Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009214.1 Hibiscus syriacus cultivar Beakdansim tig00112801_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 549473
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 3
Found at i:1128 original size:227 final size:234
Alignment explanation
Indices: 673--1139 Score: 547
Period size: 227 Copynumber: 2.0 Consensus size: 234
663 GTTAAAACCC
* *
673 TTAAGCTGTATATTTCTCAATAATATCAGTTCTATAGGAGACTCCATGCATCCGATCCCGACAAG
1 TTAAGCTGTATATTTCTCAATAATATCAGTTCTATAGGAGACACCATGCATCCAATCCCGACAAG
* * * * *
738 ATTGATCAAGCGTTTACCGTTTTTACTGTTATAATTCGACTTTTCATAACAGTATGTATACGATG
66 ATTGATCAAGCGTTCACCG-TTTTACTGTTATAATTCGAATTTTCATAACAGAATATATACAATG
* * * *
803 GAGTCAGTATCTTGTCTGTGTTTTGGTGGAGTTTCCTAGCAACATCCAGAACTGGTAAATTAACA
130 GAG--AGTATCTTG-CTGGGTGTTGGTGGAGTTTCCTAGCAACATCCACAACTGGTAAATCAACA
* *
868 AAGATGGAGTTCCCTTGCTCTCTCGTCCCTCTTTAAATCACCA
192 AAAATGGAGTTCCCTTGCACTCTCGTCCCTCTTTAAATCACCA
* * * * * *
911 TTAAGCTGTATA-TTCTCGATAATATCAGTTCTATCGGAGGCACCGTGCAT-CAATCCCGTCACG
1 TTAAGCTGTATATTTCTCAATAATATCAGTTCTATAGGAGACACCATGCATCCAATCCCGACAAG
* * *
974 ATTGATCGAGTGTTCACCG-TTT-CTGTTATAATTC-AATGTTTCATAACA-AATATATGCAATG
66 ATTGATCAAGCGTTCACCGTTTTACTGTTATAATTCGAAT-TTTCATAACAGAATATATACAATG
* * * *
1035 GAG-GTATCTTG-TGGGTGTTGGTGGAGTTTCCTATCAACTTCC-CAACTTGTACATCAACAAAA
130 GAGAGTATCTTGCTGGGTGTTGGTGGAGTTTCCTAGCAACATCCACAACTGGTAAATCAACAAAA
* * * *
1097 ATGGAGTTCCCTTTGCACTTTCGTGCCTCTTTATATCATCA
195 ATGGAGTTCCC-TTGCACTCTCGTCCCTCTTTAAATCACCA
1138 TT
1 TT
1140 GAATCAAACT
Statistics
Matches: 197, Mismatches: 30, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
226 26 0.13
227 53 0.27
229 8 0.04
232 14 0.07
233 22 0.11
234 3 0.02
236 26 0.13
237 33 0.17
238 12 0.06
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (234 bp):
TTAAGCTGTATATTTCTCAATAATATCAGTTCTATAGGAGACACCATGCATCCAATCCCGACAAG
ATTGATCAAGCGTTCACCGTTTTACTGTTATAATTCGAATTTTCATAACAGAATATATACAATGG
AGAGTATCTTGCTGGGTGTTGGTGGAGTTTCCTAGCAACATCCACAACTGGTAAATCAACAAAAA
TGGAGTTCCCTTGCACTCTCGTCCCTCTTTAAATCACCA
Found at i:1381 original size:2 final size:2
Alignment explanation
Indices: 1374--1398 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1364 ACCATCACAA
1374 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1399 AAAATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2549 original size:3 final size:3
Alignment explanation
Indices: 2543--2609 Score: 66
Period size: 3 Copynumber: 22.0 Consensus size: 3
2533 AACCACCATC
* * *
2543 TCT TCT TCT TCT TCT TCT TCT TCT TCT ATTT TC- TCAG CCAT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TC-T TC-T TCT TCT
2589 TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT
2610 GGCTGAGCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
2 4 0.07
3 47 0.85
4 4 0.07
ACGTcount: A:0.04, C:0.31, G:0.01, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:2619 original size:37 final size:37
Alignment explanation
Indices: 2548--2620 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
2538 CCATCTCTTC
**
2548 TTCTTCTTCTTCTTCTTCTTCTATTTTCTCAGCCATT
1 TTCTTCTTCTTCTTCTTCTTCTATTGGCTCAGCCATT
*
2585 TTCTTCTTCTTCTTCTTCTTCT-TCTGGCTGAGCCAT
1 TTCTTCTTCTTCTTCTTCTTCTAT-TGGCTCAGCCAT
2621 GGAGCACTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.07, C:0.30, G:0.07, T:0.56
Consensus pattern (37 bp):
TTCTTCTTCTTCTTCTTCTTCTATTGGCTCAGCCATT
Found at i:3153 original size:16 final size:16
Alignment explanation
Indices: 3132--3228 Score: 77
Period size: 16 Copynumber: 6.1 Consensus size: 16
3122 TTACACACAC
*
3132 ACATATGTATGTATAT
1 ACATATGTATGTATGT
* *
3148 ACATATGCATGCATGT
1 ACATATGTATGTATGT
* * **
3164 ACGTACGTACATATGT
1 ACATATGTATGTATGT
**
3180 ATGTATGTATGTATGT
1 ACATATGTATGTATGT
**
3196 ATGTATGTATGTATGT
1 ACATATGTATGTATGT
**
3212 ATGTATGTATGTATGT
1 ACATATGTATGTATGT
3228 A
1 A
3229 TGTATGCATG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 68 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (16 bp):
ACATATGTATGTATGT
Found at i:3163 original size:24 final size:24
Alignment explanation
Indices: 3135--3234 Score: 119
Period size: 24 Copynumber: 4.2 Consensus size: 24
3125 CACACACACA
* *
3135 TATGTATGTATATACATATGCATG
1 TATGTATGTATGTACATATGTATG
* * *
3159 CATGTACGTACGTACATATGTATG
1 TATGTATGTATGTACATATGTATG
**
3183 TATGTATGTATGTATGTATGTATG
1 TATGTATGTATGTACATATGTATG
**
3207 TATGTATGTATGTATGTATGTATG
1 TATGTATGTATGTACATATGTATG
3231 TATG
1 TATG
3235 CATGCATGCA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (24 bp):
TATGTATGTATGTACATATGTATG
Found at i:3182 original size:4 final size:4
Alignment explanation
Indices: 3175--3234 Score: 120
Period size: 4 Copynumber: 15.0 Consensus size: 4
3165 CGTACGTACA
3175 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
3223 TATG TATG TATG
1 TATG TATG TATG
3235 CATGCATGCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:8262 original size:21 final size:20
Alignment explanation
Indices: 8218--8277 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
8208 TATTTTTTAT
8218 TTTTTAATAATAAAAATA-TTA
1 TTTTTAATAA-AAAAA-ACTTA
8239 TTTTTAATAAAAAAAACTTAA
1 TTTTTAATAAAAAAAACTT-A
*
8260 TTTATTTATAAAAAAAAC
1 TTT-TTAATAAAAAAAAC
8278 CAAAAATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
19 1 0.03
20 7 0.20
21 14 0.40
22 13 0.37
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTTAATAAAAAAAACTTA
Found at i:13250 original size:2 final size:2
Alignment explanation
Indices: 13245--13283 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13235 ATTGTCCAAC
13245 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13284 CAAAATGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16391 original size:12 final size:12
Alignment explanation
Indices: 16376--16401 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16366 TTAATAAAGA
16376 AGATTCTAAATT
1 AGATTCTAAATT
16388 AGATTCTAAATT
1 AGATTCTAAATT
16400 AG
1 AG
16402 GGGGGGGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (12 bp):
AGATTCTAAATT
Found at i:18459 original size:10 final size:10
Alignment explanation
Indices: 18421--18469 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
18411 TCATCATACT
18421 AAATTCTCTC
1 AAATTCTCTC
*
18431 AATTTCTCTC
1 AAATTCTCTC
*
18441 AACTTCTCTC
1 AAATTCTCTC
* *
18451 AAATACTCTT
1 AAATTCTCTC
*
18461 ATATTCTCT
1 AAATTCTCT
18470 GTTTAAGGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.45
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:18518 original size:9 final size:9
Alignment explanation
Indices: 18506--18539 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
18496 TAATATTTTG
18506 TATTTAATT
1 TATTTAATT
*
18515 TATTTAA-G
1 TATTTAATT
18523 TATTTAATT
1 TATTTAATT
18532 TATTTAAT
1 TATTTAAT
18540 ATTTTACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:18545 original size:17 final size:17
Alignment explanation
Indices: 18505--18543 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
18495 TTAATATTTT
18505 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
18522 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
18539 -TATTT
1 GTATTT
18544 TACATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:19510 original size:3 final size:3
Alignment explanation
Indices: 19502--19556 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
19492 TATAAACGTC
19502 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19550 ATT ATT A
1 ATT ATT A
19557 ATACCATCCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:37105 original size:24 final size:24
Alignment explanation
Indices: 37078--37125 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
37068 TTTATTAATC
37078 TAAAGTGATTACAAAATTATATAT
1 TAAAGTGATTACAAAATTATATAT
37102 TAAAGTGATTACAAAATTATATAT
1 TAAAGTGATTACAAAATTATATAT
37126 ATGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (24 bp):
TAAAGTGATTACAAAATTATATAT
Found at i:54296 original size:20 final size:22
Alignment explanation
Indices: 54271--54322 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
54261 TGTCATTGGT
54271 ATAATTTATCTTT-A-TTTTAA
1 ATAATTTATCTTTAATTTTTAA
* *
54291 ATAATTCACCTTTAAATTTTTAA
1 ATAATTTATCTTT-AATTTTTAA
54314 ATAATTTAT
1 ATAATTTAT
54323 AATTATATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 11 0.44
22 1 0.04
23 13 0.52
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTATCTTTAATTTTTAA
Found at i:57146 original size:31 final size:31
Alignment explanation
Indices: 57098--57161 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
57088 AAAACATAAC
57098 ATATGACTACTTCCGTTTTTATTTAATTAAG
1 ATATGACTACTTCCGTTTTTATTTAATTAAG
*
57129 ATATGA-TCACTTTCGTTTTTATTTAATTAAG
1 ATATGACT-ACTTCCGTTTTTATTTAATTAAG
57160 AT
1 AT
57162 GTGGTCATCC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (31 bp):
ATATGACTACTTCCGTTTTTATTTAATTAAG
Found at i:62319 original size:17 final size:17
