 ATTGG-AGC
* * * *
6953076 GTGGCGTGTAACCTTATAATACTGCAATGACTCAGCATGTCACGACAAGATGTCAACGACATAAG
1 GTGGCGTGTCACCCTATAATACTGCAATGACTCAGCGTGTCACGACAAGATGTCAACGACAT--C
*
6953141 TGAAATTAGAGC
64 TG--ATTGGAGC
* * *
6953153 GTGACGTGTCATCCTATAATACTGCAACAACATGACT-A-CGTGTCACGACAAGATGTCAATGAC
1 GTGGCGTGTCACCCTATAATACTG---C-A-ATGACTCAGCGTGTCACGACAAGATGTCAACGAC
*
6953216 ATCTGACAATTGAAGC
61 ATCTG---ATTGGAGC
* ** *
6953232 GTGGCGTGTCACCCTATAATACTGCAACG-CGTCATGTATGTCATGACAAGATGTCAACGACAT-
1 GTGGCGTGTCACCCTATAATACTGCAATGAC-TCA-GCGTGTCACGACAAGATGTCAACGACATC
* **
6953295 T-TTTGGAAA
64 TGATTGGAGC
* * *
6953304 GTGGCGTGTCACCCTATAATATTGCAATGACTCAAACGTGTCACAACAAGATGTCAACGACATCT
1 GTGGCGTGTCACCCTATAATACTGCAATGACTC-AGCGTGTCACGACAAGATGTCAACGACATCT
6953369 --TTGGAGC
65 GATTGGAGC
* ** * * *
6953376 ATGGCGTGTCACCCTATAATACTATAACGACTCAGCGTGTCACGACAAAATGTCAACGACATAGG
1 GTGGCGTGTCACCCTATAATACTGCAATGACTCAGCGTGTCACGACAAGATGTCAACGACAT--C
* * **
6953441 TAAAATTAGAAT
64 T--GATTGGAGC
* * * * *
6953453 GTGGTGTTTCACCCTATAATACAGCAATGACTCATGTGTGTCACGACAAGATGTCAATGACATCT
1 GTGGCGTGTCACCCTATAATACTGCAATGACTCA-GCGTGTCACGACAAGATGTCAACGACATCT
6953518 --TTGGAGC
65 GATTGGAGC
** * ** * * * * * **
6953525 GTGATGTGCCACCCTATAATACTATAGTGACTCAACGTGTTATGACAAGATGTCAATGACGTAAG
1 GTGGCGTGTCACCCTATAATACTGCAATGACTCAGCGTGTCACGACAAGATGTCAACGAC--ATC
6953590 TGAAATTGGAGC
64 TG--ATTGGAGC
** * *
6953602 GTAACATGTCACCCTATAATACTGCAATGACTCAGCGTGTCACAACAAGATGTCAACGACATCT
1 GTGGCGTGTCACCCTATAATACTGCAATGACTCAGCGTGTCACGACAAGATGTCAACGACATCT
6953666 AAAAATTGGA
Statistics
Matches: 465, Mismatches: 92, Indels: 62
0.75 0.15 0.10
Matches are distributed among these distances:
71 103 0.22
72 120 0.26
73 7 0.02
74 3 0.01
75 4 0.01
76 3 0.01
77 132 0.28
78 30 0.06
79 29 0.06
80 26 0.06
81 2 0.00
82 6 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (73 bp):
GTGGCGTGTCACCCTATAATACTGCAATGACTCAGCGTGTCACGACAAGATGTCAACGACATCTG
ATTGGAGC
Found at i:6953217 original size:80 final size:79
Alignment explanation
Indices: 6953009--6953437 Score: 248
Period size: 72 Copynumber: 5.8 Consensus size: 79
6952999 ACAAGTGTGG
* * *
6953009 CGTGTCACCCTATAATACTGCAACGAC-TTA--ACGTGTCACGACAAGATGTCAACAACATCT--
1 CGTGTCACCCTATAATACTGCAACAACATGACTACGTGTCACGACAAGATGTCAACGACATCTGA
* *
6953069 ---TGGAAGCGTGG
66 CAATTGAAGCGTGA
* * *
6953080 CGTGTAACCTTATAATACTG---C-A-ATGACTCAGCATGTCACGACAAGATGTCAACGACATAA
1 CGTGTCACCCTATAATACTGCAACAACATGACT-A-CGTGTCACGACAAGATGTCAACGACAT--
*
6953140 GTGA-AATT-AGAGCGTGA
62 CTGACAATTGA-AGCGTGA
* *
6953157 CGTGTCATCCTATAATACTGCAACAACATGACTACGTGTCACGACAAGATGTCAATGACATCTGA
1 CGTGTCACCCTATAATACTGCAACAACATGACTACGTGTCACGACAAGATGTCAACGACATCTGA
*
6953222 CAATTGAAGCGTGG
66 CAATTGAAGCGTGA
** *
6953236 CGTGTCACCCTATAATACTGCAACGCGTCATG--TA--TGTCATGACAAGATGTCAACGACAT-T
1 CGTGTCACCCTATAATACTGCAA--CAACATGACTACGTGTCACGACAAGATGTCAACGACATCT
* * *
6953296 ----TTTGGAA-AGTGG
64 GACAATT-GAAGCGTGA
* ** * * *
6953308 CGTGTCACCCTATAATATTGCAATGAC-TCA-AACGTGTCACAACAAGATGTCAACGACATCT--
1 CGTGTCACCCTATAATACTGCAACAACATGACTACGTGTCACGACAAGATGTCAACGACATCTGA
* * *
6953369 ---TTGGAGCATGG
66 CAATTGAAGCGTGA
* *
6953380 CGTGTCACCCTATAATACT---ATAAC--GACTCAGCGTGTCACGACAAAATGTCAACGACAT
1 CGTGTCACCCTATAATACTGCAACAACATGACT-A-CGTGTCACGACAAGATGTCAACGACAT
6953438 AGGTAAAATT
Statistics
Matches: 290, Mismatches: 38, Indels: 60
0.75 0.10 0.15
Matches are distributed among these distances:
67 3 0.01
68 2 0.01
69 5 0.02
70 5 0.02
71 70 0.24
72 74 0.26
73 5 0.02
76 2 0.01
77 47 0.16
78 3 0.01
79 34 0.12
80 27 0.09
81 7 0.02
82 6 0.02
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (79 bp):
CGTGTCACCCTATAATACTGCAACAACATGACTACGTGTCACGACAAGATGTCAACGACATCTGA
CAATTGAAGCGTGA
Found at i:6953383 original size:149 final size:146
Alignment explanation
Indices: 6953005--6953665 Score: 525
Period size: 149 Copynumber: 4.4 Consensus size: 146
6952995 TCTAACAAGT
* *
6953005 GTGGCGTGTCACCCTATAATACTGCAACGACT-TAACGTGTCACGACAAGATGTCAACAACATCT
1 GTGGCGTGTCACCCTATAATACTGCAACGACTCAAACGTGTCACGACAAGATGTCAACGACATCT
* * *
6953069 TGGA-AGCGTGGCGTGTAACCTTATAATACTGCAATGACTCAGCATGTCACGACAAGATGTCAAC
66 TGGACAGCGTGGCGTGTCACCCTATAATACTGCAACGACTCAGCATGTCACGACAAGATGTCAAC
**
6953133 GACATAAGTGAAATTAGAGC
131 GACAT-A-T--AATTAGAAA
* * * * * *
6953153 GTGACGTGTCATCCTATAATACTGCAACAACATGACTACGTGTCACGACAAGATGTCAATGACAT
1 GTGGCGTGTCACCCTATAATACTGCAACGAC-TCA-AACGTGTCACGACAAGATGTCAACGACAT
* * *
6953218 CTGACAATTGA-AGCGTGGCGTGTCACCCTATAATACTGCAACG-CGTCATGTATGTCATGACAA
64 CT-----TGGACAGCGTGGCGTGTCACCCTATAATACTGCAACGAC-TCA-GCATGTCACGACAA
* *
6953281 GATGTCAACGACAT-T-TTTGGAAA
122 GATGTCAACGACATATAATTAGAAA
* * *
6953304 GTGGCGTGTCACCCTATAATATTGCAATGACTCAAACGTGTCACAACAAGATGTCAACGACATCT
1 GTGGCGTGTCACCCTATAATACTGCAACGACTCAAACGTGTCACGACAAGATGTCAACGACATC-
* ** * *
6953369 TTGG--AGCATGGCGTGTCACCCTATAATACTATAACGACTCAGCGTGTCACGACAAAATGTCAA
65 TTGGACAGCGTGGCGTGTCACCCTATAATACTGCAACGACTCAGCATGTCACGACAAGATGTCAA
*
6953432 CGACATAGGTAAAATTAGAAT
130 CGACATA--T--AATTAGAAA
* * * * *** *
6953453 GTGGTGTTTCACCCTATAATACAGCAATGACTCATGTGTGTCACGACAAGATGTCAATGACATCT
1 GTGGCGTGTCACCCTATAATACTGCAACGACTCAAACGTGTCACGACAAGATGTCAACGACATC-
** * ** ** * * * *
6953518 TTGG--AGCGTGATGTGCCACCCTATAATACTATAGTGACTCAACGTGTTATGACAAGATGTCAA
65 TTGGACAGCGTGGCGTGTCACCCTATAATACTGCAACGACTCAGCATGTCACGACAAGATGTCAA
* * * **
6953581 TGACGTAAGTGAAATTGGAGC
130 CGACAT-A-T--AATTAGAAA
** * * * *
6953602 GTAACATGTCACCCTATAATACTGCAATGACTC-AGCGTGTCACAACAAGATGTCAACGACATCT
1 GTGGCGTGTCACCCTATAATACTGCAACGACTCAAACGTGTCACGACAAGATGTCAACGACATCT
6953666 AAAAATTGGA
Statistics
Matches: 422, Mismatches: 72, Indels: 39
0.79 0.14 0.07
Matches are distributed among these distances:
143 24 0.06
144 32 0.08
145 3 0.01
146 1 0.00
147 1 0.00
148 54 0.13
149 182 0.43
150 4 0.01
151 58 0.14
154 1 0.00
155 1 0.00
156 35 0.08
157 26 0.06
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (146 bp):
GTGGCGTGTCACCCTATAATACTGCAACGACTCAAACGTGTCACGACAAGATGTCAACGACATCT
TGGACAGCGTGGCGTGTCACCCTATAATACTGCAACGACTCAGCATGTCACGACAAGATGTCAAC
GACATATAATTAGAAA
Found at i:6955260 original size:49 final size:50
Alignment explanation
Indices: 6955168--6955387 Score: 327
Period size: 49 Copynumber: 4.4 Consensus size: 50
6955158 ACGAACTTGG
6955168 ACTTAGTCTTGATCACGAACGTACTTGATCTTCGCGTCAAGGGTCTTCACA
1 ACTTAGTCTTGATCACGAACG-ACTTGATCTTCGCGTCAAGGGTCTTCACA
* * *
6955219 ACTTAGTCTTGATCACGAAC-ACTTGATTTTCGCTTCAAGGGTCTTCACG
1 ACTTAGTCTTGATCACGAACGACTTGATCTTCGCGTCAAGGGTCTTCACA
* *
6955268 ACTTAGTCTTGATCACGAACGTACTTGATCTTCACGTCAAGGGTCTTGACA
1 ACTTAGTCTTGATCACGAACG-ACTTGATCTTCGCGTCAAGGGTCTTCACA
* * * *
6955319 ACTTAATCTTGATCACAAAC-ACTTTATCTTCGCGTCAAGGGTCTTCACG
1 ACTTAGTCTTGATCACGAACGACTTGATCTTCGCGTCAAGGGTCTTCACA
6955368 ACTTAGTCTTGATCACGAAC
1 ACTTAGTCTTGATCACGAAC
6955388 TTCGTTGCTG
Statistics
Matches: 151, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
49 89 0.59
51 62 0.41
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (50 bp):
ACTTAGTCTTGATCACGAACGACTTGATCTTCGCGTCAAGGGTCTTCACA
Found at i:6955340 original size:100 final size:100
Alignment explanation
Indices: 6955167--6955387 Score: 379
Period size: 100 Copynumber: 2.2 Consensus size: 100
6955157 CACGAACTTG
* *
6955167 GACTTAGTCTTGATCACGAACGTACTTGATCTTCGCGTCAAGGGTCTTCACAACTTAGTCTTGAT
1 GACTTAGTCTTGATCACGAACGTACTTGATCTTCACGTCAAGGGTCTTCACAACTTAATCTTGAT
* * *
6955232 CACGAACACTTGATTTTCGCTTCAAGGGTCTTCAC
66 CACAAACACTTGATCTTCGCGTCAAGGGTCTTCAC
*
6955267 GACTTAGTCTTGATCACGAACGTACTTGATCTTCACGTCAAGGGTCTTGACAACTTAATCTTGAT
1 GACTTAGTCTTGATCACGAACGTACTTGATCTTCACGTCAAGGGTCTTCACAACTTAATCTTGAT
*
6955332 CACAAACACTTTATCTTCGCGTCAAGGGTCTTCAC
66 CACAAACACTTGATCTTCGCGTCAAGGGTCTTCAC
6955367 GACTTAGTCTTGATCACGAAC
1 GACTTAGTCTTGATCACGAAC
6955388 TTCGTTGCTG
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 114 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (100 bp):
GACTTAGTCTTGATCACGAACGTACTTGATCTTCACGTCAAGGGTCTTCACAACTTAATCTTGAT
CACAAACACTTGATCTTCGCGTCAAGGGTCTTCAC
Found at i:6955425 original size:23 final size:23
Alignment explanation
Indices: 6955375--6955427 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
6955365 ACGACTTAGT
6955375 CTTGATCACGAACTTCGTTGCTG
1 CTTGATCACGAACTTCGTTGCTG
*
6955398 TTTGATCACGAACTTCGTTG-TCG
1 CTTGATCACGAACTTCGTTGCT-G
6955421 CTTGATC
1 CTTGATC
6955428 TTCACTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (23 bp):
CTTGATCACGAACTTCGTTGCTG
Found at i:6955503 original size:17 final size:17
Alignment explanation
Indices: 6955464--6955496 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6955454 TTGATCTCTG
*
6955464 AAATGCTCTCAATCTTC
1 AAATGCTCCCAATCTTC
6955481 AAATGCTCCCAATCTT
1 AAATGCTCCCAATCTT
6955497 TGAATGCCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.33
Consensus pattern (17 bp):
AAATGCTCCCAATCTTC
Found at i:6955909 original size:82 final size:81
Alignment explanation
Indices: 6955771--6955996 Score: 353
Period size: 82 Copynumber: 2.8 Consensus size: 81
6955761 AATATAATTA
* * * * * *
6955771 TTAGAGATAAATTAAATGACCAATGATTAAATTTTGATTGGTCAAAAACATGAATATTATCTCTA
1 TTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTGGTCAAAAAAATAAATATTATCTCTA
6955836 AATTATCTTGATTTAT
66 AATTATCTTGATTTAT
* *
6955852 TTAGAGATAAATTGGATGACCAATAACTAATTTTTTGATTGGTCAAAAATATAAATATTATCTCT
1 TTAGAGATAAATTGAATGACCAATAACTAA-TTTTTGATTGGTCAAAAAAATAAATATTATCTCT
*
6955917 AAATTATTTTGATTTAT
65 AAATTATCTTGATTTAT
