Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold488
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: 2093548
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 10 of 14
Found at i:1444533 original size:44 final size:44
Alignment explanation
Indices: 1444398--1444535 Score: 163
Period size: 44 Copynumber: 3.2 Consensus size: 44
1444388 GCATTAGGTG
* **
1444398 GCAAATGCATATGAAATGATGCAAATGCCAATGTTAT-TCGAAT
1 GCAAATGCATATGAAATGATGCAAATGCCAATGTCATCTAAAAT
* * * * * *
1444441 GCAAATGCATATAAAATGATACAAATG-CAAGTATCAACAAAAAG
1 GCAAATGCATATGAAATGATGCAAATGCCAA-TGTCATCTAAAAT
*
1444485 GCAAATGCATATGCAATGATGCAAATGCCAATGTCATCTAAAAT
1 GCAAATGCATATGAAATGATGCAAATGCCAATGTCATCTAAAAT
1444529 GCAAATG
1 GCAAATG
1444536 TGGGTGAGAC
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
42 3 0.04
43 28 0.37
44 42 0.55
45 3 0.04
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (44 bp):
GCAAATGCATATGAAATGATGCAAATGCCAATGTCATCTAAAAT
Found at i:1444599 original size:44 final size:44
Alignment explanation
Indices: 1444398--1444607 Score: 121
Period size: 44 Copynumber: 4.8 Consensus size: 44
1444388 GCATTAGGTG
* * * **
1444398 GCAAATGCATATGAAATGATGCAAATGCCAATG--TTATTCGAAT
1 GCAAATGCATATGAAAAGATGCAAATG-CAATGCATCAATAAAAT
* * * *
1444441 GCAAATGCATAT-AAAATGATACAAATGCAA-GTATCAACAAAAAG
1 GCAAATGCATATGAAAA-GATGCAAATGCAATGCATCAA-TAAAAT
* *
1444485 GCAAATGCATATGCAATGATGCAAATGCCAATGTCATC--TAAAAT
1 GCAAATGCATATGAAAAGATGCAAATG-CAATG-CATCAATAAAAT
**** * * * *
1444529 GCAAATGTGGGTGAGACA-ACGTAAATGCAA-GCATCAATAGAAT
1 GCAAATGCATATGA-AAAGATGCAAATGCAATGCATCAATAAAAT
1444572 GACAAATGCATATGAAAAGATGCAAATGCTAATGCA
1 G-CAAATGCATATGAAAAGATGCAAATGC-AATGCA
1444608 ATCTAATTCT
Statistics
Matches: 121, Mismatches: 31, Indels: 27
0.68 0.17 0.15
Matches are distributed among these distances:
41 5 0.04
42 7 0.06
43 34 0.28
44 60 0.50
45 8 0.07
46 4 0.03
47 3 0.02
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.22
Consensus pattern (44 bp):
GCAAATGCATATGAAAAGATGCAAATGCAATGCATCAATAAAAT
Found at i:1445655 original size:13 final size:13
Alignment explanation
Indices: 1445605--1445645 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 13
1445595 TTTTCATGCT
1445605 TTTTCTTTTTTCA
1 TTTTCTTTTTTCA
*
1445618 TTTTCTTTTTTGA
1 TTTTCTTTTTTCA
1445631 -TTTCTTTTTTC-
1 TTTTCTTTTTTCA
1445642 TTTT
1 TTTT
1445646 TTGCTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTTTCA
Found at i:1450216 original size:162 final size:162
Alignment explanation
Indices: 1449803--1450217 Score: 446
Period size: 166 Copynumber: 2.5 Consensus size: 162
1449793 TTTAATTTAT
* * * *
1449803 AAAAATTTATTTCGTACCTTAATGGAATTCCAAAAAGATATGAAAAGTTTTTAAAATTTTTTATA
1 AAAAATATATTTCGTACCTTAATGGAAATCCGAAAAGATATGAAAAGTTTTT-AAATATTTTATA
* * * ** *
1449868 CCCATATAGACCCCATAGGAATATAAAAGATTAGAAAAGAAAGATTCAAATTTATCTTGGTTATG
65 CCC-TATGGAACCCATAGGAATATAAAAGATTA-AAAAGAAAGAGTCAAATTTATCTTAATTACG
* * * *
1449933 AAAGTGTTGATTTAATTTAATTTTATTTGTCTTCT
128 AAAGTGTTAATTTAATTTAATTTCATTTATCTTCG
* *
1449968 AAAAATATCATTTCGTACCTTAATGAAAATCCGAAAAGATATGAAAAGTTTTTGAAATCTTTTAT
1 AAAAATAT-ATTTCGTACCTTAATGGAAATCCGAAAAGATATGAAAAGTTTTT-AAATATTTTAT
* *
1450033 ACCTCTACGGAACCCATAGGAATATAAAAGATT-AAAA-AATGAGT-AACATTTAT-TTCAATTA
64 ACC-CTATGGAACCCATAGGAATATAAAAGATTAAAAAGAAAGAGTCAA-ATTTATCTT-AATTA
* *
1450094 CGAAAGTAG-TAATTTAATTTTA-TTCATTTATTTTCG
126 CGAAAGT-GTTAATTTAATTTAATTTCATTTATCTTCG
* * * *
1450130 AAAAATACTATTTCTTACCTTAATGGAAACCCGAAAATATACGAAAAGTTTTTAAATATTTCTAT
1 AAAAATA-TATTTCGTACCTTAATGGAAATCCGAAAAGATATGAAAAGTTTTTAAATATTT-TAT
* *
1450195 ACCCCATGGATACCAATAGGAAT
64 ACCCTATGGA-ACCCATAGGAAT
1450218 CTTATAAATA
Statistics
Matches: 213, Mismatches: 29, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
161 12 0.06
162 77 0.36
163 32 0.15
164 5 0.02
165 7 0.03
166 79 0.37
167 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (162 bp):
AAAAATATATTTCGTACCTTAATGGAAATCCGAAAAGATATGAAAAGTTTTTAAATATTTTATAC
CCTATGGAACCCATAGGAATATAAAAGATTAAAAAGAAAGAGTCAAATTTATCTTAATTACGAAA
GTGTTAATTTAATTTAATTTCATTTATCTTCG
Found at i:1451335 original size:25 final size:24
Alignment explanation
Indices: 1451298--1451353 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
1451288 ATTTTCCATC
* * *
1451298 CTTTTTCCATTTTTTTATTCCTTTTT
1 CTTTTTACATTTTTTGATT--TCTTT
1451324 CTTTTTAC-TTTTTTGATTTCTTT
1 CTTTTTACATTTTTTGATTTCTTT
1451347 CTTTTTA
1 CTTTTTA
1451354 TTTAATTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.41
25 9 0.33
26 7 0.26
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (24 bp):
CTTTTTACATTTTTTGATTTCTTT
Found at i:1451347 original size:23 final size:24
Alignment explanation
Indices: 1451321--1451367 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
1451311 TTTATTCCTT
1451321 TTTCTTTTTACTT-TTTTGATTTC
1 TTTCTTTTTACTTATTTTGATTTC
*
1451344 TTTCTTTTTATTTAATTTTGATTT
1 TTTCTTTTTACTT-ATTTTGATTT
1451368 GACTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
25 9 0.43
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTCTTTTTACTTATTTTGATTTC
Found at i:1451964 original size:165 final size:166
Alignment explanation
Indices: 1451680--1452216 Score: 583
Period size: 166 Copynumber: 3.2 Consensus size: 166
1451670 AAAAAATAAG
* * * ** *
1451680 AAATAAATTGAATTTTACAAAACTGATTGAATGGGTATTAAAT-AACAATATTAGATAAATTTTA
1 AAATAAATTAAATTTT-CAAAACTGATTTAATGGGAATTCCATGAA-ATTATTAGATAAATTTT-
* * *
1451744 AAAAATTTTA-AATTAAGAAAAATTCCCTT-AAAAATATTTACGGAGTAGAAAACTCGATTTTTT
63 AAAAATTTTAGACTAAAG-AAAA-TCCCTTCAAAAATATTTATGGAGTAGAAAACTCG-TTTTTT
* * *
1451807 C-AGAAAATAAGTATTTTAAGGAAAAAAATAAAAAACTCATGA
125 CAAGAAAATAAGGATTTCAA-GAAAAAAATACAAAACTCATGA
* *
1451849 AAATAAATT-AATTTTCAAAACTGATTTAATGGGAATTCCATGATATTATTAGATACA-TTTAAA
1 AAATAAATTAAATTTTCAAAACTGATTTAATGGGAATTCCATGAAATTATTAGATAAATTTTAAA
* * * * *
1451912 AATTTTAGACTGAAGAAAATCCCTTCGAAAATATTTATGGAAGAAG-AAACTCGTTTTCTCGAGA
66 AATTTTAGACTAAAGAAAATCCCTTCAAAAATATTTATGG-AGTAGAAAACTCGTTTTTTCAAGA
* *
1451976 AAAAAAGGATTTCAA-AGAAAAAATCCAAAACTCATGA
130 AAATAAGGATTTCAAGA-AAAAAATACAAAACTCATGA
* * *
1452013 ATATGAATTAAAATTTT-AAAACTGATTTAATGAGAATTCCATGAAATTATTAGATAAATTTTAA
1 AAATAAATT-AAATTTTCAAAACTGATTTAATGGGAATTCCATGAAATTATTAGATAAATTTTAA
* * *
1452077 AAATTTTAGACCAAAGAAAAT-CCTTCCAGAAATATTTATGGAGTAGAAAACTCGGTTTTTCAAG
65 AAATTTTAGACTAAAGAAAATCCCTT-CAAAAATATTTATGGAGTAGAAAACTCGTTTTTTCAAG
* * * *
1452141 AAAATGAGGATTTGAA-AAACAAATTTCAAAACTCATGA
129 AAAATAAGGATTTCAAGAAA-AAAATACAAAACTCATGA
* * *
1452179 AAATGAATTAAATTTTCAAAATTGATTTAATGTGAATT
1 AAATAAATTAAATTTTCAAAACTGATTTAATGGGAATT
1452217 AAATGATGAT
Statistics
Matches: 316, Mismatches: 39, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
163 1 0.00
164 37 0.12
165 103 0.33
166 126 0.40
167 33 0.10
168 7 0.02
169 9 0.03
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (166 bp):
AAATAAATTAAATTTTCAAAACTGATTTAATGGGAATTCCATGAAATTATTAGATAAATTTTAAA
AATTTTAGACTAAAGAAAATCCCTTCAAAAATATTTATGGAGTAGAAAACTCGTTTTTTCAAGAA
AATAAGGATTTCAAGAAAAAAATACAAAACTCATGA
Found at i:1453961 original size:51 final size:51
Alignment explanation
Indices: 1453902--1454092 Score: 213
Period size: 51 Copynumber: 3.8 Consensus size: 51
1453892 CCCTCATAGA
* * * *
1453902 ATGAATTTATATGATCTCGCAATCAACACTACAATATTCACAAATAAAAAT
1 ATGAATTTACATGATCTCACAATCAACACAACAATATTCACAAATAAAAAC
* ** * * * *
1453953 GTGAATTTATGTGATCTCATATTCAACACAAAAATATTCACAAATAGAAAC
1 ATGAATTTACATGATCTCACAATCAACACAACAATATTCACAAATAAAAAC
* * * * *
1454004 ATGAATTTGCAAGATTTCATAGTCAACACAAC-ATATTCACAAATAAAAAC
1 ATGAATTTACATGATCTCACAATCAACACAACAATATTCACAAATAAAAAC
* *
1454054 ATGAATATACATGATCTCACAATCAGCACAACAATATTC
1 ATGAATTTACATGATCTCACAATCAACACAACAATATTC
1454093 GTAATCAACT
Statistics
Matches: 114, Mismatches: 25, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
50 42 0.37
51 72 0.63
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (51 bp):
ATGAATTTACATGATCTCACAATCAACACAACAATATTCACAAATAAAAAC
Found at i:1458163 original size:11 final size:11
Alignment explanation
Indices: 1458147--1458176 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
1458137 AACATTAAAG
1458147 CATCAAGAAAA
1 CATCAAGAAAA
1458158 CATCAAGAAAA
1 CATCAAGAAAA
1458169 CATCAAGA
1 CATCAAGA
1458177 TCCTATACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.60, C:0.20, G:0.10, T:0.10
Consensus pattern (11 bp):
CATCAAGAAAA
Found at i:1459104 original size:51 final size:51
Alignment explanation
Indices: 1459027--1459164 Score: 188
Period size: 51 Copynumber: 2.7 Consensus size: 51
1459017 AATAGCCTAC
* ** ** *
1459027 ATGTATCGATAC-ATTAAAGAGCGTATCGATACATTTGGGTTAAAACCTAGA
1 ATGTATCGATACAATGAAA-AATGTATCGATACATTTGGGACAAAACCCAGA
* *
1459078 ATGTATTGATACAATGAAAAATGTATCAATACATTTGGGACAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTGGGACAAAACCCAGA
1459129 ATGTATCGATACAATGAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
1459165 TCTTTCTAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
51 71 0.93
52 5 0.07
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTGGGACAAAACCCAGA
Found at i:1459225 original size:21 final size:21
Alignment explanation
Indices: 1459200--1459254 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
1459190 TACATGATCT
1459200 TGTATCGATACATTTCAAGCA
1 TGTATCGATACATTTCAAGCA
* ***
1459221 TGTATCAATACA-TTCACTTA
1 TGTATCGATACATTTCAAGCA
1459241 TGTATCGATACATT
1 TGTATCGATACATT
1459255 ACCTTATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTCAAGCA
Found at i:1459266 original size:41 final size:41
Alignment explanation
Indices: 1459199--1459335 Score: 172
Period size: 41 Copynumber: 3.3 Consensus size: 41
1459189 CTACATGATC
*** *
1459199 TTGTATCGATACATTTCAAGCATGTATCAATACATT-CACTTA
1 TTGTATCGATACA-TTCACTTATGTATCGATACATTAC-CTTA
1459241 -TGTATCGATACATT-ACCTTATTGTATCGATACATTACCTTA
1 TTGTATCGATACATTCA-CTTA-TGTATCGATACATTACCTTA
*
1459282 TTGTATCGATACATTCACTTATGTATTGATACATTACCTTA
1 TTGTATCGATACATTCACTTATGTATCGATACATTACCTTA
1459323 TTGTATCGATACA
1 TTGTATCGATACA
1459336 AATTGTTGAA
Statistics
Matches: 85, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 61 0.72
42 19 0.22
43 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (41 bp):
TTGTATCGATACATTCACTTATGTATCGATACATTACCTTA
Found at i:1459267 original size:21 final size:21
Alignment explanation
Indices: 1459221--1459335 Score: 166
Period size: 21 Copynumber: 5.6 Consensus size: 21
1459211 ATTTCAAGCA
*
1459221 TGTATCAATACATT-CACTTA-
1 TGTATCGATACATTAC-CTTAT
1459241 TGTATCGATACATTACCTTAT
1 TGTATCGATACATTACCTTAT
1459262 TGTATCGATACATTACCTTAT
1 TGTATCGATACATTACCTTAT
1459283 TGTATCGATACATT-CACTTA-
1 TGTATCGATACATTAC-CTTAT
*
1459303 TGTATTGATACATTACCTTAT
1 TGTATCGATACATTACCTTAT
1459324 TGTATCGATACA
1 TGTATCGATACA
1459336 AATTGTTGAA
Statistics
Matches: 87, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
20 35 0.40
21 52 0.60
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTACCTTAT
Found at i:1459507 original size:20 final size:20
Alignment explanation
Indices: 1459464--1459537 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
1459454 TACATGATCC
***
1459464 TGTATCGATACATTTCAAGCA
1 TGTATCGATACA-TTCACTTA
1459485 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
*
1459505 TGTATTGATACATT-ACTTTA
1 TGTATCGATACATTCAC-TTA
*
1459525 TTGCATCGATACA
1 -TGTATCGATACA
1459538 AATTGTTGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.04
20 21 0.47
21 22 0.49
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:1461849 original size:20 final size:20
Alignment explanation
Indices: 1461824--1461879 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
1461814 ATACAAACAA
1461824 TAAATGTATCGATACATGAG
1 TAAATGTATCGATACATGAG
*
1461844 TAAATGTATCGATACATGGG
1 TAAATGTATCGATACATGAG
*
1461864 TGAATGTATCGATACA
1 TAAATGTATCGATACA
1461880 AAACTACCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (20 bp):
TAAATGTATCGATACATGAG
Found at i:1468163 original size:76 final size:76
Alignment explanation
Indices: 1468040--1468491 Score: 482
Period size: 76 Copynumber: 5.9 Consensus size: 76
1468030 TATTTATCGA
* * *
1468040 GGATACTCCAACTCCATTATTT-TCGAGGGGATACTCCAACCCTATTTTTATTTCTAAAAATATC
1 GGATACTCCAACCCCATTATTTCT-GAGGGGATACTCCAACCCCATTTTTACTTCTAAAAATATC
1468104 AATTTTTATTAG
65 AATTTTTATTAG
* * *
1468116 GGATACTCCAACCCCATTATTTTTGAGGGGATACTCGAACCCCATTTTTACTTCTAAAAATGTCA
1 GGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCATTTTTACTTCTAAAAATATCA
**
1468181 ATTTTTATCGG
66 ATTTTTATTAG
* * * * * * * *
1468192 GGATACTCCAGCCCTATTATTCCCGAAGGGACACTCCAACCCCATTTTTACTTCTTAAAATGTCA
1 GGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCATTTTTACTTCTAAAAATATCA
*
1468257 ATTTTTATCAG
66 ATTTTTATTAG
* * * *
1468268 GGATACTCTAGCCCC-TTA-TTCTTGAGGGGATACTCCAACCCCGTTTTTACTTCTAAAAATGTC
1 GGATACTCCAACCCCATTATTTC-TGAGGGGATACTCCAACCCCATTTTTACTTCTAAAAATATC
* *
1468331 AATTTTTACTGG
65 AATTTTTATTAG
* * ** * * **
1468343 GGATACTCCAACCCCATTATTTCTGAAGGGATACCCCAACCTTATTTTTA-TTTTGAAAATATTG
1 GGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCATTTTTACTTCTAAAAATATCA
* *
1468407 ATTTTTGACCATCG
66 ATTTTT-A--TTAG
* ** *
1468421 AGGATACTCCAACCCCATTATTTCTAAGGGGATACTCCAACCCCGGTTTTATTTCT-AAAATATC
1 -GGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCATTTTTACTTCTAAAAATATC
1468485 AATTTTT
65 AATTTTT
1468492 CACCATCGAG
Statistics
Matches: 315, Mismatches: 52, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
74 2 0.01
75 76 0.24
76 172 0.55
77 4 0.01
78 2 0.01
79 56 0.18
80 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (76 bp):
GGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCCATTTTTACTTCTAAAAATATCA
ATTTTTATTAG
Found at i:1468346 original size:151 final size:149
Alignment explanation
Indices: 1468032--1468491 Score: 550
Period size: 151 Copynumber: 3.0 Consensus size: 149
1468022 CAAAGTTTTA
* * * *
1468032 TTTATCGAGGATACTCCAACTCCATTATTTTCGAGGGGATACTCCAACCCTATTTTTATTTCTAA
1 TTTATCGGGGATACTCCAAC-CCATTATTTCCGAAGGGATACTCCAACCCTATTTTTA-TTCTTA
* * *
1468097 AAATATCAATTTTTATTAGGGATACTCCAACCCCATTATTTTTGAGGGGATACTCGAACCCCATT
64 AAATATCAATTTTTATCAGGGATACTCCAACCCCATTA-TTTTGAGGGGATACTCCAACCCCGTT
1468162 TTTACTTCTAAAAATGTCAATT
128 TTTACTTCTAAAAATGTCAATT
* * * *
1468184 TTTATCGGGGATACTCCAGCCCTATTATTCCCGAAGGGACACTCCAACCCCATTTTTACTTCTTA
