Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 22 of 362
Found at i:6584273 original size:23 final size:23
Alignment explanation
Indices: 6584247--6584340 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
6584237 AAGTTAGAAG
6584247 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
6584270 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
6584293 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
6584316 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
6584339 AG
1 AG
6584341 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:6585707 original size:2 final size:2
Alignment explanation
Indices: 6585700--6585725 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6585690 TCAAAAATTA
6585700 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
6585726 TTAGCATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6586471 original size:18 final size:18
Alignment explanation
Indices: 6586444--6586478 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6586434 ACATGATTAG
*
6586444 TAATTGGATTTAATCAAA
1 TAATTAGATTTAATCAAA
6586462 TAATTAGATTTAATCAA
1 TAATTAGATTTAATCAA
6586479 TAGTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (18 bp):
TAATTAGATTTAATCAAA
Found at i:6586553 original size:30 final size:30
Alignment explanation
Indices: 6586502--6586591 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
6586492 TTTGGGCCAG
* *
6586502 GACTAAAATT-TTAAAATTTGAAAAATACAA
1 GACTAAAATTGATCAAA-TTGAAAAATACAA
* *
6586532 GACTAAAATTGATCAAATTGAAAAGTATAA
1 GACTAAAATTGATCAAATTGAAAAATACAA
* *
6586562 GAACAATAACATTGATCAAATTAAAAAATA
1 G-AC--TAAAATTGATCAAATTGAAAAATA
6586592 TGGACTAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
30 22 0.45
31 6 0.12
33 21 0.43
ACGTcount: A:0.57, C:0.08, G:0.09, T:0.27
Consensus pattern (30 bp):
GACTAAAATTGATCAAATTGAAAAATACAA
Found at i:6591245 original size:20 final size:21
Alignment explanation
Indices: 6591208--6591246 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
6591198 TACAAAATAC
**
6591208 AAAAAAATATTAGGAAATTAT
1 AAAAAAATATTAAAAAATTAT
6591229 AAAAAAA-ATTAAAAAATT
1 AAAAAAATATTAAAAAATT
6591247 TTCAAGTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAAAAATATTAAAAAATTAT
Found at i:6594427 original size:17 final size:17
Alignment explanation
Indices: 6594391--6594428 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
6594381 AATTAATAAA
*
6594391 AAATATATAAAATTATT
1 AAATATATAAAATAATT
6594408 AAATAT-TAAAATAATGT
1 AAATATATAAAATAAT-T
6594425 AAAT
1 AAAT
6594429 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AAATATATAAAATAATT
Found at i:6596955 original size:21 final size:20
Alignment explanation
Indices: 6596923--6597007 Score: 81
Period size: 20 Copynumber: 4.3 Consensus size: 20
6596913 AAATATAGAA
6596923 AAAAATT-T-AGAAAATTAT
1 AAAAATTGTAAGAAAATTAT
6596941 ATAAAATTGTAAGAAAATTAT
1 A-AAAATTGTAAGAAAATTAT
*
6596962 AAAAAATGTAA-AAAA-TAT
1 AAAAATTGTAAGAAAATTAT
* *
6596980 -AAAATTCGTAAAAAAAATTAC
1 AAAAATT-GT-AAGAAAATTAT
6597001 AAAAATT
1 AAAAATT
6597008 ATCGTACCAA
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
17 5 0.09
18 6 0.11
19 12 0.21
20 14 0.25
21 13 0.23
22 6 0.11
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (20 bp):
AAAAATTGTAAGAAAATTAT
Found at i:6596959 original size:11 final size:10
Alignment explanation
Indices: 6596922--6596977 Score: 53
Period size: 9 Copynumber: 5.7 Consensus size: 10
6596912 GAAATATAGA
6596922 AAAAAATT-T
1 AAAAAATTGT
* *
6596931 AGAAAATTAT
1 AAAAAATTGT
*
6596941 ATAAAATTGT
1 AAAAAATTGT
*
6596951 AAGAAAATTAT
1 AA-AAAATTGT
6596962 AAAAAA-TGT
1 AAAAAATTGT
6596971 AAAAAAT
1 AAAAAAT
6596978 ATAAAATTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
9 15 0.39
10 14 0.37
11 9 0.24
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (10 bp):
AAAAAATTGT
Found at i:6596990 original size:18 final size:17
Alignment explanation
Indices: 6596939--6596994 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
6596929 TTAGAAAATT
6596939 ATATAAAATTGTAAGAAA
1 ATATAAAATTGTAA-AAA
*
6596957 ATTATAAAAAATGTAAAAA
1 A-TAT-AAAATTGTAAAAA
6596976 ATATAAAATTCGTAAAAA
1 ATATAAAATT-GTAAAAA
6596994 A
1 A
6596995 AATTACAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 5 0.15
18 12 0.36
19 7 0.21
20 9 0.27
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (17 bp):
ATATAAAATTGTAAAAA
Found at i:6596993 original size:19 final size:18
Alignment explanation
Indices: 6596939--6596995 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
6596929 TTAGAAAATT
6596939 ATATAAAATTGTAAGAAAA
1 ATATAAAATTGTAA-AAAA
* *
6596958 TTATAAAAAATGT-AAAAA
1 ATAT-AAAATTGTAAAAAA
6596976 ATATAAAATTCGTAAAAAA
1 ATATAAAATT-GTAAAAAA
6596995 A
1 A
6596996 ATTACAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 5 0.16
18 9 0.29
19 10 0.32
20 7 0.23
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (18 bp):
ATATAAAATTGTAAAAAA
Found at i:6597548 original size:86 final size:88
Alignment explanation
Indices: 6597448--6597628 Score: 235
Period size: 86 Copynumber: 2.1 Consensus size: 88
6597438 TTTGACGGCA
* * * ** *
6597448 TTTTTTATTAATTTTGACAGTTTAAGTACTCAATTCAGTGTAAAAAAAAGTAGG-G-CTTAATTG
1 TTTTTTATTAATTTTGAAAGTTCAAATAC-CAATTCAGTGTAAAAAAAAAAAGGAGACTTAATTA
**
6597511 CTTTTTTTGAAAAAATTTG-AGAT
65 CTTTTTTTGAAAAAATCCGAAGAT
*
6597534 TTTTTTA-TACATTTTGAAAGTTCAAATACCAATTGAGTGTAAAAAAAAAAAGGAGACTTAATTA
1 TTTTTTATTA-ATTTTGAAAGTTCAAATACCAATTCAGTGTAAAAAAAAAAAGGAGACTTAATTA
6597598 CTTTTTTTGAAAAAATCCGAAGAT
65 CTTTTTTTGAAAAAATCCGAAGAT
6597622 TTTTTTA
1 TTTTTTA
6597629 CAACTTTAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
85 23 0.28
86 24 0.29
87 24 0.29
88 11 0.13
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (88 bp):
TTTTTTATTAATTTTGAAAGTTCAAATACCAATTCAGTGTAAAAAAAAAAAGGAGACTTAATTAC
TTTTTTTGAAAAAATCCGAAGAT
Found at i:6600031 original size:248 final size:248
Alignment explanation
Indices: 6599593--6600195 Score: 987
Period size: 248 Copynumber: 2.4 Consensus size: 248
6599583 ATTGTCAGAA
* *
6599593 ATTGCTCAAGGTAATGATGATCCAAGATGAATGCCCTATTGGCTTCAATTGCCTGCCATATAGTG
1 ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCTAGTGGCTTCAATTGCCTGCCATATAGTG
6599658 TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAACTTGTTTTCTTTT
66 TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAACTTGTTTTCTTTT
* * * * *
6599723 TTACCTTAAACACATCTAGCAATTGCGGCTGTTTAAGCTTCTTTCCCTGTAGAACCTGCAACGTT
131 TTACCTTAAACAAATCTAGCAATTGCGACTGGTTAAGCTTATTTCCCAGTAGAACCTGCAACGTT
*
6599788 TAAAATACTGGTTTATAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
196 TAAAATACTGGATTATAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
6599841 ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCTAGTGGCTTCAATTGCCTGCCATATAGTG
1 ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCTAGTGGCTTCAATTGCCTGCCATATAGTG
*
6599906 TCATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAACTTGTTTTCTTTT
66 TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAACTTGTTTTCTTTT
**** * *
6599971 TTACCTTTTTGAAATCTTGCAATTGCGACTGGTTAATCTTATTGT-CCAGCT-GAACCTGCAACG
131 TTACCTTAAACAAATCTAGCAATTGCGACTGGTTAAGCTTATT-TCCCAG-TAGAACCTGCAACG
* *
6600034 TTTAAAATACTGGATTGTAAGCTCAAACATTATATGTTATAAACCTAGGAGAGAG
194 TTTAAAATACTGGATTATAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
*
6600089 ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCT-GTTGGCTTCCATTGCCTGCCATATAGT
1 ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCTAG-TGGCTTCAATTGCCTGCCATATAGT
*
6600153 GTTATGTATATATTCATAAAGTAGTTAATTTGAAAGGAAAAGA
65 GTTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGA
6600196 GACACATATC
Statistics
Matches: 332, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
247 1 0.00
248 329 0.99
249 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (248 bp):
ATTGCTCAAGGTAATGGTGATCCAAGATGAATGCCCTAGTGGCTTCAATTGCCTGCCATATAGTG
TTATGTATGTATTCATAAAGTAGTTAATTTGAAAGGAAAAGAAATACATAAACTTGTTTTCTTTT
TTACCTTAAACAAATCTAGCAATTGCGACTGGTTAAGCTTATTTCCCAGTAGAACCTGCAACGTT
TAAAATACTGGATTATAAGCTCAAACATTATATGTTATAAACCTAGGAAAGAG
Found at i:6613126 original size:93 final size:93
Alignment explanation
Indices: 6613019--6613245 Score: 337
Period size: 93 Copynumber: 2.4 Consensus size: 93
6613009 CTATCGAATG
* * *** *
6613019 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAGCTGCTATGTAAACTTTTTATGTACACT
1 TGAAAAGGAAAGGTATACTCTGTGTGTACCACATGAAAAGGCTATGTAAACTTTGTATGTACACT
6613084 TGAAATGATATACTTTGTGTATATCATT
66 TGAAATGATATACTTTGTGTATATCATT
** * *
6613112 TGAAAAGGAAAGGTATACTCTGTGTGTACCATTTGAAAAGGCTATGTACACTTTGTGTGTACACT
1 TGAAAAGGAAAGGTATACTCTGTGTGTACCACATGAAAAGGCTATGTAAACTTTGTATGTACACT
*
6613177 TGAAATGGTATACTTTGTGTATATCATT
66 TGAAATGATATACTTTGTGTATATCATT
**
6613205 TGAAAAGGAAAGGTATACTCTGTGTGTACCATTTGAAAAGG
1 TGAAAAGGAAAGGTATACTCTGTGTGTACCACATGAAAAGG
6613246 AAAGGTATAC
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 123 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (93 bp):
TGAAAAGGAAAGGTATACTCTGTGTGTACCACATGAAAAGGCTATGTAAACTTTGTATGTACACT
TGAAATGATATACTTTGTGTATATCATT
Found at i:6613136 original size:33 final size:33
Alignment explanation
Indices: 6613092--6613299 Score: 221
Period size: 33 Copynumber: 6.5 Consensus size: 33
6613082 CTTGAAATGA
* *
6613092 TATACTTTGTGTATATCATTTGAAAAGGAAAGG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
* ** *
6613125 TATACTCTGTGTGTACCATTTGAAAAGGCTATG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
* * *
6613158 TACACTTTGTGTGTA-CACTTG---A--AATGG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
* *
6613185 TATACTTTGTGTATATCATTTGAAAAGGAAAGG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
*
6613218 TATACTCTGTGTGTACCATTTGAAAAGGAAAGG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
* *
6613251 TATACTTTGTGTGTACCATTTGAAAAAGAAATG
1 TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
* * *
6613284 TACACCTTGAGTGTAC
1 TATACTTTGTGTGTAC
6613300 TACTGGAAAA
Statistics
Matches: 143, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
27 14 0.10
28 5 0.03
29 1 0.01
31 1 0.01
32 5 0.03
33 117 0.82
