Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
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: 5609167
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 23
Found at i:1444242 original size:89 final size:89
Alignment explanation
Indices: 1444112--1444449 Score: 489
Period size: 89 Copynumber: 3.8 Consensus size: 89
1444102 CAGCAAAAAG
* * *
1444112 GGGAGCCAACCTAAGGATATACCTTGGGGCCTATAGGCCTACCTAAGGATATCCTTAGATCCGTA
1 GGGAACCAACCTAAGGATATGCCTTGGGGCCTATAGGCCTACCCAAGGATATCCTTAGATCCGTA
* *
1444177 CGGTTACCTTCAGCACACAGCGAA
66 GGGTTACCTTAAGCACACAGCGAA
* *
1444201 GGGAACCAACCTAAGGATATGCCTTGGGTCCTATAGGCCTACCCAAGGGTATCCTTAGATCCGTA
1 GGGAACCAACCTAAGGATATGCCTTGGGGCCTATAGGCCTACCCAAGGATATCCTTAGATCCGTA
*
1444266 GGGTTACCTTAAGCACACAACGAA
66 GGGTTACCTTAAGCACACAGCGAA
* * * *
1444290 GGAAACCAACCTAAGGATATGCCTTGGGGACTATGGGCCTACCCAAGGGTATCCTTAGATCCGTA
1 GGGAACCAACCTAAGGATATGCCTTGGGGCCTATAGGCCTACCCAAGGATATCCTTAGATCCGTA
*
1444355 GGGTTACCTTAAGCACACAGCAAAA
66 GGGTTACCTTAAGCACACAGC-GAA
* * * *
1444380 GGGAACCAACCTAAGGATATGCCTTGGGGCCAATATGCCTACCCAATGATATCTTTA-AGTCCGT
1 GGGAACCAACCTAAGGATATGCCTTGGGGCCTATAGGCCTACCCAAGGATATCCTTAGA-TCCGT
*
1444444 AAGGTT
65 AGGGTT
1444450 TTACCAGTTG
Statistics
Matches: 224, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
89 163 0.73
90 61 0.27
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (89 bp):
GGGAACCAACCTAAGGATATGCCTTGGGGCCTATAGGCCTACCCAAGGATATCCTTAGATCCGTA
GGGTTACCTTAAGCACACAGCGAA
Found at i:1451343 original size:16 final size:16
Alignment explanation
Indices: 1451322--1451352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1451312 AGGGGCTATA
*
1451322 ACCATGCATGTCAAAT
1 ACCATGCAAGTCAAAT
1451338 ACCATGCAAGTCAAA
1 ACCATGCAAGTCAAA
1451353 CATATCATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.19
Consensus pattern (16 bp):
ACCATGCAAGTCAAAT
Found at i:1459977 original size:23 final size:24
Alignment explanation
Indices: 1459935--1459987 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
1459925 TTTCTTTCTT
1459935 TTTCTTCTTTTCGAGTGCTTTCAA
1 TTTCTTCTTTTCGAGTGCTTTCAA
* *
1459959 TTTCTTCTTTT-GAGTGCTTTGAT
1 TTTCTTCTTTTCGAGTGCTTTCAA
1459982 TTTCTT
1 TTTCTT
1459988 TGCTGGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.09, C:0.17, G:0.13, T:0.60
Consensus pattern (24 bp):
TTTCTTCTTTTCGAGTGCTTTCAA
Found at i:1464430 original size:22 final size:22
Alignment explanation
Indices: 1464402--1464444 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1464392 ATTGATCGTT
*
1464402 ATATATGATGTTTATCATGAAC
1 ATATATGATATTTATCATGAAC
1464424 ATATATGATATTTATCATGAA
1 ATATATGATATTTATCATGAA
1464445 TGATATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (22 bp):
ATATATGATATTTATCATGAAC
Found at i:1464712 original size:40 final size:40
Alignment explanation
Indices: 1464652--1464806 Score: 163
Period size: 40 Copynumber: 3.9 Consensus size: 40
1464642 GTTGCATATT
* *
1464652 TGCATATGGTGGGCATGACCTTATTTGTAATGCACTTAGG
1 TGCATATGGTGGGCACGACCTTATGTGTAATGCACTTAGG
* *
1464692 TGCATGTGGTGGGCACGACCTTATGTGTAATACACTTCA-G
1 TGCATATGGTGGGCACGACCTTATGTGTAATGCACTT-AGG
* ** * * *
1464732 TGCATATGGTGGACACTTCCTTATGGGTAATGTA-TGTCGG
1 TGCATATGGTGGGCACGACCTTATGTGTAATGCACT-TAGG
* *
1464772 TGCATATGGTGGGCACAAACTTATGTGTAA-GCACT
1 TGCATATGGTGGGCACGACCTTATGTGTAATGCACT
1464807 ACTGCGCATA
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 3 0.03
40 89 0.96
41 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (40 bp):
TGCATATGGTGGGCACGACCTTATGTGTAATGCACTTAGG
Found at i:1465675 original size:30 final size:29
Alignment explanation
Indices: 1465619--1465698 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 29
1465609 ACCTAATTAG
1465619 TATTAAAATATAAAAAATAAATTTAATAA
1 TATTAAAATATAAAAAATAAATTTAATAA
1465648 TATTAAAAATATTATAAAAAT-AA-TTAAT--
1 TATT-AAAATA-TA-AAAAATAAATTTAATAA
*
1465676 T-TTAAAATATAGAAAATGAAATT
1 TATTAAAATATAAAAAAT-AAATT
1465699 ATAAAAAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
24 5 0.11
25 2 0.05
26 8 0.18
27 3 0.07
28 1 0.02
29 4 0.09
30 11 0.25
31 4 0.09
32 6 0.14
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (29 bp):
TATTAAAATATAAAAAATAAATTTAATAA
Found at i:1465799 original size:17 final size:17
Alignment explanation
Indices: 1465774--1465808 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1465764 AGGTTCTAAT
*
1465774 TCTAATTTCTTTTTACA
1 TCTAATTTCTTTTAACA
*
1465791 TCTATTTTCTTTTAACA
1 TCTAATTTCTTTTAACA
1465808 T
1 T
1465809 TACCAAGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (17 bp):
TCTAATTTCTTTTAACA
Found at i:1466078 original size:20 final size:21
Alignment explanation
Indices: 1466046--1466092 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
1466036 TATCTTTCCA
1466046 GTCATGTATTTA-TAACACAT
1 GTCATGTATTTACTAACACAT
1466066 GTCATGT-TCTTATGCTAACACAT
1 GTCATGTAT-TTA--CTAACACAT
1466089 GTCA
1 GTCA
1466093 GATGTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 10 0.43
23 12 0.52
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (21 bp):
GTCATGTATTTACTAACACAT
Found at i:1476388 original size:31 final size:31
Alignment explanation
Indices: 1476319--1476409 Score: 128
Period size: 31 Copynumber: 2.9 Consensus size: 31
1476309 TATGCTTATC
* *
1476319 TGGGTAGCAATAAAAATTTGCCCGTGATATT
1 TGGGTAGGAATAAAAATTTGCCTGTGATATT
1476350 TGGGTAGGAATAAAAATTTGCCTGTGATATT
1 TGGGTAGGAATAAAAATTTGCCTGTGATATT
* * * *
1476381 TGGGTAGGAATGAAACTCTGCCTATGATA
1 TGGGTAGGAATAAAAATTTGCCTGTGATA
1476410 ATGTCTTCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (31 bp):
TGGGTAGGAATAAAAATTTGCCTGTGATATT
Found at i:1476982 original size:20 final size:20
Alignment explanation
Indices: 1476935--1476982 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1476925 TAGCTTCACG
*
1476935 GATGACTTTTCATCACCAAG
1 GATGACTTTTCATCACCAAA
*
1476955 GATAACTTTTCATCACCAAA
1 GATGACTTTTCATCACCAAA
1476975 GATGACTT
1 GATGACTT
1476983 CAACTCATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (20 bp):
GATGACTTTTCATCACCAAA
Found at i:1479611 original size:39 final size:40
Alignment explanation
Indices: 1479525--1479611 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
1479515 AGGGTACTAA
* *
1479525 GTGCATATGGTTGGCACGACCTTATAAGTAATGCACTTCG
1 GTGCATATGGTGGGCACGACCTTATAAGTAATGCACTACG
**
1479565 GTGCATATGGTGGGCACGACCTTATGTGTAA-GCACTACG
1 GTGCATATGGTGGGCACGACCTTATAAGTAATGCACTACG
*
1479604 TTGCATAT
1 GTGCATAT
1479612 ATTTGACTCG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 14 0.33
40 28 0.67
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (40 bp):
GTGCATATGGTGGGCACGACCTTATAAGTAATGCACTACG
Found at i:1487064 original size:25 final size:27
Alignment explanation
Indices: 1487008--1487064 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
1486998 CAAGTTAGAA
*
1487008 AAATTAAAACAACAATTAAAGGAAAAT
1 AAATTAAAACAACAATTAAAAGAAAAT
* * *
1487035 GAATTAAAA-AA-AATTAAAAGTAATT
1 AAATTAAAACAACAATTAAAAGAAAAT
1487060 AAATT
1 AAATT
1487065 CAACTGGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 15 0.60
26 2 0.08
27 8 0.32
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.25
Consensus pattern (27 bp):
AAATTAAAACAACAATTAAAAGAAAAT
Found at i:1488529 original size:137 final size:137
Alignment explanation
Indices: 1488290--1488875 Score: 567
Period size: 137 Copynumber: 4.3 Consensus size: 137
1488280 CTAAAATGTG
* * * *
1488290 GTCTCTAATTATTAATACTAACCAAGTTTAA-TATATTATGGATCAAATAATTGAA-ATG-AAAT
1 GTCTCTAA-TATTAATCCTAACCAATTTTAACCA-ATTATGGATCGAATAATT-AAGATGAAAAT
* * * * *
1488352 CTTGGGCATAAATACGAGGACCAAATCAATAATTCACCTAA-ATTAAAGACTAAAGTGAAATTAA
63 C--GGGCATAAATGCGAGGACCAAATAAAAAATTCTCCTAATATTAAGGACTAAAGTGAAATTAA
*
1488416 GCCTAAAATGGA
126 GCCTAAAATAGA
* * *
1488428 GGT-TCTAATATTAATCCTAACCTATTTTCACCAATTACGGATCGAATAATTAAGATGGAAAATC
1 -GTCTCTAATATTAATCCTAACCAATTTTAACCAATTATGGATCGAATAATTAAGAT-GAAAATC
* * ** * * * * *
1488492 GGGCAAAAATGCAAGGAGAAAATTATAAAGTCTCCTAATTTTTAGGACTAAAGTGAAATTAAGCC
64 GGGCATAAATGCGAGGACCAAATAAAAAATTCTCCTAATATTAAGGACTAAAGTGAAATTAAGCC
* *
1488557 TAAATTGGA
129 TAAAATAGA
** * * * *
1488566 GGATCTAAGATTAATCCTAACCAATTTTAACCAATTATGGATTGAATAATTGAGATGAAACCTC-
1 GTCTCTAATATTAATCCTAACCAATTTTAACCAATTATGGATCGAATAATTAAGATGAAA-ATCG
* * * * **
1488630 AGCATAAATGTGACGACCAAATAAAAAATTCTCCTAATTTTAAGGACTAAAGTGAAATTAAGTTT
65 GGCATAAATGCGAGGACCAAATAAAAAATTCTCCTAATATTAAGGACTAAAGTGAAATTAAGCCT
1488695 AAAATAGA
130 AAAATAGA
* * * * * *
1488703 GTCTCTAATATTAATCTTAACCAATTTTAATCAATTATGGATCAAATAATTAAAATAGAACATAG
1 GTCTCTAATATTAATCCTAACCAATTTTAACCAATTATGGATCGAATAATTAAGAT-GAAAATCG
* * ** * **
1488768 GGCATAAATGCGAGGATCAAATAACAAATTCAAC-AAAATTAAGGGACTAAA-TGAAATTAAGGA
65 GGCATAAATGCGAGGACCAAATAAAAAATTCTCCTAATATTAA-GGACTAAAGTGAAATTAAGCC
*
1488831 AAAAATAGA
129 TAAAATAGA
*
1488840 GTCTCTAATATTAATCCTAACAAATTTTAACCAATT
1 GTCTCTAATATTAATCCTAACCAATTTTAACCAATT
1488876 TTTTAATTGA
Statistics
Matches: 366, Mismatches: 71, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
136 2 0.01
137 232 0.63
138 125 0.34
139 7 0.02
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (137 bp):
GTCTCTAATATTAATCCTAACCAATTTTAACCAATTATGGATCGAATAATTAAGATGAAAATCGG
GCATAAATGCGAGGACCAAATAAAAAATTCTCCTAATATTAAGGACTAAAGTGAAATTAAGCCTA
AAATAGA
Found at i:1488817 original size:275 final size:274
Alignment explanation
Indices: 1488300--1488875 Score: 620
Period size: 275 Copynumber: 2.1 Consensus size: 274
1488290 GTCTCTAATT
* * * * **
1488300 ATTAATACTAACCAAGTTTAA-TATATTATGGATCAAATAATTGAAATGAAATCTTGGGCATAAA
1 ATTAATCCTAACCAATTTTAACCA-ATTATGGATCAAATAATTGAAATGAAATCCTCAGCATAAA
* * * *
1488364 TACGAGGACCAAATCAATAATTCACCTAAATTAAAGACTAAAGTGAAATTAAGCCTAAAATGGAG
65 TACGACGACCAAATAAAAAATTCACCTAAATTAAAGACTAAAGTGAAATTAAGCCTAAAATAGAG
* * * * * *
1488429 GTTCTAATATTAATCCTAACCTATTTTCACCAATTACGGATCGAATAATTAAGATGGAAAATCGG
130 GTTCTAATATTAATCCTAACCAATTTTAACCAATTACGGATCAAATAATTAAAATAGAAAATAGG
* * ** ** * **
1488494 GCAAAAATGCAAGGAGAAAATTATAAAGTCTCCTAATTTTTAGGACTAAAGTGAAATTAAGCCTA
195 GCAAAAATGCAAGGAGAAAATAACAAAGTCAACTAAAATTAAGGACTAAA-TGAAATTAAGCAAA
* *
1488559 AATTGGAGGATCTAAG
259 AAATAGAGGATCTAAG
** *
1488575 ATTAATCCTAACCAATTTTAACCAATTATGGATTGAATAATTGAGATGAAA-CCTCAGCATAAAT
1 ATTAATCCTAACCAATTTTAACCAATTATGGATCAAATAATTGAAATGAAATCCTCAGCATAAAT
** * * * **
1488639 GTGACGACCAAATAAAAAATTCTCCTAATTTTAAGGACTAAAGTGAAATTAAGTTTAAAATAGA-
66 ACGACGACCAAATAAAAAATTCACCTAA-ATTAAAGACTAAAGTGAAATTAAGCCTAAAATAGAG
* * * *
1488703 GTCTCTAATATTAATCTTAACCAATTTTAATCAATTATGGATCAAATAATTAAAATAGAACATAG
130 GT-TCTAATATTAATCCTAACCAATTTTAACCAATTACGGATCAAATAATTAAAATAGAAAATAG
* * ** * *
1488768 GGCATAAATGCGAGGATCAAATAACAAATTCAAC-AAAATTAAGGGACTAAATGAAATTAAGGAA
194 GGCAAAAATGCAAGGAGAAAATAACAAAGTCAACTAAAATTAA-GGACTAAATGAAATTAAGCAA
** *
1488832 AAAATAGAGTCTCTAAT
258 AAAATAGAGGATCTAAG