1 TTTATCGGGGATACTCCAACCC-ATTATTTCCGAAGGGATACTCCAACCCTATTTTTA-TTCTTA
* * *
1468249 AAATGTCAATTTTTATCAGGGATACTCTAGCCCC-TTATTCTTGAGGGGATACTCCAACCCCGTT
64 AAATATCAATTTTTATCAGGGATACTCCAACCCCATTATT-TTGAGGGGATACTCCAACCCCGTT
1468313 TTTACTTCTAAAAATGTCAATT
128 TTTACTTCTAAAAATGTCAATT
* * *
1468335 TTTA-CTGGGGATACTCCAACCCCATTATTTCTGAAGGGATACCCCAACCTTATTTTTATT-TTG
1 TTTATC-GGGGATACTCCAA-CCCATTATTTCCGAAGGGATACTCCAACCCTATTTTTATTCTT-
** * *
1468398 AAAATATTGATTTTTGACCATCGAGGATACTCCAACCCCATTATTTCTAAGGGGATACTCCAACC
63 AAAATATCAATTTTT-ATCA--G-GGATACTCCAACCCCATTATTT-TGAGGGGATACTCCAACC
* * *
1468463 CCGGTTTTATTTCT-AAAATATCAATT
123 CCGTTTTTACTTCTAAAAATGTCAATT
1468489 TTT
1 TTT
1468492 CACCATCGAG
Statistics
Matches: 265, Mismatches: 32, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
149 2 0.01
150 17 0.06
151 97 0.37
152 86 0.32
153 1 0.00
154 28 0.11
155 34 0.13
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (149 bp):
TTTATCGGGGATACTCCAACCCATTATTTCCGAAGGGATACTCCAACCCTATTTTTATTCTTAAA
ATATCAATTTTTATCAGGGATACTCCAACCCCATTATTTTGAGGGGATACTCCAACCCCGTTTTT
ACTTCTAAAAATGTCAATT
Found at i:1475844 original size:26 final size:25
Alignment explanation
Indices: 1475805--1475853 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
1475795 TACTAGCTAT
1475805 GTTTTGACTCGATATTGATTTCATTG
1 GTTTTGACTCGATATT-ATTTCATTG
*
1475831 GTTTTGACTTGATATTATTTCAT
1 GTTTTGACTCGATATTATTTCAT
1475854 ATGATCCGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.20, C:0.10, G:0.16, T:0.53
Consensus pattern (25 bp):
GTTTTGACTCGATATTATTTCATTG
Found at i:1478598 original size:32 final size:32
Alignment explanation
Indices: 1478555--1478620 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
1478545 CAAGGTAGTT
* * *
1478555 TTGTATTGATACAAAACTTATATGTTGATACA
1 TTGTATCGATACAAAACTTATATATCGATACA
1478587 TTGTATCGATACAAAACTTATATATCGATACA
1 TTGTATCGATACAAAACTTATATATCGATACA
1478619 TT
1 TT
1478621 TACTGTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (32 bp):
TTGTATCGATACAAAACTTATATATCGATACA
Found at i:1479346 original size:61 final size:61
Alignment explanation
Indices: 1479251--1479380 Score: 188
Period size: 61 Copynumber: 2.1 Consensus size: 61
1479241 TTAAAGATGA
* * * * * *
1479251 TAAAGATGAGAAGAGTGATAAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCT
1 TAAAGATGAAAAAAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATTGGGCT
* *
1479312 TAAAGATGAAAAAAATGATAAAGGTGCCAATATGCTAATTCAAGGCTAGCAATCTTGGGCT
1 TAAAGATGAAAAAAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATTGGGCT
1479373 TAAAGATG
1 TAAAGATG
1479381 TGAAGAATGC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (61 bp):
TAAAGATGAAAAAAATGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATTGGGCT
Found at i:1479618 original size:98 final size:98
Alignment explanation
Indices: 1479328--1480083 Score: 507
Period size: 98 Copynumber: 7.5 Consensus size: 98
1479318 TGAAAAAAAT
* * * * * * * *
1479328 GATAAAGGTGCCAATATGCTAATTCAAGGCTAGCAATC-TTGGGCTTAAAGATGTGAAGAATGCC
1 GATAGAGGTGCCAATGTGATGATTCAAGGCCAGCGA-CATTGGACTTAAAGA--TGAAG-GTGCC
* * * * *
1479392 AACGTGCTGATTCACA-ACGACCGACATTAGACTTGAA
62 AAGGTGCTGATTCA-AGGCCAGCGACATTAGACTTAAA
* * * * * * * *
1479429 GATGAGAAGAATGCCAATGT-ACTTATTCAAGGCTAGTGACATTGGGCTTAGGAATGTTTAAAGA
1 GAT-AG-AG-GTGCCAATGTGA-TGATTCAAGGCCAGCGACATTGGACTTA--AA-G-ATGAAGG
** * *
1479493 TGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAA
58 TGCCAAGGTGCTGATTCAAGGCCAGCGACATTAGACTTAAA
* * * * * * * *
1479534 GATAAAGTTGCCAATGGGCTGATTCAATGCCAGCAACATTAGACTTAAAGATGAAGGTGCCAATG
1 GATAGAGGTGCCAATGTGATGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAAGG
* * *
1479599 TGATGATTCAAAGCTAGCGACATTAGACTTAAA
66 TGCTGATTCAAGGCCAGCGACATTAGACTTAAA
** * *
1479632 GAT-GAGGTGTTAATATGATGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAAGG
1 GATAGAGGTGCCAATGTGATGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAAGG
* *
1479696 TGCTGATTCAGGGCCAGCGACATTGGACTTAAA
66 TGCTGATTCAAGGCCAGCGACATTAGACTTAAA
* * * *
1479729 GATAGAGGTGCCAATGTGATGATTCAGGGCTAGTGACATTGGACTTAAAAATGAAGGTGCCAAGG
1 GATAGAGGTGCCAATGTGATGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAAGG
* * * *
1479794 TGCTGATTTAGGGCCGGTGACATTGGGCTAGTGACTTTGGACTTAAA
66 TGCTGA-TT-----C----A-A---GGCCAGCGACATTAGACTTAAA
* * * * * * *
1479841 AATAAAGGTGCCAAGGTGCTAATTGAAGGCCAGCGACATTGAACTTAAAGATGAAGGTGCCAAGG
1 GATAGAGGTGCCAATGTGATGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAAGG
* * *
1479906 TGCTGATTCAGGGCCAGGGACATTGGACTTAAA
66 TGCTGATTCAAGGCCAGCGACATTAGACTTAAA
* * * * * ** * * * *
1479939 TATAGAGATGCCAATGTGCTGATTCAGGGCTAATGACATTGGACTTAAAAATGGAGATGCCAATG
1 GATAGAGGTGCCAATGTGATGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAAGG
* *
1480004 TGCTGATTCAGGGCCAGCGACATTGGACTTAAA
66 TGCTGATTCAAGGCCAGCGACATTAGACTTAAA
* * * * *
1480037 GAT-GAAGGTGCCAATCT-ACTGATTTAGGGCCAACGACATTGGGCTTA
1 GATAG-AGGTGCCAATGTGA-TGATTCAAGGCCAGCGACATTGGACTTA
1480084 GAAAAGTTAC
Statistics
Matches: 522, Mismatches: 105, Indels: 59
0.76 0.15 0.09
Matches are distributed among these distances:
97 81 0.16
98 238 0.46
99 3 0.01
100 2 0.00
101 3 0.01
102 31 0.06
103 5 0.01
104 34 0.07
105 35 0.07
106 7 0.01
107 1 0.00
108 1 0.00
111 2 0.00
112 79 0.15
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.25
Consensus pattern (98 bp):
GATAGAGGTGCCAATGTGATGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAAGG
TGCTGATTCAAGGCCAGCGACATTAGACTTAAA
Found at i:1479807 original size:49 final size:49
Alignment explanation
Indices: 1479493--1479819 Score: 343
Period size: 49 Copynumber: 6.7 Consensus size: 49
1479483 TGTTTAAAGA
* * * ** * *
1479493 TGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTTAAAGATAAAGT
1 TGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGAAGG
* ** * *
1479542 TGCCAATGGGCTGATTCAATGCCAGCAACATTAGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGAAGG
* ** * *
1479591 TGCCAATGTGATGATTCAAAGCTAGCGACATTAGACTTAAAGATG-AGG
1 TGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGAAGG
** * * * *
1479639 TGTTAATATGATGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGAAGG
*
1479688 TGCCAAGGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGAT-AGAGG
1 TGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGA-AGG
* * * *
1479737 TGCCAATGTGATGATTCAGGGCTAGTGACATTGGACTTAAAAATGAAGG
1 TGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGAAGG
* * * *
1479786 TGCCAAGGTGCTGATTTAGGGCCGGTGACATTGG
1 TGCCAATGTGCTGATTCAGGGCCAGCGACATTGG
1479820 GCTAGTGACT
Statistics
Matches: 238, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
48 42 0.18
49 195 0.82
50 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGAAGG
Found at i:1479879 original size:63 final size:63
Alignment explanation
Indices: 1479755--1479881 Score: 191
Period size: 63 Copynumber: 2.0 Consensus size: 63
1479745 TGATGATTCA
* * * * * *
1479755 GGGCTAGTGACATTGGACTTAAAAATGAAGGTGCCAAGGTGCTGATTTAGGGCCGGTGACATT
1 GGGCTAGTGACATTGGACTTAAAAATAAAGGTGCCAAGGTGCTAATTGAAGGCCAGCGACATT
*
1479818 GGGCTAGTGACTTTGGACTTAAAAATAAAGGTGCCAAGGTGCTAATTGAAGGCCAGCGACATT
1 GGGCTAGTGACATTGGACTTAAAAATAAAGGTGCCAAGGTGCTAATTGAAGGCCAGCGACATT
1479881 G
1 G
1479882 AACTTAAAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.24
Consensus pattern (63 bp):
GGGCTAGTGACATTGGACTTAAAAATAAAGGTGCCAAGGTGCTAATTGAAGGCCAGCGACATT
Found at i:1479906 original size:49 final size:49
Alignment explanation
Indices: 1479830--1480088 Score: 286
Period size: 49 Copynumber: 5.3 Consensus size: 49
1479820 GCTAGTGACT
* * * *
1479830 TTGGACTTAAAAATAAAGGTGCCAAGGTGCTAATTGAAGGCCAGCGACA
1 TTGGACTTAAAAATGAAGGTGCCAAGGTGCTGATTCAGGGCCAGCGACA
* * *
1479879 TTGAACTTAAAGATGAAGGTGCCAAGGTGCTGATTCAGGGCCAGGGACA
1 TTGGACTTAAAAATGAAGGTGCCAAGGTGCTGATTCAGGGCCAGCGACA
* * * * **
1479928 TTGGACTTAAATAT-AGAGATGCCAATGTGCTGATTCAGGGCTAATGACA
1 TTGGACTTAAAAATGA-AGGTGCCAAGGTGCTGATTCAGGGCCAGCGACA
* * *
1479977 TTGGACTTAAAAATGGAGATGCCAATGTGCTGATTCAGGGCCAGCGACA
1 TTGGACTTAAAAATGAAGGTGCCAAGGTGCTGATTCAGGGCCAGCGACA
* ** * * *
1480026 TTGGACTTAAAGATGAAGGTGCCAATCTACTGATTTAGGGCCAACGACA
1 TTGGACTTAAAAATGAAGGTGCCAAGGTGCTGATTCAGGGCCAGCGACA
*
1480075 TTGGGCTTAGAAAA
1 TTGGACTTA-AAAA
1480089 GTTACCACCG
Statistics
Matches: 179, Mismatches: 28, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
48 1 0.01
49 175 0.98
50 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (49 bp):
TTGGACTTAAAAATGAAGGTGCCAAGGTGCTGATTCAGGGCCAGCGACA
Found at i:1479919 original size:112 final size:112
Alignment explanation
Indices: 1479718--1479931 Score: 304
Period size: 112 Copynumber: 1.9 Consensus size: 112
1479708 GCCAGCGACA
* * * * * * * *
1479718 TTGGACTTAAAGATAGAGGTGCCAATGTGATGATTCAGGGCTAGTGACATTGGACTTAAAAATGA
1 TTGGACTTAAAAATAAAGGTGCCAAGGTGATAATTCAAGGCCAGCGACATTGAACTTAAAAATGA
*
1479783 AGGTGCCAAGGTGCTGATTTAGGGCC-GGTGACATTGGGCTAGTGACT
66 AGGTGCCAAGGTGCTGATTCAGGGCCAGG-GACATTGGGCTAGTGACT
* * *
1479830 TTGGACTTAAAAATAAAGGTGCCAAGGTGCTAATTGAAGGCCAGCGACATTGAACTTAAAGATGA
1 TTGGACTTAAAAATAAAGGTGCCAAGGTGATAATTCAAGGCCAGCGACATTGAACTTAAAAATGA
1479895 AGGTGCCAAGGTGCTGATTCAGGGCCAGGGACATTGG
66 AGGTGCCAAGGTGCTGATTCAGGGCCAGGGACATTGG
1479932 ACTTAAATAT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
112 87 0.98
113 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.24
Consensus pattern (112 bp):
TTGGACTTAAAAATAAAGGTGCCAAGGTGATAATTCAAGGCCAGCGACATTGAACTTAAAAATGA
AGGTGCCAAGGTGCTGATTCAGGGCCAGGGACATTGGGCTAGTGACT
Found at i:1479934 original size:161 final size:161
Alignment explanation
Indices: 1479669--1479968 Score: 442
Period size: 161 Copynumber: 1.9 Consensus size: 161
1479659 GCCAACGACA
* * * * *
1479669 TTGGACTTAAAGATGAAGGTGCCAAGGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATAG
1 TTGGACTTAAAAATAAAGGTGCCAAGGTGCTAATTCAAGGCCAGCGACATTGAACTTAAAGATAG
* * * *
1479734 AGGTGCCAATGTGATGATTCAGGGCTAGTGACATTGGACTTAAAAAT-GAAGGTGCCAAGGTGCT
66 AGGTGCCAAGGTGATGATTCAGGGCCAGGGACATTGGACTTAAAAATAG-AGATGCCAAGGTGCT
*
1479798 GATTTAGGGCCGGTGACATTGGGCTAGTGACT
130 GATTCAGGGCCGGTGACATTGGGCTAGTGACT
*
1479830 TTGGACTTAAAAATAAAGGTGCCAAGGTGCTAATTGAAGGCCAGCGACATTGAACTTAAAGAT-G
1 TTGGACTTAAAAATAAAGGTGCCAAGGTGCTAATTCAAGGCCAGCGACATTGAACTTAAAGATAG
* * *
1479894 AAGGTGCCAAGGTGCTGATTCAGGGCCAGGGACATTGGACTTAAATATAGAGATGCCAATGTGCT
66 -AGGTGCCAAGGTGATGATTCAGGGCCAGGGACATTGGACTTAAAAATAGAGATGCCAAGGTGCT
1479959 GATTCAGGGC
130 GATTCAGGGC
1479969 TAATGACATT
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
160 1 0.01
161 121 0.98
162 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (161 bp):
TTGGACTTAAAAATAAAGGTGCCAAGGTGCTAATTCAAGGCCAGCGACATTGAACTTAAAGATAG
AGGTGCCAAGGTGATGATTCAGGGCCAGGGACATTGGACTTAAAAATAGAGATGCCAAGGTGCTG
ATTCAGGGCCGGTGACATTGGGCTAGTGACT
Found at i:1480168 original size:31 final size:30
Alignment explanation
Indices: 1480127--1480269 Score: 127
Period size: 27 Copynumber: 4.9 Consensus size: 30
1480117 AGGGATAGAG
1480127 TGCCACGGAGTTGTGGACTTTAAAAGGAAGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAGA
*
1480158 TGCCATGGAGTTGTGGACTTAAAAGG--G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAGA
* * * ** *
1480185 TGCCACGAAGTTATGGACATAAAAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAGA
* *
1480215 TGCCACAGAGTTGTAGACTTAAAAGG-A-A
1 TGCCACGGAGTTGTGGACTTAAAAGGAAGA
* * *
1480243 -GCCATGGAGTTATGGACTTTAAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAA
1480270 AAATGGTGCC
Statistics
Matches: 88, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
27 40 0.45
28 2 0.02
29 2 0.02
30 27 0.31
31 17 0.19
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (30 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAGA
Found at i:1480295 original size:61 final size:57
Alignment explanation
Indices: 1480166--1480303 Score: 168
Period size: 57 Copynumber: 2.4 Consensus size: 57
1480156 GATGCCATGG
** *
1480166 AGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGGACATAAAAAAAAGGTGCCACAG
1 AGTTGTGGACTTAAAAGGAAGCCACGAAGTTATGGACATAAAAAAAAGGTGCCACAA
* * * *
1480223 AGTTGTAGACTTAAAAGGAAGCCATGGAGTTATGGACTTTAAAGGAAAAATGGTGCCACAA
1 AGTTGTGGACTTAAAAGGAAGCCACGAAGTTATGGAC-ATAAA--AAAAA-GGTGCCACAA
*
1480284 AGTTGTGGACTTGAAAGGAA
1 AGTTGTGGACTTAAAAGGAA
1480304 AATGGGTACT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 32 0.47
58 4 0.06
60 5 0.07
61 27 0.40
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (57 bp):
AGTTGTGGACTTAAAAGGAAGCCACGAAGTTATGGACATAAAAAAAAGGTGCCACAA
Found at i:1480301 original size:34 final size:35
Alignment explanation
Indices: 1480250--1480340 Score: 114
Period size: 34 Copynumber: 2.7 Consensus size: 35
1480240 GAAGCCATGG
* *
1480250 AGTTATGGACTTTAAAGGAAAAAT-GGTGCCACAA
1 AGTTGTGGACTTTAAAGGAAAAATGGGTACCACAA
* * *
1480284 AGTTGTGGACTTGAAAGG-AAAATGGGTACTACTA
1 AGTTGTGGACTTTAAAGGAAAAATGGGTACCACAA
*
1480318 AGTTGTGGACTTTAAAAGAAAAA
1 AGTTGTGGACTTTAAAGGAAAAA
1480341 GGTACTATAG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 5 0.10
34 39 0.81
35 4 0.08
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (35 bp):
AGTTGTGGACTTTAAAGGAAAAATGGGTACCACAA
Found at i:1480360 original size:33 final size:33
Alignment explanation
Indices: 1480249--1480368 Score: 107
Period size: 34 Copynumber: 3.6 Consensus size: 33
1480239 GGAAGCCATG
* * * *
1480249 GAGTTATGGACTTTAAAGGAAAAATGGTGCCACA
1 GAGTTATGGACTTTAAAAGAAAAA-GGTACTATA
* * * * *
1480283 AAGTTGTGGACTTGAAAGGAAAATGGGTACTACTA
1 GAGTTATGGACTTTAAAAGAAAA-AGGTACTA-TA
*
1480318 -AGTTGTGGACTTTAAAAGAAAAAGGTACTATA
1 GAGTTATGGACTTTAAAAGAAAAAGGTACTATA
*
1480350 GAGTTATGGACTTAAAAAG
1 GAGTTATGGACTTTAAAAG
1480369 GGTGCCATTA
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
32 2 0.03
33 23 0.32
34 45 0.63
35 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.26, T:0.26
Consensus pattern (33 bp):
GAGTTATGGACTTTAAAAGAAAAAGGTACTATA
Found at i:1480431 original size:61 final size:60
Alignment explanation
Indices: 1480135--1480545 Score: 241
Period size: 61 Copynumber: 6.8 Consensus size: 60
1480125 AGTGCCACGG
* * * * * * **
1480135 AGTTGTGGACTTTAAAAG--GAAGATGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGA
1 AGTTGTGGACTTAAAAAGAAAAAGGTACCATAGAGTTATGGACTTAAAAGGGTGCCATTA
* * * * * * ** **
1480193 AGTTATGGAC--ATAAA-AAAAAGGTGCCACAGAGTTGTAGACTTAAAAGGAAGCCATGG