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (33 bp):
TATACTTTGTGTGTACCATTTGAAAAGGAAAGG
Found at i:6613258 original size:93 final size:93
Alignment explanation
Indices: 6613076--6613275 Score: 337
Period size: 93 Copynumber: 2.1 Consensus size: 93
6613066 AAACTTTTTA
6613076 TGTACACTTGAAATGATATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTAC
1 TGTACACTTGAAATGATATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTAC
** *
6613141 CATTTGAAAAGGCTATGTACACTTTGTG
66 CATTTGAAAAGGAAAGGTACACTTTGTG
*
6613169 TGTACACTTGAAATGGTATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTAC
1 TGTACACTTGAAATGATATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTAC
*
6613234 CATTTGAAAAGGAAAGGTATACTTTGTG
66 CATTTGAAAAGGAAAGGTACACTTTGTG
*
6613262 TGTACCATTTGAAA
1 TGTA-CACTTGAAA
6613276 AAGAAATGTA
Statistics
Matches: 100, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
93 92 0.92
94 8 0.08
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (93 bp):
TGTACACTTGAAATGATATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTAC
CATTTGAAAAGGAAAGGTACACTTTGTG
Found at i:6613309 original size:66 final size:67
Alignment explanation
Indices: 6613178--6613315 Score: 163
Period size: 66 Copynumber: 2.1 Consensus size: 67
6613168 GTGTACACTT
* * * * * *
6613178 GAAATGGTATACTTTGTGTATATCATTTGAAAAGGAAAGGTATACTCTGTGTGTACCATTTGAAA
1 GAAATGGTATACTTTGTGTATACCATTTGAAAAAGAAAGGTACACTCTGAGTGTACCACTGGAAA
*
6613243 AG
66 AC
* * *
6613245 GAAA-GGTATACTTTGTGTGTACCATTTGAAAAAGAAATGTACAC-CTTGAGTGTACTACTGGAA
1 GAAATGGTATACTTTGTGTATACCATTTGAAAAAGAAAGGTACACTC-TGAGTGTACCACTGGAA
6613308 AAC
65 AAC
6613311 GAAAT
1 GAAAT
6613316 ATCCATCGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 1 0.02
66 54 0.92
67 4 0.07
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (67 bp):
GAAATGGTATACTTTGTGTATACCATTTGAAAAAGAAAGGTACACTCTGAGTGTACCACTGGAAA
AC
Found at i:6615965 original size:8 final size:8
Alignment explanation
Indices: 6615954--6615999 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
6615944 TTTCAGCTTT
6615954 TTTTTTTA
1 TTTTTTTA
6615962 TTTTTTTA
1 TTTTTTTA
6615970 -TTTTTTA
1 TTTTTTTA
*
6615977 -TTTTTCA
1 TTTTTTTA
6615984 TTTTTTTA
1 TTTTTTTA
6615992 TTTATTTT
1 TTT-TTTT
6616000 CAGCTATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 13 0.38
8 17 0.50
9 4 0.12
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTTA
Found at i:6615967 original size:7 final size:7
Alignment explanation
Indices: 6615951--6615994 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
6615941 CCTTTTCAGC
6615951 TTTT-TT
1 TTTTATT
6615957 TTTTATTT
1 TTTTA-TT
6615965 TTTTATT
1 TTTTATT
6615972 TTTTATT
1 TTTTATT
*
6615979 TTTCATTT
1 TTTTA-TT
6615987 TTTTATT
1 TTTTATT
6615994 T
1 T
6615995 ATTTTCAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
6 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:6615973 original size:15 final size:14
Alignment explanation
Indices: 6615954--6615994 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
6615944 TTTCAGCTTT
*
6615954 TTTTTTTATTTTTT
1 TTTTTTTATTTTTC
6615968 TATTTTTTATTTTTC
1 T-TTTTTTATTTTTC
6615983 ATTTTTTTATTT
1 -TTTTTTTATTT
6615995 ATTTTCAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTATTTTTC
Found at i:6615991 original size:22 final size:20
Alignment explanation
Indices: 6615951--6615999 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 20
6615941 CCTTTTCAGC
6615951 TTTTTTTTTTATTTTTTTAT
1 TTTTTTTTTTATTTTTTTAT
6615971 TTTTTATTTTTCATTTTTTTAT
1 TTTTT-TTTTT-ATTTTTTTAT
6615993 TTATTTT
1 TT-TTTT
6616000 CAGCTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.19
21 5 0.19
22 13 0.50
23 3 0.12
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTTTTTTTATTTTTTTAT
Found at i:6625260 original size:24 final size:24
Alignment explanation
Indices: 6625232--6625279 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6625222 AATTTCTTCA
6625232 CATCCATCAGCCCACAAATATTCT
1 CATCCATCAGCCCACAAATATTCT
6625256 CATCCATCAGCCCACAAATATTCT
1 CATCCATCAGCCCACAAATATTCT
6625280 TTCTTTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.38, G:0.04, T:0.25
Consensus pattern (24 bp):
CATCCATCAGCCCACAAATATTCT
Found at i:6628304 original size:25 final size:24
Alignment explanation
Indices: 6628267--6628407 Score: 140
Period size: 25 Copynumber: 5.7 Consensus size: 24
6628257 ACACACCACA
* *
6628267 GCTCTTATGAGCTTCCCGATACTTG
1 GCTCTCATGAGCTTCCCGATA-ATG
* *
6628292 GCTCTCATAAGCTTCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATA-ATG
6628317 GCTCTCATGAGCTTCCCGATTAATG
1 GCTCTCATGAGCTTCCCGA-TAATG
* *
6628342 GCTCTCTTGAGCTTCCTGATAAATG
1 GCTCTCATGAGCTTCCCGAT-AATG
**
6628367 GCTCGT-ATGAGCTTCCCGATATACA
1 GCTC-TCATGAGCTTCCCGATA-ATG
*
6628392 GCTCACATGAGCTTCC
1 GCTCTCATGAGCTTCC
6628408 TATTATATGG
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
24 2 0.02
25 94 0.95
26 3 0.03
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (24 bp):
GCTCTCATGAGCTTCCCGATAATG
Found at i:6628401 original size:75 final size:75
Alignment explanation
Indices: 6628274--6628420 Score: 181
Period size: 75 Copynumber: 2.0 Consensus size: 75
6628264 ACAGCTCTTA
** *** *
6628274 TGAGCTTCCCGATACTTGGCTCTCATAAGCTTCCCGATATTTGGCTCTCATGAGCTTCCCGATTA
1 TGAGCTTCCCGATAAATGGCTCTCATAAGCTTCCCGATATACAGCTCACATGAGCTT-CCGATTA
6628339 -ATGGCTCTCT
65 TATGGCTCTCT
* * *
6628349 TGAGCTTCCTGATAAATGGCTCGT-ATGAGCTTCCCGATATACAGCTCACATGAGCTTCCTATTA
1 TGAGCTTCCCGATAAATGGCTC-TCATAAGCTTCCCGATATACAGCTCACATGAGCTTCCGATTA
6628413 TATGGCTC
65 TATGGCTC
6628421 AAAAGAGGTT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
74 6 0.10
75 54 0.89
76 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.33
Consensus pattern (75 bp):
TGAGCTTCCCGATAAATGGCTCTCATAAGCTTCCCGATATACAGCTCACATGAGCTTCCGATTAT
ATGGCTCTCT
Found at i:6630653 original size:20 final size:20
Alignment explanation
Indices: 6630616--6630653 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6630606 TGATGGGGAG
*
6630616 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
6630636 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
6630654 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:6632615 original size:46 final size:46
Alignment explanation
Indices: 6632548--6632775 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
6632538 AGTGTGCTCT
* *
6632548 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
6632594 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
6632640 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
6632686 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
6632732 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
6632776 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:6634196 original size:14 final size:14
Alignment explanation
Indices: 6634155--6634203 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 14
6634145 AATTATATTA
*
6634155 TAAAATATAAAGAT
1 TAAAATATAAAAAT
6634169 TAAATTATATTAAAAAT
1 TAAA--ATA-TAAAAAT
6634186 TAAAATATAAAAAT
1 TAAAATATAAAAAT
6634200 TAAA
1 TAAA
6634204 TCTTAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 15 0.48
15 3 0.10
16 3 0.10
17 10 0.32
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
TAAAATATAAAAAT
Found at i:6641301 original size:6 final size:6
Alignment explanation
Indices: 6641286--6641315 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
6641276 ATGCTTCTTC
*
6641286 TCTTTT TCTTTG TCTTTG TCTTTG TCTTTG
1 TCTTTG TCTTTG TCTTTG TCTTTG TCTTTG
6641316 GCTTCACCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.13, T:0.70
Consensus pattern (6 bp):
TCTTTG
Found at i:6641855 original size:3 final size:3
Alignment explanation
Indices: 6641849--6641874 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6641839 TAATAGTAAT
6641849 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
6641875 TATCCAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6644326 original size:21 final size:21
Alignment explanation
Indices: 6644301--6644341 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6644291 ATATAAACAC
*
6644301 ATACTTTTACCTTCATTTATG
1 ATACTTTAACCTTCATTTATG
6644322 ATACTTTAACCTTCATTTAT
1 ATACTTTAACCTTCATTTAT
6644342 ATTATTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (21 bp):
ATACTTTAACCTTCATTTATG
Found at i:6652196 original size:24 final size:25
Alignment explanation
Indices: 6652168--6652222 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
6652158 TTCTTACATC
* * *
6652168 ATTAAAAGTTTTTAT-AATATATAT
1 ATTAAAAGTTTCTATAAAAATAAAT
6652192 ATT-AAAGTTTCTATAAAAATAAAT
1 ATTAAAAGTTTCTATAAAAATAAAT
6652216 ATTAAAA
1 ATTAAAA
6652223 CTTAGAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 10 0.38
24 13 0.50
25 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
ATTAAAAGTTTCTATAAAAATAAAT
Found at i:6652784 original size:33 final size:33
Alignment explanation
Indices: 6652746--6652820 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
6652736 ATAAATTTAA
* *
6652746 AAAATACAATATAT-TAAATATATTAAAAATATT
1 AAAATA-AATATATATAAATAAATTAAAAATATG
* *
6652779 AAAATAAATATATATCAATAAATTGAAAATATG
1 AAAATAAATATATATAAATAAATTAAAAATATG
*
6652812 AAAAAAAAT
1 AAAATAAAT
6652821 TACACTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 7 0.19
33 29 0.81
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (33 bp):
AAAATAAATATATATAAATAAATTAAAAATATG
Found at i:6656286 original size:22 final size:23
Alignment explanation
Indices: 6656253--6656298 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6656243 AATTCGTTTG
*
6656253 TCATCTGG-AAAAGTTCTATAGC
1 TCATCTGGAAAAAGGTCTATAGC
6656275 TCAT-TGGAAAAAAGGTCTATAGC
1 TCATCTGG-AAAAAGGTCTATAGC
6656298 T
1 T
6656299 AGTTTGGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 4 0.19
23 14 0.67
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (23 bp):
TCATCTGGAAAAAGGTCTATAGC
Found at i:6671130 original size:30 final size:30
Alignment explanation
Indices: 6671095--6671152 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
6671085 TAAGCACTTC
6671095 CACACGGGTGAT-CCACACGCCCGTGTGTGA
1 CACACGGGT-ATACCACACGCCCGTGTGTGA
