Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 78
Found at i:2057767 original size:35 final size:35
Alignment explanation
Indices: 2057721--2057793 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
2057711 CATTACAATA
2057721 TTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
*
2057756 TTTCAAAGAAACATTTATCAAACTTTGAAAACCAT
1 TTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
2057791 TTT
1 TTT
2057794 TTCAAAGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (35 bp):
TTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
Found at i:2061495 original size:37 final size:36
Alignment explanation
Indices: 2061446--2061554 Score: 166
Period size: 35 Copynumber: 3.0 Consensus size: 36
2061436 ATATTTCAAC
*
2061446 AAACATCTACCAAACTTTGAAAAACCATTTTTCAAAG
1 AAACATTTACCAAACTTTG-AAAACCATTTTTCAAAG
* *
2061483 AAATATTTACCAAACTTTGAAAACTA-TTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
2061518 AAACATTTACCAAACTTTGAAAACCATTTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTTCAAAG
2061555 TTGGTTGCCA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 33 0.51
36 6 0.09
37 26 0.40
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (36 bp):
AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
Found at i:2061510 original size:21 final size:21
Alignment explanation
Indices: 2061486--2061546 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2061476 TTCAAAGAAA
2061486 TATTTACCAAACTTTGAAAAC
1 TATTTACCAAACTTTGAAAAC
*
2061507 TATTT-TCAAA----G-AAAC
1 TATTTACCAAACTTTGAAAAC
2061522 -ATTTACCAAACTTTGAAAAC
1 TATTTACCAAACTTTGAAAAC
*
2061542 CATTT
1 TATTT
2061547 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 4 0.13
15 8 0.26
16 1 0.03
19 1 0.03
20 8 0.26
21 9 0.29
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (21 bp):
TATTTACCAAACTTTGAAAAC
Found at i:2062142 original size:45 final size:44
Alignment explanation
Indices: 2062007--2062284 Score: 227
Period size: 43 Copynumber: 6.4 Consensus size: 44
2061997 AATTTTAATT
* ** * *
2062007 TTTTTATATTTATAATTGAGGCCCCTAA-TTTTTGCAATCACAC
1 TTTTTACATTTATAATTGAGGATCCTAATTTTTTTCAATCTCAC
* *
2062050 ATTTTATC-TTTATAATTG-GGATCATTAA-TTTTTTCAATCTCAC
1 TTTTTA-CATTTATAATTGAGGATC-CTAATTTTTTTCAATCTCAC
* *
2062093 TTTTTTATATTTATAATTGATGATCCTAATTTTTTTCAATCTCAC
1 -TTTTTACATTTATAATTGAGGATCCTAATTTTTTTCAATCTCAC
* *
2062138 TTTTTACGTTTATAATTGA--ACTCCTATTTTTTTTTTCAATCTCAC
1 TTTTTACATTTATAATTGAGGA-TCCTA--ATTTTTTTCAATCTCAC
* * ** *
2062183 ATTTTACCTTTATAATTGAGGCCCCTAATTTTTTT-AATATCAC
1 TTTTTACATTTATAATTGAGGATCCTAATTTTTTTCAATCTCAC
* * *
2062226 TTTTTACATTTAAAATTGAGG-CCTCTAA--TTTTTCAACCAT-AC
1 TTTTTACATTTATAATTGAGGATC-CTAATTTTTTTCAATC-TCAC
*
2062268 TTTTTACTTTTATAATT
1 TTTTTACATTTATAATT
2062285 TAAACCCCTA
Statistics
Matches: 194, Mismatches: 27, Indels: 29
0.78 0.11 0.12
Matches are distributed among these distances:
41 5 0.03
42 25 0.13
43 66 0.34
44 42 0.22
45 52 0.27
46 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (44 bp):
TTTTTACATTTATAATTGAGGATCCTAATTTTTTTCAATCTCAC
Found at i:2062154 original size:88 final size:90
Alignment explanation
Indices: 2062006--2062243 Score: 274
Period size: 88 Copynumber: 2.7 Consensus size: 90
2061996 AAATTTTAAT
* * * *
2062006 TTTTTTATATTTATAATTGAGGCCCCTAA-TTTTTGCAATCACACATTTTATCTTTATAATTGGG
1 TTTTTTATATTTATAATTGAGGCCCCTAATTTTTTTCAATCTCACTTTTTA-CTTTATAATTGGA
2062070 A-T-C-ATTAATTTTTTCAATCTCAC
65 ACTCCTATTAATTTTTTCAATCTCAC
* **
2062093 TTTTTTATATTTATAATTGATGATCCTAATTTTTTTCAATCTCACTTTTTACGTTTATAATT-GA
1 TTTTTTATATTTATAATTGAGGCCCCTAATTTTTTTCAATCTCACTTTTTAC-TTTATAATTGGA
**
2062157 ACTCCTATTTTTTTTTTCAATCTCAC
65 ACTCCTATTAATTTTTTCAATCTCAC
* ** * *
2062183 -ATTTTACCTTTATAATTGAGGCCCCTAATTTTTTT-AATATCACTTTTTACATTTAAAATTG
1 TTTTTTATATTTATAATTGAGGCCCCTAATTTTTTTCAATCTCACTTTTTAC-TTTATAATTG
2062244 AGGCCTCTAA
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
87 29 0.23
88 50 0.39
89 30 0.24
90 18 0.14
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (90 bp):
TTTTTTATATTTATAATTGAGGCCCCTAATTTTTTTCAATCTCACTTTTTACTTTATAATTGGAA
CTCCTATTAATTTTTTCAATCTCAC
Found at i:2063991 original size:10 final size:10
Alignment explanation
Indices: 2063958--2063991 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2063948 AAATTTCAAA
2063958 TTTTTATATT
1 TTTTTATATT
**
2063968 TTTAAATATT
1 TTTTTATATT
2063978 TTTTTATATT
1 TTTTTATATT
2063988 TTTT
1 TTTT
2063992 ATTGAAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTATATT
Found at i:2064690 original size:15 final size:16
Alignment explanation
Indices: 2064670--2064724 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
2064660 ATTTACTTCA
*
2064670 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
2064685 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
*
2064701 GAATGATTCAGAAACTCT
1 GAATGATTC--AAACGCT
2064719 GAATGA
1 GAATGA
2064725 ATTATATCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 8 0.24
16 14 0.42
18 11 0.33
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:2066474 original size:14 final size:14
Alignment explanation
Indices: 2066455--2066481 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2066445 TAGGATTAGA
2066455 TTTAGTTTAGGTTT
1 TTTAGTTTAGGTTT
2066469 TTTAGTTTAGGTT
1 TTTAGTTTAGGTT
2066482 ATATATTAAT
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:0.15, C:0.00, G:0.22, T:0.63
Consensus pattern (14 bp):
TTTAGTTTAGGTTT
Found at i:2066738 original size:27 final size:27
Alignment explanation
Indices: 2066698--2066749 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
2066688 TTATTTATGC
2066698 GTATTTAATATTTAGGTCACTGATTTA
1 GTATTTAATATTTAGGTCACTGATTTA
* *
2066725 GTATTTCATGTTTAGGTCACTGATT
1 GTATTTAATATTTAGGTCACTGATT
2066750 CATTTCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (27 bp):
GTATTTAATATTTAGGTCACTGATTTA
Found at i:2075618 original size:18 final size:17
Alignment explanation
Indices: 2075596--2075636 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2075586 CATCGATTTC
2075596 CAAAAGTAATCATTCTTA
1 CAAAAGT-ATCATTCTTA
* *
2075614 GAAAAGTTTCATTCTTA
1 CAAAAGTATCATTCTTA
2075631 CAAAAG
1 CAAAAG
2075637 AGTTTTCATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (17 bp):
CAAAAGTATCATTCTTA
Found at i:2075648 original size:19 final size:21
Alignment explanation
Indices: 2075620--2075658 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2075610 CTTAGAAAAG
2075620 TTTCATTC-TTACAAAAGAGT
1 TTTCATTCTTTACAAAAGAGT
*
2075640 TTTCA-TCTTTACAAGAGAG
1 TTTCATTCTTTACAAAAGAG
2075659 ATCAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TTTCATTCTTTACAAAAGAGT
Found at i:2079419 original size:16 final size:17
Alignment explanation
Indices: 2079398--2079436 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
2079388 AACGTCTTTT
2079398 AAAAATT-TTTTTTAAG
1 AAAAATTATTTTTTAAG
2079414 AAAAATTATTTTTTAAG
1 AAAAATTATTTTTTAAG
2079431 ACAAAA
1 A-AAAA
2079437 GTTGGTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.33
17 10 0.48
18 4 0.19
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (17 bp):
AAAAATTATTTTTTAAG
Found at i:2090309 original size:19 final size:19
Alignment explanation
Indices: 2090285--2090324 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
2090275 ATTTGAGAAC
2090285 TATATTATAAAAATTCA-CA
1 TATATTA-AAAAATTCATCA
2090304 TATATTAAAAAATTCATCA
1 TATATTAAAAAATTCATCA
2090323 TA
1 TA
2090325 ATTTATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
TATATTAAAAAATTCATCA
Found at i:2090491 original size:37 final size:37
Alignment explanation
Indices: 2090442--2090514 Score: 85
Period size: 38 Copynumber: 2.0 Consensus size: 37
2090432 AAATTCAGGG
* * * * *
2090442 TCAGATCGGGTC-GTGTTGGGTTTTATATTAAAATAT
1 TCAGATCAGGTCGGAGTCGGGTTTAAGATTAAAATAT
2090478 TCAGAGTCAGGTCGGAGTCGGGTTTAAGATTAAAATA
1 TCAGA-TCAGGTCGGAGTCGGGTTTAAGATTAAAATA
2090515 ATCCTATCCG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 5 0.17
37 6 0.20
38 19 0.63
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (37 bp):
TCAGATCAGGTCGGAGTCGGGTTTAAGATTAAAATAT
Found at i:2101357 original size:20 final size:20
Alignment explanation
Indices: 2101332--2101371 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2101322 AATTTTCAAG
2101332 GCGAATATGTAAATCGCAAC
1 GCGAATATGTAAATCGCAAC
*
2101352 GCGAATTTGTAAATCGCAAC
1 GCGAATATGTAAATCGCAAC
2101372 ACAGAAGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (20 bp):
GCGAATATGTAAATCGCAAC
Found at i:2101996 original size:20 final size:19
Alignment explanation
Indices: 2101956--2102010 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
2101946 AAAATCGCAA
2101956 TGCGATTTTAGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
* *
2101975 TGCGATTTTCATTTTTGCGT
1 TGCGATTTT-AGTTTCGCGT
*
2101995 TGCGAATTTAAGTTTC
1 TGCG-ATTTTAGTTTC
2102011 AGAAACTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 9 0.31
20 16 0.55
21 4 0.14
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (19 bp):
TGCGATTTTAGTTTCGCGT
Found at i:2103780 original size:4 final size:4
Alignment explanation
Indices: 2103771--2103816 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
2103761 TTTTTTGACA
* * * *
2103771 TTAT TTAT TTAT TTAT TTAT TTAC TGAT TTAT ATAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
2103817 TTAGCGGCCC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:2103977 original size:21 final size:22
Alignment explanation
Indices: 2103942--2104018 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 22
2103932 GATTCACTTG
*
2103942 TCATCGTTCAAGAGGCCCCTCC
1 TCATCGTTAAAGAGGCCCCTCC
*
2103964 T-ATTGTTAAAGAGGCCCCT-C
1 TCATCGTTAAAGAGGCCCCTCC
* *
2103984 TCATCGTTCAAGAGGTCCCTCC
1 TCATCGTTAAAGAGGCCCCTCC
* *