1 AGTTGTGGACTTAAAAAGAAAAAGGTACCATAGAGTTATGGACTTAAAAGGGTGCCATTA
* * * * * * * * *
1480250 AGTTATGGACTTTAAAGGAAAAATGGTGCCACAAAGTTGTGGACTTGAAAGGAAAATGGGTACTA
1 AGTTGTGGACTTAAAAAGAAAAA-GGTACCATAGAGTTATGGACTT------AAAA-GGGTGCCA
*
1480315 CTA
58 TTA
* *
1480318 AGTTGTGGACTTTAAAAGAAAAAGGTACTATAGAGTTATGGACTTAAAAAGGGTGCCATTA
1 AGTTGTGGACTTAAAAAGAAAAAGGTACCATAGAGTTATGGACTT-AAAAGGGTGCCATTA
** * *
1480379 AGTTGTACACTTAAAAAGGAAAAAGGTACCATAGAGTTGTGGACTTAAAAGGGTGCCATTG
1 AGTTGTGGACTTAAAAA-GAAAAAGGTACCATAGAGTTATGGACTTAAAAGGGTGCCATTA
* * * ** *
1480440 AGTTATGGACTTAAAAA-AAAAA-GTGCTACGGAGTTATTGACTTAAAAGGGTGCC----
1 AGTTGTGGACTTAAAAAGAAAAAGGTACCATAGAGTTATGGACTTAAAAGGGTGCCATTA
* * * * *
1480494 AGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGGAGTTGTAGACTTAAAAGG
1 AGTTGTGGACTTAAAAAGAAAAA-GGTACCATAGAGTTATGGACTTAAAAGG
1480546 TGAAAGAGTG
Statistics
Matches: 280, Mismatches: 56, Indels: 35
0.75 0.15 0.09
Matches are distributed among these distances:
54 15 0.05
55 5 0.02
56 3 0.01
57 64 0.23
58 35 0.12
59 7 0.03
60 5 0.02
61 70 0.25
62 30 0.11
67 21 0.08
68 25 0.09
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.24
Consensus pattern (60 bp):
AGTTGTGGACTTAAAAAGAAAAAGGTACCATAGAGTTATGGACTTAAAAGGGTGCCATTA
Found at i:1480437 original size:27 final size:27
Alignment explanation
Indices: 1480398--1480456 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
1480388 CTTAAAAAGG
*
1480398 AAAAAGGTACCATAGAGTTGTGGACTT
1 AAAAAGGTACCATAGAGTTATGGACTT
* * *
1480425 AAAAGGGTGCCATTGAGTTATGGACTT
1 AAAAAGGTACCATAGAGTTATGGACTT
1480452 AAAAA
1 AAAAA
1480457 AAAAAGTGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.25
Consensus pattern (27 bp):
AAAAAGGTACCATAGAGTTATGGACTT
Found at i:1480539 original size:34 final size:34
Alignment explanation
Indices: 1480494--1480917 Score: 282
Period size: 34 Copynumber: 12.5 Consensus size: 34
1480484 AAAGGGTGCC
1480494 AGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGG
1 AGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGG
* ** * *
1480528 AGTTGTAGACTTAAAAGGTGAAAGAGTGCCATAG
1 AGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGG
* **
1480562 AGTTGT-GAGCTTTCAAAA-GAAAAAAGGTGCCACAG
1 AGTTGTGGA-C-TT-AAAAGGAAAAAGGGTGCCATGG
* ** * * * *
1480597 AGTTATGGACTTAAAAGGTGATAGAGTGCCACGA
1 AGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGG
* * *
1480631 AGTTGT-GAGCTTTGAAAA-GAAAAAGGATACCATAG
1 AGTTGTGGA-C-TT-AAAAGGAAAAAGGGTGCCATGG
* * ** * *
1480666 AGGTGTGAACTTAAAAGGTCAAAGGATGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGG
* * *
1480700 AGTTGTGGGCTTTGAAAA-GATAAA-GGTGCCATAG
1 AGTTGTGGAC-TT-AAAAGGAAAAAGGGTGCCATGG
*
1480734 AGTTGTGGACATAAAAGG-AAAA-GGTGCCATGG
1 AGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGG
* *
1480766 AGTTATGGACTCAAAAGG--AAA-GGTGCCATGG
1 AGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGG
* * * *
1480797 AGTTATGGACTCAAAAGGAAAAAGAGTGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGG
* * *
1480831 AATTGTGGGCTTTGAAAA-GAAAAAGGGTGCCGAT-A
1 AGTTGTGGAC-TT-AAAAGGAAAAAGGGTGCC-ATGG
* * *
1480866 AGTTATGGACTTAAAAGGAAAAA-GATGCCATAG
1 AGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGG
1480899 AGTTGTGGACTTTAAAAGG
1 AGTTGTGGAC-TTAAAAGG
1480918 GTGCCATGGA
Statistics
Matches: 303, Mismatches: 65, Indels: 44
0.74 0.16 0.11
Matches are distributed among these distances:
31 31 0.10
32 33 0.11
33 35 0.12
34 122 0.40
35 62 0.20
36 20 0.07
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.21
Consensus pattern (34 bp):
AGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGG
Found at i:1480600 original size:69 final size:68
Alignment explanation
Indices: 1480506--1480944 Score: 379
Period size: 69 Copynumber: 6.6 Consensus size: 68
1480496 TTGTGGACTT
* * * * *
1480506 AAAAGGAAAAAGGGTGCCATGGAGTTGTAGACTTAAAAGGTGAAAGAGTGCCATAGAGTTGTGAG
1 AAAA-GAAAAA-GGTGCCATAGAGTTATGGACTTAAAAGGTAAAAGAGTGCCATGGAGTTGTGAG
*
1480571 CTTTC
64 CTTTG
* * * * *
1480576 AAAAGAAAAAAGGTGCCACAGAGTTATGGACTTAAAAGGTGATAGAGTGCCACGAAGTTGTGAGC
1 AAAAG-AAAAAGGTGCCATAGAGTTATGGACTTAAAAGGTAAAAGAGTGCCATGGAGTTGTGAGC
1480641 TTTG
65 TTTG
* * * * * * *
1480645 AAAAGAAAAAGGATACCATAGAGGTGTGAACTTAAAAGGTCAAAG-GATGCCACGGAGTTGTGGG
1 AAAAGAAAAAGG-TGCCATAGAGTTATGGACTTAAAAGGTAAAAGAG-TGCCATGGAGTTGTGAG
1480709 CTTTG
64 CTTTG
* * * *
1480714 AAAAGATAAAGGTGCCATAGAGTTGTGGACATAAAAGG-AAAAG-GTGCCATGGAGTTATG-GAC
1 AAAAGAAAAAGGTGCCATAGAGTTATGGACTTAAAAGGTAAAAGAGTGCCATGGAGTTGTGAG-C
*
1480776 --TC
65 TTTG
* * * * * * *
1480778 AAAAG-GAAAGGTGCCATGGAGTTATGGACTCAAAAGGAAAAAGAGTGCCACGGAATTGTGGGCT
1 AAAAGAAAAAGGTGCCATAGAGTTATGGACTTAAAAGGTAAAAGAGTGCCATGGAGTTGTGAGCT
1480842 TTG
66 TTG
* *
1480845 AAAAGAAAAAGGGTGCCGATA-AGTTATGGACTTAAAAGGAAAAAGA-TGCCATAGAGTTGTG-G
1 AAAAGAAAAA-GGTGCC-ATAGAGTTATGGACTTAAAAGGTAAAAGAGTGCCATGGAGTTGTGAG
1480907 ACTTT-
64 -CTTTG
* *
1480912 AAAAG-----GGTGCCATGGAGTTATGGGCTTAAAAGG
1 AAAAGAAAAAGGTGCCATAGAGTTATGGACTTAAAAGG
1480945 GTGCCACAAA
Statistics
Matches: 311, Mismatches: 44, Indels: 37
0.79 0.11 0.09
Matches are distributed among these distances:
60 2 0.01
61 23 0.07
63 27 0.09
64 11 0.04
65 15 0.05
66 15 0.05
67 17 0.05
68 49 0.16
69 141 0.45
70 11 0.04
ACGTcount: A:0.38, C:0.11, G:0.31, T:0.21
Consensus pattern (68 bp):
AAAAGAAAAAGGTGCCATAGAGTTATGGACTTAAAAGGTAAAAGAGTGCCATGGAGTTGTGAGCT
TTG
Found at i:1480791 original size:31 final size:31
Alignment explanation
Indices: 1480721--1480817 Score: 151
Period size: 31 Copynumber: 3.1 Consensus size: 31
1480711 TTGAAAAGAT
* *
1480721 AAAGGTGCCATAGAGTTGTGGACAT-AAAAGG
1 AAAGGTGCCATGGAGTTATGGAC-TCAAAAGG
1480752 AAAAGGTGCCATGGAGTTATGGACTCAAAAGG
1 -AAAGGTGCCATGGAGTTATGGACTCAAAAGG
1480784 AAAGGTGCCATGGAGTTATGGACTCAAAAGG
1 AAAGGTGCCATGGAGTTATGGACTCAAAAGG
1480815 AAA
1 AAA
1480818 AAGAGTGCCA
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
31 35 0.56
32 27 0.44
ACGTcount: A:0.39, C:0.11, G:0.31, T:0.19
Consensus pattern (31 bp):
AAAGGTGCCATGGAGTTATGGACTCAAAAGG
Found at i:1480940 original size:27 final size:27
Alignment explanation
Indices: 1480891--1480969 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
1480881 AGGAAAAAGA
*
1480891 TGCCATAGAGTTGTGGACTTTAAAAGGG
1 TGCCATAGAGTTGTGGGC-TTAAAAGGG
* *
1480919 TGCCATGGAGTTATGGGCTTAAAAGGG
1 TGCCATAGAGTTGTGGGCTTAAAAGGG
* *
1480946 TGCCACAAAGTTGTGGGCTTAAAA
1 TGCCATAGAGTTGTGGGCTTAAAA
1480970 AAGAAAAAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 29 0.66
28 15 0.34
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.27
Consensus pattern (27 bp):
TGCCATAGAGTTGTGGGCTTAAAAGGG
Found at i:1481035 original size:30 final size:30
Alignment explanation
Indices: 1480974--1481102 Score: 132
Period size: 30 Copynumber: 4.3 Consensus size: 30
1480964 TTAAAAAAGA
* **
1480974 AAAAGGTGCCACAAAGTCATGGACTTGGAG
1 AAAAGATGCCACTGAGTCATGGACTTGGAG
* * * * *
1481004 AAGAGATGGCACTGAGTCGTAGACTTAGAG
1 AAAAGATGCCACTGAGTCATGGACTTGGAG
* * *
1481034 AAAAGATGCCACTAAGTCTTGGACTTGGAT
1 AAAAGATGCCACTGAGTCATGGACTTGGAG
* *
1481064 AAAAGATGCCATTGATTCATGGACTTGGAG
1 AAAAGATGCCACTGAGTCATGGACTTGGAG
*
1481094 AAGAGATGC
1 AAAAGATGC
1481103 TGCTGAGTTG
Statistics
Matches: 78, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.22
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCATGGACTTGGAG
Found at i:1481089 original size:60 final size:60
Alignment explanation
Indices: 1480974--1481102 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 60
1480964 TTAAAAAAGA
* * * *
1480974 AAAAGGTGCCACAAAGTCATGGACTTGGAGAAGAGATGGCACTGAGTCGTAGACTTAGAG
1 AAAAGATGCCACAAAGTCATGGACTTGGAGAAAAGATGCCACTGAGTCATAGACTTAGAG
* * * * * * *
1481034 AAAAGATGCCACTAAGTCTTGGACTTGGATAAAAGATGCCATTGATTCATGGACTTGGAG
1 AAAAGATGCCACAAAGTCATGGACTTGGAGAAAAGATGCCACTGAGTCATAGACTTAGAG
*
1481094 AAGAGATGC
1 AAAAGATGC
1481103 TGCTGAGTTG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.22
Consensus pattern (60 bp):
AAAAGATGCCACAAAGTCATGGACTTGGAGAAAAGATGCCACTGAGTCATAGACTTAGAG
Found at i:1481117 original size:30 final size:30
Alignment explanation
Indices: 1480993--1481119 Score: 114
Period size: 30 Copynumber: 4.2 Consensus size: 30
1480983 CACAAAGTCA
* * *
1480993 TGGACTTGGAGAAGAGATGGCACTGAGTCG
1 TGGACTTGGAGAAAAGATGCCACTGAGTTG
* * *
1481023 TAGACTTAGAGAAAAGATGCCACTAAGTCT-
1 TGGACTTGGAGAAAAGATGCCACTGAGT-TG
* * *
1481053 TGGACTTGGATAAAAGATGCCATTGA-TTCA
1 TGGACTTGGAGAAAAGATGCCACTGAGTT-G
* **
1481083 TGGACTTGGAGAAGAGATGCTGCTGAGTTG
1 TGGACTTGGAGAAAAGATGCCACTGAGTTG
1481113 TGGACTT
1 TGGACTT
1481120 TGGGAAGGGT
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
28 1 0.01
29 1 0.01
30 72 0.95
31 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (30 bp):
TGGACTTGGAGAAAAGATGCCACTGAGTTG
Found at i:1482318 original size:8 final size:8
Alignment explanation
Indices: 1482305--1482373 Score: 63
Period size: 8 Copynumber: 8.9 Consensus size: 8
1482295 CTTTACACTT
1482305 TTTTTTTG
1 TTTTTTTG
1482313 TTTTTTTG
1 TTTTTTTG
* *
1482321 -TTGTCT-
1 TTTTTTTG
*
1482327 TTTATTTG
1 TTTTTTTG
*
1482335 GTTTTTTG
1 TTTTTTTG
1482343 TTTTTTT-
1 TTTTTTTG
*
1482350 ATTTTTTG
1 TTTTTTTG
1482358 TTTTGTTTG
1 TTTT-TTTG
1482367 TTTTTTT
1 TTTTTTT
1482374 TGTGCTTTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
7 14 0.29
8 26 0.54
9 8 0.17
ACGTcount: A:0.03, C:0.01, G:0.13, T:0.83
Consensus pattern (8 bp):
TTTTTTTG
Found at i:1482329 original size:22 final size:22
Alignment explanation
Indices: 1482304--1482368 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
1482294 CCTTTACACT
1482304 TTTTTTTTGTTTTTTTGTTGTC
1 TTTTTTTTGTTTTTTTGTTGTC
* * * *
1482326 TTTTATTTGGTTTTTTGTTTTT
1 TTTTTTTTGTTTTTTTGTTGTC
1482348 TTATTTTTTGTTTTGTTTGTT
1 TT-TTTTTTGTTTT-TTTGTT
1482369 TTTTTTGTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 20 0.57
23 9 0.26
24 6 0.17
ACGTcount: A:0.03, C:0.02, G:0.14, T:0.82
Consensus pattern (22 bp):
TTTTTTTTGTTTTTTTGTTGTC
Found at i:1482356 original size:15 final size:16
Alignment explanation
Indices: 1482336--1482372 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
1482326 TTTTATTTGG
1482336 TTTTTTGTTTT-TTTA
1 TTTTTTGTTTTGTTTA
*
1482351 TTTTTTGTTTTGTTTG
1 TTTTTTGTTTTGTTTA
1482367 TTTTTT
1 TTTTTT
1482373 TTGTGCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (16 bp):
TTTTTTGTTTTGTTTA
Found at i:1485712 original size:13 final size:13
Alignment explanation
Indices: 1485694--1485719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1485684 CATTTTATGG
1485694 TGTATCGATACAT
1 TGTATCGATACAT
1485707 TGTATCGATACAT
1 TGTATCGATACAT
1485720 ACTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1485716 original size:33 final size:32
Alignment explanation
Indices: 1485674--1485737 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
1485664 TACAAGCCAA
**
1485674 TGTATCGATACATTTTATGGTGTATCGATACAT
1 TGTATCGATACATACTAT-GTGTATCGATACAT
*
1485707 TGTATCGATACATACTGTGTGTATCGATACA
1 TGTATCGATACATACTATGTGTATCGATACA
1485738 CGTTTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATACTATGTGTATCGATACAT
Found at i:1494483 original size:13 final size:13
Alignment explanation
Indices: 1494443--1494468 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1494433 CATTTTATGG
1494443 TGTATCGATACAT
1 TGTATCGATACAT
1494456 TGTATCGATACAT
1 TGTATCGATACAT
1494469 ACTGTGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1496532 original size:26 final size:25
Alignment explanation
Indices: 1496493--1496541 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
1496483 TACTAGCTAT
1496493 GTTTTGACTCGATATTGATTTCATTG
1 GTTTTGACTCGATATT-ATTTCATTG
*
1496519 GTTTTGACTTGATATTATTTCAT
1 GTTTTGACTCGATATTATTTCAT
1496542 ATAATCCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.20, C:0.10, G:0.16, T:0.53
Consensus pattern (25 bp):
GTTTTGACTCGATATTATTTCATTG
Found at i:1499675 original size:60 final size:61
Alignment explanation
Indices: 1499561--1499675 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 61
1499551 ATGAGAAGAG
* * * *
1499561 TGATAAGGGTGCCAATATGCTGATTCAGGGCCAATGATATTGGGCTTAATGATGAAAAAAA
1 TGATAAAGATGCCAATATGCTGATTCAAGGCCAATGATATTGGGCTTAAAGATGAAAAAAA
1499622 TGATAAAGATGCCAATATGCTGA-TCAAGGCCAATGATATTGGGCTTAAAGATGA
1 TGATAAAGATGCCAATATGCTGATTCAAGGCCAATGATATTGGGCTTAAAGATGA
1499676 GAAGAATGCC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
60 29 0.58
61 21 0.42
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (61 bp):
TGATAAAGATGCCAATATGCTGATTCAAGGCCAATGATATTGGGCTTAAAGATGAAAAAAA
Found at i:1499877 original size:49 final size:49
Alignment explanation
Indices: 1499631--1499893 Score: 219
Period size: 49 Copynumber: 5.4 Consensus size: 49
1499621 ATGATAAAGA
* * * * *
1499631 TGCCAATATGCTGA-TCAAGGCCAATGATATTGGGCTTAAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT--GAAG-G
* * * * *
1499682 TGCCAATGTGCTGATTCAAGGGCAGA-GACATTGGGCTT-AGGA-AAAGA
1 TGCCAATGTGCTGATTCAAGGCCA-ACGACATTGGACTTAAAGATGAAGG
* * * * * * *
1499729 TGCCAATATGTTGATTCTAGGCCAACGATATCGGACTTAAAAATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGG
* ** * *
1499778 TGCCAAAGCACTGATTCAAGGCCAACGACCTTGGACTTAACGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGG
* * *
1499827 TGCCAATGTGGTGATTCAAGGCCAATGACATTGGACTTAAAGATGGAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGG
* *
1499876 TGTCAATGTGATGATTCA
1 TGCCAATGTGCTGATTCA
1499894 GGGCTGAAGG
Statistics
Matches: 170, Mismatches: 37, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
46 1 0.01
47 30 0.18
48 5 0.03
49 98 0.58
51 16 0.09
52 19 0.11
53 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGG
Found at i:1499877 original size:98 final size:96
Alignment explanation
Indices: 1499626--1499877 Score: 247
Period size: 98 Copynumber: 2.6 Consensus size: 96
1499616 AAAAAATGAT
* * *
1499626 AAAGATGCCAATATGCTGA-TCAAGGCCAATGATATTGGGCTTAAAGATGAGAAGAATGCCAATG
1 AAAGATGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATG-G-AG-GTGCCAAAG
** * * *
1499690 TGCTGATTCAAGGGCAGAGACATTGGGCTTAGGA
63 CACTGATTCAAGGCCAGAGACATTGGACTTACGA
* * * * * **
1499724 AAAGATGCCAATATGTTGATTCTAGGCCAACGATATCGGACTTAAAAATAAAGGTGCCAAAGCAC
1 AAAGATGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGGAGGTGCCAAAGCAC
*
1499789 TGATTCAAGGCCA-ACGACCTTGGACTTAACGA
66 TGATTCAAGGCCAGA-GACATTGGACTT-ACGA
* * * * *
