Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 82 of 444
Found at i:19361923 original size:19 final size:19
Alignment explanation
Indices: 19361908--19361961 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
19361898 AAAAAAGGAG
19361908 AAAGAAAGAGAGAAAGAAA
1 AAAGAAAGAGAGAAAGAAA
* * *
19361927 AAATAAAGAGAAAAATAAA
1 AAAGAAAGAGAGAAAGAAA
* *
19361946 GAAAAAAAGTGAGAAA
1 -AAAGAAAGAGAGAAA
19361962 AGGAAGAAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (19 bp):
AAAGAAAGAGAGAAAGAAA
Found at i:19361940 original size:12 final size:11
Alignment explanation
Indices: 19361920--19361952 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
19361910 AGAAAGAGAG
19361920 AAAGAAAAAAT
1 AAAGAAAAAAT
19361931 AAAGAGAAAAAT
1 AAAGA-AAAAAT
19361943 AAAGAAAAAA
1 AAAGAAAAAA
19361953 AGTGAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (11 bp):
AAAGAAAAAAT
Found at i:19370008 original size:39 final size:39
Alignment explanation
Indices: 19369954--19370035 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
19369944 TATTTAGGAC
*
19369954 AAAGACTTGTGTTTAAAAACAACATATAATAAATAATAA
1 AAAGACGTGTGTTTAAAAACAACATATAATAAATAATAA
19369993 AAAGACGTGTGTTTAAAAACAACATATAATAAATAATAA
1 AAAGACGTGTGTTTAAAAACAACATATAATAAATAATAA
19370032 AAAG
1 AAAG
19370036 TATCGTTTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.26
Consensus pattern (39 bp):
AAAGACGTGTGTTTAAAAACAACATATAATAAATAATAA
Found at i:19370282 original size:340 final size:341
Alignment explanation
Indices: 19369657--19370336 Score: 875
Period size: 340 Copynumber: 2.0 Consensus size: 341
19369647 TACAGTGGTA
* * * * * *
19369657 TGTTTAAAAATAATATACAATAAATAATGAAACATATTACTTGGAGCTAATTAATAATAAGACAT
1 TGTTTAAAAACAACATACAATAAATAATGAAAAATATCACTTGGAACTAATTAATAATAACACAT
* *
19369722 AAAATATGTACAATATAAAAATGAAAAAAATTAGATTAAATTGTAAGTAAAATTAAATTTAAACA
66 AAAATATGTACAATATAAAAATGAAAAAAA-TAGATTAAATTGTAAGAAAAATGAAATTTAAACA
* *
19369787 CAAAAATACATCAGATTAAGAATACTAAATGAATACAATTATTTATCATTGTTTTGTCATCAACC
130 CAAAAACACATCAGATTAAGAATACTAAATGAAT--AATTATTTATCATTGTTTTGGCATCAACC
* * * * *
19369852 CTGAGTTGGTGTTGTGTTAATTTGTGACATTAAATCAACAACATTATTAATACTAAAAATATTAT
193 CTAAATTGGTGTCGAGTTAATTTGTGACACTAAATCAACAACATTATTAATACTAAAAATATTAT
* ** * *
19369917 CACAACTATATACATGTGGAAATCACGTATTTAGGACAAAGACTTGTGTTTAAAAACAACATATA
258 CACAACTATATA-ATATGGAAATCACGTATTTAAAACAAAGACGTGTGTTTAAAAACAACATACA
19369982 ATAAATAATAAAAAGACGTG
322 ATAAATAATAAAAAGACGTG
* ** * *
19370002 TGTTTAAAAACAACATATAATAAATAAT-AAAAAGTATCGTTTGGAACTAATTAATAGTAACATA
1 TGTTTAAAAACAACATACAATAAATAATGAAAAA-TATCACTTGGAACTAATTAATAATAACACA
* * *
19370066 TGAAATATGTTCAATATTAAAATGAAAAAAA-AGATTAAATTGTAAGAAAAATGAAATTTAAACA
65 TAAAATATGTACAATATAAAAATGAAAAAAATAGATTAAATTGTAAGAAAAATGAAATTTAAACA
* * * *
19370130 CAAAAACACATCATATTAGGAATACTAAATGAAT-A-TAGTTTATCATTGTTTTGGCATTAATCC
130 CAAAAACACATCAGATTAAGAATACTAAATGAATAATTA-TTTATCATTGTTTTGGCATCAACCC
** * *
19370193 TAAATTGGTGTCGAGTTAATTTGTGACACTAAATCAACAACATTATTTTTACTAGAAATCTTATC
194 TAAATTGGTGTCGAGTTAATTTGTGACACTAAATCAACAACATTATTAATACTAAAAATATTATC
* * ** *
19370258 ACACGCGTATAT-GTATGGAAATCACGTATTTAAAACACGGACGTGTGTTTAAAAACAAGATACA
259 ACA-AC-TATATAATATGGAAATCACGTATTTAAAACAAAGACGTGTGTTTAAAAACAACATACA
*
19370322 ATAAATGATAAAAAG
322 ATAAATAATAAAAAG
19370337 TATTGTTTAG
Statistics
Matches: 289, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
339 2 0.01
340 139 0.48
341 1 0.00
342 5 0.02
343 62 0.21
344 4 0.01
345 76 0.26
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (341 bp):
TGTTTAAAAACAACATACAATAAATAATGAAAAATATCACTTGGAACTAATTAATAATAACACAT
AAAATATGTACAATATAAAAATGAAAAAAATAGATTAAATTGTAAGAAAAATGAAATTTAAACAC
AAAAACACATCAGATTAAGAATACTAAATGAATAATTATTTATCATTGTTTTGGCATCAACCCTA
AATTGGTGTCGAGTTAATTTGTGACACTAAATCAACAACATTATTAATACTAAAAATATTATCAC
AACTATATAATATGGAAATCACGTATTTAAAACAAAGACGTGTGTTTAAAAACAACATACAATAA
ATAATAAAAAGACGTG
Found at i:19372271 original size:2 final size:2
Alignment explanation
Indices: 19372266--19372300 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
19372256 GAAATCTATG
19372266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19372301 AAAGTTTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19373063 original size:57 final size:57
Alignment explanation
Indices: 19372958--19373065 Score: 137
Period size: 57 Copynumber: 1.9 Consensus size: 57
19372948 GAAAAAATTG
* * * *
19372958 AATAGTTGAGTGACCATTTTGTAACTTTTCAAAGTTAGATGACTAAAAAAATTTATT
1 AATAATTGAGTGACCATTTTGTAACTTTTAAAAATTAGATGACCAAAAAAATTTATT
* * *
19373015 AATAATTGGGTGACTATTTTGTAAC-TTTAAATAATTAGGTGACCAAAAAAA
1 AATAATTGAGTGACCATTTTGTAACTTTTAAA-AATTAGATGACCAAAAAAA
19373066 AACCATAGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 5 0.12
57 38 0.88
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (57 bp):
AATAATTGAGTGACCATTTTGTAACTTTTAAAAATTAGATGACCAAAAAAATTTATT
Found at i:19384297 original size:2 final size:2
Alignment explanation
Indices: 19384290--19384330 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
19384280 CATTAAAATA
19384290 AT AT AT AT AT -T 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
19384331 GTGTGTGTGT
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):
AT
Found at i:19387093 original size:68 final size:68
Alignment explanation
Indices: 19386977--19387133 Score: 212
Period size: 68 Copynumber: 2.3 Consensus size: 68
19386967 CTCTCAAATC
* * * *
19386977 ACATAT-A-ATGATAAATTTGCAATATAGCACATACTCCATTAAGCATAAAACATGTTCCACACA
1 ACATATAATATGATAGATTGGCGATATAGCACATACTCCATTAAGCATAAAACATGTTCAACACA
19387040 ATT
66 ATT
* * *
19387043 ACATTTAATATGATAGATTGGCGATATAGCGCATACTCCATTAAGCATAAAACATGTTCAACATA
1 ACATATAATATGATAGATTGGCGATATAGCACATACTCCATTAAGCATAAAACATGTTCAACACA
*
19387108 GTT
66 ATT
19387111 ACATATAATAT-ACTAGATTGGCG
1 ACATATAATATGA-TAGATTGGCG
19387134 CTTGAGTTAT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
66 5 0.06
67 2 0.03
68 72 0.91
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (68 bp):
ACATATAATATGATAGATTGGCGATATAGCACATACTCCATTAAGCATAAAACATGTTCAACACA
ATT
Found at i:19387927 original size:19 final size:18
Alignment explanation
Indices: 19387883--19387928 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
19387873 CAAATATATT
*
19387883 TAAAAACATAAAAACAAA
1 TAAAAAAATAAAAACAAA
**
19387901 TATTAAAATAAGAAACAAA
1 TAAAAAAATAA-AAACAAA
19387920 TAAAAAAAT
1 TAAAAAAAT
19387929 GAGACTAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (18 bp):
TAAAAAAATAAAAACAAA
Found at i:19390404 original size:26 final size:26
Alignment explanation
Indices: 19390335--19390493 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
19390325 TGATACAAAT
*
19390335 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19390361 TGAT-ATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19390386 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
19390411 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19390436 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19390462 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19390488 TGATAA
1 TGATAA
19390494 GAATTTCATG
Statistics
Matches: 128, Mismatches: 2, Indels: 6
0.94 0.01 0.04
Matches are distributed among these distances:
24 15 0.12
25 43 0.34
26 70 0.55
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19390464 original size:76 final size:77
Alignment explanation
Indices: 19390335--19390493 Score: 277
Period size: 76 Copynumber: 2.1 Consensus size: 77
19390325 TGATACAAAT
19390335 TGATAATAGGTTAGGTAAATGTTCCATGATATAGGTTAGGTAAATGTTCCATGATAATGGGTTAG
1 TGATAATAGGTTAGGTAAATGTTCCATGATATAGGTTAGGTAAATGTTCCATGATAATGGGTTAG
19390400 GTAAATG-TTCA
66 GTAAATGTTTCA
* *
19390411 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGAT-ATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
19390475 GGTAAATGTTTCA
65 GGTAAATGTTTCA
19390488 TGATAA
1 TGATAA
19390494 GAATTTCATG
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
75 22 0.28
76 47 0.59
77 10 0.13
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (77 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATATAGGTTAGGTAAATGTTCCATGATAATGGGTTAG
GTAAATGTTTCA
Found at i:19391678 original size:8 final size:8
Alignment explanation
Indices: 19391665--19391700 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
19391655 CTAGATTGGC
19391665 AAAAGCCG
1 AAAAGCCG
19391673 AAAAGCCG
1 AAAAGCCG
19391681 -AAAGCCG
1 AAAAGCCG
*
19391688 AAATGCCG
1 AAAAGCCG
19391696 AAAAG
1 AAAAG
19391701 TCGTATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.50, C:0.22, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:19391686 original size:15 final size:15
Alignment explanation
Indices: 19391666--19391698 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19391656 TAGATTGGCA
19391666 AAAGCCGAAAAGCCG
1 AAAGCCGAAAAGCCG
*
19391681 AAAGCCGAAATGCCG
1 AAAGCCGAAAAGCCG