2104006 -CACCGTTCAAGAG
1 TCATCGTTAAAGAG
2104019 CCCGATTCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
20 2 0.04
21 43 0.91
22 2 0.04
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (22 bp):
TCATCGTTAAAGAGGCCCCTCC
Found at i:2108896 original size:14 final size:15
Alignment explanation
Indices: 2108860--2108897 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2108850 GAAATCATTG
2108860 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
2108875 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
2108890 AAAAATTA
1 AAAAATTA
2108898 GAGATAGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:2109093 original size:20 final size:19
Alignment explanation
Indices: 2109069--2109126 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
2109059 GTTGCGGTTT
2109069 AGAAAATCTTGTTGCGAAAA
1 AGAAAAT-TTGTTGCGAAAA
* *
2109089 GGAAACTTGTGTTGCGAAAA
1 AGAAAATT-TGTTGCGAAAA
*
2109109 AGAAATTTTCGTTGCGAA
1 AGAAAATTT-GTTGCGAA
2109127 TTCAGAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (19 bp):
AGAAAATTTGTTGCGAAAA
Found at i:2109142 original size:20 final size:20
Alignment explanation
Indices: 2109119--2109228 Score: 70
Period size: 20 Copynumber: 5.5 Consensus size: 20
2109109 AGAAATTTTC
2109119 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATTCAGAAATCGA
*
2109139 GTTGCGAATT-A-AAATTCCGT
1 GTTGCGAATTCAGAAA-T-CGA
** *
2109159 GTTGCGAATTTGGAAATCGC
1 GTTGCGAATTCAGAAATCGA
* *
2109179 GTTGCGAGA--AAGAAATTCGC
1 GTTGCGA-ATTCAGAAA-TCGA
2109199 GTTGCG-ATTGCAGAAA-CTGA
1 GTTGCGAATT-CAGAAATC-GA
2109219 GTTGCGAATT
1 GTTGCGAATT
2109229 TGGGAAATTC
Statistics
Matches: 72, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
18 4 0.06
19 7 0.10
20 48 0.67
21 10 0.14
22 3 0.04
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (20 bp):
GTTGCGAATTCAGAAATCGA
Found at i:2109143 original size:40 final size:40
Alignment explanation
Indices: 2109099--2109226 Score: 113
Period size: 40 Copynumber: 3.2 Consensus size: 40
2109089 GGAAACTTGT
*
2109099 GTTGCGAAAAAGAAATTTTCGTTGCGAATTCAGAAATCGA
1 GTTGCGAAAAAGAAATTTCCGTTGCGAATTCAGAAATCGA
** ** *
2109139 GTTGCGAATTA-AAA-TTCCGTGTTGCGAATTTGGAAATCGC
1 GTTGCGAAAAAGAAATTTCC--GTTGCGAATTCAGAAATCGA
*
2109179 GTTGCGAGAAAGAAA-TTCGCGTTGCG-ATTGCAGAAA-CTGA
1 GTTGCGAAAAAGAAATTTC-CGTTGCGAATT-CAGAAATC-GA
2109219 GTTGCGAA
1 GTTGCGAA
2109227 TTTGGGAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
38 3 0.04
39 7 0.10
40 52 0.75
41 6 0.09
42 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (40 bp):
GTTGCGAAAAAGAAATTTCCGTTGCGAATTCAGAAATCGA
Found at i:2109162 original size:80 final size:80
Alignment explanation
Indices: 2109078--2109228 Score: 191
Period size: 80 Copynumber: 1.9 Consensus size: 80
2109068 TAGAAAATCT
* * **
2109078 TGTTGCGAA-AAGGAAACTTGTGTTGCGAAAAAGAAATTTTCGTTGCGAATT-CAGAAA-TCGAG
1 TGTTGCGAATAAGGAAA-TCGCGTTGCGAAAAAGAAATTCGCGTTGCG-ATTGCAGAAACT-GAG
2109140 TTGCGAATTAAAATTCCG
63 TTGCGAATTAAAATTCCG
** *
2109158 TGTTGCGAATTTGGAAATCGCGTTGCGAGAAAGAAATTCGCGTTGCGATTGCAGAAACTGAGTTG
1 TGTTGCGAATAAGGAAATCGCGTTGCGAAAAAGAAATTCGCGTTGCGATTGCAGAAACTGAGTTG
2109223 CGAATT
66 CGAATT
2109229 TGGGAAATTC
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
79 3 0.05
80 52 0.85
81 6 0.10
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (80 bp):
TGTTGCGAATAAGGAAATCGCGTTGCGAAAAAGAAATTCGCGTTGCGATTGCAGAAACTGAGTTG
CGAATTAAAATTCCG
Found at i:2109266 original size:20 final size:21
Alignment explanation
Indices: 2109211--2109268 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2109201 TGCGATTGCA
2109211 GAAACTGAGTTGCGAATTTGG
1 GAAACTGAGTTGCGAATTTGG
* *
2109232 GAAATTCACGTTGCGAATTT-G
1 GAAACTGA-GTTGCGAATTTGG
*
2109253 GAAACTGTGTTGCGAA
1 GAAACTGAGTTGCGAA
2109269 ATTAGAGTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 8 0.26
21 12 0.39
22 11 0.35
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (21 bp):
GAAACTGAGTTGCGAATTTGG
Found at i:2111002 original size:22 final size:21
Alignment explanation
Indices: 2110969--2111016 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
2110959 AGTTTTGGTT
*
2110969 GGGTTTAGAATTTTATAATTTA
1 GGGTTTAGAATTTGA-AATTTA
*
2110991 GGGTTT-GAAATTTGAAGTTTA
1 GGGTTTAG-AATTTGAAATTTA
2111012 GGGTT
1 GGGTT
2111017 AAAGTCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (21 bp):
GGGTTTAGAATTTGAAATTTA
Found at i:2114804 original size:22 final size:21
Alignment explanation
Indices: 2114765--2114814 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
2114755 TCTACCAATT
2114765 TATATAT-AATTTTATAAAAA
1 TATATATAAATTTTATAAAAA
*
2114785 TATATATAAATTTTATTAAAAG
1 TATATATAAATTTTA-TAAAAA
2114807 TATATATA
1 TATATATA
2114815 TTAAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.26
21 7 0.26
22 13 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TATATATAAATTTTATAAAAA
Found at i:2114866 original size:14 final size:14
Alignment explanation
Indices: 2114847--2114878 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2114837 TTCTCGATGA
2114847 ATTTTTATATAAAT
1 ATTTTTATATAAAT
*
2114861 ATTTTTATTTAAAT
1 ATTTTTATATAAAT
2114875 ATTT
1 ATTT
2114879 AGAATTCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTTATATAAAT
Found at i:2115132 original size:17 final size:17
Alignment explanation
Indices: 2115110--2115143 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2115100 TTTTAGGTTT
2115110 TAAAAATCAAATAAATA
1 TAAAAATCAAATAAATA
2115127 TAAAAATCAAATAAATA
1 TAAAAATCAAATAAATA
2115144 GAATTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAATCAAATAAATA
Found at i:2115820 original size:39 final size:39
Alignment explanation
Indices: 2115773--2115913 Score: 273
Period size: 39 Copynumber: 3.6 Consensus size: 39
2115763 TTTTTGAAAA
2115773 TATATAATATATAGTTTTTGAAAACATTTTGAAAACATG
1 TATATAATATATAGTTTTTGAAAACATTTTGAAAACATG
2115812 TATATAATATATAGTTTTTGAAAACATTTTGAAAACATG
1 TATATAATATATAGTTTTTGAAAACATTTTGAAAACATG
*
2115851 TATATAATATATAGTTTTTGAAAACCTTTTGAAAACATG
1 TATATAATATATAGTTTTTGAAAACATTTTGAAAACATG
2115890 TATATAATATATAGTTTTTGAAAA
1 TATATAATATATAGTTTTTGAAAA
2115914 TATATAATAT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 101 1.00
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (39 bp):
TATATAATATATAGTTTTTGAAAACATTTTGAAAACATG
Found at i:2115918 original size:24 final size:23
Alignment explanation
Indices: 2115890--2115936 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 23
2115880 TGAAAACATG
2115890 TATATAATATATAGTTTTTGAAAA
1 TATATAATATATAG-TTTTGAAAA
2115914 TATATAATATATAGTTTTGAAAA
1 TATATAATATATAGTTTTGAAAA
2115937 CATTTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (23 bp):
TATATAATATATAGTTTTGAAAA
Found at i:2115997 original size:37 final size:37
Alignment explanation
Indices: 2115928--2116121 Score: 253
Period size: 37 Copynumber: 5.4 Consensus size: 37
2115918 TAATATATAG
2115928 TTTTGAAAACATTTT-GAAA-ATATATAATATATAGT
1 TTTTGAAAACATTTTGGAAATATATATAATATATAGT
*
2115963 TTTTGAAAACATTTTGGAAATATATATAATATATAAT
1 TTTTGAAAACATTTTGGAAATATATATAATATATAGT
*
2116000 TTTTGAAAACATTTTGAAAATATATATAATATATAGT
1 TTTTGAAAACATTTTGGAAATATATATAATATATAGT
*
2116037 TTTTGAAAACATTTTGAAAACTTATATATAATATATAG-
1 TTTTGAAAACATTTTGGAAA--TATATATAATATATAGT
2116075 TTTT--AAACACTTTT-GAAA-ATATAT-AT-TATAGT
1 TTTTGAAAACA-TTTTGGAAATATATATAATATATAGT
*
2116107 TTCTTGAAAATATTT
1 TT-TTGAAAACATTT
2116122 ATATTATATA
Statistics
Matches: 145, Mismatches: 5, Indels: 19
0.86 0.03 0.11
Matches are distributed among these distances:
31 5 0.03
32 4 0.03
33 8 0.06
34 3 0.02
35 19 0.13
36 12 0.08
37 74 0.51
38 4 0.03
39 16 0.11
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (37 bp):
TTTTGAAAACATTTTGGAAATATATATAATATATAGT
Found at i:2116051 original size:74 final size:74
Alignment explanation
Indices: 2115913--2116100 Score: 296
Period size: 74 Copynumber: 2.6 Consensus size: 74
2115903 GTTTTTGAAA
2115913 ATATATAATATATAGTTTTGAAAACATTTTG-AAA-ATATATAATATATAGTTTTTGAAAACATT
1 ATATATAATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACATT
*
2115976 TTGGAAA-T
66 TTGAAAACT
*
2115984 ATATATAATATATAATTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACAT
1 ATATATAATATAT-AGTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACAT
2116049 TTTGAAAACTT
65 TTTGAAAAC-T
2116060 ATATATAATATATAGTTTT--AAACACTTTTGAAAATATATAT
1 ATATATAATATATAGTTTTGAAAACA-TTTTGAAAATATATAT
2116101 TATAGTTTCT
Statistics
Matches: 108, Mismatches: 3, Indels: 9
0.90 0.03 0.08
Matches are distributed among these distances:
71 13 0.12
72 17 0.16
73 8 0.07
74 51 0.47
75 5 0.05
76 14 0.13
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (74 bp):
ATATATAATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACATT
TTGAAAACT
Found at i:2116138 original size:7 final size:7
Alignment explanation
Indices: 2116116--2116158 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
2116106 TTTCTTGAAA
2116116 ATATT-T
1 ATATTAT
2116122 ATATTAT
1 ATATTAT
2116129 ATA-TAGT
1 ATATTA-T
*
2116136 ATAGTAT
1 ATATTAT
2116143 ATATTAT
1 ATATTAT
2116150 ATATTAT
1 ATATTAT
2116157 AT
1 AT
2116159 TGGTTTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
6 7 0.21
7 24 0.73
8 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (7 bp):
ATATTAT
Found at i:2116145 original size:74 final size:73
Alignment explanation
Indices: 2115913--2116146 Score: 270
Period size: 74 Copynumber: 3.2 Consensus size: 73
2115903 GTTTTTGAAA
2115913 ATATATA-ATATATAGTTTTGAAAACATTTTGAAAATATATAATATATAGTTTTTGAAAACATTT
1 ATATATATATATATAGTTTTGAAAACATTTTGAAAATATATAATATATAGTTTTTGAAAACATTT
*
2115977 TGGAAATAT
66 T-AAAATAT
*
2115986 ATATA-ATATATA-ATTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACAT
1 ATATATATATATATAGTTTTGAAAACATTTTG-AAA-ATATATAATATATAGTTTTTGAAAACAT
2116049 TTTGAAAACT-T
64 TTT-AAAA-TAT
*
2116060 ATATATA-ATATATAGTTTT--AAACACTTTTGAAAATATAT-AT-TATAGTTTCTTGAAAATAT
1 ATATATATATATATAGTTTTGAAAACA-TTTTGAAAATATATAATATATAGTTT-TTGAAAACAT
**
2116120 TTATATTATAT
64 TT-TAAAATAT
2116131 ATAGTATAGTATATAT
1 ATA-TATA-TATATAT
2116147 TATATATTAT
Statistics
Matches: 142, Mismatches: 6, Indels: 25
0.82 0.03 0.14
Matches are distributed among these distances:
70 9 0.06
71 19 0.13
72 29 0.20
73 21 0.15
74 57 0.40
75 7 0.05
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (73 bp):
ATATATATATATATAGTTTTGAAAACATTTTGAAAATATATAATATATAGTTTTTGAAAACATTT
TAAAATAT
Found at i:2116176 original size:11 final size:11
Alignment explanation
Indices: 2116162--2116196 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
2116152 ATTATATTGG
2116162 TTTATTATTTA
1 TTTATTATTTA
2116173 TTTATTA-TTA
1 TTTATTATTTA
2116183 TTTTATTATTTA
1 -TTTATTATTTA
2116195 TT
1 TT
2116197 ATCTTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 16 0.73
12 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:2116193 original size:18 final size:18
Alignment explanation
Indices: 2116170--2116207 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
2116160 GGTTTATTAT
2116170 TTATTTATTAT-TATTTTA
1 TTATTTATTATCT-TTTTA
2116188 TTATTTATTATCTTTTTA
1 TTATTTATTATCTTTTTA
2116206 TT
1 TT
2116208 TTATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATTTATTATCTTTTTA
Found at i:2116226 original size:23 final size:23
Alignment explanation
Indices: 2116162--2116217 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 23
2116152 ATTATATTGG
* *
2116162 TTTATTATTTATT-TATTATTAT
1 TTTATTATTTATTATCTTTTTAT
2116184 TTTATTATTTATTATCTTTTTAT
1 TTTATTATTTATTATCTTTTTAT
2116207 TTTATATATTT
1 TTTAT-TATTT
2116218 TCTATTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 13 0.43
23 12 0.40
24 5 0.17
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTATTATTTATTATCTTTTTAT
Found at i:2128180 original size:11 final size:11
Alignment explanation
Indices: 2128164--2128188 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2128154 CCTTAAATTG
2128164 AAAAAAGAAAA
1 AAAAAAGAAAA
2128175 AAAAAAGAAAA
1 AAAAAAGAAAA
2128186 AAA
1 AAA
2128189 TGTGGGTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:2129748 original size:21 final size:21
Alignment explanation
Indices: 2129724--2129766 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2129714 ATATATATAT
*
2129724 ATATATATATAATTTTTTAAA
1 ATATATATATAATTTTTGAAA
*
2129745 ATATATATATAGTTTTTGAAA
1 ATATATATATAATTTTTGAAA
2129766 A
1 A
2129767 CATTTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
ATATATATATAATTTTTGAAA
Found at i:2129817 original size:23 final size:24
Alignment explanation
Indices: 2129769--2129824 Score: 87
Period size: 23 Copynumber: 2.3 Consensus size: 24
2129759 TTTGAAAACA
*
2129769 TTTTGAAAACATGTATATATATAGT
1 TTTTG-AAACATATATATATATAGT
2129794 TTTTGAAACATATATA-ATATAGT
1 TTTTGAAACATATATATATATAGT
2129817 TTTTGAAA
1 TTTTGAAA
2129825 ACATTTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 15 0.50
24 10 0.33
25 5 0.17
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.45
Consensus pattern (24 bp):
TTTTGAAACATATATATATATAGT
Found at i:2129826 original size:24 final size:25
Alignment explanation
Indices: 2129769--2129828 Score: 97
Period size: 24 Copynumber: 2.5 Consensus size: 25
2129759 TTTGAAAACA
*
2129769 TTTTGAAAACATGTATATATATAGT
1 TTTTGAAAACATATATATATATAGT
2129794 TTTTG-AAACATATATA-ATATAGT
1 TTTTGAAAACATATATATATATAGT
2129817 TTTTGAAAACAT
1 TTTTGAAAACAT
2129829 TTTGAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 12 0.36
24 16 0.48
25 5 0.15
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (25 bp):
TTTTGAAAACATATATATATATAGT
Found at i:2129853 original size:37 final size:37
Alignment explanation
Indices: 2129794--2130070 Score: 348
Period size: 37 Copynumber: 7.7 Consensus size: 37
2129784 TATATATAGT
*
2129794 TTTTG-AAACATATAT-A-ATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
2129828 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
2129865 TTTTTGAAAATATATATAATATATAGTTTTTGAAAATA
1 -TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
2129903 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
2129940 TTTTG-AAA-ATATATAATATATAG-TTTTGAAAACT
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
2129974 TTTTGAAAACCTATATAT-A-ATATAGTTTTTGAAAACA
1 TTTTGAAAA--TATATATAATATATAGTTTTTGAAAACA
*
2130011 CTTTT-AAAA-ATATAT-AT-TATAGTTTCTTGAAAATA
1 -TTTTGAAAATATATATAATATATAGTTT-TTGAAAACA
* *
2130046 -TTT-AAATTATATATTATAGTATAGT
1 TTTTGAAAATATATATAATA-TATAGT
2130071 ATTATATTAT
Statistics
Matches: 220, Mismatches: 7, Indels: 29
0.86 0.03 0.11
Matches are distributed among these distances:
33 6 0.03
34 41 0.19
35 37 0.17
36 10 0.05
37 80 0.36
38 46 0.21
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:2129858 original size:60 final size:58
Alignment explanation
Indices: 2129718--2129862 Score: 220
Period size: 59 Copynumber: 2.5 Consensus size: 58
2129708 AATATAATAT
* *
2129718 ATATATATATATATATAATTTTTTAAAATATATATATAGTTTTTGAAAACATTTTGAAA
1 ATATATATA-ATATATAGTTTTTGAAAATATATATATAGTTTTTGAAAACATTTTGAAA
* *
2129777 ACATGTAT-ATATATAGTTTTTGAAACATATATAATATAGTTTTTGAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTGAAA-ATATAT-ATATAGTTTTTGAAAACATTTTGAAA
2129836 ATATATATAATATATAGTTTTTGAAAA
1 ATATATATAATATATAGTTTTTGAAAA
2129863 CATTTTTGAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
57 15 0.19
58 6 0.08
59 39 0.51
60 17 0.22
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (58 bp):
ATATATATAATATATAGTTTTTGAAAATATATATATAGTTTTTGAAAACATTTTGAAA
Found at i:2129906 original size:11 final size:11
Alignment explanation
Indices: 2129892--2129951 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
2129882 AATATATAGT
2129892 TTTTGAAAATA
1 TTTTGAAAATA
2129903 TTTTGAAAATA
1 TTTTGAAAATA
*
2129914 TATAT-AATATATA
1 T-TTTGAA-A-ATA
*
2129927 GTTTTTGAAAACA
1 --TTTTGAAAATA
2129940 TTTTGAAAATA
1 TTTTGAAAATA
2129951 T
1 T
2129952 ATAATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
11 25 0.64
12 3 0.08
13 5 0.13
14 3 0.08
15 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (11 bp):
TTTTGAAAATA
Found at i:2130083 original size:10 final size:10
Alignment explanation
Indices: 2130055--2130147 Score: 59
Period size: 10 Copynumber: 8.8 Consensus size: 10
2130045 ATTTAAATTA
2130055 TATATTATAGT
1 TATATTATA-T
2130066 ATAGTATTATAT
1 -TA-TATTATAT
2130078 TATATTATA-
1 TATATTATAT
2130087 TATATTATAT
1 TATATTATAT
*
2130097 TGGT-TTACTAT
1 T-ATATTA-TAT
2130108 T-TATTATTAT
1 TATATTA-TAT
2130118 TATTTATTATTAT
1 TA--TATTA-TAT
*
2130131 TATATTTTAT
1 TATATTATAT
2130141 T-TATTAT
1 TATATTAT
2130148 CTTTTTATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 19
0.75 0.04 0.21
Matches are distributed among these distances:
9 15 0.22
10 22 0.32
11 11 0.16
12 3 0.04
13 18 0.26
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (10 bp):
TATATTATAT
Found at i:2130123 original size:13 final size:13
Alignment explanation
Indices: 2130105--2130147 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
2130095 ATTGGTTTAC
2130105 TATTTATTATTAT
1 TATTTATTATTAT
2130118 TATTTATTATTAT
1 TATTTATTATTAT
2130131 TATATT-TTATTTAT
1 TAT-TTATTA-TTAT
2130145 TAT
1 TAT
2130148 CTTTTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTTATTATTAT
Found at i:2130127 original size:16 final size:17
Alignment explanation
Indices: 2130105--2130147 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
2130095 ATTGGTTTAC
2130105 TATTTATTATTAT-TATT
1 TATTTATTATTATAT-TT
2130122 TA-TTATTATTATATTT
1 TATTTATTATTATATTT
2130138 TATTTATTAT
1 TATTTATTAT
2130148 CTTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTATTATTATATTT
Found at i:2130140 original size:20 final size:20
Alignment explanation
Indices: 2130070--2130178 Score: 68
Period size: 20 Copynumber: 5.5 Consensus size: 20
2130060 TATAGTATAG
*
2130070 TATTATATTATA-TTA-TAT
1 TATTATATTTTATTTATTAT
** *
2130088 ATATTATA-TTGGTTTACTATT
1 -TATTATATTTTATTTATTA-T
*
2130109 TATTAT-TATTATTTATTAT
1 TATTATATTTTATTTATTAT
2130128 TATTATATTTTATTTATTAT
1 TATTATATTTTATTTATTAT
* *
2130148 CT-TTTTATTTT-TTTAATTTT
1 -TATTATATTTTATTT-ATTAT
*
2130168 TATTTTATTTT
1 TATTATATTTT
2130179 TTGTGTAATT
Statistics
Matches: 72, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
18 1 0.01
19 21 0.29
20 48 0.67
21 2 0.03
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TATTATATTTTATTTATTAT
Found at i:2130147 original size:30 final size:30
Alignment explanation
Indices: 2130107--2130172 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
2130097 TGGTTTACTA
2130107 TTTA-TTATTAT-TATTTATTATTATT-ATAT
1 TTTATTTATTATCTATTTATT-TTATTAAT-T
* *
2130136 TTTATTTATTATCTTTTTATTTTTTTAATT
1 TTTATTTATTATCTATTTATTTTATTAATT
2130166 TTTATTT
1 TTTATTT
2130173 TATTTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 4 0.12
30 19 0.59
31 9 0.28
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (30 bp):
TTTATTTATTATCTATTTATTTTATTAATT
Found at i:2134100 original size:41 final size:41
Alignment explanation
Indices: 2134036--2134122 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 41
2134026 TAAGAATCCC
* **
2134036 AAATTAGAGACAAGTGTCATGAGAAACTATCCACGAACGTA
1 AAATCAGAGACAAACGTCATGAGAAACTATCCACGAACGTA
*
2134077 AAATCAGAGACAAACGTCGTGAGAAACTATCCACGAACGTA
1 AAATCAGAGACAAACGTCATGAGAAACTATCCACGAACGTA
2134118 AAATC
1 AAATC
2134123 GTGTATCCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (41 bp):
AAATCAGAGACAAACGTCATGAGAAACTATCCACGAACGTA
Found at i:2134887 original size:26 final size:26
Alignment explanation
