Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 107 of 216
Found at i:33767536 original size:5 final size:5
Alignment explanation
Indices: 33767528--33767554 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
33767518 AAAGAAAAGA
33767528 AAATC AAATC AAATC AAATC AAATC AA
1 AAATC AAATC AAATC AAATC AAATC AA
33767555 GCAGATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATC
Found at i:33769038 original size:13 final size:12
Alignment explanation
Indices: 33769014--33769052 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
33769004 TCATGGATTA
33769014 TTGTTT-TTTAT
1 TTGTTTATTTAT
33769025 TTCGTTTATTTAT
1 TT-GTTTATTTAT
33769038 TTGTTTATATTAT
1 TTGTTTAT-TTAT
33769051 TT
1 TT
33769053 TTATGCCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (12 bp):
TTGTTTATTTAT
Found at i:33769083 original size:15 final size:15
Alignment explanation
Indices: 33769060--33769092 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
33769050 TTTTTATGCC
33769060 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
33769075 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
33769090 ATT
1 ATT
33769093 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:33773316 original size:22 final size:21
Alignment explanation
Indices: 33773291--33773354 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
33773281 CGAAAGCTCT
33773291 AAACGAACAGATCTGAAAATTA
1 AAAC-AACAGATCTGAAAATTA
* *
33773313 AAACAA-AGAAC--AAGATT-
1 AAACAACAGATCTGAAAATTA
33773330 AAACTAATCAGATCTGAAAATTA
1 AAAC-AA-CAGATCTGAAAATTA
33773353 AA
1 AA
33773355 TCCCCAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
17 4 0.12
18 7 0.22
20 8 0.25
21 2 0.06
22 9 0.28
23 2 0.06
ACGTcount: A:0.58, C:0.12, G:0.11, T:0.19
Consensus pattern (21 bp):
AAACAACAGATCTGAAAATTA
Found at i:33775932 original size:30 final size:28
Alignment explanation
Indices: 33775878--33775933 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
33775868 AAACCTTTTA
33775878 TTTTCCCCCAAAATTTTCTCCCTTCCAC
1 TTTTCCCCCAAAATTTTCTCCCTTCCAC
* *
33775906 TTTTCCCCTAAAACTTTTATTCCCTTCC
1 TTTTCCCCCAAAA-TTTT-CTCCCTTCC
33775934 CATCTCACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 4 0.17
30 8 0.33
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTTCCCCCAAAATTTTCTCCCTTCCAC
Found at i:33777849 original size:19 final size:19
Alignment explanation
Indices: 33777821--33777858 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
33777811 CCAATGTCAC
*
33777821 CCACCATAATTAAATTTGT
1 CCACCATAATCAAATTTGT
*
33777840 CCACCGTAATCAAATTTGT
1 CCACCATAATCAAATTTGT
33777859 TATTAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (19 bp):
CCACCATAATCAAATTTGT
Found at i:33778597 original size:41 final size:40
Alignment explanation
Indices: 33778547--33778663 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 40
33778537 CGGCCCGAAT
33778547 AATAATTTTTTTTATTTTTTTAATTTTAAAATACTTTTAA
1 AATAATTTTTTTTATTTTTTTAATTTTAAAATACTTTTAA
** * *
33778587 AATAATTTTTTAAATTTTTTTTAATTTTAAAATATTTTTTA
1 AATAATTTTTTTTA-TTTTTTTAATTTTAAAATACTTTTAA
*
33778628 AATACTTTTTTAATT-TTTGTTTTAATTTTTAAAATA
1 AATAATTTTTT--TTATTT-TTTTAA-TTTTAAAATA
33778664 AATTTTTGGT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
40 12 0.18
41 37 0.57
42 6 0.09
43 10 0.15
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (40 bp):
AATAATTTTTTTTATTTTTTTAATTTTAAAATACTTTTAA
Found at i:33778615 original size:30 final size:30
Alignment explanation
Indices: 33778581--33778644 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
33778571 TTTAAAATAC
*
33778581 TTTTAAAATAATTTTTTAAAT-TTTTTTTAA
1 TTTTAAAAT-ATTTTTTAAATACTTTTTTAA
33778611 TTTTAAAATATTTTTTAAATACTTTTTTAA
1 TTTTAAAATATTTTTTAAATACTTTTTTAA
33778641 TTTT
1 TTTT
33778645 TGTTTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTAAAATATTTTTTAAATACTTTTTTAA
Found at i:33779684 original size:27 final size:28
Alignment explanation
Indices: 33779648--33779707 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
33779638 CACTTCTATT
*
33779648 TATTTCAAA-TTACATTTTAGTCATTTA
1 TATTTCAAAGTTACATTTTAGTCACTTA
* *
33779675 TATTTGAAATGTTACGTTTTAGTCACTTA
1 TATTTCAAA-GTTACATTTTAGTCACTTA
33779704 TATT
1 TATT
33779708 ATTGTTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 8 0.29
29 20 0.71
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (28 bp):
TATTTCAAAGTTACATTTTAGTCACTTA
Found at i:33783121 original size:19 final size:18
Alignment explanation
Indices: 33783085--33783124 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33783075 TTTCCACTCG
*
33783085 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
33783103 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
33783122 TTT
1 TTT
33783125 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:33784191 original size:14 final size:14
Alignment explanation
Indices: 33784172--33784212 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
33784162 ACTAGCTCTC
33784172 TTTTTTTTCACAAT
1 TTTTTTTTCACAAT
33784186 TTTTTTTTCACAAT
1 TTTTTTTTCACAAT
33784200 TTTTTTTTCACAA
1 TTTTTTTTCACAA
33784213 CTTGATATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTTTCACAAT
Found at i:33784287 original size:12 final size:12
Alignment explanation
Indices: 33784245--33784286 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
33784235 TTGAATGGAA
33784245 TTTCGAATTTTT
1 TTTCGAATTTTT
*
33784257 TTTTGAATTTTT
1 TTTCGAATTTTT
*
33784269 TTTCGAGTTTTT
1 TTTCGAATTTTT
33784281 TTTCGA
1 TTTCGA
33784287 GAAACTACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.67
Consensus pattern (12 bp):
TTTCGAATTTTT
Found at i:33790046 original size:169 final size:169
Alignment explanation
Indices: 33789767--33790104 Score: 622
Period size: 169 Copynumber: 2.0 Consensus size: 169
33789757 CCAAGAACAA
*
33789767 AACCCATGTTTGTATCATTTTCTGTCATTCCTTCCCTTGTTTTTTGTTTTCCTTTAAATGTTGTA
1 AACCCATGTTTGTATCATTTTCTGTCATTCCTTCCCTTGTTTTTTGTTTTCCTTCAAATGTTGTA
* *
33789832 TTGGATCATAAACACTTGCAATGGATTGTTTCAAGGATAATGAATCAAAGCAGACAAATTCCCAT
66 TTGGATCATAAACACTTGCAATGGATTATTTCAAGGACAATGAATCAAAGCAGACAAATTCCCAT
33789897 GAAAAAGGTAATAGCACTGAACACTCACATGATCTAAGC
131 GAAAAAGGTAATAGCACTGAACACTCACATGATCTAAGC
33789936 AACCCATGTTTGTATCATTTTCTGTCATTCCTTCCCTTGTTTTTTGTTTTCCTTCAAATGTTGTA
1 AACCCATGTTTGTATCATTTTCTGTCATTCCTTCCCTTGTTTTTTGTTTTCCTTCAAATGTTGTA
* *
33790001 TTGGATCATAAACACTTGCAATGGATTATTTCAGGGACAATGAATCAAAGTAGACAAATTCCCAT
66 TTGGATCATAAACACTTGCAATGGATTATTTCAAGGACAATGAATCAAAGCAGACAAATTCCCAT
*
33790066 GAAGAAGGTAATAGCACTGAACACTCACATGATCTAAGC
131 GAAAAAGGTAATAGCACTGAACACTCACATGATCTAAGC
33790105 CTTAACTCGG
Statistics
Matches: 163, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
169 163 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (169 bp):
AACCCATGTTTGTATCATTTTCTGTCATTCCTTCCCTTGTTTTTTGTTTTCCTTCAAATGTTGTA
TTGGATCATAAACACTTGCAATGGATTATTTCAAGGACAATGAATCAAAGCAGACAAATTCCCAT
GAAAAAGGTAATAGCACTGAACACTCACATGATCTAAGC
Found at i:33790594 original size:36 final size:35
Alignment explanation
Indices: 33790507--33790595 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
33790497 CTTAGACATG
* * * *
33790507 TCTATCCCAACCTTTTGAAGGTTGCCTTAAACGGG
1 TCTATCCTAACCTTTTTAAGGTTGCCTTAAACCGA
* * *
33790542 TCTATTCTAACTTTTTTAAGGTTGCCTTAAAACCTA
1 TCTATCCTAACCTTTTTAAGGTTGCCTT-AAACCGA
33790578 TCTATCCTAACCTTTTTA
1 TCTATCCTAACCTTTTTA
33790596 GCGTCACATT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 24 0.55
36 20 0.45
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (35 bp):
TCTATCCTAACCTTTTTAAGGTTGCCTTAAACCGA
Found at i:33792737 original size:3 final size:3
Alignment explanation
Indices: 33792731--33792771 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
33792721 TAGTTAGTAG
33792731 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
33792772 GGGTTAAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:33793221 original size:8 final size:8
Alignment explanation
Indices: 33793208--33793316 Score: 51
Period size: 8 Copynumber: 12.6 Consensus size: 8
33793198 TTTATAATTC
33793208 TATTTTTA
1 TATTTTTA
33793216 TATTTTTA
1 TATTTTTA
**
33793224 TATGCTTA
1 TATTTTTA
*
33793232 TA-TATTA
1 TATTTTTA
*
33793239 T-TTTTAA
1 TATTTTTA
*
33793246 TAATTTTA
1 TATTTTTA
33793254 TAATTATTTTA
1 T-A-T-TTTTA
* *
33793265 CAAATTTTA
1 -TATTTTTA
33793274 TGATTTTTTAA
1 T-A-TTTTT-A
33793285 TATTTTTA
1 TATTTTTA
33793293 CTATTTTTCA
1 -TATTTTT-A
33793303 TTATTTTTA
1 -TATTTTTA
33793312 TATTT
1 TATTT
33793317 AAAAAAAATA
Statistics
Matches: 76, Mismatches: 14, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
7 8 0.11
8 27 0.36
9 20 0.26
10 13 0.17
11 8 0.11
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTTA
Found at i:33793255 original size:20 final size:20
Alignment explanation
Indices: 33793232--33793315 Score: 63
Period size: 20 Copynumber: 4.3 Consensus size: 20
33793222 TATATGCTTA
33793232 TATATTATTTTTAATAATTT
1 TATATTATTTTTAATAATTT
33793252 TATAATTA-TTTTACA-AATTT
1 TAT-ATTATTTTTA-ATAATTT
33793272 TATGA-T-TTTTTAAT-ATTT
1 TAT-ATTATTTTTAATAATTT
* * *
33793290 T-TACTATTTTTCATTATTTT
1 TATATTATTTTT-AATAATTT
33793310 TATATT
1 TATATT