19391696 AAA
1 AAA
19391699 AGTCGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.24, T:0.03
Consensus pattern (15 bp):
AAAGCCGAAAAGCCG
Found at i:19392153 original size:27 final size:27
Alignment explanation
Indices: 19392112--19392224 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
19392102 GAGGAAGCGT
*
19392112 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
19392139 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
19392166 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
19392194 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
19392220 TCTGG
1 TCTGG
19392225 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:19392217 original size:54 final size:54
Alignment explanation
Indices: 19392110--19392224 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
19392100 TGGAGGAAGC
*
19392110 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
19392164 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
19392218 GTTCTGG
1 GTTCTGG
19392225 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:19394927 original size:131 final size:131
Alignment explanation
Indices: 19394680--19395013 Score: 411
Period size: 131 Copynumber: 2.5 Consensus size: 131
19394670 TACTTTATAC
* * * * *
19394680 ATCACGAACAATCTTATTTGATATAGCTGATTTAATATTGCTTCTCTAACCAGCTCGTTGATTTA
1 ATCATGAACAATCTTATTTGATATAGCTGATTTAATATCGCTTCTTTAAACAGCTCATTGATTTA
** ***
19394745 AGATCACAGTTGACATTATTAAGGTTCACTAGTTTAAGATCTTAATATATGTTCATTCGATTTAA
66 AGATCACAACTGACATTATTAAGGTTCACTAGTTTAAGATAACAATATATGTTCATTCGATTTAA
19394810 G
131 G
* * * * * *
19394811 ATCATGATCAATCCTATTTGAGATGGCTGATTTAATATCGTTTCTTTAAACAGCTCACTGATTTA
1 ATCATGAACAATCTTATTTGATATAGCTGATTTAATATCGCTTCTTTAAACAGCTCATTGATTTA
* * * *
19394876 AGATCACAACTGATATTATTAAGGTTC-GTTGATTTCAGATAACAACT-TATGTTCATTCGATTT
66 AGATCACAACTGACATTATTAAGGTTCACTAG-TTTAAGATAACAA-TATATGTTCATTCGATTT
19394939 AAG
129 AAG
* * * * *
19394942 ATCATGAACAGTCTTATTTGATATAGTTGATTTAATATCACTTCTTCAAACAACTCATTGATTTA
1 ATCATGAACAATCTTATTTGATATAGCTGATTTAATATCGCTTCTTTAAACAGCTCATTGATTTA
19395007 AGATCAC
66 AGATCAC
19395014 CCCAAGTTCG
Statistics
Matches: 170, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
130 2 0.01
131 167 0.98
132 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (131 bp):
ATCATGAACAATCTTATTTGATATAGCTGATTTAATATCGCTTCTTTAAACAGCTCATTGATTTA
AGATCACAACTGACATTATTAAGGTTCACTAGTTTAAGATAACAATATATGTTCATTCGATTTAA
G
Found at i:19400377 original size:68 final size:68
Alignment explanation
Indices: 19400298--19400434 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
19400288 GTATGCATTT
* *
19400298 TATTTTGTTTTTTGACAAAATAAAGGGTATGAGTTTTAATATAATTCCATTGGGTTAAAATGTTG
1 TATTTTATTTTTTGACAAAATAAAGGGTATGAGTTTTAATATAATTCCATTGGGTTAAAAGGTTG
19400363 GAA
66 GAA
*
19400366 TATTTTATTTTTTGACAAAATAAAGGGTATGATTTTTAATATAATTCCATTGGGTTAAAAGGTTG
1 TATTTTATTTTTTGACAAAATAAAGGGTATGAGTTTTAATATAATTCCATTGGGTTAAAAGGTTG
19400431 GAA
66 GAA
19400434 T
1 T
19400435 CTCGTTTTAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.43
Consensus pattern (68 bp):
TATTTTATTTTTTGACAAAATAAAGGGTATGAGTTTTAATATAATTCCATTGGGTTAAAAGGTTG
GAA
Found at i:19409978 original size:21 final size:22
Alignment explanation
Indices: 19409954--19409995 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
19409944 TACTAAATAT
19409954 TCAACTAAACAT-CATTATAGG
1 TCAACTAAACATACATTATAGG
*
19409975 TCAACTATACATACCATTATA
1 TCAACTAAACATA-CATTATA
19409996 ACCTTGGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
23 7 0.39
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (22 bp):
TCAACTAAACATACATTATAGG
Found at i:19411541 original size:17 final size:17
Alignment explanation
Indices: 19411519--19411552 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19411509 AAATATAGAA
19411519 AATAAACAGAGTAAGCT
1 AATAAACAGAGTAAGCT
**
19411536 AATAAACTTAGTAAGCT
1 AATAAACAGAGTAAGCT
19411553 CGTATGACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.24
Consensus pattern (17 bp):
AATAAACAGAGTAAGCT
Found at i:19412064 original size:20 final size:20
Alignment explanation
Indices: 19412041--19412136 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
19412031 TAAACTATAA
* *
19412041 TTCATTCATATAACCAGTAG
1 TTCATCCATATAAACAGTAG
*
19412061 TTCATCCGTATAAACAGTAG
1 TTCATCCATATAAACAGTAG
* *
19412081 TTCAT-CAGTA-ATAACAGCAA
1 TTCATCCA-TATA-AACAGTAG
* * *
19412101 TTCATCCGTATCAACAGTAA
1 TTCATCCATATAAACAGTAG
19412121 TTCATCCATATAAACA
1 TTCATCCATATAAACA
19412137 CATATCTTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.03
20 58 0.95
21 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (20 bp):
TTCATCCATATAAACAGTAG
Found at i:19412085 original size:40 final size:39
Alignment explanation
Indices: 19412030--19412133 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 39
19412020 TTTTATTCGA
* *
19412030 ATAAACTA-TAATTCATTCATATAACCAGTAGTTCATCCGT
1 ATAAAC-AGTAATTCATTCATATAA-CAGCAATTCATCCGT
*
19412070 ATAAACAGTAGTTCA-TCAGTAATAACAGCAATTCATCCGT
1 ATAAACAGTAATTCATTCA-T-ATAACAGCAATTCATCCGT
* *
19412110 ATCAACAGTAATTCATCCATATAA
1 ATAAACAGTAATTCATTCATATAA
19412134 ACACATATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
39 8 0.15
40 40 0.74
41 6 0.11
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (39 bp):
ATAAACAGTAATTCATTCATATAACAGCAATTCATCCGT
Found at i:19412327 original size:22 final size:21
Alignment explanation
Indices: 19412302--19412360 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 21
19412292 CTTGATCTGG
19412302 TGAATAGTAAGCTCTATTGAGC
1 TGAA-AGTAAGCTCTATTGAGC
19412324 TGAAACGGTAAGCTCTATTGAGC
1 TGAAA--GTAAGCTCTATTGAGC
*
19412347 TGAACAATAAGCTC
1 TGAA-AGTAAGCTC
19412361 AAACAAGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 1 0.03
22 11 0.33
23 20 0.61
24 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (21 bp):
TGAAAGTAAGCTCTATTGAGC
Found at i:19412395 original size:23 final size:23
Alignment explanation
Indices: 19412309--19412396 Score: 70
Period size: 23 Copynumber: 3.9 Consensus size: 23
19412299 TGGTGAATAG
* * *
19412309 TAAGCTCTATTGAGCTGAAACGG
1 TAAGCTCAAATGAGCTGAAACGA
* * *
19412332 TAAGCTCTATTGAGCTG-AACAA
1 TAAGCTCAAATGAGCTGAAACGA
** *
19412354 TAAGCTCAAACAAGTTGAAACGA
1 TAAGCTCAAATGAGCTGAAACGA
* *
19412377 TAAGGTCCAATGAGCTGAAA
1 TAAGCTCAAATGAGCTGAAA
19412397 ACAGTAAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
22 15 0.29
23 36 0.71
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.23
Consensus pattern (23 bp):
TAAGCTCAAATGAGCTGAAACGA
Found at i:19412611 original size:23 final size:23
Alignment explanation
Indices: 19412582--19412626 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19412572 TTGATCAACA
*
19412582 ATTCAATT-TATTAAATCATATAT
1 ATTCAATTCAATTAAAT-ATATAT
19412605 ATTCAATTCAATTAAATATATA
1 ATTCAATTCAATTAAATATATA
19412627 CATTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTCAATTCAATTAAATATATAT
Found at i:19419207 original size:25 final size:24
Alignment explanation
Indices: 19419172--19419276 Score: 86
Period size: 25 Copynumber: 4.2 Consensus size: 24
19419162 CTCTCTCTCA
*
19419172 AGCCATATAATGGGAAGCTCATGTG
1 AGCCA-ATAATGGGAAGCTCATGCG
* * *
19419197 AGCCAAGTAATGGAAAGCTTATCCG
1 AGCCAA-TAATGGGAAGCTCATGCG
* * **
19419222 AGCCGTATAACGGGAAGCTCATAAG
1 AGCC-AATAATGGGAAGCTCATGCG
*
19419247 AGCC-ATAATTAGGAAGCTCATGCG
1 AGCCAATAA-TGGGAAGCTCATGCG
19419271 AGCCAA
1 AGCCAA
19419277 AACGGGTAGC
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
23 4 0.06
24 16 0.26
25 41 0.66
26 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (24 bp):
AGCCAATAATGGGAAGCTCATGCG
Found at i:19426867 original size:26 final size:26
Alignment explanation
Indices: 19426798--19426869 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
19426788 AAGCCATATT
*
19426798 GGGAAGCTC-CGGAGAGCCATTAATC
1 GGGAAGCTCACGAAGAGCCATTAATC
* * * *
19426823 AGGAAGCTCACAAATAGCCTTTAATC
1 GGGAAGCTCACGAAGAGCCATTAATC
19426849 GGGAAGCTCACGAAGAGCCAT
1 GGGAAGCTCACGAAGAGCCAT
19426870 ATATTGGGGC
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 8 0.22
26 29 0.78
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (26 bp):
GGGAAGCTCACGAAGAGCCATTAATC
Found at i:19428129 original size:18 final size:21
Alignment explanation
Indices: 19428097--19428140 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
19428087 TCAAATTTTG
*
19428097 AAAATAATTT-TTAAAATTC-
1 AAAATAATTTATAAAAATTCT
19428116 AAAAT-ATTTATAAAAATTCT
1 AAAATAATTTATAAAAATTCT
19428136 AAAAT
1 AAAAT
19428141 TTGTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATAATTTATAAAAATTCT
Found at i:19428543 original size:21 final size:21
Alignment explanation
Indices: 19428519--19428558 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19428509 ACGTTTTCTA
*
19428519 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
19428540 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