Indices: 2134856--2134942 Score: 174
Period size: 26 Copynumber: 3.3 Consensus size: 26
2134846 CTATTGAAAA
2134856 TGGAGTTTAAGCTTTCAAACCAAGAC
1 TGGAGTTTAAGCTTTCAAACCAAGAC
2134882 TGGAGTTTAAGCTTTCAAACCAAGAC
1 TGGAGTTTAAGCTTTCAAACCAAGAC
2134908 TGGAGTTTAAGCTTTCAAACCAAGAC
1 TGGAGTTTAAGCTTTCAAACCAAGAC
2134934 TGGAGTTTA
1 TGGAGTTTA
2134943 TCTAAAAAGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (26 bp):
TGGAGTTTAAGCTTTCAAACCAAGAC
Found at i:2137995 original size:18 final size:18
Alignment explanation
Indices: 2137969--2138008 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2137959 CCTCCAATTG
* *
2137969 TTCTTCTCCTTCAGATTC
1 TTCTGCTCCTTCAGATGC
*
2137987 TTCTGCTCCTTCGGATGC
1 TTCTGCTCCTTCAGATGC
2138005 TTCT
1 TTCT
2138009 TCTTCTCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.33, G:0.12, T:0.47
Consensus pattern (18 bp):
TTCTGCTCCTTCAGATGC
Found at i:2138010 original size:21 final size:21
Alignment explanation
Indices: 2137984--2138028 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
2137974 CTCCTTCAGA
2137984 TTCTTCTGCTCCTTCGGATGC
1 TTCTTCTGCTCCTTCGGATGC
* *
2138005 TTCTTCTTCTCTTTCGGATGC
1 TTCTTCTGCTCCTTCGGATGC
2138026 TTC
1 TTC
2138029 CTCCCCTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.31, G:0.16, T:0.49
Consensus pattern (21 bp):
TTCTTCTGCTCCTTCGGATGC
Found at i:2138569 original size:21 final size:21
Alignment explanation
Indices: 2138452--2138589 Score: 59
Period size: 21 Copynumber: 6.7 Consensus size: 21
2138442 ACGCGAAATA
**
2138452 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
2138472 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
2138492 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* * ** *
2138513 AAAATCGCGATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* * **
2138534 ATATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * * *
2138555 ATAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
2138575 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
2138590 ACACATAAAT
Statistics
Matches: 85, Mismatches: 29, Indels: 8
0.70 0.24 0.07
Matches are distributed among these distances:
19 1 0.01
20 38 0.45
21 44 0.52
22 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:2138651 original size:20 final size:20
Alignment explanation
Indices: 2138557--2138925 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
2138547 GATTTTCCAT
* ** *
2138557 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2138577 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2138597 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2138617 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2138637 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2138657 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2138677 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2138697 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2138717 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2138737 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2138757 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2138777 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2138797 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2138817 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2138837 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2138857 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2138877 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2138897 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2138917 AATCACAAC
1 AATCGCAAC
2138926 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2139647 original size:24 final size:24
Alignment explanation
Indices: 2139608--2139654 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2139598 AAATTTGGTC
**
2139608 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATAAACGGACTTTGATA
*
2139632 TTGGTCAATAAACGGATTTTGAT
1 TTGGTCAATAAACGGACTTTGAT
2139655 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATAAACGGACTTTGATA
Found at i:2139844 original size:12 final size:12
Alignment explanation
Indices: 2139827--2139851 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2139817 ATATAATCCT
2139827 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2139839 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2139851 G
1 G
2139852 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:2142362 original size:19 final size:19
Alignment explanation
Indices: 2142340--2142644 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
2142330 CGGAAAATAC
*
2142340 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2142359 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
2142373 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
2142393 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2142407 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
2142425 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2142444 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
2142458 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2142477 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2142496 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
2142510 AATCGCAATGCGAAAT-TA
1 AATCGCAATGCGAAATGAA
2142528 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2142547 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2142566 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2142585 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
2142599 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2142618 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2142637 AATCGCAA
1 AATCGCAA
2142645 CGAGATAATC
Statistics
Matches: 249, Mismatches: 9, Indels: 56
0.79 0.03 0.18
Matches are distributed among these distances:
14 48 0.19
15 2 0.01
16 16 0.06
17 14 0.06
18 36 0.14
19 120 0.48
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2142412 original size:14 final size:15
Alignment explanation
Indices: 2142393--2142470 Score: 52
Period size: 14 Copynumber: 4.8 Consensus size: 15
2142383 CGGAAATGAA
2142393 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
*
2142407 AATCGCAATGCGAAATG
1 AATCGCAA-GCGAGA-G
*
2142424 AAATCGCAATGCGAAATGAA
1 -AATCGCAA-GCG--A-GAG
2142444 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
2142458 AATCGCAATGCGA
1 AATCGCAA-GCGA
2142471 AATGAAAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 7 0.14
17 3 0.06
18 12 0.24
19 8 0.16
20 1 0.02
21 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (15 bp):
AATCGCAAGCGAGAG
Found at i:2142480 original size:52 final size:52
Alignment explanation
Indices: 2142368--2142644 Score: 370
Period size: 52 Copynumber: 5.2 Consensus size: 52
2142358 AAATCCCAAC
2142368 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
2142421 ATG-AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
2142472 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
2142524 AT-TAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
2142580 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
2142632 ATGAAAATCGCAA
1 ATGAAAATCGCAA
2142645 CGAGATAATC
Statistics
Matches: 212, Mismatches: 5, Indels: 15
0.91 0.02 0.06
Matches are distributed among these distances:
51 67 0.32
52 107 0.50
53 5 0.02
54 1 0.00
55 6 0.03
56 17 0.08
57 9 0.04
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:2142601 original size:141 final size:136
Alignment explanation
Indices: 2142340--2142682 Score: 494
Period size: 141 Copynumber: 2.5 Consensus size: 136
2142330 CGGAAAATAC
* * *
2142340 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAA--CG
1 AATCGCAATGCGAAATGAAAATCGCAAC--GAAAATCGCAATGC-GAAAT-TAAATCGCAATGCG
* *
2142403 -AGAGAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAAT
62 AAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAAT
2142467 GCGAAATGAA
127 GCGAAATGAA
2142477 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATTAAATCGCAATGCGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-A-AATCGCAATGCGAAATTAAATCGCAATGCG-A
2142542 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAA
63 A-GAAAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAA
2142607 TGCGAAATGAA
126 TGCGAAATGAA
* *
2142618 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTATAAACGCATTGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-A-AATCGCAATGCGAAATTA-AATCGCAATGCGA
2142683 TTTTCATTTC
Statistics
Matches: 188, Mismatches: 9, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
135 11 0.06
136 6 0.03
137 39 0.21
139 1 0.01
140 19 0.10
141 102 0.54
142 10 0.05
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (136 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAATCGCAATGCGAAATTAAATCGCAATGCGAAGA
AAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:2142645 original size:52 final size:55
Alignment explanation
Indices: 2142340--2142666 Score: 314
Period size: 52 Copynumber: 6.3 Consensus size: 55
2142330 CGGAAAATAC
* *
2142340 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAATG-A
*
2142393 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
*
2142444 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
* *
2142496 AATCGCAA--CGACA-G--AATCGCAATGCGAAAT-TAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
2142547 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
*
2142599 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAT--
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
2142651 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
2142667 TATAAACGCA
Statistics
Matches: 253, Mismatches: 6, Indels: 31
0.87 0.02 0.11
Matches are distributed among these distances:
48 9 0.04