*
1488849 ATTAATCCTAACAAATTTTAACCAATT
1 ATTAATCCTAACCAATTTTAACCAATT
1488876 TTTTAATTGA
Statistics
Matches: 246, Mismatches: 51, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
274 87 0.35
275 158 0.64
276 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.29
Consensus pattern (274 bp):
ATTAATCCTAACCAATTTTAACCAATTATGGATCAAATAATTGAAATGAAATCCTCAGCATAAAT
ACGACGACCAAATAAAAAATTCACCTAAATTAAAGACTAAAGTGAAATTAAGCCTAAAATAGAGG
TTCTAATATTAATCCTAACCAATTTTAACCAATTACGGATCAAATAATTAAAATAGAAAATAGGG
CAAAAATGCAAGGAGAAAATAACAAAGTCAACTAAAATTAAGGACTAAATGAAATTAAGCAAAAA
ATAGAGGATCTAAG
Found at i:1489220 original size:14 final size:14
Alignment explanation
Indices: 1489186--1489214 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1489176 AAAATAATTG
1489186 AAATAAATACAGAA
1 AAATAAATACAGAA
1489200 AAATAAATACA-AA
1 AAATAAATACAGAA
1489213 AA
1 AA
1489215 TTTAAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (14 bp):
AAATAAATACAGAA
Found at i:1495384 original size:112 final size:112
Alignment explanation
Indices: 1495011--1495436 Score: 619
Period size: 111 Copynumber: 3.8 Consensus size: 112
1495001 AAAAGTATTT
1495011 ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
1 ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
* * * * *
1495076 TTTACCCGTTATATTGTAAAGTATTGATATATTTTTATAAAAAGGATCA
66 TTTATCTGTTATATTGTAAAGTATCGATAT-TTTTTATAAAAA-TATCG
* * * *
1495125 ATACTTTCAACATATTAGGTAACTCTTTATCGGTTTTGTCATAAT-AAA-TTG-TTTGTCATATT
1 ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
* *
1495187 TTTA-CATGTTATATTGTAAAGTATCAATACATTTTTATAAAAATGATCG
66 TTTATC-TGTTATATTGTAAAGTATCGATA-TTTTTTATAAAAAT-ATCG
* *
1495236 ATACTTTCAACATATTAGGTAGCTCTTTACCGGTTTTGTCATAATGAAATTGGTTTTGTCATATT
1 ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
1495301 TTTATCTGTTATATTGTAAAGTATCGATATTTGTTTAT-AAAATATCG
66 TTTATCTGTTATATTGTAAAGTATCGATATTT-TTTATAAAAATATCG
* * *
1495348 ATACTTTCAACATATCAAGTAGCTATTTACCGGTTTTGTCATAATGAAACTGATTTTGTCATATT
1 ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
1495413 TTTATCTGTTATATTGTAAAGTAT
66 TTTATCTGTTATATTGTAAAGTAT
1495437 TAATACATTT
Statistics
Matches: 284, Mismatches: 20, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
110 1 0.00
111 93 0.33
112 93 0.33
113 12 0.04
114 84 0.30
115 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (112 bp):
ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
TTTATCTGTTATATTGTAAAGTATCGATATTTTTTATAAAAATATCG
Found at i:1495450 original size:112 final size:113
Alignment explanation
Indices: 1495011--1495453 Score: 637
Period size: 112 Copynumber: 3.9 Consensus size: 113
1495001 AAAAGTATTT
1495011 ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
1 ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
* * ** * * *
1495076 TTTACCCGTTATATTGTAAAGTATTGATATATTTTTATAAAAAGGATCA
66 TTTATCTGTTATATTGTAAAGTATCAATACATTTTTATAAAAA-TATCG
* * * *
1495125 ATACTTTCAACATATTAGGTAACTCTTTATCGGTTTTGTCATAAT-AAA-TTG-TTTGTCATATT
1 ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
1495187 TTTA-CATGTTATATTGTAAAGTATCAATACATTTTTATAAAAATGATCG
66 TTTATC-TGTTATATTGTAAAGTATCAATACATTTTTATAAAAAT-ATCG
* *
1495236 ATACTTTCAACATATTAGGTAGCTCTTTACCGGTTTTGTCATAATGAAATTGGTTTTGTCATATT
1 ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
* *
1495301 TTTATCTGTTATATTGTAAAGTATCGATA-TTTGTTTAT-AAAATATCG
66 TTTATCTGTTATATTGTAAAGTATCAATACATT-TTTATAAAAATATCG
* * *
1495348 ATACTTTCAACATATCAAGTAGCTATTTACCGGTTTTGTCATAATGAAACTGATTTTGTCATATT
1 ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
*
1495413 TTTATCTGTTATATTGTAAAGTATTAATACATTTTTATAAA
66 TTTATCTGTTATATTGTAAAGTATCAATACATTTTTATAAA
1495454 GTATTAATAA
Statistics
Matches: 297, Mismatches: 23, Indels: 19
0.88 0.07 0.06
Matches are distributed among these distances:
110 1 0.00
111 94 0.32
112 101 0.34
113 16 0.05
114 84 0.28
115 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (113 bp):
ATACTTTCAACATATCAGGTAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATT
TTTATCTGTTATATTGTAAAGTATCAATACATTTTTATAAAAATATCG
Found at i:1495705 original size:71 final size:72
Alignment explanation
Indices: 1495585--1495793 Score: 273
Period size: 73 Copynumber: 2.9 Consensus size: 72
1495575 GCCTATTTTG
*
1495585 TTTTTTACCGTTTACATTATTAGCAACCTT-AAAAAAATCGGTAGGTATTTTAATGTAATATGTA
1 TTTTTTACCGTTTACATTATTAGAAACCTTCAAAAAAATCGGTAGGTATTTTAATGTAATA-GTA
1495649 GC-ACTA-
65 GCGACTAT
* * *
1495655 TTTTTTATCGTTTATATTATTAGAAACCTTCAAAAAAATCGGTACGTATTTTAATGTAATAGATA
1 TTTTTTACCGTTTACATTATTAGAAACCTTCAAAAAAATCGGTAGGTATTTTAATGTAATAG-TA
*
1495720 GCGCCTAT
65 GCGACTAT
* ** *
1495728 TTTTTTACCTTTTACATTATTA-ACAACCTTCAAAAAACCCGGTAGGTTTTTTAATGTAATAAGT
1 TTTTTTACCGTTTACATTATTAGA-AACCTTCAAAAAAATCGGTAGGTATTTTAATGTAAT-AGT
1495792 AG
64 AG
1495794 TTTAAATTTT
Statistics
Matches: 121, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
70 28 0.23
71 33 0.27
72 4 0.03
73 54 0.45
74 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (72 bp):
TTTTTTACCGTTTACATTATTAGAAACCTTCAAAAAAATCGGTAGGTATTTTAATGTAATAGTAG
CGACTAT
Found at i:1496057 original size:23 final size:23
Alignment explanation
Indices: 1496006--1496057 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
1495996 TAACCTATTT
*
1496006 TATTATATAAGCGCTACATATTA
1 TATTATATAAGCGCTACATAATA
** *
1496029 CGTTATATAAGCGCTACCTAATA
1 TATTATATAAGCGCTACATAATA
1496052 TATTAT
1 TATTAT
1496058 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (23 bp):
TATTATATAAGCGCTACATAATA
Found at i:1496214 original size:23 final size:23
Alignment explanation
Indices: 1496166--1496215 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
1496156 ACGTATTTTA
* *
1496166 TTATATAAGCTCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
1496189 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
1496212 TTAT
1 TTAT
1496216 TGTGCTTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:1496339 original size:158 final size:158
Alignment explanation
Indices: 1495862--1496350 Score: 753
Period size: 158 Copynumber: 3.1 Consensus size: 158
1495852 AGTAAGTAAT
** * * *
1495862 TACCTATTTTGTTACATAAGCGCTACCTAATATGTTATTATGCTTAATAATGTTTCCAGTAATGA
1 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTAATAATGTTTCCAGTAATTA
* * * * *
1495927 ACTGGTTATGTTATCATTGGTAACATTCTAAGCGTTTACCTAATATGTTGTAATATCAAATTAAG
66 ACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
1495992 TAATTAACCTATTTTATTATATAAGCGC
131 TAATTAACCTATTTTATTATATAAGCGC
* * * *
1496020 TACATATTACGTTATATAAGCGCTACCTAATATATTATTGTACTTGATAATGTTTCCAGTAATTA
1 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTAATAATGTTTCCAGTAATTA
* * *
1496085 ACCGGTTATGTTATCCTTTGTAACATTTTAGGCGTTTACCTAATATGTTATAATAACAAATTAAA
66 ACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
* * *
1496150 TATTTAACGTATTTTATTATATAAGCTC
131 TAATTAACCTATTTTATTATATAAGCGC
* *
1496178 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTCATAATGTTTCTAGTAATTA
1 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTAATAATGTTTCCAGTAATTA
*
1496243 ACCGGTTATGTTATCCTTGGTAACATTTTAGGTGTTTACCTAATATGTTGTAATAACAAATTAAG
66 ACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
1496308 TAATTAACCTATTTTATTATATAAGCGC
131 TAATTAACCTATTTTATTATATAAGCGC
* *
1496336 TACCTAATATGTTAT
1 TACCTATTACGTTAT
1496351 TGTATTTTAT
Statistics
Matches: 297, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
158 297 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (158 bp):
TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTAATAATGTTTCCAGTAATTA
ACCGGTTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
TAATTAACCTATTTTATTATATAAGCGC
Found at i:1501656 original size:128 final size:128
Alignment explanation
Indices: 1501516--1501748 Score: 403
Period size: 128 Copynumber: 1.8 Consensus size: 128
1501506 TAAAATCTGC
1501516 TTAAATAAAAATTCATCTCAATAGCAATTAAAATATAGTTTACTAAAATACTAACCATGCAAACT
1 TTAAATAAAAATTCATCTCAATAGCAATTAAAATATAGTTTACTAAAATACTAACCATGCAAACT
* *
1501581 ATTATTTATGTCAAATATTATTAAGTACTATCCATTATAAGCTAATATTTTAAGTACTACCCA
66 ATTATTTATATCAAATATTATTAAGTACTATCCACTATAAGCTAATATTTTAAGTACTACCCA
* * * *
1501644 TTAAATAAAAATTTATCTCGATAGTAATTAAAATATAGTTTACTATAATACTAACCATGCAAACT
1 TTAAATAAAAATTCATCTCAATAGCAATTAAAATATAGTTTACTAAAATACTAACCATGCAAACT
*
1501709 ATTATTTATATCTAATATTATTAAGTACTATCCACTATAA
66 ATTATTTATATCAAATATTATTAAGTACTATCCACTATAA
1501749 ACTAGTGTGT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 98 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (128 bp):
TTAAATAAAAATTCATCTCAATAGCAATTAAAATATAGTTTACTAAAATACTAACCATGCAAACT
ATTATTTATATCAAATATTATTAAGTACTATCCACTATAAGCTAATATTTTAAGTACTACCCA
Found at i:1504210 original size:15 final size:15
Alignment explanation
Indices: 1504190--1504219 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1504180 AATCTAAACG
*
1504190 ACATAAAACTGTCAT
1 ACATAAAAATGTCAT
1504205 ACATAAAAATGTCAT
1 ACATAAAAATGTCAT
1504220 TCTCAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.27
Consensus pattern (15 bp):
ACATAAAAATGTCAT
Found at i:1504822 original size:20 final size:20
Alignment explanation
Indices: 1504797--1504838 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1504787 ATTAACCACC
1504797 TAATAT-AAGGTAGAATGACA
1 TAATATGAA-GTAGAATGACA
*
1504817 TAATATGAAGTAGGATGACA
1 TAATATGAAGTAGAATGACA
1504837 TA
1 TA
1504839 CATCTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATATGAAGTAGAATGACA
Found at i:1506448 original size:12 final size:12
Alignment explanation
Indices: 1506431--1506456 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1506421 TTTACTGATT
1506431 ATTTGTAATATA
1 ATTTGTAATATA
1506443 ATTTGTAATATA
1 ATTTGTAATATA
1506455 AT
1 AT
1506457 ATTTGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATTTGTAATATA
Found at i:1508615 original size:21 final size:21
Alignment explanation
Indices: 1508591--1508667 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
1508581 TATAATAGTA
*
1508591 TATAATATATATTTTTAAAAT
1 TATAATATATATTTATAAAAT
* *
1508612 TATAACATAT-TTTAAAAAATT
1 TATAATATATATTTATAAAA-T
*
1508633 TATATATATACTATATATATAAA-
1 TATA-ATATA-TATTTATA-AAAT
1508656 TATAATATATAT
1 TATAATATATAT
1508668 AATATACATC
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 7 0.16
21 17 0.38
22 9 0.20
23 5 0.11
24 4 0.09
25 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAATATATATTTATAAAAT
Found at i:1508638 original size:2 final size:2
Alignment explanation
Indices: 1508633--1508833 Score: 112
Period size: 2 Copynumber: 107.0 Consensus size: 2
1508623 TTAAAAAATT
*
1508633 TA TA TA TA TA CTA TA TA TA TA AA TA TA -A TA TA TA TA -A TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
1508674 CA TC T- TT TT TA -A AA TA -A TA TA TA CTA CA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * * *
1508713 TA CTA TA TA -A TA T- TA TA TA TA TA TA TC TT TT TA -A AA GA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1508753 TA TA TA TA TA TA TA TA TA TA T- TG TA -A TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1508792 AA TA T- TA TA -A TA TA TA T- TA TA CTA TA -A TA AA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
1508830 TA TA
1 TA TA
1508834 ACAATATTAA
Statistics
Matches: 159, Mismatches: 19, Indels: 42
0.72 0.09 0.19
Matches are distributed among these distances:
1 17 0.11
2 134 0.84
3 8 0.05
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1508789 original size:35 final size:33
Alignment explanation
Indices: 1508633--1508833 Score: 142
Period size: 33 Copynumber: 6.3 Consensus size: 33
1508623 TTAAAAAATT
*
1508633 TATATATATACTATATATATAAATATAATATATA
1 TATATATATA-TATATATTTAAATATAATATATA
* * *
1508667 TA-ATATACATCT-TTTTTAAA-ATAATATATA
1 TATATATATATATATATTTAAATATAATATATA
* *
1508697 CTACATATATATA-ATA--TACTATATAATAT-TA
1 -TATATATATATATATATTTA-AATATAATATATA
* *
1508728 TATATATATATCT-T-TTTAAA-A-GATATATA
1 TATATATATATATATATTTAAATATAATATATA
1508757 TATATATATATATATATTGTAATATATAATATATA
1 TATATATATATATATATT-TAA-ATATAATATATA
* * *
1508792 AATAT-TATA-ATATATATTATACTATAATAAATA
1 TATATATATATATATAT-TTA-AATATAATATATA
1508825 TATA-ATATA
1 TATATATATA
1508834 ACAATATTAA
Statistics
Matches: 131, Mismatches: 18, Indels: 37
0.70 0.10 0.20
Matches are distributed among these distances:
28 4 0.03
29 15 0.11
30 25 0.19
31 15 0.11
32 20 0.15
33 32 0.24
34 9 0.07
35 11 0.08
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (33 bp):
TATATATATATATATATTTAAATATAATATATA
Found at i:1508834 original size:33 final size:32
Alignment explanation
Indices: 1508636--1508833 Score: 52
Period size: 29 Copynumber: 6.4 Consensus size: 32
1508626 AAAAATTTAT
*
1508636 ATATATACTATATAT-ATAAATATAATATATATA
1 ATATATATTATATATAATAAATAT-ATA-ATATA
* * * * * *
1508669 ATATACATCT-TTTTTAAAATAATATATACTA-C
1 ATATATAT-TATATATAATA-AATATATAATATA
*
1508701 ATATATATAATATACT-ATATAATAT-T-ATAT-
1 ATATATATTATATA-TAATA-AATATATAATATA
*
1508731 ATATATATCT-T-TTTAA-AAGATATAT-ATAT-
1 ATATATAT-TATATATAATAA-ATATATAATATA
**
1508760 ATATATA-TATATATTGT-AATATATAATAT-
1 ATATATATTATATATAATAAATATATAATATA
* *
1508789 ATAAATATTATA-ATATATATTATACTATAATA-A
1 ATATATATTATATATA-ATA-AATA-TATAATATA
*
1508822 ATATATAATATA
1 ATATATATTATA
1508834 ACAATATTAA
Statistics
Matches: 121, Mismatches: 24, Indels: 40
0.65 0.13 0.22
Matches are distributed among these distances:
27 2 0.02
28 13 0.11
29 29 0.24
30 16 0.13
31 1 0.01
32 20 0.17
33 29 0.24
34 6 0.05
35 5 0.04
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (32 bp):
ATATATATTATATATAATAAATATATAATATA
Found at i:1515798 original size:23 final size:22
Alignment explanation
Indices: 1515722--1515804 Score: 62
Period size: 23 Copynumber: 3.7 Consensus size: 22
1515712 TATTGTTCGT
1515722 GAACATGTTCATTTAATATTCA
1 GAACATGTTCATTTAATATTCA
* * *
1515744 TAA-ATGTAT-ATGTTTATGTTCA
1 GAACATGT-TCAT-TTAATATTCA
* *
1515766 AAAGCGTGTTCATTTAATATTCA
1 GAA-CATGTTCATTTAATATTCA
*
1515789 CGAACATGTTCGTTTA
1 -GAACATGTTCATTTA
1515805 TGGTTCATTT
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
21 6 0.13
22 13 0.29
23 19 0.42
24 7 0.16
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (22 bp):
GAACATGTTCATTTAATATTCA
Found at i:1515847 original size:22 final size:22
Alignment explanation
Indices: 1515795--1515849 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
1515785 TTCACGAACA
*
1515795 TGTTCGTTTATGGTTCATTTAG
1 TGTTCGTTTATGGTTCATCTAG
*
1515817 TGTTTGTTTA-GTGTTCATCTA-
1 TGTTCGTTTATG-GTTCATCTAG
1515838 TCGTTCGTTTAT
1 T-GTTCGTTTAT
1515850 ATGTTCAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.13, C:0.11, G:0.20, T:0.56
Consensus pattern (22 bp):
TGTTCGTTTATGGTTCATCTAG
Found at i:1516101 original size:24 final size:24
Alignment explanation
Indices: 1516064--1516140 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
1516054 AACATAAATG
*
1516064 AATGAG-TTAGTAAACGAGCTCAAA
1 AATGAGCTTA-TAAACGAGCTCATA
* *
1516088 AATGAGCTTATAAATGAGGTCATA
1 AATGAGCTTATAAACGAGCTCATA
* * *
1516112 AACGAGCTCA-AAACGAGCTTATA
1 AATGAGCTTATAAACGAGCTCATA
1516135 AATGAG
1 AATGAG
1516141 GTCATAAATG
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
23 15 0.35
24 25 0.58
25 3 0.07
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (24 bp):
AATGAGCTTATAAACGAGCTCATA
Found at i:1516102 original size:12 final size:12
Alignment explanation
Indices: 1516074--1516151 Score: 77
Period size: 12 Copynumber: 6.6 Consensus size: 12
1516064 AATGAGTTAG
*
1516074 TAAACGAGCTCA
1 TAAATGAGCTCA
* *
1516086 AAAATGAGCTTA
1 TAAATGAGCTCA
*
1516098 TAAATGAGGTCA
1 TAAATGAGCTCA
*
1516110 TAAACGAGCTCA
1 TAAATGAGCTCA
* *
1516122 -AAACGAGCTTA
1 TAAATGAGCTCA
*
1516133 TAAATGAGGTCA
1 TAAATGAGCTCA
1516145 TAAATGA
1 TAAATGA
1516152 AAATAAATAA
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
11 10 0.19
12 43 0.81
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (12 bp):
TAAATGAGCTCA
Found at i:1516137 original size:35 final size:36
Alignment explanation
Indices: 1516074--1516148 Score: 134
Period size: 35 Copynumber: 2.1 Consensus size: 36
1516064 AATGAGTTAG
*
1516074 TAAACGAGCTCAAAAATGAGCTTATAAATGAGGTCA
1 TAAACGAGCTCAAAAACGAGCTTATAAATGAGGTCA
1516110 TAAACGAGCTC-AAAACGAGCTTATAAATGAGGTCA
1 TAAACGAGCTCAAAAACGAGCTTATAAATGAGGTCA
1516145 TAAA
1 TAAA
1516149 TGAAAATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 27 0.71
36 11 0.29
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (36 bp):
TAAACGAGCTCAAAAACGAGCTTATAAATGAGGTCA
Found at i:1520720 original size:37 final size:38
Alignment explanation
Indices: 1520679--1520979 Score: 331
Period size: 36 Copynumber: 8.2 Consensus size: 38
1520669 TTCGTCCCAT
*
1520679 TATATATATATATAG-TTTAAAAACATTTTTAAAAACA
1 TATATATATATATAGTTTTTAAAACATTTTTAAAAACA
* * *
1520716 TATATATAATATATAGTTTTGAAAACATGTTTGAAAACA
1 TATATAT-ATATATAGTTTTTAAAACATTTTTAAAAACA
* * *
1520755 TTTATATATTAAATAGTTTTTAAAACATTTTGAAAATA-A
1 TATATATA-TATATAGTTTTTAAAACATTTTTAAAA-ACA
1520794 -ATATA-ATATATAGTTTTTAAAACATTTTT-AAAAC-
1 TATATATATATATAGTTTTTAAAACATTTTTAAAAACA
* *
1520828 TATATATAT-TATAATTTTTAAAACATTTTGAAAATA-A
1 TATATATATATATAGTTTTTAAAACATTTTTAAAA-ACA
* *
1520865 -ATATA-ATATATAGTTTTTAAAACATTTTTGAAAATA
1 TATATATATATATAGTTTTTAAAACATTTTTAAAAACA
* *
1520901 TATATAT-TATATAGTTTTTAAAACATTTTTGAAAATA
1 TATATATATATATAGTTTTTAAAACATTTTTAAAAACA
* * *
1520938 TATATAT-TATATAGTTTTTTAAACA-TTTTGAAAATA
1 TATATATATATATAGTTTTTAAAACATTTTTAAAAACA
1520974 TATATA
1 TATATA
1520980 GTTTTAAAAA
Statistics
Matches: 232, Mismatches: 18, Indels: 29
0.83 0.06 0.10
Matches are distributed among these distances:
34 1 0.00
35 30 0.13
36 71 0.31
37 68 0.29
38 13 0.06
39 48 0.21
40 1 0.00
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
TATATATATATATAGTTTTTAAAACATTTTTAAAAACA
Found at i:1520863 original size:71 final size:72
Alignment explanation
Indices: 1520679--1520979 Score: 394
Period size: 71 Copynumber: 4.1 Consensus size: 72
1520669 TTCGTCCCAT
* * * * *
1520679 TATATATA-TATATAGTTTAAAAACATTTTTAAAAACATATATATAATATATAGTTTTGAAAACA
1 TATATATATTATATATTTTTAAAACATTTTT-GAAA-ATAAATATAATATATAGTTTTTAAAACA
1520743 TGTTTGAAAACA
64 T-TTTG-AAA-A
* *
1520755 TTTATATATTAAATAGTTTTTAAAACA-TTTTGAAAATAAATATAATATATAGTTTTTAAAACAT
1 TATATATATTATATA-TTTTTAAAACATTTTTGAAAATAAATATAATATATAGTTTTTAAAACAT
*
1520819 TTTTAAAA
65 TTTGAAAA
1520827 CTATATATATTATA-ATTTTTAAAACA-TTTTGAAAATAAATATAATATATAGTTTTTAAAACAT
1 -TATATATATTATATATTTTTAAAACATTTTTGAAAATAAATATAATATATAGTTTTTAAAACA-
1520890 TTTTGAAAA
64 TTTTGAAAA
* * *
1520899 TATATATATTATATAGTTTTTAAAACATTTTTGAAAATATATATATTATATAGTTTTTTAAACAT
1 TATATATATTATATA-TTTTTAAAACATTTTTGAAAATAAATATAATATATAGTTTTTAAAACAT
1520964 TTTGAAAA
65 TTTGAAAA
1520972 TATATATA
1 TATATATA
1520980 GTTTTAAAAA
Statistics
Matches: 204, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
71 60 0.29
72 11 0.05
73 42 0.21
74 36 0.18
75 27 0.13
76 10 0.05
77 9 0.04
78 9 0.04
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (72 bp):
TATATATATTATATATTTTTAAAACATTTTTGAAAATAAATATAATATATAGTTTTTAAAACATT
TTGAAAA
Found at i:1521001 original size:29 final size:30
Alignment explanation
Indices: 1520945--1521025 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 30
1520935 ATATATATAT
**
1520945 TATATAGTTTTTTAAACA-TTTTGAAAATA
1 TATATAGTTTTAAAAACATTTTTGAAAATA
*
1520974 TATATAGTTTTAAAAACATTTTTG-AAATT
1 TATATAGTTTTAAAAACATTTTTGAAAATA
* *
1521003 TATATTA-TTTTGAAAATATTTTT
1 TATA-TAGTTTTAAAAACATTTTT
1521026 TAGTTTTCGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 38 0.84
30 7 0.16
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (30 bp):
TATATAGTTTTAAAAACATTTTTGAAAATA
Found at i:1521037 original size:20 final size:19
Alignment explanation
Indices: 1521010--1521047 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1521000 ATTTATATTA
*
1521010 TTTTGAAAATATTTTTTAG
1 TTTTGAAAACATTTTTTAG
1521029 TTTTCGAAAACATTTTTTA
1 TTTT-GAAAACATTTTTTA
1521048 AAAATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (19 bp):
TTTTGAAAACATTTTTTAG
Found at i:1522003 original size:13 final size:13
Alignment explanation
Indices: 1521970--1522007 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
1521960 TTATTTAACA
*
1521970 TTTTTTAATTTGT
1 TTTTTTATTTTGT
1521983 TTTATTTATTTTGT
1 TTT-TTTATTTTGT
1521997 TTTTTTATTTT
1 TTTTTTATTTT
1522008 TCTATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (13 bp):
TTTTTTATTTTGT
Found at i:1522007 original size:8 final size:8
Alignment explanation
Indices: 1521969--1522019 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
1521959 TTTATTTAAC
*
1521969 ATTTTTTA
1 ATTTTTTT
1521977 ATTTGTTTT
1 ATTT-TTTT
1521986 ATTTATTTT
1 ATTT-TTTT
*
1521995 GTTTTTTT
1 ATTTTTTT
*
1522003 ATTTTTCT
1 ATTTTTTT
1522011 ATTTTTTT
1 ATTTTTTT
1522019 A
1 A
1522020 GTTTCAGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
8 22 0.61
9 14 0.39
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (8 bp):
ATTTTTTT
Found at i:1526261 original size:17 final size:17
Alignment explanation
Indices: 1526239--1526274 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1526229 CTACCCGACC
*
1526239 GACCCGACCCGACTGTT
1 GACCCGACCCGACCGTT
1526256 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
1526273 GA
1 GA
1526275 TCGTTGACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.42, G:0.25, T:0.14
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:1533476 original size:24 final size:23
Alignment explanation
Indices: 1533441--1533495 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
1533431 TGACCTGTTT
** *
1533441 CGACCAGTCCGAACCGGTCTGACC
1 CGACCA-TCCGAACCGACCCGACC
*
1533465 CGACCATACCGACCCGACCCGACC
1 CGACCAT-CCGAACCGACCCGACC