19428559 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:19428948 original size:21 final size:23
Alignment explanation
Indices: 19428923--19428976 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
19428913 ATAAAATGAA
19428923 TATTTATTATAT-TTTCATT-A-T
1 TATTTATTATATGTTT-ATTAATT
19428944 TATTTATT-TATGTTTATTAATT
1 TATTTATTATATGTTTATTAATT
19428966 TATTT-TTATAT
1 TATTTATTATAT
19428977 CGTTATGATC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 6 0.21
21 14 0.48
22 9 0.31
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (23 bp):
TATTTATTATATGTTTATTAATT
Found at i:19431411 original size:20 final size:20
Alignment explanation
Indices: 19431386--19431443 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
19431376 TGGGGTTCAA
*
19431386 AGTTTGGGATTTAGGGTTTG
1 AGTTTGAGATTTAGGGTTTG
19431406 AGTTTGAGATTTAGGGTTT-
1 AGTTTGAGATTTAGGGTTTG
*
19431425 ATGGTTCGAGATTTAGGGT
1 A--GTTTGAGATTTAGGGT
19431444 AAAAAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 18 0.53
21 15 0.44
ACGTcount: A:0.19, C:0.02, G:0.36, T:0.43
Consensus pattern (20 bp):
AGTTTGAGATTTAGGGTTTG
Found at i:19431437 original size:21 final size:21
Alignment explanation
Indices: 19431393--19431443 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
19431383 CAAAGTTTGG
*
19431393 GATTTAGGG-TTTGAGTTTGA
1 GATTTAGGGTTTTGAGTTCGA
19431413 GATTTAGGGTTTATG-GTTCGA
1 GATTTAGGGTTT-TGAGTTCGA
19431434 GATTTAGGGT
1 GATTTAGGGT
19431444 AAAAAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.32
21 17 0.61
22 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.43
Consensus pattern (21 bp):
GATTTAGGGTTTTGAGTTCGA
Found at i:19432852 original size:21 final size:22
Alignment explanation
Indices: 19432826--19432866 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
19432816 GCAAAGGTAA
19432826 ATGTTTG-GATCTTA-AATATCT
1 ATGTTTGAGAT-TTATAATATCT
19432847 ATGTTTGAGATTTATAATAT
1 ATGTTTGAGATTTATAATAT
19432867 GTAATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.49
Consensus pattern (22 bp):
ATGTTTGAGATTTATAATATCT
Found at i:19434213 original size:16 final size:17
Alignment explanation
Indices: 19434194--19434228 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19434184 TTTATATTTT
19434194 TAAAAAATTATAAA-AA
1 TAAAAAATTATAAAGAA
*
19434210 TAAAAAATTCTAAAGAA
1 TAAAAAATTATAAAGAA
19434227 TA
1 TA
19434229 TATAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
TAAAAAATTATAAAGAA
Found at i:19435435 original size:6 final size:6
Alignment explanation
Indices: 19435424--19435456 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
19435414 ATCTTAACCC
19435424 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATT
19435457 ATAAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:19436244 original size:12 final size:12
Alignment explanation
Indices: 19436227--19436262 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
19436217 CATGCACGAG
19436227 TTTAAAAAATTA
1 TTTAAAAAATTA
19436239 TTT-AAAAATTA
1 TTTAAAAAATTA
*
19436250 TTTAAAAATTTA
1 TTTAAAAAATTA
19436262 T
1 T
19436263 ATATGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTAAAAAATTA
Found at i:19436256 original size:10 final size:11
Alignment explanation
Indices: 19436231--19436259 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
19436221 CACGAGTTTA
19436231 AAAAATTATTT
1 AAAAATTATTT
19436242 AAAAATTATTT
1 AAAAATTATTT
19436253 AAAAATT
1 AAAAATT
19436260 TATATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAAATTATTT
Found at i:19436655 original size:20 final size:20
Alignment explanation
Indices: 19436615--19436654 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19436605 AATTAAGTTT
19436615 ATTTAAAATAAAAATATAAA
1 ATTTAAAATAAAAATATAAA
*
19436635 ATTTAAATTAAAAA-ATAAA
1 ATTTAAAATAAAAATATAAA
19436654 A
1 A
19436655 AATATCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATTTAAAATAAAAATATAAA
Found at i:19436891 original size:18 final size:17
Alignment explanation
Indices: 19436853--19436895 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
19436843 TATATATTTG
19436853 ATTTTATAATTTTTTCAA
1 ATTTTATAATTTTTT-AA
19436871 ATTTTATATATTATTTTAA
1 ATTTTATA-ATT-TTTTAA
*
19436890 TTTTTA
1 ATTTTA
19436896 AAACAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 10 0.45
20 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTATAATTTTTTAA
Found at i:19437150 original size:6 final size:6
Alignment explanation
Indices: 19437139--19437178 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
19437129 AATATTACAT
19437139 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
19437179 AAATAAACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:19443571 original size:24 final size:24
Alignment explanation
Indices: 19443539--19443587 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
19443529 GTTCGTCCCC
19443539 GGAGGGTGTTGGATGCTATATCGT
1 GGAGGGTGTTGGATGCTATATCGT
19443563 GGAGGGTGTTGGATGCTATATCGT
1 GGAGGGTGTTGGATGCTATATCGT
19443587 G
1 G
19443588 TTAAACTGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.08, G:0.43, T:0.33
Consensus pattern (24 bp):
GGAGGGTGTTGGATGCTATATCGT
Found at i:19448472 original size:7 final size:8
Alignment explanation
Indices: 19448456--19448481 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
19448446 GTATGCCCAA
19448456 TTTTCTTT
1 TTTTCTTT
19448464 TTTTCTTT
1 TTTTCTTT
19448472 TTTTCTTT
1 TTTTCTTT
19448480 TT
1 TT
19448482 CATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTCTTT
Found at i:19449683 original size:27 final size:24
Alignment explanation
Indices: 19449653--19449704 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 24
19449643 AATTATAAAA
19449653 AAATAGAAATAAATATATAAATAATTC
1 AAATAGAAATAAA-A-ATAAA-AATTC
* *
19449680 AAATATATATAAAAATAAAAATTC
1 AAATAGAAATAAAAATAAAAATTC
19449704 A
1 A
19449705 TTAAAGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 5 0.22
26 1 0.04
27 11 0.48
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATAGAAATAAAAATAAAAATTC
Found at i:19449969 original size:15 final size:14
Alignment explanation
Indices: 19449944--19449977 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
19449934 CTTAAATTAA
*
19449944 AATTTTGTTTAATT
1 AATTTTCTTTAATT
19449958 ACATTTTCTTTAATT
1 A-ATTTTCTTTAATT
19449973 AATTT
1 AATTT
19449978 AAAATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (14 bp):
AATTTTCTTTAATT
Found at i:19451160 original size:22 final size:23
Alignment explanation
Indices: 19451108--19451162 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
19451098 CACATATATT
19451108 TTTTATTTGA-ATTATGTTAAATA
1 TTTTATTT-ATATTATGTTAAATA
* *
19451131 TTCT-TTTATATTATG-TGAATA
1 TTTTATTTATATTATGTTAAATA
19451152 TTTTATTTATA
1 TTTTATTTATA
19451163 ATTCAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 9 0.33
22 15 0.56
23 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTTATTTATATTATGTTAAATA
Found at i:19451854 original size:22 final size:20
Alignment explanation
Indices: 19451829--19451869 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
19451819 TTTTTAAAAA
*
19451829 TTAAAATTTATAAAAACTATTT
1 TTAAAAATTA-AAAAA-TATTT
19451851 TTAAAAATTAAAAAATATT
1 TTAAAAATTAAAAAATATT
19451870 AAAATTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 9 0.50
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAAATTAAAAAATATTT
Found at i:19451903 original size:20 final size:17
Alignment explanation
Indices: 19451851--19451908 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 17
19451841 AAAACTATTT
19451851 TTAAAAATTAAAAAATA
1 TTAAAAATTAAAAAATA
* *
19451868 TTAAAATTGTTTAAAAAGTA
1 TTAAAA---ATTAAAAAATA
19451888 TTAAAAATATAAAAAAATA
1 TTAAAAAT-T-AAAAAATA
19451907 TT
1 TT
19451909 TTTTAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 7 0.22
18 1 0.03
19 9 0.28
20 15 0.47
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
TTAAAAATTAAAAAATA
Found at i:19452955 original size:2 final size:2
Alignment explanation
Indices: 19452942--19452979 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
19452932 GGGTCAAATC
19452942 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19452980 TCCTTTATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19457596 original size:12 final size:12
Alignment explanation
Indices: 19457573--19457605 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19457563 CTAGAACTGC
19457573 TTCTTCTTTTCTT
1 TTCTT-TTTTCTT
19457586 TTCTTTTTTCTT
1 TTCTTTTTTCTT
19457598 TT-TTTTTT
1 TTCTTTTTT
19457606 GGGGGTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.30
12 9 0.45
13 5 0.25
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTCTTTTTTCTT
Found at i:19459030 original size:18 final size:18
Alignment explanation
Indices: 19458957--19459044 Score: 50
Period size: 18 Copynumber: 4.7 Consensus size: 18
19458947 CTGTTCTCTA
*
