Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007961.1 Hibiscus syriacus cultivar Beakdansim tig00110388_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: 2700559
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 12
Found at i:1304842 original size:20 final size:20
Alignment explanation
Indices: 1304813--1304855 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1304803 GGTAAAGCGC
*
1304813 TACCGGTTTTGTTATTTTTT
1 TACCGATTTTGTTATTTTTT
1304833 TACCGATTTTGTTATTTTTT
1 TACCGATTTTGTTATTTTTT
1304853 TAC
1 TAC
1304856 ATGTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.63
Consensus pattern (20 bp):
TACCGATTTTGTTATTTTTT
Found at i:1304984 original size:86 final size:86
Alignment explanation
Indices: 1304872--1305035 Score: 310
Period size: 86 Copynumber: 1.9 Consensus size: 86
1304862 TATTGTAAAG
*
1304872 TATCGATCCTTTTTATAAAAGGATCGATACTTTCAATATATCAGGTAAAGCGCTACCGGTTTTGT
1 TATCGATCATTTTTATAAAAGGATCGATACTTTCAATATATCAGGTAAAGCGCTACCGGTTTTGT
1304937 TATTTTTTTTACCGGTTATAT
66 TATTTTTTTTACCGGTTATAT
*
1304958 TATCGATCATTTTTATAAAAGGATCGATACTTTCAATATATTAGGTAAAGCGCTACCGGTTTTGT
1 TATCGATCATTTTTATAAAAGGATCGATACTTTCAATATATCAGGTAAAGCGCTACCGGTTTTGT
1305023 TATTTTTTTTACC
66 TATTTTTTTTACC
1305036 AGTTTTGTTA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 76 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (86 bp):
TATCGATCATTTTTATAAAAGGATCGATACTTTCAATATATCAGGTAAAGCGCTACCGGTTTTGT
TATTTTTTTTACCGGTTATAT
Found at i:1305053 original size:20 final size:21
Alignment explanation
Indices: 1305011--1305052 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1305001 GGTAAAGCGC
*
1305011 TACCGGTTTTGTTATTTTTTT
1 TACCAGTTTTGTTATTTTTTT
1305032 TACCAGTTTTGTTATTTTTTT
1 TACCAGTTTTGTTATTTTTTT
1305053 ATCGGTTTTA
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:0.12, C:0.10, G:0.12, T:0.67
Consensus pattern (21 bp):
TACCAGTTTTGTTATTTTTTT
Found at i:1305060 original size:20 final size:21
Alignment explanation
Indices: 1305011--1305061 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
1305001 GGTAAAGCGC
1305011 TACCGGTTTTGTTATTTTTTT
1 TACCGGTTTTGTTATTTTTTT
*
1305032 TACCAGTTTTGTTA-TTTTTT
1 TACCGGTTTTGTTATTTTTTT
*
1305052 TATCGGTTTT
1 TACCGGTTTT
1305062 ACCGAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.12, C:0.10, G:0.14, T:0.65
Consensus pattern (21 bp):
TACCGGTTTTGTTATTTTTTT
Found at i:1305427 original size:24 final size:25
Alignment explanation
Indices: 1305400--1305468 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
1305390 AACATCAAAT
1305400 ACAATAA-AATAATATTATTTATTA
1 ACAATAAGAATAATATTATTTATTA
*
1305424 ACAA-AATAATAATATTATTT-TTA
1 ACAATAAGAATAATATTATTTATTA
1305447 A-AATATTAGAATAAT-TTATTTA
1 ACAATA--AGAATAATATTATTTA
1305469 ATATTATCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.05
23 7 0.18
24 23 0.59
25 7 0.18
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (25 bp):
ACAATAAGAATAATATTATTTATTA
Found at i:1305828 original size:23 final size:23
Alignment explanation
Indices: 1305770--1305829 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
1305760 CTAGTAATTA
* *
1305770 ATCTATTTTATTATATAAACGCT
1 ATCTAATTTATTATATAAACACT
* * *
1305793 ACCT-ATTAAATTATATAAATACT
1 ATCTAATT-TATTATATAAACACT
1305816 ATCTAATTTATTAT
1 ATCTAATTTATTAT
1305830 TTTACTTGAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
22 2 0.07
23 23 0.82
24 3 0.11
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (23 bp):
ATCTAATTTATTATATAAACACT
Found at i:1305842 original size:87 final size:87
Alignment explanation
Indices: 1305608--1305842 Score: 294
Period size: 87 Copynumber: 2.7 Consensus size: 87
1305598 GAATATGTCA
* * * * * *
1305608 ATATAAGCGTTACATATTACATTATATAAGCACTACCTAATATGTTATTGTGCTTGATAACGTTT
1 ATATAAACGCTACCTATTACATTATATAAACACTACCTAATATATTATTGTGCTTGATAATGTTT
*
1305673 CTTGTAATTAACTTATTTTATT
66 CTAGTAATTAACTTATTTTATT
** *
1305695 ATATAAGA-GCTACCTATTACATTATATAAACGTTACCTAATATACTATTGTGCTTGATAATGTT
1 ATATAA-ACGCTACCTATTACATTATATAAACACTACCTAATATATTATTGTGCTTGATAATGTT
1305759 TCTAGTAATTAA-TCTATTTTATT
65 TCTAGTAATTAACT-TATTTTATT
* * * * * *
1305782 ATATAAACGCTACCTATTAAATTATATAAATACTATCTAATTTATTATTTTACTTGATAAT
1 ATATAAACGCTACCTATTACATTATATAAACACTACCTAATATATTATTGTGCTTGATAAT
1305843 ATTTTCGATT
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
86 2 0.02
87 124 0.98
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (87 bp):
ATATAAACGCTACCTATTACATTATATAAACACTACCTAATATATTATTGTGCTTGATAATGTTT
CTAGTAATTAACTTATTTTATT
Found at i:1313785 original size:27 final size:28
Alignment explanation
Indices: 1313752--1313818 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
1313742 AATGAAAAGT
* *
1313752 CTAAAATACCCTTGAACTCTA-AAATGAC
1 CTAAAATACCCCTGAACT-GAGAAATGAC
*
1313780 C-AAAATACCCCTGAAGTGAGAAATGAC
1 CTAAAATACCCCTGAACTGAGAAATGAC
1313807 CTAAAATACCCC
1 CTAAAATACCCC
1313819 AAAGCCATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 22 0.65
28 11 0.32
ACGTcount: A:0.43, C:0.27, G:0.10, T:0.19
Consensus pattern (28 bp):
CTAAAATACCCCTGAACTGAGAAATGAC
Found at i:1315444 original size:20 final size:21
Alignment explanation
Indices: 1315421--1315459 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1315411 TTCCTACACA
1315421 ACTTATTAATAT-CCTTTTAT
1 ACTTATTAATATACCTTTTAT
* *
1315441 ACTTGTTTATATACCTTTT
1 ACTTATTAATATACCTTTT
1315460 CCATAGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (21 bp):
ACTTATTAATATACCTTTTAT
Found at i:1316729 original size:18 final size:19
Alignment explanation
Indices: 1316683--1316729 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
1316673 TTTAAGGGGG
1316683 TGCATCGATGCACTCAATA
1 TGCATCGATGCACTCAATA
1316702 TGCATCGATGCACT-AAT-
1 TGCATCGATGCACTCAATA
1316719 TGCATTCGATG
1 TGCA-TCGATG
1316730 TTCAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.15
18 9 0.33
19 14 0.52
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (19 bp):
TGCATCGATGCACTCAATA
Found at i:1319311 original size:24 final size:24
Alignment explanation
Indices: 1319256--1319328 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
1319246 TCAAGGGTTT
*
1319256 TACGCGGTCCTTTGGGACAAA-TC
1 TACGCGGTCCTTCGGGACAAATTC
* * *
1319279 TATGTGGTCATTCGGGACAAATTC
1 TACGCGGTCCTTCGGGACAAATTC
*
1319303 TACGCGGTCCTTCGGGAGAAATTC
1 TACGCGGTCCTTCGGGACAAATTC
1319327 TA
1 TA
1319329 TGTGGCACTT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 17 0.41
24 24 0.59
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (24 bp):
TACGCGGTCCTTCGGGACAAATTC
Found at i:1319339 original size:24 final size:25
Alignment explanation
Indices: 1319261--1319349 Score: 91
Period size: 24 Copynumber: 3.8 Consensus size: 25
1319251 GGTTTTACGC
*
1319261 GGTC-CTTTGGGACAAA-TCTATGT
1 GGTCACTTCGGGACAAATTCTATGT
* *
1319284 GGTCA-TTCGGGACAAATTCTACGC
1 GGTCACTTCGGGACAAATTCTATGT
*
1319308 GGTC-CTTCGGGAGAAATTCTATGT
1 GGTCACTTCGGGACAAATTCTATGT
1319332 GG-CACTTCGGTG-CAAATT
1 GGTCACTTCGG-GACAAATT
1319350 ATGTTAGCAG
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
23 15 0.28
24 38 0.70
25 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (25 bp):
GGTCACTTCGGGACAAATTCTATGT
Found at i:1319341 original size:48 final size:47
Alignment explanation
Indices: 1319256--1319349 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 47
1319246 TCAAGGGTTT
*
1319256 TACGCGGTCCTTTGGGACAAATCTATGTGGTCATTCGG-GACAAATTC
1 TACGCGGTCCTTCGGGACAAATCTATGTGGTCATTCGGTG-CAAATTC
*
1319303 TACGCGGTCCTTCGGGAGAAATTCTATGTGG-CACTTCGGTGCAAATT
1 TACGCGGTCCTTCGGGACAAA-TCTATGTGGTCA-TTCGGTGCAAATT
1319350 ATGTTAGCAG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
47 21 0.50
48 20 0.48
49 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (47 bp):
TACGCGGTCCTTCGGGACAAATCTATGTGGTCATTCGGTGCAAATTC
Found at i:1320135 original size:32 final size:32
Alignment explanation
Indices: 1320037--1320135 Score: 135
Period size: 32 Copynumber: 3.1 Consensus size: 32
1320027 CCTAAGGTTA
* * *
1320037 CCTTGGGTAGGCTCTGAGGCCCCAAGGCATTT
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGTATTC
*
1320069 CCTTGGGTAGGCTCTAAGGCCCCAAGGTACTC
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGTATTC
* * *
1320101 CCTTGGGTAGGCTCTCATGCCCCAAGATATTC
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGTATTC
1320133 CCT
1 CCT
1320136 AAGGTTGGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.17, C:0.31, G:0.26, T:0.25
Consensus pattern (32 bp):
CCTTGGGTAGGCTCTAAGGCCCCAAGGTATTC
Found at i:1321122 original size:23 final size:23
Alignment explanation
Indices: 1321092--1321135 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1321082 CATTATAAAG
*
1321092 ATATAATCAGATTCAATATCTGA
1 ATATAATCAGATCCAATATCTGA
1321115 ATATAATCAGATCCAATATCT
1 ATATAATCAGATCCAATATCT
1321136 ATTGTGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (23 bp):
ATATAATCAGATCCAATATCTGA
Found at i:1323046 original size:34 final size:34
Alignment explanation
Indices: 1323001--1323067 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
1322991 AATAGGAATT
*
1323001 ACAACTTCTCTC-GATCTAACAAGGAGAAAACAATA
1 ACAACTTCTCTCTGA--TAAAAAGGAGAAAACAATA
1323036 ACAA-TTCTCTCTTGATAAAAAGGAGAAAACAA
1 ACAACTTCTCTC-TGATAAAAAGGAGAAAACAA
1323068 CTCAAGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 23 0.79
35 4 0.14
36 2 0.07
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (34 bp):
ACAACTTCTCTCTGATAAAAAGGAGAAAACAATA
Found at i:1331971 original size:2 final size:2
Alignment explanation
Indices: 1331959--1331996 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1331949 GTTTTACACA
1331959 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1331997 TTTTTTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1335736 original size:30 final size:30
Alignment explanation
Indices: 1335676--1335737 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