6955934 TTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTGGTCCAAAAAAATAAATATTATCT
1 TTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTGGT-CAAAAAAATAAATATTATCT
6955997 ACCAATAGGT
Statistics
Matches: 133, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
81 38 0.29
82 95 0.71
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (81 bp):
TTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTGGTCAAAAAAATAAATATTATCTCTA
AATTATCTTGATTTAT
Found at i:6956340 original size:28 final size:28
Alignment explanation
Indices: 6956315--6956414 Score: 105
Period size: 28 Copynumber: 3.4 Consensus size: 28
6956305 TTGGAAGATA
6956315 TATATTGCAATAAAACTATTTGAAGAAG
1 TATATTGCAATAAAACTATTTGAAGAAG
*
6956343 TATATTGCAATAAGGTTA-TAATTTTGAA-AGAG
1 TATATTGCAATAA---AACT-A-TTTGAAGA-AG
*
6956375 TTATATTGCAATAAAACTATTTAAAGAAG
1 -TATATTGCAATAAAACTATTTGAAGAAG
6956404 TATATTGCAAT
1 TATATTGCAAT
6956415 TAGGATTACA
Statistics
Matches: 60, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
28 24 0.40
29 7 0.12
30 4 0.07
31 4 0.07
32 8 0.13
33 13 0.22
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (28 bp):
TATATTGCAATAAAACTATTTGAAGAAG
Found at i:6956392 original size:61 final size:61
Alignment explanation
Indices: 6956297--6956414 Score: 193
Period size: 61 Copynumber: 1.9 Consensus size: 61
6956287 GATAAGAGAA
* *
6956297 TTATAATCTTGGAAGATATATATTGCAATAAAACTATTTGAAGAAGTATATTGCAATAAGG
1 TTATAATCTTGAAAGATATATATTGCAATAAAACTATTTAAAGAAGTATATTGCAATAAGG
*
6956358 TTATAATTTTGAAAGAGT-TATATTGCAATAAAACTATTTAAAGAAGTATATTGCAAT
1 TTATAATCTTGAAAGA-TATATATTGCAATAAAACTATTTAAAGAAGTATATTGCAAT
6956415 TAGGATTACA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
61 52 0.98
62 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.36
Consensus pattern (61 bp):
TTATAATCTTGAAAGATATATATTGCAATAAAACTATTTAAAGAAGTATATTGCAATAAGG
Found at i:6957610 original size:34 final size:34
Alignment explanation
Indices: 6957571--6957638 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
6957561 ATCATAACAG
*
6957571 AAACCACAATTAACCCCAATGGCATGGGTCATAA
1 AAACCACAATTAACCCCAATGGCATGAGTCATAA
*
6957605 AAACCATAATTAACCCCAATGGCATGAGTCATAA
1 AAACCACAATTAACCCCAATGGCATGAGTCATAA
6957639 GTATGTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.25, G:0.13, T:0.19
Consensus pattern (34 bp):
AAACCACAATTAACCCCAATGGCATGAGTCATAA
Found at i:6960235 original size:21 final size:21
Alignment explanation
Indices: 6960211--6960256 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
6960201 TAGAGATCCA
6960211 TATTGCCACAAACTTTTTTTT
1 TATTGCCACAAACTTTTTTTT
** *
6960232 TATTGCTTCAACCTTTTTTTT
1 TATTGCCACAAACTTTTTTTT
6960253 TATT
1 TATT
6960257 TGTAAATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTGCCACAAACTTTTTTTT
Found at i:6960456 original size:36 final size:35
Alignment explanation
Indices: 6960394--6960799 Score: 289
Period size: 36 Copynumber: 10.8 Consensus size: 35
6960384 GCAATTTGTT
*
6960394 ATCCTCGGAGGGTGCTCTTTATAATAGCACTTATTG
1 ATCCTTGG-GGGTGCTCTTTATAATAGCACTTATTG
* *
6960430 ATCTTTGGGGGTTGCTCTTTAAAATAGCACACAATTTATT-
1 ATCCTTGGGGG-TGCTCTTTATAATAG--CAC---TTATTG
*
6960470 ATCCTTGGAGGGTGCTCTTTATCATAGCACTTATTG
1 ATCCTTGG-GGGTGCTCTTTATAATAGCACTTATTG
**
6960506 ATCCTTGGGAGGTGCTCTTTATTCTAGCACACAATTTATT-
1 ATCCTTGGG-GGTGCTCTTTATAATAG--CAC---TTATTG
* ** * *
6960546 ATCCTCGAATGGTACTCTTTATCATAGCACTTATTG
1 ATCCTTG-GGGGTGCTCTTTATAATAGCACTTATTG
* **
6960582 ATCCTTGGGAGGTGCTTTTTATTCTAGCACACAATTTATT-
1 ATCCTTGGG-GGTGCTCTTTATAATAG--CAC---TTATTG
* * *
6960622 ATCCTTGGAGGGTGCTTTTTATCATAGCACTTGTTG
1 ATCCTTGG-GGGTGCTCTTTATAATAGCACTTATTG
*
6960658 ATCCTTGGGAGGTGCTCTTTATACTAGCACACAATTAATT-
1 ATCCTTGGG-GGTGCTCTTTATAATAG--CAC--TT-ATTG
*
6960698 ATCCTTGGAGGGTGCTCTTTATAATAGCACTTGTTG
1 ATCCTTGG-GGGTGCTCTTTATAATAGCACTTATTG
* *
6960734 ATCCTTGGGAAGTGCTCTTTATAATAGCACTTGTTG
1 ATCCTTGGG-GGTGCTCTTTATAATAGCACTTATTG
* * *
6960770 ATCCTGGGGAGGTGCCCTTTAAAATAGCAC
1 ATCCTTGGG-GGTGCTCTTTATAATAGCAC
6960800 ACAATTTATT
Statistics
Matches: 302, Mismatches: 35, Indels: 66
0.75 0.09 0.16
Matches are distributed among these distances:
35 22 0.07
36 145 0.48
38 24 0.08
40 89 0.29
41 22 0.07
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (35 bp):
ATCCTTGGGGGTGCTCTTTATAATAGCACTTATTG
Found at i:6960459 original size:76 final size:76
Alignment explanation
Indices: 6960365--6960763 Score: 575
Period size: 76 Copynumber: 5.2 Consensus size: 76
6960355 GGGAGAAGTA
* * * * *
6960365 GTGCTCTTTACAATAGCACGCAATTTGTTATCCTCGGAGGGTGCTCTTTATAATAGCACTTATTG
1 GTGCTCTTTATAATAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATCATAGCACTTATTG
*
6960430 ATCTTTGGG-G
66 ATCCTTGGGAG
*
6960440 GTTGCTCTTTAAAATAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATCATAGCACTTATT
1 G-TGCTCTTTATAATAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATCATAGCACTTATT
6960505 GATCCTTGGGAG
65 GATCCTTGGGAG
** * * * *
6960517 GTGCTCTTTATTCTAGCACACAATTTATTATCCTCGAATGGTACTCTTTATCATAGCACTTATTG
1 GTGCTCTTTATAATAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATCATAGCACTTATTG
6960582 ATCCTTGGGAG
66 ATCCTTGGGAG
* ** * *
6960593 GTGCTTTTTATTCTAGCACACAATTTATTATCCTTGGAGGGTGCTTTTTATCATAGCACTTGTTG
1 GTGCTCTTTATAATAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATCATAGCACTTATTG
6960658 ATCCTTGGGAG
66 ATCCTTGGGAG
* * * *
6960669 GTGCTCTTTATACTAGCACACAATTAATTATCCTTGGAGGGTGCTCTTTATAATAGCACTTGTTG
1 GTGCTCTTTATAATAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATCATAGCACTTATTG
*
6960734 ATCCTTGGGAA
66 ATCCTTGGGAG
6960745 GTGCTCTTTATAATAGCAC
1 GTGCTCTTTATAATAGCAC
6960764 TTGTTGATCC
Statistics
Matches: 295, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
75 1 0.00
76 292 0.99
77 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.39
Consensus pattern (76 bp):
GTGCTCTTTATAATAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATCATAGCACTTATTG
ATCCTTGGGAG
Found at i:6961168 original size:2 final size:2
Alignment explanation
Indices: 6961161--6961188 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6961151 AACGTAGTTC
6961161 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6961189 TGCCTTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6968676 original size:49 final size:50
Alignment explanation
Indices: 6968593--6968806 Score: 315
Period size: 49 Copynumber: 4.3 Consensus size: 50
6968583 TTGGACGTAT
* * *
6968593 TCTTGGTCACGAACGTACTTGATCTTCGCGTCAAGTGTCTTCATGACTTAG
1 TCTTGATCACGAACG-ACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAG
* * *
6968644 TCTTGATCACGAAC-ACTTGATTTTCGCTTCAAGGGTCTTCGCGACTTAG
1 TCTTGATCACGAACGACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAG
* *
6968693 TCTTGATCACGAACGTACTTGATCTTCGCGTCAAGGGTCTTGACGACTTAA
1 TCTTGATCACGAACG-ACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAG
*
6968744 TCTTGATCACGAAC-ACTTTATCTTCGCGTCAAGGGTCTTCACGACTTAG
1 TCTTGATCACGAACGACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAG
6968793 TCTTGATCACGAAC
1 TCTTGATCACGAAC
6968807 TTCGCTTGAT
Statistics
Matches: 147, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
49 90 0.61
51 57 0.39
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (50 bp):
TCTTGATCACGAACGACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAG
Found at i:6968770 original size:100 final size:100
Alignment explanation
Indices: 6968593--6968806 Score: 347
Period size: 100 Copynumber: 2.1 Consensus size: 100
6968583 TTGGACGTAT
* * * *
6968593 TCTTGGTCACGAACGTACTTGATCTTCGCGTCAAGTGTCTTCATGACTTAGTCTTGATCACGAAC
1 TCTTGATCACGAACGTACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAATCTTGATCACGAAC
* * *
6968658 ACTTGATTTTCGCTTCAAGGGTCTTCGCGACTTAG
66 ACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAG
*
6968693 TCTTGATCACGAACGTACTTGATCTTCGCGTCAAGGGTCTTGACGACTTAATCTTGATCACGAAC
1 TCTTGATCACGAACGTACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAATCTTGATCACGAAC
*
6968758 ACTTTATCTTCGCGTCAAGGGTCTTCACGACTTAG
66 ACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAG
6968793 TCTTGATCACGAAC
1 TCTTGATCACGAAC
6968807 TTCGCTTGAT
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 105 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (100 bp):
TCTTGATCACGAACGTACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAATCTTGATCACGAAC
ACTTGATCTTCGCGTCAAGGGTCTTCACGACTTAG
Found at i:6968821 original size:25 final size:23
Alignment explanation
Indices: 6968793--6968861 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 23
6968783 CACGACTTAG
6968793 TCTTGATCACGAACTTCGCTTGAT
1 TCTTGATCACGAACTTCG-TTGAT
** *
6968817 ATCTTGATCATAAACTTCGTTGCT
1 -TCTTGATCACGAACTTCGTTGAT
*
6968841 GCTTGATCACGAACTTCGTTG
1 TCTTGATCACGAACTTCGTTG
6968862 CCGCTTGATC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 18 0.47
24 4 0.11
25 16 0.42
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (23 bp):
TCTTGATCACGAACTTCGTTGAT
Found at i:6968849 original size:23 final size:23
Alignment explanation
Indices: 6968819--6968871 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
6968809 CGCTTGATAT
* *
6968819 CTTGATCATAAACTTCGTTGCTG
1 CTTGATCACAAACTTCGTTGCCG
*
6968842 CTTGATCACGAACTTCGTTGCCG
1 CTTGATCACAAACTTCGTTGCCG
6968865 CTTGATC
1 CTTGATC
6968872 TTCACTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (23 bp):
CTTGATCACAAACTTCGTTGCCG
Found at i:6968930 original size:17 final size:17
Alignment explanation