19458957 CTTCTCTTTTTCTTTTTC
1 CTTCTCTTTTTCTTTCTC
* * *
19458975 TTTCTTCTTTTTCTCTCACCC
1 CTTC-TCTTTTTCT-T-TCTC
* * * *
19458996 CCTCTCCTTCTCCTTCTC
1 CTTCTCTTTTTCTTTCTC
*
19459014 CTTCTCTTTTTCTTTCTT
1 CTTCTCTTTTTCTTTCTC
* *
19459032 TTTCTCTTCTTCT
1 CTTCTCTTTTTCT
19459045 CCTTCCTTCT
Statistics
Matches: 49, Mismatches: 18, Indels: 6
0.67 0.25 0.08
Matches are distributed among these distances:
18 29 0.59
19 10 0.20
20 7 0.14
21 3 0.06
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.62
Consensus pattern (18 bp):
CTTCTCTTTTTCTTTCTC
Found at i:19465966 original size:17 final size:18
Alignment explanation
Indices: 19465932--19465976 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
19465922 TATTTCGAGG
19465932 TAACAAATAAATAAATAA
1 TAACAAATAAATAAATAA
*
19465950 -AACGAATAAA-AAGATAA
1 TAACAAATAAATAA-ATAA
19465967 TAACAAATAA
1 TAACAAATAA
19465977 GCTAGGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 2 0.09
17 13 0.57
18 8 0.35
ACGTcount: A:0.71, C:0.07, G:0.04, T:0.18
Consensus pattern (18 bp):
TAACAAATAAATAAATAA
Found at i:19467095 original size:37 final size:40
Alignment explanation
Indices: 19467042--19467193 Score: 233
Period size: 40 Copynumber: 3.9 Consensus size: 40
19467032 GATTCCACTC
* * *
19467042 CCCCCATGCTACTTTG-TTTTATTATTAA-TAAAACTACT
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAACTATT
19467080 -CCCCATACTATTTTG-TTTTATTATTAATTAAAACTATT
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAACTATT
19467118 CCCCCATACTATTTTGTTTTTATTATTAATTAAAA-TCATT
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAACT-ATT
19467158 CCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
19467194 CATACTTTAT
Statistics
Matches: 106, Mismatches: 3, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
37 25 0.24
38 9 0.08
39 16 0.15
40 56 0.53
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.47
Consensus pattern (40 bp):
CCCCCATACTATTTTGTTTTTATTATTAATTAAAACTATT
Found at i:19467831 original size:23 final size:21
Alignment explanation
Indices: 19467794--19467849 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
19467784 AACCCCCTCT
**
19467794 AATACAATCTCTTCTCTCCCCAA
1 AATACAATCGATTCT-T-CCCAA
*
19467817 AATACAATCGATTCTTCCTAA
1 AATACAATCGATTCTTCCCAA
*
19467838 AATACCATCGAT
1 AATACAATCGAT
19467850 CCCCCTCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 15 0.52
22 1 0.03
23 13 0.45
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (21 bp):
AATACAATCGATTCTTCCCAA
Found at i:19468375 original size:44 final size:44
Alignment explanation
Indices: 19468312--19468783 Score: 378
Period size: 44 Copynumber: 10.8 Consensus size: 44
19468302 TCGATCTACT
* * *
19468312 TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTG
1 TCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTA
*
19468356 TCTTCAA-CTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTA
1 TCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTA
* * * **
19468400 TCTTCAA-CTTGTTCCCTATAAACACAAGGATGTC--ATGCTGAAA
1 TCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGCTA
* * * * * *
19468443 TCTTCGATCTGCTTCACTGTAAGCACA-GAATG-TAGATCTGCTA
1 TCTTCAATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTA
* *
19468486 TCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGT
1 TCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT-A
* **
19468531 TTTTCAA-CTTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAA
1 TCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGCTA
* ** * * * *
19468574 TCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAGATCTGCTA
1 TCTTCAATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTA
* *
19468619 TCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTG
1 TCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTA
* **
19468663 TTTTCAA-CTTGTTCCCTATAAGCACAGGGATGCC--ATGC-GAAA
1 TCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGCTA
* * * * * * *
19468705 TCTTCGATCTGCTTCACTCTAAGCACAAGAATGTCAGATCTGCTA
1 TCTTCAATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTA
* *
19468750 TCTTCGATCTGTTCCCTATAA-CACAAGGATGCCA
1 TCTTCAATCTGTTCCCTATAAGCACAGGGATGCCA
19468784 TGCTGAAATC
Statistics
Matches: 347, Mismatches: 59, Indels: 45
0.77 0.13 0.10
Matches are distributed among these distances:
42 25 0.07
43 77 0.22
44 183 0.53
45 60 0.17
46 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
TCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTA
Found at i:19468573 original size:131 final size:131
Alignment explanation
Indices: 19468312--19468783 Score: 711
Period size: 131 Copynumber: 3.6 Consensus size: 131
19468302 TCGATCTACT
* * * * * * * *
19468312 TCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTGTCTTC-AACTTGTTCCCTAT
1 TCTTCGATCTGCTTCACTGTAAGCACA-GAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTAT
* * * * * *
19468375 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGTCATGCTG
64 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
19468440 AAA
129 AAA
19468443 TCTTCGATCTGCTTCACTGTAAGCACAGAATGT-AGATCTGCTATCTTCGATCTGTTCCCTATAA
1 TCTTCGATCTGCTTCACTGTAAGCACAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
19468507 GCACAGGGATGCCAAATCTGCTGTTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
66 GCACAGGGATGCCAAATCTGCTG-TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
19468572 AA
130 AA
*
19468574 TCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
1 TCTTCGATCTGCTTCACTGTAAGCACA-GAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
19468639 AGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC-GA
65 AGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
19468703 AA
130 AA
*
19468705 TCTTCGATCTGCTTCACTCTAAGCACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
1 TCTTCGATCTGCTTCACTGTAAGCAC-AGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
*
19468770 A-CACAAGGATGCCA
65 AGCACAGGGATGCCA
19468784 TGCTGAAATC
Statistics
Matches: 317, Mismatches: 18, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
130 58 0.18
131 148 0.47
132 57 0.18
133 54 0.17
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (131 bp):
TCTTCGATCTGCTTCACTGTAAGCACAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
GCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
A
Found at i:19469257 original size:205 final size:205
Alignment explanation
Indices: 19468881--19469665 Score: 1249
Period size: 204 Copynumber: 3.8 Consensus size: 205
19468871 AAATCTATTT
* * * * *
19468881 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCAC
* * * * * *
19468946 GTGAAAGCCAAATCAACTATG-ATTCGATTTCCTCCTTGTAAGCATAAGGATGCTAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
19469010 GGATCCGCTTCAGCAT-AAA-CATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGT
131 GGATCTGCTTCAG--TGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGT
*
19469073 GAATATGCCAAA
194 GAAGATGCCAAA
* * * *
19469085 CTTTGATTCGTTCTCTGACGATGCAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCAC
* *
19469150 GTGAAAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
19469215 GGATCTGCTTCAGTGAAATCATCTAAAGGCGAGATATGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
19469280 AGATGCCAAA
196 AGATGCCAAA
*
19469290 CTTCGATTCTTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCAC
19469355 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
19469420 GGAT-TGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
19469484 AGATGCCAAA
196 AGATGCCAAA
* *
19469494 CTTCGATTCGTTCTCTAACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCAC
19469559 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
19469624 GGATCTGCTTCAGT-ATAA-CATCTGAAGGCCAGATCTGTTATG
131 GGATCTGCTTCAGTGA-AATCATCTGAAGGCGAGATCTGCTATG
19469666 CTGCGGCCTA
Statistics
Matches: 539, Mismatches: 37, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
203 1 0.00
204 300 0.56
205 238 0.44
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTATCGTAATCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:19478309 original size:19 final size:19
Alignment explanation
Indices: 19478289--19478330 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19478279 TTGTTTTGCA
*
19478289 TTCATTCATTTGCATTACAT
1 TTCA-TCATGTGCATTACAT
*
19478309 TTCATCATGTGCATTAAAT
1 TTCATCATGTGCATTACAT
19478328 TTC
1 TTC
19478331 GTGAAAAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (19 bp):
TTCATCATGTGCATTACAT
Found at i:19486326 original size:66 final size:66
Alignment explanation
Indices: 19486254--19486419 Score: 228
Period size: 66 Copynumber: 2.5 Consensus size: 66
19486244 CATTCATACA
* *
19486254 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACAGCATCCTAGTTATTTGA
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACACCATCCTAATTATTTGA
*
19486319 T
66 C
* * * * *
19486320 TCATTCATAACACGTTTAATTAAGAGCATTTGATTCATTTCGATCATACCATCCTAATTATTTGA