1499821 TGAAGGTGCCAATGTGGTGATTCAAGGCCAATGACATTGGACTTAAAGATGGAGGTG
1 -AAAGATGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGGAGGTG
1499878 TCAATGTGAT
Statistics
Matches: 123, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
95 1 0.01
96 30 0.24
97 5 0.04
98 63 0.51
99 24 0.20
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.23
Consensus pattern (96 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGGAGGTGCCAAAGCAC
TGATTCAAGGCCAGAGACATTGGACTTACGA
Found at i:1499905 original size:28 final size:28
Alignment explanation
Indices: 1499873--1499926 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
1499863 TTAAAGATGG
* * *
1499873 AGGTGTCAATGTGATGATTCAGGGCTGA
1 AGGTGCCAAGGTGATGATTCAAGGCTGA
*
1499901 AGGTGCCAAGGTGCTGATTCAAGGCT
1 AGGTGCCAAGGTGATGATTCAAGGCT
1499927 AGTGGCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (28 bp):
AGGTGCCAAGGTGATGATTCAAGGCTGA
Found at i:1499948 original size:77 final size:77
Alignment explanation
Indices: 1499821--1499970 Score: 210
Period size: 77 Copynumber: 1.9 Consensus size: 77
1499811 GACTTAACGA
* * * *
1499821 TGAAGGTGCCAATGTGGTGATTCAAGGCCAATGACATTGGACTTAAAGATGGAGGTGTCAATGTG
1 TGAAGGTGCCAAGGTGCTGATTCAAGGCCAATGACATTGGACTTAAAGATGGAGGTGCCAATATG
1499886 ATGATTCAGGGC
66 ATGATTCAGGGC
* * * **
1499898 TGAAGGTGCCAAGGTGCTGATTCAAGGCTAGTGGCATTTTACTTAAAGATGGAGGTGCCAATATG
1 TGAAGGTGCCAAGGTGCTGATTCAAGGCCAATGACATTGGACTTAAAGATGGAGGTGCCAATATG
*
1499963 CTGATTCA
66 ATGATTCA
1499971 AGGCCAGCGA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (77 bp):
TGAAGGTGCCAAGGTGCTGATTCAAGGCCAATGACATTGGACTTAAAGATGGAGGTGCCAATATG
ATGATTCAGGGC
Found at i:1499973 original size:49 final size:49
Alignment explanation
Indices: 1499901--1500924 Score: 1292
Period size: 49 Copynumber: 20.9 Consensus size: 49
1499891 TCAGGGCTGA
* * * * * **
1499901 AGGTGCCAAGGTGCTGATTCAAGGCTAGTGGCATTTTACTTAAAGATGG
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * * **
1499950 AGGTGCCAATATGCTGATTCAAGGCCAGCGACAATGGACTTAAAGATAA
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * * * *
1499999 AGGTGCCAAGGTGTTGATTCAGGGCCAGTGACAATGGACTTAAAGATGA
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* *
1500048 AGGTGCCAAGGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGA
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * *
1500097 AGGTGCCAAGGAGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGA
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* *
1500146 AGGTGCCAAGGTGCTGATTCAGGGCCAGTGACATTGGACTTAAAGATGG
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * ** * *
1500195 AGGTGCCAATGTGATGATTAAGGGCCAATGACATTGGACTTAGAGATGA
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * * * ** *
1500244 AGGTTCCAAGGTGCTGATTCAAGACCAATGACATTCGACTTAAAGATGG
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * * **
1500293 AGGTGCCAATATGCTGATTCAGGGCCAGCAAAATTGGACTTAAAGATAA
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * * * *
1500342 AGGTGCCAAGGTGTTGATTCAAGGCCAGTGACATTGGACTTAAAGATGA
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * * *
1500391 AGGTGCCAAGGTGCTGATTCAGGGCCAACGACATTCGACTTAAAGATGA
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * * * *
1500440 AGGTGCCAAGGTGATGATTCAGGGCCAACAACATTGGACTTAAAGGTGG
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* *
1500489 AGGTGCCAATGTGCTGATTTAGGGCCAGCGACATTGGACTTAAAGGTGG
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * *
1500538 AGGTGTCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGG
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * *
1500587 AGGTGTCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGG
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* *
1500636 AGGTGCCAATGTGATGATTCAGGGCCAGCGACATTGGACTTAAAGGTGG
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* *
1500685 AGGTGCCAATATGCTGATTCAGGGCCAGGGACATTGGACTTAAAGATGG
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * * *
1500734 AGGTGCCAATGTGTTGATTCAGGGCCAGTGACATTGGACTTAAAGGTAG
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * * *
1500783 AGATGCCAATGTGCTGATTTAGGGCCAGCAACATTGGACTTAAAGATAG
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
* * * * * * *
1500832 AGGTGCCAATGTGCTAATTCCGAGCTAGCGGCATTTGACTTAAAGATGA
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
*
1500881 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGGCTTAAA
1 AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAA
1500925 AGAGTTACTA
Statistics
Matches: 863, Mismatches: 112, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 863 1.00
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (49 bp):
AGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGACTTAAAGATGG
Found at i:1501006 original size:28 final size:28
Alignment explanation
Indices: 1500966--1501019 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
1500956 AGGAATGGAG
*
1500966 TGCCACGGAGTTGTGGACTTAAAAAGGA
1 TGCCACAGAGTTGTGGACTTAAAAAGGA
1500994 TGCCACAGAGTTGTGGACTTAAAAAG
1 TGCCACAGAGTTGTGGACTTAAAAAG
1501020 AAAAATGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (28 bp):
TGCCACAGAGTTGTGGACTTAAAAAGGA
Found at i:1501024 original size:34 final size:33
Alignment explanation
Indices: 1500986--1501601 Score: 368
Period size: 34 Copynumber: 18.9 Consensus size: 33
1500976 TTGTGGACTT
1500986 AAAAAGGATGCCACAGAGTTGTGGACTTAAAAAG
1 AAAAAGG-TGCCACAGAGTTGTGGACTTAAAAAG
* *
1501020 AAAAATGGTACCACTA-AGTTGTGGACTTAAAAGG
1 AAAAA-GGTGCCAC-AGAGTTGTGGACTTAAAAAG
*
1501054 AAAAATGGTGCCACTA-AGTTGTGGAATTAAAAAG
1 AAAAA-GGTGCCAC-AGAGTTGTGGACTTAAAAAG
* ** *
1501088 AAAAATGTGCCACCCAGTCGTGGACTT-AAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAG
** *
1501120 ----A-GTGCCATGGAGTTGTGGA-TTTAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAG
* *
1501147 AATAAA-GTGCCACAGAGTTATGGACTTAAAAGG
1 AA-AAAGGTGCCACAGAGTTGTGGACTTAAAAAG
* *** *
1501180 AAAAAGGATACCGTGGAGTTGTGGACTTAAAAGG
1 AAAAAGG-TGCCACAGAGTTGTGGACTTAAAAAG
** * * * * *
1501214 TGAAAGAATGCCATAGAGTTATGGGCTTTGAAAAG
1 AAAAAG-GTGCCACAGAGTTGTGGAC-TTAAAAAG
*
1501249 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAA-GGTGCCACAGAGTTGTGGACTTAAAAAG
** * ** *
1501283 TGAAAGAGTGCCACAGAGTTGCAGGTTTTGAAAAG
1 AAAAAG-GTGCCACAGAGTTG-TGGACTTAAAAAG
* ** *
1501318 AAAAAGGTGTCATGGAATTGTGGACTT-AAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAG
* * **
1501350 AAAACGGTCCCATGGAGTTGTGGACTT-AAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAG
* * * *
1501382 GAAAAGGTGCCACGGAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAG
** * * * *
1501415 AAAAAGAGTGCCATGGAATTG-GGTCTTTGAGAAG
1 AAAAAG-GTGCCACAGAGTTGTGGAC-TTAAAAAG
*
1501449 AGAAAAGGTGCCACTA-AGTTGTGGACTTAAAAGG
1 A-AAAAGGTGCCAC-AGAGTTGTGGACTTAAAAAG
* * *
1501483 AAAAAGATGCCATAGAGTTATGGACTT------
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAG
*
1501510 AAAAAGGTGCCAC-GAAGTTGTGGGCTT-AAAAG
1 AAAAAGGTGCCACAG-AGTTGTGGACTTAAAAAG
* *
1501542 -----GGTGCCACGGAGTTGTGGGCTTAAAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGACTT-AAAAAG
*
1501571 AAAAAGGTGCCACAGAGTTGTGGACTGAAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAA
1501602 GGGTGCCATG
Statistics
Matches: 452, Mismatches: 92, Indels: 77
0.73 0.15 0.12
Matches are distributed among these distances:
26 3 0.01
27 60 0.13
28 2 0.00
29 5 0.01
32 80 0.18
33 68 0.15
34 186 0.41
35 47 0.10
36 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.22
Consensus pattern (33 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTAAAAAG
Found at i:1501412 original size:132 final size:134
Alignment explanation
Indices: 1501196--1501513 Score: 360
Period size: 132 Copynumber: 2.4 Consensus size: 134
1501186 GATACCGTGG
** * *
1501196 AGTTGTGGACTTAAAAGGTGAAAGAATGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGGTGCC
1 AGTTGTGGACTTAAAAGGAAAAAG-ATCCCATAGAGTTATGGAC-TT-AAAAGAAAAAGGGTGCC
* ** *
1501261 ACAGAGTTGTGGACTTAAAAGGTGAAAGAGTGCCACAGAGTTGCAGGT-TTTGAAAAGA-AAAAG
63 ACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAATTG--GGTCTTTGAAAAGAGAAAAG
*
1501324 GTGTCA-TGGA
126 GTGCCACT--A
* * * * * *
1501334 A-TTGTGGACTTAAAA-GAAAACGGTCCCATGGAGTTGTGGACTTAAAAGGAAAA-GGTGCCACG
1 AGTTGTGGACTTAAAAGGAAAAAGATCCCATAGAGTTATGGACTTAAAAGAAAAAGGGTGCCACA
** *
1501396 GAGTTATGGACTTAAAAGGAAAAAGAGTGCCATGGAATTGGGTCTTTGAGAAGAGAAAAGGTGCC
66 GAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAATTGGGTCTTTGAAAAGAGAAAAGGTGCC
1501461 ACTA
131 ACTA
*
1501465 AGTTGTGGACTTAAAAGGAAAAAGATGCCATAGAGTTATGGACTTAAAA
1 AGTTGTGGACTTAAAAGGAAAAAGATCCCATAGAGTTATGGACTTAAAA
1501514 AGGTGCCACG
Statistics
Matches: 152, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
130 3 0.02
131 11 0.07
132 66 0.43
133 37 0.24
134 2 0.01
135 14 0.09
136 4 0.03
137 14 0.09
138 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.30, T:0.22
Consensus pattern (134 bp):
AGTTGTGGACTTAAAAGGAAAAAGATCCCATAGAGTTATGGACTTAAAAGAAAAAGGGTGCCACA
GAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAATTGGGTCTTTGAAAAGAGAAAAGGTGCC
ACTA
Found at i:1501521 original size:27 final size:27
Alignment explanation
Indices: 1501483--1501628 Score: 105
Period size: 27 Copynumber: 5.1 Consensus size: 27
1501473 ACTTAAAAGG
* * * *
1501483 AAAAAGATGCCATAGAGTTATGGACTT
1 AAAAAGGTGCCACAGAGTTGTGGGCTT
1501510 AAAAAGGTGCCAC-GAAGTTGTGGGCTT
1 AAAAAGGTGCCACAG-AGTTGTGGGCTT
* *
1501537 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACAGAGTTGTGGGCTT
* *
1501564 AAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTG
1 -------AAAAAGGTGCCACAGAGTTGTGGGCTT
* ** *
1501598 AAAAGGGTGCCATGGAGTTATGGGCTT
1 AAAAAGGTGCCACAGAGTTGTGGGCTT
1501625 AAAA
1 AAAA
1501629 GAAAAAGATA
Statistics
Matches: 95, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.01
27 70 0.74
28 1 0.01
34 23 0.24
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (27 bp):
AAAAAGGTGCCACAGAGTTGTGGGCTT
Found at i:1501590 original size:61 final size:59
Alignment explanation
Indices: 1501510--1501655 Score: 195
Period size: 61 Copynumber: 2.4 Consensus size: 59
1501500 TTATGGACTT
* * *
1501510 AAAAAGGTGCCACGAAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAAAAAG
1 AAAAAGGTGCCACGAAGTTGTGGACTGAAAAGGGTGCCACGGAGTTATGGGCTT--AAAAG
*
1501571 AAAAAGGTGCCAC-AGAGTTGTGGACTGAAAAGGGTGCCATGGAGTTATGGGCTTAAAAG
1 AAAAAGGTGCCACGA-AGTTGTGGACTGAAAAGGGTGCCACGGAGTTATGGGCTTAAAAG
* * *
1501630 AAAAAGATACCACGAAGTCGTGGACT
1 AAAAAGGTGCCACGAAGTTGTGGACT
1501656 TGGATAAGAG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
59 26 0.34
60 2 0.03
61 48 0.63
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (59 bp):
AAAAAGGTGCCACGAAGTTGTGGACTGAAAAGGGTGCCACGGAGTTATGGGCTTAAAAG
Found at i:1501607 original size:88 final size:87
Alignment explanation
Indices: 1501451--1501629 Score: 234
Period size: 88 Copynumber: 2.1 Consensus size: 87
1501441 TTGAGAAGAG
* * * *
1501451 AAAA-GGTGCCACTAAGTTGTGGACTTAAAAGGAAAAAGATGCCATAGAGTTATGGACTTAAAAA
1 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGATGCCACAGAGTTATGGACTGAAAAA
*
1501515 GGTGCCACGAAGTTGTGGGCTT
66 GGTGCCACGAAGTTATGGGCTT
* * * *
1501537 AAAAGGGTGCCACGGAGTTGTGGGCTTAAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTGAAAA
1 AAAAGGGTGCCACGAAGTTGTGGACTT-AAAAAGAAAAAGATGCCACAGAGTTATGGACTGAAAA
* * *
1501602 GGGTGCCATGGAGTTATGGGCTT
65 AGGTGCCACGAAGTTATGGGCTT
1501625 AAAAG
1 AAAAG
1501630 AAAAAGATAC
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 4 0.05
87 19 0.24
88 56 0.71
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.21
Consensus pattern (87 bp):
AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGATGCCACAGAGTTATGGACTGAAAAA
GGTGCCACGAAGTTATGGGCTT
Found at i:1501679 original size:30 final size:30
Alignment explanation
Indices: 1501631--1501870 Score: 250
Period size: 30 Copynumber: 7.9 Consensus size: 30
1501621 GCTTAAAAGA
* *
1501631 AAAAGATACCAC-GAAGTCGTGGACTTGGAT
1 AAAAGATGCCACTG-AGTCGTGGACTTGGAG
* * *
1501661 AAGAGATGCCACTGAGTCGTGAACTTAGAG
1 AAAAGATGCCACTGAGTCGTGGACTTGGAG
*
1501691 AAAAGATGCCACTAAGTCGTGGACTTGGAG
1 AAAAGATGCCACTGAGTCGTGGACTTGGAG
1501721 AAAAGATGCCACTGAGTCGTGGACTTGGAG
1 AAAAGATGCCACTGAGTCGTGGACTTGGAG
* * *
1501751 AAGAGATACCACTGAGTCGTGGACTT-TAG
1 AAAAGATGCCACTGAGTCGTGGACTTGGAG
* * * * *
1501780 GAAGGGTGCCACAGAGTCGTGGGCTTTTGGAAG
1 AAAAGATGCCACTGAGTCGTGGAC--TTGG-AG
* *
1501813 AAAAAGGATGCTACTGAGTCGTGGACTTAGAG
1 -AAAA-GATGCCACTGAGTCGTGGACTTGGAG
* *
1501845 AAAAGATGCCATTGAGTCGTGAACTT
1 AAAAGATGCCACTGAGTCGTGGACTT
1501871 TTGGAAAAAG
Statistics
Matches: 172, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
29 19 0.11
30 121 0.70
31 7 0.04
32 2 0.01
33 5 0.03
34 2 0.01
35 16 0.09
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.22
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTGGAG
Found at i:1501739 original size:90 final size:91
Alignment explanation
Indices: 1501627--1501870 Score: 291
Period size: 90 Copynumber: 2.7 Consensus size: 91
1501617 ATGGGCTTAA
* *
1501627 AAGAAAAAGATACCAC-GAAGTCGTGGACTTGGATAAGAGATGCCACTGAGTCGTGAACTTAGAG
1 AAGAAAAAGATGCCACTG-AGTCGTGGACTTGGAGAAGAGATGCCACTGAGTCGTGAACTTAG-G
1501691 AAAAGATGCCACTA-AGTCGTGGAC-TTGG
64 -AAAGATGCCAC-AGAGTCGTGGACTTTGG
* *
1501719 -AG-AAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATACCACTGAGTCGTGGACTTTAGGA
1 AAGAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTGAGTCGTGAAC-TTAGGA
* * *
1501782 AGGGTGCCACAGAGTCGTGGGCTTTTGG
65 AAGATGCCACAGAGTCGTGGAC-TTTGG
* * * *
1501810 AAGAAAAAGGATGCTACTGAGTCGTGGACTTAGAGAAAAGATGCCATTGAGTCGTGAACTT
1 AAGAAAAA-GATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTGAGTCGTGAACTT
1501871 TTGGAAAAAG
Statistics
Matches: 131, Mismatches: 13, Indels: 15
0.82 0.08 0.09
Matches are distributed among these distances:
88 1 0.01
89 18 0.14
90 49 0.37
91 11 0.08
92 2 0.02
93 6 0.05
94 44 0.34
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (91 bp):
AAGAAAAAGATGCCACTGAGTCGTGGACTTGGAGAAGAGATGCCACTGAGTCGTGAACTTAGGAA
AGATGCCACAGAGTCGTGGACTTTGG
Found at i:1508283 original size:63 final size:61
Alignment explanation
Indices: 1507997--1508702 Score: 635
Period size: 61 Copynumber: 11.4 Consensus size: 61
1507987 GAACCTTTTA
* * *
1507997 ACCTTCTAGTCCTCAAAGAGTAGGACA-CTTT-CCTTTAAAAGCCCACACAAGTTGGTGGTAC
1 ACCTTTTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACACAAGTTGGTGG--C