33793316 TAAAAAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
16 1 0.02
17 2 0.04
18 11 0.22
19 8 0.16
20 21 0.41
21 8 0.16
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (20 bp):
TATATTATTTTTAATAATTT
Found at i:33793291 original size:19 final size:18
Alignment explanation
Indices: 33793239--33793316 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 18
33793229 TTATATATTA
33793239 TTTTTAATAATTTTATAAT
1 TTTTTAATAATTTTAT-AT
33793258 TATTTTACA-AATTTTATGAT
1 T-TTTTA-ATAATTTTAT-AT
*
33793278 TTTTTAATATTTTTACTAT
1 TTTTTAATAATTTTA-TAT
* * *
33793297 TTTTCATTATTTTTATAT
1 TTTTTAATAATTTTATAT
33793315 TT
1 TT
33793317 AAAAAAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
18 6 0.12
19 27 0.53
20 17 0.33
21 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTTTAATAATTTTATAT
Found at i:33796288 original size:75 final size:75
Alignment explanation
Indices: 33796161--33796323 Score: 195
Period size: 75 Copynumber: 2.2 Consensus size: 75
33796151 TTTAATATGA
** * * ** *
33796161 AAAACACATAATGCAGGTCTTAAAGGATGCTAATGTATTAATGTAATGCATTAACTAAAGACGCA
1 AAAACACATAATGCACATCTTAAAAGATGCTAATGTATTAATGCAAAACATTAAATAAAGACGCA
*
33796226 TTCAATAAAC
66 TTCAACAAAC
* *
33796236 AAGAA-ACATAATGCACATTTTAAAAGATG-TAGATGTATTAATGCAAAACATTAAATAAAGATG
1 AA-AACACATAATGCACATCTTAAAAGATGCTA-ATGTATTAATGCAAAACATTAAATAAAGACG
*
33796299 CATTTAACAAAC
64 CATTCAACAAAC
33796311 AAAACACATAATG
1 AAAACACATAATG
33796324 AAGCAGATCA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
74 4 0.05
75 68 0.92
76 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (75 bp):
AAAACACATAATGCACATCTTAAAAGATGCTAATGTATTAATGCAAAACATTAAATAAAGACGCA
TTCAACAAAC
Found at i:33797335 original size:25 final size:24
Alignment explanation
Indices: 33797292--33797345 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
33797282 GTATTGAAAT
*
33797292 TTAAAAATTTAAAAAAATATAAAGA
1 TTAAAAATATAAAAAAATATAAA-A
* * *
33797317 TTAAAAATATCAAATAATATCAAA
1 TTAAAAATATAAAAAAATATAAAA
33797341 TTAAA
1 TTAAA
33797346 TAACAATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (24 bp):
TTAAAAATATAAAAAAATATAAAA
Found at i:33798900 original size:116 final size:117
Alignment explanation
Indices: 33798553--33799206 Score: 411
Period size: 116 Copynumber: 5.6 Consensus size: 117
33798543 CATATGTTTA
** *** * * *
33798553 ATTGTACATTTCACATTGTT-CATCTATTGACCAGAGTGAGTTTTTTGGG-TTTCCTTTTCATTG
1 ATTGTACATTTTGCATT-TTCCATCTATTGAATGGACTGAGTTTTTCGGGTTTTCCATTTCATTG
* * * *
33798616 CTTTCAAGTATCTGGTCTTTA-AGA-GTTTCGATTGTGTTTTTTTTTCCTTCCATTTC
65 CTTTCAAGTGTCTGGTCTTTATA-ATGTTCCG-TTGTG-TTTTCTGT--TTCCATTTC
* * * *
33798672 A-TGTACATTTTCATTTTCATTTTCCATC-AGTTCAGTGGAGC-GAGTTTTTCAGGTTTTCCATT
1 ATTGTACA---T--TTTGCATTTTCCATCTA-TTGAATGGA-CTGAGTTTTTCGGGTTTTCCATT
** ** ** * * * *
33798734 TTGTTAATTTCAAGCATCTGGTC-CTATGA-GTTCTGTTCATGTTTTCTGTTTCCATTTC
59 TCATTGCTTTCAAGTGTCTGGTCTTTATAATGTTCCGTT-GTGTTTTCTGTTTCCATTTC
*
33798792 ATTGTACATTTTGCATTTTCCATCTATTGAATGGACTGA-TGTTTTCGGG-TTTCCATTTCATTT
1 ATTGTACATTTTGCATTTTCCATCTATTGAATGGACTGAGT-TTTTCGGGTTTTCCATTTCATTG
* * *
33798855 CTTTCAAGTGTCTGGTCTTTATAATG-TCCGATCGTATCTTCTGTTTCCATTTC
65 CTTTCAAGTGTCTGGTCTTTATAATGTTCCG-TTGTGTTTTCTGTTTCCATTTC
* ** * *** * * * * * *
33798908 ATTTTACGCTTTGTATTTTCCATGGGTTGAATGAAGTGACTTTTCCAGG-TTTCCATTTCACTGC
1 ATTGTACATTTTGCATTTTCCATCTATTGAATGGACTGAGTTTTTCGGGTTTTCCATTTCATTGC
*
33798972 TTTCAAGTGTCTGGCCTTTATAA-GTTCCGTTGTTGTTTTCTGTTT-C----C
66 TTTCAAGTGTCTGGTCTTTATAATGTTCCGTTG-TGTTTTCTGTTTCCATTTC
* * * * * * *
33799019 ATT-T-CATTTTGCATTTTCCATCCACTAAATGGAGTGAGTTTTTTGGGTTTTCTAGTTCATTGC
1 ATTGTACATTTTGCATTTTCCATCTATTGAATGGACTGAGTTTTTCGGGTTTTCCATTTCATTGC
* * * * * *
33799082 TTTCAAATATCTGCTCTTTGT-ATGTTCTGTTTGTGTTTTCTGATTCCATTTC
66 TTTCAAGTGTCTGGTCTTTATAATGTTCCG-TTGTGTTTTCTGTTTCCATTTC
* * * *
33799134 ATTGTACATTTTGCATTTTCTAT-TCATTGACTGGAGC-GAGTTTTTTGGGTTTTCCAATTCATT
1 ATTGTACATTTTGCATTTTCCATCT-ATTGAATGGA-CTGAGTTTTTCGGGTTTTCCATTTCATT
33799197 GCTTTCAAGT
64 GCTTTCAAGT
33799207 ACTCTTCATA
Statistics
Matches: 414, Mismatches: 88, Indels: 68
0.73 0.15 0.12
Matches are distributed among these distances:
109 31 0.07
110 45 0.11
111 8 0.02
115 35 0.08
116 140 0.34
117 60 0.14
118 7 0.02
119 1 0.00
120 10 0.02
121 7 0.02
122 11 0.03
123 34 0.08
124 25 0.06
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.49
Consensus pattern (117 bp):
ATTGTACATTTTGCATTTTCCATCTATTGAATGGACTGAGTTTTTCGGGTTTTCCATTTCATTGC
TTTCAAGTGTCTGGTCTTTATAATGTTCCGTTGTGTTTTCTGTTTCCATTTC
Found at i:33806024 original size:30 final size:31
Alignment explanation
Indices: 33805956--33806025 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
33805946 TTAATATGCT
* *
33805956 ATTTGGTACCTGAGTTTCACTTTAATGTTCA
1 ATTTGGTACCTGAGTTTCACTTCAATATTCA
**
33805987 ATTTGGTACCTGAGTTTGGCTTCAATATT-A
1 ATTTGGTACCTGAGTTTCACTTCAATATTCA
*
33806017 TTTTGGTAC
1 ATTTGGTAC
33806026 TTGATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 9 0.26
31 25 0.74
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (31 bp):
ATTTGGTACCTGAGTTTCACTTCAATATTCA
Found at i:33809453 original size:101 final size:102
Alignment explanation
Indices: 33809338--33809522 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
33809328 AAAGTGATGG
* ** ** *
33809338 TCACGTGTGTAGTACTATGTGTAGGGTATTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGACTACCACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
*
33809401 ACTATGTGCTGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* *
33809439 TCACGTGTGTAGTACTATGTGCAGACTACCACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGACTACCACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
33809504 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
33809523 TGAACCAATA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 35 0.48
102 34 0.47
103 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGACTACCACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:33809458 original size:51 final size:50
Alignment explanation
Indices: 33809391--33809522 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 50
33809381 TGATAGGTCG
*
33809391 CATGTGTAGTACTATGTGCTGGCTACTATGCGTACCGGATAGCT-TCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GATCA
* * * * * * *
33809442 CGTGTGTAGTACTATGTGCAGACTACCACGTGTATCGGATAGTGATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGATCA
33809493 CATGTGTAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
33809523 TGAACCAATA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 1 0.01
51 65 0.97
52 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (50 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGATCA
Found at i:33809769 original size:16 final size:16
Alignment explanation
Indices: 33809748--33809779 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33809738 TGATTGAAAG
*
33809748 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
33809764 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
33809780 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:33812002 original size:22 final size:21
Alignment explanation
Indices: 33811974--33812027 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
33811964 GTTCGTGTAA
33811974 TTAAATTGTATATTTATATGTT
1 TTAAATTGTATA-TTATATGTT
*
33811996 TTAAATTG-A-ATTATTTGTT
1 TTAAATTGTATATTATATGTT
*
33812015 TGTGAATTGTATA
1 T-TAAATTGTATA
33812028 ATTTCCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
20 7 0.26
21 2 0.07
22 9 0.33
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (21 bp):
TTAAATTGTATATTATATGTT
Found at i:33814615 original size:12 final size:12
Alignment explanation
Indices: 33814598--33814627 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33814588 CGGTAGTCTG
33814598 TGAATTTCCAGA
1 TGAATTTCCAGA
33814610 TGAATTTCCAGA
1 TGAATTTCCAGA
*
33814622 GGAATT
1 TGAATT
33814628 GCCTGGGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (12 bp):
TGAATTTCCAGA
Found at i:33818864 original size:104 final size:104
Alignment explanation
Indices: 33818684--33818907 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
33818674 TGTATATAAA
** * *
33818684 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
33818749 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
33818788 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
33818852 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
33818892 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
33818908 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:33818959 original size:71 final size:72
Alignment explanation
Indices: 33818826--33818977 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
33818816 TCATTGGTGG
* *
33818826 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
33818891 GAGGGGT
66 GAGGGGT
***
33818898 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
33818962 GAGGGGT
66 GAGGGGT
33818969 TGCTAAGTG
1 TGCTAAGTG
33818978 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:33820536 original size:42 final size:42
Alignment explanation
Indices: 33820489--33820572 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