Alignment explanation
Indices: 62278--62323 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
62268 TTTTAATATT
*
62278 ATATATTTAATTTATTTA
1 ATAT-TTTACTTTATTTA
*
62296 AGCATTTTACTTTATTTA
1 A-TATTTTACTTTATTTA
62314 ATATTTTACT
1 ATATTTTACT
62324 AATATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 8 0.33
18 14 0.58
19 2 0.08
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (17 bp):
ATATTTTACTTTATTTA
Found at i:64027 original size:17 final size:17
Alignment explanation
Indices: 64005--64037 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
63995 AGCAGCCACC
*
64005 GCAGCCATTTATGATGT
1 GCAGCCATATATGATGT
64022 GCAGCCATATATGATG
1 GCAGCCATATATGATG
64038 CCTCCAACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (17 bp):
GCAGCCATATATGATGT
Found at i:65208 original size:31 final size:31
Alignment explanation
Indices: 65170--65294 Score: 225
Period size: 31 Copynumber: 4.0 Consensus size: 31
65160 CCCGAAGGAC
*
65170 CAGTCCATA-GATCCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
65201 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
65232 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
65263 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
65294 C
1 C
65295 CCTCGACCCT
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
31 91 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.18
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:66585 original size:64 final size:64
Alignment explanation
Indices: 66532--66694 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
66522 CGGTGCACCA
* *
66532 AGTGTGCATCAATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
66596 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* *
66661 AGAGTGCATCGATGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
66695 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 38 0.45
65 47 0.55
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:66666 original size:19 final size:19
Alignment explanation
Indices: 66642--66692 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
66632 GAAAATATTC
66642 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
66661 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
66680 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
66693 TTCAATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 20 0.65
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:66734 original size:65 final size:65
Alignment explanation
Indices: 66536--66743 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 65
66526 GCACCAAGTG
* * ** *
66536 TGCATCAATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGATGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
66599 G-
64 GA
* *
66600 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGATGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
66663 A
65 A
* *
66664 GTGCATCGATGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGATGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
66726 CTGA
62 CTGA
*
66730 TGCATCGGTGCATG
1 TGCATCGATGCATG
66744 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 11, Indels: 19
0.80 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 50 0.41
65 60 0.49
66 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:73750 original size:64 final size:64
Alignment explanation
Indices: 73697--73859 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
73687 CGGTGCACCA
*
73697 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
73761 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
73826 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
73860 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:73831 original size:19 final size:19
Alignment explanation
Indices: 73807--73857 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
73797 GAAAATATTC
73807 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
73826 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
73845 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
73858 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:73899 original size:65 final size:65
Alignment explanation
Indices: 73701--73908 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 65
73691 GCACCAAGTG
* * ** *
73701 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
73764 G-
64 GA
* * *
73765 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
73828 A
65 A
* *
73829 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
73891 CTGA
62 CTGA
73895 TGCATCGGTGCATG
1 TGCATCGGTGCATG
73909 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 51 0.41
65 60 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:87997 original size:23 final size:22
Alignment explanation
Indices: 87971--88032 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
87961 TAATAACCAT
* *
87971 ACACGCATATATATCACATATTC
1 ACACACATATATAT-ACAAATTC
*
87994 ACACACATATAATATATAAATTC
1 ACACACATAT-ATATACAAATTC
88017 ACACACATGATATATA
1 ACACACAT-ATATATA
88033 TTTAAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 28 0.82
24 6 0.18
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (22 bp):
ACACACATATATATACAAATTC
Found at i:88033 original size:25 final size:23
Alignment explanation
Indices: 87990--88039 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
87980 TATATCACAT
87990 ATTCACACACATATAATATATAA
1 ATTCACACACATATAATATATAA
*
88013 ATTCACACACATGATATATATTTAA
1 ATTCACACACAT-ATA-ATATATAA
88038 AT
1 AT
88040 AATATGCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 12 0.50
24 3 0.12
25 9 0.38
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (23 bp):
ATTCACACACATATAATATATAA
Found at i:89215 original size:46 final size:46
Alignment explanation
Indices: 89165--89275 Score: 152
Period size: 46 Copynumber: 2.4 Consensus size: 46
89155 TTGGTTTCGG
* * * *
89165 TTCGGGTCAATTCTGGTTGGTTTCGGTTCGAATCAACCTTTAGATT
1 TTCGGATCAATTCGGGTTGGTTTCGATTCAAATCAACCTTTAGATT
*
89211 TTCGGATCAATTCGGGTTGGTTTTGATTCAAATCAACCTTTAGATT
1 TTCGGATCAATTCGGGTTGGTTTCGATTCAAATCAACCTTTAGATT
*
89257 TTC-GAGCTAATTCGGGTTG
1 TTCGGATC-AATTCGGGTTG
89276 TTTTTGTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 3 0.05
46 55 0.95
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (46 bp):
TTCGGATCAATTCGGGTTGGTTTCGATTCAAATCAACCTTTAGATT
Found at i:89647 original size:3 final size:3
Alignment explanation
Indices: 89634--89681 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
89624 AATTACTAAA
*
89634 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
89680 AA
1 AA
89682 ATTATTTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:89792 original size:16 final size:16
Alignment explanation
Indices: 89771--89886 Score: 69
Period size: 16 Copynumber: 7.3 Consensus size: 16
89761 TTTGAGTTGC
89771 TTTCGGTTCGGGTTAT
1 TTTCGGTTCGGGTTAT
**
89787 TTTCGGCTT-GAATT-T
1 TTTCGG-TTCGGGTTAT
**
89802 TTTTTGTTCGGGTTGAT
1 TTTCGGTTCGGGTT-AT
* **
89819 TTT-AGTTCGGGTTGC
1 TTTCGGTTCGGGTTAT
89834 TTTCGGTTC-GGTTATT
1 TTTCGGTTCGGGTTA-T
* * *
89850 TTTCAGTTTGGGTTAC
1 TTTCGGTTCGGGTTAT
* *
89866 TTTCGGTTCGAGTTAA
1 TTTCGGTTCGGGTTAT
89882 TTTCG
1 TTTCG
89887 TTTAAACTAT
Statistics
Matches: 74, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
14 2 0.03
15 15 0.20
16 46 0.62
17 11 0.15
ACGTcount: A:0.09, C:0.12, G:0.27, T:0.52
Consensus pattern (16 bp):
TTTCGGTTCGGGTTAT
Found at i:89843 original size:32 final size:32
Alignment explanation
Indices: 89807--89885 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
89797 AATTTTTTTT
*
89807 GTTCGGGTTGATTTT-AGTTCGGGTTGCTTTCG
1 GTTCGGGTT-ATTTTCAGTTCGGGTTACTTTCG
*
89839 GTTC-GGTTATTTTTCAGTTTGGGTTACTTTCG
1 GTTCGGGTTA-TTTTCAGTTCGGGTTACTTTCG
* *
89871 GTTCGAGTTAATTTC
1 GTTCGGGTTATTTTC
89886 GTTTAAACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 1 0.03
31 8 0.20
32 27 0.68
33 4 0.10
ACGTcount: A:0.10, C:0.13, G:0.28, T:0.49
Consensus pattern (32 bp):
GTTCGGGTTATTTTCAGTTCGGGTTACTTTCG
Found at i:94622 original size:44 final size:44
Alignment explanation
Indices: 94560--94660 Score: 175
Period size: 44 Copynumber: 2.3 Consensus size: 44
94550 GAAACAAATA
* *
94560 AAAAATATTATATGATTCATATGGTATATATTTTATTAGTTCTT
1 AAAAATATTATATGATTCACATGGTATATATTTTATTAGTTATT
94604 AAAAATATTATATGATTCACATGGTATATATTTTATTAGTTATT
1 AAAAATATTATATGATTCACATGGTATATATTTTATTAGTTATT
*
94648 AAAAACATTATAT
1 AAAAATATTATAT
94661 TTCCATTACC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.47
Consensus pattern (44 bp):
AAAAATATTATATGATTCACATGGTATATATTTTATTAGTTATT
Found at i:94873 original size:128 final size:123
Alignment explanation
Indices: 94606--95051 Score: 599
Period size: 128 Copynumber: 3.7 Consensus size: 123
94596 TAGTTCTTAA
94606 AAATATTATATGATTCACATGGTATATATTTTATTAGTTATTAAAAACATTATATTTCCATTACC
1 AAATATTATATGATTCACATGGTATATATTTTATTAGTTATTAAAAACATTATATTTCCATTACC