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACACCATCCTAATTATTTGA
19486385 C
66 C
* *
19486386 ACATTCAT--CACATCTAGTTAGGAGCATTTGATTC
1 TCATTCATAACACATCTAATTAGGAGCATTTGATTC
19486420 GACCATAGCA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 22 0.25
66 65 0.75
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (66 bp):
TCATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCACACCATCCTAATTATTTGA
C
Found at i:19486886 original size:44 final size:44
Alignment explanation
Indices: 19486735--19486886 Score: 141
Period size: 44 Copynumber: 3.5 Consensus size: 44
19486725 GATTTTGTCT
* * * *
19486735 CCCTAAGCAGTAGTGG-AGCAAATCAAAGATGATGGGCTTTAACC
1 CCCTAAGCAGTAG-GGTAACAGATCGAAGATGATGGGCCTTAACC
* * * **
19486779 CCCTAAGCAGTAGGGTAACA-AGTCGCA-TTTATAGATCC-TAACC
1 CCCTAAGCAGTAGGGTAACAGA-TCGAAGATGAT-GGGCCTTAACC
* *
19486822 CCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGCCTTAACC
1 CCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCCTTAACC
*
19486866 CCCTAAGCAGTAGTGTAACAG
1 CCCTAAGCAGTAGGGTAACAG
19486887 GATTGAAATC
Statistics
Matches: 84, Mismatches: 18, Indels: 12
0.74 0.16 0.11
Matches are distributed among these distances:
43 36 0.43
44 48 0.57
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGATCGAAGATGATGGGCCTTAACC
Found at i:19487729 original size:18 final size:19
Alignment explanation
Indices: 19487686--19487733 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
19487676 ATGCAAGCAA
*
19487686 CAGACAAACAAACAACAAG
1 CAGAAAAACAAACAACAAG
* *
19487705 CAAAAAAACAAA-AAGAAG
1 CAGAAAAACAAACAACAAG
19487723 CAG-AAAACAAA
1 CAGAAAAACAAA
19487734 GAGCAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 8 0.32
18 7 0.28
19 10 0.40
ACGTcount: A:0.71, C:0.19, G:0.10, T:0.00
Consensus pattern (19 bp):
CAGAAAAACAAACAACAAG
Found at i:19490574 original size:17 final size:16
Alignment explanation
Indices: 19490554--19490587 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
19490544 ACCTCTCTAT
19490554 AACAATTAATGCTATTA
1 AACAATTAATGC-ATTA
19490571 AACAATTAATGCATTA
1 AACAATTAATGCATTA
19490587 A
1 A
19490588 GCTTAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (16 bp):
AACAATTAATGCATTA
Found at i:19493107 original size:29 final size:31
Alignment explanation
Indices: 19493067--19493130 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
19493057 ATAATTTATG
*
19493067 TTTTTATAATTTTTAAAAAGTTAA-ATCAAA
1 TTTTTATAATTTTTAAAAAGTTAATATAAAA
*
19493097 TTTTTAT-ATTTTTAAAGAGTTAATATAAAA
1 TTTTTATAATTTTTAAAAAGTTAATATAAAA
19493127 TTTT
1 TTTT
19493131 ATTATTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (31 bp):
TTTTTATAATTTTTAAAAAGTTAATATAAAA
Found at i:19493131 original size:29 final size:29
Alignment explanation
Indices: 19493068--19493141 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
19493058 TAATTTATGT
*
19493068 TTTTATAATTTTTAAAAAGTTAAATCAAAT
1 TTTTAT-ATTTTTAAAAAGTTAAATCAAAA
*
19493098 TTTTATATTTTTAAAGAGTTAATAT-AAAA
1 TTTTATATTTTTAAAAAGTTAA-ATCAAAA
*
19493127 TTTTATTATTATTAA
1 TTTTA-TATTTTTAA
19493142 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 23 0.59
30 16 0.41
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTTATATTTTTAAAAAGTTAAATCAAAA
Found at i:19499310 original size:30 final size:31
Alignment explanation
Indices: 19499276--19499333 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
19499266 TTGGTAATTG
19499276 AACTATTCAAAAT-TTTCATTTAAGTCACCA
1 AACTATTCAAAATGTTTCATTTAAGTCACCA
*
19499306 AACTATTCAAAATGTTTTATTTAAGTCA
1 AACTATTCAAAATGTTTCATTTAAGTCA
19499334 TTAAGCTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (31 bp):
AACTATTCAAAATGTTTCATTTAAGTCACCA
Found at i:19500720 original size:12 final size:12
Alignment explanation
Indices: 19500705--19500783 Score: 78
Period size: 12 Copynumber: 6.8 Consensus size: 12
19500695 GATAAATATT
19500705 ATATTAAATTTA
1 ATATTAAATTTA
19500717 ATATTAAA-TT-
1 ATATTAAATTTA
19500727 A-ATTAAATTTA
1 ATATTAAATTTA
*
19500738 ATATTAAA-ATA
1 ATATTAAATTTA
*
19500749 ATCACTTTAATATTA
1 AT-A-TTAAAT-TTA
19500764 A-ATTAAATTTA
1 ATATTAAATTTA
19500775 ATATTAAAT
1 ATATTAAAT
19500784 CTATTAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
9 6 0.11
10 3 0.05
11 11 0.20
12 27 0.49
13 5 0.09
15 3 0.05
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (12 bp):
ATATTAAATTTA
Found at i:19500789 original size:46 final size:41
Alignment explanation
Indices: 19500713--19500796 Score: 114
Period size: 41 Copynumber: 1.9 Consensus size: 41
19500703 TTATATTAAA
*
19500713 TTTAATATTAAATTAATTAAATTTAATATTAAAATAATCAC
1 TTTAATATTAAATTAATTAAATTAAATATTAAAATAATCAC
19500754 TTTAATATTAAATTAAATTTAATATTAAATCTATTAAAATAAT
1 TTTAATATTAAATT-AA-TTAA-ATTAAA--TATTAAAATAAT
19500797 ATTATTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
41 14 0.38
42 2 0.05
43 4 0.11
44 5 0.14
46 12 0.32
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (41 bp):
TTTAATATTAAATTAATTAAATTAAATATTAAAATAATCAC
Found at i:19503403 original size:8 final size:8
Alignment explanation
Indices: 19503390--19503416 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
19503380 CCACTGAACT
19503390 AATAATAA
1 AATAATAA
19503398 AATAATAA
1 AATAATAA
19503406 AATAATAA
1 AATAATAA
19503414 AAT
1 AAT
19503417 TGTCAATGCA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:19504192 original size:19 final size:19
Alignment explanation
Indices: 19504149--19504206 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
19504139 TTTTATTCCC
19504149 TTTTCTTCTT-TGTCACTT-T
1 TTTTCTTCTTCT-TCA-TTAT
*
19504168 TGTTCTTCTTCTTCATTAT
1 TTTTCTTCTTCTTCATTAT
19504187 TTTTCTT-TTCTT--TTAT
1 TTTTCTTCTTCTTCATTAT
19504203 TTTT
1 TTTT
19504207 GCTAATTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 8 0.23
18 7 0.20
19 19 0.54
20 1 0.03
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTCTTCTTCTTCATTAT
Found at i:19518270 original size:23 final size:21
Alignment explanation
Indices: 19518242--19518285 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
19518232 CAATCATTTT
*
19518242 TTTATTTTTATATATTCTTTAAA
1 TTTATTATTATAT-TT-TTTAAA
19518265 TTTATTATTATATTTTTTAAA
1 TTTATTATTATATTTTTTAAA
19518286 AATATTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 12 0.60
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTATTATTATATTTTTTAAA
Found at i:19518278 original size:21 final size:19
Alignment explanation
Indices: 19518245--19518285 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
19518235 TCATTTTTTT
19518245 ATTTTTATATATTCTTTAA
1 ATTTTTATATATTCTTTAA
*
19518264 ATTTATTATTATATTTTTTAA
1 ATTT-TTA-TATATTCTTTAA
19518285 A
1 A
19518286 AATATTTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTATATATTCTTTAA
Found at i:19518291 original size:21 final size:21
Alignment explanation
Indices: 19518252--19518291 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19518242 TTTATTTTTA
**
19518252 TATATTCTTTAAATTTATTAT
1 TATATTCTTTAAAAATATTAT
*
19518273 TATATTTTTTAAAAATATT
1 TATATTCTTTAAAAATATT
19518292 TATGTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATTCTTTAAAAATATTAT
Found at i:19518308 original size:31 final size:33
Alignment explanation
Indices: 19518264--19518324 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
19518254 TATTCTTTAA
19518264 ATTTATTATTATATTT-TTTAAAAATATTTATGT
1 ATTTATTATTATATTTATTTAAAAAT-TTTATGT
*
19518297 ATTT-TTA-TATATTTATTTTAAAATTTTA
1 ATTTATTATTATATTTATTTAAAAATTTTA
19518325 AAATTAGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 11 0.42
32 11 0.42
33 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (33 bp):
ATTTATTATTATATTTATTTAAAAATTTTATGT
Found at i:19519063 original size:7 final size:7
Alignment explanation
Indices: 19519051--19519081 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
19519041 GTTACGTATC
19519051 TTTTTTA
1 TTTTTTA
19519058 TTTTTTA
1 TTTTTTA
19519065 TTTTTTA
1 TTTTTTA
19519072 TTTTTTA
1 TTTTTTA
19519079 TTT
1 TTT
19519082 ATGTAAGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:19521395 original size:12 final size:12
Alignment explanation
Indices: 19521380--19521438 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
19521370 TTCCAAAGGC
19521380 AGATACAAATGT
1 AGATACAAATGT
* *
19521392 AGATACAGATTT
1 AGATACAAATGT
* *
19521404 AGTTACAGATGT
1 AGATACAAATGT
*
19521416 AGATACAAACT-C
1 AGATACAAA-TGT
19521428 AGATACAAATG
1 AGATACAAATG
19521439 CTGACACAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 1 0.03
12 36 0.95
13 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (12 bp):
AGATACAAATGT
Found at i:19521432 original size:36 final size:36
Alignment explanation
Indices: 19521343--19521434 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 36
19521333 ACAAACAAAA
*
19521343 TAGATACAAATGCA-AGTACAGATTTAGTTCCAAAGG
1 TAGATACAAATGCAGA-TACAGATTTAGTTACAAAGG
* * * *
19521379 CAGATACAAATGTAGATACAGATTTAGTTACAGATG