33820479 ATGGATACGG
*
33820489 GTTAGGGGTGTTACACAACACCTTGACTTTGAATCTAGATGA
1 GTTAGGGGTGTTACACAACACCTTGACTTTGAATCTAAATGA
33820531 GTTAGGGGTGTTACACAACACCTTGACTTTGAATCTAAATGA
1 GTTAGGGGTGTTACACAACACCTTGACTTTGAATCTAAATGA
33820573 TGGGGACCCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
GTTAGGGGTGTTACACAACACCTTGACTTTGAATCTAAATGA
Found at i:33822436 original size:51 final size:49
Alignment explanation
Indices: 33822378--33822504 Score: 125
Period size: 50 Copynumber: 2.6 Consensus size: 49
33822368 ATGAGTTACT
*
33822378 TAATGCATGACTTTATTTAAGATGCAAACTTTAACTATCATG-GTAGTTAAA
1 TAATGCAT-ACTTTATTTAAGATGCAAAC-TTAACTAACATGAG-AGTTAAA
* * * * **
33822429 TAATGCATATCATAATTTATGATGCAATCTTAACTAACATGAGAGTTTCA
1 TAATGCATA-CTTTATTTAAGATGCAAACTTAACTAACATGAGAGTTAAA
33822479 TAATGCATAACTTTA-TTAA-ATGCAAA
1 TAATGCAT-ACTTTATTTAAGATGCAAA
33822505 ACACATAATA
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
48 6 0.10
49 3 0.05
50 28 0.45
51 25 0.40
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (49 bp):
TAATGCATACTTTATTTAAGATGCAAACTTAACTAACATGAGAGTTAAA
Found at i:33823021 original size:16 final size:16
Alignment explanation
Indices: 33823000--33823034 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33822990 TGAATCACTG
**
33823000 ATTACAGCTTTATTCC
1 ATTACAGCCCTATTCC
33823016 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
33823032 ATT
1 ATT
33823035 CACCCCAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:33841590 original size:53 final size:53
Alignment explanation
Indices: 33841495--33841653 Score: 210
Period size: 53 Copynumber: 3.0 Consensus size: 53
33841485 ATTAGTTTTC
* * *
33841495 CCATATAATGTCATAACCCACCAATTATGGTCTTACACGATATGATCTTCTTT
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTT
** * * *
33841548 TTATATGATGCCATAACCCACCAGTTACGGTTTTACATGATATGATCTTCTTT
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTT
* * * *
33841601 CCATATGATGTCATAACCCACCAGTTACGGTCTTGCAGGACATGGTCTTCTTT
1 CCATATGATGTCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTT
33841654 AGTGCCATGG
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 90 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (53 bp):
CCATATGATGTCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTT
Found at i:33843448 original size:41 final size:40
Alignment explanation
Indices: 33843384--33843594 Score: 158
Period size: 41 Copynumber: 5.2 Consensus size: 40
33843374 TACCTAATAT
* * *
33843384 AATACACTGGCACAAAGCCTGCTAGGCTTAAAACCTGATAC
1 AATACAC-GACACGAAGCCTGCTAGGCTTAAAGCCTGATAC
* * * *
33843425 GATACATCGACACGAAGCTTGCTAGGCTCAATGCCTGATAC
1 AATACA-CGACACGAAGCCTGCTAGGCTTAAAGCCTGATAC
* * *
33843466 AATACACTGGCACGAAGCCTGCTAGGCATAAAGCTTGA-AC
1 AATACAC-GACACGAAGCCTGCTAGGCTTAAAGCCTGATAC
* * **
33843506 AATACACCGACACTAAGCCTACTAGGCACAAAGCCTGA-ATC
1 AATACA-CGACACGAAGCCTGCTAGGCTTAAAGCCTGATA-C
* ** * **
33843547 AATACACTAGCATTAAGCCTACTAGGCACAAAGCCTGA-ATC
1 AATACACGA-CACGAAGCCTGCTAGGCTTAAAGCCTGATA-C
33843588 AATACAC
1 AATACAC
33843595 AAGCACTAAG
Statistics
Matches: 144, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
40 37 0.26
41 106 0.74
42 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.18
Consensus pattern (40 bp):
AATACACGACACGAAGCCTGCTAGGCTTAAAGCCTGATAC
Found at i:33843605 original size:41 final size:41
Alignment explanation
Indices: 33843446--33843642 Score: 238
Period size: 41 Copynumber: 4.8 Consensus size: 41
33843436 ACGAAGCTTG
* * * * *
33843446 CTAGGCTCAATGCCTG-ATACAATACACTGGCACGAAGCCTG
1 CTAGGCACAAAGCCTGAAT-CAATACACTAGCACTAAGCCTA
* * *
33843487 CTAGGCATAAAGCTTGAA-CAATACAC-CGACACTAAGCCTA
1 CTAGGCACAAAGCCTGAATCAATACACTAG-CACTAAGCCTA
*
33843527 CTAGGCACAAAGCCTGAATCAATACACTAGCATTAAGCCTA
1 CTAGGCACAAAGCCTGAATCAATACACTAGCACTAAGCCTA
*
33843568 CTAGGCACAAAGCCTGAATCAATACACAAGCACTAAGCCTA
1 CTAGGCACAAAGCCTGAATCAATACACTAGCACTAAGCCTA
* * *
33843609 CTAAGCACAAATCCTGAATCAATACACCAGCACT
1 CTAGGCACAAAGCCTGAATCAATACACTAGCACT
33843643 CCGGCGAGAC
Statistics
Matches: 136, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 33 0.24
41 100 0.74
42 2 0.01
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.18
Consensus pattern (41 bp):
CTAGGCACAAAGCCTGAATCAATACACTAGCACTAAGCCTA
Found at i:33843625 original size:82 final size:81
Alignment explanation
Indices: 33843384--33843641 Score: 243
Period size: 82 Copynumber: 3.2 Consensus size: 81
33843374 TACCTAATAT
* * * ** * * * * *
33843384 AATACACTGGCACAAAGCCTGCTAGGCTTAAAACCTGATACGATACATC-GACACGAAGCTTGCT
1 AATACACTAGCACGAAGCCTACTAGGCACAAAGCCTGA-ACAATACA-CAGACACTAAGCCTACT
* * *
33843448 AGGCTCAATGCCTG-ATAC
64 AAGCACAAAGCCTGAAT-C
* * * * * *
33843466 AATACACTGGCACGAAGCCTGCTAGGCATAAAGCTTGAACAATACACCGACACTAAGCCTACTAG
1 AATACACTAGCACGAAGCCTACTAGGCACAAAGCCTGAACAATACACAGACACTAAGCCTACTAA
33843531 GCACAAAGCCTGAATC
66 GCACAAAGCCTGAATC
**
33843547 AATACACTAGCATTAAGCCTACTAGGCACAAAGCCTGAATCAATACACA-AGCACTAAGCCTACT
1 AATACACTAGCACGAAGCCTACTAGGCACAAAGCCTGAA-CAATACACAGA-CACTAAGCCTACT
*
33843611 AAGCACAAATCCTGAATC
64 AAGCACAAAGCCTGAATC
*
33843629 AATACACCAGCAC
1 AATACACTAGCAC
33843642 TCCGGCGAGA
Statistics
Matches: 151, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 66 0.44
82 84 0.56
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (81 bp):
AATACACTAGCACGAAGCCTACTAGGCACAAAGCCTGAACAATACACAGACACTAAGCCTACTAA
GCACAAAGCCTGAATC
Found at i:33844166 original size:41 final size:40
Alignment explanation
Indices: 33844093--33844272 Score: 139
Period size: 41 Copynumber: 4.4 Consensus size: 40
33844083 AGTACAAGTT
* * *
33844093 ACCTGATACAATACACCGGCACAAAGCCTGCTAGGCTTAAA
1 ACCTGATACAATACA-CGGCACGAAGCTTGCTAGGCTCAAA
* * * *
33844134 ACCTGATACGATACATCGACACGAAGCTTGCTAAGCTCAAG
1 ACCTGATACAATACA-CGGCACGAAGCTTGCTAGGCTCAAA
* *
33844175 GCCTGATACAATACACTGGCACGAAGCTTGCTAGGCACAAA
1 ACCTGATACAATACAC-GGCACGAAGCTTGCTAGGCTCAAA
* * * * * * *
33844216 GCTTGA-ATCAATACACCGACACTAAGCCTACTAGGCACAAA
1 ACCTGATA-CAATACA-CGGCACGAAGCTTGCTAGGCTCAAA
*
33844257 GCCTGA-ATCAATACAC
1 ACCTGATA-CAATACAC
33844273 AAGCACTAAG
Statistics
Matches: 116, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
40 3 0.03
41 112 0.97
42 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.18
Consensus pattern (40 bp):
ACCTGATACAATACACGGCACGAAGCTTGCTAGGCTCAAA
Found at i:33844236 original size:82 final size:82
Alignment explanation
Indices: 33844094--33844389 Score: 237
Period size: 82 Copynumber: 3.6 Consensus size: 82
33844084 GTACAAGTTA
* * ** * * *
33844094 CCTGATACAATACACCGGCACAAAGCCTGCTAGGCTTAAAACCTG-ATACGATACATCGACACGA
1 CCTGATACAATACACAGGCACAAAGCTTGCTAGGCACAAAGCCTGAAT-CAATACACCGACACGA
* * * *
33844158 AGCTTGCTAAGCTCAAGG
65 AGCCTACTAAGCACAAAG
* * * *
33844176 CCTGATACAATACACTGGCACGAAGCTTGCTAGGCACAAAGCTTGAATCAATACACCGACACTAA
1 CCTGATACAATACACAGGCACAAAGCTTGCTAGGCACAAAGCCTGAATCAATACACCGACACGAA
*
33844241 GCCTACTAGGCACAAAG
66 GCCTACTAAGCACAAAG
* * *
33844258 CCTGA-ATCAATACACAAGCACTAAG-TCTGCTAGAG-ACAAAGCCTGAATCAATACA-CTAGCA
1 CCTGATA-CAATACACAGGCACAAAGCT-TGCTAG-GCACAAAGCCTGAATCAATACACCGA-CA
* *
33844319 CTAAGCCTACTAGGCACAAAG
62 CGAAGCCTACTAAGCACAAAG
** * * * *
33844340 CCTGA-ATCAATACACTA-GCACTGAGCCTACTAAGTACAAAGCCTGAATCA
1 CCTGATA-CAATACAC-AGGCACAAAGCTTGCTAGGCACAAAGCCTGAATCA
33844390 TTATTTCCAA
Statistics
Matches: 182, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
81 5 0.03
82 173 0.95
83 4 0.02
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (82 bp):
CCTGATACAATACACAGGCACAAAGCTTGCTAGGCACAAAGCCTGAATCAATACACCGACACGAA
GCCTACTAAGCACAAAG
Found at i:33844280 original size:41 final size:41
Alignment explanation
Indices: 33844175--33844389 Score: 274
Period size: 41 Copynumber: 5.2 Consensus size: 41
33844165 TAAGCTCAAG
* * * *
33844175 GCCTG-ATACAATACACTGGCACGAAGCTTGCTAGGCACAAA
1 GCCTGAAT-CAATACACTAGCACTAAGCCTACTAGGCACAAA
* *
33844216 GCTTGAATCAATACAC-CGACACTAAGCCTACTAGGCACAAA
1 GCCTGAATCAATACACTAG-CACTAAGCCTACTAGGCACAAA
* * *
33844257 GCCTGAATCAATACACAAGCACTAAGTCTGCTAGAG-ACAAA
1 GCCTGAATCAATACACTAGCACTAAGCCTACTAG-GCACAAA
33844298 GCCTGAATCAATACACTAGCACTAAGCCTACTAGGCACAAA
1 GCCTGAATCAATACACTAGCACTAAGCCTACTAGGCACAAA
* * *
33844339 GCCTGAATCAATACACTAGCACTGAGCCTACTAAGTACAAA
1 GCCTGAATCAATACACTAGCACTAAGCCTACTAGGCACAAA
33844380 GCCTGAATCA
1 GCCTGAATCA
33844390 TTATTTCCAA
Statistics
Matches: 154, Mismatches: 15, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
40 2 0.01
41 148 0.96
42 4 0.03
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.18
Consensus pattern (41 bp):
GCCTGAATCAATACACTAGCACTAAGCCTACTAGGCACAAA
Found at i:33847983 original size:47 final size:47
Alignment explanation
Indices: 33847926--33848229 Score: 441
Period size: 47 Copynumber: 6.4 Consensus size: 47
33847916 ATTGATGTAC
* * *
33847926 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
33847973 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
33848022 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
33848069 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
33848116 AAGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
33848163 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