1335666 AATTATTTGT
*
1335676 CTCCATAGGTCTCCAAGAGCACATGACGAC
1 CTCCATAGGTCTCCAAGAGCACACGACGAC
* * *
1335706 CTCCATAGGTCTCCAGGAGTACACGGCGAC
1 CTCCATAGGTCTCCAAGAGCACACGACGAC
1335736 CT
1 CT
1335738 ATGGAGCACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.18
Consensus pattern (30 bp):
CTCCATAGGTCTCCAAGAGCACACGACGAC
Found at i:1339947 original size:15 final size:15
Alignment explanation
Indices: 1339926--1339962 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
1339916 AAATTTGGGT
1339926 TTTTTTTTAAATATAA
1 TTTTTTTTAAATA-AA
*
1339942 TTTTTTTTAAACAAA
1 TTTTTTTTAAATAAA
1339957 TTTTTT
1 TTTTTT
1339963 AAAATTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTTTTAAATAAA
Found at i:1343244 original size:38 final size:39
Alignment explanation
Indices: 1343201--1343275 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
1343191 TTACTTTTTG
1343201 AAATTTAGTTTTTATATTAATTATAATT-TGTATATTAT
1 AAATTTAGTTTTTATATTAATTATAATTCTGTATATTAT
* * * *
1343239 AAATTTGGTTTTTATGTTAATTCTAATTCTTTATATT
1 AAATTTAGTTTTTATATTAATTATAATTCTGTATATT
1343276 CTTTATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 25 0.78
39 7 0.22
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.59
Consensus pattern (39 bp):
AAATTTAGTTTTTATATTAATTATAATTCTGTATATTAT
Found at i:1343924 original size:16 final size:16
Alignment explanation
Indices: 1343894--1343929 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
1343884 AATTATAATT
1343894 TATATTATATAGTATG
1 TATATTATATAGTATG
1343910 TATA-TATATATGTATG
1 TATATTATATA-GTATG
1343926 TATA
1 TATA
1343930 ACTAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (16 bp):
TATATTATATAGTATG
Found at i:1344133 original size:15 final size:16
Alignment explanation
Indices: 1344087--1344120 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1344077 GTATAGTATT
1344087 TATAAAC-TATATATA
1 TATAAACATATATATA
1344102 TAT-AACATATATATA
1 TATAAACATATATATA
1344117 TATA
1 TATA
1344121 TATAAACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAAACATATATATA
Found at i:1344218 original size:7 final size:7
Alignment explanation
Indices: 1344208--1344265 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
1344198 TAGTTTATAG
1344208 AAACCCT
1 AAACCCT
**
1344215 AAACTTT
1 AAACCCT
1344222 AAACCCT
1 AAACCCT
1344229 AAACCCT
1 AAACCCT
**
1344236 AAACATT
1 AAACCCT
*
1344243 AAATCCT
1 AAACCCT
**
1344250 AAACTAT
1 AAACCCT
1344257 AAACCCT
1 AAACCCT
1344264 AA
1 AA
1344266 TGTAAATGGA
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.22
Consensus pattern (7 bp):
AAACCCT
Found at i:1344225 original size:49 final size:49
Alignment explanation
Indices: 1344122--1344218 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 49
1344112 ATATATATAT
* ** * **
1344122 ATAAACTATATAAAGTAAATTATTTATATAGTTTATAGAAATACTATGC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
*
1344171 ATAAACTATATAAAGT-AATAAAATATATAGTTTATAGAAACCCTAAAC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
1344219 TTTAAACCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 25 0.61
49 16 0.39
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
Found at i:1344232 original size:21 final size:21
Alignment explanation
Indices: 1344208--1344253 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1344198 TAGTTTATAG
*
1344208 AAACCCTAAACTTTAAACCCT
1 AAACCCTAAACATTAAACCCT
*
1344229 AAACCCTAAACATTAAATCCT
1 AAACCCTAAACATTAAACCCT
1344250 AAAC
1 AAAC
1344254 TATAAACCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCCTAAACATTAAACCCT
Found at i:1344259 original size:21 final size:21
Alignment explanation
Indices: 1344208--1344260 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1344198 TAGTTTATAG
* *
1344208 AAACCCTAAACTTTAAACCCT
1 AAACCATAAACATTAAACCCT
* *
1344229 AAACCCTAAACATTAAATCCT
1 AAACCATAAACATTAAACCCT
*
1344250 AAACTATAAAC
1 AAACCATAAAC
1344261 CCTAATGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
AAACCATAAACATTAAACCCT
Found at i:1344832 original size:17 final size:16
Alignment explanation
Indices: 1344810--1344843 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1344800 TAAAAACAGT
1344810 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1344827 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1344843 A
1 A
1344844 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1345344 original size:23 final size:23
Alignment explanation
Indices: 1345318--1345366 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1345308 ATAAAGAACA
*
1345318 AAAATAAA-CTTAAATATACCATT
1 AAAATAAAGCTTAAACAT-CCATT
*
1345341 AAAATAAAGTTTAAACATCCATT
1 AAAATAAAGCTTAAACATCCATT
1345364 AAA
1 AAA
1345367 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATAAAGCTTAAACATCCATT
Found at i:1348681 original size:19 final size:20
Alignment explanation
Indices: 1348659--1348702 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1348649 GAGAAAAGGT
1348659 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
1348678 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
1348698 AAAAG
1 AAAAG
1348703 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:1355027 original size:17 final size:16
Alignment explanation
Indices: 1355005--1355038 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1354995 TAAAAACAGT
1355005 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1355022 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1355038 A
1 A
1355039 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1355544 original size:24 final size:24
Alignment explanation
Indices: 1355512--1355562 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
1355502 AATAAAGAAC
*
1355512 AAAAATAAA-CTTAAATATACCATT
1 AAAAATAAAGCTTAAACAT-CCATT
*
1355536 AAAAATAAAGTTTAAACATCCATT
1 AAAAATAAAGCTTAAACATCCATT
1355560 AAA
1 AAA
1355563 CCAACCACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAAATAAAGCTTAAACATCCATT
Found at i:1356581 original size:2 final size:2
Alignment explanation
Indices: 1356519--1356564 Score: 65
Period size: 2 Copynumber: 22.0 Consensus size: 2
1356509 ATAAACCATG
*
1356519 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA 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
1356563 TA
1 TA
1356565 AGTAAATTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 37 0.93
3 3 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1356667 original size:21 final size:21
Alignment explanation
Indices: 1356638--1356688 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
1356628 TAATTTATAA
**
1356638 AAACCCTAAACTTTAAACCAT
1 AAACCCTAAACAGTAAACCAT
* *
1356659 AAACACTAAACAGTAAATCAT
1 AAACCCTAAACAGTAAACCAT
1356680 AAACCCTAA
1 AAACCCTAA
1356689 TGTAAATGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.53, C:0.25, G:0.02, T:0.20
Consensus pattern (21 bp):
AAACCCTAAACAGTAAACCAT
Found at i:1356884 original size:22 final size:24
Alignment explanation
Indices: 1356850--1356908 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
1356840 ACCATATATA
*
1356850 TATATATATATAAACTATATAGTT
1 TATATATATATAAACTATATAATT
1356874 TATAT-TA-ATAAACTATATAATT
1 TATATATATATAAACTATATAATT
*
1356896 TATACAATATATA
1 TATA-TATATATA
1356909 TTATTTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 18 0.60
23 2 0.07
24 7 0.23
25 3 0.10
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (24 bp):
TATATATATATAAACTATATAATT
Found at i:1356969 original size:20 final size:20
Alignment explanation
Indices: 1356953--1357199 Score: 103
Period size: 20 Copynumber: 11.4 Consensus size: 20
1356943 TTGTATAGTT
*
1356953 TATATATAATTTATATATAA
1 TATATATAGTTTATATATAA
* * *
1356973 -ACTATGTAGTTTCTATATAG
1 TA-TATATAGTTTATATATAA
*
1356993 T-TCA-ATAGTTCATATATAA
1 TAT-ATATAGTTTATATATAA
1357012 -ACTATATAGTATTATAGTTTATACA
1 TA-TATATAGT-TTATA---TATA-A
1357037 TTGTATATATAGTTTATACATAATATA
1 ---TATATATAGTTTAT--AT-ATA-A
1357064 TATAATGTATAGTTTATATATAA
1 TAT-A--TATAGTTTATATATAA
* * *
1357087 TATATAATAATATAAATATAA
1 TATAT-ATAGTTTATATATAA
*
1357108 -ATTATATAGTTTTTATATGTAA
1 TA-TATATAG--TTTATATATAA
* *
1357130 TACATATACTTTATATATAA
1 TATATATAGTTTATATATAA
1357150 -ACTATATAGTTTATATTATATA
1 TA-TATATAGTTTATA-TATA-A
*
1357172 TATATATA-TATATATATATA
1 TATATATAGTTTATATATA-A
1357192 TATATATA
1 TATATATA
1357200 TTATAGTTGT
Statistics
Matches: 174, Mismatches: 23, Indels: 60
0.68 0.09 0.23
Matches are distributed among these distances:
19 15 0.09
20 61 0.35
21 28 0.16
22 21 0.12
23 6 0.03
24 10 0.06
25 4 0.02
26 1 0.01
27 18 0.10
28 8 0.05
29 2 0.01
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (20 bp):
TATATATAGTTTATATATAA
Found at i:1357047 original size:2 final size:2
Alignment explanation
Indices: 1357040--1357204 Score: 96
Period size: 2 Copynumber: 84.0 Consensus size: 2
1357030 TTATACATTG
* * * *
1357040 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA -A TG TA TA GTT TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
1357082 TA TA -A TA TA TA -A TA -A TA TA AA TA TA AA T- TA TA TA GTT TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
1357121 TA TA TG TA -A TA CA TA TA CTT TA TA TA TA AA CTA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA
1357163 TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1357203 TA
1 TA
1357205 GTTGTTTTAA
Statistics
Matches: 124, Mismatches: 24, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
1 9 0.07
2 109 0.88
3 6 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1357074 original size:9 final size:9
Alignment explanation
Indices: 1357051--1357204 Score: 67
Period size: 9 Copynumber: 17.4 Consensus size: 9
1357041 ATATATAGTT
*
1357051 TATACATAA
1 TATATATAA
1357060 TATATATAA
1 TATATATAA
* *
1357069 TGTATAGT-T
1 TATATA-TAA
1357078 TATATAT-A
1 TATATATAA
1357086 -ATATATAA
1 TATATATAA
1357094 TA-ATATAA
1 TATATATAA
1357102 -ATATA-AA