6671125 CACACGGGTATACCACACGCCCGTGTGT
1 CACACGGGTATACCACACGCCCGTGTGT
6671153 CATGGCCGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.17
Consensus pattern (30 bp):
CACACGGGTATACCACACGCCCGTGTGTGA
Found at i:6672336 original size:19 final size:20
Alignment explanation
Indices: 6672300--6672337 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6672290 ATTTTTATTT
*
6672300 AATTTTGTTTTGATTTACTA
1 AATTTTCTTTTGATTTACTA
6672320 AATTTTCTTTT-ATTTACT
1 AATTTTCTTTTGATTTACT
6672338 TCTAGCAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (20 bp):
AATTTTCTTTTGATTTACTA
Found at i:6678919 original size:23 final size:23
Alignment explanation
Indices: 6678893--6678951 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
6678883 TCCTCTTCTT
* * *
6678893 TTCTTTGTTTTCTTTTATTTTTA
1 TTCTTTCTTTTATTTTAATTTTA
6678916 TTCTTTCTTTTATTTTAATTTT-
1 TTCTTTCTTTTATTTTAATTTTA
* *
6678938 GTCTCTCTTTTATT
1 TTCTTTCTTTTATT
6678952 CAGCCTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.10, C:0.12, G:0.03, T:0.75
Consensus pattern (23 bp):
TTCTTTCTTTTATTTTAATTTTA
Found at i:6679090 original size:26 final size:26
Alignment explanation
Indices: 6679054--6679108 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
6679044 TGTTTTATTC
6679054 TACCATACTGCTTATAGGATCATCCT
1 TACCATACTGCTTATAGGATCATCCT
*
6679080 TACCATGCTGCTTATAGGATCATCCT
1 TACCATACTGCTTATAGGATCATCCT
6679106 TAC
1 TAC
6679109 TCACTATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (26 bp):
TACCATACTGCTTATAGGATCATCCT
Found at i:6684179 original size:832 final size:832
Alignment explanation
Indices: 6682565--6684232 Score: 3131
Period size: 832 Copynumber: 2.0 Consensus size: 832
6682555 AAAATGGACC
*
6682565 AAATAGACTTAAAACAGTGTTTCACATGGTCTAAGCACTTCCACACGAGTGATCTACACGCCCGT
1 AAATAGACTTAAAACAGTGTTTCACATGGTCTAAGCACTTCCACACGAGTGATCCACACGCCCGT
*
6682630 GTGTCATACCCATGTCGATATTAATCCAAGTCAGAATTGCACACGGCCTGAGCACCTTCACACGG
66 GTGTCATACCCATGTCGACATTAATCCAAGTCAGAATTGCACACGGCCTGAGCACCTTCACACGG
*
6682695 GCATGGCACACGGTCGTGTCCCTATCGAGCCCAAGTCTAGTTCTACTCAGAAAAGGCTAATTTTG
131 GCATGGCACACGGCCGTGTCCCTATCGAGCCCAAGTCTAGTTCTACTCAGAAAAGGCTAATTTTG
*
6682760 GGCTATTTTGGGCATTCAAAAGTCTATATAAACACCCAAGAAGAGGATTAGGGGGACGCACAGAG
196 GGCTATTTTGGGCATTCAAAAGTCTATATAAACACCCAAGAAGAGGATTAGGGGGACACACAGAG
6682825 TTGGAGGCAGAAAGTACTCAAGAACAGCCATCGGAATCACCTCGGAGCCAGGATCTACATCAAGA
261 TTGGAGGCAGAAAGTACTCAAGAACAGCCATCGGAATCACCTCGGAGCCAGGATCTACATCAAGA
6682890 CTGAATATTTCCATCCAATTTGCTAGAAGTTCTTTGGGTTTCTTTATGTTTTGTCGTTTTCCAAA
326 CTGAATATTTCCATCCAATTTGCTAGAAGTTCTTTGGGTTTCTTTATGTTTTGTCGTTTTCCAAA
*
6682955 CTTTGAGATGTTTTCCATTATTATTATGAACTAAACTCCCAAAATACCTAAGGGAGATGAATCCT
391 CTTTGAGATGTTTTCCATTATTATTATGAACTAAACTCCCAAAATACCTAAGGGAGATGAACCCT
*
6683020 ATGACGAATCTTATTACTATTTGAATTATATGATAAAGACTTATTCTTATTCTTAATTGTGAGTT
456 ATGACAAATCTTATTACTATTTGAATTATATGATAAAGACTTATTCTTATTCTTAATTGTGAGTT
*
6683085 CTAAATTCTTGTTTTAATATTCAGGGGTATTAATTCAAGTTTTAATGTGCTTAATCAGTGGAGCA
521 CTAAATTCTTATTTTAATATTCAGGGGTATTAATTCAAGTTTTAATGTGCTTAATCAGTGGAGCA
*
6683150 AAAGTCCCTGTTTAAGAGTAGATCATTCATAATTAAGCGGAGTTGAATGCAATCCTAGAGATAGG
586 AAAGTCCCTATTTAAGAGTAGATCATTCATAATTAAGCGGAGTTGAATGCAATCCTAGAGATAGG
6683215 ACGACATAAATTTGCCGGATTAGAGTCAAATCTAATAAGGGAATCCATAAACCGAGTTAATGCGA
651 ACGACATAAATTTGCCGGATTAGAGTCAAATCTAATAAGGGAATCCATAAACCGAGTTAATGCGA
*
6683280 CAATAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAAAGTCAGTTGTTCTTAGTCTC
716 CAATAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAAAGTCAGTTGTTCTTAATCTC
*
6683345 GATAGAGATATTAACATAAATTAGGGATTTCTACGAATTAAGTTAAGTGAAT
781 GATAGAGATATTAACATAAACTAGGGATTTCTACGAATTAAGTTAAGTGAAT
*
6683397 AAATAGGCTTAAAACAGTGTTTCACATGGTCTAAGCACTTCCACACGAGTGATCCACACGCCCGT
1 AAATAGACTTAAAACAGTGTTTCACATGGTCTAAGCACTTCCACACGAGTGATCCACACGCCCGT
*
6683462 GTGTCATACCCGTGTCGACATTAATCCAAGTCAGAATTGCACACGGCCTGAGCACCTTCACACGG
66 GTGTCATACCCATGTCGACATTAATCCAAGTCAGAATTGCACACGGCCTGAGCACCTTCACACGG
6683527 GCATGGCACACGGCCGTGTCCCTATCGAGCCCAAGTCTAGTTCTACTC-GAAAAAGGCTAATTTT
131 GCATGGCACACGGCCGTGTCCCTATCGAGCCCAAGTCTAGTTCTACTCAG-AAAAGGCTAATTTT
* *
6683591 GGGCTATTTTGGGCATTCAAAAGTCTATATAAATACCCAAGAAGAGGATTATGGGGACACACAGA
195 GGGCTATTTTGGGCATTCAAAAGTCTATATAAACACCCAAGAAGAGGATTAGGGGGACACACAGA
*
6683656 TTTGGAGGCAGAAAGTACTCAAGAACAGCCATCGGAATCACCTCGGAGCCAGGATCTACATCAAG
260 GTTGGAGGCAGAAAGTACTCAAGAACAGCCATCGGAATCACCTCGGAGCCAGGATCTACATCAAG
*
6683721 ACTGAATATTTCCATCCAATTTGCTAGAAGTTCTTTGGGTTTCTTTATGTTTTGTCGTTTTCTAA
325 ACTGAATATTTCCATCCAATTTGCTAGAAGTTCTTTGGGTTTCTTTATGTTTTGTCGTTTTCCAA
*
6683786 ACTTTGAGATGTTTTCCATTATTATTATGAACTAAATTCCCAAAATACCTAAGGGAGATGAACCC
390 ACTTTGAGATGTTTTCCATTATTATTATGAACTAAACTCCCAAAATACCTAAGGGAGATGAACCC
*
6683851 TATGACAAATCTTATTACTATTTGAATTATATGATAAATACTTATTCTTATTCTTAATTGTGAGT
455 TATGACAAATCTTATTACTATTTGAATTATATGATAAAGACTTATTCTTATTCTTAATTGTGAGT
6683916 TCTAAATTCTTATTTTAATATTCAGGGGTATTAATTCAAGTTTTAATGTGCTTAATCAGTGGAGC
520 TCTAAATTCTTATTTTAATATTCAGGGGTATTAATTCAAGTTTTAATGTGCTTAATCAGTGGAGC
*
6683981 AAAAGTCCCTATTTAAGAGTAGATCATTCATAATTAAGCGGAGTTGAATGCAGTCCTAGAGATAG
585 AAAAGTCCCTATTTAAGAGTAGATCATTCATAATTAAGCGGAGTTGAATGCAATCCTAGAGATAG
6684046 GACGACATAAATTTGCCGGATTAGAGTCAAATCTAATAAGGGAATCCATAAACCGAGTTAATGCG
650 GACGACATAAATTTGCCGGATTAGAGTCAAATCTAATAAGGGAATCCATAAACCGAGTTAATGCG
6684111 ACAATAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAAAGTCAGTTGTTCTTAATCT
715 ACAATAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAAAGTCAGTTGTTCTTAATCT
* *
6684176 CGATAGAGATATTAGCATAAACTAGGGATTTCTACGGATTAAGTTAAGTGAAT
780 CGATAGAGATATTAACATAAACTAGGGATTTCTACGAATTAAGTTAAGTGAAT
6684229 AAAT
1 AAAT
6684233 TGTCTAATTC
Statistics
Matches: 814, Mismatches: 21, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
831 1 0.00
832 813 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (832 bp):
AAATAGACTTAAAACAGTGTTTCACATGGTCTAAGCACTTCCACACGAGTGATCCACACGCCCGT
GTGTCATACCCATGTCGACATTAATCCAAGTCAGAATTGCACACGGCCTGAGCACCTTCACACGG
GCATGGCACACGGCCGTGTCCCTATCGAGCCCAAGTCTAGTTCTACTCAGAAAAGGCTAATTTTG
GGCTATTTTGGGCATTCAAAAGTCTATATAAACACCCAAGAAGAGGATTAGGGGGACACACAGAG
TTGGAGGCAGAAAGTACTCAAGAACAGCCATCGGAATCACCTCGGAGCCAGGATCTACATCAAGA
CTGAATATTTCCATCCAATTTGCTAGAAGTTCTTTGGGTTTCTTTATGTTTTGTCGTTTTCCAAA
CTTTGAGATGTTTTCCATTATTATTATGAACTAAACTCCCAAAATACCTAAGGGAGATGAACCCT
ATGACAAATCTTATTACTATTTGAATTATATGATAAAGACTTATTCTTATTCTTAATTGTGAGTT
CTAAATTCTTATTTTAATATTCAGGGGTATTAATTCAAGTTTTAATGTGCTTAATCAGTGGAGCA
AAAGTCCCTATTTAAGAGTAGATCATTCATAATTAAGCGGAGTTGAATGCAATCCTAGAGATAGG
ACGACATAAATTTGCCGGATTAGAGTCAAATCTAATAAGGGAATCCATAAACCGAGTTAATGCGA
CAATAGGGGTTTTAATTAGAAAGAGATTTCAATTAATCAACCTAAAGTCAGTTGTTCTTAATCTC
GATAGAGATATTAACATAAACTAGGGATTTCTACGAATTAAGTTAAGTGAAT
Found at i:6684620 original size:16 final size:16
Alignment explanation
Indices: 6684599--6684629 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6684589 TAGCCATTAT
*
6684599 TTTTATTTTTATTTAA
1 TTTTATTTTGATTTAA
6684615 TTTTATTTTGATTTA
1 TTTTATTTTGATTTA
6684630 CTAAATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTATTTTGATTTAA
Found at i:6684649 original size:19 final size:20
Alignment explanation
Indices: 6684613--6684650 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6684603 ATTTTTATTT
6684613 AATTTTATTTTGATTTACTA
1 AATTTTATTTTGATTTACTA
*
6684633 AATTTTCTTTT-ATTTACT
1 AATTTTATTTTGATTTACT
6684651 TCTAGCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
AATTTTATTTTGATTTACTA
Found at i:6688556 original size:30 final size:30
Alignment explanation
Indices: 6688520--6688648 Score: 231
Period size: 30 Copynumber: 4.3 Consensus size: 30
6688510 CTAGCCTTTG
6688520 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
6688550 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
6688580 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
6688610 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
6688640 CCACCACCA
1 CCACCACCA
6688649 CTTGTACCTA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 96 1.00
ACGTcount: A:0.26, C:0.50, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:6689230 original size:25 final size:25
Alignment explanation
Indices: 6689125--6689332 Score: 87
Period size: 23 Copynumber: 8.6 Consensus size: 25
6689115 CTTTTTTTGT
* *
6689125 TATTAT-TATAT-TTTTTAATATTA
1 TATTATGTATATATATTTAATACTA
** *
6689148 TATTA--TATATATATTCTTTTAATA
1 TATTATGTATATATATT-TAATACTA
* * * *
6689172 TATTAGGTATAT-T-CTAAATTCTA
1 TATTATGTATATATATTTAATACTA
*
6689195 TATTACGTATATATA-TT-ATACTA
1 TATTATGTATATATATTTAATACTA
* *
6689218 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATATTTAATACTA
* * * **
6689243 TATTATTTATATTTTTTTTCTACATGTTA
1 TATTATGTATA--TATATT-TA-ATACTA
*
6689272 TCTTATGTATATAT-TTTAAT--TA
1 TATTATGTATATATATTTAATACTA
* * * *
6689294 TATTATGTATGTATTTTTTACACTA
1 TATTATGTATATATATTTAATACTA
*
6689319 TATTATGTACATAT
1 TATTATGTATATAT
6689333 TTTTTTATAT
Statistics
Matches: 139, Mismatches: 31, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
22 19 0.14
23 43 0.31
24 17 0.12
25 32 0.23
26 7 0.05
27 6 0.04
28 2 0.01
29 13 0.09
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (25 bp):
TATTATGTATATATATTTAATACTA
Found at i:6689252 original size:29 final size:28
Alignment explanation
Indices: 6689219--6689324 Score: 77
Period size: 25 Copynumber: 4.0 Consensus size: 28
6689209 ATTATACTAT
6689219 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** *
6689248 TTTA--TAT-TTTTTTTCTAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
6689272 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
6689299 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
6689324 T
1 T
6689325 GTACATATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 18
0.68 0.11 0.20
Matches are distributed among these distances:
23 1 0.02
24 10 0.17
25 18 0.30
26 9 0.15
27 12 0.20
28 6 0.10
29 4 0.07
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:6689294 original size:22 final size:22
Alignment explanation
Indices: 6689269--6689335 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 22
6689259 TTTCTACATG
*