* * * *
94671 AACGGCAATGAAACCAAAAGAACATGGTATATTAAAAATATATTTGATTTTACTTGAT
66 AACGGCAATGAACCCGAAAGCACATGGTATATTAAAAAAATATTTGATTTTACTTGAT
94729 AAATATTATATGATTCACATGGTATATATTTTATTAGTTATTAAAAACATTATATTTCCATTACC
1 AAATATTATATGATTCACATGGTATATATTTTATTAGTTATTAAAAACATTATATTTCCATT---
*
94794 AGTCCAACGGCAATGAACCCGAAAGCACATGGTATATTAAAAAAATATTTGATTTTACTTGTT
63 A--CCAACGGCAATGAACCCGAAAGCACATGGTATATTAAAAAAATATTTGATTTTACTTGAT
* * *
94857 AAATATTATATGATTCACATGGTATGTA----GTTA-TTA--AAAAATATTATATTTCCATTACC
1 AAATATTATATGATTCACATGGTATATATTTTATTAGTTATTAAAAACATTATATTTCCATTACC
* * * * *
94915 AACGGCAATGAACCCGAAAGCAAATGATAAATT-AAAAAATATTTGATTGTATTTGAT
66 AACGGCAATGAACCCGAAAGCACATGGTATATTAAAAAAATATTTGATTTTACTTGAT
** *
94972 -AA-A-TATATGATTCACATGGTATGCATTTTATTAATTATTAAAAAAAACATTATATTTCCATT
1 AAATATTATATGATTCACATGGTATATATTTTATTAGTTATT---AAAAACATTATATTTCCATT
95034 ACCAACGGCAATGAACCC
63 ACCAACGGCAATGAACCC
95052 TAGGGTGTTA
Statistics
Matches: 291, Mismatches: 17, Indels: 31
0.86 0.05 0.09
Matches are distributed among these distances:
112 21 0.07
113 1 0.00
114 2 0.01
115 21 0.07
116 35 0.12
117 3 0.01
118 1 0.00
121 19 0.07
122 37 0.13
123 65 0.22
124 3 0.01
126 1 0.00
128 82 0.28
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (123 bp):
AAATATTATATGATTCACATGGTATATATTTTATTAGTTATTAAAAACATTATATTTCCATTACC
AACGGCAATGAACCCGAAAGCACATGGTATATTAAAAAAATATTTGATTTTACTTGAT
Found at i:95091 original size:13 final size:13
Alignment explanation
Indices: 95073--95097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95063 AAAAACTCGA
95073 AACCGTTAATCGT
1 AACCGTTAATCGT
95086 AACCGTTAATCG
1 AACCGTTAATCG
95098 GTATAACTAT
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:0.24, G:0.16, T:0.28
Consensus pattern (13 bp):
AACCGTTAATCGT
Found at i:95144 original size:31 final size:32
Alignment explanation
Indices: 95109--95168 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
95099 TATAACTATT
*
95109 ATATTTAACA-TATTAATTAACCGAACCGTTA
1 ATATTAAACAGTATTAATTAACCGAACCGTTA
* *
95140 ATATTAAACAGTTTTGATTAACCGAACCG
1 ATATTAAACAGTATTAATTAACCGAACCG
95169 CTAAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (32 bp):
ATATTAAACAGTATTAATTAACCGAACCGTTA
Found at i:95520 original size:53 final size:51
Alignment explanation
Indices: 95462--95592 Score: 156
Period size: 53 Copynumber: 2.5 Consensus size: 51
95452 GATATGTACA
**
95462 TACTTACATTGGTGTAAGTATGTGTTAAGCACTACACTTTTTTTTATTGTATT
1 TACTTACACCGGTGTAAGTATGTGTTAAGCACTACAC--TTTTTTATTGTATT
* * ** * *
95515 TACTTACACCGTTGTAAGTATATGTTAAGTGCTATACTTTTTTATTTTATT
1 TACTTACACCGGTGTAAGTATGTGTTAAGCACTACACTTTTTTATTGTATT
*
95566 CACTTACACCGGTGT-AGTATGTGTTAA
1 TACTTACACCGGTGTAAGTATGTGTTAA
95593 ATGCTACATT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
50 11 0.16
51 26 0.39
53 30 0.45
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (51 bp):
TACTTACACCGGTGTAAGTATGTGTTAAGCACTACACTTTTTTATTGTATT
Found at i:95607 original size:51 final size:52
Alignment explanation
Indices: 95463--95608 Score: 170
Period size: 51 Copynumber: 2.8 Consensus size: 52
95453 ATATGTACAT
** ** *
95463 ACTTACATTGGTGTAAGTATGTGTTAAGCACTACACTTTTTTTTATTGTATTT
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACA-TTTTTTTTATTGTATTC
* * * * *
95516 ACTTACACCGTTGTAAGTATATGTTAAGTGCTATA-CTTTTTTATTTTATTC
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACATTTTTTTTATTGTATTC
*
95567 ACTTACACCGGTGT-AGTATGTGTTAAATGCTACATTTTTTTT
1 ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACATTTTTTTT
95609 TGTATATTGA
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
50 17 0.22
51 32 0.42
53 28 0.36
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (52 bp):
ACTTACACCGGTGTAAGTATGTGTTAAGTGCTACATTTTTTTTATTGTATTC
Found at i:95666 original size:11 final size:11
Alignment explanation
Indices: 95652--95681 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
95642 ATAATTGTAA
95652 TAGGTTAATCG
1 TAGGTTAATCG
95663 TAGGTTAATCG
1 TAGGTTAATCG
*
95674 TAAGTTAA
1 TAGGTTAA
95682 CCTGTAACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (11 bp):
TAGGTTAATCG
Found at i:96710 original size:17 final size:18
Alignment explanation
Indices: 96678--96718 Score: 75
Period size: 17 Copynumber: 2.3 Consensus size: 18
96668 TTCAAACATT
96678 ATTGCACCTAATTTTGAC
1 ATTGCACCTAATTTTGAC
96696 ATTGCACCT-ATTTTGAC
1 ATTGCACCTAATTTTGAC
96713 ATTGCA
1 ATTGCA
96719 ATATTAGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (18 bp):
ATTGCACCTAATTTTGAC
Found at i:101356 original size:21 final size:21
Alignment explanation
Indices: 101326--101373 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
101316 TAATTTTCAA
*
101326 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
101347 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
101368 ACATTG
1 ACATTG
101374 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:102300 original size:23 final size:23
Alignment explanation
Indices: 102236--102305 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
102226 CTCCTCAAAA
* *
102236 CCTAAAAATT-CTAAGAGATAAAT
1 CCTAAAAATTAC-AAAAGATAATT
102259 CCTAATAAA-TAC-AAAGATAATT
1 CCTAA-AAATTACAAAAGATAATT
*
102281 CTTAAAAATTACAAAAGATAATT
1 CCTAAAAATTACAAAAGATAATT
102304 CC
1 CC
102306 GTTTGAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 3 0.08
22 15 0.38
23 17 0.44
24 4 0.10
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (23 bp):
CCTAAAAATTACAAAAGATAATT
Found at i:104354 original size:60 final size:60
Alignment explanation
Indices: 104218--104354 Score: 150
Period size: 60 Copynumber: 2.3 Consensus size: 60
104208 ATTCTTAGAA
* * *
104218 AAGGCGCGCTTCATGATCCGCGCTTTACTACCGTGACACCAGCTCAGATAAAACCCTGCG
1 AAGGCGCGCATCATGATCCACGCTTTACCACCGTGACACCAGCTCAGATAAAACCCTGCG
* * * * * * *
104278 AAGGCACGAATTATGATCCACGCTTTTCCACTGTGGCACCAGCTC-GAATAAAACTCTGCG
1 AAGGCGCGCATCATGATCCACGCTTTACCACCGTGACACCAGCTCAG-ATAAAACCCTGCG
* *
104338 AATGCGCGCCTCATGAT
1 AAGGCGCGCATCATGAT
104355 TCACTATTTG
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
59 1 0.02
60 60 0.98
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (60 bp):
AAGGCGCGCATCATGATCCACGCTTTACCACCGTGACACCAGCTCAGATAAAACCCTGCG
Found at i:104513 original size:25 final size:25
Alignment explanation
Indices: 104485--104565 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
104475 ATAATTTCAT
*
104485 TTAATTAGATCTATTGTGATTTTAA
1 TTAATTAGATCTAATGTGATTTTAA
* ** *
104510 TTAATTAG-TATAAAATAATTTT-A
1 TTAATTAGATCTAATGTGATTTTAA
* *
104533 TTCAGTTAGATCTACTGTGATTTTAA
1 TT-AATTAGATCTAATGTGATTTTAA
104559 TTAATTA
1 TTAATTA
104566 TTAGAAGAAT
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
23 3 0.07
24 14 0.34
25 21 0.51
26 3 0.07
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (25 bp):
TTAATTAGATCTAATGTGATTTTAA
Found at i:104529 original size:49 final size:49
Alignment explanation
Indices: 104460--104615 Score: 201
Period size: 49 Copynumber: 3.2 Consensus size: 49
104450 TTGCCTAAAC
* * *
104460 ATTAATTAGTA-AAATATAATTTCATTTAATTAGATCTATTGTGATTTTA
1 ATTAATTAGTATAAA-ATAATTTTATTCAATTAGATCTACTGTGATTTTA
*
104509 ATTAATTAGTATAAAATAATTTTATTCAGTTAGATCTACTGTGATTTTA
1 ATTAATTAGTATAAAATAATTTTATTCAATTAGATCTACTGTGATTTTA
* * ** *
104558 ATTAATTA-T-TAGAAGAATTTTATTCAATTAGATCCGCTGTTATTTTA
1 ATTAATTAGTATAAAATAATTTTATTCAATTAGATCTACTGTGATTTTA
104605 ATTAATTAGTA
1 ATTAATTAGTA
104616 AAAGAGATCC
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
47 40 0.43
48 2 0.02
49 49 0.52
50 3 0.03
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (49 bp):
ATTAATTAGTATAAAATAATTTTATTCAATTAGATCTACTGTGATTTTA
Found at i:104967 original size:24 final size:24
Alignment explanation
Indices: 104898--104971 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
104888 AGGGCAAAGG
*
104898 AGAAGATAATTTTATTTAATTAGAT
1 AGAATATAATTTTA-TTAATTAGAT
** * *
104923 CCACTATGATTTTAATTAATTAG-T
1 AGAATATAATTTT-ATTAATTAGAT
104947 AGAATATAATTTTATTCAATTAGAT
1 AGAATATAATTTTATT-AATTAGAT
104972 CCATTATCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
23 3 0.08
24 16 0.43
25 17 0.46
26 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (24 bp):
AGAATATAATTTTATTAATTAGAT
Found at i:107487 original size:20 final size:21
Alignment explanation
Indices: 107462--107513 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
107452 TTTTCCCAAT
*
107462 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
107482 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
107503 TCGCAATGCGA
1 TCGCAATGCGA
107514 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:107527 original size:20 final size:19
Alignment explanation
Indices: 107502--107616 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 19
107492 AATTGGGAAA
107502 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACT-ACT
107522 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATAC-TACT