1 TATATATAA
**
1357109 TTATATAGTTTT
1 -TATATA--TAA
*
1357121 TATATGTAA
1 TATATATAA
* *
1357130 TACATATACTT
1 TATATATA--A
1357141 TATATATAA
1 TATATATAA
*
1357150 -ACTATATAG
1 TA-TATATAA
* *
1357159 TTTATATTA
1 TATATATAA
1357168 TATATAT-A
1 TATATATAA
1357176 TATATAT-A
1 TATATATAA
1357184 TATATAT-A
1 TATATATAA
*
1357192 TATATATAT
1 TATATATAA
1357201 TATA
1 TATA
1357205 GTTGTTTTAA
Statistics
Matches: 110, Mismatches: 21, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
7 9 0.08
8 36 0.33
9 52 0.47
10 1 0.01
11 12 0.11
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (9 bp):
TATATATAA
Found at i:1357074 original size:27 final size:28
Alignment explanation
Indices: 1357044--1357097 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
1357034 ACATTGTATA
1357044 TATAGTTTATACATAATATAT-ATAATG
1 TATAGTTTATACATAATATATAATAATG
*
1357071 TATAGTTTATATATAATATATAATAAT
1 TATAGTTTATACATAATATATAATAAT
1357098 ATAAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (28 bp):
TATAGTTTATACATAATATATAATAATG
Found at i:1357702 original size:208 final size:209
Alignment explanation
Indices: 1357271--1357970 Score: 1177
Period size: 209 Copynumber: 3.3 Consensus size: 209
1357261 TATTTTTCAT
* *
1357271 ATTTGATCTCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATT
1 ATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATT
* *
1357336 TAGTCCTCCAAATTTTATTTGCATATAAAATTGACCCATACTTATTATTTATTTCTATTTTTTAA
66 TAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
* *
1357401 TTGGCCCATAACTTTTTTAATTGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
131 TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
1357466 TTAAAATTATTTCG
196 TTAAAATTATTTCG
* *
1357480 ATTTGACCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTGCAATT
1 ATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATT
1357545 TAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTA-TTCTATTTTTTAA
66 TAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
*
1357609 TTGGCCCATAACTTTTTAAATGGGTATAATTTATTACTTTTTTGTATTAATTTCAACCTCACAAT
131 TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
1357674 TTAAAATTATTTCG
196 TTAAAATTATTTCG
*
1357688 ATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATT
1 ATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATT
* * ** *
1357753 TAGTCCTCCAAATTATATTTGCATCTGAAATTGAGGCATACTTATTACTTATTTATATTTTTTAA
66 TAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
1357818 TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
131 TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
*
1357883 TTAAAATTATTTCA
196 TTAAAATTATTTCG
*
1357897 ATTTGATCCCTCATTAATGTGTGTTGTTTAATTTATTTAAATTTTGATTTGTAATTTCATATTTG
1 ATTTGAT-CC-C--T--T-TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTG
1357962 TTCAATTTA
59 TTCAATTTA
1357971 ATTCTTAAAT
Statistics
Matches: 462, Mismatches: 21, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
208 198 0.43
209 206 0.45
210 2 0.00
211 1 0.00
213 1 0.00
215 1 0.00
216 53 0.11
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.52
Consensus pattern (209 bp):
ATTTGATCCCTTTGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATT
TAGTCCTCCAAATTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAA
TTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAAT
TTAAAATTATTTCG
Found at i:1358644 original size:31 final size:31
Alignment explanation
Indices: 1358586--1358646 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
1358576 TAGAGTTCTA
* *
1358586 ATGATTTATCTTAGTGGCAAAATGGTATTTT
1 ATGATTGATCTTAGTGGCAAAAGGGTATTTT
* *
1358617 ATGATTGATCTTAGTGGTATAAGGGTATTT
1 ATGATTGATCTTAGTGGCAAAAGGGTATTT
1358647 GTGTTTGGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (31 bp):
ATGATTGATCTTAGTGGCAAAAGGGTATTTT
Found at i:1368598 original size:36 final size:36
Alignment explanation
Indices: 1368509--1368582 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
1368499 TTGGAGGACT
*
1368509 AAATTCAATGAAAATTAAATATAGAGGCTTAATTGA
1 AAATTGAATGAAAATTAAATATAGAGGCTTAATTGA
1368545 AAATTGAATGAAAATTAAATATAGAGGCTTAATTGA
1 AAATTGAATGAAAATTAAATATAGAGGCTTAATTGA
1368581 AA
1 AA
1368583 TATTTTCTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (36 bp):
AAATTGAATGAAAATTAAATATAGAGGCTTAATTGA
Found at i:1369439 original size:8 final size:8
Alignment explanation
Indices: 1369426--1369452 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1369416 ATGTCTCGTC
1369426 ATACAATA
1 ATACAATA
1369434 ATACAATA
1 ATACAATA
1369442 ATACAATA
1 ATACAATA
1369450 ATA
1 ATA
1369453 GTTTCAGACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (8 bp):
ATACAATA
Found at i:1370069 original size:22 final size:22
Alignment explanation
Indices: 1370044--1370119 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
1370034 CACATGACGA
*
1370044 GAGTCAAATCACTCAATTTAAT
1 GAGTCATATCACTCAATTTAAT
* * *
1370066 GAGTCATATCA--AAATTCCATCT
1 GAGTCATATCACTCAATT-TA-AT
1370088 G-GTCATATCACTCAATTTAAT
1 GAGTCATATCACTCAATTTAAT
1370109 GAGTCATATCA
1 GAGTCATATCA
1370120 ACATTTTGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
20 4 0.10
21 12 0.29
22 22 0.52
23 4 0.10
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (22 bp):
GAGTCATATCACTCAATTTAAT
Found at i:1381386 original size:2 final size:2
Alignment explanation
Indices: 1381374--1381441 Score: 127
Period size: 2 Copynumber: 33.5 Consensus size: 2
1381364 TAATACAATA
1381374 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1381417 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1381442 CAGACACACA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 63 0.97
3 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1381530 original size:50 final size:51
Alignment explanation
Indices: 1381453--1381551 Score: 173
Period size: 50 Copynumber: 1.9 Consensus size: 51
1381443 AGACACACAA
1381453 ATATTATAATTGATTAATATAATGAAGAGCTTCGTTGACTAATAATTTTAGT
1 ATATTATAATTGA-TAATATAATGAAGAGCTTCGTTGACTAATAATTTTAGT
*
1381505 ATATTATAATTGA-AATATAATGAAGAGCTTCGTTGACTTATAATTTT
1 ATATTATAATTGATAATATAATGAAGAGCTTCGTTGACTAATAATTTT
1381552 TCTGATAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 33 0.72
52 13 0.28
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.42
Consensus pattern (51 bp):
ATATTATAATTGATAATATAATGAAGAGCTTCGTTGACTAATAATTTTAGT
Found at i:1383285 original size:31 final size:31
Alignment explanation
Indices: 1383249--1383307 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1383239 AACTTAAAAG
* *
1383249 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1383280 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1383308 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1383355 original size:20 final size:21
Alignment explanation
Indices: 1383330--1383372 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1383320 AATAATAAAT
1383330 TATTT-AAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
*
1383350 TATTTAAAATAAATCAATTCA
1 TATTTAAAATAAATCAATCCA
1383371 TA
1 TA
1383373 CTAATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (21 bp):
TATTTAAAATAAATCAATCCA
Found at i:1383380 original size:18 final size:18
Alignment explanation
Indices: 1383356--1383551 Score: 71
Period size: 18 Copynumber: 12.1 Consensus size: 18
1383346 TCCATATTTA
1383356 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
1383374 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
1383388 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
1383406 AACT--A-CAA-T-A-AT
1 AAATAAATCAATTCATAC
* *
1383418 AAATCAATCCATATT-TTA-
1 AAATAAAT-CA-ATTCATAC
* *
1383436 AAATAAATGAATCCATAC
1 AAATAAATCAATTCATAC
*
1383454 AAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
*
1383468 AAATAAATCAATCCATAC
1 AAATAAATCAATTCATAC
* *
1383486 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
1383500 AAATAAATCAATTCATAC
1 AAATAAATCAATTCATAC
* *
1383518 TAATAAAT-TATT--TA-
1 AAATAAATCAATTCATAC
*
1383532 AAATAAATCAATCCATAC
1 AAATAAATCAATTCATAC
1383550 AA
1 AA
1383552 CTACAATAAT
Statistics
Matches: 127, Mismatches: 26, Indels: 50
0.63 0.13 0.25
Matches are distributed among these distances:
12 4 0.03
13 1 0.01
14 31 0.24
15 21 0.17
16 5 0.04
17 22 0.17
18 42 0.33
19 1 0.01
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (18 bp):
AAATAAATCAATTCATAC
Found at i:1383459 original size:80 final size:80
Alignment explanation
Indices: 1383336--1384052 Score: 719
Period size: 80 Copynumber: 8.8 Consensus size: 80
1383326 AAATTATTTA
*
1383336 AATAAATCAATCCATA-TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1383400 TCATACAACTACAAT
66 TCATACAACTACAAT
* *
1383415 AATAAATCAATCCATATTTTAAAATAAATGAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
1383480 CCATACTAA-TAAATTATTT
66 TCATAC-AACTACA--A--T
* ** * * * * *
1383499 AAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT-C-CATACAACTA--CAATA
1 --AATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACTAATA-AATTATTTAA-A
* *** *
1383560 ATAAATCAATCCATA-TTTTAAAAT
56 ATAAATCAATTCATACAACTACAAT
* * ** *
1383584 AAATCAATCAATACTAATAAATTATTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCA
1 -AATAAATCAAT-C-CAT--ATT-TTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
* * * *
1383643 ATCCATACTAATA-AATTATTTAA-
60 AT-CA-ATTCATACAACTA--CAAT
1383666 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
1383731 CCATACAACTACAAT
66 TCATACAACTACAAT
* *
1383746 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAACAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1383811 TCATACAACTACAAT
66 TCATACAACTACAAT
*
1383826 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACCAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
1383891 TCATACTAA-TAAATTATTT
66 TCATAC-AACTACA--A--T
* *
1383910 AAAATAAATCAATCCATATTTTAAAACAAATCAATACATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1383975 ATTCATACAACTACAAT