1533489 CGACCAT
1 CGACCAT
1533496 TGACCCGACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.24, C:0.47, G:0.20, T:0.09
Consensus pattern (23 bp):
CGACCATCCGAACCGACCCGACC
Found at i:1533502 original size:17 final size:17
Alignment explanation
Indices: 1533480--1533517 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1533470 ATACCGACCC
1533480 GACCCGACCCGACCATT
1 GACCCGACCCGACCATT
* *
1533497 GACCCGACTCGACCGTT
1 GACCCGACCCGACCATT
1533514 GACC
1 GACC
1533518 GTGACCGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.13
Consensus pattern (17 bp):
GACCCGACCCGACCATT
Found at i:1536226 original size:41 final size:41
Alignment explanation
Indices: 1536123--1536243 Score: 147
Period size: 41 Copynumber: 2.9 Consensus size: 41
1536113 AAGGGGCCAA
* *
1536123 CCACGATTTCAAGTCCACGACAGAGGATATCGTACCCACAAAG
1 CCACGATTTCAA-TTCACGACAGAGGATATCGT-GCCACAAAG
* *
1536166 CCACGATTTTAATTCCACGACAGAGGATATCGTGCC-CAAAT
1 CCACGATTTCAATT-CACGACAGAGGATATCGTGCCACAAAG
1536207 CCACGATTTCAACTTCACGAC-GAAGGATATCGTGCCA
1 CCACGATTTCAA-TTCACGACAG-AGGATATCGTGCCA
1536244 TCTATACAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
40 1 0.01
41 34 0.49
42 5 0.07
43 29 0.42
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (41 bp):
CCACGATTTCAATTCACGACAGAGGATATCGTGCCACAAAG
Found at i:1536484 original size:37 final size:34
Alignment explanation
Indices: 1536443--1536749 Score: 178
Period size: 37 Copynumber: 8.6 Consensus size: 34
1536433 ACAAGGGGTC
* * *
1536443 GTCTCGCTTGAGACTAATTTACTCAAAACAAAGTTTT
1 GTCTCTCTTGAGAC-AGTTT-CTCGAAACAAA-TTTT
1536480 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCTC--GAAACAAATTTT
*
1536516 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTT
1 GTCTCTCTTGAGACAGTTT--CTCGAAACAAA-TTTT
* *
1536553 GTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATCTTT
1 GTCTCTCTTGAGACAGTTT--CTCGAAAC-AAAT-TTT
** * * ** *
1536591 GAATATGTT-TTACA---T-T--AAACAAATTTC
1 GTCTCTCTTGAGACAGTTTCTCGAAACAAATTTT
* * * *
1536618 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTT
1 GTCTCTCTTGAGACAGTTTC--TCGAAAC-AAATTTT
* *
1536655 GTCTTTTTTGAGACAGTTTCTCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCTC--GAAACAAATTTT
* *
1536691 TTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTT
1 GTCTCTCTTGAGACAGTTT--CTCGAAACAAA-TTTT
* *
1536728 GTCTCTCTTGGGACAATTTCTC
1 GTCTCTCTTGAGACAGTTTCTC
1536750 TTGGAACACC
Statistics
Matches: 211, Mismatches: 37, Indels: 46
0.72 0.13 0.16
Matches are distributed among these distances:
27 6 0.03
28 7 0.03
29 4 0.02
31 2 0.01
34 2 0.01
35 6 0.03
36 68 0.32
37 101 0.48
38 15 0.07
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (34 bp):
GTCTCTCTTGAGACAGTTTCTCGAAACAAATTTT
Found at i:1536545 original size:73 final size:72
Alignment explanation
Indices: 1536468--1536757 Score: 283
Period size: 73 Copynumber: 4.1 Consensus size: 72
1536458 AATTTACTCA
*
1536468 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGT
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGT
1536533 TTCCCTTG
65 TTCCCTTG
* * *
1536541 AAACAAATTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAA------ATCT-TTGA-ATATG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA-G
* *
1536598 TTTTACATT-
64 -TTTCCCTTG
* * ** * * * *
1536607 AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTTTTTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGT
*
1536672 TTCTCTTG
65 TTCCCTTG
* * *
1536680 AAACAAATTTTTTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGGGACAAT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGT
*
1536745 TTCTCTTG
65 TTCCCTTG
*
1536753 GAACA
1 AAACA
1536758 CCAACCTTTG
Statistics
Matches: 172, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
65 29 0.17
66 14 0.08
67 9 0.05
72 9 0.05
73 109 0.63
74 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (72 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
TCCCTTG
Found at i:1537041 original size:84 final size:84
Alignment explanation
Indices: 1536788--1537468 Score: 493
Period size: 84 Copynumber: 8.2 Consensus size: 84
1536778 TCTTGAAACA
* * * *
1536788 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCA
1 AAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
* *
1536853 AGAAAGTCTATCTG-C--C
66 AGAAGGGCTATCTGCCAAC
* * * * * * * * ** * *
1536869 -AAAGACCCTCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTATAGCATAACTCAAGGC
1 AAAAGACCTTCGAGTTCGACTACGCTAAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTC
* * * *
1536933 TAGAAGGGTTATCTGTCACC
65 GAGAAGGGCTATCTGCCAAC
** * * *
1536953 AAAAGACCTTAAAGTTTGACTACGCTAAGCTCCAAGGCATAGT-ATTTGCAGAATAGCTTAAGTC
1 AAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGGCATA-TCATTTGCAGCATAACTTAAGTC
*
1537017 GAGAAGGGCTATCTGCCATC
65 GAGAAGGGCTATCTGCCAAC
* * * * *
1537037 AAAAGACTTTCGAGATCGACTACGCTCAGCTCCAAGGTATATCATTTGAAGCATAACTTAAGTCG
1 AAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
* *
1537102 AGAAGGGTTATCTGTCAAC
66 AGAAGGGCTATCTGCCAAC
* * * ** * * * *
1537121 CAAAGACGTTCGAGTTCAACTACTTTTAGCTCCAAGACACATCATTTGCAGCATAACTTAAGTCA
1 AAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
1537186 AGAAGGGCTATCTG-C--C
66 AGAAGGGCTATCTGCCAAC
* * * * * * * * * ** * * * *
1537202 -AAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGTCACATTATTAACAACATAAGTAAAGGC
1 AAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGG-CATATCATTTGCAGCATAACTTAAGTC
* * *
1537266 TAGAAGGGTTATCTG-TAACC
65 GAGAAGGGCTATCTGCCAA-C
* * * *** * * *
1537286 AAAAGACCTTCCAGTTCGACTACACTAAGCTCCAAGGCACATCATTCATAGCATAACTCAAGGCT
1 AAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
* * *
1537351 ATAAGGGTTATCTGTC-AC
66 AGAAGGGCTATCTGCCAAC
* * * * *
1537369 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCG
1 AAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
* *
1537434 AAAAGGGTTATCTGCCAAC
66 AGAAGGGCTATCTGCCAAC
** *
1537453 CGAAGACCCTCGAGTT
1 AAAAGACCTTCGAGTT
1537469 TGATTACACT
Statistics
Matches: 472, Mismatches: 114, Indels: 25
0.77 0.19 0.04
Matches are distributed among these distances:
80 50 0.11
81 72 0.15
82 1 0.00
83 70 0.15
84 228 0.48
85 51 0.11
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (84 bp):
AAAAGACCTTCGAGTTCGACTACGCTAAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
AGAAGGGCTATCTGCCAAC
Found at i:1538134 original size:39 final size:38
Alignment explanation
Indices: 1538052--1538311 Score: 237
Period size: 39 Copynumber: 7.1 Consensus size: 38
1538042 ATATATATAC
* *
1538052 ATATATATTATATAG-TTTAAAAACATTTTTAAAAACAT
1 ATATATAATATATAGTTTTAAAAACATTTTGAAAAAC-T
*
1538090 ATATATAATATATAGTTTTGAAAACATGTTTGAAAAACT
1 ATATATAATATATAGTTTTAAAAACAT-TTTGAAAAACT
* * * *
1538129 TTATATATTATATAGTTTTTAAGACATTTTG-AAAA-T
1 ATATATAATATATAGTTTTAAAAACATTTTGAAAAACT
* * *
1538165 AAATATAATATATAGTTTTTAAAATATTTTTG--AAA--
1 ATATATAATATATAGTTTTAAAAACA-TTTTGAAAAACT
*
1538200 ATATAT-ATA-GT--TTTTAAAAACATTTTGAAAAACAT
1 ATATATAATATATAGTTTTAAAAACATTTTGAAAAAC-T
* * *
1538235 ATATATATTATATAGTTTTGAAATCATTTTG-AAAAC-
1 ATATATAATATATAGTTTTAAAAACATTTTGAAAAACT
1538271 -T-TATAATATATAGTTTTAAAAACATTTTTG-AAAACT
1 ATATATAATATATAGTTTTAAAAACA-TTTTGAAAAACT
1538307 ATATA
1 ATATA
1538312 ATTTTGAAAA
Statistics
Matches: 183, Mismatches: 23, Indels: 32
0.77 0.10 0.13
Matches are distributed among these distances:
30 5 0.03
31 9 0.05
32 3 0.02
33 1 0.01
34 23 0.13
35 22 0.12
36 27 0.15
37 11 0.06
38 25 0.14
39 48 0.26
40 9 0.05
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (38 bp):
ATATATAATATATAGTTTTAAAAACATTTTGAAAAACT
Found at i:1538197 original size:75 final size:77
Alignment explanation
Indices: 1538053--1538305 Score: 259
Period size: 70 Copynumber: 3.5 Consensus size: 77
1538043 TATATATACA
*
1538053 TATATATTATATAGTTTAAAAACATTTTTAAAAACATATATATAATATATAGTTTTGAAAACATG
1 TATATATTATATAGTTTAAAAACATTTTTAAAAACATAAATATAATATATAGTTTTGAAAACATG
1538118 TTTGAAAAACTT
66 TTTGAAAAACTT
* * * * *
1538130 TATATATTATATAGTTTTTAAGACA-TTTT-GAAA-ATAAATATAATATATAGTTTTTAAAATAT
1 TATATATTATATAG-TTTAAAAACATTTTTAAAAACATAAATATAATATATAGTTTTGAAAACAT
*
1538192 TTTTG-AAAA---
65 GTTTGAAAAACTT
* * * *
1538201 TATATA-TAGT-T--TTTAAAAACATTTTGAAAAACATATATATATTATATAGTTTTGAAATCAT
1 TATATATTA-TATAGTTTAAAAACATTTTTAAAAACATAAATATAATATATAGTTTTGAAAACAT
1538262 -TTTG-AAAAC-T
65 GTTTGAAAAACTT
*
1538272 TATA-A-TATATAGTTTTAAAAACATTTTTGAAAAC
1 TATATATTATATAG-TTTAAAAACATTTTTAAAAAC
1538306 TATATAATTT
Statistics
Matches: 147, Mismatches: 18, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
67 8 0.05
68 3 0.02
69 12 0.08
70 31 0.21
71 11 0.07
73 19 0.13
74 4 0.03
75 30 0.20
76 3 0.02
77 18 0.12
78 8 0.05
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (77 bp):
TATATATTATATAGTTTAAAAACATTTTTAAAAACATAAATATAATATATAGTTTTGAAAACATG
TTTGAAAAACTT
Found at i:1538226 original size:30 final size:31
Alignment explanation
Indices: 1538172--1538239 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
1538162 AATAAATATA
* *
1538172 ATATATAGTTTTTAAAATATTTTTG-AAAAT
1 ATATATAGTTTTTAAAATAATTTTGAAAAAC
1538202 ATATATAGTTTTTAAAA-ACATTTTGAAAAAC
1 ATATATAGTTTTTAAAATA-ATTTTGAAAAAC
1538233 ATATATA
1 ATATATA
1538240 TATTATATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 1 0.03
30 22 0.65
31 11 0.32
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (31 bp):
ATATATAGTTTTTAAAATAATTTTGAAAAAC
Found at i:1538245 original size:106 final size:104
Alignment explanation
Indices: 1538097--1538311 Score: 303
Period size: 106 Copynumber: 2.0 Consensus size: 104
1538087 CATATATATA
* * *
1538097 ATATATAGTTTTGAAAACATGTTTGAAAAACTTTATATATTATATAGTTTTTAAGA-CATTTTGA
1 ATATATAGTTTTAAAAACATGTTTGAAAAACTATATATATTATATAGTTTTGAA-ATCATTTTGA
* *
1538161 AAA-TAAATATAATATATAGTTTTTAAAATATTTTTGAAAA-T
65 AAACT---TATAATATATAGTTTTAAAAACATTTTTGAAAACT
1538202 ATATATAGTTTTTAAAAACAT-TTTGAAAAACATATATATATTATATAGTTTTGAAATCATTTTG
1 ATATATAG-TTTTAAAAACATGTTTGAAAAAC-TATATATATTATATAGTTTTGAAATCATTTTG
1538266 AAAACTTATAATATATAGTTTTAAAAACATTTTTGAAAACT
64 AAAACTTATAATATATAGTTTTAAAAACATTTTTGAAAACT
1538307 ATATA
1 ATATA
1538312 ATTTTGAAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
104 31 0.31
105 25 0.25
106 43 0.43
107 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (104 bp):
ATATATAGTTTTAAAAACATGTTTGAAAAACTATATATATTATATAGTTTTGAAATCATTTTGAA
AACTTATAATATATAGTTTTAAAAACATTTTTGAAAACT
Found at i:1538359 original size:2 final size:2
Alignment explanation
Indices: 1538352--1538381 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1538342 AACATTTTTA
1538352 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
1538382 TTTAAAATAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1539311 original size:9 final size:8
Alignment explanation
Indices: 1539299--1539348 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