6689269 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
6689291 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
6689316 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
6689336 TTTATATCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:6689426 original size:25 final size:24
Alignment explanation
Indices: 6689398--6689453 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
6689388 GTTATATTTT
*
6689398 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
6689423 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
6689446 CACTATTA
1 CACTATTA
6689454 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:6711656 original size:96 final size:96
Alignment explanation
Indices: 6711489--6711869 Score: 426
Period size: 96 Copynumber: 4.0 Consensus size: 96
6711479 TCTTTTGGTA
* * *
6711489 TTTTCAATTTCTGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCT
1 TTTTCAATTT-TG--TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * *
6711554 GAGCCTCGGGGCACGCCGAGGTATTTTTAATTTCT
62 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
6711589 ATTTTCAATTTTGTTTTAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 -TTTTCAATTTTGTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
6711653 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGT
65 CCTCAGGACACGCTGAGGTATTTTCAATTTC--T
** * *
6711687 TTTTCAATTTTTGCCTTACAAATTCTGCTTTTC---AATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAA-TTTTG--TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
6711749 AGCCTCAGGACACGCTGAGGTATTTTC-A----T
63 AGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* ** *
6711778 TTTTC-A-TTT-TTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
1 TTTTCAATTTTGTTTTAATTTCTGTTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
6711840 CCTCAGGACACGCTGAGGTAATTTCAATTT
65 CCTCAGGACACGCTGAGGTATTTTCAATTT
6711870 TTGTTTGTCA
Statistics
Matches: 246, Mismatches: 20, Indels: 36
0.81 0.07 0.12
Matches are distributed among these distances:
85 10 0.04
86 1 0.00
88 3 0.01
89 54 0.22
90 2 0.01
91 6 0.02
96 66 0.27
97 14 0.06
98 65 0.26
100 10 0.04
101 15 0.06
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (96 bp):
TTTTCAATTTTGTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGACACGCTGAGGTATTTTCAATTTCT
Found at i:6711854 original size:187 final size:191
Alignment explanation
Indices: 6711526--6711880 Score: 506
Period size: 187 Copynumber: 1.9 Consensus size: 191
6711516 GCTTTTCAAA
* *
6711526 AATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTTTTAATTTCTAT
1 AATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCCGAGGTATTTTTAA--T-TAT
* ** *
6711591 TTTCAATTTTGTTTTAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63 TTTCAATTTTGTTTTAATTTATTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
* * *
6711656 CAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCCTTACAAATTCTGCTTTTC
128 CAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAATTTTTGCCTTACAAATTCTGCTTTTC
* * *
6711720 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTCA-T-TTTT
1 AATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCCGAGGTATTTTTAATTATTTT
6711782 C-A-TTT-TTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
66 CAATTTTGTTTTAATTTAT-TTT-TAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
*
6711844 AGGACACGCTGAGGTAATTTCAATTTTTGTTTGTCAA
129 AGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAA
6711881 AACTCAACTC
Statistics
Matches: 146, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
185 10 0.07
186 6 0.04
187 72 0.49
188 5 0.03
189 1 0.01
193 5 0.03
194 47 0.32
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (191 bp):
AATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCCGAGGTATTTTTAATTATTTT
CAATTTTGTTTTAATTTATTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
GACACGCTGAGGTAATTTCAATTTCTGTTTGTCAATTTTTGCCTTACAAATTCTGCTTTTC
Found at i:6711990 original size:75 final size:75
Alignment explanation
Indices: 6711786--6712394 Score: 821
Period size: 75 Copynumber: 8.3 Consensus size: 75
6711776 ATTTTTCATT
* * * * *
6711786 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
6711850 CGCTGAGGTA
66 CGCTGAGGTA
* * * * *
6711860 ATTTCAATTTTTGTTTGTC--AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
6711923 CGTTGAGGTA
66 CGCTGAGGTA
* * *
6711933 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
6711998 CGCTGAGGTA
66 CGCTGAGGTA
* *
6712008 ATTTCAATTT-TGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
6712070 CGTTGAGGTA
66 CGCTGAGGTA
* * * *
6712080 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
6712145 CGTTGAGGTA
66 CGCTGAGGTA
* *
6712155 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
6712218 CGCTGAGGTA
66 CGCTGAGGTA
* *
6712228 ATTTCAATTT-TGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
6712290 CGTTGAGGTA
66 CGCTGAGGTA
* * *
6712300 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
*
6712363 ACGCTGAGGTG
65 ACGCTGAGGTA
* *
6712374 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
6712395 TTTCTGTGTT
Statistics
Matches: 473, Mismatches: 50, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
70 39 0.08
72 86 0.18
73 96 0.20
74 45 0.10
75 168 0.36
76 39 0.08
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTA
Found at i:6712068 original size:147 final size:147
Alignment explanation
Indices: 6711786--6712394 Score: 811
Period size: 147 Copynumber: 4.1 Consensus size: 147
6711776 ATTTTTCATT
* * * * *
6711786 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
6711850 CGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
*
6711914 CTCAAGACACGTTGAGGTA
131 CTCAAG--ACGCTGAGGTA
* * *
6711933 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
6711998 CGCTGAGGTAATTTCAATTT-TGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
*
6712061 CTCAAGACACGTTGAGGTA
131 CTCAAG--ACGCTGAGGTA
* * * *
6712080 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
6712145 CGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAA
66 CGCTGAGGTAATTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAA
6712210 CCTCAAGACGCTGAGGTA
130 CCTCAAGACGCTGAGGTA
* *
6712228 ATTTCAATTT-TGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * *
6712290 CGTTGAGGTATTTTCAATTTCTGTCTT-TCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTG
66 CGCTGAGGTAATTTCAATTTCTGT-TTGTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
6712354 AACCTCAAGACGCTGAGGTG
128 AACCTCAAGACGCTGAGGTA
* *
6712374 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
6712395 TTTCTGTGTT
Statistics
Matches: 419, Mismatches: 34, Indels: 16
0.89 0.07 0.03
Matches are distributed among these distances:
145 68 0.16
146 61 0.15
147 161 0.38
148 90 0.21
150 39 0.09
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (147 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
CTCAAGACGCTGAGGTA
Found at i:6712227 original size:220 final size:221
Alignment explanation
Indices: 6711806--6712394 Score: 956
Period size: 220 Copynumber: 2.7 Consensus size: 221
6711796 ATGTTTCTAA
* * * * *
6711806 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* * * * *
6711871 TGT-TTGT--CAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TGTCTT-TAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTA
* *
6711933 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
130 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA-GACA
6711998 CGCTGAGGTAATTTCAATTTTGTTTGTC
194 CGCTGAGGTAATTTCAATTTTGTTTGTC
6712026 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
6712091 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
66 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
*
6712156 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA-AGACG
131 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAGACACG
6712220 CTGAGGTAATTTCAATTTTGTTTGTC
196 CTGAGGTAATTTCAATTTTGTTTGTC
6712246 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* *
6712311 TGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTG
66 TGTCTTT-AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTA
* *
6712374 TTTTCCATTTCTGTTCTTCAA
130 TTTTCAATTTCTGTTTTTCAA
6712395 TTTCTGTGTT
Statistics
Matches: 348, Mismatches: 17, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
219 28 0.08
220 166 0.48
221 46 0.13
222 108 0.31
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (221 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAGACACG
CTGAGGTAATTTCAATTTTGTTTGTC
Found at i:6712495 original size:13 final size:14
Alignment explanation
Indices: 6712465--6712497 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6712455 CGCTGAGGTA
6712465 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
6712479 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
6712493 TTTTC
1 TTTTC
6712498 TAAAAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:6712579 original size:90 final size:88
Alignment explanation
Indices: 6712300--6712653 Score: 363
Period size: 90 Copynumber: 3.9 Consensus size: 88
6712290 CGTTGAGGTA
* * *
6712300 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA-AGA
1 TTTTCAATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGACA
* *
6712364 CGCTGAGGTGTTTTC-CATTTCTGT
65 CGCTGAGGTATTTTCAAATTT-TGT
* * * * * * **
6712388 TCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCATTGACTCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC-CT--CAGA
*
6712453 CACGCTGAGGTATTTTCAAATTCTGT
63 CACGCTGAGGTATTTTCAAATTTTGT
* * *
6712479 TTTTCAAATTT-TGTTTTTCTAAAAAAATCAACTCATATTACGAGAGGTGAGTTCAGCCTCAGGA
1 TTTTC-AATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA-GA
* * *
6712543 CACGCTAAGATATTTTCAAATTATTTT
63 CACGCTGAGGTATTTTCAAATT-TTGT
* * *
6712570 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTCCGAGAGGTGAGTTGAACCTCAGATCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAG---A
*
6712635 CACGCCGAGGTATTTTCAA
63 CACGCTGAGGTATTTTCAA
6712654 TTGATTTTTA
Statistics
Matches: 223, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
87 35 0.16
88 18 0.08
89 2 0.01
90 65 0.29
91 45 0.20
92 58 0.26