64 ATTCATACAACTACAAT
*
1383992 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1384053 TATTTTAAAA
Statistics
Matches: 539, Mismatches: 55, Indels: 87
0.79 0.08 0.13
Matches are distributed among these distances:
76 20 0.04
77 8 0.01
79 27 0.05
80 268 0.50
81 29 0.05
82 10 0.02
83 14 0.03
84 17 0.03
85 3 0.01
86 89 0.17
87 7 0.01
88 5 0.01
89 7 0.01
90 19 0.04
91 6 0.01
92 10 0.02
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
TCATACAACTACAAT
Found at i:1383471 original size:14 final size:14
Alignment explanation
Indices: 1383454--1383539 Score: 55
Period size: 14 Copynumber: 5.6 Consensus size: 14
1383444 GAATCCATAC
1383454 AAATAAATTATTTA
1 AAATAAATTATTTA
* *
1383468 AAATAAATCAATCCATA
1 AAATAAAT-TAT--TTA
*
1383485 CTAATAAATTATTTA
1 -AAATAAATTATTTA
*
1383500 AAATAAATCAATTCATA
1 AAATAAAT-TATT--TA
*
1383517 CTAATAAATTATTTA
1 -AAATAAATTATTTA
1383532 AAATAAAT
1 AAATAAAT
1383540 CAATCCATAC
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
14 22 0.41
15 9 0.17
17 9 0.17
18 14 0.26
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:1383471 original size:32 final size:32
Alignment explanation
Indices: 1383432--1383984 Score: 328
Period size: 32 Copynumber: 19.8 Consensus size: 32
1383422 CAATCCATAT
*
1383432 TTTAAAATAAATGAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
1383464 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
1383496 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
1383528 TTTAAAATAAATCAATCCATACAACTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
1383558 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
1383576 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
1383608 -TTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
1383629 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
1383661 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
1383683 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
1383715 TTTAAAATAAATCAATCCATACAACTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
1383745 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
1383763 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* * * *
1383795 TTTAAAATAAAACAATTCATACAACTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
1383825 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
1383843 TTTAAAATAAATCAATCCATACCAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
1383875 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
1383907 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* * *
1383929 TTTAAAACAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
1383961 TTTAAAATAAATCAATTCATACAA
1 TTTAAAATAAATCAATCCATACAA
1383985 CTACAATAAT
Statistics
Matches: 420, Mismatches: 28, Indels: 146
0.71 0.05 0.25
Matches are distributed among these distances:
20 3 0.01
22 93 0.22
23 6 0.01
24 2 0.00
25 2 0.00
26 56 0.13
27 1 0.00
28 11 0.03
30 6 0.01
31 20 0.05
32 220 0.52
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:1383605 original size:22 final size:22
Alignment explanation
Indices: 1383533--1383605 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
1383523 AATTATTTAA
* *
1383533 AATAAATCAATCCATACAACTAC-
1 AATAAATAAATCAAT-CAA-TACT
*
1383556 AAT-AATAAATCAATCCATA-T
1 AATAAATAAATCAATCAATACT
**
1383576 TTTAAAATAAATCAATCAATACT
1 AAT-AAATAAATCAATCAATACT
1383599 AATAAAT
1 AATAAAT
1383606 TATTAAAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
20 3 0.08
21 2 0.05
22 28 0.74
23 5 0.13
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAAATAAATCAATCAATACT
Found at i:1383658 original size:22 final size:22
Alignment explanation
Indices: 1383609--1383657 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1383599 AATAAATTAT
**
1383609 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1383631 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1383654 TAAA
1 TAAA
1383658 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1383687 original size:22 final size:22
Alignment explanation
Indices: 1383661--1383703 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1383651 TAATAAATTA
1383661 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1383683 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1383704 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1383690 original size:54 final size:54
Alignment explanation
Indices: 1383559--1384052 Score: 368
Period size: 54 Copynumber: 9.1 Consensus size: 54
1383549 CAACTACAAT
*
1383559 AATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTA-TTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1383612 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1383666 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** * * * *
1383720 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCAT
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--CT--AATAAAT-TATTTAA
* * * * *
1383783 ACT-AATAAAT---TA-TTTAAAATAAAACAATTCATAC-AACTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
*
1383826 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACCAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** ** ** *
1383880 AATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAACAAAT-C
1 AATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** * *
1383942 AATACATACTAATAAAT-TATTTAAAATAAATCAATTCATAC-AACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
*
1383992 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1384046 AATAAAT
1 AATAAAT
1384053 TATTTTAAAA
Statistics
Matches: 355, Mismatches: 41, Indels: 89
0.73 0.08 0.18
Matches are distributed among these distances:
43 2 0.01
44 6 0.02
47 3 0.01
48 53 0.15
49 8 0.02
50 11 0.03
51 1 0.00
52 2 0.01
53 49 0.14
54 126 0.35
55 8 0.02
56 1 0.00
57 4 0.01
58 19 0.05
59 1 0.00
60 3 0.01
62 20 0.06
63 15 0.04
64 23 0.06
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:1383712 original size:22 final size:22
Alignment explanation
Indices: 1383663--1383711 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1383653 ATAAATTATT
**
1383663 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1383685 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1383708 TAAA
1 TAAA
1383712 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1383872 original size:22 final size:21
Alignment explanation
Indices: 1383820--1383872 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
1383810 TTCATACAAC
1383820 TACAAT-AATAAATCAATCCA
1 TACAATAAATAAATCAATCCA
***
1383840 TATTTTAAAATAAATCAATCCA
1 TACAAT-AAATAAATCAATCCA
1383862 TACCAATAAAT
1 TA-CAATAAAT
1383873 TATTTAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
20 3 0.12
22 20 0.83
23 1 0.04
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (21 bp):
TACAATAAATAAATCAATCCA
Found at i:1383885 original size:14 final size:14
Alignment explanation
Indices: 1383866--1383918 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
1383856 AATCCATACC
1383866 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
1383880 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
1383898 AATAAATTATTTAA
1 AATAAATTATTTAA
1383912 AATAAAT
1 AATAAAT
1383919 CAATCCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:1383933 original size:22 final size:22
Alignment explanation
Indices: 1383907--1383949 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1383897 TAATAAATTA
* *
1383907 TTTAAAATAAATCAATCCATAT
1 TTTAAAACAAATCAATACATAT
1383929 TTTAAAACAAATCAATACATA
1 TTTAAAACAAATCAATACATA
1383950 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAACAAATCAATACATAT
Found at i:1383952 original size:166 final size:160
Alignment explanation
Indices: 1383666--1384052 Score: 641
Period size: 166 Copynumber: 2.4 Consensus size: 160
1383656 AATTATTTAA
1383666 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* * *
1383731 CCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
66 CCATACAACTAAAATAATAAATCAATCCATATTTTAAAACAAATCAATACATACTAATAAATTAT
1383796 TTAAAATAAAACAATTCATACAACTACAAT
131 TTAAAATAAAACAATTCATACAACTACAAT
*
1383826 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACCAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
1383891 TCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAACAAATCAATACATACTAAT
66 CCATAC-AACTAAA--A--T--AATAAATCAATCCATATTTTAAAACAAATCAATACATACTAAT
*
1383955 AAATTATTTAAAATAAATCAATTCATACAACTACAAT
124 AAATTATTTAAAATAAAACAATTCATACAACTACAAT
*
1383992 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1384053 TATTTTAAAA
Statistics
Matches: 212, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
160 72 0.34
161 2 0.01
162 1 0.00
164 1 0.00
166 136 0.64
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (160 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTAAAATAATAAATCAATCCATATTTTAAAACAAATCAATACATACTAATAAATTAT
TTAAAATAAAACAATTCATACAACTACAAT
Found at i:1384020 original size:22 final size:22
Alignment explanation
Indices: 1383992--1384087 Score: 75
Period size: 22 Copynumber: 4.2 Consensus size: 22
1383982 CAACTACAAT
1383992 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
* **
1384014 AATAAATCAATTCATACTAATAA
1 AATAAATCAATCCATA-TTTTAA
* ** * **
1384037 ATTATTTAAAATAAATTATTTTAA
1 AATAAAT-CAATCCA-TATTTTAA
*
1384061 AATAAATCAATCCATATTTTAT
1 AATAAATCAATCCATATTTTAA
1384083 AATAA
1 AATAA
1384088 TTTATTTTAA
Statistics
Matches: 53, Mismatches: 18, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
22 27 0.51
23 12 0.23
24 12 0.23
25 2 0.04
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:1384061 original size:15 final size:15
Alignment explanation
Indices: 1384032--1384134 Score: 109
Period size: 15 Copynumber: 6.5 Consensus size: 15
1384022 AATTCATACT
1384032 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