49 1 0.00
50 1 0.00
51 69 0.27
52 124 0.49
53 15 0.06
54 4 0.02
55 5 0.02
56 16 0.06
57 9 0.04
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (55 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
Found at i:2142782 original size:19 final size:19
Alignment explanation
Indices: 2142673--2142774 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
2142663 AAATTATAAA
2142673 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2142692 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
2142712 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
2142728 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2142745 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2142764 CGCATTGCGAT
1 CGCATTGCGAT
2142775 AGTCATTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2142899 original size:14 final size:14
Alignment explanation
Indices: 2142880--2142916 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2142870 CATCAATTAC
2142880 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2142894 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2142908 ACAAATCAA
1 ACAAATCAA
2142917 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2144912 original size:14 final size:14
Alignment explanation
Indices: 2144893--2144949 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2144883 GCGAAATTAA
*
2144893 AATCGCAACGACAG
1 AATCGCAACGAAAG
2144907 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2144924 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2144940 AATCGCAACG
1 AATCGCAACG
2144950 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2144920 original size:33 final size:33
Alignment explanation
Indices: 2144874--2144966 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
2144864 GCGAAACCAA
* *
2144874 AATCGCAACGCGAAATTAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2144907 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2144940 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2144967 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2144931 original size:19 final size:19
Alignment explanation
Indices: 2144837--2144971 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
2144827 TAGTTTACTT
* *
2144837 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2144857 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
2144876 TCGCAACGCGAAATTAAAA
1 TCGCAACGCGAAATGAAAA
*
2144895 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2144909 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2144928 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
2144942 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2144961 TCGCAATGCGA
1 TCGCAACGCGA
2144972 TTTTGGTTTC
Statistics
Matches: 96, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
14 16 0.17
16 10 0.10
17 11 0.11
19 47 0.49
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2144989 original size:19 final size:19
Alignment explanation
Indices: 2144967--2145095 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2144957 AAAATCGCAA
2144967 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2144986 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2145000 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2145019 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2145033 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2145052 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2145071 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2145091 TGCGA
1 TGCGA
2145096 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2145009 original size:33 final size:33
Alignment explanation
Indices: 2144967--2145058 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2144957 AAAATCGCAA
2144967 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2145000 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2145033 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2145059 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:2145347 original size:92 final size:93
Alignment explanation
Indices: 2145138--2145700 Score: 1089
Period size: 93 Copynumber: 6.1 Consensus size: 93
2145128 TTGAATGGAT
2145138 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2145203 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2145231 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAG-ATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2145295 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2145323 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2145388 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2145416 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2145480 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2145508 AAA-TTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2145571 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2145599 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
2145664 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2145692 AAATTTACT
1 AAATTTACT
2145701 AAGCAATCTA
Statistics
Matches: 466, Mismatches: 1, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
91 91 0.20
92 183 0.39
93 192 0.41
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2145450 original size:185 final size:186
Alignment explanation
Indices: 2145138--2145700 Score: 1089
Period size: 185 Copynumber: 3.0 Consensus size: 186
2145128 TTGAATGGAT
2145138 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2145203 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2145268 TACTATTTCACAGTGTTAAAG-ATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2145323 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2145388 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2145453 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2145508 AAA-TTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2145571 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
2145636 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2145692 AAATTTACT
1 AAATTTACT
2145701 AAGCAATCTA
Statistics
Matches: 374, Mismatches: 1, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
183 92 0.25
184 108 0.29
185 174 0.47
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2147479 original size:14 final size:14
Alignment explanation
Indices: 2147460--2147514 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2147450 GATGGTTTCG
2147460 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2147474 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2147493 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2147507 CGTTGCGA
1 CGTTGCGA
2147515 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2147522 original size:33 final size:33
Alignment explanation
Indices: 2147455--2147536 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
2147445 CGCGAGATGG
***
2147455 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
2147488 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
2147521 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
2147537 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:2147541 original size:20 final size:20
Alignment explanation
Indices: 2147467--2147555 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
2147457 TCGCGTTGCG
2147467 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2147487 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
2147500 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
2147520 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2147540 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
2147556 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:2147677 original size:33 final size:33
Alignment explanation
Indices: 2147635--2147705 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2147625 AATACTAACT
*
2147635 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2147668 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2147701 TGAAA
1 TGAAA
2147706 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2147939 original size:22 final size:22
Alignment explanation
Indices: 2147887--2147941 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2147877 TGGTTGTGAG
**
2147887 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2147909 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2147931 GGATTTCTTCG
1 GGATTTCTTCG
2147942 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2148112 original size:20 final size:20
Alignment explanation
Indices: 2148087--2148279 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
2148077 CTTTAAATAT
2148087 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2148107 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2148129 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2148148 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2148168 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2148188 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2148208 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2148228 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2148248 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2148268 CGCGTTGCGATT
1 CGCGTTGCGATT
2148280 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2148274 original size:60 final size:60
Alignment explanation
Indices: 2148087--2148279 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
2148077 CTTTAAATAT
**
2148087 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2148148 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2148208 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2148268 CGCGTTGCGATT
1 CGCGTTGCGATT