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (88 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGACAC
GCTGAGGTATTTTCAAATTTTGT
Found at i:6712623 original size:182 final size:179
Alignment explanation
Indices: 6712300--6712653 Score: 428
Period size: 182 Copynumber: 2.0 Consensus size: 179
6712290 CGTTGAGGTA
* * * *
6712300 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTCAACCTCAACAC
* * * * * * *
6712365 GCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGA
66 GCTAAGATATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTCCGA
* * * *
6712430 GTGGTGAGTTGAGCAT-TGACTCACACGCTGAGGTATTTTCAAATTCTGT
131 GAGGTGAGTTGAACATCAGA-TCACACGCCGAGGTATTTTCAAATTCTGT
* * *
6712479 TTTTCAAATTT-TGTTTTTCTAAAAAAATCAACTCATATTACGAGAGGTGAGTTCAGCCTCAGGA
1 TTTTC-AATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTCAACCTCA--A
* *
6712543 CACGCTAAGATATTTTCAAATTAT-TTTTTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATA
63 CACGCTAAGATATTTTC-AATT-TCTGTTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATA
*
6712606 TTCCGAGAGGTGAGTTGAACCTCAGATCACACGCCGAGGTATTTTCAA
125 TTCCGAGAGGTGAGTTGAACATCAGATCACACGCCGAGGTATTTTCAA
6712654 TTGATTTTTA
Statistics
Matches: 147, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
179 49 0.33
180 5 0.03
181 16 0.11
182 74 0.50
183 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (179 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTCAACCTCAACAC
GCTAAGATATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTCCGA
GAGGTGAGTTGAACATCAGATCACACGCCGAGGTATTTTCAAATTCTGT
Found at i:6712739 original size:103 final size:104
Alignment explanation
Indices: 6712566--6712756 Score: 278
Period size: 103 Copynumber: 1.8 Consensus size: 104
6712556 TTTCAAATTA
* *
6712566 TTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTCCGAGAGGTGAGTTGAACCTCAG
1 TTTTTTTTCAATTTATGTTTGTC-AAAAAATCAACTCATATTACAAGAGGTGAGTTGAACCTCAG
*
6712631 ATCACACGCCGAGGTATTTTCAATTGATTTTTATTTTTAT
65 ATCACACACCGAGGTATTTTCAATTGATTTTTATTTTTAT
* *
6712671 TTTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCGG
1 TTTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAACCTCAG
* * *
6712734 GTCACATACTGAGGTATTTTCAA
65 ATCACACACCGAGGTATTTTCAA
6712757 AATCTGTTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
103 55 0.71
105 18 0.23
106 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (104 bp):
TTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAACCTCAGA
TCACACACCGAGGTATTTTCAATTGATTTTTATTTTTAT
Found at i:6712840 original size:87 final size:87
Alignment explanation
Indices: 6712694--6712899 Score: 236
Period size: 87 Copynumber: 2.4 Consensus size: 87
6712684 TATGCTTTGC
* * * * *
6712694 AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCGGGTCACATACTGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACTGAGCTATTTTCAAAA
6712759 TCTGTTTTACAAAT-TTT-GTTTT
66 TCTGTTTT--AAATGTTTAGTTTT
* * * * **
6712781 AAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACTGAGCTATTTTCAAAA
*
6712846 TCTGTTTTTAATGTTTAGTTTT
66 TCTGTTTTAAATGTTTAGTTTT
* * *
6712868 AAAGAGTCAATTCATATTGCGAGAAATGAGTT
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTT
6712900 AAGCTCAGCA
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
85 3 0.03
86 3 0.03
87 70 0.70
88 24 0.24
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACTGAGCTATTTTCAAAA
TCTGTTTTAAATGTTTAGTTTT
Found at i:6713567 original size:18 final size:18
Alignment explanation
Indices: 6713544--6713597 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
6713534 CCACCACCAA
6713544 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
6713562 CT-C-C-A-CCAC-C-TA
1 CTCCACTAGCCACACTTG
6713574 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
6713592 CTCCAC
1 CTCCAC
6713598 CACCTACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 2 0.07
14 5 0.18
15 2 0.07
16 5 0.18
17 2 0.07
18 9 0.32
ACGTcount: A:0.22, C:0.50, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:6713570 original size:30 final size:30
Alignment explanation
Indices: 6713534--6713632 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
6713524 CTAGCCATTG
6713534 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
6713564 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
6713594 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
6713624 CCACCACCA
1 CCACCACCA
6713633 CTTGTACCTA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.25, C:0.51, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:6714213 original size:25 final size:25
Alignment explanation
Indices: 6714108--6714316 Score: 89
Period size: 23 Copynumber: 8.6 Consensus size: 25
6714098 CTTTTTTTGT
* *
6714108 TATTAT-TATAT-TTTTTAATATTA
1 TATTATGTATATATATTTAATACTA
** *
6714131 TATTA--TATATATATTCTTTTAATA
1 TATTATGTATATATATT-TAATACTA
* * * *
6714155 TATTAGGTATAT-T-CTAAATTCTA
1 TATTATGTATATATATTTAATACTA
*
6714178 TATTACGTATATATA-TT-ATACTA
1 TATTATGTATATATATTTAATACTA
* *
6714201 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATATTTAATACTA
* * **
6714226 TATTATTTATATATTTTTTTCTACATTGTA
1 TATTATGTATATA---TATT-TA-ATACTA
*
6714256 TCTTATGTATATAT-TTTAAT--TA
1 TATTATGTATATATATTTAATACTA
* * * *
6714278 TATTATGTATGTATTTTTTACACTA
1 TATTATGTATATATATTTAATACTA
*
6714303 TATTATGTACATAT
1 TATTATGTATATAT
6714317 TTTTTTATAT
Statistics
Matches: 141, Mismatches: 29, Indels: 30
0.70 0.14 0.15
Matches are distributed among these distances:
22 19 0.13
23 43 0.30
24 17 0.12
25 34 0.24
26 7 0.05
27 1 0.01
28 3 0.02
29 2 0.01
30 15 0.11
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATTATGTATATATATTTAATACTA
Found at i:6714286 original size:22 final size:23
Alignment explanation
Indices: 6714258--6714319 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 23
6714248 ACATTGTATC
*
6714258 TTATGTATATATTTTA-ATTATA
1 TTATGTATATATTTTACACTATA
*
6714280 TTATGTATGTATTTTTTACACTATA
1 TTATGTA--TATATTTTACACTATA
*
6714305 TTATGTACATATTTT
1 TTATGTATATATTTT
6714320 TTTATATCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
22 7 0.21
23 6 0.18
24 8 0.24
25 12 0.36
ACGTcount: A:0.31, C:0.05, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATGTATATATTTTACACTATA
Found at i:6714303 original size:77 final size:78
Alignment explanation
Indices: 6714166--6714322 Score: 190
Period size: 77 Copynumber: 2.0 Consensus size: 78
6714156 ATTAGGTATA
* *
6714166 TTCTAAATTCTATATTACGTATATATATTATACTATTTTATGTATATATCTTTAATACTATATTA
1 TTCTAAATTCTATATTACGTATATATATTATACTATATTATGTATATATCTTTAACACTATATTA
* *
6714231 TTTATATATTTTT
66 TGTACATATTTTT
* * * * * * * * *
6714244 TTCTACATTGTATCTTATGTATATATTTTA-ATTATATTATGTATGTATTTTTTACACTATATTA
1 TTCTAAATTCTATATTACGTATATATATTATACTATATTATGTATATATCTTTAACACTATATTA
6714308 TGTACATATTTTT
66 TGTACATATTTTT
6714321 TT
1 TT
6714323 ATATCTATTT
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
77 41 0.62
78 25 0.38
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (78 bp):
TTCTAAATTCTATATTACGTATATATATTATACTATATTATGTATATATCTTTAACACTATATTA
TGTACATATTTTT
Found at i:6714410 original size:25 final size:24
Alignment explanation
Indices: 6714382--6714437 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
6714372 GTTATATTTT
*
6714382 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
6714407 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
6714430 CACTATTA
1 CACTATTA
6714438 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:6721399 original size:26 final size:26
Alignment explanation
Indices: 6721350--6721403 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
6721340 TTGTAGATTG
* * * *
6721350 AAATCTTCACAAATAATTGTATAATA
1 AAATCTTCAAAAAAAAATGCATAATA
6721376 AAATCTTCAAAAAAAAATGCATAATA
1 AAATCTTCAAAAAAAAATGCATAATA
6721402 AA
1 AA
6721404 CATCCTATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.28
Consensus pattern (26 bp):
AAATCTTCAAAAAAAAATGCATAATA
Found at i:6724798 original size:15 final size:15
Alignment explanation
Indices: 6724778--6724828 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 15
6724768 AGTATAAAAC
6724778 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
6724793 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
6724812 ATTTATTATTAA-AT
1 ATTTATTATTAATAT
6724826 ATT
1 ATT
6724829 AATATTGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:6724892 original size:16 final size:16
Alignment explanation
Indices: 6724861--6724897 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
6724851 ATGTGAATAA
6724861 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
6724877 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
6724893 TATTA
1 TATTA
6724898 AAATAAAATT
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:6724938 original size:20 final size:22
Alignment explanation
Indices: 6724909--6724950 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
6724899 AATAAAATTG
*
6724909 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
6724929 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
6724951 TATGAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:6728160 original size:20 final size:22
Alignment explanation
Indices: 6728115--6728164 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
6728105 AAAGTTTTAA
*
6728115 AATTTTTATGAATTTTGCTTAT
1 AATTTTTATGAATTTTGCTAAT
6728137 AATTTTTATG-ATTTT-CTAAT
1 AATTTTTATGAATTTTGCTAAT
6728157 AATTTTTA
1 AATTTTTA
6728165 AAATTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 12 0.44
21 5 0.19
22 10 0.37
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (22 bp):
AATTTTTATGAATTTTGCTAAT
Found at i:6728170 original size:20 final size:21
Alignment explanation
Indices: 6728115--6728170 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
6728105 AAAGTTTTAA
* *
6728115 AATTTTTATGAATTTTGCTTAT
1 AATTTTTA-AAATTTTGCTAAT
**
6728137 AATTTTTATGATTTT-CTAAT
1 AATTTTTAAAATTTTGCTAAT
6728157 AATTTTTAAAATTT
1 AATTTTTAAAATTT
6728171 AAAAGAGCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 5 0.17
22 8 0.28
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (21 bp):
AATTTTTAAAATTTTGCTAAT