1384046 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1384061 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
1384083 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
1384098 AATAAATTATTTTAT
1 AATAAATTATTTTAA
1384113 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1384128 AATAAAT
1 AATAAAT
1384135 AACCTTATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.12
15 49 0.65
17 1 0.01
18 2 0.03
19 3 0.04
20 1 0.01
22 10 0.13
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1384074 original size:69 final size:67
Alignment explanation
Indices: 1383992--1384134 Score: 198
Period size: 67 Copynumber: 2.1 Consensus size: 67
1383982 CAACTACAAT
*
1383992 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTA-TTTAAAATAAATTAT
1 AATAAATCAATCCATATTTTAAAAT-AATCAATT-ATA-AAATAAATTATTTTAAAATAAATTAT
1384056 TTTAA
63 TTTAA
* ** * *
1384061 AATAAATCAATCCATATTTTATAATAATTTATTTTAAAATAAATTATTTTATAATAAATTATTTT
1 AATAAATCAATCCATATTTTAAAATAATCAATTATAAAATAAATTATTTTAAAATAAATTATTTT
1384126 AA
66 AA
1384128 AATAAAT
1 AATAAAT
1384135 AACCTTATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
66 9 0.13
67 28 0.42
68 6 0.09
69 24 0.36
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (67 bp):
AATAAATCAATCCATATTTTAAAATAATCAATTATAAAATAAATTATTTTAAAATAAATTATTTT
AA
Found at i:1385891 original size:20 final size:21
Alignment explanation
Indices: 1385868--1385915 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1385858 CTTTACATTA
1385868 TATTTTTATTG-AATTTTATT
1 TATTTTTATTGCAATTTTATT
*
1385888 TATTTTTATTGCATTTTTATT
1 TATTTTTATTGCAATTTTATT
1385909 TATTTTT
1 TATTTTT
1385916 TTAAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (21 bp):
TATTTTTATTGCAATTTTATT
Found at i:1385916 original size:11 final size:10
Alignment explanation
Indices: 1385868--1385915 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
1385858 CTTTACATTA
1385868 TATTTTTATT
1 TATTTTTATT
* *
1385878 GAATTTTATT
1 TATTTTTATT
1385888 TATTTTTATT
1 TATTTTTATT
*
1385898 GCATTTTTATT
1 -TATTTTTATT
1385909 TATTTTT
1 TATTTTT
1385916 TTAAAAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (10 bp):
TATTTTTATT
Found at i:1386982 original size:2 final size:2
Alignment explanation
Indices: 1386975--1387004 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1386965 CATTAAAACG
1386975 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1387005 CAACAACAAC
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):
TA
Found at i:1387192 original size:13 final size:13
Alignment explanation
Indices: 1387174--1387200 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1387164 ATAGTTGAAA
1387174 CAGTCTTCATATG
1 CAGTCTTCATATG
1387187 CAGTCTTCATATG
1 CAGTCTTCATATG
1387200 C
1 C
1387201 GCGTCTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:1388324 original size:2 final size:2
Alignment explanation
Indices: 1388317--1388357 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
1388307 CATTAAAACG
1388317 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1388358 CAACAACAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1388387 original size:688 final size:676
Alignment explanation
Indices: 1386894--1388914 Score: 3437
Period size: 665 Copynumber: 3.0 Consensus size: 676
1386884 AGTAAACTAC
*
1386894 TTATTTTATCATTAATTTATTTTTTAATTTTTATTTTAATCATTTATTATTATTATTATAATACT
1 TTATTTTATCATTAATTTATTATTTAATTTTTATTTTAATCATTTATTATTATTATTATAATACT
1386959 TTTAATCATTAAAACGTATATATATATATATATATATATATA-TATACAACAACAACAAAATCCT
66 TTTAATCATTAAAACGTATATATATATATATATATATATATATTATACAACAACAACAAAA-CCT
*
1387023 ATTCTTATATATAATTGGGTAAGGGGAGGTAAGATACTAGACTGTCCCTAACGCCAGATTGAGAG
130 ATTCTTATATATAATTGGGTAAGGGGAGGTAAGATAGTAGACTGTCCCTAACGCCAGATTGAGAG
1387088 CAACTTTCGTGGAAGACCTCTGGCAATCAGAAAATTAAAAATAAAGATAAAATGCAATGCATGTA
195 CAACTTTCGTGGAAGACCTCTGGCAATCAGAAAATTAAAAATAAAGATAAAATGCAATGCATGTA
1387153 TATATAAATGCATAGTTGAAACAGTCTTCATATGCAGTCTTCATATGCGCGTCTGTAATGGGAAG
260 TATATAAATGCATAGTTGAAACA-TCTTCATATGCAGTCTTCATATGCGCGTCTGTAATGGGAAG
*
1387218 TAATCCTTGTAAATGAATCTCTGCGTAAAAATCTCTGCATATAAACAGAAACGTAAGACTTGGTA
324 TAATCCTTGTAAATGAATCTCTGCGTAAAAATCTCTGCATATAGACAGAAACGTAAGACTTGGTA
1387283 AAATTTAAAAAGAGGAAACATGACGATAATGATACACAGAAAGTCGACGATAACAAGCAACAAGA
389 AAATTTAAAAAGAGGAAACATGACGATAATGATACACAGAAAGTCGACGATAACAAGCAACAAGA
*
1387348 AAGAATAAACTCAAATGAGTTAAAACCTAAACTAAGACAACACTATTCCGTTACCGTAATTCTAA
454 AGGAATAAACTCAAATGAGTTAAAACCTAAACTAAGACAACACTATTCCGTTACCGTAATTCTAA
*
1387413 GCCTTCATAAATTTCAATGACAGAGACAT-AAAAAAAGTTATAAAAATTACTACAAAAACATTAA
519 GCCTTCATAAATTTCAATGACAGAGACATAAAAAAAAGTTATAAAAATTACTACAAAAATATTAA
1387477 AAAAAACAGAGATGAT--ACCCTATAAATGTAATCGAATGTAAAATCTCTTGGGGAAAAAAAGTA
584 AAAAAACAGAGATGATAAACCCTATAAATGTAATCGAATGTAAAATCTCTTGGGGAAAAAAAGTA
1387540 AAGCAGGAAGCAGCTAAATGTAAAGGGG
649 AAGCAGGAAGCAGCTAAATGTAAAGGGG
1387568 TTATTTTATCATTAATTTATTATTTAATTTTTATTTTAATCATTTATTATTATTATTATAATACT
1 TTATTTTATCATTAATTTATTATTTAATTTTTATTTTAATCATTTATTATTATTATTATAATACT
1387633 TTTAATCATTAAAACG----------TATATATATATATATATTATACAACAACAACAAAACCCT
66 TTTAATCATTAAAACGTATATATATATATATATATATATATATTATACAACAACAACAAAA-CCT
* *
1387688 ATTCTTATATATAATTGGGTAAGGGGAGGTAAGATAGTAGGCTGTCCCTAATGCCAGATTGAGAG
130 ATTCTTATATATAATTGGGTAAGGGGAGGTAAGATAGTAGACTGTCCCTAACGCCAGATTGAGAG
1387753 CAACTTTCGTGGAAGACCTCTGGCAATCAGAAAATTAAAAATAAAGATAAAATGCAATGCATGTA
195 CAACTTTCGTGGAAGACCTCTGGCAATCAGAAAATTAAAAATAAAGATAAAATGCAATGCATGTA
*
1387818 TATATAAATGCATAGTTGAAACATTCTTCATATGCAGTCTTCATATACGCGTCTGTAATGGGAAG
260 TATATAAATGCATAGTTGAAACA-TCTTCATATGCAGTCTTCATATGCGCGTCTGTAATGGGAAG
* *
1387883 TAATCATTGTAAATGAATCTCTGCGTAAAAATCTCTGCATATAGACAAAAACGTAAGACTTGGTA
324 TAATCCTTGTAAATGAATCTCTGCGTAAAAATCTCTGCATATAGACAGAAACGTAAGACTTGGTA
*
1387948 AAATTTAAAAAGAGAAAACATGACGATAATGATACACAGAAAGTCGACGATAACAAGCAACAAGA
389 AAATTTAAAAAGAGGAAACATGACGATAATGATACACAGAAAGTCGACGATAACAAGCAACAAGA
1388013 AGGAATAAACTCAAATGAGTTAAAACCTAAACTAAGACAACACTATTCCGTTACCGTAATTCTAA
454 AGGAATAAACTCAAATGAGTTAAAACCTAAACTAAGACAACACTATTCCGTTACCGTAATTCTAA
1388078 GCCTTCATAAATTTCAATGACAGAGACATAAAAAAAAGTTATAAAAATTACTACAAAAATATTAA
519 GCCTTCATAAATTTCAATGACAGAGACATAAAAAAAAGTTATAAAAATTACTACAAAAATATTAA
1388143 AAAAAACAGAGATGATAAACCCTATAAATGTAATCGAATGTAAAATCTCTTGGGGAAAAAAAGTA
584 AAAAAACAGAGATGATAAACCCTATAAATGTAATCGAATGTAAAATCTCTTGGGGAAAAAAAGTA
1388208 AAGCAGGAAGCAGCTAAATGTAAAGGGG
649 AAGCAGGAAGCAGCTAAATGTAAAGGGG
1388236 TTATTTTATCATTAATTTATTATTTAATTTTTATTTTAATCATTTATTATTATTATTATAATACT
1 TTATTTTATCATTAATTTATTATTTAATTTTTATTTTAATCATTTATTATTATTATTATAATACT
1388301 TTTAATCATTAAAACGTATATATATATATATATATATATATATATATATATATTATACAACAACA
66 TTTAATCATTAAAACG----------TATATATATATATATATATATATATATTATACAACAACA
*
1388366 ACAAAACACTATTCTTATATATAATTGGATAAGGGGAGGTAAGATAGTAGACTGTCCCTAACGCC
121 ACAAAAC-CTATTCTTATATATAATTGGGTAAGGGGAGGTAAGATAGTAGACTGTCCCTAACGCC
*
1388431 AGATTGAGAGTAACTTTCGTGGAAGACCTCTGGCAATCAGAAAATTAAAAATAAAGATAAAATGC
185 AGATTGAGAGCAACTTTCGTGGAAGACCTCTGGCAATCAGAAAATTAAAAATAAAGATAAAATGC
1388496 AATGCATGTATATATAAATGCATAGTTG----A-----A-A--CAGTCTTCATATGCGCGTCTGT
250 AATGCATGTATATATAAATGCATAGTTGAAACATCTTCATATGCAGTCTTCATATGCGCGTCTGT
*
1388549 AATGGGAAGTAATCCCTGTAAATGAATCTCTGCGTAAAAATCTCTGCATATAGACAGAAACGTAA
315 AATGGGAAGTAATCCTTGTAAATGAATCTCTGCGTAAAAATCTCTGCATATAGACAGAAACGTAA
* * *
1388614 GACTTGGTAAAATTTAAAAAGAGGAAATATGACAAGAATGATACACAGAAAGTCGACGATAACAA
380 GACTTGGTAAAATTTAAAAAGAGGAAACATGACGATAATGATACACAGAAAGTCGACGATAACAA
* ***
1388679 GCAACAAGAAGGAATAAACTCAAATGAGTTAAAACCTAAACTAAGACAATACTATTTTATTACCG
445 GCAACAAGAAGGAATAAACTCAAATGAGTTAAAACCTAAACTAAGACAACACTATTCCGTTACCG
* * * *
1388744 TAATTCTAAACCTTCATAAATTTAAATGACAGAGACATAAAAAAAAGTTATAAAAATTAATATAA
510 TAATTCTAAGCCTTCATAAATTTCAATGACAGAGACATAAAAAAAAGTTATAAAAATTACTACAA
* *
1388809 AAATATTAAAAAAAACAGAGAGGATAAACCCTATAAATATAGCTAATCGAATGTAAAATATCTTG
575 AAATATTAAAAAAAACAGAGATGATAAACCCTAT-AA-AT-G-TAATCGAATGTAAAATCTCTTG
*
1388874 GGAAAAAAAAGTAAAGCAGGAAGCAGCTAAATGTAAAGGGG
636 GGGAAAAAAAGTAAAGCAGGAAGCAGCTAAATGTAAAGGGG
1388915 GTGGGTGGGG
Statistics
Matches: 1282, Mismatches: 36, Indels: 53
0.94 0.03 0.04
Matches are distributed among these distances:
664 16 0.01
665 430 0.34
666 50 0.04
668 156 0.12
674 80 0.06
675 299 0.23
676 2 0.00
677 3 0.00
678 2 0.00
679 61 0.05
684 1 0.00
687 1 0.00
688 181 0.14
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (676 bp):
TTATTTTATCATTAATTTATTATTTAATTTTTATTTTAATCATTTATTATTATTATTATAATACT
TTTAATCATTAAAACGTATATATATATATATATATATATATATTATACAACAACAACAAAACCTA
TTCTTATATATAATTGGGTAAGGGGAGGTAAGATAGTAGACTGTCCCTAACGCCAGATTGAGAGC
AACTTTCGTGGAAGACCTCTGGCAATCAGAAAATTAAAAATAAAGATAAAATGCAATGCATGTAT
ATATAAATGCATAGTTGAAACATCTTCATATGCAGTCTTCATATGCGCGTCTGTAATGGGAAGTA
ATCCTTGTAAATGAATCTCTGCGTAAAAATCTCTGCATATAGACAGAAACGTAAGACTTGGTAAA
ATTTAAAAAGAGGAAACATGACGATAATGATACACAGAAAGTCGACGATAACAAGCAACAAGAAG
GAATAAACTCAAATGAGTTAAAACCTAAACTAAGACAACACTATTCCGTTACCGTAATTCTAAGC
CTTCATAAATTTCAATGACAGAGACATAAAAAAAAGTTATAAAAATTACTACAAAAATATTAAAA
AAAACAGAGATGATAAACCCTATAAATGTAATCGAATGTAAAATCTCTTGGGGAAAAAAAGTAAA
GCAGGAAGCAGCTAAATGTAAAGGGG
Found at i:1389015 original size:6 final size:6
Alignment explanation
Indices: 1389004--1389034 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
1388994 CTGTACTGTT
1389004 ATCTCC ATCTCC ATCTCC ATCTCC ATCTCC A
1 ATCTCC ATCTCC ATCTCC ATCTCC ATCTCC A
1389035 ATTGCCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.48, G:0.00, T:0.32
Consensus pattern (6 bp):
ATCTCC
Found at i:1393231 original size:21 final size:22
Alignment explanation
Indices: 1393189--1393235 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1393179 AATTTTTTTT
**
1393189 AAATCAACAATTTTTTATAAAA
1 AAATCAACAATTTTAGATAAAA
*
1393211 AAATCAACACTTTTAGA-AAAA
1 AAATCAACAATTTTAGATAAAA
1393232 AAAT
1 AAAT