* *
107542 ATCGCAATGCGATAATACAA
1 ATCGCAATGCGATACTAC-T
* *
107562 AGTCGCAACGCGATTCTGACT
1 A-TCGCAATGCGATACT-ACT
* * *
107583 TTCGCAACGCGATAATACAT
1 ATCGCAATGCGATACTAC-T
107603 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
107617 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.06
20 47 0.60
21 24 0.31
22 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (19 bp):
ATCGCAATGCGATACTACT
Found at i:107568 original size:41 final size:40
Alignment explanation
Indices: 107502--107616 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 40
107492 AATTGGGAAA
* * *
107502 ATCGCAATGCGATACTGAC-TATCGCAATGCGATACTTACT
1 ATCGCAATGCGATAAT-ACAAATCGCAATGCGATACTGACT
* *
107542 ATCGCAATGCGATAATACAAAGTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATAATACAAA-TCGCAATGCGATACTGACT
* *
107583 TTCGCAACGCGATAATACATAATCGCAATGCGAT
1 ATCGCAATGCGATAATACA-AATCGCAATGCGAT
107617 TTTCAAAGCG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
39 2 0.03
40 16 0.25
41 44 0.69
42 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (40 bp):
ATCGCAATGCGATAATACAAATCGCAATGCGATACTGACT
Found at i:107812 original size:22 final size:22
Alignment explanation
Indices: 107784--107827 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
107774 CACTCTCTCA
107784 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
* *
107806 CCCATCTCCGGCGAAATTCGTC
1 CCCATCTCCGACGAAATCCGTC
107828 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:108141 original size:20 final size:20
Alignment explanation
Indices: 108087--108145 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
108077 GCGATTCTCT
**
108087 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
108107 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
108127 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
108146 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:108336 original size:25 final size:24
Alignment explanation
Indices: 108282--108336 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
108272 TGTTTATTAT
* *
108282 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
108306 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
108332 TGTTT
1 TGTTT
108337 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:109482 original size:18 final size:18
Alignment explanation
Indices: 109461--109505 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
109451 TCCACTTCGG
*
109461 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
109479 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
109497 GAGCCATCA
1 GAGCCATCA
109506 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:110006 original size:20 final size:20
Alignment explanation
Indices: 109981--110033 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
109971 TAGTTCACTT
109981 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
110001 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
*
110021 TCGCAATACGAAA
1 TCGCAACACGAAA
110034 TGAAAATCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:110071 original size:33 final size:33
Alignment explanation
Indices: 110020--110106 Score: 133
Period size: 32 Copynumber: 2.7 Consensus size: 33
110010 GGAAATGGCT
*
110020 ATCGCAATACGAAATGAAAATCACAACGACAAA
1 ATCGCAATCCGAAATGAAAATCACAACGACAAA
*
110053 ATCGTAATCCGAAATG-AAATCACAACGACAAA
1 ATCGCAATCCGAAATGAAAATCACAACGACAAA
110085 ATCGCAA-CGCGAAATGAAAATC
1 ATCGCAATC-CGAAATGAAAATC
110107 GCAATGCGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
31 1 0.02
32 29 0.59
33 19 0.39
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.14
Consensus pattern (33 bp):
ATCGCAATCCGAAATGAAAATCACAACGACAAA
Found at i:110146 original size:14 final size:14
Alignment explanation
Indices: 110127--110184 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
110117 TTGTGTTTCG
110127 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
110141 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
110157 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
110173 CGTTGCGATTTT
1 CGTTGCGATTTT
110185 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:110165 original size:32 final size:33
Alignment explanation
Indices: 110122--110200 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
110112 GCGATTTGTG
*
110122 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
110154 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
110187 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
110201 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 26 0.58
33 19 0.42
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:110219 original size:20 final size:19
Alignment explanation
Indices: 110185--110240 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
110175 TTGCGATTTT
*
110185 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
110204 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
110224 CATTTTCGTGTTGCGAT
1 CA-TTTCGCGTTGCGAT
110241 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:112125 original size:14 final size:14
Alignment explanation
Indices: 112106--112141 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
112096 ATTGTTTAAT
112106 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
112120 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
112134 TGATTTGT
1 TGATTTGT
112142 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:112249 original size:20 final size:20
Alignment explanation
Indices: 112224--112262 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
112214 ATGTTGAAGG
112224 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
112244 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
112263 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:112292 original size:19 final size:19
Alignment explanation
Indices: 112268--112332 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
112258 GCAACGAGAG
112268 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
112287 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
112306 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
112320 AATCGCAATGCGA
1 AATCGCAATGCGA
112333 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
16 2 0.05
17 2 0.05
19 27 0.63
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:112397 original size:20 final size:20
Alignment explanation
Indices: 112358--112427 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
112348 GCGATTTTGT
112358 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGCCATTTTCG
112377 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
112397 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
*
112417 CGTTGTGATAG
1 CGTTGCGATAG
112428 TCAAATGAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 14 0.29
20 35 0.71
ACGTcount: A:0.16, C:0.23, G:0.27, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:113442 original size:24 final size:24
Alignment explanation
Indices: 113415--113468 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
113405 GTATTCGAAA
*
113415 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* * *
113439 TTTGATATTGGTCAATGCTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
113463 TTTGAT
1 TTTGAT
113469 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:113660 original size:12 final size:12
Alignment explanation
Indices: 113643--113667 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
113633 ATATAATCTT
113643 GAAGAAGAAAAA
1 GAAGAAGAAAAA
113655 GAAGAAGAAAAA
1 GAAGAAGAAAAA
113667 G
1 G
113668 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:115978 original size:19 final size:19
Alignment explanation
Indices: 115956--116014 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
115946 GGAAATTACT
115956 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
115975 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
115989 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
116008 ATCGCAA
1 ATCGCAA
116015 CGCTAATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:115998 original size:33 final size:33
Alignment explanation
Indices: 115956--116082 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
115946 GGAAATTACT
115956 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
115989 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * * *
116021 TTTCGCAAAGCGAAATGAAAATAGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
116055 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
116083 CGATTTTCAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:116063 original size:66 final size:66
Alignment explanation
Indices: 115957--116083 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
115947 GAAATTACTA
* *
115957 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAAAGCGAAATGAAAATAGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
116022 T
66 T
*