Indices: 6968908--6968947 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6968898 TTGATCTCTG
6968908 AAATGCT-CTCAATCTTC
1 AAATGCTCCT-AATCTTC
6968925 AAATGCTCCTAATCTTC
1 AAATGCTCCTAATCTTC
*
6968942 GAATGC
1 AAATGC
6968948 CTCCGAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (17 bp):
AAATGCTCCTAATCTTC
Found at i:6969349 original size:82 final size:81
Alignment explanation
Indices: 6969215--6969440 Score: 353
Period size: 82 Copynumber: 2.8 Consensus size: 81
6969205 AATATAATTA
* * * * *
6969215 TTAGAGATAAATTAAATGACCAATGATTAAATTTTGATTGGTCAAAAATATAAGTATTATCTCTA
1 TTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTGGTCAAAAATATAAATATTATCTCTA
6969280 AATTATCTTGATTTAT
66 AATTATCTTGATTTAT
*
6969296 TTAGAGATAAATTGGATGACCAATAACTAATTTTTTGATTGGTCAAAAATATAAATATTATCTCT
1 TTAGAGATAAATTGAATGACCAATAACTAA-TTTTTGATTGGTCAAAAATATAAATATTATCTCT
*
6969361 AAATTATTTTGATTTAT
65 AAATTATCTTGATTTAT
* *
6969378 TTAGAGATAAGTTGAATGACCAATAACTAATTTTTGATTGGTCCAAAAAAATAAATATTATCT
1 TTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTGGT-CAAAAATATAAATATTATCT
6969441 ACCAATAGGT
Statistics
Matches: 133, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
81 38 0.29
82 95 0.71
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (81 bp):
TTAGAGATAAATTGAATGACCAATAACTAATTTTTGATTGGTCAAAAATATAAATATTATCTCTA
AATTATCTTGATTTAT
Found at i:6970902 original size:28 final size:28
Alignment explanation
Indices: 6970849--6970903 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
6970839 AAATATTTTA
* * **
6970849 TCTTGTCTAAATTGAGACAAGTATGTTT
1 TCTTATCTAAATTAAGACAAAAATGTTT
6970877 TCTTATCTAAATTAAGACAAAAATGTT
1 TCTTATCTAAATTAAGACAAAAATGTT
6970904 AAAACTACGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (28 bp):
TCTTATCTAAATTAAGACAAAAATGTTT
Found at i:6973774 original size:24 final size:23
Alignment explanation
Indices: 6973738--6973822 Score: 80
Period size: 24 Copynumber: 3.6 Consensus size: 23
6973728 AAAATTTTTC
*
6973738 TTACATGCCATGTTCAAAAGAATG
1 TTACACGCCATGTTCAAAA-AATG
* * * *
6973762 TTACACGCTATGTTGATAATATG
1 TTACACGCCATGTTCAAAAAATG
*
6973785 TTACACGCCATTTTCAATAAAAATG
1 TTACACGCCATGTTC-A-AAAAATG
*
6973810 TTACACGTCATGT
1 TTACACGCCATGT
6973823 ACTAAAACAT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
23 15 0.32
24 16 0.34
25 16 0.34
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (23 bp):
TTACACGCCATGTTCAAAAAATG
Found at i:6981071 original size:2 final size:2
Alignment explanation
Indices: 6981064--6981090 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6981054 TTCATATGTG
6981064 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 T
6981091 TAAAAATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6985826 original size:2 final size:2
Alignment explanation
Indices: 6985819--6985848 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6985809 TTGATTTACA
6985819 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6985849 TGGGGAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6992903 original size:5 final size:5
Alignment explanation
Indices: 6992893--6992934 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
6992883 ATATATATGA
*
6992893 TTATT TTATT TTATT TTATT TT-TT AAATATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT --TTATT TTATT TTATT T
6992935 ATAATCTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 2 0.06
5 27 0.84
6 1 0.03
7 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:6993168 original size:159 final size:158
Alignment explanation
Indices: 6993001--6993353 Score: 455
Period size: 159 Copynumber: 2.2 Consensus size: 158
6992991 ATTATGATTA
* *
6993001 TTTA-TTTTTAAAAATTAATAATGTCTAATTTATTTAAAATATTAAAAATTGATCATTTAAATAT
1 TTTATTTTTTAAATATTAATAATGTATAATTTATTTAAAATATTAAAAATTGATCATTTAAATAT
** *
6993065 TAATATTTTATTTATATTTTAATCAATAATATTAAAAATAATAAT-ATTTAAACTATAATTTAAA
66 TAATATTTTATTTATAAATTAATCAATAATATTAAAAACAATAATAATTT-AACTATAATTTAAA
*
6993129 TTCTATTATAATTATTTATTTTTAAT-TTAT
130 TT-TATTATAATTATTTATTTTT-ATCTAAT
* * * * *
6993159 TTTATTTTTTAAATATTAATAATTTATATTTTATTTATAATATTAATAATTTATCATTTAAATAT
1 TTTATTTTTTAAATATTAATAATGTATAATTTATTTAAAATATTAAAAATTGATCATTTAAATAT
* * * * * **
6993224 TAATATTTTATTTATAAATTAATTATTAATTTTTAAAACATTAATAATTTATTTATAATTTAAAT
66 TAATATTTTATTTATAAATTAATCAATAATATTAAAAACAATAATAATTTAACTATAATTTAAAT
*
6993289 TTATTATGATTATTTATTTTTATCTAAT
131 TTATTATAATTATTTATTTTTATCTAAT
* *
6993317 TTTATCTTTTAAATATTAATAATTTAT-ATTT-TTTAAA
1 TTTATTTTTTAAATATTAATAATGTATAATTTATTTAAA
6993354 CAGCTAGTTC
Statistics
Matches: 170, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
156 5 0.03
157 5 0.03
158 52 0.31
159 104 0.61
160 4 0.02
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.55
Consensus pattern (158 bp):
TTTATTTTTTAAATATTAATAATGTATAATTTATTTAAAATATTAAAAATTGATCATTTAAATAT
TAATATTTTATTTATAAATTAATCAATAATATTAAAAACAATAATAATTTAACTATAATTTAAAT
TTATTATAATTATTTATTTTTATCTAAT
Found at i:6993182 original size:27 final size:27
Alignment explanation
Indices: 6993151--6993217 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 27
6993141 TATTTATTTT
* *
6993151 TAATTTATTTTATTTTTTA-AATATTAA
1 TAATTTATATT-TTATTTATAATATTAA
6993178 TAATTTATATTTTATTTATAATATTAA
1 TAATTTATATTTTATTTATAATATTAA
6993205 TAATTTATCATTT
1 TAATTTAT-ATTT
6993218 AAATATTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 6 0.17
27 26 0.72
28 4 0.11
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (27 bp):
TAATTTATATTTTATTTATAATATTAA
Found at i:6993218 original size:27 final size:25
Alignment explanation
Indices: 6993157--6993238 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 25
6993147 TTTTTAATTT
6993157 ATTT-TATTT-TTTAAATATTAATA
1 ATTTATATTTATTTAAATATTAATA
6993180 ATTTATATTTTATTTATAATATTAATA
1 ATTTATA-TTTATTTA-AATATTAATA
*
6993207 A-TT-TA-TCATTTAAATATTAAT-
1 ATTTATATTTATTTAAATATTAATA
6993228 ATTT-TATTTAT
1 ATTTATATTTAT
6993239 AAATTAATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
21 1 0.02
22 13 0.25
23 13 0.25
24 2 0.04
25 5 0.10
26 6 0.12
27 11 0.22
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTATATTTATTTAAATATTAATA
Found at i:6993267 original size:41 final size:41
Alignment explanation
Indices: 6993184--6993286 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
6993174 TTAATAATTT
* *
6993184 ATATTTTATTTATAATATTAATAATTTATCATTTAAATATTA
1 ATATTTTATTTATAA-ATTAATAATTAATCATTTAAACATTA
* *
6993226 ATATTTTATTTATAAATTAATTATTAAT-TTTTAAAACATTA
1 ATATTTTATTTATAAATTAATAATTAATCATTT-AAACATTA
* *
6993267 ATAATTTATTTATAATTTAA
1 ATATTTTATTTATAAATTAA
6993287 ATTTATTATG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
40 3 0.06
41 36 0.67
42 15 0.28
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (41 bp):
ATATTTTATTTATAAATTAATAATTAATCATTTAAACATTA
Found at i:6997817 original size:22 final size:22
Alignment explanation
Indices: 6997789--6997830 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
6997779 ATTAAGTTGT
6997789 GCCTAATTAATTAAATTATTCG
1 GCCTAATTAATTAAATTATTCG
6997811 GCCTAATTAATTAAATTATT
1 GCCTAATTAATTAAATTATT
6997831 TAATTAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (22 bp):
GCCTAATTAATTAAATTATTCG
Found at i:6997836 original size:35 final size:35
Alignment explanation
Indices: 6997795--6998005 Score: 208
Period size: 35 Copynumber: 6.0 Consensus size: 35
6997785 TTGTGCCTAA
* * *
6997795 TTAATTAAATTATTCGGCCTAATTAATTAAATTAT
1 TTAATTAAGTCATTGGGCCTAATTAATTAAATTAT
* *
6997830 TTAATTAAGTCATTGGGTCTAATTAATTAAATTAA
1 TTAATTAAGTCATTGGGCCTAATTAATTAAATTAT
** * *
6997865 ACAATTAAGTCATTGGGCCTAATTGATTAAATTTGT
1 TTAATTAAGTCATTGGGCCTAATTAATTAAA-TTAT
* * *
6997901 TTAATTAAGTCATTAGGCCTAATTGATTAAAATTGT
1 TTAATTAAGTCATTGGGCCTAATTAATT-AAATTAT
* ** * *
6997937 TTAATTAAATTGTTGGGCTTAATTAAGTAAATTAT
1 TTAATTAAGTCATTGGGCCTAATTAATTAAATTAT
* * *
6997972 TTAATTAAGTTATTAGG-CTCAATTGATTAAATTA
1 TTAATTAAGTCATTGGGCCT-AATTAATTAAATTA
6998006 AACAATTAAG
Statistics
Matches: 145, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
34 1 0.01
35 89 0.61
36 52 0.36
37 3 0.02
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.43
Consensus pattern (35 bp):
TTAATTAAGTCATTGGGCCTAATTAATTAAATTAT
Found at i:6997930 original size:71 final size:69
Alignment explanation
Indices: 6997810--6998016 Score: 243
Period size: 71 Copynumber: 2.9 Consensus size: 69
6997800 TAAATTATTC
* *
6997810 GGCCTAATTAATTAAATTATTTAATTAAGTCATTGGGTCTAATTAATTAAATTAAACAATTAAGT
1 GGCCTAATTAATTAAATTATTTAATTAAGTCATTAGG-CTAATTGATTAAATTAAACAATTAAGT
6997875 CATTG
65 CATTG
* * ****
6997880 GGCCTAATTGATTAAATTTGTTTAATTAAGTCATTAGGCCTAATTGATTAAAATTGTTTAATTAA
1 GGCCTAATTAATTAAA-TTATTTAATTAAGTCATTAGG-CTAATTGATT-AAATTAAACAATTAA
* **
6997945 ATTGTTG
63 GTCATTG
* * *
6997952 GGCTTAATTAAGTAAATTATTTAATTAAGTTATTAGGCTCAATTGATTAAATTAAACAATTAAGT
1 GGCCTAATTAATTAAATTATTTAATTAAGTCATTAGGCT-AATTGATTAAATTAAACAATTAAGT
6998017 TAACTGGACT
Statistics
Matches: 112, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
70 29 0.26
71 55 0.49
72 28 0.25
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (69 bp):
GGCCTAATTAATTAAATTATTTAATTAAGTCATTAGGCTAATTGATTAAATTAAACAATTAAGTC
ATTG
Found at i:7011463 original size:134 final size:133
Alignment explanation
Indices: 7011220--7011479 Score: 344
Period size: 134 Copynumber: 1.9 Consensus size: 133
7011210 TTAAATATCA
* *
7011220 ACCTATAAGTAAAAAGAAACCCTATGAAGTTCTCACATTTGGCCATATTTTTTGCCTATTTGATC
1 ACCTATAAGCAAAAAGAAACCCTATGAAGCTCTCACATTTGGCCATATTTTTTGCCTATTTGATC
* * * * *