* * * *
1508058 ACC--TTAGTCCTCAAAGAGCAGGGCACCTTTCCCTTTGAAAGCCCATACAAGTTAGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
1508117 ACCTTTTAGTCTTCAAAAAGCAAGG-CGCC-TTCTCCTTTTAAAGCCCATACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGC-AGGACACCTTTC-CCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
1508178 ACCTTTTAGTCCTCAAAAAGCAAGACACTTTTCCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGC
* * *
1508239 ACCTTTTCTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCTACACAAGCTGTTGGC
1 ACC-TTT-TAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGC
* * ** *
1508302 ACCTTTTAGTCTTCAAAGAGCAGGACGCCTCTCTCTTTTTTTATCTTAAAGCCTACACAAGTTGG
1 ACCTTTTAGTCCTCAAAGAGCAGGACACCT-T-TC----CCT-T-TTAAAGCCCACACAAGTTGG
1508367 TGGC
58 TGGC
* ** ** * * *
1508371 ACCTTTTAGTCCTCAAAGAGCAAGATGCCTTTCTTTTTTTAAAGCCCACATAAATTAGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACACCTTTC-CCTTTTAAAGCCCACACAAGTTGGTGGC
* * ** * * *
1508433 ACTTTTTTTAGTCCTCAAAGAACAAAACACCTTT-TCTTGTTAAAGCCCACATAAGTAGGTGGC
1 AC--CTTTTAGTCCTCAAAGAGCAGGACACCTTTCCCTT-TTAAAGCCCACACAAGTTGGTGGC
* * * * *
1508496 ATAACTTTTAGTCCTCAAAGAGTAGGACGCCTTTCCATTTTAAAGCCCACACAAGTTGATGGC
1 --ACCTTTTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGC
* ** * ** * * * *
1508559 ACCTTTTAGTCCCCAAAGAATAAGATGCCTTT-TCTTTTGAAAGCCTAAACAAGTTTGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTT-AAAGCCCACACAAGTTGGTGGC
* *
1508620 ACCTTTTAGTCCTCAAAGAGCAGGACA-C-TT-CCTTTTAAAGCCTACACAAGCTGGTGGC
1 ACCTTTTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGC
*
1508678 ACCTTTTAGT-CTCCAAAGAGTAGGA
1 ACCTTTTAGTCCT-CAAAGAGCAGGA
1508703 TGCCTCTCTC
Statistics
Matches: 541, Mismatches: 78, Indels: 55
0.80 0.12 0.08
Matches are distributed among these distances:
57 2 0.00
58 40 0.07
59 30 0.06
60 14 0.03
61 210 0.39
62 38 0.07
63 121 0.22
64 31 0.06
65 1 0.00
67 3 0.01
68 2 0.00
69 49 0.09
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (61 bp):
ACCTTTTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:1508496 original size:257 final size:252
Alignment explanation
Indices: 1508095--1508569 Score: 623
Period size: 257 Copynumber: 1.9 Consensus size: 252
1508085 TTTCCCTTTG
* * *
1508095 AAAGCCCATACAAGTTAGTGGCACCTTTTAGTCTTCAAAAAGCAAGGCGCCTTCTCCTTTTAAAG
1 AAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAAAGCAAGACGCCTTCTCCTTTTAAAG
* * * *
1508160 CCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGACACTTTTCCCTTTTAAAGCCCA
66 CCCACACAAATTAGTGGCACCTTTTAGTCCTCAAAAAGCAAAACACTTTT-CCTTTTAAAGCCCA
* * * *
1508225 CACAAGTTGGTGGC-ACCTTTTCTAGTCCTCAAAGAGCAGGACACCTTTCCCTTTTAAAGCCTAC
130 CACAAGTAGGTGGCAAAC-TTT-TAGTCCTCAAAGAGCAGGACACCTTTCCATTTTAAAGCCCAC
*
1508289 ACAAGCTGTTGGCACCTTTTAGTCTTCAAAGAGCAGGACGCCTCTCTCTTTTTTTATCTT
193 ACAAGCTGATGGCACCTTTTAGTCTTCAAAGAGCAGGACGCCTCTCTCTTTTTTTATCTT
* * * * **
1508349 AAAGCCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTTCTTTTTTTAAA
1 AAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAAAGCAAGACGCC-TTCTCCTTTTAAA
* *
1508414 GCCCACATAAATTAGTGGCACTTTTTTTAGTCCTCAAAGAA-CAAAACACCTTTT-CTTGTTAAA
65 GCCCACACAAATTAGTGGCAC--CTTTTAGTCCTCAAA-AAGCAAAACA-CTTTTCCTT-TTAAA
* * *
1508477 GCCCACATAAGTAGGTGGCATAACTTTTAGTCCTCAAAGAGTAGGACGCCTTTCCATTTTAAAGC
125 GCCCACACAAGTAGGTGGCA-AACTTTTAGTCCTCAAAGAGCAGGACACCTTTCCATTTTAAAGC
*
1508542 CCACACAAGTTGATGGCACCTTTTAGTC
189 CCACACAAGCTGATGGCACCTTTTAGTC
1508570 CCCAAAGAAT
Statistics
Matches: 189, Mismatches: 24, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
254 44 0.23
255 28 0.15
256 3 0.02
257 102 0.54
258 10 0.05
259 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (252 bp):
AAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAAAGCAAGACGCCTTCTCCTTTTAAAG
CCCACACAAATTAGTGGCACCTTTTAGTCCTCAAAAAGCAAAACACTTTTCCTTTTAAAGCCCAC
ACAAGTAGGTGGCAAACTTTTAGTCCTCAAAGAGCAGGACACCTTTCCATTTTAAAGCCCACACA
AGCTGATGGCACCTTTTAGTCTTCAAAGAGCAGGACGCCTCTCTCTTTTTTTATCTT
Found at i:1511907 original size:28 final size:27
Alignment explanation
Indices: 1511834--1511913 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 27
1511824 GCTCAAAGTT
* *
1511834 TTATTTATCAGGAATACTCCAACCCCA
1 TTATTTCTGAGGAATACTCCAACCCCA
*
1511861 TTATTTCTGAGGAGCTACTCCAACCCCA
1 TTATTTCTGAGGA-ATACTCCAACCCCA
* *
1511889 TTATTTTTGAGAGAATACTCAAACC
1 TTATTTCTGAG-GAATACTCCAACC
1511914 TCAATTTTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 11 0.24
28 32 0.71
29 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (27 bp):
TTATTTCTGAGGAATACTCCAACCCCA
Found at i:1511998 original size:76 final size:76
Alignment explanation
Indices: 1511870--1512190 Score: 371
Period size: 76 Copynumber: 4.2 Consensus size: 76
1511860 ATTATTTCTG
* * * * * * ** *
1511870 AGGAGCTACTCCAACCCCATTATTTTTGAGAGAATACTCAAACCTCAATTTTACTTTTAAAAATG
1 AGGAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGTTTTTACTTCTAAAAATG
1511935 TCAATTTTTAT
66 TCAATTTTTAT
* * *
1511946 AGGAGATACTCCAGCCCCATTATTCTCGAGGGGACACTCCAACCCCGTTTTTACTTCTAAAAATG
1 AGGAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGTTTTTACTTCTAAAAATG
**
1512011 TTGATTTTTATT
66 TCAATTTTTA-T
* * * * *
1512023 A-GAAATACTCCAACCCCATTATTTTCGAGTGGATACTTCAACCGCGTTTTTACTTTTAAAAATG
1 AGGAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGTTTTTACTTCTAAAAATG
1512087 TTC-ATTTTTAT
66 -TCAATTTTTAT
* * *
1512098 CAGG-GATACTCCAA-CCTATTATTTTCAAGGGGATATTCCAACCCCGTTTTTACTTCTAAAAAT
1 -AGGAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGTTTTTACTTCTAAAAAT
1512161 GTCAATTTTTAT
65 GTCAATTTTTAT
* *
1512173 TGGGGATACTCCAACCCC
1 AGGAGATACTCCAACCCC
1512191 TTTTTTATTT
Statistics
Matches: 205, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
74 4 0.02
75 62 0.30
76 135 0.66
77 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (76 bp):
AGGAGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGTTTTTACTTCTAAAAATG
TCAATTTTTAT
Found at i:1512187 original size:151 final size:152
Alignment explanation
Indices: 1511876--1512190 Score: 422
Period size: 151 Copynumber: 2.1 Consensus size: 152
1511866 TCTGAGGAGC
* *
1511876 TACTCCAACCCCATTATTTTTGAGAGAATACTCAAACCTCAATTTTACTTTTAAAAATGTCAATT
1 TACTCCAACCCCATTATTTTCGAGAGAATACTCAAACCGCAATTTTACTTTTAAAAATGTCAATT
* *
1511941 TTTATAGGAGATACTCCAGCCCCATTATTCTCGAGGGGACACTCCAACCCCGTTTTTACTTCTAA
66 TTTATAGGAGATACTCCAGACCCATTATTCTCAAGGGGACACTCCAACCCCGTTTTTACTTCTAA
**
1512006 AAATGTTGATTTTTATTAGAAA
131 AAATGTCAATTTTTATTAGAAA
* * **
1512028 TACTCCAACCCCATTATTTTCGAGTGGATACTTC-AACCGCGTTTTTACTTTTAAAAATGTTC-A
1 TACTCCAACCCCATTATTTTCGAGAGAATAC-TCAAACCGCAATTTTACTTTTAAAAATG-TCAA
* * * *
1512091 TTTTTATCAGG-GATACTCCA-ACCTATTATTTTCAAGGGGATATTCCAACCCCGTTTTTACTTC
64 TTTTTAT-AGGAGATACTCCAGACCCATTATTCTCAAGGGGACACTCCAACCCCGTTTTTACTTC
* **
1512154 TAAAAATGTCAATTTTTATTGGGGA
128 TAAAAATGTCAATTTTTATTAGAAA
1512179 TACTCCAACCCC
1 TACTCCAACCCC
1512191 TTTTTTATTT
Statistics
Matches: 143, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
151 69 0.48
152 67 0.47
153 7 0.05
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.37
Consensus pattern (152 bp):
TACTCCAACCCCATTATTTTCGAGAGAATACTCAAACCGCAATTTTACTTTTAAAAATGTCAATT
TTTATAGGAGATACTCCAGACCCATTATTCTCAAGGGGACACTCCAACCCCGTTTTTACTTCTAA
AAATGTCAATTTTTATTAGAAA
Found at i:1512207 original size:47 final size:48
Alignment explanation
Indices: 1512126--1512217 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
1512116 TTATTTTCAA
* *
1512126 GGGGATATTCCAACCCCGTTTTTACTTCTAAAAATGTCAATTTTTATT
1 GGGGATACTCCAACCCCGTTTTTACTTCTAAAAATATCAATTTTTATT
* * *
1512174 GGGGATACTCCAACCCCTTTTTTA-TTTTCAAAATATCAATTTTT
1 GGGGATACTCCAACCCCGTTTTTACTTCTAAAAATATCAATTTTT
1512218 CACCATCGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 17 0.44
48 22 0.56
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (48 bp):
GGGGATACTCCAACCCCGTTTTTACTTCTAAAAATATCAATTTTTATT
Found at i:1512257 original size:79 final size:79
Alignment explanation
Indices: 1512174--1512378 Score: 274
Period size: 79 Copynumber: 2.6 Consensus size: 79
1512164 AATTTTTATT
* * * *
1512174 GGGGATACTCCAACCCCTTTTTTATTTTCAAAATATCAATTTTTCACCATCGGGGATACTCCAA-
1 GGGGATACTCCAACCCCATTTTTATCTCCAAAATATAAATTTTTCACCATCGGGGATACTCCAAC
1512238 CC-TTGTTATTTCCAA
66 CCATTGTT-TTT-CAA
* *
1512253 GGGGATACTCCAACCCCAGTTTTATCTCCAAAATATTAATTTTTCACCATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCATTTTTATCTCCAAAATATAAATTTTTCACCATCGGGGATACTCCAA-
*
1512318 CCCATTGTTTTTGAA
65 CCCATTGTTTTTCAA
1512333 -GGGATAC-CCTAACCCCATTTTTATCTCCAAAATATTAAATTTTTCA
1 GGGGATACTCC-AACCCCATTTTTATCTCCAAAATA-TAAATTTTTCA
1512379 TCGAGGAATG
Statistics
Matches: 113, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
78 2 0.02
79 89 0.79
80 12 0.11
81 5 0.04
82 5 0.04
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (79 bp):
GGGGATACTCCAACCCCATTTTTATCTCCAAAATATAAATTTTTCACCATCGGGGATACTCCAAC
CCATTGTTTTTCAA
Found at i:1514567 original size:20 final size:20
Alignment explanation
Indices: 1514544--1514620 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
1514534 AAGTGCCCAT
1514544 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1514564 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1514584 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
1514604 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
1514621 GTCTTTTTAC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1519722 original size:40 final size:40
Alignment explanation
Indices: 1519678--1519756 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
1519668 GTAACTAAGT
1519678 TGGAAAAAGATGGAAAAGGGGTTATTTAGGTTATGGTTGC
1 TGGAAAAAGATGGAAAAGGGGTTATTTAGGTTATGGTTGC
*
1519718 TGGAAAAAGATGGAAAAGGGGTTGTTTAGGTTATGGTTG
1 TGGAAAAAGATGGAAAAGGGGTTATTTAGGTTATGGTTG
1519757 AGGAGAGGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.01, G:0.37, T:0.30
Consensus pattern (40 bp):
TGGAAAAAGATGGAAAAGGGGTTATTTAGGTTATGGTTGC
Found at i:1522105 original size:80 final size:79
Alignment explanation
Indices: 1521854--1522211 Score: 253
Period size: 80 Copynumber: 4.5 Consensus size: 79
1521844 CTAAAAAAAT
* * ** * * *
1521854 CAAAATTTTCATCT-TCGGGGATACTCCAACCCCATTATCTC-CAAGAGAATACTCCAACCCCAT
1 CAAATTTTTCATCTCT-AGGGATACTCCAACCCCACCATCTCTAAAAAG-ATACTCCAA-CCCGT
*
1521917 TTCTACTTCCAAAATAC
63 TTCTACTTCCAAAATGC
* * * ** * ** * ** *
1521934 TAAAATTTTCATCTTTAAAGATACTCCAACCCCAACA--TC-AAAGGGGTACTATAACCCTTATT
1 CAAATTTTTCATCTCTAGGGATACTCCAACCCCACCATCTCTAAAAAGATACTCCAACCCGT-TT
* * **
1521996 TTCACTTCTAAAACAC
65 CT-ACTTCCAAAATGC
* * ** * *
1522012 CAAAATTTTCATCTCTAGGGATACTCCGACCCCACCATCAT-TGCAAGGATACTCCAATCTCGTT
1 CAAATTTTTCATCTCTAGGGATACTCCAACCCCACCATC-TCTAAAAAGATACTCCAA-CCCGTT
1522076 TCTACTTCCAAAATGC
64 TCTACTTCCAAAATGC
* * *
1522092 CAAATTTTTCATCTCTGGGGATACTCTAACCCCACCATCTCTAAAAAGATACTCCAACCCGTTTT
1 CAAATTTTTCATCTCTAGGGATACTCCAACCCCACCATCTCTAAAAAGATACTCCAACCCGTTTC
* *
1522157 TATTTCCAAAATGT
66 TACTTCCAAAATGC
* * * *
1522171 CAAATTTTTGATCTCCAAGGATACTCCAA-CCCATCATCTCT
1 CAAATTTTTCATCTCTAGGGATACTCCAACCCCACCATCTCT
1522212 GAGCAGATAC
Statistics
Matches: 219, Mismatches: 50, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
76 4 0.02
77 9 0.04
78 59 0.27
79 43 0.20
80 87 0.40
81 14 0.06
82 3 0.01
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (79 bp):
CAAATTTTTCATCTCTAGGGATACTCCAACCCCACCATCTCTAAAAAGATACTCCAACCCGTTTC
TACTTCCAAAATGC
Found at i:1522115 original size:158 final size:159
Alignment explanation
Indices: 1521835--1522130 Score: 366
Period size: 158 Copynumber: 1.9 Consensus size: 159
1521825 CCAATCTCTG
* * **
1521835 TTTTCACTTCTAAAAAAATCAAAATTTTCATCTTCGGGGATACTCCAACCCCATTATCTCCAAGA
1 TTTTCACTTCTAAAAAAACCAAAATTTTCATCTTCAGGGATACTCCAACCCCACCATCTCCAAGA
* *
1521900 GAATACTCCAACCCCATTTCTACTTCCAAAATACTAAAATTTTCATCTTTAAAGATACTCCAACC
66 GAATACTCCAACCCCATTTCTACTTCCAAAATACCAAAATTTTCATCTCTAAAGATACTCCAACC
1521965 CCAACATCAAAGGGGTACTATAACCCTTA
131 CCAACATCAAAGGGGTACTATAACCCTTA
* * *
1521994 TTTTCACTTCT-AAAACACCAAAATTTTCATC-TCTAGGGATACTCCGACCCCACCATCATTGCA
1 TTTTCACTTCTAAAAAAACCAAAATTTTCATCTTC-AGGGATACTCCAACCCCACCATC--TCCA
* * * * * *** *
1522057 AG-G-ATACTCCAATCTCGTTTCTACTTCCAAAATGCCAAATTTTTCATCTCTGGGGATACTCTA
63 AGAGAATACTCCAACCCCATTTCTACTTCCAAAATACCAAAATTTTCATCTCTAAAGATACTCCA
*
1522120 ACCCCACCATC
128 ACCCCAACATC
1522131 TCTAAAAAGA
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
157 2 0.02
158 96 0.83
159 12 0.10
160 5 0.04
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.30
Consensus pattern (159 bp):
TTTTCACTTCTAAAAAAACCAAAATTTTCATCTTCAGGGATACTCCAACCCCACCATCTCCAAGA
GAATACTCCAACCCCATTTCTACTTCCAAAATACCAAAATTTTCATCTCTAAAGATACTCCAACC
CCAACATCAAAGGGGTACTATAACCCTTA
Found at i:1523060 original size:20 final size:20
Alignment explanation
Indices: 1523018--1523071 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1523008 TTTTACAATT
1523018 TGTATTGATACAATAAATAAA
1 TGTATTGATAC-ATAAATAAA
* * *
1523039 TGTATCGATACATAAGTGAA
1 TGTATTGATACATAAATAAA
*
1523059 TGTTTTGATACAT
1 TGTATTGATACAT
1523072 GCCTAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (20 bp):
TGTATTGATACATAAATAAA
Found at i:1523188 original size:51 final size:52
Alignment explanation
Indices: 1523128--1523265 Score: 181
Period size: 51 Copynumber: 2.7 Consensus size: 52
1523118 TCTGGAAAGA
* * *
1523128 AAATATATCGATACATTTTTCATTATATCGATACATTTTGGGTTTTGATCC-
1 AAATGTATCGATACATTTTTCATTATATCGATACATTCTGGGTTTTGAACCT
* * *
1523179 AAATGTATCGATACATTTTTCATTGTATTGATACATTCTGGGTTTTTAACCT
1 AAATGTATCGATACATTTTTCATTATATCGATACATTCTGGGTTTTGAACCT
* * *
1523231 AAATGTATGGATACATTCTT-AATATATCGATACAT
1 AAATGTATCGATACATTTTTCATTATATCGATACAT
1523266 CCAGTTAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
51 57 0.76
52 18 0.24
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTATATCGATACATTCTGGGTTTTGAACCT
Found at i:1527530 original size:35 final size:34
Alignment explanation
Indices: 1527398--1527560 Score: 125
Period size: 35 Copynumber: 4.8 Consensus size: 34
1527388 AGGAGACGCA
* *
1527398 ACTAGGGTAGAACCAACTAGTCAAAAGAAAGATTG
1 ACTAGGGTAAAACCAATTAGTCAAAAGAAAG-TTG
* * * * * *
1527433 GCTAAGGCAAAACCTATTAGTTAAGAG-AAG-TG
1 ACTAGGGTAAAACCAATTAGTCAAAAGAAAGTTG
* * ** * *
1527465 ACTAGGATGAAACCAATTAGTTGAAGGAAAGATTA
1 ACTAGGGTAAAACCAATTAGTCAAAAGAAAG-TTG
* *
1527500 ACTAGGGTAAAACCTATTAGTCAAAAGAAAGGTG