116023 TCGCAAAGCGAAATGAAAATAGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGC
1 TCGCAAAGCGAAATGAAAATAGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGC
116084 GATTTTCATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (66 bp):
TCGCAAAGCGAAATGAAAATAGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
T
Found at i:116117 original size:14 final size:14
Alignment explanation
Indices: 116098--116154 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
116088 TTCATTTTCC
116098 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
116112 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
116131 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
116145 CGTTGCGATT
1 CGTTGCGATT
116155 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:116136 original size:19 final size:19
Alignment explanation
Indices: 116112--116172 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
116102 GCGATTCTCT
116112 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
116131 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
116145 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
116164 CATTGCGAT
1 CGTTGCGAT
116173 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:116140 original size:33 final size:33
Alignment explanation
Indices: 116082--116172 Score: 155
Period size: 33 Copynumber: 2.7 Consensus size: 33
116072 AAATCGCAAC
*
116082 GCGATTTTCATTTTCCCGTTGCGATTCTCTCGTT
1 GCGATTTTCA-TTTCGCGTTGCGATTCTCTCGTT
116116 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
116149 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
116173 AGTACTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 45 0.82
34 10 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:116295 original size:14 final size:14
Alignment explanation
Indices: 116276--116302 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
116266 TAACATCCAA
116276 CTTTTACAAATCAC
1 CTTTTACAAATCAC
116290 CTTTTACAAATCA
1 CTTTTACAAATCA
116303 ATTAAACAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (14 bp):
CTTTTACAAATCAC
Found at i:117719 original size:42 final size:41
Alignment explanation
Indices: 117660--117865 Score: 155
Period size: 42 Copynumber: 4.9 Consensus size: 41
117650 GTGAATCGGG
* *
117660 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
117702 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * * *
117744 CTCTTCAATGTTAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * *
117786 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * * *
117828 CTCTTCAACGATAGGAGTTGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAG
117866 GCGAGTCGGG
Statistics
Matches: 125, Mismatches: 31, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
41 9 0.07
42 105 0.84
43 11 0.09
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:117726 original size:21 final size:21
Alignment explanation
Indices: 117660--117726 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
117650 GTGAATCGGG
*
117660 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
117680 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
117702 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
117723 CTCT
1 CTCT
117727 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:117801 original size:84 final size:84
Alignment explanation
Indices: 117690--117865 Score: 325
Period size: 84 Copynumber: 2.1 Consensus size: 84
117680 CCTCTTCAAC
* *
117690 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGT
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
117755 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
117774 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
*
117839 TAGGAGTTGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
117858 GATGACAG
1 GATGACAG
117866 GCGAGTCGGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.23
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:118259 original size:91 final size:90
Alignment explanation
Indices: 118082--118268 Score: 304
Period size: 91 Copynumber: 2.0 Consensus size: 90
118072 ATATTTCAAA
*
118082 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTA
118147 GCAGAATTGGCAGCAACCGAATAAATTT
63 GCAGAATTGGCAGCAACCGAATAAATTT
118175 ACTTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAG
1 ACTTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAG
*
118239 CAGTATTGGCAGCAACCGAATAAATTT
64 CAGAATTGGCAGCAACCGAATAAATTT
118266 ACT
1 ACT
118269 AAGCAATCTA
Statistics
Matches: 90, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.47
93 21 0.23
95 27 0.30
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (90 bp):
ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
GAATTGGCAGCAACCGAATAAATTT
Found at i:119985 original size:20 final size:19
Alignment explanation
Indices: 119954--120046 Score: 97
Period size: 19 Copynumber: 5.1 Consensus size: 19
119944 TCTTTTGGTT
119954 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
119973 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGA
**
119993 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
120012 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
120026 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
120045 GA
1 GA
120047 GAATCGCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
14 10 0.17
16 2 0.03
17 2 0.03
19 29 0.48
20 17 0.28
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:119997 original size:39 final size:36
Alignment explanation
Indices: 119954--120046 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 36
119944 TCTTTTGGTT
119954 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAG--AA-GAGAATCGCAACGC
**
119993 GAAATGACTATCGCAAC--G-AGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAAGAGAATCGCAACGC
120026 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
120047 GAATCGCAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
33 29 0.62
34 1 0.02
35 1 0.02
37 1 0.02
39 15 0.32
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (36 bp):
GAAATGAAAATCGCAACGAGAAGAGAATCGCAACGC
Found at i:120021 original size:14 final size:14
Alignment explanation
Indices: 120002--120055 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
119992 CGAAATGACT
120002 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
120016 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
120035 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
120049 ATCGCAA
1 ATCGCAA
120056 TGCGATTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:120021 original size:33 final size:33
Alignment explanation
Indices: 119979--120060 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
119969 ACGAGATAAT
**
119979 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
120012 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
*
120045 GAGAATCGCAATGCGA
1 GAGAATCGCAACGCGA
120061 TTTTGGTTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.41, C:0.22, G:0.26, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:120078 original size:19 final size:19
Alignment explanation
Indices: 120056--120100 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
120046 AGAATCGCAA
*
120056 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
* *
120075 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
120094 TGCGATT
1 TGCGATT
120101 CTCTCGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.16, G:0.27, T:0.51
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:120676 original size:20 final size:20
Alignment explanation
Indices: 120652--120785 Score: 153
Period size: 20 Copynumber: 6.7 Consensus size: 20
120642 CGCTATGTAA
* * *
120652 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
120672 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
120692 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
120713 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
120733 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
120753 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
120773 ATCGCATTGCGAT
1 ATCGCATTGCGAT
120786 TTTCCCAATT
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
19 3 0.03
20 84 0.83
21 12 0.12
22 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:120825 original size:81 final size:81
Alignment explanation
Indices: 120652--120806 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 81
120642 CGCTATGTAA
* * * * ** *
120652 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCG
1 ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCG
120717 CATTGCGATAGTAAGT
66 CATTGCGATAGTAAGT
* * *
120733 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TC
1 ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATC
*
120797 GCGTTGCGAT
65 GCATTGCGAT
120807 TTACTTATTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
81 60 0.97
82 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (81 bp):
ATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCG
CATTGCGATAGTAAGT
Found at i:126234 original size:2 final size:2
Alignment explanation
Indices: 126227--126252 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
126217 TTAAAAGTGC
126227 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
126253 GTTTAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127620 original size:55 final size:55
Alignment explanation
Indices: 127528--128000 Score: 424
Period size: 55 Copynumber: 8.7 Consensus size: 55
127518 GCTTCGGATG
*
127528 ACGGGTCCGCTC-CATATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAA
1 ACGGGTCCGCTCTC-TATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAGCAA
* * * * * * *
127583 ATGCGTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAATAATCTTCAGCAA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAGCAA
* * *
127638 ACGGGTTCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTTGAACAATCTTCAACAA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAGCAA
* * * * * *
127693 ACGAGTCCGCTCTCTATTCTTTGAGAGAGTATAGGACTCAAACAATTTTC-GACAA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAG-CAA
*
127748 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTCAACAA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAGCAA
** * ** * *
127803 ACGAATTCGCTCTCTATT-CTATCAGAGAGTATGGGACTCGAACAAACTTCAACAA
1 ACGGGTCCGCTCTCTATTCCT-TCAGAGAGTATAAGACTCGAACAATCTTCAGCAA
* * * *
127858 ACGGGTCCACTCTCTATTCCATCAAAGAGTAT-AGAACTCG----ATCTTCAACAA
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAGCAA
* * **
127909 ATGGGTCCGCTCCCTATT-CTATCAGAGAGTAT-AGAACTCG----ATCTTCAATAA
1 ACGGGTCCGCTCTCTATTCCT-TCAGAGAGTATAAG-ACTCGAACAATCTTCAGCAA
*
127960 ACGGGTCCGCTCCCTATT-CTATCAGAGAGTAT-AGAACTCGA
1 ACGGGTCCGCTCTCTATTCCT-TCAGAGAGTATAAG-ACTCGA
128001 TCTTCATAAA
Statistics
Matches: 355, Mismatches: 51, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
50 1 0.00
51 92 0.26
54 6 0.02
55 252 0.71
56 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (55 bp):
ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAGCAA
Found at i:127723 original size:110 final size:110
Alignment explanation
Indices: 127528--128000 Score: 540
Period size: 110 Copynumber: 4.4 Consensus size: 110
127518 GCTTCGGATG
* * * * *
127528 ACGGGTCCGCTC-CATATTCCTTCAGGGAGTATA-AGACTCGAACAATCTTCAGCAAATGCGTCT
1 ACGGGTCCGCTCTC-TATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAACGAGTCC
* * *
127591 GCTCCCTATTCGT-TCAGGGAGTATAAGACTCGAATAATCTTCAGCAA
64 GCTCCCTATTC-TATCAGAGAGTATAAGACTCGAACAATCTTCAACAA
* *
127638 ACGGGTTCGCTCTCTATTCCTTCAGAGAGTATAGAACTTGAACAATCTTCAACAAACGAGTCCGC
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGAGTCCGC
* * * * * * *
127703 TCTCTATTCTTTGAGAGAGTATAGGACTCAAACAATTTTCGACAA
66 TCCCTATTCTATCAGAGAGTATAAGACTCGAACAATCTTCAACAA
* *
127748 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGAATTCGC
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGAGTCCGC
* ** *
127813 TCTCTATTCTATCAGAGAGTATGGGACTCGAACAAACTTCAACAA
66 TCCCTATTCTATCAGAGAGTATAAGACTCGAACAATCTTCAACAA
* * * * *
127858 ACGGGTCCACTCTCTATTCCATCAAAGAGTATAGAACTCG----ATCTTCAACAAATGGGTCCGC
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGAGTCCGC
*
127919 TCCCTATTCTATCAGAGAGTAT-AGAACTCG----ATCTTCAATAA
66 TCCCTATTCTATCAGAGAGTATAAG-ACTCGAACAATCTTCAACAA
*
127960 ACGGGTCCGCTCCCTATT-CTATCAGAGAGTATAGAACTCGA
1 ACGGGTCCGCTCTCTATTCCT-TCAGAGAGTATAGAACTCGA
128001 TCTTCATAAA
Statistics
Matches: 315, Mismatches: 42, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
101 1 0.00
102 43 0.14
105 1 0.00
106 43 0.14
109 1 0.00
110 224 0.71
111 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (110 bp):
ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGAGTCCGC
TCCCTATTCTATCAGAGAGTATAAGACTCGAACAATCTTCAACAA
Found at i:127797 original size:165 final size:162
Alignment explanation
Indices: 127532--128000 Score: 526
Period size: 165 Copynumber: 2.9 Consensus size: 162
127522 CGGATGACGG
* * * *
127532 GTCCGCTC-CATATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAATGCGTCTGCTCC
1 GTCCGCTCTC-TATTCCTTCAGAGAGTATAGGACTC-AACAATCTTCA-CAAATGGGTCCGCTCC
* * *
127596 CTATTCGTTCAGGGAGTATA-AGACTCGAATAATCTTCAGCAAACGGGTTCGCTCTCTATTCCT-
63 CTATTCCTTCAGAGAGTATAGA-ACTCGAA-AATCTTCAACAAACGGGTTCGCTCTCTATT-CTA
* *
127659 TCAGAGAGTATAGAACTTGAACAATCTTCAACAAACGA
125 TCAGAGAGTATAGAACTCGAACAAACTTCAACAAACGA
* * * * *
127697 GTCCGCTCTCTATTCTTTGAGAGAGTATAGGACTCAAACAATTTTCGACAAACGGGTCCGCTCTC
1 GTCCGCTCTCTATTCCTTCAGAGAGTATAGGACTC-AACAATCTTC-ACAAATGGGTCCGCTCCC
**
127762 TATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGAATTCGCTCTCTATTCTATCA
64 TATTCCTTCAGAGAGTATAGAACTCGAA-AATCTTCAACAAACGGGTTCGCTCTCTATTCTATCA
* * *
127827 GAGAGTATGGGACTCGAACAAACTTCAACAAACGG
128 GAGAGTATAGAACTCGAACAAACTTCAACAAACGA
* * * * *
127862 GTCCACTCTCTATTCCATCAAAGAGTATAGAACT---CGATCTTCAACAAATGGGTCCGCTCCCT
1 GTCCGCTCTCTATTCCTTCAGAGAGTATAGGACTCAACAATCTTC-ACAAATGGGTCCGCTCCCT
* * *
127924 ATT-CTATCAGAGAGTATAGAACTCG---ATCTTCAATAAACGGGTCCGCTCCCTATTCTATCAG
65 ATTCCT-TCAGAGAGTATAGAACTCGAAAATCTTCAACAAACGGGTTCGCTCTCTATTCTATCAG
127985 AGAGTATAGAACTCGA
129 AGAGTATAGAACTCGA
128001 TCTTCATAAA
Statistics
Matches: 260, Mismatches: 39, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
157 45 0.17
160 2 0.01
161 45 0.17
164 2 0.01
165 163 0.63
166 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (162 bp):
GTCCGCTCTCTATTCCTTCAGAGAGTATAGGACTCAACAATCTTCACAAATGGGTCCGCTCCCTA
TTCCTTCAGAGAGTATAGAACTCGAAAATCTTCAACAAACGGGTTCGCTCTCTATTCTATCAGAG
AGTATAGAACTCGAACAAACTTCAACAAACGA
Found at i:128067 original size:36 final size:37
Alignment explanation
Indices: 128011--128081 Score: 110
Period size: 36 Copynumber: 1.9 Consensus size: 37
128001 TCTTCATAAA
*
128011 ATGAGTTTGCTTCACTACTCTTCCGA-GAAGGCTTATG
1 ATGAGTTTGCTTCACAACTCTTCC-ATGAAGGCTTATG
128048 ATGA-TTTGCTTCACAACTCTTCCATGAAGGCTTA
1 ATGAGTTTGCTTCACAACTCTTCCATGAAGGCTTA
128082 AGTTTGAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 1 0.03
36 27 0.84
37 4 0.12
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (37 bp):
ATGAGTTTGCTTCACAACTCTTCCATGAAGGCTTATG
Found at i:129433 original size:14 final size:15
Alignment explanation
Indices: 129415--129456 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
129405 TATTTCTCTT
*
129415 TTTTTCATTTTTCCC
1 TTTTTCATTTTTCAC
*
129430 TTTTTTCATTTTTTA-
1 -TTTTTCATTTTTCAC
129445 TTTTTCATTTTT
1 TTTTTCATTTTT
129457 TCTTCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
16 12 0.50
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTCATTTTTCAC
Found at i:129442 original size:9 final size:9
Alignment explanation
Indices: 129413--129541 Score: 71
Period size: 9 Copynumber: 14.7 Consensus size: 9
129403 TTTATTTCTC
129413 TTTTTTTCA
1 TTTTTTTCA
*
129422 --TTTTTCC
1 TTTTTTTCA
*
129429 CTTTTTTCA
1 TTTTTTTCA
129438 -TTTTTT-A
1 TTTTTTTCA
129445 --TTTTTCA
1 TTTTTTTCA
129452 TTTTTTCTTCA
1 -TTTTT-TTCA
*
129463 TTTTTTCCA
1 TTTTTTTCA
129472 TTTTTTCTCA
1 TTTTTT-TCA
129482 -TTTTTTC-
1 TTTTTTTCA
129489 TTCTTTTTC-
1 TT-TTTTTCA
* *
129498 TTCTTCTCA
1 TTTTTTTCA
*
129507 TTTTTATTATTA
1 -TTTT-TT-TCA
129519 TTTTTTTCA
1 TTTTTTTCA
129528 -TTTTTTCA
1 TTTTTTTCA
129536 TTTTTT
1 TTTTTT
129542 CTCTTTTATT
Statistics
Matches: 95, Mismatches: 10, Indels: 30
0.70 0.07 0.22
Matches are distributed among these distances:
6 5 0.05
7 8 0.08
8 21 0.22
9 35 0.37
10 15 0.16
11 9 0.09
12 2 0.02
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:129449 original size:16 final size:15
Alignment explanation
Indices: 129414--129541 Score: 57
Period size: 15 Copynumber: 7.9 Consensus size: 15
129404 TTATTTCTCT
**
129414 TTTTTTCATTTTTCCC
1 TTTTTTCATTTTT-TA
129430 TTTTTTCATTTTTTA
1 TTTTTTCATTTTTTA
129445 -TTTTTCATTTTTTCTTCA
1 TTTTTTCA--TTTT-TT-A
129463 TTTTTTCCATTTTTTCTCA
1 TTTTTT-CA-TTTTT-T-A
* *
129482 TTTTTTCTTCTTTTTC
1 TTTTTTCAT-TTTTTA
*
129498 TTCTTCTCA-TTTTTA
1 TT-TTTTCATTTTTTA
*
129513 TTATTATT--TTTTTCA
1 TT-TT-TTCATTTTTTA
129528 TTTTTTCATTTTTT
1 TTTTTTCATTTTTT
129542 CTCTTTTATT
Statistics
Matches: 88, Mismatches: 11, Indels: 27
0.70 0.09 0.21
Matches are distributed among these distances:
13 2 0.02
14 9 0.10
15 21 0.24
16 20 0.23
17 8 0.09
18 7 0.08
19 19 0.22
20 2 0.02
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTCATTTTTTA
Found at i:129457 original size:14 final size:14
Alignment explanation
Indices: 129431--129457 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
129421 ATTTTTCCCT
129431 TTTTTCATTTTTTA
1 TTTTTCATTTTTTA
129445 TTTTTCATTTTTT
1 TTTTTCATTTTTT
129458 CTTCATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCATTTTTTA
Found at i:129502 original size:42 final size:40
Alignment explanation
Indices: 129418--129503 Score: 93
Period size: 42 Copynumber: 2.1 Consensus size: 40
129408 TTCTCTTTTT
* *