1 TAGATACAAATGCAGATACAGATTTAGTTACAAAGG
19521415 TAGATACAAACT-CAGATACA
1 TAGATACAAA-TGCAGATACA
19521435 AATGCTGACA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
36 45 0.96
37 2 0.04
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25
Consensus pattern (36 bp):
TAGATACAAATGCAGATACAGATTTAGTTACAAAGG
Found at i:19521434 original size:24 final size:24
Alignment explanation
Indices: 19521379--19521438 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
19521369 GTTCCAAAGG
* *
19521379 CAGATACAAATGTAGATACAGATT
1 CAGATACAAATGTAGATACAAACT
* * *
19521403 TAGTTACAGATGTAGATACAAACT
1 CAGATACAAATGTAGATACAAACT
19521427 CAGATACAAATG
1 CAGATACAAATG
19521439 CTGACACAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (24 bp):
CAGATACAAATGTAGATACAAACT
Found at i:19522473 original size:13 final size:13
Alignment explanation
Indices: 19522455--19522480 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19522445 CAATCCAAAT
19522455 ACCACCCCACTAA
1 ACCACCCCACTAA
19522468 ACCACCCCACTAA
1 ACCACCCCACTAA
19522481 CTCCATCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.54, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCACCCCACTAA
Found at i:19522885 original size:3 final size:3
Alignment explanation
Indices: 19522867--19522943 Score: 136
Period size: 3 Copynumber: 25.7 Consensus size: 3
19522857 GGGGAGAGTG
* *
19522867 TTA TTT TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19522915 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19522944 CTATATACTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19523058 original size:26 final size:24
Alignment explanation
Indices: 19523013--19523070 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
19523003 ATTAATTTAT
*
19523013 TATTATT-TTCACCTTTTTATTAC
1 TATTATTATTAACCTTTTTATTAC
* *
19523036 TATTATTATTAACC-TATTATTAT
1 TATTATTATTAACCTTTTTATTAC
*
19523059 TATTTTTATTAA
1 TATTATTATTAA
19523071 TATAGTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 25 0.83
24 5 0.17
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTATTATTAACCTTTTTATTAC
Found at i:19523079 original size:23 final size:23
Alignment explanation
Indices: 19523030--19523081 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
19523020 TTCACCTTTT
* * *
19523030 TATTACTATTATTATTAACCTAT
1 TATTATTATTATTATTAACATAG
* *
19523053 TATTATTATTTTTATTAATATAG
1 TATTATTATTATTATTAACATAG
19523076 TATTAT
1 TATTAT
19523082 CTTCTTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATTATTATTATTAACATAG
Found at i:19523213 original size:3 final size:3
Alignment explanation
Indices: 19523205--19523251 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
19523195 AATCAATTTA
19523205 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
19523252 CATTTTTCCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:19526872 original size:45 final size:45
Alignment explanation
Indices: 19526805--19526928 Score: 167
Period size: 45 Copynumber: 2.7 Consensus size: 45
19526795 CTGCAAACTT
* * * *
19526805 TTTATCTAAAAATAATGATGGTTTACCCACAATTTTTACTAGTAG
1 TTTATCTGAAAATAATGGTGGTTTACCCACAATTTTTACTAGAAA
*
19526850 TTTATCTGAAAATAATGGTGGTTTACCCACAATTTTTACTGGAAA
1 TTTATCTGAAAATAATGGTGGTTTACCCACAATTTTTACTAGAAA
* * *
19526895 TTTATCTGCAAATTATTGGTGGTTTATCCACAAT
1 TTTATCTG-AAAATAATGGTGGTTTACCCACAAT
19526929 AGGGATGTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 48 0.69
46 22 0.31
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (45 bp):
TTTATCTGAAAATAATGGTGGTTTACCCACAATTTTTACTAGAAA
Found at i:19528295 original size:13 final size:13
Alignment explanation
Indices: 19528277--19528302 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19528267 TTATGTATAT
19528277 CGTAAATTGAGAA
1 CGTAAATTGAGAA
19528290 CGTAAATTGAGAA
1 CGTAAATTGAGAA
19528303 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
CGTAAATTGAGAA
Found at i:19530977 original size:25 final size:25
Alignment explanation
Indices: 19530949--19531036 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 25
19530939 CCACATTATA
19530949 AAAATATAAATTTTATAAATTCATT
1 AAAATATAAATTTTATAAATTCATT
* * **
19530974 AAAATATATATTTTA-AATTTTTTT
1 AAAATATAAATTTTATAAATTCATT
* *
19530998 ATAAGT-TATATTTTTATAAATTCATT
1 A-AAATATA-AATTTTATAAATTCATT
*
19531024 AAAA-ATATATTTT
1 AAAATATAAATTTT
19531037 CAAAAATATA
Statistics
Matches: 46, Mismatches: 13, Indels: 9
0.68 0.19 0.13
Matches are distributed among these distances:
24 13 0.28
25 26 0.57
26 7 0.15
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.51
Consensus pattern (25 bp):
AAAATATAAATTTTATAAATTCATT
Found at i:19539986 original size:15 final size:15
Alignment explanation
Indices: 19539966--19539996 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19539956 TTTTTATCAC
19539966 ATATTATGAACCCAT
1 ATATTATGAACCCAT
*
19539981 ATATTATGAGCCCAT
1 ATATTATGAACCCAT
19539996 A
1 A
19539997 CACAGTCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (15 bp):
ATATTATGAACCCAT
Found at i:19555858 original size:43 final size:43
Alignment explanation
Indices: 19555832--19555915 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
19555822 TGAAATTAAT
*
19555832 TAACGATGCCAATGTCCCAGACATGGTCTTACACATAATCACA
1 TAACGATGCCAATGTCCCAAACATGGTCTTACACATAATCACA
*
19555875 TAATGATGCCAATGTCCCAAACATGGTCTTACACATAATCA
1 TAACGATGCCAATGTCCCAAACATGGTCTTACACATAATCA
19555916 GATCTCGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (43 bp):
TAACGATGCCAATGTCCCAAACATGGTCTTACACATAATCACA
Found at i:19556341 original size:10 final size:10
Alignment explanation
Indices: 19556321--19556355 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
19556311 AAATACACAA
19556321 AATTC-ACAC
1 AATTCAACAC
19556330 AATTCAACAC
1 AATTCAACAC
19556340 AATTCAACAC
1 AATTCAACAC
19556350 AATTCA
1 AATTCA
19556356 TACTTGGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.20
10 20 0.80
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.23
Consensus pattern (10 bp):
AATTCAACAC
Found at i:19558364 original size:8 final size:8
Alignment explanation
Indices: 19558351--19558476 Score: 62
Period size: 8 Copynumber: 15.4 Consensus size: 8
19558341 TTTTAGTTCT
19558351 TTTATATA
1 TTTATATA
*
19558359 TTTATATTT
1 TTTATA-TA
* *
19558368 TTTACAAAA
1 TTTA-TATA
*
19558377 TTTATAAA
1 TTTATATA
* *
19558385 TTTTTAGTT
1 TTTATA-TA
19558394 TTTATATA
1 TTTATATA
19558402 TTTATATA
1 TTTATATA
*
19558410 TTTTCATAAA
1 -TTT-ATATA
*
19558420 TTTATAAA
1 TTTATATA
19558428 TTT-TA-A
1 TTTATATA
*
19558434 CTTT-TTTA
1 -TTTATATA
19558442 TTTATATA
1 TTTATATA
19558450 -TTATATA
1 TTTATATA
* *
19558457 TTGTAAATT
1 TT-TATATA
19558466 TTTATATA
1 TTTATATA
19558474 TTT
1 TTT
19558477 TTTCAAATTA
Statistics
Matches: 91, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
6 1 0.01
7 16 0.18
8 43 0.47
9 26 0.29
10 5 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (8 bp):
TTTATATA
Found at i:19558399 original size:17 final size:18
Alignment explanation
Indices: 19558377--19558431 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
19558367 TTTTACAAAA
19558377 TTTATAAATTT-T-TAGTT
1 TTTATAAATTTATATA-TT
*
19558394 TTTATATATTTATATATT
1 TTTATAAATTTATATATT
* *
19558412 TTCATAAATTTATAAATT
1 TTTATAAATTTATATATT
19558430 TT
1 TT
19558432 AACTTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 10 0.31
18 20 0.62
19 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTATAAATTTATATATT
Found at i:19558402 original size:43 final size:45
Alignment explanation
Indices: 19558339--19558458 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 45
19558329 TATATATGAG
*
19558339 ATTTTTAGTTCTTTTATATATTTATATTTTTTACA-AAATTTATAA
1 ATTTTTAGTTCTTTTATATATTTATATATTTT-CATAAATTTATAA
19558384 ATTTTTAG-T-TTTTATATATTTATATATTTTCATAAATTTATAA
1 ATTTTTAGTTCTTTTATATATTTATATATTTTCATAAATTTATAA
* *
19558427 ATTTTAACTT-TTTTATTTATATATTATATATT
1 ATTTTTAGTTCTTTTA--TATAT-TTATATATT
19558459 GTAAATTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
42 2 0.03
43 36 0.54
44 7 0.10
45 8 0.12
46 5 0.07
47 9 0.13
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (45 bp):
ATTTTTAGTTCTTTTATATATTTATATATTTTCATAAATTTATAA
Found at i:19558560 original size:16 final size:15
Alignment explanation
Indices: 19558517--19558564 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
19558507 GATAAGGCTT
*
19558517 TTATATATTTTTAAT
1 TTATATATTTTTAAA
*
19558532 TGTAGATATTTTTATAAA
1 T-TATATA-TTTT-TAAA
19558550 TTATATATTTTTAAA
1 TTATATATTTTTAAA
19558565 AACAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 5 0.19
16 9 0.33
17 9 0.33
18 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (15 bp):
TTATATATTTTTAAA
Found at i:19565916 original size:22 final size:21
Alignment explanation
Indices: 19565866--19565925 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
19565856 ATACATGCAT
*
19565866 ATTTAATTATTTATATTTATTA