33848210 AAGTGCATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
33848230 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 196 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:33851233 original size:22 final size:25
Alignment explanation
Indices: 33851187--33851233 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 25
33851177 TTTCTCACCA
*
33851187 TTTTCAACATATACCTATAATCCCT
1 TTTTCAACATATACCTATAAGCCCT
33851212 TTTTC-ACATATA-C-ATAAGCCCT
1 TTTTCAACATATACCTATAAGCCCT
33851234 CAAAAGGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 1 0.05
24 7 0.33
25 5 0.24
ACGTcount: A:0.32, C:0.28, G:0.02, T:0.38
Consensus pattern (25 bp):
TTTTCAACATATACCTATAAGCCCT
Found at i:33858034 original size:5 final size:5
Alignment explanation
Indices: 33858024--33858094 Score: 142
Period size: 5 Copynumber: 14.2 Consensus size: 5
33858014 TAAGTTTGAC
33858024 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
33858074 ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA A
33858095 CACGAAAACA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 66 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:33858548 original size:87 final size:87
Alignment explanation
Indices: 33858396--33858559 Score: 208
Period size: 87 Copynumber: 1.9 Consensus size: 87
33858386 AAAAACCCTC
* ** * * *
33858396 AAACTTTTTCAAAAAAAAAATCAAGCCTTTATTTTTTTTACACTCAATTGGCTACTTGAACTTTC
1 AAACTTTTTCAAAAAAAAAATCAAACCCCTATTTTTTTTACACTCAATTAGCTACTTAAAATTTC
33858461 AAAATGTATCAAAAAAGCCTTT
66 AAAATGTATCAAAAAAGCCTTT
* *
33858483 AAAC-TTTTCAAAAAAAAAATTAAACCCCTACTTTTTTTTACACTTAATTAAG-TA-TTAAAAAT
1 AAACTTTTTCAAAAAAAAAATCAAACCCCTA-TTTTTTTTACACTCAATT-AGCTACTT-AAAAT
33858545 TTCAAAATGTATCAA
63 TTCAAAATGTATCAA
33858560 TTTTCTTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
86 24 0.36
87 41 0.62
88 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.37
Consensus pattern (87 bp):
AAACTTTTTCAAAAAAAAAATCAAACCCCTATTTTTTTTACACTCAATTAGCTACTTAAAATTTC
AAAATGTATCAAAAAAGCCTTT
Found at i:33860950 original size:3 final size:3
Alignment explanation
Indices: 33860942--33860968 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
33860932 TCAAAGGAAG
33860942 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
33860969 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:33861898 original size:21 final size:22
Alignment explanation
Indices: 33861873--33861914 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33861863 CCATATATAT
33861873 TACTT-ATATTCA-TATTATTTA
1 TACTTAATA-TCATTATTATTTA
33861894 TACTTAATATCATTATTATTT
1 TACTTAATATCATTATTATTT
33861915 TTATAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (22 bp):
TACTTAATATCATTATTATTTA
Found at i:33861910 original size:22 final size:21
Alignment explanation
Indices: 33861873--33861914 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
33861863 CCATATATAT
33861873 TACTTATATTCATATTATTTA
1 TACTTATATTCATATTATTTA
33861894 TACTTA-ATATCATTATTATTT
1 TACTTATAT-TCA-TATTATTT
33861915 TTATAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 9 0.47
22 8 0.42
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (21 bp):
TACTTATATTCATATTATTTA
Found at i:33862729 original size:119 final size:119
Alignment explanation
Indices: 33862518--33862765 Score: 374
Period size: 119 Copynumber: 2.1 Consensus size: 119
33862508 TTAGAAACAG
* *
33862518 GGGTCACACAGCTGTATGGTCAGGCCGTGTGACATAGCCCAAATTGTGTGAGCATTCGAAGTATG
1 GGGTCACACGGCTGTATGGTCAGGCCGTGTGACATAGCCCAAACTGTGTGAGCATTCGAAGTATG
* *
33862583 TGACACACGGCTGTGTCACAGCCCGTGTGTCTGCCAGTGTGGGTATTCGAAATA
66 TGACACACGGCTGTGTCACAGCCCGTGTGTCTGCCAATGTAGGTATTCGAAATA
*
33862637 GGGTCACACGGCTGTATGGTCAGGTCGTGTGACATAGCCCAAACCT-TGTGAGCATTCGAAGTAT
1 GGGTCACACGGCTGTATGGTCAGGCCGTGTGACATAGCCCAAA-CTGTGTGAGCATTCGAAGTAT
* ** *
33862701 AG-GACACATGGCTGTGTTGCAGCCCGTGTGTCTGCCAATGTAGGTATTTGAAATA
65 -GTGACACACGGCTGTGTCACAGCCCGTGTGTCTGCCAATGTAGGTATTCGAAATA
*
33862756 GGGTCGCACG
1 GGGTCACACG
33862766 ATTGTGTCGC
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
119 115 0.98
120 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (119 bp):
GGGTCACACGGCTGTATGGTCAGGCCGTGTGACATAGCCCAAACTGTGTGAGCATTCGAAGTATG
TGACACACGGCTGTGTCACAGCCCGTGTGTCTGCCAATGTAGGTATTCGAAATA
Found at i:33880279 original size:18 final size:18
Alignment explanation
Indices: 33880256--33880290 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33880246 TTATTTTTAC
33880256 AAACATTTTCAAAACACA
1 AAACATTTTCAAAACACA
*
33880274 AAACATTTTCTAAACAC
1 AAACATTTTCAAAACAC
33880291 TGTGGTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (18 bp):
AAACATTTTCAAAACACA
Found at i:33902521 original size:18 final size:18
Alignment explanation
Indices: 33902500--33902561 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
33902490 ATTATTTATA
*
33902500 TTTTATAATAATTTTATTTT
1 TTTTATAA-AATTTTA-ATT
* *
33902520 TTATTATAAAATTTTGACT
1 TT-TTATAAAATTTTAATT
*
33902539 TTTTATAAATTTTTAATT
1 TTTTATAAAATTTTAATT
33902557 TTTTA
1 TTTTA
33902562 GAATGTCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 18 0.51
19 3 0.09
20 8 0.23
21 6 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATAAAATTTTAATT
Found at i:33902528 original size:21 final size:21
Alignment explanation
Indices: 33902502--33902544 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
33902492 TATTTATATT
*
33902502 TTATAATAATTTT-ATTTTTTA
1 TTATAA-AATTTTGACTTTTTA
33902523 TTATAAAATTTTGACTTTTTA
1 TTATAAAATTTTGACTTTTTA
33902544 T
1 T
33902545 AAATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATAAAATTTTGACTTTTTA
Found at i:33902591 original size:21 final size:22
Alignment explanation
Indices: 33902567--33902610 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
33902557 TTTTAGAATG
*
33902567 TCAAAATATTTT-TTTTATTTT
1 TCAAAAAATTTTATTTTATTTT
33902588 TCAAAAAATTTTGATTTTATTTT
1 TCAAAAAATTTT-ATTTTATTTT
33902611 ATTTTTTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
23 9 0.45
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (22 bp):
TCAAAAAATTTTATTTTATTTT
Found at i:33912728 original size:40 final size:40
Alignment explanation
Indices: 33912687--33912881 Score: 268
Period size: 40 Copynumber: 4.9 Consensus size: 40
33912677 ACACAGACAA
* * *
33912687 AAGCTCATAAGAGCTAATCCAATCGAAACACGCCAAACAA
1 AAGCTCATAAGAGCTGATCCAATCGAAACACGCCAAATAG
*
33912727 AAGCTCATAAGAGCTGATCCAA-CTGAAACATGCCAAATAG
1 AAGCTCATAAGAGCTGATCCAATC-GAAACACGCCAAATAG
*
33912767 AAGCTCATAAGAGTTGATCCAATCGAAACA-GACCAAATAG
1 AAGCTCATAAGAGCTGATCCAATCGAAACACG-CCAAATAG
* *
33912807 AAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAATAG
1 AAGCTCATAAGAGCTGATCCAATCGAAACACGCCAAATAG
** *
33912847 AAGCTCATAATCGCTGATCCAGTCGAAACACGCCA
1 AAGCTCATAAGAGCTGATCCAATCGAAACACGCCA
33912882 CACAGAATGA
Statistics
Matches: 138, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.01
40 134 0.97
41 2 0.01
ACGTcount: A:0.43, C:0.26, G:0.16, T:0.15
Consensus pattern (40 bp):
AAGCTCATAAGAGCTGATCCAATCGAAACACGCCAAATAG
Found at i:33914585 original size:40 final size:40
Alignment explanation
Indices: 33914526--33914686 Score: 225
Period size: 40 Copynumber: 4.0 Consensus size: 40
33914516 GGATCACATC
*
33914526 ACAGAAGCTCACAAGAGCTGATCCAATCGAAACACACCAA
1 ACAGAAGCTCATAAGAGCTGATCCAATCGAAACACACCAA
* * **
33914566 ACAAAAGCTCATAAGAGCTGATCC-AGCTGAAACACGTCAA
1 ACAGAAGCTCATAAGAGCTGATCCAATC-GAAACACACCAA
*
33914606 ACAGAAGCTCATAAGAGCTTATCCAATCGAAACACACCAA
1 ACAGAAGCTCATAAGAGCTGATCCAATCGAAACACACCAA
* * *
33914646 ATAGAAGCTCATAAGAGCTTATCCAATCGAAACACGCCAA
1 ACAGAAGCTCATAAGAGCTGATCCAATCGAAACACACCAA
33914686 A
1 A
33914687 AGAGAGTATA
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.02
40 103 0.96
41 2 0.02
ACGTcount: A:0.44, C:0.27, G:0.15, T:0.14
Consensus pattern (40 bp):
ACAGAAGCTCATAAGAGCTGATCCAATCGAAACACACCAA
Found at i:33915275 original size:20 final size:20
Alignment explanation
Indices: 33915247--33915291 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33915237 TAATGTGTCT
*
33915247 TGTCCTAACCGAATTAATTG
1 TGTCTTAACCGAATTAATTG
**
33915267 TGTCTTAACTTAATTAATTG
1 TGTCTTAACCGAATTAATTG
33915287 TGTCT
1 TGTCT
33915292 AGTTTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (20 bp):
TGTCTTAACCGAATTAATTG
Found at i:33916218 original size:23 final size:21
Alignment explanation
Indices: 33916183--33916251 Score: 66
Period size: 23 Copynumber: 3.1 Consensus size: 21
33916173 AGCCATTTTG
*
33916183 AACCATTTCGTACCAAAAACCA
1 AACCATTTTGTACC-AAAACCA
* *
33916205 ATACCATTTTGTACCTACATCCA
1 A-ACCATTTTGTACC-AAAACCA
*
33916228 AACCCAATTTGTACCAAAACCA
1 AA-CCATTTTGTACCAAAACCA
33916250 AA
1 AA
33916252 AACCTTTCCA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 9 0.24
23 29 0.76
ACGTcount: A:0.42, C:0.30, G:0.04, T:0.23
Consensus pattern (21 bp):
AACCATTTTGTACCAAAACCA
Found at i:33924145 original size:20 final size:20
Alignment explanation
Indices: 33924122--33924186 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
33924112 TGCATGCAGT
*
33924122 CAGGAGCACCGAAGTGCAAA
1 CAGGGGCACCGAAGTGCAAA
* * **
33924142 CAGGGGCACAGATGTGTGAA