129418 TTCATTTTTCCCTTTTTTCATTTTTTATTTTTCATTTTTTC
1 TTCATTTTTCCCTTTTTTCATTTTTTATTCTT-ATTTCTTC
* *
129459 TTCATTTTTTCCATTTTTTCTCATTTTTTCTTCTT-TTTCTTC
1 TTCA-TTTTTCC-CTTTTT-TCATTTTTTATTCTTATTTCTTC
129501 TTC
1 TTC
129504 TCATTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
41 4 0.11
42 16 0.42
43 5 0.13
44 13 0.34
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (40 bp):
TTCATTTTTCCCTTTTTTCATTTTTTATTCTTATTTCTTC
Found at i:129539 original size:7 final size:8
Alignment explanation
Indices: 129414--129542 Score: 83
Period size: 8 Copynumber: 15.9 Consensus size: 8
129404 TTATTTCTCT
129414 TTTTTTCA
1 TTTTTTCA
* *
129422 TTTTTCCC
1 TTTTTTCA
129430 TTTTTTCA
1 TTTTTTCA
129438 TTTTTT-A
1 TTTTTTCA
129445 -TTTTTCA
1 TTTTTTCA
129452 TTTTTTCTTCA
1 --TTTT-TTCA
129463 TTTTTTCCA
1 TTTTTT-CA
129472 TTTTTTCTCA
1 -TTTTT-TCA
*
129482 TTTTTTCT
1 TTTTTTCA
129490 TCTTTTTC-
1 T-TTTTTCA
*
129498 TTCTTCTCA
1 TT-TTTTCA
129507 -TTTTT-A
1 TTTTTTCA
*
129513 -TTATT-A
1 TTTTTTCA
129519 TTTTTTTCA
1 -TTTTTTCA
129528 TTTTTTCA
1 TTTTTTCA
129536 TTTTTTC
1 TTTTTTC
129543 TCTTTTATTT
Statistics
Matches: 98, Mismatches: 9, Indels: 28
0.73 0.07 0.21
Matches are distributed among these distances:
6 11 0.11
7 6 0.06
8 48 0.49
9 18 0.18
10 10 0.10
11 5 0.05
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:129540 original size:44 final size:44
Alignment explanation
Indices: 129430--129540 Score: 104
Period size: 44 Copynumber: 2.5 Consensus size: 44
129420 CATTTTTCCC
*
129430 TTTTTTCATTTTTT-ATTTTTCATTTTTTCTTCATTTTTTCCATT
1 TTTTTTCATTTTTTCATTTTTCA-TTCTTCTTCATTTTTTCCATT
* * *
129474 TTTTCTCATTTTTTCTTCTTTTTC-TTCTTC-TCATTTTTAT-TATTAT
1 TTTTTTCATTTTTTC--ATTTTTCATTCTTCTTCATTTTT-TCCA-T-T
129520 TTTTTTCATTTTTTCATTTTT
1 TTTTTTCATTTTTTCATTTTT
129541 TCTCTTTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
44 27 0.49
45 7 0.13
46 15 0.27
47 6 0.11
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (44 bp):
TTTTTTCATTTTTTCATTTTTCATTCTTCTTCATTTTTTCCATT
Found at i:146367 original size:18 final size:17
Alignment explanation
Indices: 146346--146401 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
146336 AATAATAAAT
146346 TAATTTAAATAAAATTAA
1 TAATTTAAATAAAA-TAA
* *
146364 TAATTT-ATTAAAAATAT
1 TAATTTAAAT-AAAATAA
146381 TATATTTATAATAAAATAA
1 TA-ATTTA-AATAAAATAA
146400 TA
1 TA
146402 GAAAGTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 6 0.20
18 14 0.47
19 8 0.27
20 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATTTAAATAAAATAA
Found at i:149185 original size:16 final size:16
Alignment explanation
Indices: 149153--149198 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
149143 TGTTTTCTAA
*
149153 TCGGGTTAAAATTCAGT
1 TCGGGTT-AATTTCAGT
*
149170 TCGGGTTACTTTCAGT
1 TCGGGTTAATTTCAGT
149186 TCGGGTTAATTTC
1 TCGGGTTAATTTC
149199 GATTCAGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (16 bp):
TCGGGTTAATTTCAGT
Found at i:150837 original size:23 final size:23
Alignment explanation
Indices: 150772--150841 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
150762 CTCCTCAAAA
* *
150772 CCTAAAAATT-CTAAGAGATAAAT
1 CCTAAAAATTAC-AAAAGATAATT
150795 CCTAATAAA-TAC-AAAGATAATT
1 CCTAA-AAATTACAAAAGATAATT
150817 CCTAAAAATTACAAAAGATAATT
1 CCTAAAAATTACAAAAGATAATT
150840 CC
1 CC
150842 GTTTGAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 3 0.07
22 16 0.39
23 18 0.44
24 4 0.10
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.26
Consensus pattern (23 bp):
CCTAAAAATTACAAAAGATAATT
Found at i:158784 original size:18 final size:20
Alignment explanation
Indices: 158755--158791 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
158745 TAAATTTATG
158755 ATAAAGTA-TTTTTGAATAT
1 ATAAAGTATTTTTTGAATAT
158774 ATAAA-TATTTTTTGAATA
1 ATAAAGTATTTTTTGAATA
158792 GAAAAGGCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (20 bp):
ATAAAGTATTTTTTGAATAT
Found at i:161181 original size:2 final size:2
Alignment explanation
Indices: 161170--161201 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
161160 TTAATACAAG
161170 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
161202 GTGCAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:171281 original size:18 final size:18
Alignment explanation
Indices: 171258--171305 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
171248 AAATTGTACT
*
171258 TATTATATATTTGTATAA
1 TATTATATATTTGTAAAA
*
171276 TATTATA-AATTGTAAAA
1 TATTATATATTTGTAAAA
171293 TATTTATATATTT
1 TA-TTATATATTT
171306 TCTTTGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 12 0.48
19 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
TATTATATATTTGTAAAA
Found at i:172332 original size:17 final size:17
Alignment explanation
Indices: 172310--172353 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
172300 ATATAAAAAT
172310 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
172327 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
172344 AAATATTTAA
1 AAATATTTAA
172354 TCATGATTTA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:172410 original size:16 final size:17
Alignment explanation
Indices: 172389--172431 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
172379 ATATAAAAAT
172389 AAATATTTAAATTTA-A
1 AAATATTTAAATTTATA
** *
172405 AAATATAAAAATTTATT
1 AAATATTTAAATTTATA
172422 AAATATTTAA
1 AAATATTTAA
172432 TCAAGTAATG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTTAAATTTATA
Found at i:184249 original size:20 final size:20
Alignment explanation
Indices: 184224--184265 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
184214 CTTCTATCTC
184224 ACAACTGATTTTGTTGTAAA
1 ACAACTGATTTTGTTGTAAA
184244 ACAACTGATTTTGTTGTAAA
1 ACAACTGATTTTGTTGTAAA
184264 AC
1 AC
184266 CTACAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (20 bp):
ACAACTGATTTTGTTGTAAA
Found at i:184967 original size:24 final size:24
Alignment explanation
Indices: 184940--184989 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
184930 CACTCAACCA
184940 GTAAAATTCACCAATGGCATCAGG
1 GTAAAATTCACCAATGGCATCAGG
184964 GTAAAATTCACCAATGGCATCAGG
1 GTAAAATTCACCAATGGCATCAGG
184988 GT
1 GT
184990 TTTTGCTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (24 bp):
GTAAAATTCACCAATGGCATCAGG
Found at i:186675 original size:453 final size:450
Alignment explanation
Indices: 185832--186676 Score: 1167
Period size: 453 Copynumber: 1.9 Consensus size: 450
185822 TTAGATTTTA
* *
185832 TTGGGTTATGGGGTCCAGCGATCACCCTTACAGATTCTATCGTGTATGGGCGCGATATCAGGTGC
1 TTGGGTTATGGGGTCCAGCGATCACCCTTACAGATTCTATCGTATATGGGCGCGATATCAGGCGC
* ** * * * * * * *
185897 GTGACAGCCCAACATGTCGAGGTCCACGTGTGTCTTACGAATCCCCTAGGCCAGCCCGCAACACT
66 GTGACAACCCAACATACCAAGGCCCACGTGTGCCTTACGAAGCCCCTAAGCCAGCCCACAACACG
* *
185962 CTATAGATGCGGGGCTCTGCAATACCGTGGTAACTGTGGGGGTGCCCCACAAGAATCCACCTTGA
131 CTATAGATACGAGGCTCTGCAATACCGTGGTAACTGTGGGGGTGCCCCACAAGAATCCACCTTGA
* * *
186027 CTTGGGGAAACCAGTGATCACCCGCTACAAAAACGTGAGGTTAAAATGACCCACATTCTTATCAT
196 CTTGGGGAAACCAATGATCACCCGCTACAAAAACATGAGGTTAAAATGACCCACATTCTTATCAC
* * *
186092 CAATTTGTTTTAAGAATGAATGATGAACATTCGCTTCAGAACTTTGTAGTTAAGCGTGCTTGAAC
261 CAATTTGTTTTAAGAAGGAATGATGAACATTCGCTTCAGAACTTTGTAGCTAAACGTGCTTGAAC
* * *
186157 CAGAGTAATTCAAGGATGCGTGACCAACTGGTAAGTTGTTCAAAAAATGAATGACTCGATCCTAA
326 CAGAGTAATCCAAGGATGCGTGACCAACTGGGAAGTTGTTCAAAAAATGAATGACTCAATCCTAA
186222 CAAGTGGTATCAGAGCAGGTTGCAGGTTCGAATCCCCTAGGTGTCGCTAGAGGGTGATTG
391 CAAGTGGTATCAGAGCAGGTTGCAGGTTCGAATCCCCTAGGTGTCGCTAGAGGGTGATTG
* * * *
186282 TTGGGTTATGGGGTCTATCGATCACCCTTA-GGAATTGTATCGTATATGGGCGCGATATCAGGCG
1 TTGGGTTATGGGGTCCAGCGATCACCCTTACAG-ATTCTATCGTATATGGGCGCGATATCAGGCG
* * *
186346 TGTGACAACCCATTC-TACCAAGGCCCACGTGTGCCTTGCGAAGCCCCTAAGCCAGCCCACAACA
65 CGTGACAACCCA-ACATACCAAGGCCCACGTGTGCCTTACGAAGCCCCTAAGCCAGCCCACAACA
* * *
186410 CGCTATAGATACGAGGCTCTGCAATGCCGTGGTAAACTGTGGAGGGTGCCCTACAATAATCCACC
129 CGCTATAGATACGAGGCTCTGCAATACCGTGGT-AACTGTGG-GGGTGCCCCACAAGAATCCACC
* * * * * * *
186475 TTGGCTTGGGGGAAACCAATGATTACCTGCTACAAAGATATGAGGTTAAAATGGCCCACCTAT-T
192 TTGACTT-GGGGAAACCAATGATCACCCGCTACAAAAACATGAGGTTAAAATGACCCACAT-TCT
* *
186539 TATCACCAA-TTGATTTTAAGAAGGAATGATGAACATTCGCTTTAGAACTTTGTAGCTAAATGTG
255 TATCACCAATTTG-TTTTAAGAAGGAATGATGAACATTCGCTTCAGAACTTTGTAGCTAAACGTG
* * * * **
186603 CTTGAACCAGAGTAATCCAAGGATGGGTGACCCATTGGGAGGTTGTTTGAAAAATGAATGACTCA
319 CTTGAACCAGAGTAATCCAAGGATGCGTGACCAACTGGGAAGTTGTTCAAAAAATGAATGACTCA
186668 ATCCTAACA
384 ATCCTAACA
186677 TATTTTTTTT
Statistics
Matches: 340, Mismatches: 48, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
449 1 0.00
450 135 0.40
451 9 0.03
452 29 0.09
453 165 0.49
454 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (450 bp):
TTGGGTTATGGGGTCCAGCGATCACCCTTACAGATTCTATCGTATATGGGCGCGATATCAGGCGC
GTGACAACCCAACATACCAAGGCCCACGTGTGCCTTACGAAGCCCCTAAGCCAGCCCACAACACG
CTATAGATACGAGGCTCTGCAATACCGTGGTAACTGTGGGGGTGCCCCACAAGAATCCACCTTGA