1 ACTAGGGTAAAACCAATTAGTCAAAAGAAAGTTG
* *
1527534 ATTA-GGCAAAACCAATTAGTCAAAAGA
1 ACTAGGGTAAAACCAATTAGTCAAAAGA
1527561 GGCAACTAAA
Statistics
Matches: 96, Mismatches: 29, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
32 20 0.21
33 24 0.25
34 7 0.07
35 45 0.47
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.20
Consensus pattern (34 bp):
ACTAGGGTAAAACCAATTAGTCAAAAGAAAGTTG
Found at i:1527602 original size:100 final size:102
Alignment explanation
Indices: 1527397--1527612 Score: 222
Period size: 100 Copynumber: 2.1 Consensus size: 102
1527387 TAGGAGACGC
* * * * * *
1527397 AACTAGGGTAGAACCAACTAGTCAAAAGAAAGATTGGCTAAGGCAAAACCTATTAGTTAAGAGAA
1 AACTAGGGTAAAACCAACTAGTCAAAAGAAAGAGTGGATAAGGCAAAACCAATTAGTCAAAAGAA
** * * *
1527462 GTGACTAGGATGAAACCAATTAGTTGAAGGAAAGATT
66 GCAACTAAGATGAAACCAATTAGTCGAAAGAAAGATT
* * * *
1527499 AACTAGGGTAAAACCTATTAGTCAAAAGAAAG-GT-GATTAGGCAAAACCAATTAGTCAAAAGAG
1 AACTAGGGTAAAACCAACTAGTCAAAAGAAAGAGTGGATAAGGCAAAACCAATTAGTCAAAAGAA
* * *
1527562 GCAACTAAAGA-GAAACTAATTTGTCGAAAGAAGGATT
66 GCAACT-AAGATGAAACCAATTAGTCGAAAGAAAGATT
* *
1527599 AACTAAGGCAAAAC
1 AACTAGGGTAAAAC
1527613 ATATCAATCA
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
100 60 0.65
101 4 0.04
102 29 0.31
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.19
Consensus pattern (102 bp):
AACTAGGGTAAAACCAACTAGTCAAAAGAAAGAGTGGATAAGGCAAAACCAATTAGTCAAAAGAA
GCAACTAAGATGAAACCAATTAGTCGAAAGAAAGATT
Found at i:1527691 original size:67 final size:67
Alignment explanation
Indices: 1527499--1527696 Score: 176
Period size: 67 Copynumber: 3.0 Consensus size: 67
1527489 AGGAAAGATT
* * * *
1527499 AACTAGGGTA-AAACCTATTAGTCAAAAGAAAGG-TGATTAGGCAAAACCAATTAGTCAA-AAGA
1 AACTAGGG-AGAAACCAATTATTCAAAAGAAAGGTTGACTAGGCAAAACCTATTAGTCAAGAAGA
1527561 GGC
65 GGC
** * * * * * *
1527564 AACTAAAGAGAAACTAATT-TGTCGAAAG-AAGGATTAACTAAGGCAAAACATATCAATCAAGAA
1 AACTAGGGAGAAACCAATTAT-TCAAAAGAAAGG-TTGACT-AGGCAAAACCTATTAGTCAAGAA
1527627 -AGGC
63 GAGGC
* *
1527631 AACTAGGGCGAAACCAATTATTCAAAAGAAAGGTTGACCAGGGCAAAACCTATTAGTCAAG-AGA
1 AACTAGGGAGAAACCAATTATTCAAAAGAAAGGTTGACTA-GGCAAAACCTATTAGTCAAGAAGA
1527695 GG
65 GG
1527697 TGACTAAAGA
Statistics
Matches: 101, Mismatches: 22, Indels: 18
0.72 0.16 0.13
Matches are distributed among these distances:
64 5 0.05
65 19 0.19
66 5 0.05
67 65 0.64
68 7 0.07
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (67 bp):
AACTAGGGAGAAACCAATTATTCAAAAGAAAGGTTGACTAGGCAAAACCTATTAGTCAAGAAGAG
GC
Found at i:1528136 original size:55 final size:56
Alignment explanation
Indices: 1528017--1528137 Score: 135
Period size: 55 Copynumber: 2.2 Consensus size: 56
1528007 TATCAGTTAC
* * **
1528017 TCTTAGGCTTTCTCATTTTGGTGTCAATTTTGACTATAATGAAATTATCAACTACT
1 TCTTAGGCTTTCTCATTTTGGTGTCAATATTAACTATAAAAAAATTATCAACTACT
*
1528073 T-TTGGGCTTTCTCATTTTGGCT-TCAATATTAACTA-AGAAAAAATCTATCAACTA-T
1 TCTTAGGCTTTCTCATTTTGG-TGTCAATATTAACTATA-AAAAAAT-TATCAACTACT
1528128 TCTT-GGCTTT
1 TCTTAGGCTTT
1528138 TAAATTTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
54 1 0.02
55 42 0.75
56 13 0.23
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (56 bp):
TCTTAGGCTTTCTCATTTTGGTGTCAATATTAACTATAAAAAAATTATCAACTACT
Found at i:1529523 original size:21 final size:21
Alignment explanation
Indices: 1529488--1529543 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1529478 TGCCAAACCT
* * *
1529488 TATATCAATATAATAGGCAAA
1 TATATCGATACAATAAGCAAA
*
1529509 TGTATCGATACAATAAGCAAA
1 TATATCGATACAATAAGCAAA
1529530 TATATCGATACAAT
1 TATATCGATACAAT
1529544 CACCTTTGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (21 bp):
TATATCGATACAATAAGCAAA
Found at i:1532229 original size:27 final size:27
Alignment explanation
Indices: 1532191--1532257 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
1532181 ATCATTGTCG
1532191 GGGACACTCCAACCCAATTCCTTCAAA
1 GGGACACTCCAACCCAATTCCTTCAAA
1532218 GGGACACTCCAACCCAATTCCTTCAAA
1 GGGACACTCCAACCCAATTCCTTCAAA
1532245 GGGACACTCCAAC
1 GGGACACTCCAAC
1532258 GCCGTTTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.33, C:0.37, G:0.13, T:0.16
Consensus pattern (27 bp):
GGGACACTCCAACCCAATTCCTTCAAA
Found at i:1538134 original size:20 final size:20
Alignment explanation
Indices: 1538109--1538174 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
1538099 AAAATGATGA
1538109 AAAAGTGGGAGATAATTGTT
1 AAAAGTGGGAGATAATTGTT
* * * *
1538129 AAAAGT-GAAAAAAATTTTT
1 AAAAGTGGGAGATAATTGTT
*
1538148 TAAAG-GAGGAGATAATTGTT
1 AAAAGTG-GGAGATAATTGTT
1538168 AAAAGTG
1 AAAAGTG
1538175 AAAAAAAATT
Statistics
Matches: 33, Mismatches: 10, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
19 13 0.39
20 19 0.58
21 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (20 bp):
AAAAGTGGGAGATAATTGTT
Found at i:1538141 original size:39 final size:39
Alignment explanation
Indices: 1538098--1538206 Score: 114
Period size: 39 Copynumber: 2.8 Consensus size: 39
1538088 TCCGGAAGGC
1538098 AAAAATGATGAAAAAGTG-GGAGATAATTGTTAAAAGTGAA
1 AAAAAT-ATGAAAAAG-GAGGAGATAATTGTTAAAAGTGAA
* ***
1538138 AAAAATTTTTTAAAGGAGGAGATAATTGTTAAAAGTGAA
1 AAAAATATGAAAAAGGAGGAGATAATTGTTAAAAGTGAA
***
1538177 AAAAA-ATTTTTAAAGGAGGAGATAATTGTT
1 AAAAATA-TGAAAAAGGAGGAGATAATTGTT
1538207 TAAGGGGGAG
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 1 0.02
39 55 0.89
40 6 0.10
ACGTcount: A:0.50, C:0.00, G:0.22, T:0.28
Consensus pattern (39 bp):
AAAAATATGAAAAAGGAGGAGATAATTGTTAAAAGTGAA
Found at i:1538184 original size:20 final size:20
Alignment explanation
Indices: 1538122--1538190 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
1538112 AGTGGGAGAT
1538122 AATTGTTAAAAGTG-AAAAA
1 AATTGTTAAAAGTGAAAAAA
* * * * *
1538141 AATTTTTTAAAG-GAGGAGAT
1 AATTGTTAAAAGTGA-AAAAA
1538161 AATTGTTAAAAGTGAAAAAA
1 AATTGTTAAAAGTGAAAAAA
*
1538181 AATTTTTAAA
1 AATTGTTAAA
1538191 GGAGGAGATA
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
18 1 0.03
19 10 0.28
20 23 0.64
21 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
AATTGTTAAAAGTGAAAAAA
Found at i:1538208 original size:20 final size:20
Alignment explanation
Indices: 1538141--1538209 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
1538131 AAGTGAAAAA
*
1538141 AATTTTTTAAAGGAGGAGAT
1 AATTGTTTAAAGGAGGAGAT
* * * *
1538161 AATTGTTAAAAGTGA-AAAAA
1 AATTGTTTAAAG-GAGGAGAT
1538181 AATT-TTTAAAGGAGGAGAT
1 AATTGTTTAAAGGAGGAGAT
1538200 AATTGTTTAA
1 AATTGTTTAA
1538210 GGGGGAGAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 2 0.05
19 12 0.32
20 21 0.57
21 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.20, T:0.33
Consensus pattern (20 bp):
AATTGTTTAAAGGAGGAGAT
Found at i:1538211 original size:19 final size:19
Alignment explanation
Indices: 1538150--1538217 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
1538140 AAATTTTTTA
*
1538150 AAGGAGGAGATAATTGTTAA
1 AAGGAGGAGATAATTGTT-T
* * *
1538170 AAGTGA-AAAAAAATT-TTT
1 AAG-GAGGAGATAATTGTTT
1538188 AAAGGAGGAGATAATTGTTT
1 -AAGGAGGAGATAATTGTTT
*
1538208 AAGGGGGAGA
1 AAGGAGGAGA
1538218 AAAATGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 9
0.68 0.15 0.17
Matches are distributed among these distances:
18 2 0.06
19 20 0.56
20 12 0.33
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (19 bp):
AAGGAGGAGATAATTGTTT
Found at i:1538221 original size:39 final size:39
Alignment explanation
Indices: 1538116--1538222 Score: 135
Period size: 39 Copynumber: 2.7 Consensus size: 39
1538106 TGAAAAAGTG
* *
1538116 GGAGATAATTG-TTAAAAGTGAAAAAAATTTTTTAAAGGA
1 GGAGATAATTGTTTAAAGGGGAAAAAAA-TTTTTAAAGGA
* * *
1538155 GGAGATAATTGTTAAAAGTGAAAAAAAATTTTTAAAGGA
1 GGAGATAATTGTTTAAAGGGGAAAAAAATTTTTAAAGGA
* *
1538194 GGAGATAATTGTTTAAGGGGGAGAAAAAT
1 GGAGATAATTGTTTAAAGGGGAAAAAAAT
1538223 GAAAACTTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 46 0.81
40 11 0.19
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (39 bp):
GGAGATAATTGTTTAAAGGGGAAAAAAATTTTTAAAGGA
Found at i:1538747 original size:20 final size:20
Alignment explanation
Indices: 1538724--1538798 Score: 71
Period size: 21 Copynumber: 3.8 Consensus size: 20
1538714 CACACCCAGA
* *
1538724 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGATGCAT
* *
1538744 TGTATCAATACAT-ATTCAT
1 TGTATCGATACATGATGCAT
***
1538763 TGTATCGATACATGGACAAAT
1 TGTATCGATACAT-GATGCAT
1538784 TGTATCGATACATGA
1 TGTATCGATACATGA
1538799 AACTAGCAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 15 0.33
20 14 0.31
21 16 0.36
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGATGCAT
Found at i:1538852 original size:20 final size:20
Alignment explanation
Indices: 1538827--1538925 Score: 91
Period size: 20 Copynumber: 5.7 Consensus size: 20
1538817 TATCACTATT
1538827 TGTATCGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
1538847 TGTATCGATACAT-------
1 TGTATCGATACATGAAGAAA
1538860 TGTATCGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
*
1538880 TGTATCAATACAT-------
1 TGTATCGATACATGAAGAAA
1538893 TGTATCGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
1538913 TGTATCGATACAT
1 TGTATCGATACAT
1538926 AGCTTGTAAC
Statistics
Matches: 63, Mismatches: 2, Indels: 28
0.68 0.02 0.30
Matches are distributed among these distances:
13 25 0.40
20 38 0.60
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAA
Found at i:1538865 original size:13 final size:13
Alignment explanation
Indices: 1538847--1538905 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
1538837 CATGAAGAAA
1538847 TGTATCGATACAT
1 TGTATCGATACAT
1538860 TGTATCGATACA-
1 TGTATCGATACAT
*
1538872 TG-A-AGA-A-A-
1 TGTATCGATACAT
*
1538880 TGTATCAATACAT
1 TGTATCGATACAT
1538893 TGTATCGATACAT
1 TGTATCGATACAT
1538906 GAAGAAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
8 3 0.08
9 2 0.05
10 3 0.08
11 2 0.05
12 3 0.08
13 24 0.65
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1538868 original size:33 final size:33
Alignment explanation
Indices: 1538826--1538925 Score: 191
Period size: 33 Copynumber: 3.0 Consensus size: 33
1538816 CTATCACTAT
1538826 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATGAAGAAATGTATCGATACA
*
1538859 TTGTATCGATACATGAAGAAATGTATCAATACA
1 TTGTATCGATACATGAAGAAATGTATCGATACA
1538892 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATGAAGAAATGTATCGATACA
1538925 T
1 T
1538926 AGCTTGTAAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (33 bp):
TTGTATCGATACATGAAGAAATGTATCGATACA
Found at i:1540817 original size:33 final size:32
Alignment explanation
Indices: 1540780--1540843 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
1540770 TATAAGCCAA
1540780 TGTATCGATACAT-TTTGGGATGTATCGATACAT
1 TGTATCGATACATATTT-GG-TGTATCGATACAT
1540813 TGTATCGATACATATTTGGTGTATCGATACA
1 TGTATCGATACATATTTGGTGTATCGATACA
1540844 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 12 0.40
33 15 0.50
34 3 0.10
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTTGGTGTATCGATACAT
Found at i:1540818 original size:13 final size:13
Alignment explanation
Indices: 1540800--1540825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1540790 CATTTTGGGA
1540800 TGTATCGATACAT
1 TGTATCGATACAT
1540813 TGTATCGATACAT
1 TGTATCGATACAT
1540826 ATTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1549591 original size:13 final size:13
Alignment explanation
Indices: 1549573--1549598 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1549563 ATTTTTGGGA
1549573 TGTATCGATACAT
1 TGTATCGATACAT
1549586 TGTATCGATACAT
1 TGTATCGATACAT
1549599 ATTGGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1556961 original size:23 final size:23
Alignment explanation
Indices: 1556931--1556980 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
1556921 TTTTTTTTAT
1556931 AAAGGGGGAGAAGATAATTGTTA
1 AAAGGGGGAGAAGATAATTGTTA
1556954 AAAGGGGGAGAAGATAATTGTTA
1 AAAGGGGGAGAAGATAATTGTTA
1556977 AAAG
1 AAAG
1556981 AGAAAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (23 bp):
AAAGGGGGAGAAGATAATTGTTA
Found at i:1557546 original size:33 final size:32
Alignment explanation
Indices: 1557504--1557568 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1557494 AACCCTTGAA
*
1557504 TGTATCGATACATGCTGCTTTGTATCAATACAT
1 TGTATCGATACATG-TGCATTGTATCAATACAT
* *
1557537 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCAATACAT
1557569 GGACAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCAATACAT
Found at i:1557580 original size:21 final size:19
Alignment explanation
Indices: 1557533--1557590 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
1557523 TTGTATCAAT
*
1557533 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
1557552 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1557571 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
1557591 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1557661 original size:33 final size:32
Alignment explanation
Indices: 1557619--1557683 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1557609 CTATCACTAT
1557619 TTGTATCGATACATG-GTACAATGTATCGATACG
1 TTGTATCGATACATGAGT--AATGTATCGATACG
1557652 TTGTATCGATACATGAAGTAATGTATCGATAC
1 TTGTATCGATACATG-AGTAATGTATCGATAC
1557684 ATAGCTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
35 2 0.07
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATGAGTAATGTATCGATACG
Found at i:1563853 original size:33 final size:33
Alignment explanation
Indices: 1563816--1563882 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1563806 TTCAACGATT
1563816 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1563849 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1563882 T
1 T
1563883 TGAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1563854 original size:13 final size:13
Alignment explanation
Indices: 1563836--1563860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1563826 CATAAAATGT
1563836 TGTATCGATACAA
1 TGTATCGATACAA
1563849 TGTATCGATACA
1 TGTATCGATACA
1563861 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1563941 original size:13 final size:13
Alignment explanation
Indices: 1563923--1563947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1563913 ATTACTCAAA
1563923 TGTATCGATACAT
1 TGTATCGATACAT
1563936 TGTATCGATACA
1 TGTATCGATACA
1563948 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1564012 original size:52 final size:52
Alignment explanation