1393236 TCAGGAGTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (22 bp):
AAATCAACAATTTTAGATAAAA
Found at i:1399191 original size:18 final size:19
Alignment explanation
Indices: 1399151--1399192 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
1399141 GAGAATTTTT
*
1399151 TTTATATAAAAATATATGT
1 TTTATATAAAAATATATGC
1399170 TTTA-ATAAAAATATTAT-C
1 TTTATATAAAAATA-TATGC
1399188 TTTAT
1 TTTAT
1399193 TTTTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTATATAAAAATATATGC
Found at i:1403731 original size:15 final size:15
Alignment explanation
Indices: 1403711--1403740 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1403701 GGTTCAAGGA
1403711 TTGTGGGATTCCCAT
1 TTGTGGGATTCCCAT
1403726 TTGTGGGATTCCCAT
1 TTGTGGGATTCCCAT
1403741 GGGATAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (15 bp):
TTGTGGGATTCCCAT
Found at i:1408977 original size:12 final size:12
Alignment explanation
Indices: 1408960--1408988 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1408950 ATAGTAAAAA
1408960 CGCCGCAAGAAG
1 CGCCGCAAGAAG
1408972 CGCCGCAAGAAG
1 CGCCGCAAGAAG
1408984 CGCCG
1 CGCCG
1408989 GCCAAACCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.38, G:0.34, T:0.00
Consensus pattern (12 bp):
CGCCGCAAGAAG
Found at i:1409086 original size:43 final size:42
Alignment explanation
Indices: 1409039--1409120 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
1409029 AAAAACGCCG
1409039 CAAAAAGTCAAGATCTATAGCGGCATTTTTAAAACAAACGTAA
1 CAAAAAGT-AAGATCTATAGCGGCATTTTTAAAACAAACGTAA
* * * **
1409082 CAAAAGGTTAGATCTATAGCGGCGTTTTTTGAACAAACG
1 CAAAAAGTAAGATCTATAGCGGCATTTTTAAAACAAACG
1409121 CCGCCAAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 27 0.79
43 7 0.21
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (42 bp):
CAAAAAGTAAGATCTATAGCGGCATTTTTAAAACAAACGTAA
Found at i:1409130 original size:43 final size:42
Alignment explanation
Indices: 1409031--1409331 Score: 214
Period size: 43 Copynumber: 7.2 Consensus size: 42
1409021 TGTTAAATAA
* * **
1409031 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCATTTTTAAAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
*** * *
1409074 AAACGTAACAAAAGGTTAGATCTATAGCGGCGTTTTTTGAAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
* * * * *
1409116 AAACGCCGCCAAAAGGTCAAATCTATAACAGTGTTTTT-G--T
1 AAACGCCG-CAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
* * * *
1409156 ATAC-CCGCAAAAAGTCAGATCTGTAGCTGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
** * ** * * **
1409197 AAATACTGCAAAATATCAGGTTTATAGCGGTATTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
* * * *
1409240 AAACGTCACAAAAGGTTAGATCTGTAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
* * * * *
1409283 AAACGTCGTAAAAGGTCATATCTGTAGCAGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
1409325 AAACGCC
1 AAACGCC
1409332 ACTAATTACC
Statistics
Matches: 197, Mismatches: 55, Indels: 13
0.74 0.21 0.05
Matches are distributed among these distances:
38 23 0.12
39 4 0.02
40 3 0.02
41 2 0.01
42 62 0.31
43 103 0.52
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
Found at i:1413136 original size:43 final size:41
Alignment explanation
Indices: 1412996--1413331 Score: 257
Period size: 41 Copynumber: 8.1 Consensus size: 41
1412986 TAATCGCAAA
* * * **
1412996 TAAAATACGAGTTTTTAGCGGTGTTTGTA-AAAACACGCCAC
1 TAAAGTACGAGTCTATAGCGGCATTTGTATAAAA-ACGCCAC
*
1413037 TAAA-TAAGAGTCTATAGCGGCATTTGTATAAAAACGCCAC
1 TAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACGCCAC
* ** ** * *
1413077 TAAAGTACAAACCTATAGCGGTGTTTGTAAACAAAAACGTCAC
1 TAAAGTACGAGTCTATAGCGGCATTTGT--ATAAAAACGCCAC
*
1413120 TAAAGTACGAGTCTATAGCGACATTTGTATAAAAACGCCAC
1 TAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACGCCAC
* * * * *
1413161 TAAAGTACCAGTCTTTTGCGGCATCTGTATAGAAACGCCAC
1 TAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACGCCAC
* * * *
1413202 TAAAGTACTAGT-TAATAGCAGCATTTGTATAAAAATGCTAC
1 TAAAGTACGAGTCT-ATAGCGGCATTTGTATAAAAACGCCAC
* * * ** * * * *
1413243 TAAAGT-GGTACTCTATCGTTGCGTTTTATATAAAAATGACAC
1 TAAAGTACG-AGTCTATAGCGGC-ATTTGTATAAAAACGCCAC
* * * * *
1413285 TAAAGTATGAGTATATAGTGGCGTTTGTATAAAAACGCCGC
1 TAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACGCCAC
1413326 TAAAGT
1 TAAAGT
1413332 TATCATTTTG
Statistics
Matches: 231, Mismatches: 55, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
40 31 0.13
41 135 0.58
42 31 0.13
43 34 0.15
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (41 bp):
TAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACGCCAC
Found at i:1413145 original size:84 final size:81
Alignment explanation
Indices: 1413011--1413168 Score: 253
Period size: 84 Copynumber: 1.9 Consensus size: 81
1413001 TACGAGTTTT
* *
1413011 TAGCGGTGTTTGTAAAAACACGCCACTAAATAAGAGTCTATAGCGGCATTTGTATAAAAACGCCA
1 TAGCGGTGTTTGTAAAAAAACGCCACTAAATAAGAGTCTATAGCGACATTTGTATAAAAACGCCA
1413076 CTAAAGTACAAACCTA
66 CTAAAGTACAAACCTA
* *
1413092 TAGCGGTGTTTGTAAACAAAAACGTCACTAAAGTACGAGTCTATAGCGACATTTGTATAAAAACG
1 TAGCGGTGTTTGT-AA-AAAAACGCCACTAAA-TAAGAGTCTATAGCGACATTTGTATAAAAACG
1413157 CCACTAAAGTAC
63 CCACTAAAGTAC
1413169 CAGTCTTTTG
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 13 0.19
82 2 0.03
83 13 0.19
84 42 0.60
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (81 bp):
TAGCGGTGTTTGTAAAAAAACGCCACTAAATAAGAGTCTATAGCGACATTTGTATAAAAACGCCA
CTAAAGTACAAACCTA
Found at i:1413229 original size:82 final size:82
Alignment explanation
Indices: 1413021--1413248 Score: 239
Period size: 84 Copynumber: 2.8 Consensus size: 82
1413011 TAGCGGTGTT
* *
1413021 TGTAA-AAACACGCCACTAAA-TAAGAGTCTATAGCGGCATTTGTATAAAAACGCCACTAAAGTA
1 TGTAACAAAAACGCCACTAAAGTACGAGTCTATAGC-GCATTTGTATAAAAACGCCACTAAAGTA
** *
1413084 CAAACCTATAGCGGTGTT
65 CAAACCTATAGCGGCATC
*
1413102 TGTAAACAAAAACGTCACTAAAGTACGAGTCTATAGCGACATTTGTATAAAAACGCCACTAAAGT
1 TGT-AACAAAAACGCCACTAAAGTACGAGTCTATAGCG-CATTTGTATAAAAACGCCACTAAAGT
* ** * *
1413167 ACCAGTCTTTTGCGGCATC
64 ACAAACCTATAGCGGCATC
* * * * *
1413186 TGT-ATAGAAACGCCACTAAAGTACTAGT-TAATAGCAGCATTTGTATAAAAATGCTACTAAAGT
1 TGTAACAAAAACGCCACTAAAGTACGAGTCT-ATAGC-GCATTTGTATAAAAACGCCACTAAAGT
1413249 GGTACTCTAT
Statistics
Matches: 124, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
81 4 0.03
82 52 0.42
83 15 0.12
84 53 0.43
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (82 bp):
TGTAACAAAAACGCCACTAAAGTACGAGTCTATAGCGCATTTGTATAAAAACGCCACTAAAGTAC
AAACCTATAGCGGCATC
Found at i:1415202 original size:37 final size:37
Alignment explanation
Indices: 1415152--1415225 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
1415142 GGCAGCACAA
1415152 ACATTAAAATGTGTGCATGCAATATTAACCCTAATCC
1 ACATTAAAATGTGTGCATGCAATATTAACCCTAATCC
1415189 ACATTAAAATGTGTGCATGCAATATTAACCCTAATCC
1 ACATTAAAATGTGTGCATGCAATATTAACCCTAATCC
1415226 TCAGTACTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (37 bp):
ACATTAAAATGTGTGCATGCAATATTAACCCTAATCC
Found at i:1418434 original size:13 final size:13
Alignment explanation
Indices: 1418397--1418435 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1418387 GTCATAAATC
*
1418397 TATGATGCGCATT
1 TATGACGCGCATT
**
1418410 TATGACATGCATT
1 TATGACGCGCATT
1418423 TATGACGCGCATT
1 TATGACGCGCATT
1418436 GTGCGTCATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:1418553 original size:85 final size:85
Alignment explanation
Indices: 1418407--1418574 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
1418397 TATGATGCGC
* * * *
1418407 ATTTATGACATGCATTTATGACGCGCATTGTGCGTCATTGAAGCCCCCGTCATAAATAAAGACGA
1 ATTTATGACACGCATTTATGACGCACATTGTGCGTCATTGAAGCACACGTCATAAATAAAGACGA
*
1418472 CACACATTTATGTGTCATAA
66 CACACATTCATGTGTCATAA
** * * *
1418492 ATTTATGACACGCATTTATGACTTACATT-TCGTGTCATTGAAGCACACGTCATTAGA-AAAGAT
1 ATTTATGACACGCATTTATGACGCACATTGT-GCGTCATTGAAGCACACGTCA-TAAATAAAGAC
*
1418555 GACACACATTCGTGTGTCAT
64 GACACACATTCATGTGTCAT
1418575 GATTGTATGT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 1 0.01
85 66 0.94
86 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (85 bp):
ATTTATGACACGCATTTATGACGCACATTGTGCGTCATTGAAGCACACGTCATAAATAAAGACGA
CACACATTCATGTGTCATAA
Found at i:1418599 original size:2 final size:2
Alignment explanation
Indices: 1418592--1418620 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1418582 TGTCGTAAAT
1418592 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1418621 GTAGATTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1420996 original size:22 final size:21
Alignment explanation
Indices: 1420944--1421003 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
1420934 GATTTCTGGG
* *
1420944 CAAGGGGAGTCGGTACCCATT
1 CAAGGGGAATCGATACCCATT
1420965 CAA-GGGAATCGATACCCATT
1 CAAGGGGAATCGATACCCATT
1420985 CAATGGGGAATCGATACCC
1 CAA-GGGGAATCGATACCC
1421004 CTCAAGCGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 18 0.51
21 3 0.09
22 14 0.40
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGATACCCATT
Found at i:1422556 original size:103 final size:103
Alignment explanation
Indices: 1422377--1422589 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
1422367 GGGTCTACGC
* *
1422377 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGTTGAGACACATACTTGAT
1 GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* *
1422442 CCTTGGCATATGCATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGCATATGATTCTTAAGGAATGATATGT
1422480 GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* *
1422545 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGCATATGATTCTTAAGGAATGATATGT
1422583 GGTCCTT
1 GGTCCTT
1422590 ATGGACATTA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGCATATGATTCTTAAGGAATGATATGT
Found at i:1422643 original size:23 final size:23
Alignment explanation
Indices: 1422605--1422696 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
1422595 CATTATTATA
*