CTTGGGGAAACCAATGATCACCCGCTACAAAAACATGAGGTTAAAATGACCCACATTCTTATCAC
CAATTTGTTTTAAGAAGGAATGATGAACATTCGCTTCAGAACTTTGTAGCTAAACGTGCTTGAAC
CAGAGTAATCCAAGGATGCGTGACCAACTGGGAAGTTGTTCAAAAAATGAATGACTCAATCCTAA
CAAGTGGTATCAGAGCAGGTTGCAGGTTCGAATCCCCTAGGTGTCGCTAGAGGGTGATTG
Found at i:189165 original size:22 final size:20
Alignment explanation
Indices: 189117--189165 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
189107 TTTGAAGTTT
*
189117 AATTATTTTAAAATTTTCAA
1 AATTTTTTTAAAATTTTCAA
189137 ATGATTTTTTTAAATATTTATCAA
1 A--ATTTTTTTAAA-ATTT-TCAA
189161 AATTT
1 AATTT
189166 GTTAATGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 14 0.58
23 4 0.17
24 5 0.21
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
AATTTTTTTAAAATTTTCAA
Found at i:190447 original size:2 final size:2
Alignment explanation
Indices: 190440--190490 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
190430 TCAGTAATTC
190440 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
190482 TA TA TA TA T
1 TA TA TA TA T
190491 CTGAAAATGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:195394 original size:3 final size:3
Alignment explanation
Indices: 195381--195425 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
195371 CATTAAACCA
*
195381 TCT TAT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
195426 CTCATTCTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:203543 original size:38 final size:38
Alignment explanation
Indices: 203492--203566 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
203482 CCAGTAGGCT
203492 ATTTTGGTATTGGTACTCTAGGGAGTATCGATACCCAC
1 ATTTTGGTATTGGTACTCTAGGGAGTATCGATACCCAC
*
203530 ATTTTTGTATTGGTACTCTAGGGAGTATCGATACCCA
1 ATTTTGGTATTGGTACTCTAGGGAGTATCGATACCCA
203567 GGGTCCTAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (38 bp):
ATTTTGGTATTGGTACTCTAGGGAGTATCGATACCCAC
Found at i:212371 original size:31 final size:31
Alignment explanation
Indices: 212331--212401 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
212321 GTAAATATCA
* *
212331 TTTAGTAATAGTTCAATAAATATAATTATAAT
1 TTTA-TAATAATTCAATAAATATAATGATAAT
* * *
212363 TTTATAATAATTCGATTAATATAATGATTAT
1 TTTATAATAATTCAATAAATATAATGATAAT
212394 TTTATAAT
1 TTTATAAT
212402 TTTTAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (31 bp):
TTTATAATAATTCAATAAATATAATGATAAT
Found at i:213879 original size:2 final size:2
Alignment explanation
Indices: 213866--213896 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
213856 CATTTTCCTC
*
213866 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
213897 GCCCTTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:216254 original size:23 final size:23
Alignment explanation
Indices: 216228--216273 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
216218 CACCACAGCT
*
216228 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
216251 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
216274 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:216490 original size:149 final size:146
Alignment explanation
Indices: 216251--216699 Score: 826
Period size: 147 Copynumber: 3.0 Consensus size: 146
216241 CGAAGTGCCA
216251 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
*
216316 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATATTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAG-A-ATA
216381 TATATATCCCGAAGAACCG
129 TATATATCCCGAAG-ACCG
216400 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
* *
216465 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTCCACACATGTTCCACATAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
216530 TATATCCCGAATGACCG
131 TATATCCCGAA-GACCG
216547 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
216612 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
216677 TATATCCCGAAGGACCG
131 TATATCCCGAA-GACCG
216694 CGTAGA
1 CGTAGA
216700 CCCTCTACCA
Statistics
Matches: 293, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
147 170 0.58
148 2 0.01
149 121 0.41
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (146 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATCCCGAAGACCG
Found at i:217251 original size:19 final size:19
Alignment explanation
Indices: 217227--217279 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
217217 TTTATTAGAA
217227 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
217246 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
217265 ATGCATCGATGCACT
1 ATGCATCGATGCACT
217280 GAATTCGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (19 bp):
ATGCATCGATGCACTCCTT
Found at i:217316 original size:19 final size:19
Alignment explanation
Indices: 217227--217321 Score: 79
Period size: 19 Copynumber: 4.9 Consensus size: 19
217217 TTTATTAGAA
* *
217227 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTTCAT
* *
217246 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTTCAT
*
217265 ATGCATCGATGCAC-TGA-
1 ATGCATCGATGCACTTCAT
*
217282 ATTCGATC-ATCGGCACTTCAT
1 ATGC-ATCGAT--GCACTTCAT
217303 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCA-CTTCA
217322 ACAAATTTCA
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
17 5 0.08
18 3 0.05
19 40 0.63
20 10 0.16
21 5 0.08
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (19 bp):
ATGCATCGATGCACTTCAT
Found at i:223116 original size:23 final size:23
Alignment explanation
Indices: 223090--223135 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
223080 CACCACAGCT
*
223090 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
223113 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
223136 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:223508 original size:149 final size:149
Alignment explanation
Indices: 223113--223699 Score: 1093
Period size: 149 Copynumber: 3.9 Consensus size: 149
223103 CGAAGTGCCA
223113 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
* *
223178 CATATACATATACTAGGGATCAAGTATATGTCTTACAAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAG-A-ATA
*
223243 TATATATATCTCGAAGGACCG
129 TATATATATCCCGAAGGACCG
*
223264 CGTAGAATTGCACCGTAGTGCCATATAATAAATGTCTATAAGGACCACATATCATTCCTTAAGAA
1 CGTAGAATTGCACCGTAGTGCCATATAAT-AATGTCCATAAGGACCACATATCATTCCTTAAGAA
223329 TCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATAT
65 TCATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATAT
223394 ATATATATCCCGAAGGACCG
130 ATATATATCCCGAAGGACCG
*
223414 CGTAGAATTGCACCATAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
223479 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
223544 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
*
223563 CGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
223628 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
223693 TATATAT
131 TATATAT
223700 ATATCTCTCG
Statistics
Matches: 427, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
149 254 0.59
150 51 0.12
151 30 0.07
152 92 0.22
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:224316 original size:63 final size:63
Alignment explanation
Indices: 224179--224337 Score: 194
Period size: 63 Copynumber: 2.5 Consensus size: 63
224169 TAATGGAGGC
* * * *
224179 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCATTTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATTTTATAAGAA
* ** **
224242 ATGCATAGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTTA-AATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCAT-TTTATAAGAA
* * *
224305 ATTCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
224338 CTTCAACAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
63 78 0.95
64 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATTTTATAAGAA
Found at i:226028 original size:24 final size:24
Alignment explanation
Indices: 225968--226034 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
225958 TAATGGGTTG
225968 ACTCGGTCTGAGTTAACTCGATCA
1 ACTCGGTCTGAGTTAACTCGATCA
* * *
225992 ACCCAGTCTGAGTTAACTCGGTCA
1 ACTCGGTCTGAGTTAACTCGATCA
* *
226016 ACTCGGTCCGAGTTGACTC
1 ACTCGGTCTGAGTTAACTC
226035 AGCTTCTGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (24 bp):
ACTCGGTCTGAGTTAACTCGATCA
Found at i:236707 original size:70 final size:70
Alignment explanation
Indices: 236594--236733 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
236584 AATGCAATTA
236594 ATAACAGTAAAAACCACAACCGATAACCAGAAATCAGCATCTGATTTAAGTAAGAATTAAAACGG
1 ATAACAGTAAAAACCACAACCGATAACCAGAAATCAGCATCTGATTTAAGTAAGAATTAAAACGG
236659 AAACC
66 AAACC
236664 ATAACAGTAAAAACCACAACCGATAACCAGAAATCAGCATCTGATTTAAGTAAGAATTAAAACGG
1 ATAACAGTAAAAACCACAACCGATAACCAGAAATCAGCATCTGATTTAAGTAAGAATTAAAACGG
236729 AAACC
66 AAACC
236734 TTAATTAACG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.50, C:0.20, G:0.13, T:0.17
Consensus pattern (70 bp):
ATAACAGTAAAAACCACAACCGATAACCAGAAATCAGCATCTGATTTAAGTAAGAATTAAAACGG
AAACC
Done.