7011285 GTCACGTCTTAGGTGTTTCTAGCTAACACGATGCGGTGGCAACAACTAACAAAGTTTCCATCCTC
66 GCCACATCTTAGGTGTTTCTAACTAACACGATGCGGTGGAAACAACTAACAAAGCTTCCATCCTC
7011350 GGT
131 GGT
* * ** * *
7011353 ACCTATAAGCAAAAAGAAGCCTTAATGAAGCTCTCGGATTTGGCCATGTTTTTTGCCTCTTTGAG
1 ACCTATAAGCAAAAAGAAACCCT-ATGAAGCTCTCACATTTGGCCATATTTTTTGCCTATTTGA-
* *
7011418 T-GCCATATCTTAGGTGTTTCTAACTAACGCG-TGGCGGTGGAAACAACTAACAAAGCTTCCAT
64 TCGCCACATCTTAGGTGTTTCTAACTAACACGAT-GCGGTGGAAACAACTAACAAAGCTTCCAT
7011480 TCTCAGTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
133 21 0.19
134 87 0.80
135 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (133 bp):
ACCTATAAGCAAAAAGAAACCCTATGAAGCTCTCACATTTGGCCATATTTTTTGCCTATTTGATC
GCCACATCTTAGGTGTTTCTAACTAACACGATGCGGTGGAAACAACTAACAAAGCTTCCATCCTC
GGT
Found at i:7036448 original size:2 final size:2
Alignment explanation
Indices: 7036441--7036467 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7036431 GTGGTGAGTT
7036441 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
7036468 TACCACTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7039432 original size:25 final size:25
Alignment explanation
Indices: 7039411--7039460 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7039401 TTATTTTTTT
7039411 AGAATTTTAGAATTTTGTTTTTATA
1 AGAATTTTAGAATTTTGTTTTTATA
* * *
7039436 ATAATTTTATAATTTTATCTTTTAT
1 AGAATTTTAGAATTTTGT-TTTTAT
7039461 TTTATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (25 bp):
AGAATTTTAGAATTTTGTTTTTATA
Found at i:7047309 original size:77 final size:75
Alignment explanation
Indices: 7047169--7047316 Score: 224
Period size: 77 Copynumber: 1.9 Consensus size: 75
7047159 TTATTGTTCC
* *
7047169 TAAATAAGTCATTTTCCTTTTATTTGTACCAAAAAAATTCCTATTCTTTTATTGTGCTCACACAA
1 TAAATAAGTCATTATCCTTTTATTTGTACCAAAAAAATTCCTATTCTTTTATTGTACTCACACAA
7047234 ACTCTTAACT
66 ACTCTTAACT
** * *
7047244 TAAATAAGTCATTATCCTTTTATTTGTATTTAAAACAAATTCTTATTCTTTTATTGTATTCACAC
1 TAAATAAGTCATTATCCTTTTATTTGTA-CCAAAA-AAATTCCTATTCTTTTATTGTACTCACAC
7047309 AAACTCTT
64 AAACTCTT
7047317 GCAATGTGCT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 27 0.42
76 4 0.06
77 34 0.52
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (75 bp):
TAAATAAGTCATTATCCTTTTATTTGTACCAAAAAAATTCCTATTCTTTTATTGTACTCACACAA
ACTCTTAACT
Found at i:7047883 original size:15 final size:15
Alignment explanation
Indices: 7047857--7047894 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
7047847 CGATGAGAAG
*
7047857 AAAGAGAAAACAAAA
1 AAAGAAAAAACAAAA
*
7047872 AATGAAAAAACAAAA
1 AAAGAAAAAACAAAA
7047887 AAAGAAAA
1 AAAGAAAA
7047895 TCTAAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.82, C:0.05, G:0.11, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAACAAAA
Found at i:7047941 original size:12 final size:14
Alignment explanation
Indices: 7047931--7047981 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
7047921 AAATTAATTT
7047931 AAATTTTAATTATGA
1 AAATTTTAATTAT-A
**
7047946 AAATAAT-ATT-TA
1 AAATTTTAATTATA
7047958 AAATTTTAATTATA
1 AAATTTTAATTATA
*
7047972 AATTTTTAAT
1 AAATTTTAAT
7047982 AATTTAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 14 0.48
15 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
AAATTTTAATTATA
Found at i:7048005 original size:7 final size:6
Alignment explanation
Indices: 7047994--7048023 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
7047984 TTTAATATTT
7047994 TAAAAA TAAAAA TAAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA T-AAAAA TAAAAA TAAAA
7048024 TAATTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:7048013 original size:13 final size:13
Alignment explanation
Indices: 7047995--7048023 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7047985 TTAATATTTT
7047995 AAAAATAAAAATA
1 AAAAATAAAAATA
7048008 AAAAATAAAAATA
1 AAAAATAAAAATA
7048021 AAA
1 AAA
7048024 TAATTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:7048182 original size:22 final size:22
Alignment explanation
Indices: 7048154--7048209 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
7048144 GATTCTTCTT
7048154 TTATTCTATTCTAGCAGAATAG
1 TTATTCTATTCTAGCAGAATAG
**
7048176 TTATTCTATTCTAGTTGAATAG
1 TTATTCTATTCTAGCAGAATAG
*
7048198 TTATTCCATTCT
1 TTATTCTATTCT
7048210 CATCCTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATTCTATTCTAGCAGAATAG
Found at i:7065578 original size:64 final size:64
Alignment explanation
Indices: 7065477--7065609 Score: 266
Period size: 64 Copynumber: 2.1 Consensus size: 64
7065467 AGCTAGAGTT
7065477 GGGAGTCACGGGAATTTTGATTTTGGATTATTCGGAATGGAAGGATTATAGGCTAAAGGGGTAG
1 GGGAGTCACGGGAATTTTGATTTTGGATTATTCGGAATGGAAGGATTATAGGCTAAAGGGGTAG
7065541 GGGAGTCACGGGAATTTTGATTTTGGATTATTCGGAATGGAAGGATTATAGGCTAAAGGGGTAG
1 GGGAGTCACGGGAATTTTGATTTTGGATTATTCGGAATGGAAGGATTATAGGCTAAAGGGGTAG
7065605 GGGAG
1 GGGAG
7065610 GACGTTGGTG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.28, C:0.06, G:0.38, T:0.29
Consensus pattern (64 bp):
GGGAGTCACGGGAATTTTGATTTTGGATTATTCGGAATGGAAGGATTATAGGCTAAAGGGGTAG
Found at i:7071312 original size:25 final size:25
Alignment explanation
Indices: 7071257--7071305 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
7071247 AGAGCTTCAA
* **
7071257 TGCTCCCTTGGGGAGTCTGGTTTGG
1 TGCTCCCTTGGGGAGCCTAATTTGG
7071282 TGCTCCCTTGGGGAGCCTAATTTG
1 TGCTCCCTTGGGGAGCCTAATTTG
7071306 AGGCTCCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.08, C:0.22, G:0.35, T:0.35
Consensus pattern (25 bp):
TGCTCCCTTGGGGAGCCTAATTTGG
Found at i:7075136 original size:196 final size:196
Alignment explanation
Indices: 7074802--7075193 Score: 642
Period size: 196 Copynumber: 2.0 Consensus size: 196
7074792 TAATATTTGC
* * *
7074802 CCATGTCAGCTGTCACGTGGAAAGAAAATGTCGGTTGGCATTAAGTTTGATGGTTGTCAATAACC
1 CCATGTCAGCTGTCACGTGGAAAGAAAATGTCAGTTGACAGTAAGTTTGATGGTTGTCAATAACC
* *
7074867 ATTAAGGATAGAATACTAAATTTGATAGTTGATTAATATATATTAAGGGTTGTTAGATATATTCA
66 ATGAAGAATAGAATACTAAATTTGATAGTTGATTAATATATATTAAGGGTTGTTAGATATATTCA
* *
7074932 TACAACAACTTGTATGCACAAAGACAGG-GAAAGTTTTACAAATAATATAGTTACGTGGGGAGGG
131 TACAACAACTTGTATGCACAAAGAC-GGTGAAAGTTTTACAAATAATATAGTTACATAGGGAGGG
7074996 TA
195 TA
* *
7074998 CCATGTCAGTTGTCACGTGGAAAGAAAATGTCAGTTGACAGTAAGTTTGATGGTTGTTAATAACC
1 CCATGTCAGCTGTCACGTGGAAAGAAAATGTCAGTTGACAGTAAGTTTGATGGTTGTCAATAACC
* *
7075063 ATGAAGAATAGAATATTAAATTTGATAGTTTATTAATATATATTAAGGGTTGTTAGATATATTCA
66 ATGAAGAATAGAATACTAAATTTGATAGTTGATTAATATATATTAAGGGTTGTTAGATATATTCA
* * *
7075128 TACAACAACTTGTATGCGCAGAGACGGTGAAAGTTTTACTAATAATATAGTTACATAGGGAGGGT
131 TACAACAACTTGTATGCACAAAGACGGTGAAAGTTTTACAAATAATATAGTTACATAGGGAGGGT
7075193 A
196 A
7075194 TGTCTTTCTG
Statistics
Matches: 181, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
195 2 0.01
196 179 0.99
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (196 bp):
CCATGTCAGCTGTCACGTGGAAAGAAAATGTCAGTTGACAGTAAGTTTGATGGTTGTCAATAACC
ATGAAGAATAGAATACTAAATTTGATAGTTGATTAATATATATTAAGGGTTGTTAGATATATTCA
TACAACAACTTGTATGCACAAAGACGGTGAAAGTTTTACAAATAATATAGTTACATAGGGAGGGT
A
Found at i:7076798 original size:24 final size:24
Alignment explanation
Indices: 7076753--7076798 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
7076743 CAAAAGCAGG
* * *
7076753 AGTAGGAGCTGGAGCAGGAGTCGT
1 AGTAGAAGCAGGAGCAGAAGTCGT
*
7076777 AGTAGAAGCAGGAGCCGAAGTC
1 AGTAGAAGCAGGAGCAGAAGTC
7076799 CAGTTCGTGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.41, T:0.13
Consensus pattern (24 bp):
AGTAGAAGCAGGAGCAGAAGTCGT
Found at i:7077487 original size:54 final size:54
Alignment explanation
Indices: 7077429--7077531 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
7077419 TATAATGTGG
*
7077429 AGAAAT-CTAGAAATGGTCCAAAATGGAGTGATGCTGATGCTTCAAATGAAGCAA
1 AGAAATCCT-GAAATGGTCCAAAATGGAGTGATGCGGATGCTTCAAATGAAGCAA
***
7077483 AGAAATCCTGGGCTGGTCCAAAATGGAGTGATGCGGATGCTTCAAATGA
1 AGAAATCCTGAAATGGTCCAAAATGGAGTGATGCGGATGCTTCAAATGA
7077532 TGTGGACAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 42 0.95
55 2 0.05
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (54 bp):
AGAAATCCTGAAATGGTCCAAAATGGAGTGATGCGGATGCTTCAAATGAAGCAA
Found at i:7077543 original size:54 final size:54
Alignment explanation
Indices: 7077442--7077568 Score: 164
Period size: 54 Copynumber: 2.4 Consensus size: 54
7077432 AATCTAGAAA
* * *
7077442 TGGTCCAAAATGGAGTGATGCTGATGCTTCAAATGAAGCAAAGAAATCCTGGGC
1 TGGTCCAAAATGGAGTGATGCGGATGCTTCAAATGAAGCAAACAAATCCTGGAC
* *** *
7077496 TGGTCCAAAATGGAGTGATGCGGATGCTTCAAATGATGTGGACAAATCTTGGAC
1 TGGTCCAAAATGGAGTGATGCGGATGCTTCAAATGAAGCAAACAAATCCTGGAC
* *
7077550 TGGTTCAAAATGGGGTGAT
1 TGGTCCAAAATGGAGTGAT
7077569 ACAGGTACCT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (54 bp):
TGGTCCAAAATGGAGTGATGCGGATGCTTCAAATGAAGCAAACAAATCCTGGAC
Found at i:7084209 original size:2 final size:2
Alignment explanation
Indices: 7084202--7084292 Score: 110
Period size: 2 Copynumber: 45.5 Consensus size: 2
7084192 ATGAACAAGA
7084202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * * *
7084244 AT GT AC AG AC AT AT AC AT AG AC AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7084286 AT AT AT A
1 AT AT AT A
7084293 ATTCCGTAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (2 bp):
AT
Found at i:7084966 original size:2 final size:2
Alignment explanation
Indices: 7084959--7084984 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7084949 TTGGATAGTG
7084959 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