1422605 TGGCACTACGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
* *
1422628 CGGTACTCCGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
*
1422651 TGGCACTCCGGTGCAATTCTATG
1 TGGCACTCCGGTGCAATTCTACG
* *
1422674 TGGCACTTCGGTGCAATTATACG
1 TGGCACTCCGGTGCAATTCTACG
1422697 AGCTGTGGTG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTCCGGTGCAATTCTACG
Found at i:1427575 original size:15 final size:15
Alignment explanation
Indices: 1427557--1427586 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1427547 CACATAAACT
*
1427557 CATATCTTCTTATCA
1 CATAGCTTCTTATCA
1427572 CATAGCTTCTTATCA
1 CATAGCTTCTTATCA
1427587 TATCATTCAC
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:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (15 bp):
CATAGCTTCTTATCA
Found at i:1428179 original size:26 final size:26
Alignment explanation
Indices: 1428143--1428197 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 26
1428133 CTTTTGAAGT
1428143 GTATCGGTACACACTAT-AGAGTATCA
1 GTATCGGTACACACTATAAG-GTATCA
1428169 GTATCGGTACACACTATAAGGTATCA
1 GTATCGGTACACACTATAAGGTATCA
1428195 GTA
1 GTA
1428198 CATCCCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (26 bp):
GTATCGGTACACACTATAAGGTATCA
Found at i:1434563 original size:15 final size:15
Alignment explanation
Indices: 1434545--1434574 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1434535 CACATAAACT
*
1434545 CATATCTTCTTATCA
1 CATAGCTTCTTATCA
1434560 CATAGCTTCTTATCA
1 CATAGCTTCTTATCA
1434575 TATCATTCAC
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:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (15 bp):
CATAGCTTCTTATCA
Found at i:1435170 original size:26 final size:26
Alignment explanation
Indices: 1435134--1435188 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 26
1435124 CTTTTGAAGT
1435134 GTATCGGTACACACTAT-AGAGTATCA
1 GTATCGGTACACACTATAAG-GTATCA
1435160 GTATCGGTACACACTATAAGGTATCA
1 GTATCGGTACACACTATAAGGTATCA
1435186 GTA
1 GTA
1435189 CATCCCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (26 bp):
GTATCGGTACACACTATAAGGTATCA
Found at i:1444648 original size:26 final size:26
Alignment explanation
Indices: 1444619--1444670 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
1444609 AAGGGATGTA
1444619 TGATAC-CTTATAGTGTGTACCGATAC
1 TGATACTC-TATAGTGTGTACCGATAC
1444645 TGATACTCTATAGTGTGTACCGATAC
1 TGATACTCTATAGTGTGTACCGATAC
1444671 ACTTCAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
TGATACTCTATAGTGTGTACCGATAC
Found at i:1445141 original size:14 final size:14
Alignment explanation
Indices: 1445124--1445150 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1445114 AAAGTGAAAT
1445124 AAGCTATGTGATAA
1 AAGCTATGTGATAA
1445138 AAGCTATGTGATA
1 AAGCTATGTGATA
1445151 TGATATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (14 bp):
AAGCTATGTGATAA
Found at i:1445241 original size:15 final size:15
Alignment explanation
Indices: 1445221--1445250 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1445211 GTGAATGATA
*
1445221 TGATAAGAAGCTATG
1 TGATAAGAAGATATG
1445236 TGATAAGAAGATATG
1 TGATAAGAAGATATG
1445251 AGTTTATGTG
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:0.43, C:0.03, G:0.27, T:0.27
Consensus pattern (15 bp):
TGATAAGAAGATATG
Found at i:1447944 original size:41 final size:41
Alignment explanation
Indices: 1447783--1448101 Score: 295
Period size: 41 Copynumber: 7.8 Consensus size: 41
1447773 TACGATTTTT
* * *
1447783 TAGCGGTGTTTGTA-AAAAATGCCGCTAAA-TACGAGTCTA
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTA
* **
1447822 TAGCGGCGTTTGTAT-AAAACGCCACTAAAGTACAAACCTA
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTA
* * * *
1447862 TAGCAGTGTTTGTAAACAAAAATGCCACTAAAGTACGAGTCTA
1 TAGCGGCGTTTGT--ATAAAAACGCCACTAAAGTACGAGTCTA
* * * *
1447905 TAGCGGCATTTGTATAGAAACGCCACTAAAGTACCAGTCTT
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTA
* * * * * *
1447946 TTGCGGCATTTGTATAGAAACGTCACTAAAGTACTAGTCAA
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTA
* *
1447987 TAGCGGCGTTTGTATAAAAACGCCACTAAAGT-GGTACTCTA
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACG-AGTCTA
* * * * * * *
1448028 TCGCTGCGTTTTATATAAAAATGCCAATAAAATATGAGTCTA
1 TAGCGGCG-TTTGTATAAAAACGCCACTAAAGTACGAGTCTA
* *
1448070 TAGTGGCGTTTGTATAAAAACGCCGCTAAAGT
1 TAGCGGCGTTTGTATAAAAACGCCACTAAAGT
1448102 TATCATTTTG
Statistics
Matches: 222, Mismatches: 50, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
39 25 0.11
40 18 0.08
41 116 0.52
42 31 0.14
43 32 0.14
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (41 bp):
TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTA
Found at i:1448088 original size:83 final size:83
Alignment explanation
Indices: 1447797--1448101 Score: 294
Period size: 83 Copynumber: 3.7 Consensus size: 83
1447787 GGTGTTTGTA
*
1447797 AAAAATGCCGCT-AAATACGAGTCTATAGCGGCGTTTGTAT-AAAACGCCACTAAAGTACAAAC-
1 AAAAATGCCACTAAAATACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTA-AAACT
* * *
1447859 CTATAGCAGTGTTTGTAAAC
65 CTATAGCAGCGTTT-TATAT
* * * ** *
1447879 AAAAATGCCACTAAAGTACGAGTCTATAGCGGCATTTGTATAGAAACGCCACTAAAGTACCAGTC
1 AAAAATGCCACTAAAATACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTAAAACTC
* * * * *
1447944 TTTTGCGGC-ATTTGTAT
66 TATAGCAGCGTTTTATAT
* * * * * * ***
1447961 AGAAACGTCACTAAAGTACTAGTCAATAGCGGCGTTTGTATAAAAACGCCACTAAAGTGGTACTC
1 AAAAATGCCACTAAAATACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTAAAACTC
* *
1448026 TATCGCTGCGTTTTATAT
66 TATAGCAGCGTTTTATAT
* * * *
1448044 AAAAATGCCAATAAAATATGAGTCTATAGTGGCGTTTGTATAAAAACGCCGCTAAAGT
1 AAAAATGCCACTAAAATACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGT
1448102 TATCATTTTG
Statistics
Matches: 178, Mismatches: 41, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
82 73 0.41
83 83 0.47
84 22 0.12
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (83 bp):
AAAAATGCCACTAAAATACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTAAAACTC
TATAGCAGCGTTTTATAT
Found at i:1449145 original size:23 final size:23
Alignment explanation
Indices: 1449119--1449182 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
1449109 CAGCTCATAT
1449119 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
1449142 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
1449165 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
1449183 TATAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:1449369 original size:103 final size:103
Alignment explanation
Indices: 1449198--1449415 Score: 355
Period size: 103 Copynumber: 2.1 Consensus size: 103
1449188 TAATGTCCAT
* * * *
1449198 AAGGACCACATATCATTCCTTAAGAATCATATACATGTACTAGGGATCAAGTATGTGTTTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
1449263 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
** *
1449301 AAGGACCACATATCATTTTTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1449366 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
*
1449404 AAGAACCACATA
1 AAGGACCACATA
1449416 GACCCTCGAC
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:1459253 original size:26 final size:26
Alignment explanation
Indices: 1459224--1459276 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
1459214 AAGGGATGTG
* *
1459224 CTGATACCTTATAGTGTGTATCGATA
1 CTGATACCCTATAGTGTGTACCGATA
1459250 CTGATACCCTATAGTGTGTACCGATA
1 CTGATACCCTATAGTGTGTACCGATA
1459276 C
1 C
1459277 ACTTCAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (26 bp):
CTGATACCCTATAGTGTGTACCGATA
Found at i:1459841 original size:15 final size:15
Alignment explanation
Indices: 1459821--1459850 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1459811 GTGAATGATA
*
1459821 TGATAAGAAGCTATG
1 TGATAAGAAGATATG
1459836 TGATAAGAAGATATG
1 TGATAAGAAGATATG
1459851 AGTTTATGTG
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:0.43, C:0.03, G:0.27, T:0.27
Consensus pattern (15 bp):
TGATAAGAAGATATG
Found at i:1464740 original size:23 final size:22
Alignment explanation
Indices: 1464676--1464767 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 22
1464666 CACCACAGCT
* *
1464676 CGTATAATTGCACCGAAATGCCA
1 CGTAGAATTGCACCG-AGTGCCA
*
1464699 CATAGAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACC-GAGTGCCA
*
1464722 CGTAGAATTGCACCAGAGTGCCG
1 CGTAGAATTGCACC-GAGTGCCA
**
1464745 CGTAGAATTATACCGTAGTGCCA
1 CGTAGAATTGCACCG-AGTGCCA
1464768 TATAATAATG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
22 1 0.02
23 56 0.97
24 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (22 bp):
CGTAGAATTGCACCGAGTGCCA
Found at i:1464909 original size:103 final size:103
Alignment explanation
Indices: 1464783--1464995 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
1464773 TAATGTCCAT
* *
1464783 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* * *
1464848 GACTTCACATATTTTCCAAAGAATACATATATGTCTCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1464886 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1464951 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1464989 AAGGACC
1 AAGGACC
1464996 GCGTAGACCC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1466392 original size:22 final size:21
Alignment explanation
Indices: 1466367--1466426 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
1466357 TTCGCTTGAG
1466367 GGGTATCGATTCCCCATTGAAT
1 GGGTATCGATTCCCC-TTGAAT
1466389 GGGTATCGATT-CCCTTGAAT
1 GGGTATCGATTCCCCTTGAAT
*
1466409 GGGTACCGATTCCCCTTG
1 GGGTATCGATTCCCCTTG
1466427 CCCAGAAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 16 0.44
21 9 0.25
22 11 0.31
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (21 bp):
GGGTATCGATTCCCCTTGAAT
Found at i:1468938 original size:85 final size:85
Alignment explanation
Indices: 1468788--1468955 Score: 207
Period size: 85 Copynumber: 2.0 Consensus size: 85
1468778 ACATACAATC
* * * *
1468788 ATGACACACGAATGTGTGTCATCTTTTCTAATGACGTGTGCTTCAATGACACGAAATGTAAGTCA