Found at i:6729001 original size:15 final size:16
Alignment explanation
Indices: 6728974--6729004 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6728964 CCATTAAAAA
6728974 TATATTAAAAAATATT
1 TATATTAAAAAATATT
6728990 TATATT-AAAAATATT
1 TATATTAAAAAATATT
6729005 ACCATAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATTAAAAAATATT
Found at i:6729052 original size:32 final size:32
Alignment explanation
Indices: 6729008--6729077 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
6728998 AAATATTACC
6729008 ATAAATCTAATAAATATTTTATTATATTAAAA
1 ATAAATCTAATAAATATTTTATTATATTAAAA
*
6729040 ATAAATAC-AATAAATATTTTATTATATTAAAT
1 ATAAAT-CTAATAAATATTTTATTATATTAAAA
6729072 ATAAAT
1 ATAAAT
6729078 TTTAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 35 0.97
33 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (32 bp):
ATAAATCTAATAAATATTTTATTATATTAAAA
Found at i:6729265 original size:10 final size:10
Alignment explanation
Indices: 6729250--6729370 Score: 71
Period size: 10 Copynumber: 12.9 Consensus size: 10
6729240 TTAAGAGTAA
6729250 TTAAAAATTG
1 TTAAAAATTG
* *
6729260 TAAAAAATTA
1 TTAAAAATTG
*
6729270 TTTAAAATT-
1 TTAAAAATTG
**
6729279 TTAAAAA-AA
1 TTAAAAATTG
6729288 TT-AAAA-T-
1 TTAAAAATTG
*
6729295 ATAAAAATTG
1 TTAAAAATTG
*
6729305 TTAAAAGTTG
1 TTAAAAATTG
6729315 TTAAAAATTG
1 TTAAAAATTG
6729325 TTAAAAATAT-
1 TTAAAAAT-TG
* *
6729335 TT--AATTTT
1 TTAAAAATTG
**
6729343 TTAAAAATCA
1 TTAAAAATTG
6729353 TTAAAAATT-
1 TTAAAAATTG
6729362 TTAAAAATT
1 TTAAAAATT
6729371 ATGAAAATTA
Statistics
Matches: 87, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
7 2 0.02
8 13 0.15
9 18 0.21
10 53 0.61
11 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (10 bp):
TTAAAAATTG
Found at i:6729348 original size:18 final size:19
Alignment explanation
Indices: 6729296--6729369 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
6729286 AATTAAAATA
* **
6729296 TAAAAATTGTTAAAAGTTGT
1 TAAAAATT-TTAAAAATCAT
6729316 TAAAAATTGTTAAAAAT-AT
1 TAAAAATT-TTAAAAATCAT
* **
6729335 TTAATTTTTTAAAAATCAT
1 TAAAAATTTTAAAAATCAT
6729354 TAAAAATTTTAAAAAT
1 TAAAAATTTTAAAAAT
6729370 TATGAAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
18 8 0.18
19 21 0.47
20 16 0.36
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.42
Consensus pattern (19 bp):
TAAAAATTTTAAAAATCAT
Found at i:6729932 original size:39 final size:40
Alignment explanation
Indices: 6729866--6729941 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 40
6729856 AATACAATTT
**
6729866 AATATTTATTATATTTATTTTTATG-TTTTTAATATAAAA
1 AATATTTATTATATTTATTGATATGTTTTTTAATATAAAA
6729905 AATATTTATTATATTTA-TGATAGTGTTTTTTAATATA
1 AATATTTATTATATTTATTGATA-TGTTTTTTAATATA
6729942 TTTTTAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 3 0.09
39 19 0.58
40 11 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (40 bp):
AATATTTATTATATTTATTGATATGTTTTTTAATATAAAA
Found at i:6730399 original size:10 final size:10
Alignment explanation
Indices: 6730384--6730412 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
6730374 AAAAAATATA
6730384 ATTTTTTAAT
1 ATTTTTTAAT
6730394 ATTTTTTAAT
1 ATTTTTTAAT
6730404 ATTTTTTAA
1 ATTTTTTAA
6730413 ACTTTAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:6732025 original size:18 final size:19
Alignment explanation
Indices: 6732001--6732052 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
6731991 TTTTTCTAAT
*
6732001 TTTTTTTATTTGTTTTTCA
1 TTTTTTTATTTGTTTCTCA
**
6732020 TTTTTTTCCTT-TTTCTCA
1 TTTTTTTATTTGTTTCTCA
6732038 TTTTTTTATTTGTTT
1 TTTTTTTATTTGTTT
6732053 GTCCTTTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.79
Consensus pattern (19 bp):
TTTTTTTATTTGTTTCTCA
Found at i:6732067 original size:26 final size:25
Alignment explanation
Indices: 6732003--6732086 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 25
6731993 TTTCTAATTT
*
6732003 TTTTTATTTGTTTTTCATTT-TTTTCC
1 TTTTTCTTT-TTTTT-ATTTGTTTTCC
6732029 TTTTTCTCATTTTTTTATTTGTTTGTCC
1 TTTTTCT--TTTTTTTATTTGTTT-TCC
* *
6732057 TTTTTCTTTTTTTTATTCGTTTTCT
1 TTTTTCTTTTTTTTATTTGTTTTCC
6732082 TTTTT
1 TTTTT
6732087 TTAACTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
25 7 0.14
26 24 0.47
27 8 0.16
28 12 0.24
ACGTcount: A:0.06, C:0.12, G:0.05, T:0.77
Consensus pattern (25 bp):
TTTTTCTTTTTTTTATTTGTTTTCC
Found at i:6732070 original size:37 final size:38
Alignment explanation
Indices: 6731989--6732061 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
6731979 TATCCAACAC
*
6731989 CCTTTTTCTAATTTTTTTTATTTGTTTTTCATTTTTTT
1 CCTTTTTCTAATTTTTTTTATTTGTTTGTCATTTTTTT
* *
6732027 CCTTTTTCTCA-TTTTTTTATTTGTTTGTCCTTTTT
1 CCTTTTTCTAATTTTTTTTATTTGTTTGTCATTTTT
6732062 CTTTTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 22 0.69
38 10 0.31
ACGTcount: A:0.08, C:0.14, G:0.04, T:0.74
Consensus pattern (38 bp):
CCTTTTTCTAATTTTTTTTATTTGTTTGTCATTTTTTT
Found at i:6732106 original size:61 final size:63
Alignment explanation
Indices: 6732000--6732135 Score: 172
Period size: 62 Copynumber: 2.2 Consensus size: 63
6731990 CTTTTTCTAA
* * * *
6732000 TTTTTTTTATTTGTTTTTCATTTTTTTCCTTTTTCTCATTTTTTTATTTGTTTGTCCTTT-TT
1 TTTTTTTTATTCGTTTTTCATTTTTTTACTTTTTCTCAGTTTTTTATTTATTTGTCCTTTATT
*
6732062 CTTTTTTTTATTCG-TTTTCTTTTTTTTAAC-TTTT-TCAGTTTTTTATTTATTTGTCCTTTATT
1 -TTTTTTTTATTCGTTTTTCATTTTTTT-ACTTTTTCTCAGTTTTTTATTTATTTGTCCTTTATT
6732124 TGTTTTTTTATT
1 T-TTTTTTTATT
6732136 TATTTGTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
61 24 0.37
62 28 0.43
63 13 0.20
ACGTcount: A:0.09, C:0.10, G:0.05, T:0.76
Consensus pattern (63 bp):
TTTTTTTTATTCGTTTTTCATTTTTTTACTTTTTCTCAGTTTTTTATTTATTTGTCCTTTATT
Found at i:6732137 original size:27 final size:27
Alignment explanation
Indices: 6732100--6732156 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
6732090 ACTTTTTCAG
*
6732100 TTTTTTATTTATTTGTCCTTTATTTGT
1 TTTTTTATTTATTTGTCCTTTATTTAT
6732127 TTTTTTATTTATTTGTCCTTTATTTAT
1 TTTTTTATTTATTTGTCCTTTATTTAT
6732154 TTT
1 TTT
6732157 ATAATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (27 bp):
TTTTTTATTTATTTGTCCTTTATTTAT
Found at i:6732139 original size:16 final size:15
Alignment explanation
Indices: 6732103--6732155 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
6732093 TTTTCAGTTT
6732103 TTTATTTATTTGTCC
1 TTTATTTATTTGTCC
*
6732118 TTTATTTGTTT-T--
1 TTTATTTATTTGTCC
6732130 TTTATTTATTTGTCC
1 TTTATTTATTTGTCC
6732145 TTTATTTATTT
1 TTTATTTATTT
6732156 TATAATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 10 0.30
13 1 0.03
14 1 0.03
15 21 0.64
ACGTcount: A:0.13, C:0.08, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTATTTATTTGTCC
Found at i:6732179 original size:24 final size:23
Alignment explanation
Indices: 6732151--6732225 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
6732141 GTCCTTTATT
6732151 TATTTTATAATATTTTAAATATA
1 TATTTTATAATATTTTAAATATA
* *
6732174 TAATTTA-AATGTTTTATAATAT-
1 TATTTTATAATATTTTA-AATATA
* * *
6732196 TATTTTTTAAAAAATTTAAATATA
1 TATTTTAT-AATATTTTAAATATA
6732220 T-TTTTA
1 TATTTTA
6732226 AAATTATTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
22 13 0.32
23 20 0.50
24 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (23 bp):
TATTTTATAATATTTTAAATATA
Found at i:6732224 original size:22 final size:23
Alignment explanation
Indices: 6732186--6732228 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
6732176 ATTTAAATGT
6732186 TTTATAATATTATTTTTTAAAAAA
1 TTTATAATATTA-TTTTTAAAAAA
6732210 TTTA-AATA-TATTTTTAAAA
1 TTTATAATATTATTTTTAAAA
6732229 TTATTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 2 0.11
23 4 0.21
24 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTATAATATTATTTTTAAAAAA
Found at i:6732260 original size:36 final size:35
Alignment explanation
Indices: 6732175--6732260 Score: 88
Period size: 36 Copynumber: 2.5 Consensus size: 35
6732165 TTAAATATAT
*
6732175 AATTT-AAATG-TTTTATAATATTATTTTTTAAAA
1 AATTTAAAATGTTTTTAAAATATTATTTTTTAAAA
*
6732208 AATTTAAATATATTTTTAAAATTATTATTTTTT-AAA
1 AATTTAAA-ATGTTTTTAAAA-TATTATTTTTTAAAA
* *
6732244 GATATTCAAATGTTTTT
1 AAT-TTAAAATGTTTTT
6732261 TAATTATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
33 5 0.12
34 2 0.05
35 2 0.05
36 19 0.44
37 15 0.35
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (35 bp):
AATTTAAAATGTTTTTAAAATATTATTTTTTAAAA
Found at i:6732261 original size:37 final size:36
Alignment explanation
Indices: 6732185--6732263 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 36
6732175 AATTTAAATG
* *
6732185 TTTTATAATATTATTTTTTAAAAAATTTAAATATAT
1 TTTTAAAATATTATTTTTTAAAAAATTCAAATATAT
* *
6732221 TTTTAAAATTATTATTTTTTAAAGATATTCAAATGT-T
1 TTTTAAAA-TATTATTTTTTAAA-AAATTCAAATATAT
6732258 TTTTAA
1 TTTTAA
6732264 TTATATTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 7 0.19
37 21 0.57
38 9 0.24
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (36 bp):
TTTTAAAATATTATTTTTTAAAAAATTCAAATATAT
Found at i:6739823 original size:33 final size:29
Alignment explanation
Indices: 6739762--6739821 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
6739752 GTTAGAGAAA
6739762 ACATGTGCATAAATAAATTCCGTTTACTT
1 ACATGTGCATAAATAAATTCCGTTTACTT
*
6739791 ACATGTGCATAAATAAATTCCGTTTAGTT
1 ACATGTGCATAAATAAATTCCGTTTACTT
6739820 AC
1 AC
6739822 TTTGAAGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (29 bp):
ACATGTGCATAAATAAATTCCGTTTACTT
Found at i:6741170 original size:23 final size:25
Alignment explanation
Indices: 6741143--6741197 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
6741133 AATATTTACG
*
6741143 AAGTTAAGTG-AGTG-ATTAATTTA
1 AAGTTAAGTGAAGTGAATTAACTTA
6741166 AAGTTTAA-TGAAGTGAATTAACTTA
1 AAG-TTAAGTGAAGTGAATTAACTTA
6741191 AA-TTAAG
1 AAGTTAAG
6741198 GATAATTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 9 0.33
24 8 0.30
25 10 0.37
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (25 bp):
AAGTTAAGTGAAGTGAATTAACTTA
Found at i:6741678 original size:21 final size:17
Alignment explanation
Indices: 6741635--6741674 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 17
6741625 CAGGGGAAGG
6741635 AAGAAAGAAAAAGAGAA
1 AAGAAAGAAAAAGAGAA