1539289 TTTATTTAAC
1539299 ATTTTTTT
1 ATTTTTTT
1539307 AATTTGTTTT
1 -ATTT-TTTT
1539317 ATTTATTTT
1 ATTT-TTTT
*
1539326 GTTTTTTT
1 ATTTTTTT
*
1539334 ATTTTTCT
1 ATTTTTTT
1539342 ATTTTTT
1 ATTTTTT
1539349 AGTTTCATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
8 16 0.46
9 15 0.43
10 4 0.11
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (8 bp):
ATTTTTTT
Found at i:1539339 original size:14 final size:13
Alignment explanation
Indices: 1539300--1539338 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
1539290 TTATTTAACA
*
1539300 TTTTTTTAATTTG
1 TTTTTTTATTTTG
1539313 TTTTATTTATTTTG
1 TTTT-TTTATTTTG
1539327 TTTTTTTATTTT
1 TTTTTTTATTTT
1539339 TCTATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (13 bp):
TTTTTTTATTTTG
Found at i:1540801 original size:20 final size:20
Alignment explanation
Indices: 1540763--1540832 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1540753 AAAATGTTTT
1540763 TATGAATAGTACT-ATATTG
1 TATGAATAGTACTGATATTG
1540782 TATGAATAGTACTGATATTG
1 TATGAATAGTACTGATATTG
* * * *
1540802 TTTAAATAGTATTGATACTG
1 TATGAATAGTACTGATATTG
* *
1540822 TGTGAACAGTA
1 TATGAATAGTA
1540833 ATGAACAGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 13 0.30
20 30 0.70
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.40
Consensus pattern (20 bp):
TATGAATAGTACTGATATTG
Found at i:1540890 original size:20 final size:20
Alignment explanation
Indices: 1540865--1540912 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
1540855 AATTCCATAA
*
1540865 TGCTACAGGGGTATCGATAC
1 TGCTACAGGGGTACCGATAC
1540885 TGCTACAGGGGTACCGATAC
1 TGCTACAGGGGTACCGATAC
1540905 TGCTACAG
1 TGCTACAG
1540913 TAATTTCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (20 bp):
TGCTACAGGGGTACCGATAC
Found at i:1541277 original size:33 final size:33
Alignment explanation
Indices: 1541240--1541309 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1541230 TTTTGTAAAG
* *
1541240 GGGAAAGGTTCTAGTTGATCCCATGAAAAGCTA
1 GGGAAAGGTTCTAGTTGAGCCCATGAAAAACTA
* *
1541273 GGGAAAGGTTCTAGTTTAGCCCGTGAAAAACTA
1 GGGAAAGGTTCTAGTTGAGCCCATGAAAAACTA
1541306 GGGA
1 GGGA
1541310 GTTGTAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGTTGAGCCCATGAAAAACTA
Found at i:1544231 original size:20 final size:20
Alignment explanation
Indices: 1544206--1544256 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1544196 ATTCAAAGTT
*
1544206 TTCAAAGTTCACAAAAATAA
1 TTCAAAGTCCACAAAAATAA
*
1544226 TTCAAAATCCACAAAAATAA
1 TTCAAAGTCCACAAAAATAA
1544246 TTCAAAGTCCA
1 TTCAAAGTCCA
1544257 TTTAATTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.53, C:0.20, G:0.04, T:0.24
Consensus pattern (20 bp):
TTCAAAGTCCACAAAAATAA
Found at i:1544352 original size:20 final size:20
Alignment explanation
Indices: 1544288--1544352 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
1544278 AAAATGTTTT
* *
1544288 TATGAATAGTATTG-CACTG
1 TATGAATAGTATCGATACTG
* *
1544307 TATGAATAGTACCGATAATG
1 TATGAATAGTATCGATACTG
1544327 TATGAATAGTATCGATACTG
1 TATGAATAGTATCGATACTG
*
1544347 TGTGAA
1 TATGAA
1544353 CAATAATGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 12 0.32
20 26 0.68
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (20 bp):
TATGAATAGTATCGATACTG
Found at i:1547328 original size:28 final size:28
Alignment explanation
Indices: 1547291--1547355 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
1547281 TATGTAGACA
*
1547291 AAGTCATTTGCCTATACAAGGAGTTGAC
1 AAGTCATTTGCCTATACAAGGAATTGAC
1547319 AAGTCATTTGCCTATACAAGGAATTGAC
1 AAGTCATTTGCCTATACAAGGAATTGAC
1547347 AAGTCATTT
1 AAGTCATTT
1547356 ACTACAGGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (28 bp):
AAGTCATTTGCCTATACAAGGAATTGAC
Found at i:1549866 original size:16 final size:16
Alignment explanation
Indices: 1549845--1549882 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1549835 CCAAGGTATG
1549845 TATGTACACATGCATC
1 TATGTACACATGCATC
* *
1549861 TATGTACGCATGCATG
1 TATGTACACATGCATC
1549877 TATGTA
1 TATGTA
1549883 TGTATGCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (16 bp):
TATGTACACATGCATC
Found at i:1549876 original size:20 final size:20
Alignment explanation
Indices: 1549861--1549906 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1549851 CACATGCATC
1549861 TATGTACGCATGCATGTATG
1 TATGTACGCATGCATGTATG
* *
1549881 TATGTATGCATGTATGTATG
1 TATGTACGCATGCATGTATG
1549901 TATGTA
1 TATGTA
1549907 TCACTAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (20 bp):
TATGTACGCATGCATGTATG
Found at i:1549881 original size:4 final size:4
Alignment explanation
Indices: 1549874--1549907 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
1549864 GTACGCATGC
*
1549874 ATGT ATGT ATGT ATGC ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1549908 CACTAATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:1549889 original size:16 final size:16
Alignment explanation
Indices: 1549854--1549904 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
1549844 GTATGTACAC
* * *
1549854 ATGCATCTATGTACGC
1 ATGCATGTATGTATGT
1549870 ATGCATGTATGTATGT
1 ATGCATGTATGTATGT
1549886 ATGCATGTATGTATGT
1 ATGCATGTATGTATGT
1549902 ATG
1 ATG
1549905 TATCACTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (16 bp):
ATGCATGTATGTATGT
Found at i:1550431 original size:38 final size:40
Alignment explanation
Indices: 1550388--1550464 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 40
1550378 CTTGAATGTG
*
1550388 GCTCCTTC-CAAGCTTGAACTTAAAACATG-AATGAGAGC
1 GCTCCTTCTCAAGCATGAACTTAAAACATGAAATGAGAGC
*
1550426 GCTCCTTCTCAAGCATGAACTTAACACATGAAATGAGAG
1 GCTCCTTCTCAAGCATGAACTTAAAACATGAAATGAGAG
1550465 TACCCGATCG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 8 0.23
39 19 0.54
40 8 0.23
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (40 bp):
GCTCCTTCTCAAGCATGAACTTAAAACATGAAATGAGAGC
Found at i:1550494 original size:39 final size:39
Alignment explanation
Indices: 1550451--1550534 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
1550441 TGAACTTAAC
* *
1550451 ACATGAAATGAGAGTACCCGATCGATCGAACGGGGCTCG
1 ACATGAAATGAGAGTACCCAATCGATCGAACGGGGCGCG
* *
1550490 ACATGAAATGAGAGTACCCAATCGATTGAACGGGTCGCG
1 ACATGAAATGAGAGTACCCAATCGATCGAACGGGGCGCG
1550529 ACATGA
1 ACATGA
1550535 TAAGTTAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (39 bp):
ACATGAAATGAGAGTACCCAATCGATCGAACGGGGCGCG
Found at i:1553666 original size:32 final size:33
Alignment explanation
Indices: 1553623--1553691 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
1553613 CACGAGCTTC
* *
1553623 AATTCAGGATTTCGAGTTCGAGTCGAGCTTGAA
1 AATTCAGGATTTCGAATTCAAGTCGAGCTTGAA
1553656 AATT-AGGATTTCGAATTCAAGTCGAGCTTGAA
1 AATTCAGGATTTCGAATTCAAGTCGAGCTTGAA
1553688 AATT
1 AATT
1553692 TTAAGCTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (33 bp):
AATTCAGGATTTCGAATTCAAGTCGAGCTTGAA
Found at i:1554765 original size:27 final size:27
Alignment explanation
Indices: 1554726--1554788 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
1554716 AAACCAATAG
* * * * *
1554726 TTGAGGAACATAAGAAGATGATGAAAC
1 TTGAAGAAGATAAGAAGAAGAAGAAAA
*
1554753 TTGAAGAAGATAATAAGAAGAAGAAAA
1 TTGAAGAAGATAAGAAGAAGAAGAAAA
1554780 TTG-AGAAGA
1 TTGAAGAAGA
1554789 AGAAAAAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.54, C:0.03, G:0.25, T:0.17
Consensus pattern (27 bp):
TTGAAGAAGATAAGAAGAAGAAGAAAA
Found at i:1554788 original size:15 final size:14
Alignment explanation
Indices: 1554755--1554794 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
1554745 GATGAAACTT
*
1554755 GAAGAAGATAATAA
1 GAAGAAGAAAATAA
*
1554769 GAAGAAGAAAATTGA
1 GAAGAAGAAAA-TAA
1554784 GAAGAAGAAAA
1 GAAGAAGAAAA
1554795 AGAAGTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (14 bp):
GAAGAAGAAAATAA
Found at i:1560578 original size:4 final size:4
Alignment explanation
Indices: 1560569--1560705 Score: 130
Period size: 4 Copynumber: 34.0 Consensus size: 4
1560559 TTCTTTGTGA
* * *
1560569 TATG TATG TATG TATG TATG TATG TATG TATG CATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
1560617 TATG CATG TATG CATC TATG CATA TATG TATG TATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
1560665 TATG CATT TATG CATG TATGG TATG CATG TATG CATG TATG
1 TATG TATG TATG TATG TAT-G TATG TATG TATG TATG TATG
1560706 CATACATGCA
Statistics
Matches: 104, Mismatches: 28, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
4 100 0.96
5 4 0.04
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (4 bp):
TATG
Found at i:1560582 original size:8 final size:8
Alignment explanation
Indices: 1560569--1560708 Score: 178
Period size: 8 Copynumber: 17.9 Consensus size: 8
1560559 TTCTTTGTGA
*
1560569 TATGTATG
1 TATGCATG
*
1560577 TATGTATG
1 TATGCATG
*
1560585 TATGTATG
1 TATGCATG
*
1560593 TATGTATG
1 TATGCATG
*
1560601 CATGCATG
1 TATGCATG
1560609 TATGCATG
1 TATGCATG
1560617 TATGCATG
1 TATGCATG
*
1560625 TATGCATC
1 TATGCATG
*
1560633 TATGCATA
1 TATGCATG
*
1560641 TATGTATG
1 TATGCATG
1560649 TATGCATG
1 TATGCATG
1560657 TATGCATG
1 TATGCATG
*
1560665 TATGCATT
1 TATGCATG
1560673 TATGCATG
1 TATGCATG
1560681 TATG---G
1 TATGCATG
1560686 TATGCATG
1 TATGCATG
1560694 TATGCATG
1 TATGCATG
1560702 TATGCAT
1 TATGCAT
1560709 ACATGCATAC
Statistics
Matches: 119, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
5 5 0.04
8 114 0.96
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (8 bp):
TATGCATG
Found at i:1561030 original size:31 final size:31
Alignment explanation
Indices: 1560931--1561047 Score: 153
Period size: 32 Copynumber: 3.7 Consensus size: 31
1560921 TCACCCTTAG
* * * *
1560931 GTAGGCTCTTAGACCCCAAGATAATCCCTTAA
1 GTAGGCTCTAAGGCCCCAAGGT-ATCCCTTGA
* *
1560963 GTAGGCTCTTAGGCCCCAAGGTACTCCCTTGG
1 GTAGGCTCTAAGGCCCCAAGGTA-TCCCTTGA
*
1560995 GTAGGCTCTAAGGCCCCAAGGTATTCCTTGA
1 GTAGGCTCTAAGGCCCCAAGGTATCCCTTGA
1561026 GTAGGCTCTAAGGCCCCAAGGT
1 GTAGGCTCTAAGGCCCCAAGGT
1561048 GTTCCTTTAG
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
31 29 0.38
32 48 0.62
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (31 bp):
GTAGGCTCTAAGGCCCCAAGGTATCCCTTGA
Found at i:1561047 original size:63 final size:64
Alignment explanation
Indices: 1560924--1561047 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 64
1560914 CCTAAGTTCA
* *
1560924 CCCTTAGGTAGGCTCTTAGACCCCAAGATAATCCCTTAAGTAGGCTCTTAGGCCCCAAGGTACT
1 CCCTTAGGTAGGCTCTAAGACCCCAAGATAATCCCTTAAGTAGGCTCTAAGGCCCCAAGGTACT
* * * * *
1560988 CCCTTGGGTAGGCTCTAAGGCCCCAAGGT-ATTCCTTGAGTAGGCTCTAAGGCCCCAAGGT
1 CCCTTAGGTAGGCTCTAAGACCCCAAGATAATCCCTTAAGTAGGCTCTAAGGCCCCAAGGT
1561048 GTTCCTTTAG
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
63 28 0.53
64 25 0.47
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (64 bp):
CCCTTAGGTAGGCTCTAAGACCCCAAGATAATCCCTTAAGTAGGCTCTAAGGCCCCAAGGTACT