7084985 CCTCATTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7094897 original size:2 final size:2
Alignment explanation
Indices: 7094890--7094933 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
7094880 TATGAGTTGT
7094890 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7094932 TC
1 TC
7094934 ACAAACAGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7096191 original size:2 final size:2
Alignment explanation
Indices: 7096184--7096220 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7096174 TTTTTAAGAC
7096184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7096221 ATGTTGCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7097302 original size:36 final size:36
Alignment explanation
Indices: 7097262--7097355 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
7097252 ACCTCCGACT
* *
7097262 CCTCCAAAAGTGTCACCACCTCATTTTACTCCAGCC
1 CCTCCAAAAGTGTCACCACCTCATTATACTCCAACC
* *
7097298 CCTCCAAAAGT-TGCACCACCCCATTATATTCCAACC
1 CCTCCAAAAGTGT-CACCACCTCATTATACTCCAACC
*
7097334 CCTCCCAAAGTG-CAACCACCTC
1 CCTCCAAAAGTGTC-ACCACCTC
7097356 CTAGTGCCCC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
35 2 0.04
36 47 0.96
ACGTcount: A:0.28, C:0.44, G:0.07, T:0.21
Consensus pattern (36 bp):
CCTCCAAAAGTGTCACCACCTCATTATACTCCAACC
Found at i:7097592 original size:168 final size:168
Alignment explanation
Indices: 7097310--7097655 Score: 631
Period size: 168 Copynumber: 2.1 Consensus size: 168
7097300 TCCAAAAGTT
*
7097310 GCACCACCCCATTATATTCCAACCCCTCCCAAAGTGCAACCACCTCCTAGTGCCCCATTCTCCCC
1 GCACCACCCCATTATATTCCAACCCCTCCCAAAGTGCAACCACCTCCTAATGCCCCATTCTCCCC
* * *
7097375 CAAAGTACCACCATCTCCCAACGTCCCGTCCCCTTCAAAACCGAAAGTCCCTCCGCCGGCACCAC
66 AAAAGTACCACCATCTCCCAACGTCCCGTCCCCTTCAAAACCAAAAGTCCCTCCACCGGCACCAC
7097440 ATAATCCCATTACACCACCACAACCACATCCAGTTCCA
131 ATAATCCCATTACACCACCACAACCACATCCAGTTCCA
7097478 GCACCACCCCATTATATTCCAACCCCTCCCAAAGTGCAACCACCTCCTAATGCCCCATTCTCCCC
1 GCACCACCCCATTATATTCCAACCCCTCCCAAAGTGCAACCACCTCCTAATGCCCCATTCTCCCC
*
7097543 AAAAGTACCACCGTCTCCC-ACAGTCCCGTCCCCTTCAAAACCAAAAGTCCCTCCACCGGCACCA
66 AAAAGTACCACCATCTCCCAAC-GTCCCGTCCCCTTCAAAACCAAAAGTCCCTCCACCGGCACCA
7097607 CATAATCCCATTACACCACCACAACCACATCCAGTTCCA
130 CATAATCCCATTACACCACCACAACCACATCCAGTTCCA
7097646 GCACCACCCC
1 GCACCACCCC
7097656 CACATCATCC
Statistics
Matches: 172, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
167 2 0.01
168 170 0.99
ACGTcount: A:0.28, C:0.47, G:0.08, T:0.17
Consensus pattern (168 bp):
GCACCACCCCATTATATTCCAACCCCTCCCAAAGTGCAACCACCTCCTAATGCCCCATTCTCCCC
AAAAGTACCACCATCTCCCAACGTCCCGTCCCCTTCAAAACCAAAAGTCCCTCCACCGGCACCAC
ATAATCCCATTACACCACCACAACCACATCCAGTTCCA
Found at i:7112891 original size:25 final size:25
Alignment explanation
Indices: 7112846--7112909 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
7112836 AACATCTTAC
7112846 CAAAAATATAATTTTAAAAATTTATA
1 CAAAAATATAATTTT-AAAATTTATA
*
7112872 CAAAAGTATAATATTT-AAATTTA-A
1 CAAAAATATAAT-TTTAAAATTTATA
*
7112896 AAAAAATAATAATT
1 CAAAAAT-ATAATT
7112910 ACTTCAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 7 0.21
25 12 0.36
26 11 0.33
27 3 0.09
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (25 bp):
CAAAAATATAATTTTAAAATTTATA
Found at i:7116780 original size:18 final size:17
Alignment explanation
Indices: 7116757--7116795 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7116747 GGGGAGGTTT
7116757 TAATTTTAAAAAAAATTA
1 TAATTTT-AAAAAAATTA
* *
7116775 TAATTTTATAATAATTA
1 TAATTTTAAAAAAATTA
7116792 TAAT
1 TAAT
7116796 ATAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATTTTAAAAAAATTA
Found at i:7116848 original size:19 final size:19
Alignment explanation
Indices: 7116824--7116861 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7116814 TATATATAAA
7116824 AATTAAAAAATTAA-AAAAT
1 AATT-AAAAATTAATAAAAT
*
7116843 AATTAATAATTAATAAAAT
1 AATTAAAAATTAATAAAAT
7116862 TATTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AATTAAAAATTAATAAAAT
Found at i:7117031 original size:70 final size:67
Alignment explanation
Indices: 7116957--7117084 Score: 184
Period size: 70 Copynumber: 1.9 Consensus size: 67
7116947 AATTATATTA
* * *
7116957 TCTTATTTTCAATAAATTAATAATCATATGTATTTAATCATCTCCAACAGTTTTTTTTTTCACTT
1 TCTTATTTCCAATAAATTAACAATCATATGTATTT-A--ATCTCCAACAGTTATTTTTTTCACTT
7117022 ATTTC
63 ATTTC
* *
7117027 TCTTATTTCCAATCAATTAACAGTCATATGTATTTAATCTCCAACAGTTATTTTTTTC
1 TCTTATTTCCAATAAATTAACAATCATATGTATTTAATCTCCAACAGTTATTTTTTTC
7117085 TATATATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
67 21 0.40
69 1 0.02
70 31 0.58
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.49
Consensus pattern (67 bp):
TCTTATTTCCAATAAATTAACAATCATATGTATTTAATCTCCAACAGTTATTTTTTTCACTTATT
TC
Found at i:7121634 original size:22 final size:22
Alignment explanation
Indices: 7121609--7121650 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7121599 CCGCGAGCTC
*
7121609 CAAAAGAAATAACTCGCGGCGT
1 CAAAAGAAATAACCCGCGGCGT
* *
7121631 CAAAGGAAATAGCCCGCGGC
1 CAAAAGAAATAACCCGCGGC
7121651 ACGCCTCGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.26, G:0.26, T:0.10
Consensus pattern (22 bp):
CAAAAGAAATAACCCGCGGCGT
Found at i:7129486 original size:15 final size:15
Alignment explanation
Indices: 7129408--7129497 Score: 57
Period size: 15 Copynumber: 6.3 Consensus size: 15
7129398 ATATCCTTTN
*
7129408 ATTTATAATTATTAAA
1 ATTT-TAATTATTAAT
* *
7129424 ATATTAATAATTAAT
1 ATTTTAATTATTAAT
* * *
7129439 AGTTTAAATATCAAT
1 ATTTTAATTATTAAT
*
7129454 ATTTTAA-TA--CA-
1 ATTTTAATTATTAAT
7129465 A-TTTAATTATTAAT
1 ATTTTAATTATTAAT
*
7129479 ATTTTAATTA-AAAT
1 ATTTTAATTATTAAT
7129493 ATTTT
1 ATTTT
7129498 TTAAATATTA
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
10 5 0.09
11 3 0.05
12 1 0.02
13 1 0.02
14 11 0.19
15 33 0.58
16 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (15 bp):
ATTTTAATTATTAAT
Found at i:7129585 original size:16 final size:16
Alignment explanation
Indices: 7129560--7129627 Score: 54
Period size: 16 Copynumber: 4.3 Consensus size: 16
7129550 ATTTATACTC
7129560 ATTAAAAATTAAATAT
1 ATTAAAAATTAAATAT
* *
7129576 ATTAATAATTTAATA-
1 ATTAAAAATTAAATAT
*
7129591 AATAAAACATT-AATAGT
1 ATTAAAA-ATTAAATA-T
7129608 -TTAAAATATTAAATAT
1 ATTAAAA-ATTAAATAT
7129624 -TTAA
1 ATTAA
7129628 TATGGCTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
15 9 0.21
16 29 0.69
17 4 0.10
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (16 bp):
ATTAAAAATTAAATAT
Found at i:7138868 original size:2 final size:2
Alignment explanation
Indices: 7138861--7138933 Score: 64
Period size: 2 Copynumber: 38.5 Consensus size: 2
7138851 ATCTTATTTT
* * * * *
7138861 TA TA TA TA T- TA TA AA TA TA TA TA TG TA TT TA TG TA -A TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
7138901 TA TA TA TA T- TC T- 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 TA TA TA T
7138934 TTAAAATTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
1 4 0.07
2 53 0.93
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7146014 original size:31 final size:29
Alignment explanation
Indices: 7145979--7146058 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
7145969 ATTAATAATT
* *
7145979 AATTATAAAAAATTTATTTAATTTAAAATAA
1 AATTATAAAAAATTTATTGAATGT--AATAA
* *
7146010 AATTATAAAAACTTGATTGAATGTAATAA
1 AATTATAAAAAATTTATTGAATGTAATAA
*
7146039 AAATAT-AAAAATTTATTGAA
1 AATTATAAAAAATTTATTGAA
7146059 ATTTTTTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 12 0.29
29 10 0.24
31 20 0.48
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (29 bp):
AATTATAAAAAATTTATTGAATGTAATAA
Found at i:7147167 original size:110 final size:109
Alignment explanation
Indices: 7147044--7147259 Score: 407
Period size: 110 Copynumber: 2.0 Consensus size: 109
7147034 TGAGTTTAAT
7147044 TTTTGACATAATATT-TAAAAAAAATTTAAACTATTCAAGAATAATATAATTTTTTTATATTTTT
1 TTTTGACATAATATTCTAAAAAAAATTTAAACTATTCAAGAATAATATAATTTTTTTATA-TTTT
7147108 ATTTTGCTCAATTATTTTTTATTTTTACTTTGAAATTAAATANTTA
65 ATTTTGCTCAATTATTTTTTATTTTTACTTTGAAATTAAATA-TTA
7147154 TTTTGACATAATATTCTAAAAAAAATTTAAACTATTCAAGAATAATATAATTTTTTTATATTTTA
1 TTTTGACATAATATTCTAAAAAAAATTTAAACTATTCAAGAATAATATAATTTTTTTATATTTTA
7147219 TTTTGCTCAATTATTTTTTATTTTTACTTTGAAATTAAATA
66 TTTTGCTCAATTATTTTTTATTTTTACTTTGAAATTAAATA
7147260 AATTTTTTAT
Statistics
Matches: 105, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
110 61 0.58
111 44 0.42
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.51
Consensus pattern (109 bp):
TTTTGACATAATATTCTAAAAAAAATTTAAACTATTCAAGAATAATATAATTTTTTTATATTTTA
TTTTGCTCAATTATTTTTTATTTTTACTTTGAAATTAAATATTA
Found at i:7148666 original size:16 final size:17
Alignment explanation
Indices: 7148647--7148681 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
7148637 TCTGTGACTC
*
7148647 TTTTGTTTTTTTTG-TT
1 TTTTGTTTTCTTTGATT
7148663 TTTTGTTTTCTTTGATT
1 TTTTGTTTTCTTTGATT
7148680 TT
1 TT
7148682 GCGATTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.83
Consensus pattern (17 bp):
TTTTGTTTTCTTTGATT
Found at i:7155830 original size:10 final size:10
Alignment explanation
Indices: 7155812--7155851 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
7155802 TATAATTAAT
7155812 TATATTAAAAA
1 TATA-TAAAAA
7155823 TATAT-AAAA
1 TATATAAAAA
7155832 -AT-TAAAAA
1 TATATAAAAA
7155840 TATATAAAAA
1 TATATAAAAA
7155850 TA
1 TA
7155852 ATTAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
7 1 0.04
8 6 0.23
9 6 0.23
10 9 0.35