1 CAGGGGCACCGAAGTGCAAA
* *
33924162 TAGGGGCACCAAAGTGCAAA
1 CAGGGGCACCGAAGTGCAAA
33924182 CAGGG
1 CAGGG
33924187 ACATCGAAAT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.20, G:0.35, T:0.09
Consensus pattern (20 bp):
CAGGGGCACCGAAGTGCAAA
Found at i:33924207 original size:40 final size:41
Alignment explanation
Indices: 33924119--33924210 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 41
33924109 ACATGCATGC
* * * **
33924119 AGTCAGGAGCACCGAAGTGCAAACAGGGGCACAGATGTGTG
1 AGTCAGGGGCACCAAAGTGCAAACAGGGACACAGAAATGTG
*
33924160 AAT-AGGGGCACCAAAGTGCAAACAGGGACATC-GAAATGT-
1 AGTCAGGGGCACCAAAGTGCAAACAGGGACA-CAGAAATGTG
33924199 AGTCAGGGGCAC
1 AGTCAGGGGCAC
33924211 AGTTGCTCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
39 2 0.05
40 37 0.88
41 3 0.07
ACGTcount: A:0.35, C:0.20, G:0.34, T:0.12
Consensus pattern (41 bp):
AGTCAGGGGCACCAAAGTGCAAACAGGGACACAGAAATGTG
Found at i:33930373 original size:102 final size:102
Alignment explanation
Indices: 33930197--33930394 Score: 351
Period size: 102 Copynumber: 1.9 Consensus size: 102
33930187 AAAGAACGTG
*
33930197 TTTTTTTGGGATAATCAGTGTCTGGAAAGTTTTGAGAAGTTGAAAGTCATGTTTATAGAAGTGCT
1 TTTTTTTGGGATAATCAGTGTCTGGAAAGTTTTGAGAAGTTGAAAGTCATGTTTACAGAAGTGCT
* *
33930262 GATCCTGACCTTTCTCGAATCAGGAAAGGAAAGTGTT
66 GATCCTGACCTTGCTCGAATCAAGAAAGGAAAGTGTT
* *
33930299 TTTTTTTTGGATAATCAGTGTTTGGAAAGTTTTGAGAAGTTGAAAGTCATGTTTACAGAAGTGCT
1 TTTTTTTGGGATAATCAGTGTCTGGAAAGTTTTGAGAAGTTGAAAGTCATGTTTACAGAAGTGCT
33930364 GATCCTGACCTTGCTCGAATCAAGAAAGGAA
66 GATCCTGACCTTGCTCGAATCAAGAAAGGAA
33930395 TTTATGGTAT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 91 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (102 bp):
TTTTTTTGGGATAATCAGTGTCTGGAAAGTTTTGAGAAGTTGAAAGTCATGTTTACAGAAGTGCT
GATCCTGACCTTGCTCGAATCAAGAAAGGAAAGTGTT
Found at i:33951946 original size:48 final size:49
Alignment explanation
Indices: 33951882--33951976 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
33951872 AAGGTGGAAG
* *
33951882 TATGTGACAGTTTATCTGC-ATTAAT-GTGACACTGTTCACAATTTTGAT
1 TATGTGACAGTATATCTGCGATT-ATGGTGACACTGTTCACAAATTTGAT
* * *
33951930 TATGTGGCAGTATATCTGCGATTTTGGTGCCACTGTTCACAAATTTG
1 TATGTGACAGTATATCTGCGATTATGGTGACACTGTTCACAAATTTG
33951977 GTGTGTTGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
48 18 0.45
49 22 0.55
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (49 bp):
TATGTGACAGTATATCTGCGATTATGGTGACACTGTTCACAAATTTGAT
Found at i:33957320 original size:49 final size:47
Alignment explanation
Indices: 33957209--33957691 Score: 799
Period size: 47 Copynumber: 10.1 Consensus size: 47
33957199 TATGAAATGA
33957209 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
33957256 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
33957305 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
33957352 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
33957401 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
33957450 TGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
33957496 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
33957543 TGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
33957589 TGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
* * * * * * * *
33957638 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
33957685 TGATAAG
1 TGATAAG
33957692 TCCCGAAGGG
Statistics
Matches: 416, Mismatches: 12, Indels: 16
0.94 0.03 0.04
Matches are distributed among these distances:
46 58 0.14
47 177 0.43
48 34 0.08
49 147 0.35
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:33957373 original size:96 final size:96
Alignment explanation
Indices: 33957209--33957691 Score: 802
Period size: 96 Copynumber: 5.1 Consensus size: 96
33957199 TATGAAATGA
33957209 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
33957274 GATGTGATGAATGTGAAAGTGTATATATATG
66 GATGTGATGAATGTGAAAGTGTATATATATG
33957305 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
33957370 GATGTGATGAATGTGAAAGTGTATATATATG
66 GATGTGATGAATGTGAAAGTGTATATATATG
33957401 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
33957465 CCGATGTGATGAATGTGAAAGTG--TATATATG
64 CCGATGTGATGAATGTGAAAGTGTATATATATG
33957496 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
33957560 GATGTGATGAATGTGAAAGTG--TATATATG
66 GATGTGATGAATGTGAAAGTGTATATATATG
* * * * *
33957589 TGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
* * *
33957654 CCAACGTGATGGATGTGAAAGTGTATA-A-ATG
64 CCGATGTGATGAATGTGAAAGTGTATATATATG
33957685 TGATAAG
1 TGATAAG
33957692 TCCCGAAGGG
Statistics
Matches: 372, Mismatches: 8, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
93 92 0.25
95 58 0.16
96 173 0.47
97 35 0.09
98 14 0.04
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGTATATATATG
Found at i:33957866 original size:37 final size:37
Alignment explanation
Indices: 33957810--33957888 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
33957800 CCGAGCTCTA
* * * *
33957810 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
33957847 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33957884 AAGAC
1 AAGAC
33957889 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33960518 original size:3 final size:3
Alignment explanation
Indices: 33960510--33960557 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
33960500 AAGGGCTCAA
* * * *
33960510 ATT ATT ATT ATC ATT ATC ATT ACT ATT ATT ATT AAAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
33960556 AT
1 AT
33960558 CTTTTTTTAC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
3 34 0.94
4 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:33961046 original size:144 final size:149
Alignment explanation
Indices: 33960876--33961184 Score: 436
Period size: 144 Copynumber: 2.1 Consensus size: 149
33960866 GATCTTGGGA
*
33960876 ATTTTTTTTAAAAAAGGCAAAGTTTAGATTTTAAAAATAAAAAATAT-TTTTTTAGTCATTTCAA
1 ATTTTTTTAAAAAAAGGCAAAGTTTAGATTTTAAAAAT-AAAAATATGTTTTTTAGTCATTTCAA
* *
33960940 AGG-AAATTTTAAA-ATTTTAAAACAAAGTTATGAT-TTTTTTAACTATTTCGAAATAAAAGCTT
65 AGGAAAAATTTAAATATTTTAAAACAAAGTTATGATCTTTTTCAACTATTTCGAAATAAAA-CTT
33961002 TGA-TTTTAAA-AAAATAAT-
129 TGATTTTTAAAGAAAATAATG
* **
33961020 ATTTTTTTAAAAAAAGAG-AAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATTTTTA
1 ATTTTTTTAAAAAAAG-GCAAAGTTTAGATTTTAAAAATAAAAATATGTTTTTTAGTCATTTCAA
* *
33961084 AGGAAAAATTTAAATTTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAACTTT
65 AGGAAAAATTTAAATATTTTAAAACAAAGTTATGATCTTTTTCAACTATTTCGAAATAAAACTTT
* *
33961149 GATTTTTAAAGAAAGTAGTG
130 GATTTTTAAAGAAAATAATG
33961169 ATTTTTTTAAAGAAAA
1 ATTTTTTTAAA-AAAA
33961185 CTTCGATTCT
Statistics
Matches: 146, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
143 8 0.05
144 52 0.36
145 10 0.07
146 25 0.17
147 30 0.21
148 6 0.04
149 11 0.08
150 4 0.03
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (149 bp):
ATTTTTTTAAAAAAAGGCAAAGTTTAGATTTTAAAAATAAAAATATGTTTTTTAGTCATTTCAAA
GGAAAAATTTAAATATTTTAAAACAAAGTTATGATCTTTTTCAACTATTTCGAAATAAAACTTTG
ATTTTTAAAGAAAATAATG
Found at i:33980057 original size:25 final size:25
Alignment explanation
Indices: 33980029--33980210 Score: 217
Period size: 25 Copynumber: 7.4 Consensus size: 25
33980019 GGAGTTTAGT
*
33980029 GTGCTATCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
* *
33980054 GTGCTTTCTAATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
*
33980079 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATCA
*
33980104 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATCA
* * * * *
33980129 GTGTTCTCTAATTACTAGCACGTTA
1 GTGCTCTCTGATTATTAGCACATCA
**
33980154 GTGCTCTCTGATTATTAGCACATTG
1 GTGCTCTCTGATTATTAGCACATCA
* *
33980179 GTGCTCTCCG--T-TTAGCACATCT
1 GTGCTCTCTGATTATTAGCACATCA
33980201 GTGCTCTCTG
1 GTGCTCTCTG
33980211 TATAACACTT
Statistics
Matches: 139, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
22 18 0.13
23 1 0.01
25 120 0.86
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCA
Found at i:33980196 original size:22 final size:21
Alignment explanation
Indices: 33980144--33980236 Score: 78
Period size: 22 Copynumber: 4.1 Consensus size: 21
33980134 CTCTAATTAC
*
33980144 TAGCACGTTAGTGCTCTCTGATTAT
1 TAGCACATT-GTGCTCTCTG--T-T
*
33980169 TAGCACATTGGTGCTCTCCGTT
1 TAGCACATT-GTGCTCTCTGTT
*
33980191 TAGCACATCTGTGCTCTCTGTA
1 TAGCACAT-TGTGCTCTCTGTT
* *
33980213 TAACACTTTAGTGCTCTCTGTT
1 TAGCACATT-GTGCTCTCTGTT
33980235 TA
1 TA
33980237 ATAGTGCATA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
21 1 0.02
22 38 0.66
23 2 0.03
25 17 0.29
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (21 bp):
TAGCACATTGTGCTCTCTGTT
Found at i:33980632 original size:45 final size:45
Alignment explanation
Indices: 33980568--33980732 Score: 204
Period size: 45 Copynumber: 3.6 Consensus size: 45
33980558 ATCCATGATA
*
33980568 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGATATTGTTAATT
1 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGATATCGTTAATT
* *
33980613 ATAAAGATGGTTGCTATGTGTTGATTCCACCGGATATCGTTATTT
1 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGATATCGTTAATT
* * * * *
33980658 ATAAAGGTGGTTGATATGTGCTGATTTCACCGGATATCATTGATT