Found at i:1562372 original size:21 final size:21
Alignment explanation
Indices: 1562346--1562387 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1562336 ACATAATGGG
*
1562346 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1562367 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1562388 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:1562525 original size:20 final size:20
Alignment explanation
Indices: 1562500--1562541 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1562490 AAACCATGCA
1562500 GGGGGGAATCTGTACCCCCT
1 GGGGGGAATCTGTACCCCCT
1562520 GGGGGGAATCTGTACCCCCT
1 GGGGGGAATCTGTACCCCCT
1562540 GG
1 GG
1562542 ACAATCTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.29, G:0.38, T:0.19
Consensus pattern (20 bp):
GGGGGGAATCTGTACCCCCT
Found at i:1562549 original size:18 final size:19
Alignment explanation
Indices: 1562506--1562549 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1562496 TGCAGGGGGG
**
1562506 AATCTGTACCCCCTGGGGGG
1 AATCTGTACCCCCT-GGGAC
1562526 AATCTGTACCCCCT-GGAC
1 AATCTGTACCCCCTGGGAC
1562544 AATCTG
1 AATCTG
1562550 ATTTTTCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
20 14 0.64
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (19 bp):
AATCTGTACCCCCTGGGAC
Found at i:1564028 original size:20 final size:19
Alignment explanation
Indices: 1563992--1564038 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
1563982 CTAAATCCTT
*
1563992 TTTCAAAATTTCATTTTGAC
1 TTTCAAAATCTCATTTTG-C
*
1564012 TTTCAAAATCT-ATTTTTGT
1 TTTCAAAATCTCA-TTTTGC
1564031 TTTCAAAA
1 TTTCAAAA
1564039 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (19 bp):
TTTCAAAATCTCATTTTGC
Found at i:1565243 original size:21 final size:21
Alignment explanation
Indices: 1565217--1565258 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1565207 CCAGAATGGG
1565217 GGGAATC-AGTACCCCTTCATA
1 GGGAATCGA-TACCCCTTCATA
1565238 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1565259 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:1567334 original size:15 final size:15
Alignment explanation
Indices: 1567314--1567346 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1567304 TGATGACTTT
1567314 AATTTTTTAATTTTA
1 AATTTTTTAATTTTA
1567329 AATTTTTTAATTTTA
1 AATTTTTTAATTTTA
1567344 AAT
1 AAT
1567347 AAAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
AATTTTTTAATTTTA
Found at i:1567355 original size:22 final size:21
Alignment explanation
Indices: 1567330--1567371 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1567320 TTAATTTTAA
*
1567330 ATTTTTTAATTTTAAATAAAAT
1 ATTTTTTAA-TCTAAATAAAAT
*
1567352 ATTTTTTTATCTAAATAAAA
1 ATTTTTTAATCTAAATAAAA
1567372 AAAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTTTAATCTAAATAAAAT
Found at i:1568561 original size:48 final size:48
Alignment explanation
Indices: 1568410--1568564 Score: 147
Period size: 49 Copynumber: 3.2 Consensus size: 48
1568400 ACATTTTTAT
* *
1568410 TTTTAATATTACTATATTTATAGTATATAAAATTTTAATAAAAATATA
1 TTTTAATATTACTAAATTTATAGTATATAAATTTTTAATAAAAATATA
* * * * *
1568458 TTTT-ATGATTGCTCAGATTCTATCA-T-TAT-ATTTTAATTATTTAAAATATA
1 TTTTAAT-ATTACT-AAATT-TAT-AGTATATAAATTT--TTAATAAAAATATA
*
1568508 TTTTTAATATTACTAAATTTATAGTATATAAATTTTTAGTAAAAATATA
1 -TTTTAATATTACTAAATTTATAGTATATAAATTTTTAATAAAAATATA
1568557 TTTTAATA
1 TTTTAATA
1568565 AAAAAGACAA
Statistics
Matches: 85, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
47 2 0.02
48 21 0.25
49 23 0.27
50 23 0.27
51 14 0.16
52 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (48 bp):
TTTTAATATTACTAAATTTATAGTATATAAATTTTTAATAAAAATATA
Found at i:1569793 original size:18 final size:18
Alignment explanation
Indices: 1569752--1569813 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 18
1569742 TAATGGTGAG
*
1569752 TTATTATAA-CATATATT
1 TTATTATAATAATATATT
1569769 TTATTATAATAATAT-TT
1 TTATTATAATAATATATT
**
1569786 TTATTTATAATTTGTATATT
1 TTA-TTATAA-TAATATATT
1569806 TTATTATA
1 TTATTATA
1569814 TAGTTTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
17 14 0.37
18 10 0.26
19 9 0.24
20 5 0.13
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TTATTATAATAATATATT
Found at i:1569824 original size:27 final size:27
Alignment explanation
Indices: 1569789--1569841 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1569779 AATATTTTTA
1569789 TTTATAATTTG-TATATTTTATTATATAG
1 TTTATAA-TTGATATATTTTA-TATATAG
1569817 TTTA-AATTGATATATTTTATATATA
1 TTTATAATTGATATATTTTATATATA
1569842 ATAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 9 0.38
27 11 0.46
28 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (27 bp):
TTTATAATTGATATATTTTATATATAG
Found at i:1569855 original size:34 final size:33
Alignment explanation
Indices: 1569762--1569856 Score: 90
Period size: 34 Copynumber: 2.9 Consensus size: 33
1569752 TTATTATAAC
*
1569762 ATATATTTTAT-TATAATAATATTTTT--ATTT
1 ATATATTTTATATATAATAATATTTTTAAATTG
* * * *
1569792 ATA-ATTTGTATATTTTATTATATAGTTTAAATTG
1 ATATATTT-TATATATAATAATAT-TTTTAAATTG
1569826 ATATATTTTATATATAATAATAATTTTTAAA
1 ATATATTTTATATATAATAAT-ATTTTTAAA
1569857 ATAGATAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
29 4 0.08
30 6 0.12
31 8 0.16
32 3 0.06
34 22 0.45
35 6 0.12
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (33 bp):
ATATATTTTATATATAATAATATTTTTAAATTG
Found at i:1572794 original size:31 final size:31
Alignment explanation
Indices: 1572756--1572880 Score: 171
Period size: 31 Copynumber: 4.0 Consensus size: 31
1572746 AGGGTCGAGG
*
1572756 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1572787 GTTTACCTATGTTCTTCGAGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
**
1572818 GTTTACCTATGTTCTTCGGGACATATTTACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
1572849 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
1572880 G
1 G
1572881 GTTCTTCGGG
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
31 82 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1573388 original size:21 final size:21
Alignment explanation
Indices: 1573363--1573405 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1573353 AAAGAATATA
1573363 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
1573384 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
1573405 T
1 T
1573406 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:1576022 original size:23 final size:23
Alignment explanation
Indices: 1576002--1576051 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1575992 AAACTTTTTT
1576002 AAAGGAGTTAATTTTTCTTTTAA
1 AAAGGAGTTAATTTTTCTTTTAA
**
1576025 AAAGGTTTTAATTTTTCTTTTAA
1 AAAGGAGTTAATTTTTCTTTTAA
1576048 AAAG
1 AAAG
1576052 AATTAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (23 bp):
AAAGGAGTTAATTTTTCTTTTAA
Found at i:1576057 original size:22 final size:23
Alignment explanation
Indices: 1576002--1576057 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1575992 AAACTTTTTT
*
1576002 AAAGGAGTTAATTTTTCTTTTAA
1 AAAGGAATTAATTTTTCTTTTAA
**
1576025 AAAGGTTTTAATTTTTCTTTTAA
1 AAAGGAATTAATTTTTCTTTTAA
1576048 AAA-GAATTAA
1 AAAGGAATTAA
1576058 AATAGCAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (23 bp):
AAAGGAATTAATTTTTCTTTTAA
Found at i:1589082 original size:45 final size:45
Alignment explanation
Indices: 1588962--1589072 Score: 195
Period size: 45 Copynumber: 2.5 Consensus size: 45
1588952 GGTAAACATG
1588962 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
1589007 AAAATAAGCATACGAGCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
1589052 AGAATAAACTTACGAGCTTAT
1 AAAATAAGCTTACGAGCTTAT
1589073 AAGATAAATG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:1589556 original size:20 final size:21
Alignment explanation
Indices: 1589521--1589562 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
1589511 TTTTTCAAGA
1589521 ATGCTACAGGGGTACCGATACC
1 ATGCTACA-GGGTACCGATACC
1589543 ATGCTACA-GGTACCGATACC
1 ATGCTACAGGGTACCGATACC
1589563 CTCACTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.60
22 8 0.40
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.19
Consensus pattern (21 bp):
ATGCTACAGGGTACCGATACC
Found at i:1599576 original size:47 final size:45
Alignment explanation
Indices: 1599506--1599631 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
1599496 TATAAAATCT
*
1599506 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1599551 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1599598 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1599632 GCATGGTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:1599780 original size:40 final size:40
Alignment explanation
Indices: 1599736--1599857 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
1599726 ACCGTAGTGC
*
1599736 TACACATAAGGTCGTGTCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1599776 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1599816 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1599856 TA
1 TA
1599858 TAAACCTGCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:1602747 original size:21 final size:21
Alignment explanation
Indices: 1602708--1602748 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1602698 AAATCAATTA
* *
1602708 CCTTTTAATTTCTCTTTACTT
1 CCTTTTAATTTATCATTACTT
*
1602729 CCTTTTACTTTATCATTACT
1 CCTTTTAATTTATCATTACT
1602749 CATAATTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (21 bp):
CCTTTTAATTTATCATTACTT
Found at i:1607866 original size:3 final size:3
Alignment explanation
Indices: 1607858--1607882 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1607848 GAAATTTCAT
1607858 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
1607883 CAAAAGATAA
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1611114 original size:21 final size:21
Alignment explanation
Indices: 1611090--1611154 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
1611080 AATAACTTCA
1611090 TATATGTCCCAAAGGACCTCG
1 TATATGTCCCAAAGGACCTCG
1611111 TATATGTCCCGAAA-GACCTCG
1 TATATGTCCC-AAAGGACCTCG
* *
1611132 TATATGTCCCGAAGAACCTCG
1 TATATGTCCCAAAGGACCTCG
1611153 TA
1 TA
1611155 GAACCCTCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.05
21 35 0.88
22 3 0.08
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (21 bp):
TATATGTCCCAAAGGACCTCG
Found at i:1613386 original size:113 final size:112
Alignment explanation
Indices: 1613184--1613397 Score: 252
Period size: 113 Copynumber: 1.9 Consensus size: 112
1613174 AGATAATCTC
* * * * * *
1613184 AACTATTCATGTCATTTTCTTTGCAGTGGAACATCACCTCAAATTAAAACTTTCTTCATATTGTA
1 AACTATTCACGTCATTTTATTTGCAGTGAAACATCACCTCAAATCAAAACTTTCTTCATAGTGCA
* *
1613249 AGAAAATGATAATCCAGGACAATAATAATTTCAAATAACAAAGAACTT
66 ACAAAA-GATAATCCAGGACAATAATAAGTTCAAATAACAAAGAACTT
* * * *
1613297 AACTATTCACGTCTTTTTATATT-CAGTGAAACATCACTTCAAATCATAATTTTCTTCATAGTGC