11 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TATATAAAAA
Found at i:7155858 original size:17 final size:17
Alignment explanation
Indices: 7155815--7155850 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
7155805 AATTAATTAT
7155815 ATTAAAAATATATAAAA
1 ATTAAAAATATATAAAA
7155832 ATTAAAAATATATAAAA
1 ATTAAAAATATATAAAA
7155849 AT
1 AT
7155851 AATTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATTAAAAATATATAAAA
Found at i:7156876 original size:18 final size:18
Alignment explanation
Indices: 7156853--7156888 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7156843 TATTAAGGAT
*
7156853 ATCTTAATTTACAATCAG
1 ATCTTAATATACAATCAG
*
7156871 ATCTTAATATAGAATCAG
1 ATCTTAATATACAATCAG
7156889 TTTCTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (18 bp):
ATCTTAATATACAATCAG
Found at i:7162606 original size:2 final size:2
Alignment explanation
Indices: 7162594--7162642 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
7162584 TATAAATTAA
* * *
7162594 AT AT AT GT AT AT AT TT AT AC A- AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7162634 AT AT AT AT A
1 AT AT AT AT A
7162643 AAAAACATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7162881 original size:16 final size:16
Alignment explanation
Indices: 7162860--7162893 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7162850 CTAATATATT
*
7162860 TTAAGTATATTATTAA
1 TTAAGTATACTATTAA
*
7162876 TTAAGTTTACTATTAA
1 TTAAGTATACTATTAA
7162892 TT
1 TT
7162894 CTTCTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TTAAGTATACTATTAA
Found at i:7163559 original size:34 final size:34
Alignment explanation
Indices: 7163507--7163572 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
7163497 ATGTATGACG
7163507 GTGATATCTCATGCCACTTAAAAGTGGAATGTTT
1 GTGATATCTCATGCCACTTAAAAGTGGAATGTTT
* * *
7163541 GTGATATTTTATGTCACTTAAAAGTGGAATGT
1 GTGATATCTCATGCCACTTAAAAGTGGAATGT
7163573 GGTGACAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (34 bp):
GTGATATCTCATGCCACTTAAAAGTGGAATGTTT
Found at i:7165036 original size:19 final size:19
Alignment explanation
Indices: 7165012--7165066 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
7165002 CATTTCAATC
7165012 TTTTATTTATTTTTTATAT
1 TTTTATTTATTTTTTATAT
* *
7165031 TTTTATTT-TGTTTGATAT
1 TTTTATTTATTTTTTATAT
*
7165049 TTTAAGTTATATTTTTTA
1 TTTTA-TT-TATTTTTTA
7165067 AGTTGAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 12 0.43
19 10 0.36
20 1 0.04
21 5 0.18
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTATTTATTTTTTATAT
Found at i:7165067 original size:14 final size:15
Alignment explanation
Indices: 7165048--7165082 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7165038 TTGTTTGATA
*
7165048 TTTTAAGTT-ATATT
1 TTTTAAGTTGAAATT
7165062 TTTTAAGTTGAAATT
1 TTTTAAGTTGAAATT
7165077 TTTTAA
1 TTTTAA
7165083 ATTAAAGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (15 bp):
TTTTAAGTTGAAATT
Found at i:7165079 original size:15 final size:14
Alignment explanation
Indices: 7165048--7165088 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
7165038 TTGTTTGATA
*
7165048 TTTTAAGTTATATT
1 TTTTAAGTTAAATT
7165062 TTTTAAGTTGAAATT
1 TTTTAAGTT-AAATT
*
7165077 TTTTAAATTAAA
1 TTTTAAGTTAAA
7165089 GACTGCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (14 bp):
TTTTAAGTTAAATT
Found at i:7165377 original size:108 final size:108
Alignment explanation
Indices: 7165254--7165459 Score: 367
Period size: 108 Copynumber: 1.9 Consensus size: 108
7165244 AGAAATTTTA
* * * *
7165254 AGTAAATTTAAATAAATGATAAATTGGGTAAAAGTTGAATAATTTCAGAAGAATGTGTATTTGTA
1 AGTAAATTTAAATAAAAGATAAATTAGATAAAAGTTGAATAATTTCAAAAGAATGTGTATTTGTA
*
7165319 AATTGTGAAAGTTGTAACTAAATCAACATATTTTGCTAATTCG
66 AATGGTGAAAGTTGTAACTAAATCAACATATTTTGCTAATTCG
7165362 AGTAAATTTAAATAAAAGATAAATTAGATAAAAGTTGAATAATTTCAAAAGAATGTGTATTTGTA
1 AGTAAATTTAAATAAAAGATAAATTAGATAAAAGTTGAATAATTTCAAAAGAATGTGTATTTGTA
7165427 AATGGTGAAAGTTGTAACTAAATCAACATATTT
66 AATGGTGAAAGTTGTAACTAAATCAACATATTT
7165460 AGTCATTTTA
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 93 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.35
Consensus pattern (108 bp):
AGTAAATTTAAATAAAAGATAAATTAGATAAAAGTTGAATAATTTCAAAAGAATGTGTATTTGTA
AATGGTGAAAGTTGTAACTAAATCAACATATTTTGCTAATTCG
Found at i:7165767 original size:31 final size:29
Alignment explanation
Indices: 7165732--7165813 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 29
7165722 TTTTTTAAAT
*
7165732 ATTTTTTTCAATTTAGTCCCTCAACATCTCA
1 ATTTTTTTCAATTTAGTCCCTCAAC-TAT-A
* **
7165763 ATTTTGTTCAATTTAGTCCCTGTACTATA
1 ATTTTTTTCAATTTAGTCCCTCAACTATA
*
7165792 ATTTTTGTTGAATTTAGTCCCT
1 ATTTTT-TTCAATTTAGTCCCT
7165814 ATGATGTGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 6 0.14
30 16 0.36
31 22 0.50
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (29 bp):
ATTTTTTTCAATTTAGTCCCTCAACTATA
Found at i:7165800 original size:30 final size:32
Alignment explanation
Indices: 7165732--7165813 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 32
7165722 TTTTTTAAAT
*
7165732 ATTTTT-TTCAATTTAGTCCCTCAACATCTCA
1 ATTTTTGTTCAATTTAGTCCCTCAACATATCA
**
7165763 A-TTTTGTTCAATTTAGTCCCTGTAC-TAT-A
1 ATTTTTGTTCAATTTAGTCCCTCAACATATCA
*
7165792 ATTTTTGTTGAATTTAGTCCCT
1 ATTTTTGTTCAATTTAGTCCCT
7165814 ATGATGTGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
29 2 0.04
30 25 0.56
31 18 0.40
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (32 bp):
ATTTTTGTTCAATTTAGTCCCTCAACATATCA
Found at i:7166677 original size:2 final size:2
Alignment explanation
Indices: 7166670--7166703 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7166660 TATTACGAAA
7166670 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7166704 AATGGTTGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7168599 original size:40 final size:40
Alignment explanation
Indices: 7168551--7168753 Score: 210
Period size: 40 Copynumber: 5.0 Consensus size: 40
7168541 AAAGATCTTA
* * *
7168551 AACATAAACTTAAATAACTAAAAACAAATATCCATACAAT
1 AACATAAACTTAAATAACTAAACACAAATATCCAAACAAC
* * * * *
7168591 GATATAAACTTAAATAACTATACATAAATATCCAAATAAC
1 AACATAAACTTAAATAACTAAACACAAATATCCAAACAAC
* * *
7168631 AACATAAACTTAAATAACTAAACACAAAGATCCAAAGAAAT
1 AACATAAACTTAAATAACTAAACACAAATATCCAAA-CAAC
* * * *
7168672 AACATAAACTTCAATAACCAAGCACATATATCCGAACAACAAC
1 AACATAAACTTAAATAACTAAACACAAATATCC--A-AACAAC
* *
7168715 AACATAAACTTAAATAACTAAA-ATAAATATACAAACAAC
1 AACATAAACTTAAATAACTAAACACAAATATCCAAACAAC
7168754 TAATTAAACA
Statistics
Matches: 131, Mismatches: 28, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
39 6 0.05
40 64 0.49
41 30 0.23
42 7 0.05
43 22 0.17
44 2 0.02
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (40 bp):
AACATAAACTTAAATAACTAAACACAAATATCCAAACAAC
Found at i:7168628 original size:22 final size:21
Alignment explanation
Indices: 7168602--7168679 Score: 65
Period size: 20 Copynumber: 3.8 Consensus size: 21
7168592 ATATAAACTT
7168602 AAATAACTATACATAAATATCC
1 AAATAACTA-ACATAAATATCC
7168624 AAATAAC-AACATAAACT-T--
1 AAATAACTAACATAAA-TATCC
* *
7168642 AAATAACTAAACACAAAGATCC
1 AAATAACT-AACATAAATATCC
* *
7168664 AAAGAAATAACATAAA
1 AAATAACTAACATAAA
7168680 CTTCAATAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
18 7 0.16
20 16 0.36
21 9 0.20
22 13 0.29
ACGTcount: A:0.62, C:0.17, G:0.03, T:0.19
Consensus pattern (21 bp):
AAATAACTAACATAAATATCC
Found at i:7168654 original size:20 final size:20
Alignment explanation
Indices: 7168594--7168654 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
7168584 ATACAATGAT
*
7168594 ATAAACTTAAATAACTATAC
1 ATAAACTTAAATAACTAAAC
7168614 ATAAA-TATCCAAATAAC--AAC
1 ATAAACT-T--AAATAACTAAAC
7168634 ATAAACTTAAATAACTAAAC
1 ATAAACTTAAATAACTAAAC
7168654 A
1 A
7168655 CAAAGATCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
18 7 0.21
19 1 0.03
20 18 0.53
21 1 0.03
22 7 0.21
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (20 bp):
ATAAACTTAAATAACTAAAC
Found at i:7172279 original size:133 final size:133
Alignment explanation
Indices: 7172041--7172315 Score: 388
Period size: 133 Copynumber: 2.1 Consensus size: 133
7172031 ACCAAAATCT
* * * *
7172041 CAGCTAGGGAAGAACAAGGGCGTGGGGCTTGGGGAAACACCGAGGCAGTTGGCAAGGCATGGCTG
1 CAGCTAGGGAAGAACAAAGGCGTGGGGCTTGGGGAAACACCGAGACAGTCGACAAGGCATGGCTG
* * * ** *
7172106 TGGTTGGGCGATTGGGGAGAAAAGAAAGATGAACTGATGAAGGAGCCGAGCGTGGCGTGGTAGGC
66 TGGCTGGGCGACTAGAAAGAAAAGAAAGATGAACTGATGAAGGAGCCGAGCGTGGCATGGTAGGC
7172171 CGA
131 CGA
* ** *
7172174 CAGCTAGGGAAGAACAAAGGTGTGGGGCTTGGGGCGACACCGAGACAGTCGACAGGGCATGGCTG
1 CAGCTAGGGAAGAACAAAGGCGTGGGGCTTGGGGAAACACCGAGACAGTCGACAAGGCATGGCTG
* *
7172239 TGGCTGGGCGGCTAGAAAGAAAAGAAAGATGAACTGATGAAGGAGCTGAGCGTGGCATGGTAGGC
66 TGGCTGGGCGACTAGAAAGAAAAGAAAGATGAACTGATGAAGGAGCCGAGCGTGGCATGGTAGGC
7172304 CGA
131 CGA
**
7172307 TGGCTAGGG
1 CAGCTAGGG
7172316 TCTTGGGGAA
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 124 1.00
ACGTcount: A:0.28, C:0.16, G:0.43, T:0.14
Consensus pattern (133 bp):
CAGCTAGGGAAGAACAAAGGCGTGGGGCTTGGGGAAACACCGAGACAGTCGACAAGGCATGGCTG
TGGCTGGGCGACTAGAAAGAAAAGAAAGATGAACTGATGAAGGAGCCGAGCGTGGCATGGTAGGC
CGA
Found at i:7173684 original size:2 final size:2
Alignment explanation
Indices: 7173677--7173710 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7173667 NNNNNNNNNN
*
7173677 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7173711 ATACAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7173833 original size:23 final size:22