6741652 AAGAAAGAAGAAAGAAGAA
1 AAGAAAGAA-AAAG-AGAA
6741671 AAGA
1 AAGA
6741675 GAAAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 4 0.19
19 8 0.38
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAAAGAGAA
Found at i:6742290 original size:3 final size:3
Alignment explanation
Indices: 6742282--6742317 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
6742272 GAATGGTAAG
6742282 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6742318 GGTATTGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6742737 original size:6 final size:6
Alignment explanation
Indices: 6742726--6742758 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
6742716 TGTGTACCGC
6742726 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TAC
6742759 CCTTACGGCG
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:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:6742764 original size:18 final size:18
Alignment explanation
Indices: 6742726--6742764 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
6742716 TGTGTACCGC
**
6742726 TACTGTTACTGTTACTGT
1 TACTGTTACTGTTACCCT
6742744 TACTGTTACTGTTACCCT
1 TACTGTTACTGTTACCCT
6742762 TAC
1 TAC
6742765 GGCGTATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (18 bp):
TACTGTTACTGTTACCCT
Found at i:6742924 original size:18 final size:18
Alignment explanation
Indices: 6742903--6742939 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6742893 TAAATAATTA
*
6742903 ACTGTTACAGAATAAATG
1 ACTGATACAGAATAAATG
*
6742921 ACTGATACTGAATAAATG
1 ACTGATACAGAATAAATG
6742939 A
1 A
6742940 ATATTACTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
ACTGATACAGAATAAATG
Found at i:6742947 original size:18 final size:19
Alignment explanation
Indices: 6742907--6742949 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
6742897 TAATTAACTG
* *
6742907 TTACAGAATAAATGACTGA
1 TTACTGAATAAATGAATGA
6742926 -TACTGAATAAATGAAT-A
1 TTACTGAATAAATGAATGA
6742943 TTACTGA
1 TTACTGA
6742950 TTAACCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (19 bp):
TTACTGAATAAATGAATGA
Found at i:6744415 original size:15 final size:15
Alignment explanation
Indices: 6744388--6744433 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
6744378 TTTTGCCCGG
6744388 GCTAAAAAGCCCAACA
1 GCTAAAAA-CCCAACA
*
6744404 TCTAAAAACCCAACA
1 GCTAAAAACCCAACA
**
6744419 GCCCAAAACCCAACA
1 GCTAAAAACCCAACA
6744434 ACCTCCAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.50, C:0.37, G:0.07, T:0.07
Consensus pattern (15 bp):
GCTAAAAACCCAACA
Found at i:6744454 original size:17 final size:17
Alignment explanation
Indices: 6744408--6744448 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
6744398 CCAACATCTA
*
6744408 AAAACCCAAC-AGC-CC
1 AAAACCCAACAACCTCC
6744423 AAAACCCAACAACCTCC
1 AAAACCCAACAACCTCC
*
6744440 AAAGCCCAA
1 AAAACCCAA
6744449 TCACCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 10 0.45
ACGTcount: A:0.49, C:0.44, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAACCCAACAACCTCC
Found at i:6744535 original size:13 final size:13
Alignment explanation
Indices: 6744517--6744609 Score: 85
Period size: 13 Copynumber: 7.8 Consensus size: 13
6744507 TCTTCACTCC
*
6744517 AACCACCCCACTG
1 AACCACCCCACTA
*
6744530 AACCACTCCACTA
1 AACCACCCCACTA
*
6744543 AACCA-CTC-C--
1 AACCACCCCACTA
6744552 AACCACCCCACTA
1 AACCACCCCACTA
6744565 AACCA-CCC-C--
1 AACCACCCCACTA
6744574 AACCACCCCACTA
1 AACCACCCCACTA
*
6744587 AACCACTCCACTA
1 AACCACCCCACTA
*
6744600 AACCATCCCA
1 AACCACCCCA
6744610 ACCACTCCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
9 10 0.16
10 5 0.08
11 4 0.06
12 4 0.06
13 41 0.64
ACGTcount: A:0.37, C:0.53, G:0.01, T:0.10
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:6744555 original size:22 final size:22
Alignment explanation
Indices: 6744530--6744596 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
6744520 CACCCCACTG
*
6744530 AACCACTCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
*
6744552 AACCACCCCACTAAACCACCCC
1 AACCACCCCACTAAACCACTCC
6744574 AACCACCCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
6744596 A
1 A
6744597 CTAAACCATC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.37, C:0.54, G:0.00, T:0.09
Consensus pattern (22 bp):
AACCACCCCACTAAACCACTCC
Found at i:6744591 original size:35 final size:36
Alignment explanation
Indices: 6744511--6744620 Score: 116
Period size: 35 Copynumber: 3.1 Consensus size: 36
6744501 CAAATATCTT
* * * * *
6744511 CACTCCAACCACCCCACTGAACCACTCC-ACTAAAC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
* *
6744546 CACTCCAACCACCCCACTAAACCACCCCAACCACCC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
* * *
6744582 CACT-AAACCACTCCACTAAACCATCCCAACCACTC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
6744617 CACT
1 CACT
6744621 TGCCTACAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
35 57 0.88
36 8 0.12
ACGTcount: A:0.35, C:0.54, G:0.01, T:0.11
Consensus pattern (36 bp):
CACTCAAACCACCCCACTAAACCACCCCAACCACAC
Found at i:6745023 original size:3 final size:3
Alignment explanation
Indices: 6744991--6745126 Score: 53
Period size: 3 Copynumber: 45.3 Consensus size: 3
6744981 GGAGAGAGTG
* * * *
6744991 TTA TTT TTA ATA TTG TTA TTA TTT TCTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * ** * * * * * *
6745037 CTA ATA CCA CTA TTA TCA TCA TTA TTA CTA TTA -TA TTA TAA TACA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * ** *
6745082 TT- TTCA TTA TTA TTA CTA TTG TGG TT- TTA CTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6745126 T
1 T
6745127 ATTTTCTTTT
Statistics
Matches: 99, Mismatches: 28, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
2 6 0.06
3 87 0.88
4 6 0.06
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:6745028 original size:19 final size:18
Alignment explanation
Indices: 6744991--6745032 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
6744981 GGAGAGAGTG
*
6744991 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
6745009 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
6745028 TTATT
1 TTATT
6745033 ATTACTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:6745094 original size:33 final size:39
Alignment explanation
Indices: 6745017--6745101 Score: 110
Period size: 33 Copynumber: 2.3 Consensus size: 39
6745007 TATTATTTTC
*
6745017 TATTATTATTATTATTATTACTAATACCACTATTATCAT
1 TATTATTACTATTATTATTACTAATACCACTATTATCAT
*
6745056 CATTATTACTATTA-TATTA-TAATA-CA-T-TT-TCAT
1 TATTATTACTATTATTATTACTAATACCACTATTATCAT
6745089 TATTATTACTATT
1 TATTATTACTATT
6745102 GTGGTTTTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
33 16 0.37
34 2 0.05
35 1 0.02
36 2 0.05
37 5 0.12
38 5 0.12
39 12 0.28
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (39 bp):
TATTATTACTATTATTATTACTAATACCACTATTATCAT
Found at i:6757169 original size:206 final size:206
Alignment explanation
Indices: 6756811--6757476 Score: 1129
Period size: 206 Copynumber: 3.2 Consensus size: 206
6756801 GATCTGGCCA
* **
6756811 AAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAAACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAGGACATAGCTGAT
6756875 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
6756940 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
*
6757005 TATTTATACTG
196 TGTTTATACTG
* * *
6757016 AAGTAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAATGAGCAAATCGAGGACATAGCTGAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAGGACATAGCTGAT
* *
6757081 TTGGCTTTCGCATGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTTAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
6757146 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAAATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
6757211 TGTTTATACTG
196 TGTTTATACTG
* *
6757222 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGTAAATCGAAGG-CATAGTTGA
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCG-AGGACATAGCTGA
* *
6757286 TTTGGCTTTCGTGTGCTTATGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
65 TTTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
* * *
6757351 AACAAGCCAAAGTCAGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAG
130 AACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAG
* *
6757416 ATGTTTACACCG
195 ATGTTTATACTG
*
6757428 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAT
1 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAAT
6757477 TGAAGAAGCA
Statistics
Matches: 432, Mismatches: 27, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
205 3 0.01
206 426 0.99
207 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (206 bp):
AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAGGACATAGCTGAT
TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
TGTTTATACTG
Found at i:6757834 original size:15 final size:15
Alignment explanation
Indices: 6757807--6757852 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
6757797 TTTTGCCCGG
6757807 GCCAAAAAGCCCAACA
1 GCCAAAAA-CCCAACA
* *
6757823 TCTAAAAACCCAACA
1 GCCAAAAACCCAACA
*
6757838 GCCCAAAACCCAACA
1 GCCAAAAACCCAACA
6757853 ACCTCCAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.50, C:0.39, G:0.07, T:0.04
Consensus pattern (15 bp):
GCCAAAAACCCAACA
Found at i:6757954 original size:13 final size:13
Alignment explanation
Indices: 6757936--6758028 Score: 94
Period size: 13 Copynumber: 7.8 Consensus size: 13
6757926 TCTTCACTCC
6757936 AACCACCCCACTA
1 AACCACCCCACTA
*
6757949 AACCACTCCACTA
1 AACCACCCCACTA
*
6757962 AACCA-CTC-C--
1 AACCACCCCACTA
6757971 AACCACCCCACTA
1 AACCACCCCACTA
6757984 AACCA-CCC-C--
1 AACCACCCCACTA
6757993 AACCACCCCACTA
1 AACCACCCCACTA
*
6758006 AACCACTCCACTA
1 AACCACCCCACTA
*
6758019 AACCATCCCA
1 AACCACCCCA
6758029 ACCACTCCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
9 10 0.15
10 5 0.08
11 4 0.06
12 4 0.06
13 42 0.65
ACGTcount: A:0.38, C:0.53, G:0.00, T:0.10
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:6757974 original size:22 final size:22
Alignment explanation
Indices: 6757949--6758015 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
6757939 CACCCCACTA