2148280 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2148360 original size:20 final size:20
Alignment explanation
Indices: 2148335--2148386 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
2148325 AAGAATCGCG
*
2148335 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2148355 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
*
2148375 TTGTGATTCTGG
1 TTGCGATTCTGG
2148387 GGATCGCGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.40
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2149533 original size:14 final size:14
Alignment explanation
Indices: 2149514--2149541 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2149504 ACATTTCTGT
2149514 AAAATATTTTTCAG
1 AAAATATTTTTCAG
2149528 AAAATATTTTTCAG
1 AAAATATTTTTCAG
2149542 TGTTTGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
AAAATATTTTTCAG
Found at i:2150050 original size:22 final size:20
Alignment explanation
Indices: 2150015--2150063 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
2150005 ATAATATAAC
*
2150015 AAAATTTCTCAAAAACAACAA
1 AAAATGTCTC-AAAACAACAA
* *
2150036 ATAAATGTCTTAAAAGAACAA
1 A-AAATGTCTCAAAACAACAA
2150057 AAAATGT
1 AAAATGT
2150064 ACTGAACATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 11 0.46
22 7 0.29
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.22
Consensus pattern (20 bp):
AAAATGTCTCAAAACAACAA
Found at i:2150991 original size:22 final size:22
Alignment explanation
Indices: 2150961--2151002 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
2150951 AAGAACTACC
2150961 ATCTTTCATG-AATAACAAGAT
1 ATCTTTCATGTAATAACAAGAT
*
2150982 ATCTCTTCATGTCATAACAAG
1 ATCT-TTCATGTAATAACAAG
2151003 TTCACCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 6 0.33
23 8 0.44
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (22 bp):
ATCTTTCATGTAATAACAAGAT
Found at i:2155222 original size:24 final size:24
Alignment explanation
Indices: 2155195--2155301 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
2155185 AAACGGAGAT
*
2155195 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
2155219 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
2155243 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
2155267 ATCAGATGTCAAAAAAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
2155291 ATCAGAAATCA
1 ATCAGAAATCA
2155302 GATAAAATAT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:2155301 original size:48 final size:48
Alignment explanation
Indices: 2155195--2155303 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
2155185 AAACGGAGAT
* * * * *
2155195 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAAAAGAATCCAA
* * * * * *
2155243 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAAAAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAAAAGAATCCAA
2155291 ATCAGAAATCAGA
1 ATCAGAAATCAGA
2155304 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAAAAGAATCCAA
Found at i:2157699 original size:18 final size:18
Alignment explanation
Indices: 2157676--2157721 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
2157666 CAACGGTCAA
2157676 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
2157694 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTAAACGGGT
2157712 CGGGTCGGGT
1 CGGGTCGGGT
2157722 TGTGACAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.11, C:0.20, G:0.52, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:2157717 original size:13 final size:13
Alignment explanation
Indices: 2157670--2157699 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2157660 TCCGGTCAAC
2157670 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
2157683 GGTAAACGGGTCG
1 GGTCAACGGGTCG
2157696 GGTC
1 GGTC
2157700 GGGTCAACGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.17, C:0.20, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2158958 original size:21 final size:22
Alignment explanation
Indices: 2158917--2158960 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2158907 CGCTTTAATT
2158917 TTTATTTTATATGTATTTGTAC
1 TTTATTTTATATGTATTTGTAC
*
2158939 TTTATTTTATATG-GTTTGTAC
1 TTTATTTTATATGTATTTGTAC
2158960 T
1 T
2158961 AATGTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.20, C:0.05, G:0.11, T:0.64
Consensus pattern (22 bp):
TTTATTTTATATGTATTTGTAC
Found at i:2160931 original size:37 final size:37
Alignment explanation
Indices: 2160877--2160973 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 37
2160867 CCTTTTCGTC
2160877 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
* * * *
2160914 TTGA-TAGGATTCAAACTCCTTAAAATAGGATAGAGTT
1 CT-ACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
* *
2160951 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
2160974 GATAGGATCC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 1 0.02
37 48 0.96
38 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
Found at i:2161545 original size:19 final size:19
Alignment explanation
Indices: 2161456--2161546 Score: 60
Period size: 19 Copynumber: 4.6 Consensus size: 19
2161446 TTTTTTACAC
*
2161456 TATATAT-TA-TTATTATC
1 TATATATATATTTATTATT
* *
2161473 TATACATATATTTTTTATT
1 TATATATATATTTATTATT
* *
2161492 TATTTATATTCATTTGGTTATTT
1 TATATATA-T-ATTT-ATTA-TT
*
2161515 TTTAATACTATATTTATTATT
1 TAT-ATA-TATATTTATTATT
2161536 TATATATATAT
1 TATATATATAT
2161547 ATATATATAC
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
17 6 0.11
18 2 0.04
19 17 0.30
20 4 0.07
21 8 0.14
22 6 0.11
23 8 0.14
24 3 0.05
25 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
TATATATATATTTATTATT
Found at i:2161741 original size:23 final size:23
Alignment explanation
Indices: 2161715--2161761 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
2161705 ATTATCATTA
2161715 TATATATACT-TTTATATTTGGTT
1 TATATAT-CTATTTATATTTGGTT
* *
2161738 TATATATTTATTTATTTTTGGTT
1 TATATATCTATTTATATTTGGTT
2161761 T
1 T
2161762 TGGTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (23 bp):
TATATATCTATTTATATTTGGTT
Found at i:2161786 original size:16 final size:18
Alignment explanation
Indices: 2161766--2161874 Score: 54
Period size: 17 Copynumber: 6.2 Consensus size: 18
2161756 TGGTTTTGGT
*
2161766 TTTTTTATTA-TATTATA
1 TTTTATATTATTATTATA
2161783 TTTTCATATTATTATTAT-
1 TTTT-ATATTATTATTATA
*
2161801 TGTTATGATTATTATT-T-
1 TTTTAT-ATTATTATTATA
* * *
2161818 TTCTATTTTACTCATTATA
1 TTTTATATTA-TTATTATA
*
2161837 -TATATA-TATATATTAATA
1 TTTTATATTAT-TATT-ATA
2161855 TTTTAT-TTATTTATT-TA
1 TTTTATATTA-TTATTATA
2161872 TTT
1 TTT
2161875 ATTTATTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
16 4 0.06
17 25 0.35
18 25 0.35
19 16 0.23
20 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATATTATTATTATA
Found at i:2161863 original size:4 final size:4
Alignment explanation
Indices: 2161856--2161882 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2161846 ATATTAATAT
2161856 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
2161883 TTCCTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:2161904 original size:12 final size:12
Alignment explanation
Indices: 2161853--2161908 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
2161843 TATATATTAA
2161853 TATTTTATTTATT
1 TATTTT-TTTATT
*
2161866 TATTTATTTATT
1 TATTTTTTTATT
*
2161878 TATTTTTCCT-TT
1 TATTTTT-TTATT
*
2161890 TATTTTTTTACT
1 TATTTTTTTATT
2161902 TATTTTT
1 TATTTTT
2161909 ATTCTTCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 1 0.03
12 29 0.81
13 6 0.17
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (12 bp):
TATTTTTTTATT
Found at i:2163019 original size:19 final size:19
Alignment explanation
Indices: 2162995--2163031 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2162985 ACCTTACTAA
2162995 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
2163014 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
2163032 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:2167388 original size:22 final size:22
Alignment explanation
Indices: 2167315--2167390 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
2167305 GCTACCCCAT
*
2167315 CAAACCGTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
2167337 CAAACCTATGAGCATC-AATGC
1 CAAACCTTTGAGCATCAAATGC
2167358 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
2167380 CAAACCTTTGA
1 CAAACCTTTGA
2167391 CCAAACATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
21 20 0.40
22 30 0.60
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:2168351 original size:106 final size:106
Alignment explanation
Indices: 2168194--2169883 Score: 2452
Period size: 106 Copynumber: 16.0 Consensus size: 106
2168184 ATATCGTGCC
* * * * * * *
2168194 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCTCTAGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2168259 AATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2168300 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2168365 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGCTATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
2168406 ACTCCAGGCAATGCAAGTTCAAATTCACAACGAATGGACCGCTGGTTGTCAACAAACGACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2168471 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2168512 ACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2168577 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2168618 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2168683 AATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2168724 ACTCTAGACAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