Indices: 1563956--1564080 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
1563946 CACCGATCTT
* *
1563956 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
* *
1564008 TGTATCGATACATGCAGGCAAATCTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
1564060 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1564081 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:1568982 original size:31 final size:31
Alignment explanation
Indices: 1568820--1569373 Score: 525
Period size: 31 Copynumber: 17.9 Consensus size: 31
1568810 ATCTCTCTTC
* *
1568820 TCAAAGTCCACAACTCAGTGGCATCTCTT-T
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * *
1568850 TCTAAGTCCATGACTTAGTGGCATCCTCTTCT
1 TCAAAGTCCACGACTCAGTGGCAT-CTTTTCT
* * *
1568882 TCAAAGTCCACAACTTAGTGGCATCTTTTTTTTT
1 TCAAAGTCCACGACTCAGTGGCATC---TTTTCT
* * *
1568916 TCGAAGTCCACGACTTAGTGGCATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
1568946 CCAAAGTCCACAACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
1568977 TCAAAGTCCACGACTCCGTGGCATTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
1569008 TCAAAGTCCACAACTCCGTGGCATTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * *
1569039 TCAAAGTCCATGACTCAGTAGCATCTCTTCC
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
**
1569070 T-AAAGTCCATTACTCAGTGGCA--TTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
1569098 TCAAAGTCCACGACTCAATGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* *
1569129 TCAAAGTCTACGACTCTGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
1569160 TCAAAGTCCATGAATCTA-TGGCATTTTTTCT
1 TCAAAGTCCACGACTC-AGTGGCATCTTTTCT
* * *
1569191 TCAAAGTCCACAACTCTGTGGCATTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * * * *
1569222 TCAAAGTGCATGACTTAGTGCCAT-TTCTTCC
1 TCAAAGTCCACGACTCAGTGGCATCTT-TTCT
*
1569253 T-AAAGTCCATGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* *
1569283 TCAAAGTCTACGACTCAGTGGCAATCTCTTC-
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTCT
* * *
1569314 TCAAAGTCCACAACTCAGTGGCATCTCTTCC
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
1569345 CCAAAGTCCACGACTCTGTGGCACCTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTT
1569374 TTTTTAAGTC
Statistics
Matches: 434, Mismatches: 72, Indels: 35
0.80 0.13 0.06
Matches are distributed among these distances:
28 5 0.01
29 17 0.04
30 105 0.24
31 247 0.57
32 33 0.08
34 27 0.06
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:1569153 original size:183 final size:183
Alignment explanation
Indices: 1568820--1569367 Score: 724
Period size: 183 Copynumber: 3.0 Consensus size: 183
1568810 ATCTCTCTTC
* * * *
1568820 TCAAAGTCCACAACTCAGTGGCATCTCTT-TTCTAAGTCCATGACTTAGTGGCATCCTCTTCTTC
1 TCAAAGTCCACAACTCAGTGGCATTTTTTCTTCAAAGTCCATGACTTAGT-GCAT-CTCTTCCT-
* * * * * *
1568884 AAAGTCCACAACTTAGTGGCATCTTTTTTTTTTCGAAGTCCACGACTTAGTGGC-ATCTCTTCCC
63 AAAGTCCATAACTCAGTGGCA----TTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
1568948 AAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCCGTGGCATTTTTTCT
124 AAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCTGTGGCATTTTTTCT
* *
1569008 TCAAAGTCCACAACTCCGTGGCATTTTTTCTTCAAAGTCCATGACTCAGTAGCATCTCTTCCTAA
1 TCAAAGTCCACAACTCAGTGGCATTTTTTCTTCAAAGTCCATGACTTAGT-GCATCTCTTCCTAA
* *
1569073 AGTCCATTACTCAGTGGCA-TTTTCTTCAAAGTCCACGACTCAATGGCAATCTCTTCTCAAAGTC
65 AGTCCATAACTCAGTGGCATTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTC
* * * * * *
1569137 TACGACTCTGTGGCATCTTTTCTTCAAAGTCCATGAATCTATGGCATTTTTTCT
130 CACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCTGTGGCATTTTTTCT
* * *
1569191 TCAAAGTCCACAACTCTGTGGCATTTTTTCTTCAAAGTGCATGACTTAGTGCCATTTCTTCCTAA
1 TCAAAGTCCACAACTCAGTGGCATTTTTTCTTCAAAGTCCATGACTTAGTG-CATCTCTTCCTAA
* *
1569256 AGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCTACGACTCAGTGGCAATCTCTTCTCAAAGT
65 AGTCCATAACTCAGTGGCAT-TTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGT
* **
1569321 CCACAACTCAGTGGCATCTCTTCCCCAAAGTCCACGACTCTGTGGCA
129 CCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCTGTGGCA
1569368 CCTTTTTTTT
Statistics
Matches: 317, Mismatches: 38, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
182 25 0.08
183 139 0.44
185 80 0.25
187 18 0.06
188 33 0.10
189 22 0.07
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.34
Consensus pattern (183 bp):
TCAAAGTCCACAACTCAGTGGCATTTTTTCTTCAAAGTCCATGACTTAGTGCATCTCTTCCTAAA
GTCCATAACTCAGTGGCATTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCC
ACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCTGTGGCATTTTTTCT
Found at i:1569450 original size:27 final size:27
Alignment explanation
Indices: 1569348--1569552 Score: 106
Period size: 27 Copynumber: 7.0 Consensus size: 27
1569338 CTCTTCCCCA
* *
1569348 AAGTCCACGACTCTGTGGCACCTTTTTTTTT
1 AAGTCCACAACTCTGTGGCACC----CTTTT
* *
1569379 AAGTCCATAA-TTTCGTGGCACCCTTTT
1 AAGTCCACAACTCT-GTGGCACCCTTTT
** * * *
1569406 AACCCCAGATCTCCGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT
*
1569433 AAGTCCATAACTCTGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCA-C-----CCTTTT
* * * *
1569466 AAGTCCACAACTTTATAGCACCTTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT
*
1569493 AAGTCCACAACTCTATGGCATCCTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCA-CC----C-TTTT
*
1569526 AAGTCCACGACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT
1569553 CCCTTTCAAG
Statistics
Matches: 135, Mismatches: 25, Indels: 32
0.70 0.13 0.17
Matches are distributed among these distances:
27 65 0.48
28 5 0.04
30 2 0.01
31 16 0.12
32 3 0.02
33 44 0.33
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.38
Consensus pattern (27 bp):
AAGTCCACAACTCTGTGGCACCCTTTT
Found at i:1569467 original size:60 final size:59
Alignment explanation
Indices: 1569400--1569552 Score: 171
Period size: 60 Copynumber: 2.5 Consensus size: 59
1569390 TTCGTGGCAC
** * * * *
1569400 CCTTTTAACCCCAGATCTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCATCTTTTT
1 CCTTTTAAGTCCAGA-CTCTGTGGCACCCTTTTAAGTCCACAACTCTATGGCATCCTTTT
* * * * *
1569460 CCTTTTAAGTCCACAACTTTATAGCACCTTTTTAAGTCCACAACTCTATGGCATCCTTTT
1 CCTTTTAAGTCCA-GACTCTGTGGCACCCTTTTAAGTCCACAACTCTATGGCATCCTTTT
*
1569520 CTTTTTAAGTCCACGACTCTGTGGCACCCTTTT
1 CCTTTTAAGTCCA-GACTCTGTGGCACCCTTTT
1569553 CCCTTTCAAG
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
60 74 0.99
61 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (59 bp):
CCTTTTAAGTCCAGACTCTGTGGCACCCTTTTAAGTCCACAACTCTATGGCATCCTTTT
Found at i:1569469 original size:33 final size:33
Alignment explanation
Indices: 1569427--1569591 Score: 135
Period size: 33 Copynumber: 5.1 Consensus size: 33
1569417 TCCGTGGCAC
*
1569427 CCTTTTAAGTCCATAACTCTGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCATCTTTTT
* * *
1569460 CCTTTTAAGTCCACAACTTTATAGCA-C-----
1 CCTTTTAAGTCCACAACTCTGTGGCATCTTTTT
* * *
1569487 CTTTTTAAGTCCACAACTCTATGGCATCCTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCATCTTTTT
* * * *
1569520 CTTTTTAAGTCCACGACTCTGTGGCACCCTTTTC
1 CCTTTTAAGTCCACAACTCTGTGGCA-TCTTTTT
* * *
1569554 CCTTTCAAGCCCACACCTCTGTGGCATCCCTTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCAT--CTTTTT
1569589 CCT
1 CCT
1569592 GTAAGTTCGC
Statistics
Matches: 104, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
27 23 0.22
28 1 0.01
32 1 0.01
33 46 0.44
34 25 0.24
35 8 0.08
ACGTcount: A:0.19, C:0.32, G:0.11, T:0.39
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCTGTGGCATCTTTTT
Found at i:1569748 original size:87 final size:88
Alignment explanation
Indices: 1569601--1570100 Score: 562
Period size: 87 Copynumber: 5.7 Consensus size: 88
1569591 TGTAAGTTCG
* *
1569601 CAGCATATTGGCACCTTCATCTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGGCACAA
1 CAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAA
** *
1569666 GGTCAATATCACTGGCCTTGAAT
66 GCCCAATATCGCTGGCCTTGAAT
* * *
1569689 CAGCATATTGGCACC-TCATCTTTAAGACCAATGTCACTAGCCTTGAATCAACACATTGGCCCAA
1 CAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAA
*
1569753 GCCCAATATCGCT-GACTATGAAT
66 GCCCAATATCGCTGGCCT-TGAAT
* * * * * * *
1569776 CAGCATATTAGCACCGTT-ATCTTTAAGACCAATGTCAGTAGCCCTGAATCAGCATATAGGGACA
1 CAGCATATTGGCACC-TTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACA
* * * *
1569840 AGCCCAATATCGTTCGCCTTCAAC
65 AGCCCAATATCGCTGGCCTTGAAT
* * * * * * *
1569864 CAGCATATTAGCACCCT-GTCTCTAGGACCAATGTCACTGGCCTTGAATCAGCACATTAGCATAA
1 CAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAA
* *
1569928 GCCCAATATTGCTAGCCTTGAAT
66 GCCCAATATCGCTGGCCTTGAAT
* * * *
1569951 CAGTATATTGGCACCTTGC--CTTTTAGACCAATGTCACTGGCCTTGAATCAGTATATTGGCACA
1 CAGCATATTGGCACCTT-CATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACA
* * *
1570014 TGCCCAATATCGTTGGCCTTCAAT
65 AGCCCAATATCGCTGGCCTTGAAT
* * * **
1570038 CAGCATATTTGCACCTTTATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGGCAC
1 CAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1570101 CTTAACTATC
Statistics
Matches: 342, Mismatches: 62, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
86 3 0.01
87 213 0.62
88 122 0.36
89 4 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (88 bp):
CAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCACAA
GCCCAATATCGCTGGCCTTGAAT
Found at i:1569895 original size:175 final size:174
Alignment explanation
Indices: 1569601--1570100 Score: 592
Period size: 175 Copynumber: 2.9 Consensus size: 174
1569591 TGTAAGTTCG
* *
1569601 CAGCATATTGGCACCTTCATCTTTAAGACTAATGTC-GCTGGCCTTGAATCAGCACATTGGCACA
1 CAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCAG-TGGCCTTGAATCAGCATATTGGCACA
** ** * * *
1569665 AGGTCAATATCACTGGCCTTGAATCAGCATATTGGCA-CCTCATCTTTAAGACCAATGTCACTAG
64 AGCCCAATATCGTTGGCCTTCAATCAGCATATTAGCACCCT-ATCTTTAAGACCAATGTCACTGG
* *
1569729 CCTTGAATCAACACATTGGCCCAAGCCCAATATCGCT-GACTATGAAT
128 CCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTAGACT-TGAAT
* * * * *
1569776 CAGCATATTAGCACCGTTATCTTTAAGACCAATGTCAGTAGCCCTGAATCAGCATATAGGGACAA
1 CAGCATATTGGCACC-TTATCTTTAAGACCAATGTCAGTGGCCTTGAATCAGCATATTGGCACAA
* * * * *
1569841 GCCCAATATCGTTCGCCTTCAACCAGCATATTAGCACCCTGTCTCTAGGACCAATGTCACTGGCC
65 GCCCAATATCGTTGGCCTTCAATCAGCATATTAGCACCCTATCTTTAAGACCAATGTCACTGGCC
* * * *
1569906 TTGAATCAGCACATTAGCATAAGCCCAATATTGCTAGCCTTGAAT
130 TTGAATCAGCACATTGGCACAAGCCCAATATCGCTAGACTTGAAT
* ** * * * *
1569951 CAGTATATTGGCACCTTGCCTTTTAGACCAATGTCACTGGCCTTGAATCAGTATATTGGCACATG
1 CAGCATATTGGCACCTTATCTTTAAGACCAATGTCAGTGGCCTTGAATCAGCATATTGGCACAAG
* * * **
1570016 CCCAATATCGTTGGCCTTCAATCAGCATATTTGCACCTTTATCTTTAAGACCGATGTCGTTGGCC
66 CCCAATATCGTTGGCCTTCAATCAGCATATTAGCACC-CTATCTTTAAGACCAATGTCACTGGCC
1570081 TTGAATCAGCACATTGGCAC
130 TTGAATCAGCACATTGGCAC
1570101 CTTAACTATC
Statistics
Matches: 271, Mismatches: 49, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
174 74 0.27
175 188 0.69
176 9 0.03
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (174 bp):
CAGCATATTGGCACCTTATCTTTAAGACCAATGTCAGTGGCCTTGAATCAGCATATTGGCACAAG
CCCAATATCGTTGGCCTTCAATCAGCATATTAGCACCCTATCTTTAAGACCAATGTCACTGGCCT
TGAATCAGCACATTGGCACAAGCCCAATATCGCTAGACTTGAAT
Found at i:1570101 original size:49 final size:49
Alignment explanation
Indices: 1570023--1570304 Score: 253
Period size: 49 Copynumber: 5.7 Consensus size: 49
1570013 ATGCCCAATA
* * *
1570023 TCGTTGGCCTTCAATCAGCATATTTGCACCTTTATCTTTAAGACCGATG
1 TCGTTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCGATG
* *
1570072 TCGTTGGCCTTGAATCAGCACATTGGCACCTTAACTATCTTTAAGTCCAATG
1 TCGTTGGCCTTGAATCAGCACATTGGCACCTT---TATCTTTAAGACCGATG
** * * ** * *
1570124 TCACTGACCTTGAATCAGCACATTGGCATCTTTATCTTTAAGTTCGGTA
1 TCGTTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCGATG
** * * * *
1570173 TCACTGGCCTTGAATCAGCATATTGGTACCGTTATCTTTAAGACCAATG
1 TCGTTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCGATG
* * * * *
1570222 TTGTGGGCCTTGAATCAGCACATTAGCA-CTTTCATCTTTAA-ATTCGATA
1 TCGTTGGCCTTGAATCAGCACATTGGCACCTTT-ATCTTTAAGA-CCGATG
* * * *
1570271 TTGTTGGCCTTGAATCAACATATTGGCATCTTTA
1 TCGTTGGCCTTGAATCAGCACATTGGCACCTTTA
1570305 ACATTCTTTA
Statistics
Matches: 189, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
48 4 0.02
49 138 0.73
50 4 0.02
52 43 0.23
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (49 bp):
TCGTTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGACCGATG
Found at i:1570245 original size:98 final size:98
Alignment explanation
Indices: 1570027--1570298 Score: 296
Period size: 98 Copynumber: 2.7 Consensus size: 98
1570017 CCAATATCGT
* * * ** *
1570027 TGGCCTTCAATCAGCATATTTGCACCTTTATCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTAGCA-CTTTATCTTTAAGTTCGATATCGTTGGCCTTGAATCAGCA
* * *
1570092 CATTGGCACCTTAACTATCTTTAAGTCCAATGTCAC
65 TATTGGCACCGT-A-TATCTTTAAGACCAATGTCAC
* * * **
1570128 TGACCTTGAATCAGCACATTGGCATCTTTATCTTTAAGTTCGGTATCACTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTAGCA-CTTTATCTTTAAGTTCGATATCGTTGGCCTTGAATCAGCA
* **
1570193 TATTGGTACCGT-TATCTTTAAGACCAATGT-TG
65 TATTGGCACCGTATATCTTTAAGACCAATGTCAC
* * *
1570225 TGGGCCTTGAATCAGCACATTAGCACTTTCATCTTTAAATTCGATATTGTTGGCCTTGAATCAAC
1 T-GGCCTTGAATCAGCACATTAGCACTTT-ATCTTTAAGTTCGATATCGTTGGCCTTGAATCAGC
1570290 ATATTGGCA
64 ATATTGGCA
1570299 TCTTTAACAT
Statistics
Matches: 143, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
97 5 0.03
98 75 0.52
101 63 0.44
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (98 bp):
TGGCCTTGAATCAGCACATTAGCACTTTATCTTTAAGTTCGATATCGTTGGCCTTGAATCAGCAT
ATTGGCACCGTATATCTTTAAGACCAATGTCAC
Found at i:1570330 original size:150 final size:150
Alignment explanation
Indices: 1570015--1570330 Score: 334
Period size: 150 Copynumber: 2.1 Consensus size: 150
1570005 ATTGGCACAT
* * * * *
1570015 GCCCAATATCGTTGGCCTTCAATCAGCATATTTGCACCTTTATCTTTAAGACCGATGTCGTTGGC
1 GCCCAATATCGCTGGCCTTCAATCAGCATATTGGCACCGTTATCTTTAAGACCAATGTCGTGGGC
* * * *
1570080 CTTGAATCAGCACATTGGCACCTTAACTATCTTTAAGTCCAATGTCACTGACCTTGAATCAGCAC
66 CTTGAATCAGCACATTAGCACCTTAACTATCTTTAAATCCAATATCACTGACCTTGAATCAACAC
1570145 ATTGGCATCTTTATCTTTAA
131 ATTGGCATCTTTATCTTTAA
** ** * * * *
1570165 GTTCGGTATCACTGGCCTTGAATCAGCATATTGGTACCGTTATCTTTAAGACCAATGTTGTGGGC
1 GCCCAATATCGCTGGCCTTCAATCAGCATATTGGCACCGTTATCTTTAAGACCAATGTCGTGGGC
* * * *** * *
1570230 CTTGAATCAGCACATTAGCA-CTT-TC-ATCTTTAAATTCGATATTGTTGGCCTTGAATCAACAT