1 AACTATTCACGTCATTTTAT-TTGCAGTGAAACATCACCTCAAATCAAAACTTTCTTCATAGTGC
* *
1613361 AACAAAA-ATAAGGTCCATGATAATAATAAGTTCAAAT
65 AACAAAAGATAA--TCCAGGACAATAATAAGTTCAAAT
1613398 TACTAAGTTA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
111 4 0.05
113 78 0.93
114 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (112 bp):
AACTATTCACGTCATTTTATTTGCAGTGAAACATCACCTCAAATCAAAACTTTCTTCATAGTGCA
ACAAAAGATAATCCAGGACAATAATAAGTTCAAATAACAAAGAACTT
Found at i:1613427 original size:17 final size:17
Alignment explanation
Indices: 1613405--1613459 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
1613395 AATTACTAAG
1613405 TTAGGGTTTTTAATGAC
1 TTAGGGTTTTTAATGAC
* * *
1613422 TTAGGGTTTTTATTAAA
1 TTAGGGTTTTTAATGAC
* *
1613439 TTAGGGTTATTAGTGAC
1 TTAGGGTTTTTAATGAC
1613456 TTAG
1 TTAG
1613460 ACTTTTATTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.25, C:0.04, G:0.24, T:0.47
Consensus pattern (17 bp):
TTAGGGTTTTTAATGAC
Found at i:1621937 original size:19 final size:21
Alignment explanation
Indices: 1621900--1621942 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1621890 TAAATTTTTC
*
1621900 TTTTCTCTTTCTTTATTAA-T
1 TTTTCTCTTTCATTATTAACT
1621920 TTTTCTCTTTCATT-TTAACT
1 TTTTCTCTTTCATTATTAACT
1621940 TTT
1 TTT
1621943 ACTTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTCTTTCATTATTAACT
Found at i:1625261 original size:24 final size:24
Alignment explanation
Indices: 1625234--1625283 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1625224 TGGTGGTTGA
1625234 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTATTGAACTTTATT
* *
1625258 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTGAACTTTATT
1625282 TT
1 TT
1625284 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTGAACTTTATT
Found at i:1626349 original size:31 final size:31
Alignment explanation
Indices: 1626311--1626408 Score: 124
Period size: 31 Copynumber: 3.2 Consensus size: 31
1626301 GTGCTTGTAG
*
1626311 TGTAATGTAATGTAATGTACGAGTTAATGCT
1 TGTAATGTAATGTAATGTAGGAGTTAATGCT
* * *
1626342 TGTAATGTATTGTAATGTAGGACTTAATGAT
1 TGTAATGTAATGTAATGTAGGAGTTAATGCT
* * * *
1626373 TGTAATCTAATGTGATGTTGGAGTTAATGCA
1 TGTAATGTAATGTAATGTAGGAGTTAATGCT
1626404 TGTAA
1 TGTAA
1626409 GGATCAACTG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (31 bp):
TGTAATGTAATGTAATGTAGGAGTTAATGCT
Found at i:1627109 original size:51 final size:51
Alignment explanation
Indices: 1627047--1627159 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
1627037 CATATTGAAA
* * *
1627047 TGCATCACATGGACCCGCAGGT-TCTGGCGAAGATGGTTGAAAGGGTGACAT
1 TGCATCCCATGGACCCCCAGGTAT-TGGCGAAGATGGTTGAAAGGGTGACAC
1627098 TGCATCCCATGGACCCCCAGGTATTGGCGAAGATGGTTGAAAGGGTGACAC
1 TGCATCCCATGGACCCCCAGGTATTGGCGAAGATGGTTGAAAGGGTGACAC
1627149 TGCATCCCATG
1 TGCATCCCATG
1627160 AACCTCCTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (51 bp):
TGCATCCCATGGACCCCCAGGTATTGGCGAAGATGGTTGAAAGGGTGACAC
Found at i:1627953 original size:25 final size:25
Alignment explanation
Indices: 1627904--1627954 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
1627894 TAAATCAAAA
* *
1627904 TTTCTAAATATATTAATTAATAAAT
1 TTTCTAAATATATAAATTAAGAAAT
1627929 TTTCTAAA-ATATAAATTAAAGAAAT
1 TTTCTAAATATATAAATT-AAGAAAT
1627954 T
1 T
1627955 AGACAATGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
TTTCTAAATATATAAATTAAGAAAT
Found at i:1637058 original size:19 final size:18
Alignment explanation
Indices: 1637027--1637070 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1637017 TGTGCTTTCG
*
1637027 TCTTTTCTTTCTTTCTT-T
1 TCTTTTTTTTCTTT-TTAT
1637045 TCTTTTTTTCTCTTTTTAT
1 TCTTTTTTT-TCTTTTTAT
1637064 TCTTTTT
1 TCTTTTT
1637071 GGGTGCTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (18 bp):
TCTTTTTTTTCTTTTTAT
Found at i:1637784 original size:19 final size:20
Alignment explanation
Indices: 1637746--1637800 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1637736 GTGCCTTCCT
*
1637746 AAAATAACATGATTTTTAATG
1 AAAAT-ACATGATCTTTAATG
1637767 AAAATACATGA-CTTTAATG
1 AAAATACATGATCTTTAATG
*
1637786 AAAATACATGCTCTT
1 AAAATACATGATCTT
1637801 GGCTGAATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 17 0.55
20 9 0.29
21 5 0.16
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (20 bp):
AAAATACATGATCTTTAATG
Found at i:1639221 original size:15 final size:15
Alignment explanation
Indices: 1639182--1639223 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
1639172 AGTCAAGTAG
1639182 TTTTAAAATATATAT
1 TTTTAAAATATATAT
*
1639197 TTTATAAAATTTA-AT
1 TTT-TAAAATATATAT
1639212 TGTTTAAAATAT
1 T-TTTAAAATAT
1639224 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TTTTAAAATATATAT
Found at i:1641137 original size:15 final size:15
Alignment explanation
Indices: 1641092--1641139 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
1641082 CTTGTTATAC
*
1641092 TCAATTGTAACACCT
1 TCAATGGTAACACCT
* ** *
1641107 TCATTGCCAACTCCT
1 TCAATGGTAACACCT
1641122 TCAATGGTAACACCT
1 TCAATGGTAACACCT
1641137 TCA
1 TCA
1641140 TTCCATGTAA
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (15 bp):
TCAATGGTAACACCT
Found at i:1652737 original size:26 final size:26
Alignment explanation
Indices: 1652708--1652796 Score: 80
Period size: 26 Copynumber: 3.6 Consensus size: 26
1652698 TTATAACCCA
*
1652708 TTTTCCCTCTCATTTTTAACTTTTTC
1 TTTTCTCTCTCATTTTTAACTTTTTC
* * * *
1652734 TTTTATATTTCATTATTAACTTTTTC
1 TTTTCTCTCTCATTTTTAACTTTTTC
*
1652760 ---TCT-T-TCATTTTTAACTTTTAC
1 TTTTCTCTCTCATTTTTAACTTTTTC
1652781 ATTTTCTCTCTCATTT
1 -TTTTCTCTCTCATTT
1652797 CTTCATCTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
21 15 0.31
22 1 0.02
23 2 0.04
25 3 0.06
26 22 0.45
27 6 0.12
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTCTCTCTCATTTTTAACTTTTTC
Found at i:1652786 original size:21 final size:21
Alignment explanation
Indices: 1652733--1652786 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
1652723 TTAACTTTTT
*
1652733 CTTTTATA-TTTCATTATTAA
1 CTTTTACATTTTCATTATTAA
* *
1652753 CTTTTTC-TCTTTCATTTTTAA
1 CTTTTACAT-TTTCATTATTAA
1652774 CTTTTACATTTTC
1 CTTTTACATTTTC
1652787 TCTCTCATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 5 0.19
21 21 0.78
22 1 0.04
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (21 bp):
CTTTTACATTTTCATTATTAA
Found at i:1653097 original size:23 final size:23
Alignment explanation
Indices: 1653067--1653123 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
1653057 GGACGTGATG
*
1653067 GACATTGTTACTCCACTCAAATA
1 GACATTGTTACTACACTCAAATA
*
1653090 GACATTGTTACTACACTCAAATG
1 GACATTGTTACTACACTCAAATA
1653113 GACATTGTTAC
1 GACATTGTTAC
1653124 ACCAATATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (23 bp):
GACATTGTTACTACACTCAAATA
Found at i:1654456 original size:23 final size:26
Alignment explanation
Indices: 1654413--1654462 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
1654403 TTGAGAAAAA
*
1654413 AAAATAATTTATATATATTTATAAAT
1 AAAATAATTTATATATATTTAGAAAT
1654439 AAAAT-ATTTAT-T-TATTTAGAAAT
1 AAAATAATTTATATATATTTAGAAAT
1654462 A
1 A
1654463 TCAAAAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 6 0.26
26 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
AAAATAATTTATATATATTTAGAAAT
Found at i:1654726 original size:2 final size:2
Alignment explanation
Indices: 1654663--1654717 Score: 62
Period size: 2 Copynumber: 29.0 Consensus size: 2
1654653 ATGAAAAAAA
* *
1654663 AT AT AT AT AA AT -T AT -T AT TT 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
*
1654702 AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT
1654718 GACTATATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:1656099 original size:3 final size:3
Alignment explanation
Indices: 1656091--1656117 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1656081 CCTATTTGTA
1656091 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1656118 TTAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1656125 original size:3 final size:3
Alignment explanation
Indices: 1656119--1656167 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
1656109 ATTATTATTT
* *
1656119 TAA TAA TAA TAA TATA TAA TAA TTA TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1656165 TAA
1 TAA
1656168 AATGGGTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1656759 original size:113 final size:113
Alignment explanation
Indices: 1656397--1656865 Score: 542
Period size: 113 Copynumber: 4.2 Consensus size: 113
1656387 ATAGAGTCAT
* * * * * * *
1656397 TCAAAAGGTTGAATAAGCTCTTTTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTTTTCTC
1 TCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
**** * * **
1656462 ATTATGAACTTTCTCTGGAAAAACTGATCCATC-AA-G-TG-A-TGGA
66 ATTATGAACTCGAACTGGAAAAGCTGATACATCGAATGATGAATTCAA
* * *
1656505 --AAAAAGTTGAACAAATTCTTCTCATTATGAATTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
1 TCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * *
1656568 ATTATGAACTTC--TCTTGAAAAACTGGTACATCAAATGATGAATTCAA
66 ATTATGAAC-TCGAACTGGAAAAGCTGATACATCGAATGATGAATTCAA
* *
1656615 TCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAATTCTTCTC
1 TCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
1656680 ATTATGAACTCGAACTGGTAACGCTGATTCATTGAATGATGAATTCAA
66 ATTATGAACTCGAACTGGAAAAGCTGATACATCGAATGATGAATTCAA
1656728 TCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 TCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * *
1656793 ATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTGATGAATTTAA
66 ATTATGAACTCGAACTGGAAAAGCTGATACATCGAATGATGAATTCAA
*
1656841 GCAAAAAGTTGAACAAGTTCTTCTC
1 TCAAAAAGTTGAACAAGTTCTTCTC
1656866 TTTCTTCAGA
Statistics
Matches: 310, Mismatches: 41, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
105 17 0.05
106 64 0.21
107 2 0.01
108 2 0.01
109 1 0.00
110 2 0.01
111 2 0.01
112 67 0.22
113 153 0.49
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
TCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCGAACTGGAAAAGCTGATACATCGAATGATGAATTCAA
Found at i:1656950 original size:98 final size:98
Alignment explanation
Indices: 1656779--1656963 Score: 271
Period size: 98 Copynumber: 1.9 Consensus size: 98
1656769 TCCTTCTTCA
* * * * *
1656779 GATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTGATGAATTTAAGCA
1 GATGAGTTCTTCTCATTATGAACTCGAACTAGAAATGTTAATCCACCAAATGATGAATTTAAACA
*
1656844 AAAAGTTGAACAAGTTCTTCTCTTTCTTCAGAT
66 AAAAGTTGAACAAATTCTTCTCTTTCTTCAGAT
* * * *
1656877 GATGAGTTCTTCTCATTATGAACTCTACCTAGCAATGTTAATCCATCAAATGATGAATTTAAACA
1 GATGAGTTCTTCTCATTATGAACTCGAACTAGAAATGTTAATCCACCAAATGATGAATTTAAACA
*
1656942 AAAGGTTGAACAAATTCTTCTC
66 AAAAGTTGAACAAATTCTTCTC
1656964 ATTATGAACT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
98 76 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (98 bp):
GATGAGTTCTTCTCATTATGAACTCGAACTAGAAATGTTAATCCACCAAATGATGAATTTAAACA