2168789 AATTTCAGAGCCAATTTCAACTTTACAACGAAAGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2168830 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2168895 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2168936 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2169001 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2169042 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2169107 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * * *
2169148 ACTCCAGACAATGCAAGTTCAACTTCACGAAGAAAGTATCGTTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2169213 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2169254 ACTCAAGACAACGCAAGTTCAACTGCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2169319 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2169360 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2169425 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
2169466 ACTCCAGACAACGCAAGTTCAACTGCACGACGAAGGGACCACTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2169531 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2169572 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2169637 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2169678 AC-CCAAGACAACACAAGCTCAACTTCACGACGAAGGG-GCGACTGATTGTC-AC-AA-AA-TT-
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTC
* * *
2169736 TC-A-TTCAGAGTC-ATTTCAACTTCACAGCGAA-GA-AATGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
2169774 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * * *
2169839 GGTTCCAAAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
2169880 ACTC
1 ACTC
2169884 AGAACAATGC
Statistics
Matches: 1429, Mismatches: 140, Indels: 30
0.89 0.09 0.02
Matches are distributed among these distances:
96 42 0.03
97 6 0.00
98 20 0.01
99 10 0.01
100 3 0.00
101 2 0.00
102 2 0.00
103 9 0.01
104 18 0.01
105 6 0.00
106 1311 0.92
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:2170667 original size:37 final size:37
Alignment explanation
Indices: 2170614--2170718 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
2170604 CATTTTCGTC
2170614 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
2170651 TTGCTAGGATTCAAACTCCTTAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
2170688 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2170719 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:2171549 original size:2 final size:2
Alignment explanation
Indices: 2171542--2171576 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2171532 TTTACTCATT
2171542 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 T
2171577 TAATATTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2171601 original size:12 final size:13
Alignment explanation
Indices: 2171580--2171659 Score: 51
Period size: 13 Copynumber: 6.4 Consensus size: 13
2171570 TATATATTAA
2171580 TATTTCATTTATT
1 TATTTCATTTATT
2171593 TATTT-ATTTATT
1 TATTTCATTTATT
* *
2171605 T-TTCCTTTTATT
1 TATTTCATTTATT
* * *
2171617 TTTTTTACTTATT
1 TATTTCATTTATT
* *
2171630 TTTATTC-TTCATT
1 TAT-TTCATTTATT
2171643 T-TTTCATTTATT
1 TATTTCATTTATT
*
2171655 CATTT
1 TATTT
2171660 TTTCCCTCTG
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
11 5 0.10
12 21 0.41
13 23 0.45
14 2 0.04
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTCATTTATT
Found at i:2171614 original size:16 final size:16
Alignment explanation
Indices: 2171595--2171635 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
2171585 CATTTATTTA
*
2171595 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
2171611 TTTATTT-TTTTTACT
1 TTTATTTATTTTTACT
2171626 TATT-TTTATT
1 T-TTATTTATT
2171636 CTTCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Found at i:2173660 original size:20 final size:20
Alignment explanation
Indices: 2173624--2173661 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2173614 ATCCTATTCC
**
2173624 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
2173644 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
2173662 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:2184908 original size:7 final size:6
Alignment explanation
Indices: 2184887--2184924 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
2184877 ATTAACACCC
2184887 TTTGCA TTTGCA TTTAGCA TTTGCA TTTTGCA -TTGCA T
1 TTTGCA TTTGCA TTT-GCA TTTGCA -TTTGCA TTTGCA T
2184925 GTATTCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.17
6 12 0.41
7 12 0.41
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
TTTGCA
Found at i:2184908 original size:13 final size:13
Alignment explanation
Indices: 2184890--2184924 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2184880 AACACCCTTT
2184890 GCATTTGCATTTA
1 GCATTTGCATTTA
*
2184903 GCATTTGCATTTT
1 GCATTTGCATTTA
2184916 GCA-TTGCAT
1 GCATTTGCAT
2184925 GTATTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (13 bp):
GCATTTGCATTTA
Found at i:2188443 original size:125 final size:124
Alignment explanation
Indices: 2188211--2188463 Score: 362
Period size: 125 Copynumber: 2.0 Consensus size: 124
2188201 GAATACACTT
* **
2188211 GGGGCACGACTGAACCCATATCATGTTGAGATTTCAAGATTCAAACCAAGAAGGCATTGAGAATG
1 GGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAAACCAAGAAGGCATTGAGAATG
* * *
2188276 AGCCTTATAATTTGTGGTATTGGGGTATTTTGAAGGCCCGTACCAGTATAGGATAATGTA
66 AGCCTTACAATTTGAGGTATTGGGGCATTTTGAAGGCCCGTACCAGTATA-GATAATGTA
* * * *
2188336 GGGGTACGACTGAACCCACGTCATGTTGAGATGACAAGATTCAGACCAAGAATGCATTGAGAATG
1 GGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAAACCAAGAAGGCATTGAGAATG
* * * * *
2188401 AGCCTTACAATTTGAGGTGTTGGGGCGTTTTGAAGGCTCGTACTAGTATAGATAATGTT
66 AGCCTTACAATTTGAGGTATTGGGGCATTTTGAAGGCCCGTACCAGTATAGATAATGTA
2188460 GGGG
1 GGGG
2188464 GCACTAGTGA
Statistics
Matches: 113, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
124 12 0.11
125 101 0.89
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (124 bp):
GGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAAACCAAGAAGGCATTGAGAATG
AGCCTTACAATTTGAGGTATTGGGGCATTTTGAAGGCCCGTACCAGTATAGATAATGTA
Found at i:2190219 original size:214 final size:214
Alignment explanation
Indices: 2189715--2191050 Score: 1518
Period size: 214 Copynumber: 6.2 Consensus size: 214
2189705 GTTAACAAGT
* *
2189715 TAAGTCCTTCGGGCCATCAGTAAGTC-TTCGAGCATGATGATTAAAAATCCTTCGGGTCATCTAT
1 TAAGTCCTTC-GGCCATCAGTAAGTCTTTCGAGCATGATGCTT--AAATCCTTCGGGTCATCTGT
* * * *
2189779 -AGCCTTTTGAGCAAGATGATAAGTCCTTCGGTCCATCCATAAGACCTTC-GGTAGGATGTCTTC
63 AAGCCTTTTAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAAGATGTTTTC
* *
2189842 ACATGAATTTGAAAATTGAGAAAGTAATGTTTTAAGAAAATGAAATCTTTGAAAAGTAAGAA-AC
128 ACATGAATTTGAAAAATGAGAAAGTAATGTTTTAAGAAAATGAAATCTTTGAAAAGTAAGAAGGC
* *
2189906 GTTTCTGACCTAGTAAACTATTTCCAAAATTTA
193 GATT-T--CC----AAA--ATTT-C-ACATTTA
* * *
2189939 TAAGTCCTTCGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCATTCGGGCCATCTGTAAG
1 TAAGTCCTTCGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
* *
2190004 CCTTTTAAGCAAGATGATAA-TCCTTCAGGCCATCCATAAGACCTTCGGGTACGATGTTTTCACA
66 CCTTTTAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAAGATGTTTTCACA
* * * * * * * *
2190068 AGAATTTGAAAAATGAGAAA-TGATGTTTTAAGAAGAGGAAATTTTTTAAAACTAATAAGGCGAT
131 TGAATTTGAAAAATGAGAAAGTAATGTTTTAAGAAAATGAAATCTTTGAAAAGTAAGAAGGCGAT
*
2190132 TTCCAAAATTTCACACTTA
196 TTCCAAAATTTCACATTTA
*
2190151 GTAAGTCCTTCGGACCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 -TAAGTCCTTCGG-CCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
* * * * *
2190216 AGCC-TTTAGAGCAAGACGATAAGTCATTCGGGCCATCCATAATACATTCGGGTAATATG-TTTC
64 AGCCTTTTA-AGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAAGATGTTTTC
* * *
2190279 AAATGAATTTGAAAAATGAGAAAGTTATGTTTTAAGAAAATGAAATCTTTGAAAGGTAAGAAGGC
128 ACATGAATTTGAAAAATGAGAAAGTAATGTTTTAAGAAAATGAAATCTTTGAAAAGTAAGAAGGC
* * *
2190344 GATCT-CAACATTTCGCATTTA
193 GATTTCCAAAATTTCACATTTA
* *
2190365 GTAAGTCCTTCAGGCCGTCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTTATCTGTA
1 -TAAGTCCTTC-GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
* * ** *
2190430 AGCCTTTAAAGCAAGATGATAAGTCTTTCGGGCCATATATAAGAACTTCGGGTAAGATG-TTTCA
64 AGCCTTTTAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAAGATGTTTTCA
* *
2190494 CATGAATTTGAAAAAGGAGAAAGTAATGTTTTAAGAAAATGAAATCTTTGAAAAGTAAGAA-G-A
129 CATGAATTTGAAAAATGAGAAAGTAATGTTTTAAGAAAATGAAATCTTTGAAAAGTAAGAAGGCG
*
2190557 ATTCTTACCTAGTAAACTATTTTCAAAATTTA
194 A-T-TT-CC----AAA--A-TTTC-ACATTTA
* *
2190589 TAAGTCCGTCGGCCATCAGTAAGTCTTTCGAGCATGATACTTAAATCCTTCGGGTCATCTGTAAG
1 TAAGTCCTTCGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
* * * *
2190654 CCTTTTGAGCAAGATTATAAGTCTTTCGGGCCATCCATAA-ACCTTCGGGTAAGATGTTTTCACG
66 CCTTTTAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAAGATGTTTTCACA
* * * *
2190718 TGAATTTG-AAAATGA-AAAATAATGTTTTAAGAAGATGAAAT-TTTGAAAACTAAGAAGGCGGT
131 TGAATTTGAAAAATGAGAAAGTAATGTTTTAAGAAAATGAAATCTTTGAAAAGTAAGAAGGCGAT
*
2190780 TTCCAAAATTTCACACTTA
196 TTCCAAAATTTCACATTTA
*
2190799 GTAAGTCCTTCGG-CATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTC-GGTCATCTGTAA
1 -TAAGTCCTTCGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
* * * * * * *
2190862 GGC-TTTAGAGCAATATGATAAGTCCTTTGGGTCATCCATAAAACCTTC-GG---GACGTTTTGA
65 GCCTTTTA-AGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAAGATGTTTTCA
* * * *
2190922 CATGAATTTGAAAAAT--GAAAGTGATGTTTTAAGAAAATGAGATATTTGAAAAGTAAGAATGCG
129 CATGAATTTGAAAAATGAGAAAGTAATGTTTTAAGAAAATGAAATCTTTGAAAAGTAAGAAGGCG
*
2190985 ATTT-CAACATTTCACATTTTA
194 ATTTCCAAAATTTCACA-TTTA
** * *
2191006 TAAGTCCTTCGGGCCATCAACAAGCCTTTCGAGCATGATGATTAA
1 TAAGTCCTTC-GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
2191051 GAATCTTTCG
Statistics
Matches: 965, Mismatches: 112, Indels: 86
0.83 0.10 0.07
Matches are distributed among these distances:
206 60 0.06
207 30 0.03
208 31 0.03
209 44 0.05
210 47 0.05
211 15 0.02
212 7 0.01
213 19 0.02