66 CTTGAATCAGCACATTAGCACCTTAACTATCTTTAAATCCAATATCACTGACCTTGAATCAACAC
1570292 ATTGGCATCTTTAACATTCTTT-A
131 ATTGGCATCTTT---A-TCTTTAA
*
1570315 GCCCAATGTCGCTGGC
1 GCCCAATATCGCTGGC
1570331 GCTGTCTCAG
Statistics
Matches: 131, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
147 39 0.30
148 1 0.01
149 3 0.02
150 83 0.63
151 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (150 bp):
GCCCAATATCGCTGGCCTTCAATCAGCATATTGGCACCGTTATCTTTAAGACCAATGTCGTGGGC
CTTGAATCAGCACATTAGCACCTTAACTATCTTTAAATCCAATATCACTGACCTTGAATCAACAC
ATTGGCATCTTTATCTTTAA
Found at i:1571186 original size:13 final size:13
Alignment explanation
Indices: 1571168--1571198 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1571158 CATTATTCAA
1571168 TGTATCGATACAT
1 TGTATCGATACAT
1571181 TGTATCGATACAT
1 TGTATCGATACAT
1571194 T-TATC
1 TGTATC
1571199 TTTATATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1574313 original size:63 final size:62
Alignment explanation
Indices: 1574216--1574719 Score: 542
Period size: 63 Copynumber: 8.1 Consensus size: 62
1574206 AATTCTTCAA
* * * *
1574216 ATCTCTCTTCTCAAAGACCATGACTCAGTGGCATCTCTTCTTAAAGTCCATAACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCATGACTCAGTGGCATCTCTTCTCAAAGTCCACAACTCAGTGGC
* * *
1574278 ATCTCTTTTCTCAAAAGTCCACGACTCAGTGGCATCTCTTTTCAAAGTTCACAACTCAGTGGC
1 ATCTCTTTTCTC-AAAGTCCATGACTCAGTGGCATCTCTTCTCAAAGTCCACAACTCAGTGGC
* * * * * *
1574341 ATTTATTTTCTCAAAAGTCTACGACTCAGTGGCATCTCTTCCCAAAGTCCACAACTCAGTCGC
1 ATCTCTTTTCTC-AAAGTCCATGACTCAGTGGCATCTCTTCTCAAAGTCCACAACTCAGTGGC
* *
1574404 ATCT-TTTTTTCAAAGTCTATGACTCAGTGGCATCTCTTCTCAAAGT-CACAACGT-AGTGGC
1 ATCTCTTTTCTCAAAGTCCATGACTCAGTGGCATCTCTTCTCAAAGTCCACAAC-TCAGTGGC
* * * * * *
1574464 ATCTCTTTTCT--AAGTCCACGACTTAGTGGCATCCTTTTCTTCCAAGTCTATGAA-TCAGTGGC
1 ATCTCTTTTCTCAAAGTCCATGACTCAGTGGCAT-CTCTTC-TCAAAGTCCA-CAACTCAGTGGC
* * * *
1574526 ATATTTTTTCTTCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTTAGTGGC
1 ATCTCTTTTC-TCAAAGTCCATGACTCAGTGGCATCTCTTC-TCAAAGTCCACAACTCAGTGGC
* * * ** *
1574590 AATCTC--TTCTCAAAGTCCATGATTTAGTGGCATCTCTTCCCAAAGTTGACGACTCAGTGGC
1 -ATCTCTTTTCTCAAAGTCCATGACTCAGTGGCATCTCTTCTCAAAGTCCACAACTCAGTGGC
**
1574651 A--TCTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGC
1 ATCTCTTTTC-TCAAAGTCCATGACTCAGTGGC-ATCTCTTCTCAAAGTCCACAACTCAGTGGC
1574713 ATCTCTT
1 ATCTCTT
1574720 CCCAAAGTCT
Statistics
Matches: 372, Mismatches: 51, Indels: 36
0.81 0.11 0.08
Matches are distributed among these distances:
58 2 0.01
59 18 0.05
60 24 0.06
61 83 0.22
62 86 0.23
63 111 0.30
64 26 0.07
65 22 0.06
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.34
Consensus pattern (62 bp):
ATCTCTTTTCTCAAAGTCCATGACTCAGTGGCATCTCTTCTCAAAGTCCACAACTCAGTGGC
Found at i:1574418 original size:31 final size:31
Alignment explanation
Indices: 1574226--1574811 Score: 367
Period size: 30 Copynumber: 19.0 Consensus size: 31
1574216 ATCTCTCTTC
* * * *
1574226 TCAAAGACCATGACTCAGTGGCATCTCTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTTT
** *
1574257 T-AAAGTCCATAACTCAGTGGCATCTCTTTTC
1 TCAAAGTCCACGACTCAGTGGCATCT-TTTTT
*
1574288 TCAAAAGTCCACGACTCAGTGGCATC-TCTTT
1 TC-AAAGTCCACGACTCAGTGGCATCTTTTTT
* *
1574319 TCAAAGTTCACAACTCAGTGGCAT-TTATTTT
1 TCAAAGTCCACGACTCAGTGGCATCTT-TTTT
* * *
1574350 CTCAAAAGTCTACGACTCAGTGGCATC-TCTTC
1 -TC-AAAGTCCACGACTCAGTGGCATCTTTTTT
* * *
1574382 CCAAAGTCCACAACTCAGTCGCATCTTTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTTT
* * * *
1574413 TCAAAGTCTATGACTCAGTGGCATC-TCTTC
1 TCAAAGTCCACGACTCAGTGGCATCTTTTTT
* *
1574443 TCAAAGT-CACAACGT-AGTGGCATC-TCTTT
1 TCAAAGTCCACGAC-TCAGTGGCATCTTTTTT
* * *
1574472 TCTAAGTCCACGACTTAGTGGCATCCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCAT-CTTTTTT
* * * * *
1574504 TCCAAGTCTATGAATCAGTGGCATATTTTTTCT
1 TCAAAGTCCACGACTCAGTGGCAT-CTTTTT-T
* *
1574537 TCAAAGTCCATGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTTT
* * * *
1574568 TCAAAGTCCACAACTTAGTGGCAATC-TCTTC
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTTT
* * * * *
1574599 TCAAAGTCCATGATTTAGTGGCATC-TCTTC
1 TCAAAGTCCACGACTCAGTGGCATCTTTTTT
* ** *
1574629 CCAAAGTTGACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTTT
* * *
1574660 TCAAAGTCCATGACTCAGTGGCAATC-TCTTC
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTTT
* * *
1574691 TCAAAGTCCATGACTCAGTGGCATC-TCTTC
1 TCAAAGTCCACGACTCAGTGGCATCTTTTTT
* * * * *
1574721 CCAAAGTCTACGACTCTGCGGCACCTTTTTTTTT
1 TCAAAGTCCACGACTCAGTGGCA---TCTTTTTT
** * **
1574755 TCAAAGTCCATAACTCTGTGGCA-C-CCTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTTT
* *
1574784 T--AAGTCCACAACTCCGTGGCATCTTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTT
1574812 CCCTTTTAAG
Statistics
Matches: 435, Mismatches: 96, Indels: 50
0.75 0.17 0.09
Matches are distributed among these distances:
27 18 0.04
28 1 0.00
29 29 0.07
30 140 0.32
31 122 0.28
32 40 0.09
33 64 0.15
34 21 0.05
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.33
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTTT
Found at i:1574736 original size:30 final size:30
Alignment explanation
Indices: 1574219--1574736 Score: 473
Period size: 30 Copynumber: 16.8 Consensus size: 30
1574209 TCTTCAAATC
* *
1574219 TCTCTTCTCAAAGACCATGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* **
1574249 TCTCTTCTTAAAGTCCATAACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
1574279 TCTCTTTTCTCAAAAGTCCACGACTCAGTGGCA
1 TCTC--TTCTC-AAAGTCCACGACTCAGTGGCA
* * *
1574312 TCTCTTTTCAAAGTTCACAACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
1574342 TTTATTTTCTCAAAAGTCTACGACTCAGTGGCA
1 --TCTCTTCTC-AAAGTCCACGACTCAGTGGCA
* * *
1574375 TCTCTTCCCAAAGTCCACAACTCAGTCGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * * *
1574405 TCTTTTTTTCAAAGTCTATGACTCAGTGGCA
1 TC-TCTTCTCAAAGTCCACGACTCAGTGGCA
*
1574436 TCTCTTCTCAAAGT-CACAACGT-AGTGGCA
1 TCTCTTCTCAAAGTCCACGAC-TCAGTGGCA
* * *
1574465 TCTCTTTTCTAAGTCCACGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * * * *
1574495 TCCTTTTCTTCCAAGTCTATGAATCAGTGGCATA
1 T-CTCTTC-TCAAAGTCCACGACTCAGTGGC--A
* * *
1574529 TTTTTTCTTCAAAGTCCATGACTCAGTGGCA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
1574560 TCTTTTCTTCAAAGTCCACAACTTAGTGGCAA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGC-A
* * *
1574592 TCTCTTCTCAAAGTCCATGATTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* **
1574622 TCTCTTCCCAAAGTTGACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
1574652 TCTTTTCTTCAAAGTCCATGACTCAGTGGCAA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGC-A
*
1574684 TCTCTTCTCAAAGTCCATGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
1574714 TCTCTTCCCAAAGTCTACGACTC
1 TCTCTTCTCAAAGTCCACGACTC
1574737 TGCGGCACCT
Statistics
Matches: 401, Mismatches: 70, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
29 23 0.06
30 146 0.36
31 123 0.31
32 41 0.10
33 66 0.16
34 2 0.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:1574817 original size:34 final size:34
Alignment explanation
Indices: 1574778--1574981 Score: 173
Period size: 33 Copynumber: 6.1 Consensus size: 34
1574768 CTCTGTGGCA
*
1574778 CCCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * * *
1574812 CCCTTTTAAGTTCACAATTTCATGGCATCTTTTT
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * * *
1574846 -CATTTTAAGTCCATAACTTCGTGGTACCTTGTT
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
*
1574879 -CCTTTTAAGTCCACAACTCCGTGGAACCTTTTT
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * ** *
1574912 --TTTTTAAGTCCACGACTTTGTGGCACCCTTTT
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
1574944 CCCTTTTAAGCCCATACCTCCATGGCATCCCTTTTT
1 CCCTTTTAAGTCCACAACTCCGTGGCA--CCTTTTT
1574980 CC
1 CC
1574982 TGTAAGCTCA
Statistics
Matches: 134, Mismatches: 32, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
32 26 0.19
33 53 0.40
34 47 0.35
36 8 0.06
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (34 bp):
CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:1574949 original size:66 final size:66
Alignment explanation
Indices: 1574781--1574968 Score: 191
Period size: 66 Copynumber: 2.8 Consensus size: 66
1574771 TGTGGCACCC
* * * * * * *
1574781 TTTTAAGTCCACAACTCCGTGGCATCTTTTTCCCTTTTAAGTTCACAATTTCATGGCATCTTTTT
1 TTTTAAGTCCACAACTTCGTGGCA-CCTTTTCCCTTTTAAGTCCACAACTCCATGGAACCTTTTT
1574846 CA
65 CA
* * *
1574848 TTTTAAGTCCATAACTTCGTGGTACCTTGTT-CCTTTTAAGTCCACAACTCCGTGGAACCTTTTT
1 TTTTAAGTCCACAACTTCGTGGCACCTT-TTCCCTTTTAAGTCCACAACTCCATGGAACCTTTTT
*
1574912 -T
65 CA
* * * * *
1574913 TTTTAAGTCCACGACTTTGTGGCACCCTTTTCCCTTTTAAGCCCATACCTCCATGG
1 TTTTAAGTCCACAACTTCGTGGCA-CCTTTTCCCTTTTAAGTCCACAACTCCATGG
1574969 CATCCCTTTT
Statistics
Matches: 99, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
65 22 0.22
66 54 0.55
67 23 0.23
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (66 bp):
TTTTAAGTCCACAACTTCGTGGCACCTTTTCCCTTTTAAGTCCACAACTCCATGGAACCTTTTTC
A
Found at i:1575164 original size:51 final size:49
Alignment explanation
Indices: 1575015--1575371 Score: 282
Period size: 51 Copynumber: 7.7 Consensus size: 49
1575005 CCTTTAAGTT
*
1575015 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT--ATCTTTAAGAC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACATC-TT-AGTC
* * * *
1575064 CAATGTCGATGGCCTTGAATCAGCACATTGGCACATTT--A---T-GTC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACATCTTAGTC
*
1575107 CAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTACCATCTTGAGTC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA-CATCTT-AGTC
*
1575158 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT-C-T-TTAAGAC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TACATCTT-AGTC
* * * * * *
1575206 CAATGTCGCTGGCCTTAAATCAACATATTGGCA-C---A-AGCCTAAT-
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACATCTTAGTC
* * *
1575249 --A-AT-GATGGCCTTGAATCAACACATTGGCACCTTT--A----AGTC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACATCTTAGTC
*
1575288 CAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTTGAGTC
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA-CATCTT-AGTC
* *
1575339 CAATATCACTGGACTTGAATCAGCATATTGGCA
1 CAATATCGCTGGCCTTGAATCAGCATATTGGCA
1575372 GACCAATGTC
Statistics
Matches: 248, Mismatches: 31, Indels: 56
0.74 0.09 0.17
Matches are distributed among these distances:
38 2 0.01
39 23 0.09
40 2 0.01
41 2 0.01
42 3 0.01
43 63 0.25
44 1 0.00
45 2 0.01
46 2 0.01
47 1 0.00
48 35 0.14
49 37 0.15
50 1 0.00
51 73 0.29
52 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (49 bp):
CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACATCTTAGTC
Found at i:1575269 original size:39 final size:40
Alignment explanation
Indices: 1575200--1575618 Score: 128
Period size: 39 Copynumber: 10.0 Consensus size: 40
1575190 ACCTTGTCTT
* * * *
1575200 TAAGACCAATGTCGCTGGCCTTAAATCAACATATTGGCAC
1 TAAGTCCAATATCGATGGCCTTGAATCAACATATTGGCAC
*
1575240 -AAG-CCTAATAAT-GATGGCCTTGAATCAACACATTGGCACC
1 TAAGTCC-AAT-ATCGATGGCCTTGAATCAACATATTGGCA-C
* *
1575280 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACC
1 --TAAGTCCAATATCGATGGCCTTGAATCAACATATTGGCA-C
* *
1575323 TTTACCATCTTGAGTCCAATATC-ACTGGACTTGAATCAGCATATTGG--C
1 --T---A-----AGTCCAATATCGA-TGGCCTTGAATCAACATATTGGCAC
* * * * *
1575371 --AGACCAATGTCGCTGGCCTTGAATCATCACATTGGCAC
1 TAAGTCCAATATCGATGGCCTTGAATCAACATATTGGCAC
* *
1575409 -AAG-CCTAATATCGTTGGCCTTGAATCAGCATATTGGCACC
1 TAAGTCC-AATATCGATGGCCTTGAATCAACATATTGGCA-C
* * * * * * *
1575449 TTA-TCTTTAAAACCAACGCTGGCCTTGAATCAGCACATTGGCAC
1 TAAGTC----CAA-TATCGATGGCCTTGAATCAACATATTGGCAC
* * * *
1575493 -AAG-CCTAGTATCGTTGTCCTTGAATCAGCATATTGGCACCTTGTC
1 TAAGTCC-AATATCGATGGCCTTGAATCAACATATTGGCA------C
** * * *
1575538 TTTAAAACCAATGTCGTTGGCCTTGAATCAGCATATTGGCAC
1 --TAAGTCCAATATCGATGGCCTTGAATCAACATATTGGCAC
* * *
1575580 -AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 TAAGTCCAATATCGATGGCCTTGAATCAACATATTGGCAC
1575619 CTTCATCTTT
Statistics
Matches: 296, Mismatches: 41, Indels: 85
0.70 0.10 0.20
Matches are distributed among these distances:
36 28 0.09
38 5 0.02
39 119 0.40
40 4 0.01
41 2 0.01
42 3 0.01
43 36 0.12
44 5 0.02
45 27 0.09
46 1 0.00
48 32 0.11
49 2 0.01
51 32 0.11
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (40 bp):
TAAGTCCAATATCGATGGCCTTGAATCAACATATTGGCAC
Found at i:1575281 original size:21 final size:21
Alignment explanation
Indices: 1575257--1575324 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
1575247 ATAATGATGG
1575257 CCTTGAATCAACACATTGGCA
1 CCTTGAATCAACACATTGGCA
* * *
1575278 CCTTTAAGTCCAATATCGTTGG--
1 CCTTGAA-T-CAACA-CATTGGCA
* *
1575300 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAACACATTGGCA
1575321 CCTT
1 CCTT
1575325 TACCATCTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 11 0.32
22 7 0.21
23 4 0.12
24 5 0.15
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (21 bp):
CCTTGAATCAACACATTGGCA
Found at i:1575392 original size:36 final size:38
Alignment explanation
Indices: 1575338--1575618 Score: 197
Period size: 39 Copynumber: 6.9 Consensus size: 38
1575328 CATCTTGAGT
* * *
1575338 CCAATATCACTGGACTTGAATCAGCATATTGGCA-GA-
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAG
* * *
1575374 CCAATGTCGCTGGCCTTGAATCATCACATTGGCACAAG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAG
* * *
1575412 CCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTAT
1 CC-AATATCGCTGGCCTTGAATCAGCATATTGGCA-C-AAG
* * * *
1575453 CTTTAAAACCAACGCTGGCCTTGAATCAGCACATTGGCACAAG
1 C----CAA-TATCGCTGGCCTTGAATCAGCATATTGGCACAAG
* * * *
1575496 CCTAGTATCGTTGTCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAA
1 CC-AATATCGCTGGCCTTGAATCAGCATATTGGCA------C----AAG
* *
1575545 CCAATGTCGTTGGCCTTGAATCAGCATATTGGCACAAG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAG
1575583 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 -CCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1575619 CTTCATCTTT
Statistics
Matches: 190, Mismatches: 33, Indels: 41
0.72 0.12 0.16
Matches are distributed among these distances:
36 29 0.15
37 1 0.01
38 4 0.02
39 86 0.45
40 2 0.01
41 2 0.01
42 1 0.01
43 2 0.01
44 3 0.02
45 27 0.14
48 29 0.15
49 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (38 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACAAG
Done.