Alignment explanation
Indices: 7173787--7173855 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
7173777 TTATATTTAA
* *
7173787 AGTATATATATACTAAAAGTATT
1 AGTATATATATAAT-ATAGTATT
7173810 AGTATATATATAATATAGTAATT
1 AGTATATATATAATATAGT-ATT
*
7173833 ACTCAATATATATAATATA-TATT
1 AGT--ATATATATAATATAGTATT
7173856 TAAAAACATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 4 0.10
23 21 0.52
24 1 0.03
25 14 0.35
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (22 bp):
AGTATATATATAATATAGTATT
Found at i:7180005 original size:27 final size:27
Alignment explanation
Indices: 7179959--7180031 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
7179949 AAGAGACTAG
7179959 GTTACACATCATATTTAAAAAA-AAGTT
1 GTTACACATCATATTTAAAAAATAA-TT
7179986 GTTACACA-C-TATGTTGAAAAAATAATT
1 GTTACACATCATAT-TT-AAAAAATAATT
**
7180013 GTTACATGTCATATTTAAA
1 GTTACACATCATATTTAAA
7180032 GTGTTTATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
25 3 0.08
26 3 0.08
27 25 0.64
28 5 0.13
29 3 0.08
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.36
Consensus pattern (27 bp):
GTTACACATCATATTTAAAAAATAATT
Found at i:7187179 original size:218 final size:206
Alignment explanation
Indices: 7186816--7187201 Score: 511
Period size: 206 Copynumber: 1.8 Consensus size: 206
7186806 TTAAGAAAAT
* *
7186816 TGTCATGGATTCTCCATGTATTTCTGTCAGATTTAATTAAATTGATTTTCCCTTACATGACTACC
1 TGTCATGGATTCTCCATGTATTTCTGTCAGATATAATTAAATAGATTTTCCCTTACATGACTACC
* * * * * *
7186881 ATCTGAAGAGACTATCATGTTAATCTTGCATACTTCCACAATACAGTCAATGGTGATAGAACTTC
66 ATCTGAAAAAACTATCATGTTAATCTTGCATACCTCCACAATAAAATCAATGGTGATAGAACTTA
*
7186946 TAAAACTAGTCTCATGCAGAGTAATCATGTCCAATGACCGGTTAATAACCAAGGAATTCAAAAGT
131 TAAAACTAGTCTCATGCAAAGTAATCATGTCCAATGACCGGTTAATAACCAAGGAATTCAAAAGT
7187011 CAGTTTCATAG
196 CAGTTTCATAG
* *
7187022 TGTCATGGATTCTCCATGTATTTCTGTCAGATATAATTAAATAGATTTTCCCTTATATGACTGCC
1 TGTCATGGATTCTCCATGTATTTCTGTCAGATATAATTAAATAGATTTTCCCTTACATGACTACC
* * * *
7187087 ATCTGATCTTATTAAAAAACTATTATGTTAGTCTTGCATACCTCCAAGAGATATAAAATTAATGG
66 ATCTG--------AAAAAACTATCATGTTAATCTTGCATACCTCC---ACA-ATAAAATCAATGG
* *
7187152 TGATAGAACTTATAAAACTAGTCTCATGCAAAGTAATCCTGTCCGATGAC
119 TGATAGAACTTATAAAACTAGTCTCATGCAAAGTAATCATGTCCAATGAC
7187202 TAGTTATTAA
Statistics
Matches: 151, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
206 66 0.44
214 27 0.18
217 2 0.01
218 56 0.37
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (206 bp):
TGTCATGGATTCTCCATGTATTTCTGTCAGATATAATTAAATAGATTTTCCCTTACATGACTACC
ATCTGAAAAAACTATCATGTTAATCTTGCATACCTCCACAATAAAATCAATGGTGATAGAACTTA
TAAAACTAGTCTCATGCAAAGTAATCATGTCCAATGACCGGTTAATAACCAAGGAATTCAAAAGT
CAGTTTCATAG
Found at i:7199106 original size:60 final size:61
Alignment explanation
Indices: 7199042--7199158 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 61
7199032 TTTAAATAAA
* * *
7199042 TTTTATATTTTAATTAT-ATTCAATCAAA-TTTTATCTTTTTATTTTAAATCAAATAAGTCT
1 TTTTATATTTTAATTATAATTAAAT-AAATTTTTATATATTTATTTTAAATCAAATAAGTCT
* *
7199102 TTTTATATTTTATTTTTAATTAAATAAATTTTTATATATTTATTTTAAATCAAATAA
1 TTTTATATTTTAATTATAATTAAATAAATTTTTATATATTTATTTTAAATCAAATAA
7199159 ATTTTTATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 18 0.36
61 32 0.64
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (61 bp):
TTTTATATTTTAATTATAATTAAATAAATTTTTATATATTTATTTTAAATCAAATAAGTCT
Found at i:7199116 original size:31 final size:29
Alignment explanation
Indices: 7199035--7199167 Score: 130
Period size: 30 Copynumber: 4.5 Consensus size: 29
7199025 TAAAAATTTT
* *
7199035 AAATAAA-TTTTATATTTTA-ATTATATTC
1 AAATAAATTTTTATATTTTATTTTA-AATC
*
7199063 -AATCAAA-TTTTATCTTTTTATTTTAAATC
1 AAAT-AAATTTTTAT-ATTTTATTTTAAATC
* * *
7199092 AAATAAGTCTTTTTATATTTTATTTTTAATT
1 AAATAA--ATTTTTATATTTTATTTTAAATC
7199123 AAATAAATTTTTATATATTTATTTTAAATC
1 AAATAAATTTTTATAT-TTTATTTTAAATC
7199153 AAATAAATTTTTATA
1 AAATAAATTTTTATA
7199168 ATTAATCAAC
Statistics
Matches: 87, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
27 3 0.03
28 9 0.10
29 19 0.22
30 32 0.37
31 18 0.21
32 6 0.07
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.55
Consensus pattern (29 bp):
AAATAAATTTTTATATTTTATTTTAAATC
Found at i:7210846 original size:10 final size:10
Alignment explanation
Indices: 7210833--7210862 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
7210823 GAAAAGATAA
7210833 GAAAGGAAAG
1 GAAAGGAAAG
7210843 GAAAGGAAAG
1 GAAAGGAAAG
7210853 GAAAGGAAAG
1 GAAAGGAAAG
7210863 AAGAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (10 bp):
GAAAGGAAAG
Found at i:7210851 original size:15 final size:15
Alignment explanation
Indices: 7210833--7210862 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7210823 GAAAAGATAA
7210833 GAAAGGAAAGGAAAG
1 GAAAGGAAAGGAAAG
7210848 GAAAGGAAAGGAAAG
1 GAAAGGAAAGGAAAG
7210863 AAGAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (15 bp):
GAAAGGAAAGGAAAG
Found at i:7211170 original size:12 final size:12
Alignment explanation
Indices: 7211153--7211192 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
7211143 TGATTAGAAG
7211153 ATTTATAT-TTAT
1 ATTTATATATT-T
7211165 ATTTATATATTT
1 ATTTATATATTT
*
7211177 ATTTATTTATTT
1 ATTTATATATTT
7211189 ATTT
1 ATTT
7211193 TGATTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 24 0.92
13 2 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTATATATTT
Found at i:7222419 original size:38 final size:38
Alignment explanation
Indices: 7222375--7222455 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
7222365 TCTCTTGGGG
*
7222375 GTGAAATGATGAATAGTAGTTAAGAATCACAATTTATA
1 GTGAAATGATGAATAGTAGTGAAGAATCACAATTTATA
***
7222413 GTGAAATGATTTGTAGTAGTGAAGAATCACAATTTATA
1 GTGAAATGATGAATAGTAGTGAAGAATCACAATTTATA
*
7222451 ATGAA
1 GTGAA
7222456 TTGTAGGGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (38 bp):
GTGAAATGATGAATAGTAGTGAAGAATCACAATTTATA
Found at i:7223128 original size:28 final size:28
Alignment explanation
Indices: 7223087--7223144 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
7223077 GCCTCTCTCC
*
7223087 GCCTCTGCAATACAGATTCAGGTGGCAA
1 GCCTCTGCAATACAGAGTCAGGTGGCAA
* *
7223115 GCCTCTGCAGTACAGGGTCAGGTGGCAA
1 GCCTCTGCAATACAGAGTCAGGTGGCAA
7223143 GC
1 GC
7223145 AAGCTATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.24, C:0.26, G:0.31, T:0.19
Consensus pattern (28 bp):
GCCTCTGCAATACAGAGTCAGGTGGCAA
Found at i:7232784 original size:27 final size:27
Alignment explanation
Indices: 7232749--7232804 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
7232739 TATTATCATC
* *
7232749 ATATGTTGAACAGAACATGAAACAAAT
1 ATATATTGAACAGAACATAAAACAAAT
7232776 ATATATTGAACAGAACATAAAACAAAT
1 ATATATTGAACAGAACATAAAACAAAT
7232803 AT
1 AT
7232805 CAGTTCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (27 bp):
ATATATTGAACAGAACATAAAACAAAT
Found at i:7238163 original size:9 final size:9
Alignment explanation
Indices: 7238149--7238185 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
7238139 TTTAAAAAGG
7238149 AGTTCGGTT
1 AGTTCGGTT
7238158 AGTTCGGTT
1 AGTTCGGTT
7238167 AGTTCGGTT
1 AGTTCGGTT
7238176 AGTTCGGTT
1 AGTTCGGTT
7238185 A
1 A
7238186 TTGGATATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.14, C:0.11, G:0.32, T:0.43
Consensus pattern (9 bp):
AGTTCGGTT
Found at i:7242921 original size:17 final size:16
Alignment explanation
Indices: 7242899--7242936 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
7242889 AGAAATTGGT
7242899 TTCTTTTTTGGAAAATA
1 TTCTTTTTT-GAAAATA
*
7242916 TTC-TTTTTGAAAATT
1 TTCTTTTTTGAAAATA
7242931 TTCTTT
1 TTCTTT
7242937 CTTTCAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 9 0.47
16 7 0.37
17 3 0.16
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.61
Consensus pattern (16 bp):
TTCTTTTTTGAAAATA
Found at i:7242927 original size:15 final size:16
Alignment explanation
Indices: 7242903--7242936 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7242893 ATTGGTTTCT
7242903 TTTTTGGAAAATATTC
1 TTTTTGGAAAATATTC
*
7242919 TTTTT-GAAAATTTTC
1 TTTTTGGAAAATATTC
7242934 TTT
1 TTT
7242937 CTTTCAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (16 bp):
TTTTTGGAAAATATTC
Found at i:7246790 original size:26 final size:26
Alignment explanation
Indices: 7246757--7246809 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
7246747 TTAGAGAAGA
7246757 TAAAAAAGTAAATTTAACTTTCTTTC
1 TAAAAAAGTAAATTTAACTTTCTTTC
7246783 TAAAAAAGTAAATTTAACTTTCTTTC
1 TAAAAAAGTAAATTTAACTTTCTTTC
7246809 T
1 T
7246810 TAATTAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (26 bp):
TAAAAAAGTAAATTTAACTTTCTTTC
Found at i:7251032 original size:129 final size:129
Alignment explanation
Indices: 7250718--7251072 Score: 428
Period size: 132 Copynumber: 2.7 Consensus size: 129
7250708 TTCTTCGTCA
* *
7250718 CCATCATCATTTTTATCATTCCCATCTTTCTTGTCCTCAAATCTATCCTTAAAAAATTTCCGAAA
1 CCATCATCAATTTTATCATT-CCATCTTTCTTGTCCTCAAATTTATCCTTAAAAAATTTCCGAAA
* * * * * *
7250783 GAAACCCTCCTTTTCATCATCTTCAGCAGATTTTGAAATTTTTTCCTCAAAGTCACCGTGGACAT
65 GAACCCCTCTTTTTCATCATCTTCAGCTGATTTTGAAACTTTCTCCTCAAAGTCACCAT-GACAT
7250848 T
129 T
*
7250849 CCCATCATCAATTTTATCATTTCCATCTTTCTTGTCTTCAAATTTATCCTTAAAAAATTTCCGGA
1 -CCATCATCAATTTTATCA-TTCCATCTTTCTTGTCCTCAAATTTATCCTTAAAAAATTTCC-GA
* * * *
7250914 AA-AACCCCTCTTTTTCATCATCTTCAGCTGATTTTGAAGCTTTCTCTTCAGAGTTCACCAT-AT
63 AAGAACCCCTCTTTTTCATCATCTTCAGCTGATTTTGAAACTTTCTCCTCAAAG-TCACCATGAC
*
7250977 GTT
127 ATT
* * * **
7250980 -CATCATCAATTCTATCATTCACATCTTTCTTGTCCTCAAATTTATCTTTAAAAAACTTCTTAAA