214 276 0.29
215 72 0.07
216 4 0.00
218 2 0.00
219 16 0.02
220 30 0.03
221 21 0.02
222 175 0.18
223 86 0.09
224 30 0.03
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (214 bp):
TAAGTCCTTCGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
CCTTTTAAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAAGATGTTTTCACA
TGAATTTGAAAAATGAGAAAGTAATGTTTTAAGAAAATGAAATCTTTGAAAAGTAAGAAGGCGAT
TTCCAAAATTTCACATTTA
Found at i:2190888 original size:40 final size:41
Alignment explanation
Indices: 2190800--2190902 Score: 95
Period size: 41 Copynumber: 2.5 Consensus size: 41
2190790 TCACACTTAG
* * *
2190800 TAAGTCCTTCGG-CATCAATAAGTCTTTCGAGCATGATGCT
1 TAAGTCCTTCGGTCATCAATAAGGCTTTAGAGCATGATGCA
* **
2190840 TAAATCCTTCGGTCATCTGTAAGGCTTTAGAGCAAT-ATG-A
1 TAAGTCCTTCGGTCATCAATAAGGCTTTAGAGC-ATGATGCA
* *
2190880 TAAGTCCTTTGGGTCATCCATAA
1 TAAGTCC-TTCGGTCATCAATAA
2190903 AACCTTCGGG
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
40 17 0.34
41 31 0.62
42 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (41 bp):
TAAGTCCTTCGGTCATCAATAAGGCTTTAGAGCATGATGCA
Found at i:2191420 original size:138 final size:140
Alignment explanation
Indices: 2191165--2191482 Score: 457
Period size: 138 Copynumber: 2.3 Consensus size: 140
2191155 AAATACATCA
* *
2191165 GTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGAGCCATCCATAAGACCTTCGGTAGGATATCTT
1 GTAAGTCTTTCGAG-AAAATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGTAGGATATCTT
* *
2191230 CACACAAAAATATTTAGTAAGTCTTGCGGGCCATCAATAAGACTTTCGAGCATGATGGTGAAATC
65 CACACAAAAATA-TTAGTAAGTCCTGCGGGCCATCAATAAGACTTTCAAGCATGATGGTG-AATC
2191295 CTTCGGGTCATTT
128 CTTCGGGTCATTT
* * *
2191308 GTAAGTCTTTCGAGAAAAATGATAAGTCCTTTGGGCCAT-C-TAAGACCTTCGGGTAGGATGTTT
1 GTAAGTCTTTCGAG-AAAATGATAAGTCCTTCGGGCCATCCATAAGACCTTC-GGTAGGATATCT
* *
2191371 TCACA-AAAAA-A-TAGTAAGTCCTGCGGGCCATCAGTAAGACTTTCAAGCATGATGGTGAATTC
64 TCACACAAAAATATTAGTAAGTCCTGCGGGCCATCAATAAGACTTTCAAGCATGATGGTGAATCC
2191433 TTCGGGTCATTT
129 TTCGGGTCATTT
* *
2191445 GTATGTCTTTCGAGTAAATGATAAGTCCTTCGGGCCAT
1 GTAAGTCTTTCGAGAAAATGATAAGTCCTTCGGGCCAT
2191483 TTTAAGCCTT
Statistics
Matches: 161, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
136 22 0.14
137 29 0.18
138 43 0.27
140 1 0.01
141 15 0.09
142 16 0.10
143 35 0.22
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (140 bp):
GTAAGTCTTTCGAGAAAATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGTAGGATATCTTC
ACACAAAAATATTAGTAAGTCCTGCGGGCCATCAATAAGACTTTCAAGCATGATGGTGAATCCTT
CGGGTCATTT
Found at i:2196587 original size:9 final size:9
Alignment explanation
Indices: 2196554--2196669 Score: 57
Period size: 8 Copynumber: 12.9 Consensus size: 9
2196544 CCCGTCCCGA
2196554 TTATATATAT
1 TTATATAT-T
* *
2196564 ATATAATAGT
1 TTAT-ATATT
2196574 TTATATATT
1 TTATATATT
*
2196583 TTATAT-TAA
1 TTATATAT-T
2196592 TTATATA-T
1 TTATATATT
*
2196600 ATA-ATATT
1 TTATATATT
2196608 TTATAT-TT
1 TTATATATT
*
2196616 TTTTATATT
1 TTATATATT
2196625 AATTATATA-T
1 --TTATATATT
*
2196635 ATA-ATATT
1 TTATATATT
2196643 TTATAT-TT
1 TTATATATT
*
2196651 TTTTATATT
1 TTATATATT
2196660 AATTATATAT
1 --TTATATAT
2196670 ATAATATTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 25
0.67 0.12 0.21
Matches are distributed among these distances:
7 6 0.08
8 25 0.32
9 24 0.30
10 8 0.10
11 16 0.20
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (9 bp):
TTATATATT
Found at i:2196588 original size:25 final size:25
Alignment explanation
Indices: 2196578--2196679 Score: 72
Period size: 25 Copynumber: 4.3 Consensus size: 25
2196568 AATAGTTTAT
*
2196578 ATATTTTATATTAATTATATATATA
1 ATATTTTATATTAATAATATATATA
* * *
2196603 ATATTTTATATT--T-TTTTATATT
1 ATATTTTATATTAATAATATATATA
* *
2196625 A-ATTATATA-T-ATAATATTTTATA
1 ATATTTTATATTAATAATA-TATATA
* * *
2196648 TTTTTTTATATTAATTATATATATA
1 ATATTTTATATTAATAATATATATA
2196673 ATATTTT
1 ATATTTT
2196680 CAGATTCGGG
Statistics
Matches: 56, Mismatches: 15, Indels: 12
0.67 0.18 0.14
Matches are distributed among these distances:
20 1 0.02
21 8 0.14
22 8 0.14
23 5 0.09
24 6 0.11
25 23 0.41
26 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
ATATTTTATATTAATAATATATATA
Found at i:2196627 original size:35 final size:35
Alignment explanation
Indices: 2196559--2196679 Score: 217
Period size: 35 Copynumber: 3.5 Consensus size: 35
2196549 CCCGATTATA
* *
2196559 TATATATATAATAGTTTATA-TATTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTTATATTAAT
2196593 TATATATATAATATTTTATATTTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTTATATTAAT
2196628 TATATATATAATATTTTATATTTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTTATATTAAT
2196663 TATATATATAATATTTT
1 TATATATATAATATTTT
2196680 CAGATTCGGG
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
34 19 0.23
35 65 0.77
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (35 bp):
TATATATATAATATTTTATATTTTTTTATATTAAT
Found at i:2198707 original size:31 final size:33
Alignment explanation
Indices: 2198652--2198717 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 33
2198642 AGTTTGGAAG
* *
2198652 TTGGAAATTTCATCTTGGTTGGTGGCCAACTTA
1 TTGGAAAATTCATCTTGGTAGGTGGCCAACTTA
2198685 TTGGAAAATTC-T-TTGGTAGGTGGCCAACTTA
1 TTGGAAAATTCATCTTGGTAGGTGGCCAACTTA
2198716 TT
1 TT
2198718 TTTCATCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 20 0.65
32 1 0.03
33 10 0.32
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (33 bp):
TTGGAAAATTCATCTTGGTAGGTGGCCAACTTA
Found at i:2203420 original size:33 final size:33
Alignment explanation
Indices: 2203383--2203473 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
2203373 AGTTGGAAAT
*
2203383 TTCATCTTGGTTGGTGGGCAACTTATTGAAAAA
1 TTCATCTTGGTTGGTGGCCAACTTATTGAAAAA
* *
2203416 TTCATCTTGGTTAGTGGCCAACTTATTGGAAAA
1 TTCATCTTGGTTGGTGGCCAACTTATTGAAAAA
*
2203449 TTC-T-TTGGTAGGTGGCCAACTTATT
1 TTCATCTTGGTTGGTGGCCAACTTATT
2203474 TTTCATCTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
31 19 0.36
32 1 0.02
33 33 0.62
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (33 bp):
TTCATCTTGGTTGGTGGCCAACTTATTGAAAAA
Found at i:2205678 original size:9 final size:9
Alignment explanation
Indices: 2205664--2205728 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
2205654 GGCTGCTGGA
2205664 AACCGGTTT
1 AACCGGTTT
2205673 AACCGGTTTT
1 AACCGG-TTT
2205683 CAACCGGTTCT
1 -AACCGGTT-T
*
2205694 GACCGGTTT
1 AACCGGTTT
* *
2205703 GACCGGTCTG
1 AACCGGT-TT
2205713 AACCGGTTT
1 AACCGGTTT
*
2205722 GACCGGT
1 AACCGGT
2205729 CTGACCCGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
9 21 0.45
10 19 0.40
11 7 0.15
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (9 bp):
AACCGGTTT
Found at i:2205689 original size:20 final size:21
Alignment explanation
Indices: 2205664--2205702 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2205654 GGCTGCTGGA
2205664 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
2205684 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTAACCGGTTT
2205703 GACCGGTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:2205709 original size:19 final size:18
Alignment explanation
Indices: 2205685--2205734 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
2205675 CCGGTTTTCA
2205685 ACCGGTTCTGACCGGTTTG
1 ACCGG-TCTGACCGGTTTG
2205704 ACCGGTCTGAACCGGTTTG
1 ACCGGTCTG-ACCGGTTTG
2205723 ACCGGTCTGACC
1 ACCGGTCTGACC
2205735 CGACCCGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.23
19 23 0.77
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.26
Consensus pattern (18 bp):
ACCGGTCTGACCGGTTTG
Found at i:2205733 original size:9 final size:9
Alignment explanation
Indices: 2205685--2205734 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
2205675 CCGGTTTTCA
2205685 ACCGGTTCTG
1 ACCGG-TCTG
*
2205695 ACCGGTTTG
1 ACCGGTCTG
2205704 ACCGGTCTG
1 ACCGGTCTG
*
2205713 AACCGGTTTG
1 -ACCGGTCTG
2205723 ACCGGTCTG
1 ACCGGTCTG
2205732 ACC
1 ACC
2205735 CGACCCGACC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 22 0.63
10 13 0.37
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.26
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:2205752 original size:17 final size:17
Alignment explanation
Indices: 2205730--2205768 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
2205720 TTGACCGGTC
2205730 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
2205747 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
2205764 TGACC
1 TGACC
2205769 GTTGATCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:2208724 original size:39 final size:39
Alignment explanation
Indices: 2208680--2208755 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
2208670 ACTAGAGAAC
2208680 AACTGACTTGGAACCAGGAGAAACCCTAATGACTGTGAG
1 AACTGACTTGGAACCAGGAGAAACCCTAATGACTGTGAG
2208719 AACTGACTTGGAACCAGGAGAAACCCTAATGACTGTG
1 AACTGACTTGGAACCAGGAGAAACCCTAATGACTGTG
2208756 GGTTATCGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (39 bp):
AACTGACTTGGAACCAGGAGAAACCCTAATGACTGTGAG
Found at i:2211286 original size:20 final size:21
Alignment explanation
Indices: 2211263--2211301 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2211253 TCCTTCAGAT
2211263 TCTTC-CCTTCGGATGCTTTA
1 TCTTCTCCTTCGGATGCTTTA
*
2211283 TCTTCTCTTTCGGATGCTT
1 TCTTCTCCTTCGGATGCTT
2211302 CCTCCCCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.08, C:0.28, G:0.15, T:0.49
Consensus pattern (21 bp):
TCTTCTCCTTCGGATGCTTTA
Found at i:2211588 original size:2 final size:2
Alignment explanation
Indices: 2211581--2211615 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2211571 TCGTAAAAAT
2211581 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 T
2211616 TGCTTTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.