1 ATGACACACAAATGTGTGTCATCTTTTCTAATGACGGGGGCTTCAATGACACGAAATGCAAGTCA
*
1468853 TAAATGCGTGTCATAAATTT
66 TAAATGCATGTCATAAATTT
* * **
1468873 ATGACACACAAATGTGTGTCGTCTTCATT-T-ATGACGGGGGCTTCAATGACGC-ACAATGCGCG
1 ATGACACACAAATGTGTGTCATCTT--TTCTAATGACGGGGGCTTCAATGACACGA-AATGCAAG
1468935 TCATAAATGCATGTCATAAAT
63 TCATAAATGCATGTCATAAAT
1468956 GCGCATCATA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
84 1 0.01
85 67 0.94
86 1 0.01
87 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (85 bp):
ATGACACACAAATGTGTGTCATCTTTTCTAATGACGGGGGCTTCAATGACACGAAATGCAAGTCA
TAAATGCATGTCATAAATTT
Found at i:1468964 original size:13 final size:13
Alignment explanation
Indices: 1468927--1468965 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1468917 AATGACGCAC
1468927 AATGCGCGTCATA
1 AATGCGCGTCATA
**
1468940 AATGCATGTCATA
1 AATGCGCGTCATA
*
1468953 AATGCGCATCATA
1 AATGCGCGTCATA
1468966 GATTTATGAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:1480349 original size:35 final size:35
Alignment explanation
Indices: 1480300--1480369 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
1480290 GACAAAACAC
*
1480300 ATATGAGTTTAATACCATTTCATTCGTGAAAAGGT
1 ATATGAGTTCAATACCATTTCATTCGTGAAAAGGT
1480335 ATATGAGTTCAATACCATTTCATTCGTGAAAAGGT
1 ATATGAGTTCAATACCATTTCATTCGTGAAAAGGT
1480370 GGAAGAAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (35 bp):
ATATGAGTTCAATACCATTTCATTCGTGAAAAGGT
Found at i:1484478 original size:22 final size:21
Alignment explanation
Indices: 1484435--1484493 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 21
1484425 AATTTTATTT
* *
1484435 TTTATTTTTTATGATTTATAA
1 TTTATTTTGTATAATTTATAA
*
1484456 TTTATTATTGTATAATTTCTAA
1 TTTATT-TTGTATAATTTATAA
1484478 --TATTTT-T-TAATTTATA
1 TTTATTTTGTATAATTTATA
1484494 GTTACTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 8 0.24
18 1 0.03
19 2 0.06
20 4 0.12
21 6 0.18
22 12 0.36
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (21 bp):
TTTATTTTGTATAATTTATAA
Found at i:1496292 original size:21 final size:21
Alignment explanation
Indices: 1496268--1496333 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
1496258 TCAGGAATTA
*
1496268 CAGTGGTTGTAGGATTTTCAG
1 CAGTGGTTGTAGGAATTTCAG
* *
1496289 CAGTTGTTGTAGGAATTTCAA
1 CAGTGGTTGTAGGAATTTCAG
* * *
1496310 CAATGGCTATAGGAATTTCAG
1 CAGTGGTTGTAGGAATTTCAG
1496331 CAG
1 CAG
1496334 GTTTTGTAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (21 bp):
CAGTGGTTGTAGGAATTTCAG
Found at i:1505150 original size:23 final size:23
Alignment explanation
Indices: 1505080--1505155 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
1505070 TATGAACCAC
* *
1505080 TCTTGTTCTTCTATAAA-CACGTT
1 TCTTCTTCTTCCATAAATCAC-TT
1505103 TCTTCTTCTTCCATAAATCACTT
1 TCTTCTTCTTCCATAAATCACTT
* *
1505126 TCCTCTTCTTCCATAAACTTA-TT
1 TCTTCTTCTTCCATAAA-TCACTT
1505149 TCTTCTT
1 TCTTCTT
1505156 TCATTCTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 41 0.89
24 5 0.11
ACGTcount: A:0.20, C:0.28, G:0.03, T:0.50
Consensus pattern (23 bp):
TCTTCTTCTTCCATAAATCACTT
Found at i:1510622 original size:14 final size:14
Alignment explanation
Indices: 1510605--1510633 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1510595 GATATTTCTA
1510605 TGTAGGGAATTATT
1 TGTAGGGAATTATT
1510619 TGTAGGGAATTATT
1 TGTAGGGAATTATT
1510633 T
1 T
1510634 ACAGGGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
TGTAGGGAATTATT
Found at i:1512862 original size:21 final size:21
Alignment explanation
Indices: 1512803--1512865 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
1512793 TGTGGCATTT
* * **
1512803 TACGATGCTGATGTGATAATC
1 TACGATGTTGACGTGATGGTC
1512824 TACGATGTTGACGTGATGGTC
1 TACGATGTTGACGTGATGGTC
1512845 TACGATGTTGACGTGATGGTC
1 TACGATGTTGACGTGATGGTC
1512866 CACATTAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.33
Consensus pattern (21 bp):
TACGATGTTGACGTGATGGTC
Found at i:1513889 original size:2 final size:2
Alignment explanation
Indices: 1513884--1513908 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1513874 TGTGTGTGTG
1513884 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1513909 TAAATTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1514329 original size:23 final size:22
Alignment explanation
Indices: 1514287--1514346 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
1514277 CAAAATAATA
*
1514287 TATTTATAAAAAATATTATTTT
1 TATTTATAAAAAATAATATTTT
1514309 TATTTA-ATAAAAATAA-ATATTT
1 TATTTATA-AAAAATAATAT-TTT
* *
1514331 AATTGA-AAAAAATAAT
1 TATTTATAAAAAATAAT
1514347 GTATAAAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 11 0.34
22 21 0.66
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTTATAAAAAATAATATTTT
Found at i:1548226 original size:20 final size:20
Alignment explanation
Indices: 1548201--1548248 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1548191 TTTTTATTAT
*
1548201 AATAATTTTTAAAGTTATAA
1 AATAATTATTAAAGTTATAA
*
1548221 AATAATTATTAAAGTTATTA
1 AATAATTATTAAAGTTATAA
*
1548241 AATCATTA
1 AATAATTA
1548249 CAAATTTTAT
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:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (20 bp):
AATAATTATTAAAGTTATAA
Found at i:1550256 original size:23 final size:23
Alignment explanation
Indices: 1550223--1550266 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1550213 ATTATTATAT
1550223 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
1550246 GGCACTCCGGTGCAATTCTAC
1 GGCACTACGGTGCAATTCTAC
1550267 ATGACACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1550274 original size:23 final size:23
Alignment explanation
Indices: 1550225--1550274 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1550215 TATTATATGG
* *
1550225 CACTACGGTGCAATTCTACGCGG
1 CACTACGGTGCAATTCTACACGA
* *
1550248 CACTCCGGTGCAATTCTACATGA
1 CACTACGGTGCAATTCTACACGA
1550271 CACT
1 CACT
1550275 TTGGTACAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTACGGTGCAATTCTACACGA
Found at i:1556466 original size:62 final size:63
Alignment explanation
Indices: 1556351--1556468 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 63
1556341 CACTCTTTTA
* * *
1556351 AAATACAAACATCGAATGCCATCGATGCATCGATGCATAAGGAGTGCATCGATGCACCCCATT
1 AAATACAAACATCGAATACAATCGATGCATCGATGCATAAGGAGTGCACCGATGCACCCCATT
* * * ** *
1556414 AAATACAAACATCGAATATAAT-TATGCATTGATGCATGTGTAGTGCACCGATGCA
1 AAATACAAACATCGAATACAATCGATGCATCGATGCATAAGGAGTGCACCGATGCA
1556469 TACCTCCATT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
62 27 0.59
63 19 0.41
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (63 bp):
AAATACAAACATCGAATACAATCGATGCATCGATGCATAAGGAGTGCACCGATGCACCCCATT
Found at i:1557097 original size:23 final size:23
Alignment explanation
Indices: 1557066--1557131 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
1557056 TATTATATGG
1557066 CACTACGGTGCAATTCTACGCGA
1 CACTACGGTGCAATTCTACGCGA
* * *
1557089 CACTCCGGTGCAATTCTACGTGG
1 CACTACGGTGCAATTCTACGCGA
* *
1557112 CACTTCGGTGCAATTATACG
1 CACTACGGTGCAATTCTACG
1557132 AGTTGTGGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (23 bp):
CACTACGGTGCAATTCTACGCGA
Found at i:1557944 original size:19 final size:19
Alignment explanation
Indices: 1557906--1557958 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
1557896 AAATATTTTT
* *
1557906 TTATATAATAATTTTTAAAG
1 TTATAAAAT-ATTATTAAAG
1557926 TTATAAAATATTATTAAAG
1 TTATAAAATATTATTAAAG
*
1557945 TTATTAAATTATTA
1 TTA-TAAAATATTA
1557959 CAAATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
TTATAAAATATTATTAAAG
Found at i:1557957 original size:17 final size:18
Alignment explanation
Indices: 1557909--1557958 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
1557899 TATTTTTTTA
* *
1557909 TATAATAATTTTTAAAGT
1 TATAAAAATTATTAAAGT
1557927 TATAAAATATTATTAAAGT
1 TATAAAA-ATTATTAAAGT
*
1557946 TAT-TAAATTATTA
1 TATAAAAATTATTA
1557959 CAAATTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 7 0.25
18 8 0.29
19 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (18 bp):
TATAAAAATTATTAAAGT
Found at i:1562931 original size:235 final size:237
Alignment explanation
Indices: 1562520--1562992 Score: 900
Period size: 235 Copynumber: 2.0 Consensus size: 237
1562510 AGAATGAAAA
1562520 GAAAAGGAGATGAGCATACATGACCAACCATTCTATAATAATGTAAATAACTGAAGGCATGGGCG
1 GAAAAGGAGATGAGCATACATGACCAACCATTCTATAATAATGTAAATAACTGAAGGCATGGGCG
1562585 GTCTGTAATGACATACTTCCTTTCTAGAACATTGGATGGCTGAAAATGACTTTCATTTTTTTTTT
66 GTCTGTAATGACATACTTCCTTTCTAGAACATTGGATGGCTGAAAATGACTTTCATTTTTTTTTT
1562650 TGTCAAAAAGAATAAGAATTTGTTTATCAGTCCATTTCATTATTATGTGTTTCTTTTTTTA-TTC
131 TGTCAAAAAGAATAAGAATTTGTTTATCAGTCCATTTCATTATTATGTGTTTCTTTTTTTATTTC
1562714 ATTTCATTCCATTT-ATTGGGTAGTGGGTATAACAGA-CCAGG
196 A-TTCATTCCATTTAATTGGGTAGTGGGTATAACAGACCCAGG
1562755 GAAAAGGAGATGAGCATACATGACCAACCATTCCTATAATAATGTAAATAACTGAAGGCATGGGC
1 GAAAAGGAGATGAGCATACATGACCAACCATT-CTATAATAATGTAAATAACTGAAGGCATGGGC
1562820 GGTCTGTAATGACATACTTCCTTTCTAGAACATTGGATGGCTGAAAATGACTTTCA-TTTTTTTT
65 GGTCTGTAATGACATACTTCCTTTCTAGAACATTGGATGGCTGAAAATGACTTTCATTTTTTTTT
1562884 TTGTCAAAAAGAATAAGAATTTGTTTATCAGTCCATTTCATTATTATGTGTTTCTTTTTTTATTT
130 TTGTCAAAAAGAATAAGAATTTGTTTATCAGTCCATTTCATTATTATGTGTTTCTTTTTTTATTT
1562949 CATTCATTCCATTTAATTGGGTAGTGGGTATAACAGACCCAGG
195 CATTCATTCCATTTAATTGGGTAGTGGGTATAACAGACCCAGG
1562992 G
1 G
1562993 GCCACCCATG
Statistics
Matches: 234, Mismatches: 0, Indels: 6
0.98 0.00 0.03
Matches are distributed among these distances:
235 114 0.49
236 114 0.49
237 6 0.03
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (237 bp):
GAAAAGGAGATGAGCATACATGACCAACCATTCTATAATAATGTAAATAACTGAAGGCATGGGCG
GTCTGTAATGACATACTTCCTTTCTAGAACATTGGATGGCTGAAAATGACTTTCATTTTTTTTTT
TGTCAAAAAGAATAAGAATTTGTTTATCAGTCCATTTCATTATTATGTGTTTCTTTTTTTATTTC
ATTCATTCCATTTAATTGGGTAGTGGGTATAACAGACCCAGG
Done.