1 ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGATATCGTTAATT
* * * * *
33980703 ACAAAGGGTGATTGCTGTGTGCTGAATCCA
1 ATAAA-GGTGGTTGCTATGTGTTGATTCCA
33980733 TCGTGTATCT
Statistics
Matches: 103, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 84 0.82
46 19 0.18
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (45 bp):
ATAAAGGTGGTTGCTATGTGTTGATTCCACCGGATATCGTTAATT
Found at i:33982625 original size:24 final size:24
Alignment explanation
Indices: 33982598--33982650 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
33982588 GAATACCACA
*
33982598 AAAGGACATATCAAAATATGCCAT
1 AAAGGACAGATCAAAATATGCCAT
* * * *
33982622 AAAGGCCAGATTAGAGTATGCCAT
1 AAAGGACAGATCAAAATATGCCAT
33982646 AAAGG
1 AAAGG
33982651 CTAGCAGAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (24 bp):
AAAGGACAGATCAAAATATGCCAT
Found at i:33984314 original size:15 final size:16
Alignment explanation
Indices: 33984282--33984315 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33984272 AGTTCATCTC
*
33984282 ATTTGCATTTAGGTTA
1 ATTTGCATCTAGGTTA
33984298 ATTTGCATCTA-GTTA
1 ATTTGCATCTAGGTTA
33984313 ATT
1 ATT
33984316 AATTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (16 bp):
ATTTGCATCTAGGTTA
Found at i:33988732 original size:39 final size:39
Alignment explanation
Indices: 33988664--33988836 Score: 195
Period size: 39 Copynumber: 4.4 Consensus size: 39
33988654 CAATTATACT
* *
33988664 TGATCGCACATACGTGCCCTTGGTT-TACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCT-GTTGTACTTCGGTACCCC
* * * *
33988703 TGATTGCACATAGGTGCCCCTGTTGTACTTTGGAACCCT
1 TGATTGCACATACGTGCCCCTGTTGTACTTCGGTACCCC
* * * *
33988742 TGATCGCACATACGTGCCCCTGTTGTATTTTGGTATCCC
1 TGATTGCACATACGTGCCCCTGTTGTACTTCGGTACCCC
* * **
33988781 TGGTTGCACATACGTGCCCCTGTTGTACTTCAGTACCTT
1 TGATTGCACATACGTGCCCCTGTTGTACTTCGGTACCCC
*
33988820 TGATTGCACTTACGTGC
1 TGATTGCACATACGTGC
33988837 TTTGTTAACA
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
38 3 0.03
39 108 0.97
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.34
Consensus pattern (39 bp):
TGATTGCACATACGTGCCCCTGTTGTACTTCGGTACCCC
Found at i:33988791 original size:78 final size:78
Alignment explanation
Indices: 33988662--33988810 Score: 228
Period size: 78 Copynumber: 1.9 Consensus size: 78
33988652 TGCAATTATA
* *
33988662 CTTGATCGCACATACGTGCCCTTGGTTTACTTCGGTACCCCTGATTGCACATAGGTGCCCCTGTT
1 CTTGATCGCACATACGTGCCCCTGGTTTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTT
33988727 GTACTTTGGAACC
66 GTACTTTGGAACC
* * * *
33988740 CTTGATCGCACATACGTGCCCCT-GTTGTATTTTGGTATCCCTGGTTGCACATACGTGCCCCTGT
1 CTTGATCGCACATACGTGCCCCTGGTT-TACTTCGGTACCCCTGATTGCACATACGTGCCCCTGT
33988804 TGTACTT
65 TGTACTT
33988811 CAGTACCTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
77 3 0.05
78 61 0.95
ACGTcount: A:0.15, C:0.29, G:0.21, T:0.34
Consensus pattern (78 bp):
CTTGATCGCACATACGTGCCCCTGGTTTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTT
GTACTTTGGAACC
Found at i:33988823 original size:78 final size:78
Alignment explanation
Indices: 33988662--33988836 Score: 226
Period size: 78 Copynumber: 2.2 Consensus size: 78
33988652 TGCAATTATA
* *
33988662 CTTGATCGCACATACGTGCCCTTGGTTTACTTCGGTACCCCTGATTGCACATAGGTGCCCCTGTT
1 CTTGATCGCACATACGTGCCCCTGGTTTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTT
**
33988727 GTACTTTGGAACC
66 GTACTTCAGAACC
* * * *
33988740 CTTGATCGCACATACGTGCCCCT-GTTGTATTTTGGTATCCCTGGTTGCACATACGTGCCCCTGT
1 CTTGATCGCACATACGTGCCCCTGGTT-TACTTCGGTACCCCTGATTGCACATACGTGCCCCTGT
*
33988804 TGTACTTCAGTACC
65 TGTACTTCAGAACC
* * *
33988818 TTTGATTGCACTTACGTGC
1 CTTGATCGCACATACGTGC
33988837 TTTGTTAACA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
77 3 0.04
78 81 0.96
ACGTcount: A:0.16, C:0.29, G:0.21, T:0.34
Consensus pattern (78 bp):
CTTGATCGCACATACGTGCCCCTGGTTTACTTCGGTACCCCTGATTGCACATACGTGCCCCTGTT
GTACTTCAGAACC
Found at i:34007930 original size:32 final size:32
Alignment explanation
Indices: 34007894--34007958 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
34007884 TATGTTACAT
34007894 AGTTATTTTTGTGCTTTAATTATTGTAGTGGG
1 AGTTATTTTTGTGCTTTAATTATTGTAGTGGG
34007926 AGTTATTTTTGTGCTTTAATTATTGTAGTGGG
1 AGTTATTTTTGTGCTTTAATTATTGTAGTGGG
34007958 A
1 A
34007959 CCATTGAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.52
Consensus pattern (32 bp):
AGTTATTTTTGTGCTTTAATTATTGTAGTGGG
Found at i:34038384 original size:29 final size:29
Alignment explanation
Indices: 34038321--34038388 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
34038311 TAATCAACCA
34038321 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
34038350 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
34038379 CGCACACTTA
1 CGCACACTTA
34038389 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:34038529 original size:29 final size:30
Alignment explanation
Indices: 34038490--34038568 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
34038480 CTTAATAATC
*
34038490 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTCA
*
34038520 AACTCGCACACTTAGTG-C-TGTACAATTCA
1 AACCCGCACACTTAGTGCCATGTAC-ATTCA
34038549 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
34038569 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTCA
Found at i:34046544 original size:29 final size:29
Alignment explanation
Indices: 34046481--34046548 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
34046471 TAATCAACCA
34046481 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
34046510 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
34046539 CGCACACTTA
1 CGCACACTTA
34046549 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:34046689 original size:29 final size:30
Alignment explanation
Indices: 34046650--34046728 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
34046640 CTTAATAATC
34046650 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
34046680 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
34046709 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
34046729 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:34048436 original size:26 final size:26
Alignment explanation
Indices: 34048406--34048456 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
34048396 ACACCAATAT
34048406 CGCAGCAAAGCTGCCAATAACAGTAA
1 CGCAGCAAAGCTGCCAATAACAGTAA
* *
34048432 CGCAGCAAAGCTGCCAGTAATAGTA
1 CGCAGCAAAGCTGCCAATAACAGTA
34048457 TATGTGGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.39, C:0.25, G:0.22, T:0.14
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAATAACAGTAA
Found at i:34048662 original size:27 final size:28
Alignment explanation
Indices: 34048631--34048880 Score: 155
Period size: 27 Copynumber: 9.2 Consensus size: 28
34048621 AGGGGTACAG
*
34048631 TCATTTTACCCTAT-GGGGGTTTTTCGA
1 TCATTTTACCCTATCGGGGGTATTTCGA
*
34048658 TCATTTTACCCT-TCGGGGGTATTTCGG
1 TCATTTTACCCTATCGGGGGTATTTCGA
*
34048685 TCATTTTACCC-ATCGAGGGTATTTCGA
1 TCATTTTACCCTATCGGGGGTATTTCGA
* ***
34048712 TCATTTTACTC-ATTAAGGGTATTTC-A
1 TCATTTTACCCTATCGGGGGTATTTCGA
* ** *
34048738 GTCATATTACCC-ATCGAAGGTATTT-TA
1 -TCATTTTACCCTATCGGGGGTATTTCGA
* * * * *
34048765 GTTATTTTAACC-ACCGAGGGTATTTTGA
1 -TCATTTTACCCTATCGGGGGTATTTCGA
* *
34048793 TCATTTTACCC-ATTGAGGGTATTTC-A
1 TCATTTTACCCTATCGGGGGTATTTCGA
*** *
34048819 GTCATTTTACCC-ATTTAGGGTATTTCGG
1 -TCATTTTACCCTATCGGGGGTATTTCGA
* * * *
34048847 TCATTTTACCC-GTCGAGAGTATTTCCA
1 TCATTTTACCCTATCGGGGGTATTTCGA
34048874 TCATTTT
1 TCATTTT
34048881 CCCACGAATC
Statistics
Matches: 185, Mismatches: 31, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
26 3 0.02
27 181 0.98
28 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (28 bp):
TCATTTTACCCTATCGGGGGTATTTCGA
Found at i:34048695 original size:54 final size:53
Alignment explanation
Indices: 34048630--34048880 Score: 240
Period size: 54 Copynumber: 4.7 Consensus size: 53
34048620 TAGGGGTACA
* * *
34048630 GTCATTTTACCCTAT-GGGGGTTTTTCGATCATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCC-ATCGAGGGTATTTCGATCATTTTACCCTT-GAGGGTATTTCG
* * *
34048684 GTCATTTTACCCATCGAGGGTATTTCGATCATTTTACTCATTAAGGGTATTTCA
1 GTCATTTTACCCATCGAGGGTATTTCGATCATTTTAC-CCTTGAGGGTATTTCG
* * * * * *
34048738 GTCATATTACCCATCGAAGGTATTT-TAGTTATTTTAACCAC-CGAGGGTATTTTG
1 GTCATTTTACCCATCGAGGGTATTTCGA-TCATTTT-ACC-CTTGAGGGTATTTCG
* * *
34048792 ATCATTTTACCCATTGAGGGTATTTC-AGTCATTTTACCCATTTAGGGTATTTCG
1 GTCATTTTACCCATCGAGGGTATTTCGA-TCATTTTACCC-TTGAGGGTATTTCG
* * *
34048846 GTCATTTTACCCGTCGAGAGTATTTCCATCATTTT
1 GTCATTTTACCCATCGAGGGTATTTCGATCATTTT
34048881 CCCACGAATC
Statistics
Matches: 161, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
52 1 0.01
53 6 0.04
54 148 0.92
55 6 0.04
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.41
Consensus pattern (53 bp):
GTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCTTGAGGGTATTTCG
Found at i:34048760 original size:81 final size:81
Alignment explanation
Indices: 34048675--34048884 Score: 278
Period size: 81 Copynumber: 2.6 Consensus size: 81
34048665 ACCCTTCGGG
*
34048675 GGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACTCATTAAGGGTATTTCAGT
1 GGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCATTAAGGGTATTTCAGT
34048740 CATATTACCCATCGAA
66 CATATTACCCATCGAA
** * * * * *
34048756 GGTATTTTAGTTATTTTAACCACCGAGGGTATTTTGATCATTTTACCCATTGAGGGTATTTCAGT
1 GGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCATTAAGGGTATTTCAGT
* ** *
34048821 CATTTTACCCATTTAG
66 CATATTACCCATCGAA
* * *
34048837 GGTATTTCGGTCATTTTACCCGTCGAGAGTATTTCCATCATTTT-CCCA
1 GGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCA
34048885 CGAATCGCAA
Statistics
Matches: 108, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
80 4 0.04
81 104 0.96
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (81 bp):
GGTATTTCGGTCATTTTACCCATCGAGGGTATTTCGATCATTTTACCCATTAAGGGTATTTCAGT
CATATTACCCATCGAA
Found at i:34054332 original size:32 final size:32
Alignment explanation
Indices: 34054296--34054424 Score: 117
Period size: 32 Copynumber: 4.1 Consensus size: 32
34054286 TTATTTAGTT
34054296 CTCTTAGTTTAAAATCTTAGTTTTTAATCACC
1 CTCTTAGTTTAAAATCTTAGTTTTTAATCACC
*** *
34054328 CTCTTCA-AACAAAATATT--TTTTT--TCACC
1 CTCTT-AGTTTAAAATCTTAGTTTTTAATCACC
* *
34054356 CAAGTAATTATTTTAAAATCTTAG-TTTTAATCACC
1 C---T-CTTAGTTTAAAATCTTAGTTTTTAATCACC
34054391 CTCTTAGTTTAAAATCTTAGTTTTTAATCACC
1 CTCTTAGTTTAAAATCTTAGTTTTTAATCACC
34054423 CT
1 CT
34054425 TTTCAAACAA
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
28 6 0.08
30 5 0.07
31 18 0.24
32 35 0.47
33 5 0.07
35 6 0.08
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.45
Consensus pattern (32 bp):
CTCTTAGTTTAAAATCTTAGTTTTTAATCACC
Found at i:34054437 original size:32 final size:32
Alignment explanation
Indices: 34054370--34054445 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
34054360 TAATTATTTT
***
34054370 AAAATCTTAG-TTTTAATCACCCTCTTAGTTT
1 AAAATCTTAGTTTTTAATCACCCTCTTAGAAC
*
34054401 AAAATCTTAGTTTTTAATCACCCTTTTCA-AAC
1 AAAATCTTAGTTTTTAATCACCCTCTT-AGAAC
34054433 AAAATCTTAGTTT
1 AAAATCTTAGTTT
34054446 AAAATCTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
31 10 0.26
32 28 0.72
33 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.43
Consensus pattern (32 bp):
AAAATCTTAGTTTTTAATCACCCTCTTAGAAC
Found at i:34058504 original size:3 final size:3
Alignment explanation
Indices: 34058496--34058548 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
34058486 CTCTATGGGA
* *
34058496 TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
34058544 TCT TC
1 TCT TC
34058549 AGGATCCTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:34060192 original size:15 final size:15
Alignment explanation
Indices: 34060172--34060204 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
34060162 TATAAAGCTG
34060172 ATAAT-AATATATATT
1 ATAATAAATATA-ATT
34060187 ATAATAAATATAATT
1 ATAATAAATATAATT
34060202 ATA
1 ATA
34060205 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:34060327 original size:30 final size:29
Alignment explanation
Indices: 34060270--34060327 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
34060260 GTCTTTTGAA
* *
34060270 AATATTTACAAAAAGAGACATCTAATTTG
1 AATATTTACAAAAAAAGACATCAAATTTG
34060299 AATATTTACAAAAAAA-AGCAATCAAATTT
1 AATATTTACAAAAAAAGA-C-ATCAAATTT
34060328 TGAAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 16 0.64
30 8 0.32
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.29
Consensus pattern (29 bp):
AATATTTACAAAAAAAGACATCAAATTTG
Found at i:34078165 original size:29 final size:29
Alignment explanation
Indices: 34078124--34078402 Score: 158
Period size: 29 Copynumber: 9.6 Consensus size: 29
34078114 ACCAATGGTT
* * *
34078124 GAAGCCATCCCTTTTCACATTCGATAGCC
1 GAAGCTATCCCTTTTCATATTCGATAGTC
* *
34078153 GAAGCTATCCCTTTTCATACTCGATGGTC
1 GAAGCTATCCCTTTTCATATTCGATAGTC
*
34078182 -ATCAGC-ATCCCTTTTCATAGTT-GATGGTC
1 GA--AGCTATCCCTTTTCATA-TTCGATAGTC
* * * *
34078211 GTCA-CCATCCCTTTTCATAATCGATAGCC
1 G-AAGCTATCCCTTTTCATATTCGATAGTC
* * *
34078240 GAAGCTATCCTTTTTCATAATTCGATAATT
1 GAAGCTATCCCTTTTCAT-ATTCGATAGTC
* * * *
34078270 GAAGTTATCCCTTTTCATAATTTGGTGGTC
1 GAAGCTATCCCTTTTCAT-ATTCGATAGTC
* * * * *
34078300 GTCA-CCATCGCTTTTCATAGTCGATGGTC
1 G-AAGCTATCCCTTTTCATATTCGATAGTC
* * * * *
34078329 GTCA-CCATCCC-TTACATAATCGATAGCC
1 G-AAGCTATCCCTTTTCATATTCGATAGTC
* *
34078357 AAAGCTATCCCTTTTCATGATTCGATAGCC
1 GAAGCTATCCCTTTTCAT-ATTCGATAGTC
*
34078387 GAAGCTATCCCCTTTC
1 GAAGCTATCCCTTTTC
34078403 CTTGATCGAT
Statistics
Matches: 194, Mismatches: 43, Indels: 25
0.74 0.16 0.10
Matches are distributed among these distances:
27 1 0.01
28 23 0.12
29 99 0.51
30 70 0.36
31 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (29 bp):
GAAGCTATCCCTTTTCATATTCGATAGTC
Found at i:34078356 original size:117 final size:117
Alignment explanation
Indices: 34078125--34078402 Score: 344
Period size: 117 Copynumber: 2.4 Consensus size: 117
34078115 CCAATGGTTG
* * *** *
34078125 AAGCCATCCCTTTTCA-CATTCGATAGCCGAAGCTATCCCTTTTCATACTCGATGGTCATCAGCA
1 AAGCTATCCCTTTTCATAATTCGATAATTGAAGCTATCCCTTTTCATACTCGATGGTCATCACCA
* * *
34078189 TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCG
66 TCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTACATAATCGATAGCCA
* * * * * *
34078241 AAGCTATCCTTTTTCATAATTCGATAATTGAAGTTATCCCTTTTCATAATTTGGTGGTCGTCACC
1 AAGCTATCCCTTTTCATAATTCGATAATTGAAGCTATCCCTTTTCAT-ACTCGATGGTCATCACC
*
34078306 ATCGCTTTTCATAGTCGATGGTCGTCACCATCCC-TTACATAATCGATAGCCA
65 ATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTACATAATCGATAGCCA
* *** *
34078358 AAGCTATCCCTTTTCATGATTCGATAGCCGAAGCTATCCCCTTTC
1 AAGCTATCCCTTTTCATAATTCGATAATTGAAGCTATCCCTTTTC
34078403 CTTGATCGAT
Statistics
Matches: 137, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
116 14 0.10
117 79 0.58
118 44 0.32
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (117 bp):
AAGCTATCCCTTTTCATAATTCGATAATTGAAGCTATCCCTTTTCATACTCGATGGTCATCACCA
TCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTACATAATCGATAGCCA
Found at i:34078366 original size:28 final size:30
Alignment explanation
Indices: 34078335--34078397 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
34078325 GGTCGTCACC
34078335 ATCCC-TTACAT-AATCGATAGCCAAAGCT
1 ATCCCTTTACATGAATCGATAGCCAAAGCT
* * *
34078363 ATCCCTTTTCATGATTCGATAGCCGAAGCT
1 ATCCCTTTACATGAATCGATAGCCAAAGCT
34078393 ATCCC
1 ATCCC
34078398 CTTTCCTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 5 0.17
30 20 0.67
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.29
Consensus pattern (30 bp):
ATCCCTTTACATGAATCGATAGCCAAAGCT
Found at i:34078412 original size:30 final size:29
Alignment explanation
Indices: 34078347--34078412 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
34078337 CCCTTACATA
*
34078347 ATCGATAGCCAAAGCTATCCCTTTTCATG
1 ATCGATAGCCAAAGCTATCCCTTTCCATG
* *
34078376 ATTCGATAGCCGAAGCTATCCCCTTTCCTTG
1 A-TCGATAGCCAAAGCTAT-CCCTTTCCATG
34078407 ATCGAT
1 ATCGAT
34078413 GATCATCGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 1 0.03
30 21 0.66
31 10 0.31
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (29 bp):
ATCGATAGCCAAAGCTATCCCTTTCCATG
Found at i:34080680 original size:29 final size:29
Alignment explanation
Indices: 34080644--34080808 Score: 215
Period size: 29 Copynumber: 5.7 Consensus size: 29
34080634 AGATAACCAT
*
34080644 AAAGGCATCCTTTTAACAGATATAGCCAC
1 AAAGGCATCCTTTTAACAGAAATAGCCAC
* * *
34080673 AAAAGCATCCTTTTAATAGAGATAGACC-C
1 AAAGGCATCCTTTTAACAGAAATAG-CCAC
*
34080702 AAAGGCATCCTTTTAACAGAAATCGCCAC
1 AAAGGCATCCTTTTAACAGAAATAGCCAC
* * * *
34080731 AAAGGCTTCCTTTTAATAGAGATAGACAC
1 AAAGGCATCCTTTTAACAGAAATAGCCAC
*
34080760 AAAGGCATCCTTTTAACAGAAATCGCCAC
1 AAAGGCATCCTTTTAACAGAAATAGCCAC
*
34080789 AAAGGCTTCCTTTTAACAGA
1 AAAGGCATCCTTTTAACAGA
34080809 GATCACCGTA
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
28 2 0.02
29 112 0.97
30 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (29 bp):
AAAGGCATCCTTTTAACAGAAATAGCCAC
Found at i:34080688 original size:58 final size:59
Alignment explanation
Indices: 34080626--34080811 Score: 281
Period size: 58 Copynumber: 3.2 Consensus size: 59
34080616 AAAACATTTA
* * * * *
34080626 TTTAACTA-AGATA-ACCATAAAGGCATCCTTTTAACAGATATAGCCACAAAAGCATCCT
1 TTTAA-TAGAGATAGACCACAAAGGCATCCTTTTAACAGAAATCGCCACAAAGGCTTCCT
34080684 TTTAATAGAGATAGACC-CAAAGGCATCCTTTTAACAGAAATCGCCACAAAGGCTTCCT
1 TTTAATAGAGATAGACCACAAAGGCATCCTTTTAACAGAAATCGCCACAAAGGCTTCCT
34080742 TTTAATAGAGATAGA-CACAAAGGCATCCTTTTAACAGAAATCGCCACAAAGGCTTCCT
1 TTTAATAGAGATAGACCACAAAGGCATCCTTTTAACAGAAATCGCCACAAAGGCTTCCT
*
34080800 TTTAACAGAGAT
1 TTTAATAGAGAT
34080812 CACCGTAAAA
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
57 3 0.03
58 113 0.95
59 3 0.03
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (59 bp):
TTTAATAGAGATAGACCACAAAGGCATCCTTTTAACAGAAATCGCCACAAAGGCTTCCT
Found at i:34080826 original size:87 final size:87
Alignment explanation
Indices: 34080651--34080830 Score: 227
Period size: 87 Copynumber: 2.1 Consensus size: 87
34080641 CATAAAGGCA
* * * *
34080651 TCCTTTTAACAGATATAGCCACAAAAGCATCCTTTTAATAGAGATAGACCCAAAGGCATCCTTTT
1 TCCTTTTAACAGAGATAGACACAAAAGCATCCTTTTAACAGAAATAGACCCAAAGGCATCCTTTT
* *
34080716 AACAGAAATCGCCACAAAGGCT