AAAAGTTGAACAAATTCTTCTCTTTCTTCAGAT
Found at i:1657044 original size:324 final size:322
Alignment explanation
Indices: 1656596--1657187 Score: 871
Period size: 324 Copynumber: 1.8 Consensus size: 322
1656586 AAAACTGGTA
* *
1656596 CATCAAATGATGAATTCAATCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
1 CATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
* * * **
1656661 CTTCAGACGAATTCTTCTCATTATGAACTCGAACTGGTAACGCTGATTCATTGAATGATGAATTC
66 CTTCAGACGAATTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGAATTC
*
1656726 AA-TCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
131 AAGT-AAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTT-C-TCTTCAGATGAGTTCTT
* * * * *
1656790 CTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTGATGAATTTAAGCAAAAAGTTGAAC
193 CTCATTATGAACTCGAACTGGAAATGTTAATCCACCAAATAATGAATTTAAACAAAAAGTTGAAC
*
1656855 AAGTTCTTCTCTTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTACCTAGCAATGTTAATC
258 AAATTCTTCTCTTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTACCTAGCAATGTTAATC
* *
1656920 CATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
1 CATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
* * ****
1656985 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTC
66 CTTCAGACGAATTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGAATTC
* * *
1657050 AAGTAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTCTTTAGATGAGTTCTTCTT
131 AAGTAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTCTTCAGATGAGTTCTTCTC
*** * * *
1657115 ATTATGAACTCTTTCTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGGTTGAACAAA
196 ATTATGAACTCGAACTGGAAATGTTAATCCACCAAATAATGAATTTAAACAAAAAGTTGAACAAA
1657180 TTCTTCTC
261 TTCTTCTC
1657188 ATTATGAACT
Statistics
Matches: 236, Mismatches: 31, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
322 79 0.33
323 1 0.00
324 155 0.66
325 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (322 bp):
CATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
CTTCAGACGAATTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGAATTC
AAGTAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTCTTCAGATGAGTTCTTCTC
ATTATGAACTCGAACTGGAAATGTTAATCCACCAAATAATGAATTTAAACAAAAAGTTGAACAAA
TTCTTCTCTTTCTTCAGATGATGAGTTCTTCTCATTATGAACTCTACCTAGCAATGTTAATC
Found at i:1657046 original size:211 final size:215
Alignment explanation
Indices: 1656714--1657273 Score: 759
Period size: 224 Copynumber: 2.6 Consensus size: 215
1656704 TGATTCATTG
* * * *
1656714 AATGATGAATTCAATCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 AATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * * *
1656779 GATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCACCGAGTGATGAATTTAAGCA
66 GATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGCTGATCCATCAAATGATGAATTTAAGCA
*
1656844 AAAAGTTGAACAAGTTCTTCTC-T-TTCTTC-AGAT-GATGAGTTCTTCTCATTATGAACTCTAC
131 AAAAGTTGAACAAATTCTTCTCTTCTTCTTCTAGATAGATGAGTTCTTCTCATTATGAACTCTAC
1656905 CTAGCAATGTTAATCCATCA
196 CTAGCAATGTTAATCCATCA
1656925 AATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 AATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
**** * * *
1656990 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGTA
66 GATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGCTGATCCATCAAATGATGAATTTAAGCA
*** *
1657055 AAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTCTTTAGATGAGTTCTTCTTATTAT
131 AAAAGTTGAACAAATTCTTCTC---------TTCTTCTTCTAGATAGATGAGTTCTTCTCATTAT
** *
1657120 GAACTCTTTCTGGCAATGTTAATCCATCA
187 GAACTCTACCTAGCAATGTTAATCCATCA
*
1657149 AATAATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 AATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * * *
1657214 GATGAGTTCTTCTTATTATGAACTCGAACTGGTAATGCTGATCCATCAATTGATGGATTT
66 GATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGCTGATCCATCAAATGATGAATTT
1657274 GAATCTTTGC
Statistics
Matches: 302, Mismatches: 34, Indels: 13
0.87 0.10 0.04
Matches are distributed among these distances:
211 136 0.45
221 1 0.00
222 6 0.02
223 1 0.00
224 158 0.52
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (215 bp):
AATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
GATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGCTGATCCATCAAATGATGAATTTAAGCA
AAAAGTTGAACAAATTCTTCTCTTCTTCTTCTAGATAGATGAGTTCTTCTCATTATGAACTCTAC
CTAGCAATGTTAATCCATCA
Found at i:1657174 original size:111 final size:113
Alignment explanation
Indices: 1656877--1657238 Score: 550
Period size: 113 Copynumber: 3.2 Consensus size: 113
1656867 TTCTTCAGAT
** *
1656877 GATGAGTTCTTCTCATTATGAACTCTACCTAGCAATGTTAATCCATCAAATGATGAATTTAAACA
1 GATGAGTTCTTCTCATTATGAACTCTTTCTGGCAATGTTAATCCATCAAATGATGAATTTAAACA
1656942 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * * * * **
1656990 GATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAGT
1 GATGAGTTCTTCTCATTATGAACTCTT-TCTGGCAATGTTAATCCATCAAATGATGAATTTAAAC
* * *
1657054 AAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTT-C-TCTTTA
65 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* *
1657101 GATGAGTTCTTCTTATTATGAACTCTTTCTGGCAATGTTAATCCATCAAATAATGAATTTAAACA
1 GATGAGTTCTTCTCATTATGAACTCTTTCTGGCAATGTTAATCCATCAAATGATGAATTTAAACA
1657166 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
1657214 GATGAGTTCTTCTTATTATGAACTC
1 GATGAGTTCTTCTCATTATGAACTC
1657239 GAACTGGTAA
Statistics
Matches: 220, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
111 95 0.43
112 5 0.02
113 120 0.55
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.39
Consensus pattern (113 bp):
GATGAGTTCTTCTCATTATGAACTCTTTCTGGCAATGTTAATCCATCAAATGATGAATTTAAACA
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
Found at i:1658411 original size:93 final size:93
Alignment explanation
Indices: 1657960--1658782 Score: 1477
Period size: 94 Copynumber: 8.8 Consensus size: 93
1657950 TCCATCTTTT
* * * *
1657960 AATTCCAATGATTGG-TTCTATGGTTCCTACCGAACCAGATCAGATAACTCAAAGAACACTTCCA
1 AATT-CAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
1658024 GAAGATGCTATGAGCACATTCATCTTCCA
65 GAAGATGCTATGAGCACATTCATCTTCCA
*
1658053 AATTCAATGATTGGTTTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
1 AATTCAATGATTGG-TTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
1658118 GAAGATGCTATGAGCACATTCATCTTCCA
65 GAAGATGCTATGAGCACATTCATCTTCCA
*
1658147 AATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
1 AATTCAATGATTGG-TTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
1658212 GAAGATGCTATGAGCACATTCATCTTCCA
65 GAAGATGCTATGAGCACATTCATCTTCCA
* *
1658241 AATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAATAACACTTCCA
1 AATTCAATGATTGG-TTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
1658306 GAAGATGCTATGAGCACATTCATCTTCCA
65 GAAGATGCTATGAGCACATTCATCTTCCA
1658335 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
1 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
*
1658400 AAGATGTTATGAGCACATTCATCTTCCA
66 AAGATGCTATGAGCACATTCATCTTCCA
*
1658428 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTAAAAGAACACTTCCAG
1 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
1658493 AAGATGCTATGAGCACATTCATCTTCCA
66 AAGATGCTATGAGCACATTCATCTTCCA
*
1658521 AATTCAATGATTGGTTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
1 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
1658586 AAGATGCTATGAGCACATTCATCTTCCA
66 AAGATGCTATGAGCACATTCATCTTCCA
* *
1658614 AATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAAATAACTCAAAGAACACTTCCA
1 AATTCAATGATTGG-TTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
1658679 GAAGATGCTATGAGCACATTCATCTTCCA
65 GAAGATGCTATGAGCACATTCATCTTCCA
1658708 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
1 AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
1658773 AAGATGCTAT
66 AAGATGCTAT
1658783 TGGGTCTACG
Statistics
Matches: 709, Mismatches: 18, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
92 10 0.01
93 335 0.47
94 364 0.51
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (93 bp):
AATTCAATGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
AAGATGCTATGAGCACATTCATCTTCCA
Found at i:1658525 original size:280 final size:280
Alignment explanation
Indices: 1657960--1658782 Score: 1506
Period size: 280 Copynumber: 2.9 Consensus size: 280
1657950 TCCATCTTTT
* * * *
1657960 AATTCCAATGATTGGTTCTAT-GGTTCCTACCGAACCAGATCAGATAACTCAAAGAACACTTCCA
1 AATT-CAATGATTGGTTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
*
1658024 GAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTTGGGTTCATACCAAAC
65 GAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTAGGGTTCATACCAAAC
1658089 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAA
130 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAA
*
1658154 TGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
195 TGATTGG-TTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
1658219 CTATGAGCACATTCATCTTCCA
259 CTATGAGCACATTCATCTTCCA
*
1658241 AATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAATAACACTTCCA
1 AATTCAATGATTGGTTTTTT-GGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCA
1658306 GAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG-TTTTTAGGGTTCATACCAAAC
65 GAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTAGGGTTCATACCAAAC
*
1658370 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGCACATTCATCTTCCAAATTCAA
130 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAA
*
1658435 TGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTAAAAGAACACTTCCAGAAGATGC
195 TGATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
1658500 TATGAGCACATTCATCTTCCA
260 TATGAGCACATTCATCTTCCA
1658521 AATTCAATGATTGGTTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
1 AATTCAATGATTGGTTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
*
1658586 AAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACC
66 AAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTAGGGTTCATACCAAACC
*
1658651 AGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAAT
131 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAAT
1658716 GATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
196 GATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1658781 AT
261 AT
1658783 TGGGTCTACG
Statistics
Matches: 525, Mismatches: 14, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
279 86 0.16
280 261 0.50
281 95 0.18
282 83 0.16
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (280 bp):
AATTCAATGATTGGTTTTTTGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
AAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTAGGGTTCATACCAAACC
AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAAT
GATTGGTTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
ATGAGCACATTCATCTTCCA
Done.