*
6757949 AACCACTCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
*
6757971 AACCACCCCACTAAACCACCCC
1 AACCACCCCACTAAACCACTCC
6757993 AACCACCCCACTAAACCACTCC
1 AACCACCCCACTAAACCACTCC
6758015 A
1 A
6758016 CTAAACCATC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.37, C:0.54, G:0.00, T:0.09
Consensus pattern (22 bp):
AACCACCCCACTAAACCACTCC
Found at i:6758010 original size:35 final size:36
Alignment explanation
Indices: 6757930--6758039 Score: 125
Period size: 35 Copynumber: 3.1 Consensus size: 36
6757920 CAAATATCTT
* * * *
6757930 CACTCCAACCACCCCACTAAACCACTCC-ACTAAAC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
* *
6757965 CACTCCAACCACCCCACTAAACCACCCCAACCACCC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
* * *
6758001 CACT-AAACCACTCCACTAAACCATCCCAACCACTC
1 CACTCAAACCACCCCACTAAACCACCCCAACCACAC
6758036 CACT
1 CACT
6758040 TGCCTACAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
35 58 0.88
36 8 0.12
ACGTcount: A:0.35, C:0.54, G:0.00, T:0.11
Consensus pattern (36 bp):
CACTCAAACCACCCCACTAAACCACCCCAACCACAC
Found at i:6758503 original size:33 final size:39
Alignment explanation
Indices: 6758424--6758510 Score: 105
Period size: 33 Copynumber: 2.4 Consensus size: 39
6758414 TTTAATATTG
*
6758424 TTATTATTTTCTATTATTATTACTAATACCACTATTATCA
1 TTATTA-TTACTATTATTATTACTAATACCACTATTATCA
*
6758464 TCATTATTACTATTA-TATTA-TAATA-CA-T-TT-TCA
1 TTATTATTACTATTATTATTACTAATACCACTATTATCA
6758497 TTATTATTACTATT
1 TTATTATTACTATT
6758511 GTGGTTTTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 16 0.36
34 2 0.05
35 1 0.02
36 2 0.05
37 5 0.11
38 5 0.11
39 8 0.18
40 5 0.11
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (39 bp):
TTATTATTACTATTATTATTACTAATACCACTATTATCA
Found at i:6765750 original size:31 final size:31
Alignment explanation
Indices: 6765712--6765860 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
6765702 ACAAATGACA
*
6765712 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
6765743 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
6765774 AGTGAAAAGTGGTAGCTCCGGTTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
6765805 AGTGAAAAATGGTAGCTCCGGTTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
6765836 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
6765861 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:6766007 original size:42 final size:42
Alignment explanation
Indices: 6765960--6766133 Score: 156
Period size: 42 Copynumber: 4.0 Consensus size: 42
6765950 GCATCAGTGA
*
6765960 GATATGTTGATACGTGTATGACCATAGCTGGGCTATGGCATC
1 GATATGTTGATACGTGTAAGACCATAGCTGGGCTATGGCATC
6766002 GATATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATA--TG---T-TGA-TACGTGTAAGACCATAGCTGGGCTATGGCATC
* * *
6766051 GATAT-ATGAATATGTGTAAGATCATAGCTGGGCTATGGCATC
1 GATATGTTG-ATACGTGTAAGACCATAGCTGGGCTATGGCATC
* * * **
6766093 -ATTATG-TGAAGATGTGTAAGACCATAGTTGAACTATGGCAT
1 GA-TATGTTG-ATACGTGTAAGACCATAGCTGGGCTATGGCAT
6766134 TGAGAAAATG
Statistics
Matches: 113, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 1 0.01
42 69 0.61
43 1 0.01
44 2 0.02
47 2 0.02
48 3 0.03
49 35 0.31
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (42 bp):
GATATGTTGATACGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:6766023 original size:49 final size:48
Alignment explanation
Indices: 6765882--6766101 Score: 201
Period size: 47 Copynumber: 4.7 Consensus size: 48
6765872 GATTTCCGTA
** * * * * *
6765882 TAAGACCATATTTGGGATATGGCATCG--GTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATAC-GTG
* * * *
6765929 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTTGATACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATACGTG
*
6765976 TATGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGA-TACGTG
*
6766025 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-AT--GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACGTG
*
6766067 TAAGATCATAGCTGGGCTATGGCATC-ATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
6766102 AGATGTGTAA
Statistics
Matches: 153, Mismatches: 14, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
41 1 0.01
42 34 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 58 0.38
48 10 0.07
49 47 0.31
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATACGTG
Found at i:6767596 original size:13 final size:13
Alignment explanation
Indices: 6767573--6767612 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
6767563 GAAAAATATT
6767573 TCAAA-AATTTTC
1 TCAAATAATTTTC
* *
6767585 TGAAATAATTTTT
1 TCAAATAATTTTC
6767598 TCAAATAATTTTC
1 TCAAATAATTTTC
6767611 TC
1 TC
6767613 TCTACAACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (13 bp):
TCAAATAATTTTC
Found at i:6768098 original size:19 final size:20
Alignment explanation
Indices: 6768074--6768114 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6768064 TGACTAGTTA
*
6768074 TTGGG-TCTCGATCTCAATT
1 TTGGGTTCTCGATCCCAATT
6768093 TTGGGTTCTCGATCCCAATT
1 TTGGGTTCTCGATCCCAATT
6768113 TT
1 TT
6768115 TTATCTCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.44
Consensus pattern (20 bp):
TTGGGTTCTCGATCCCAATT
Found at i:6773704 original size:18 final size:18
Alignment explanation
Indices: 6773679--6773720 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6773669 ATTTTTATAA
* *
6773679 AAATAAAATATAATTTTT
1 AAATAAAATAAAACTTTT
*
6773697 ACATAAAATAAAACTTTT
1 AAATAAAATAAAACTTTT
6773715 AAATAA
1 AAATAA
6773721 TTTTGATTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATAAAATAAAACTTTT
Found at i:6774133 original size:14 final size:14
Alignment explanation
Indices: 6774114--6774145 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6774104 TACACTCAAA
*
6774114 TTTTAAATTTTAAT
1 TTTTAAACTTTAAT
6774128 TTTTAAACTTTAAT
1 TTTTAAACTTTAAT
6774142 TTTT
1 TTTT
6774146 TTAGCATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTAAACTTTAAT
Found at i:6774725 original size:17 final size:17
Alignment explanation
Indices: 6774703--6774735 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6774693 TTATAATGTT
6774703 ATTAAT-TAGTCTAAATG
1 ATTAATATAGT-TAAATG
6774720 ATTAATATAGTTAAAT
1 ATTAATATAGTTAAAT
6774736 TTTCAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (17 bp):
ATTAATATAGTTAAATG
Found at i:6775972 original size:5 final size:5
Alignment explanation
Indices: 6775962--6775990 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
6775952 ACTGAAACCA
6775962 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
6775991 TGGTTAAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:6778522 original size:30 final size:31
Alignment explanation
Indices: 6778459--6778521 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
6778449 TAAATATATG
* ***
6778459 AATCTAATGGTTATAAGATTTTTTTAAAAAA
1 AATCTAATGGTTAGAAGATTTAAATAAAAAA
6778490 AATCTAATGGTTAGAAGATTTAAATAAAAAA
1 AATCTAATGGTTAGAAGATTTAAATAAAAAA
6778521 A
1 A
6778522 TTGACCCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (31 bp):
AATCTAATGGTTAGAAGATTTAAATAAAAAA
Found at i:6790982 original size:19 final size:21
Alignment explanation
Indices: 6790938--6790983 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
6790928 CAATTGTCGA
*
6790938 TTCAATCAAATTTTTAGTTAG
1 TTCAATCAAATTTGTAGTTAG
*
6790959 TTCAATC-AATTTGTA-TTGG
1 TTCAATCAAATTTGTAGTTAG
6790978 TTCAAT
1 TTCAAT
6790984 TAGTCTAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
20 7 0.30
21 7 0.30
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (21 bp):
TTCAATCAAATTTGTAGTTAG
Found at i:6794817 original size:14 final size:15
Alignment explanation
Indices: 6794787--6794822 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
6794777 GTTTATATAC
6794787 TGAAATTAAATTATG
1 TGAAATTAAATTATG
*
6794802 TGAAATTATA-TATG
1 TGAAATTAAATTATG
6794816 TGAAATT
1 TGAAATT
6794823 CGAATGTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (15 bp):
TGAAATTAAATTATG
Found at i:6795019 original size:43 final size:41
Alignment explanation
Indices: 6794955--6795069 Score: 115
Period size: 43 Copynumber: 2.8 Consensus size: 41
6794945 ATATGTGTTC
**
6794955 TCGTGTAAGACCACATCTGGGACGTTGGCATCG-ATCTGTGAT
1 TCGTGTAAGACCATGTCTGGGACGTTGGCATCGTAT-T-TGAT
* * * **
6794997 TACGTGTAAGACCATGTTTGGGACATCGAAATCGTATTTGAT
1 T-CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGAT
* *
6795039 TCGTGTAAGACCCTGTCTAGGACGTTGGCAT
1 TCGTGTAAGACCATGTCTGGGACGTTGGCAT
6795070 TGTTTGATAT
Statistics
Matches: 57, Mismatches: 14, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
41 23 0.40
42 6 0.11
43 26 0.46
44 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGAT
Found at i:6796395 original size:11 final size:11
Alignment explanation
Indices: 6796381--6796425 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
6796371 AGATAAATAT
6796381 TATTTTATTAA
1 TATTTTATTAA
*
6796392 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
6796405 TATTTTATTAT
1 TATTTTATTAA
6796416 TATTTTATTA
1 TATTTTATTA
6796426 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:6797686 original size:22 final size:22
Alignment explanation
Indices: 6797661--6797704 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
6797651 AACATGTCAG
6797661 AAATGACCAAATTGCATGAAAT
1 AAATGACCAAATTGCATGAAAT
6797683 AAATGACCAAATTGCATGAAAT
1 AAATGACCAAATTGCATGAAAT
6797705 GGATTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (22 bp):
AAATGACCAAATTGCATGAAAT
Found at i:6798636 original size:46 final size:46
Alignment explanation
Indices: 6798569--6798786 Score: 312
Period size: 46 Copynumber: 4.7 Consensus size: 46
6798559 ATGGCAACCT
*
6798569 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAA
* *
6798615 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAA
*
6798661 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAA
* ** *
6798707 AAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AA
* * * *
6798753 ATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCA
6798787 TCACGTCAAA
Statistics
Matches: 158, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 157 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAA
Done.