1 ATTTAATTAATTAT-TTTATTA
*
19565888 ATATAATTAATATATTTTATTA
1 ATTTAATTAAT-TATTTTATTA
* *
19565910 TTTTAATAAATTATTT
1 ATTTAATTAATTATTT
19565926 AATATTACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 5 0.16
22 24 0.75
23 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAATTAATTATTTTATTA
Found at i:19566012 original size:27 final size:27
Alignment explanation
Indices: 19565980--19566033 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
19565970 TTGAATTTTG
*
19565980 AATAATATATTATTGAA-AAATATTTAT
1 AATAATATATTAAT-AATAAATATTTAT
*
19566007 AATAATATTTTAATAATAAATATTTAT
1 AATAATATATTAATAATAAATATTTAT
19566034 TACAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
AATAATATATTAATAATAAATATTTAT
Found at i:19566225 original size:28 final size:28
Alignment explanation
Indices: 19566193--19566253 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
19566183 TGTAATTTAA
19566193 ATTAAGTTT-TA-ATTAAGTATTAT-TTATT
1 ATTAAGTTTATATATT--GTATTATATTA-T
19566221 ATTAAGTTTATATATTGTATTATATTAT
1 ATTAAGTTTATATATTGTATTATATTAT
19566249 ATTAA
1 ATTAA
19566254 TTATTACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
28 22 0.73
29 5 0.17
30 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (28 bp):
ATTAAGTTTATATATTGTATTATATTAT
Found at i:19569319 original size:46 final size:46
Alignment explanation
Indices: 19569254--19569483 Score: 147
Period size: 46 Copynumber: 5.0 Consensus size: 46
19569244 TTATCTTTAA
* * * * * *
19569254 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACTCA-TTTCATAT
**
19569300 CATGTTGCCATGGTATCTTTCAACCATAGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACTCATTTCATAT
* * * * *
19569346 CACGTTGCCATGGTA-CATTTCATATCAGGTTGCCATGGTA-TC-TTTCA-AC
1 CATGTTGCCATGGTATC-TTTCA-ACCA--TAGTC-T--TACTCATTTCATAT
* *
19569395 CATG--G---TGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACTCATTTCATAT
* * * *
19569436 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATAGTCTTACTCATTTCATAT
19569482 CA
1 CA
19569484 GAGAGCACAC
Statistics
Matches: 146, Mismatches: 21, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 6 0.04
41 7 0.05
43 4 0.03
44 10 0.07
45 6 0.04
46 90 0.62
47 4 0.03
49 7 0.05
50 6 0.04
51 2 0.01
52 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATAGTCTTACTCATTTCATAT
Found at i:19569392 original size:25 final size:25
Alignment explanation
Indices: 19569336--19569385 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
19569326 TAGTCTTGTT
19569336 CATTTCATATCACGTTGCCATGGTA
1 CATTTCATATCACGTTGCCATGGTA
*
19569361 CATTTCATATCAGGTTGCCATGGTA
1 CATTTCATATCACGTTGCCATGGTA
19569386 TCTTTCAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (25 bp):
CATTTCATATCACGTTGCCATGGTA
Found at i:19569405 original size:19 final size:19
Alignment explanation
Indices: 19569381--19569419 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
19569371 CAGGTTGCCA
19569381 TGGTATCTTTCAACCATGG
1 TGGTATCTTTCAACCATGG
19569400 TGGTATCTTTCAACCATGG
1 TGGTATCTTTCAACCATGG
19569419 T
1 T
19569420 CTTACACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (19 bp):
TGGTATCTTTCAACCATGG
Found at i:19572885 original size:42 final size:42
Alignment explanation
Indices: 19572826--19572954 Score: 195
Period size: 42 Copynumber: 3.0 Consensus size: 42
19572816 TAGGGTTAGT
*
19572826 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGGTA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATTGGTA
* * *
19572868 TGAGATTTCATGTAAGACCATAGCTTGGATATTGGCATTGATA
1 TGAGATTTCATGTAAGACCATATCTGGGATA-TGGCATTGGTA
**
19572911 TGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGTA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATTGGTA
19572953 TG
1 TG
19572955 GTACTATGTG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 41 0.53
43 36 0.47
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
TGAGATTTCATGTAAGACCATATCTGGGATATGGCATTGGTA
Found at i:19572923 original size:43 final size:42
Alignment explanation
Indices: 19572834--19572954 Score: 179
Period size: 43 Copynumber: 2.9 Consensus size: 42
19572824 GTTGAGATTT
* **
19572834 CATGTAAGACCATATCTGGGATATGGCATCGGTATGAGATTT
1 CATGTAAGACCATATCTGGGATATGGCATTGGTATGAGATCC
* * *
19572876 CATGTAAGACCATAGCTTGGATATTGGCATTGATATGAGATCC
1 CATGTAAGACCATATCTGGGATA-TGGCATTGGTATGAGATCC
19572919 CATGTAAGACCATATCTGGGATATGGCATTGGTATG
1 CATGTAAGACCATATCTGGGATATGGCATTGGTATG
19572955 GTACTATGTG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 33 0.48
43 36 0.52
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGGCATTGGTATGAGATCC
Found at i:19573148 original size:11 final size:11
Alignment explanation
Indices: 19573132--19573156 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19573122 TCACTATGGG
19573132 GATGACCTTGT
1 GATGACCTTGT
19573143 GATGACCTTGT
1 GATGACCTTGT
19573154 GAT
1 GAT
19573157 TATTGGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (11 bp):
GATGACCTTGT
Found at i:19575674 original size:28 final size:27
Alignment explanation
Indices: 19575611--19575680 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
19575601 ATAGTGAGTC
19575611 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
19575638 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*
19575666 GGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19575681 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:19579937 original size:3 final size:3
Alignment explanation
Indices: 19579929--19580001 Score: 123
Period size: 3 Copynumber: 25.0 Consensus size: 3
19579919 TTTATCCCTT
19579929 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
19579977 TTA TTA TTA TTA TCA TT- TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
19580002 ATGTTATGGT
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
2 4 0.06
3 62 0.94
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:19579938 original size:15 final size:15
Alignment explanation
Indices: 19579897--19579983 Score: 56
Period size: 15 Copynumber: 5.8 Consensus size: 15
19579887 TGTTATTTAT
* *
19579897 TTTTATTATCATGCA
1 TTTTATTATTATCCA
*
19579912 TTTTCATT-TTATCCC
1 TTTT-ATTATTATCCA
*
19579927 TTTTATTATTAT-TA
1 TTTTATTATTATCCA
*
19579941 TTATTATTATTAT-TA
1 TT-TTATTATTATCCA
*
19579956 TTATTATTATTAT-TA
1 TT-TTATTATTATCCA
19579971 TTATTATTATTAT
1 TT-TTATTATTAT
19579984 TATTATCATT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
14 5 0.08
15 56 0.88
16 3 0.05
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (15 bp):
TTTTATTATTATCCA
Found at i:19580130 original size:20 final size:20
Alignment explanation
Indices: 19580101--19580138 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19580091 TTAGCATGGC
19580101 ATTTTTCATTT-TTTATTTT
1 ATTTTTCATTTGTTTATTTT
19580120 ATTTGTTCATTTGTTTATT
1 ATTT-TTCATTTGTTTATT
19580139 CATTTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (20 bp):
ATTTTTCATTTGTTTATTTT
Found at i:19580143 original size:20 final size:19
Alignment explanation
Indices: 19580100--19580143 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
19580090 ATTAGCATGG
19580100 CATTTTTCATTTTTTATTT
1 CATTTTTCATTTTTTATTT
*
19580119 TATTTGTTCATTTGTTTA-TT
1 CATTT-TTCATTT-TTTATTT
19580139 CATTT
1 CATTT
19580144 ATTATGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (19 bp):
CATTTTTCATTTTTTATTT
Found at i:19581204 original size:16 final size:16
Alignment explanation
Indices: 19581173--19581209 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
19581163 TTCAAAAGAA
19581173 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
19581189 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
19581205 TATTA
1 TATTA
19581210 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:19581243 original size:20 final size:20
Alignment explanation
Indices: 19581220--19581278 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
19581210 AAAATAAAAA
19581220 TAAAATATTAAATAATTTAT
1 TAAAATATTAAATAATTTAT
*
19581240 TAAAATAATAAAT-A--TAT
1 TAAAATATTAAATAATTTAT
*
19581257 TAATTATATT-AATAATTTAT
1 TAA-AATATTAAATAATTTAT
19581277 TA
1 TA
19581279 TATAACTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 9 0.28
18 5 0.16
19 1 0.03
20 17 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAAATATTAAATAATTTAT
Found at i:19581290 original size:20 final size:19
Alignment explanation
Indices: 19581228--19581290 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
19581218 AATAAAATAT
*
19581228 TAAATAATTTATTAAAATAA
1 TAAATAATTTATT-ATATAA
*
19581248 TAAATATATTAATTATAT--
1 TAAATA-ATTTATTATATAA
19581266 T-AATAATTTATTATATAA
1 TAAATAATTTATTATATAA
19581284 CTAAATA
1 -TAAATA
19581291 TAAATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
16 10 0.29
17 4 0.11
18 1 0.03
19 1 0.03
20 13 0.37
21 6 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAATAATTTATTATATAA
Found at i:19589514 original size:24 final size:24