1 CCATCATCAATTTTATCATTC-CATCTTTCTTGTCCTCAAATTTATCCTTAAAAAATTTCCGAAA
* * *
7251044 GAACCCTTCTTTCTCATCATCTTCTGCTG
65 GAACCCCTCTTTTTCATCATCTTCAGCTG
7251073 GCTTAGAAAC
Statistics
Matches: 195, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
128 6 0.03
129 76 0.39
131 3 0.02
132 98 0.50
133 12 0.06
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.41
Consensus pattern (129 bp):
CCATCATCAATTTTATCATTCCATCTTTCTTGTCCTCAAATTTATCCTTAAAAAATTTCCGAAAG
AACCCCTCTTTTTCATCATCTTCAGCTGATTTTGAAACTTTCTCCTCAAAGTCACCATGACATT
Found at i:7252856 original size:15 final size:14
Alignment explanation
Indices: 7252838--7252875 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
7252828 GACAGTAAAA
7252838 ATAATAATTATATAT
1 ATAATAATTATA-AT
7252853 ATAATAA-TATAAT
1 ATAATAATTATAAT
7252866 ATAATTAATT
1 ATAA-TAATT
7252876 CGATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 6 0.29
14 7 0.33
15 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATAATTATAAT
Found at i:7253263 original size:16 final size:17
Alignment explanation
Indices: 7253236--7253268 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
7253226 TAGTTTTTTC
7253236 AGTTTGATTTTTTAAAA
1 AGTTTGATTTTTTAAAA
7253253 AGTTTGA-TTTTTAAAA
1 AGTTTGATTTTTTAAAA
7253269 TTAATTCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (17 bp):
AGTTTGATTTTTTAAAA
Found at i:7253601 original size:31 final size:31
Alignment explanation
Indices: 7253555--7253641 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 31
7253545 CAAACCGAAT
*
7253555 TAGTTCGGTTTCGGTTAGTTCGATTATTTGTA
1 TAGTTC-GATTCGGTTAGTTCGATTATTTGTA
*
7253587 TAGTTCGATTCGG-T--TTCGATTATTTTTA
1 TAGTTCGATTCGGTTAGTTCGATTATTTGTA
*
7253615 -AATAT-GAGTTCGGTTAGTTCGATTATT
1 TAGT-TCGA-TTCGGTTAGTTCGATTATT
7253642 AAATATCCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
27 4 0.09
28 19 0.40
29 1 0.02
30 1 0.02
31 16 0.34
32 6 0.13
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.49
Consensus pattern (31 bp):
TAGTTCGATTCGGTTAGTTCGATTATTTGTA
Found at i:7255390 original size:32 final size:32
Alignment explanation
Indices: 7255344--7255415 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
7255334 GTAAATTTGT
* *
7255344 TGACGTGGTAGTGCCACGTGGCACTAACATGA
1 TGACATGGTAGTGCCACGTGGCACTAACAAGA
* * * *
7255376 TGACATGGTAGTGCCATGTTGCATTGACAAGA
1 TGACATGGTAGTGCCACGTGGCACTAACAAGA
7255408 TGACATGG
1 TGACATGG
7255416 CATTAACGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (32 bp):
TGACATGGTAGTGCCACGTGGCACTAACAAGA
Found at i:7274239 original size:42 final size:42
Alignment explanation
Indices: 7274180--7274272 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
7274170 CTCTGGACAA
*
7274180 GCCCCACCTTCAGAATCTGATCACTGGGGTAGTGGCAGTCA-G
1 GCCCCACCTTCACAATCTGATCACTGGGGTAGTGGCAG-CAGG
*
7274222 GCCCCACCTTCACAATCTGATCGCTGGGGTAGTGGCAGCAGG
1 GCCCCACCTTCACAATCTGATCACTGGGGTAGTGGCAGCAGG
*
7274264 GCACCACCT
1 GCCCCACCT
7274273 CAGGATCCTG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 2 0.04
42 45 0.96
ACGTcount: A:0.20, C:0.32, G:0.28, T:0.19
Consensus pattern (42 bp):
GCCCCACCTTCACAATCTGATCACTGGGGTAGTGGCAGCAGG
Found at i:7275348 original size:3 final size:3
Alignment explanation
Indices: 7275340--7275364 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7275330 TGTCTTTTAC
7275340 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
7275365 TACCTTGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7279983 original size:17 final size:17
Alignment explanation
Indices: 7279957--7279992 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7279947 CTCAACTCGG
* *
7279957 TTCCTGACTCGTTGTTC
1 TTCCTAACTCGTTCTTC
7279974 TTCCTAACTCGTTCTTC
1 TTCCTAACTCGTTCTTC
7279991 TT
1 TT
7279993 TGACTCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.08, C:0.31, G:0.11, T:0.50
Consensus pattern (17 bp):
TTCCTAACTCGTTCTTC
Found at i:7286030 original size:2 final size:2
Alignment explanation
Indices: 7286025--7286049 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7286015 TATAATATAT
7286025 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
7286050 ATTGGAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7289691 original size:3 final size:3
Alignment explanation
Indices: 7289683--7289719 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
7289673 CAATGTTTTT
*
7289683 GCA GCA GCA GCA GCA GCA GCA ACA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA G
7289720 TTTCTCCAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.32, G:0.32, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:7305242 original size:61 final size:61
Alignment explanation
Indices: 7305144--7305263 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 61
7305134 AGAGAGATAT
*
7305144 ACAAATAGATGAACTAAAGGGAGAAAATAACGAATAAAGCACCTGTCCTGCACAGAGTTAA
1 ACAAATAGATGAACTAAAGGAAGAAAATAACGAATAAAGCACCTGTCCTGCACAGAGTTAA
* * * *
7305205 ACAAATAGATGAATTAAAGGAAGAAAATAATGCATAAAGTACCTGTCCTGCACAGAGTT
1 ACAAATAGATGAACTAAAGGAAGAAAATAACGAATAAAGCACCTGTCCTGCACAGAGTT
7305264 TGTCCTCTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (61 bp):
ACAAATAGATGAACTAAAGGAAGAAAATAACGAATAAAGCACCTGTCCTGCACAGAGTTAA
Found at i:7314163 original size:26 final size:26
Alignment explanation
Indices: 7314127--7314205 Score: 158
Period size: 26 Copynumber: 3.0 Consensus size: 26
7314117 AAGTTTTTTT
7314127 AATGGTTGTACAAGTTATTAGAATAA
1 AATGGTTGTACAAGTTATTAGAATAA
7314153 AATGGTTGTACAAGTTATTAGAATAA
1 AATGGTTGTACAAGTTATTAGAATAA
7314179 AATGGTTGTACAAGTTATTAGAATAA
1 AATGGTTGTACAAGTTATTAGAATAA
7314205 A
1 A
7314206 TCCTATCTTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (26 bp):
AATGGTTGTACAAGTTATTAGAATAA
Found at i:7322173 original size:34 final size:33
Alignment explanation
Indices: 7322112--7322198 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
7322102 AAAGAAATTA
* *
7322112 AAATAAAATATATAATATAAAAAATTATATTA-AAG
1 AAATAAAA-ATAAAATATATAAAATTATA--ACAAG
*
7322147 AAATAAAAATAAAATATATAAGATTATAACAAG
1 AAATAAAAATAAAATATATAAAATTATAACAAG
* *
7322180 ACACAAAAATAAAATATAT
1 AAATAAAAATAAAATATAT
7322199 GACATTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 1 0.02
33 20 0.43
34 17 0.37
35 8 0.17
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (33 bp):
AAATAAAAATAAAATATATAAAATTATAACAAG
Found at i:7322377 original size:12 final size:12
Alignment explanation
Indices: 7322347--7322383 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7322337 AACACTATAA
7322347 TATTATTTT-TT
1 TATTATTTTATT
*
7322358 TA-TATTTTAAT
1 TATTATTTTATT
7322369 TATTATTTTATT
1 TATTATTTTATT
7322381 TAT
1 TAT
7322384 ATACTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 6 0.27
11 5 0.23
12 11 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTATTTTATT
Found at i:7322395 original size:23 final size:22
Alignment explanation
Indices: 7322340--7322397 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
7322330 TAAACTAAAC
7322340 ACTATAATATTATTTTTTTATAT
1 ACTA-AATATTATTTTTTTATAT
** *
7322363 TTTAATTATTATTTTATTTATAT
1 ACTAAATATTATTTT-TTTATAT
7322386 ACTAAATATTAT
1 ACTAAATATTAT
7322398 AATATTATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (22 bp):
ACTAAATATTATTTTTTTATAT
Found at i:7334585 original size:16 final size:17
Alignment explanation
Indices: 7334545--7334592 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
7334535 ATCAATTACA
7334545 TGTTTTATCACATCATT
1 TGTTTTATCACATCATT
* *
7334562 T-ATCTATCACAT-ATT
1 TGTTTTATCACATCATT
*
7334577 TGTTTTATCAAATCAT
1 TGTTTTATCACATCAT
7334593 CTTATCATGT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
15 4 0.17
16 17 0.71
17 3 0.12
ACGTcount: A:0.29, C:0.17, G:0.04, T:0.50
Consensus pattern (17 bp):
TGTTTTATCACATCATT
Found at i:7363002 original size:14 final size:15
Alignment explanation
Indices: 7362983--7363013 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7362973 TATTTGATTT
7362983 AAAT-AAAAATAAAA
1 AAATAAAAAATAAAA
7362997 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
7363012 AA
1 AA
7363014 TTTTATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATAAAAAATAAAA
Found at i:7370479 original size:74 final size:74
Alignment explanation
Indices: 7370397--7370545 Score: 271
Period size: 74 Copynumber: 2.0 Consensus size: 74
7370387 AGAAATGGAG
*
7370397 TATGTTAATAATGAATTAGCCCTTTTCCCTCAAATTATAGTGCTTTTAAATTCATTATATAGAAC
1 TATGTTAATAATGAATTAGCCCTTTTCCCTCAAATTATAGTGCTTTTAAATTCATCATATAGAAC
7370462 ATGCTCTTT
66 ATGCTCTTT
* *
7370471 TATGTTAATAATGAATTAGCCCTTTTCTCTCAAATTATAGTGCTTTTAAATTTATCATATAGAAC
1 TATGTTAATAATGAATTAGCCCTTTTCCCTCAAATTATAGTGCTTTTAAATTCATCATATAGAAC
7370536 ATGCTCTTT
66 ATGCTCTTT
7370545 T
1 T
7370546 TCTATCCACT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.44
Consensus pattern (74 bp):
TATGTTAATAATGAATTAGCCCTTTTCCCTCAAATTATAGTGCTTTTAAATTCATCATATAGAAC
ATGCTCTTT
Found at i:7376206 original size:30 final size:29
Alignment explanation
Indices: 7376133--7376212 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
7376123 AATTTTTAGG
*
7376133 TTTTTGTCAATTTAAGGTTAAATATTTTAA
1 TTTTT-TCAATTAAAGGTTAAATATTTTAA
**
7376163 TTGTAAT-AATTAAAGGTTAAATATTTTCAA
1 TT-TTTTCAATTAAAGGTTAAATATTTT-AA
*
7376193 TTTTTTCAATTAAAAGTTAA
1 TTTTTTCAATTAAAGGTTAA
7376213 GGTGAGAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
29 21 0.51
30 19 0.46
31 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (29 bp):
TTTTTTCAATTAAAGGTTAAATATTTTAA
Done.