Alignment explanation
Indices: 19589290--19589504 Score: 342
Period size: 24 Copynumber: 9.0 Consensus size: 24
19589280 AGGAGTAGTT
*
19589290 GGACTGCCACCTCCATATGATGGG
1 GGACTGCCACCTCCGTATGATGGG
*
19589314 GGACTGCCACCTCCATATGATGGG
1 GGACTGCCACCTCCGTATGATGGG
19589338 GGACTGCCACCTCCGTATGATGGG
1 GGACTGCCACCTCCGTATGATGGG
19589362 GGACTGCCACCTCCGTATGATGGG
1 GGACTGCCACCTCCGTATGATGGG
19589386 GGACTGCCACCTCCGTATGATGGG
1 GGACTGCCACCTCCGTATGATGGG
19589410 GGACTGCCACCTCCGTATGATGGG
1 GGACTGCCACCTCCGTATGATGGG
* *
19589434 GGACTGCCTCCTCCGTACGATGGG
1 GGACTGCCACCTCCGTATGATGGG
* * *
19589458 GGACTGCCTCCTCCATACGATGGG
1 GGACTGCCACCTCCGTATGATGGG
*
19589482 GGACTACCACCTCCAG-ATGATGG
1 GGACTGCCACCTCC-GTATGATGG
19589505 TGGAGTACCA
Statistics
Matches: 182, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
24 182 1.00
ACGTcount: A:0.18, C:0.30, G:0.31, T:0.20
Consensus pattern (24 bp):
GGACTGCCACCTCCGTATGATGGG
Found at i:19610624 original size:15 final size:15
Alignment explanation
Indices: 19610590--19610634 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
19610580 TCATATTTTA
* *
19610590 ATATAATTATTATTAT
1 ATATAATT-TAATAAT
19610606 ATATAATTTAATAAT
1 ATATAATTTAATAAT
19610621 ATATAATTTAATAA
1 ATATAATTTAATAA
19610635 CATTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 19 0.70
16 8 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATAATTTAATAAT
Found at i:19613686 original size:10 final size:10
Alignment explanation
Indices: 19613610--19613689 Score: 90
Period size: 10 Copynumber: 7.8 Consensus size: 10
19613600 TTAAATTCAA
19613610 AAAGATAAAT
1 AAAGATAAAT
19613620 ACAA-ATAAAT
1 A-AAGATAAAT
* *
19613630 AAAAATAATT
1 AAAGATAAAT
19613640 AAAGATAAAT
1 AAAGATAAAT
*
19613650 AAGGATAAAT
1 AAAGATAAAT
*
19613660 AAAGATAAAA
1 AAAGATAAAT
19613670 ACTAAGATAAAT
1 A--AAGATAAAT
19613682 AAAGATAA
1 AAAGATAA
19613690 GAGCTAAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 2 0.03
10 46 0.78
11 2 0.03
12 9 0.15
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:19614336 original size:13 final size:13
Alignment explanation
Indices: 19614318--19614348 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19614308 TTTCTTTTTT
19614318 CTCTTTTTTTCTC
1 CTCTTTTTTTCTC
*
19614331 CTCTTTTTTTTTC
1 CTCTTTTTTTCTC
19614344 CTCTT
1 CTCTT
19614349 CTTCTTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
CTCTTTTTTTCTC
Found at i:19616696 original size:2 final size:2
Alignment explanation
Indices: 19616689--19616720 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19616679 AATTCATTTG
19616689 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
19616721 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:19616990 original size:39 final size:39
Alignment explanation
Indices: 19616967--19617071 Score: 192
Period size: 39 Copynumber: 2.7 Consensus size: 39
19616957 TCCCAGCACG
* *
19616967 TAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
19617006 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
19617045 TAGCCTGCGGATCTCATGTCCGGATAT
1 TAGCCTGCGGATCTCATGTCCGGATAT
19617072 TTCCAATCTC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (39 bp):
TAGCCTGCGGATCTCATGTCCGGATATATTTCTAGCATA
Found at i:19619536 original size:25 final size:24
Alignment explanation
Indices: 19619506--19619646 Score: 111
Period size: 25 Copynumber: 5.5 Consensus size: 24
19619496 TTTTAAACTC
* *
19619506 TTTTTATATATCATTTGCTTTAAAA
1 TTTTTATATATTATTT-ATTTAAAA
*
19619531 TTTTTATGTATTATTTATTTTAAATTA
1 TTTTTATATATTATTTA-TTTAAA--A
* *
19619558 TTTTTACATATTATTTATTTTAAA
1 TTTTTATATATTATTTATTTAAAA
*
19619582 TTTTTCCCCATATATTATTTATTTTAAA
1 TTTTT----ATATATTATTTATTTAAAA
* *
19619610 TCTTTGTGTATATTATTTATTTTAAA
1 T-TTT-TATATATTATTTATTTAAAA
*
19619636 GTTTTATATAT
1 TTTTTATATAT
19619647 ATTACTCGGT
Statistics
Matches: 97, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
24 12 0.12
25 23 0.24
26 23 0.24
27 16 0.16
28 19 0.20
29 3 0.03
30 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTTATATATTATTTATTTAAAA
Found at i:19619622 original size:106 final size:107
Alignment explanation
Indices: 19619495--19619690 Score: 234
Period size: 106 Copynumber: 1.8 Consensus size: 107
19619485 CACAATGTTC
* * * * * *
19619495 ATTTTAAACTCTTTTTATATATCATTTGCTTTAAAATTTT-TATGTATTATTTATTTTAAATTAT
1 ATTTTAAACTCTTTGTATATATCATTTACTTTAAAATTTTATATATATTACTCAGTTTAAATTA-
*
19619559 TTTTACATATTATTTATTTTAAATTTTTCCCCATATATTATTT
65 TTTTACATATTATTTACTTTAAATTTTTCCCCATATATTATTT
* * * * *
19619602 ATTTTAAA-TCTTTGTGTATATTATTTATTTTAAAGTTTTATATATATTACTCGGTTTAAATTAT
1 ATTTTAAACTCTTTGTATATATCATTTACTTTAAAATTTTATATATATTACTCAGTTTAAATTAT
* * *
19619666 TTTATATGTTGTTTACTTTAAATTT
66 TTTACATATTATTTACTTTAAATTT
19619691 CTTTTACATT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
106 47 0.64
107 26 0.36
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (107 bp):
ATTTTAAACTCTTTGTATATATCATTTACTTTAAAATTTTATATATATTACTCAGTTTAAATTAT
TTTACATATTATTTACTTTAAATTTTTCCCCATATATTATTT
Found at i:19619853 original size:27 final size:26
Alignment explanation
Indices: 19619507--19619874 Score: 170
Period size: 26 Copynumber: 13.8 Consensus size: 26
19619497 TTTAAACTCT
* ** *
19619507 TTTTATATATCATTTGCTTTAAAAT-
1 TTTTATATATTATTTATTTTAAATTG
* *
19619532 TTTTATGTATTATTTATTTTAAATTAT
1 TTTTATATATTATTTATTTTAAATT-G
*
19619559 TTTTACATATTATTTATTTTAAATT-
1 TTTTATATATTATTTATTTTAAATTG
*
19619584 TTTCCCCATATATTATTTATTTTAAATCT-
1 TTT---TATATATTATTTATTTTAAAT-TG
* *
19619613 TTGTGTATATTATTTATTTTAAAGTT-
1 TTTTATATATTATTTATTTTAAA-TTG
* * *** *
19619639 TTATATATATTACTCGGTTTAAATTA
1 TTTTATATATTATTTATTTTAAATTG
* * *
19619665 TTTTATATGTTGTTTACTTTAAATT-
1 TTTTATATATTATTTATTTTAAATTG
* *
19619690 TCTTT-TACATTA-TTATTTTTAAAACTG
1 T-TTTATATATTATTTA-TTTT-AAATTG
* *
19619717 TTTTATAT-TT-TTTATGTT--ATGTA
1 TTTTATATATTATTTATTTTAAAT-TG
* *
19619740 TTTTAAAT-TTATTT-TTTTACATATTATT
1 TTTTATATATTATTTATTTTA-A-A-T-TG
* *
19619768 TAGTTTAAACTTTTATATGTCATTTTAAATTG
1 T--TTTATA-TATTAT-T-T-ATTTTAAATTG
* *
19619800 TTTTATAAATTAGTTATTTTAAATTG
1 TTTTATATATTATTTATTTTAAATTG
19619826 TTTTATATATTATTTTATTTTAAATTG
1 TTTTATATATTA-TTTATTTTAAATTG
*
19619853 TTTTACATATTAATTT-TTTTAA
1 TTTTATATATT-ATTTATTTTAA
19619875 TTATTATTTA
Statistics
Matches: 266, Mismatches: 46, Indels: 61
0.71 0.12 0.16
Matches are distributed among these distances:
22 1 0.00
23 13 0.05
24 6 0.02
25 36 0.14
26 97 0.36
27 55 0.21
28 24 0.09
29 6 0.02
30 11 0.04
31 1 0.00
32 6 0.02
33 2 0.01
34 2 0.01
35 1 0.00
36 5 0.02
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (26 bp):
TTTTATATATTATTTATTTTAAATTG
Found at i:19619969 original size:22 final size:25
Alignment explanation
Indices: 19619930--19619987 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 25
19619920 GTTTTTTATG
* *
19619930 TATTATTT-GTTTAGAATT-GTCT-
1 TATTATTTATTTTAGAATTACTCTA
*
19619952 TATTATTTATTTTA-AATTACTTTA
1 TATTATTTATTTTAGAATTACTCTA
19619976 TATTATTTATTT
1 TATTATTTATTT
19619988 CATTTCTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 12 0.40
23 6 0.20
24 12 0.40
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (25 bp):
TATTATTTATTTTAGAATTACTCTA
Found at i:19622425 original size:28 final size:28
Alignment explanation
Indices: 19622372--19622426 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
19622362 AGTATCAATC
* * *
19622372 ATTATTTTTCAATAACAATTATTTATTT
1 ATTATTATTCAATAACAATCAGTTATTT
*
19622400 ATTATTATTCAATAATAATCAGTTATT
1 ATTATTATTCAATAACAATCAGTTATT
19622427 CAGTATCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTATTATTCAATAACAATCAGTTATTT
Found at i:19622498 original size:39 final size:39
Alignment explanation
Indices: 19622454--19622590 Score: 193
Period size: 39 Copynumber: 3.5 Consensus size: 39
19622444 TAATAATCTG
*
19622454 TTATTCAGTACAGTAATTTAGTCATTCAGTAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
* ** * *
19622493 ATATTCAGTGTAGTAGTTTAGTTATTCAATAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
*
19622532 TTATTCAATACAGTAATTTAGTTATTCAGTAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
* *
19622571 TTATTTAGTACAGTAGTTTA
1 TTATTCAGTACAGTAATTTA
19622591 CCCTATTAAC
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (39 bp):
TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
Found at i:19622537 original size:18 final size:18
Alignment explanation
Indices: 19622514--19622575 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
19622504 AGTAGTTTAG
19622514 TTATTCAATAACTATCAA
1 TTATTCAATAACTATCAA
* * *
19622532 TTATTCAATACAGTAATTTAG
1 TTATTCAATA-ACT-A-TCAA
*
19622553 TTATTCAGTAACTATCAA
1 TTATTCAATAACTATCAA
19622571 TTATT
1 TTATT
19622576 TAGTACAGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 17 0.50
19 3 0.09
20 3 0.09
21 11 0.32
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.44
Consensus pattern (18 bp):
TTATTCAATAACTATCAA
Done.