66 AACAGAAATCACCACAAAAGCT
* * * *
34080738 TCCTTTTAATAGAGATAGACACAAAGGCATCCTTTTAACAGAAATCG-CCACAAAGGCTTCCTTT
1 TCCTTTTAACAGAGATAGACACAAAAGCATCCTTTTAACAGAAATAGACC-CAAAGGCATCCTTT
* **
34080802 TAACAGAGATCACCGTAAAAGCT
65 TAACAGAAATCACCACAAAAGCT
34080825 TCCTTT
1 TCCTTT
34080831 ATTAGACATT
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 2 0.03
87 77 0.97
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (87 bp):
TCCTTTTAACAGAGATAGACACAAAAGCATCCTTTTAACAGAAATAGACCCAAAGGCATCCTTTT
AACAGAAATCACCACAAAAGCT
Found at i:34080830 original size:29 final size:29
Alignment explanation
Indices: 34080626--34080815 Score: 190
Period size: 29 Copynumber: 6.6 Consensus size: 29
34080616 AAAACATTTA
* *
34080626 TTTAACTA-AGATAACCATAAAGGCATCCT
1 TTTAAC-AGAGATCACCACAAAGGCATCCT
* *
34080655 TTTAACAGATAT-AGCCACAAAAGCATCCT
1 TTTAACAGAGATCA-CCACAAAGGCATCCT
* *
34080684 TTTAATAGAGATAGACC-CAAAGGCATCCT
1 TTTAACAGAGAT-CACCACAAAGGCATCCT
* * *
34080713 TTTAACAGAAATCGCCACAAAGGCTTCCT
1 TTTAACAGAGATCACCACAAAGGCATCCT
* *
34080742 TTTAATAGAGAT-AGACACAAAGGCATCCT
1 TTTAACAGAGATCA-CCACAAAGGCATCCT
* * *
34080771 TTTAACAGAAATCGCCACAAAGGCTTCCT
1 TTTAACAGAGATCACCACAAAGGCATCCT
34080800 TTTAACAGAGATCACC
1 TTTAACAGAGATCACC
34080816 GTAAAAGCTT
Statistics
Matches: 131, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
28 4 0.03
29 124 0.95
30 2 0.02
31 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (29 bp):
TTTAACAGAGATCACCACAAAGGCATCCT
Found at i:34085152 original size:42 final size:42
Alignment explanation
Indices: 34085105--34085246 Score: 176
Period size: 44 Copynumber: 3.3 Consensus size: 42
34085095 TTTTTCACAT
** * *
34085105 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTAGCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCAC
* *
34085147 AAACGCCACTAAAGAACATGATCTTTAGCGGCGCTTTTTACCAT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGC--TTTACCAC
* **
34085191 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTGATTAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTT-ACCAC
34085234 AAACGCCGCTAAA
1 AAACGCCGCTAAA
34085247 AGTACCGTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
42 33 0.38
43 15 0.17
44 38 0.44
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCAC
Found at i:34085198 original size:86 final size:87
Alignment explanation
Indices: 34085083--34085246 Score: 224
Period size: 86 Copynumber: 1.9 Consensus size: 87
34085073 ACGTCGCTAA
* * ** * *
34085083 CTTTTGCGGCGTTTTTTCACATAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTT-AGCAC
1 CTTTAGCGGCGTTTTTACACATAAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTGAGCAC
34085147 AAACGCCACTAAAGAACATGAT
66 AAACGCCACTAAAGAACATGAT
**
34085169 CTTTAGCGGCGCTTTTTAC-CATAAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTGATTA
1 CTTTAGCGGCG-TTTTTACACATAAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTGAGCA
*
34085233 CAAACGCCGCTAAA
65 CAAACGCCACTAAA
34085247 AGTACCGTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
86 46 0.69
87 21 0.31
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (87 bp):
CTTTAGCGGCGTTTTTACACATAAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTGAGCAC
AAACGCCACTAAAGAACATGAT
Found at i:34085207 original size:44 final size:44
Alignment explanation
Indices: 34085083--34085227 Score: 179
Period size: 44 Copynumber: 3.3 Consensus size: 44
34085073 ACGTCGCTAA
* * ** *
34085083 CTTTTGCGGCG-TTTTTTCACATAAACGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTTTTTAC-CATAAACGCCGCTAAAGAACATGAT
* * *
34085127 CTTTAGCGGCGC--TTTAGCACAAACGCCACTAAAGAACATGAT
1 CTTTAGCGGCGCTTTTTACCATAAACGCCGCTAAAGAACATGAT
34085169 CTTTAGCGGCGCTTTTTACCATAAACGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGCTTTTTACCATAAACGCCGCTAAAGAACATGAT
*
34085213 CTTTAGCGACGCTTT
1 CTTTAGCGGCGCTTT
34085228 GATTACAAAC
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
42 32 0.37
43 3 0.03
44 51 0.59
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTTAGCGGCGCTTTTTACCATAAACGCCGCTAAAGAACATGAT
Found at i:34085334 original size:16 final size:16
Alignment explanation
Indices: 34085315--34085348 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34085305 AAATATTAAA
*
34085315 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
34085331 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
34085347 TA
1 TA
34085349 ATTAGTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:34087180 original size:7 final size:7
Alignment explanation
Indices: 34087168--34087198 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
34087158 ACTCTTCATG
34087168 TCATATA
1 TCATATA
34087175 TCATATA
1 TCATATA
34087182 TCATATA
1 TCATATA
34087189 TCATATA
1 TCATATA
34087196 TCA
1 TCA
34087199 GATACTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (7 bp):
TCATATA
Found at i:34087899 original size:13 final size:13
Alignment explanation
Indices: 34087881--34087913 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
34087871 ATAAACGAAT
34087881 CCACTTCATGCAC
1 CCACTTCATGCAC
*
34087894 CCACTTCATGTAC
1 CCACTTCATGCAC
34087907 CCACTTC
1 CCACTTC
34087914 TGTACAAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.45, G:0.06, T:0.27
Consensus pattern (13 bp):
CCACTTCATGCAC
Found at i:34089852 original size:16 final size:16
Alignment explanation
Indices: 34089827--34089858 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34089817 ACACTTAACC
*
34089827 ATTTTTAAAATTTGGG
1 ATTTTGAAAATTTGGG
34089843 ATTTTGAAAATTTGGG
1 ATTTTGAAAATTTGGG
34089859 GATAATATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (16 bp):
ATTTTGAAAATTTGGG
Found at i:34090603 original size:15 final size:15
Alignment explanation
Indices: 34090560--34090622 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
34090550 CCTTAAATCG
*
34090560 TAAA-TCATAAACCA
1 TAAACTCATAATCCA
*
34090574 TAAA-TCATGAA-CCC
1 TAAACTCAT-AATCCA
*
34090588 TAAACTCATAATCCC
1 TAAACTCATAATCCA
*
34090603 TAAACCCATAATCCA
1 TAAACTCATAATCCA
34090618 TAAAC
1 TAAAC
34090623 CTTAAAATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
14 16 0.37
15 27 0.63
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
TAAACTCATAATCCA
Found at i:34090840 original size:14 final size:14
Alignment explanation
Indices: 34090821--34090870 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
34090811 AACCCTAAAT
34090821 CCCTAACTCTTAAC
1 CCCTAACTCTTAAC
34090835 CCCTAACATC-TAAC
1 CCCTAAC-TCTTAAC
*
34090849 CCCTAAACCCTTAAC
1 CCCT-AACTCTTAAC
*
34090864 CTCTAAC
1 CCCTAAC
34090871 CCCTAAACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAACTCTTAAC
Found at i:34090857 original size:22 final size:22
Alignment explanation
Indices: 34090832--34090879 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
34090822 CCTAACTCTT
34090832 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACATCTAACCCCTA
* *
34090854 AACCCTTAACCTCTAACCCCTA
1 AACCCCTAACATCTAACCCCTA
34090876 AACC
1 AACC
34090880 TTAAATCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (22 bp):
AACCCCTAACATCTAACCCCTA
Found at i:34090871 original size:14 final size:14
Alignment explanation
Indices: 34090811--34090872 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
34090801 TAAATCCTTA
* *
34090811 AACCCTAAATCCCT
1 AACCCTTAACCCCT
*
34090825 AACTCTTAACCCCT
1 AACCCTTAACCCCT
*
34090839 AA-CATCTAACCCCT
1 AACCCT-TAACCCCT
*
34090853 AAACCCTTAACCTCT
1 -AACCCTTAACCCCT
34090868 AACCC
1 AACCC
34090873 CTAAACCTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 1 0.03
14 26 0.68
15 9 0.24
16 2 0.05
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:34091322 original size:41 final size:41
Alignment explanation
Indices: 34091277--34091560 Score: 259
Period size: 41 Copynumber: 6.8 Consensus size: 41
34091267 TAAAATGTTT
* * *
34091277 TTAGCGGCGCTTTTTTAAAAATGCCGCTAAA-ACACAAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGA-ACCAAGCA
* * * * **
34091318 TTAGCGGCACATTTT-AAAAACACCACTAAAGCCCCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGAACCAAGCA
** *
34091358 TTAGCGGTACTTTCTCAAAAACGCCGCTAATGCGTTAAAGAACCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACG-C-C----GC--TAAAGAACCAAGCA
* * ** *
34091407 TTAGCGGCGCTTTCTCAAAAATGCCATTAAAGAACCAACCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGAACCAAGCA
* *
34091448 TT-GCGGCGCTTTCTCAAAAACGCCGCTAAAGAACCAACCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGAACCAAGCA
* * *
34091488 TTAGCGGCGCTTTTGCAAAAATGCCGCTAAAGAACCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGAACCAAGCA
*
34091529 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAG
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAG
34091561 CCTCGAGCAT
Statistics
Matches: 200, Mismatches: 32, Indels: 22
0.79 0.13 0.09
Matches are distributed among these distances:
40 67 0.34
41 96 0.48
42 1 0.00
43 1 0.00
47 2 0.01
48 1 0.00
49 32 0.16
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGAACCAAGCA
Found at i:34091514 original size:130 final size:130
Alignment explanation
Indices: 34091277--34091517 Score: 283
Period size: 130 Copynumber: 1.9 Consensus size: 130
34091267 TAAAATGTTT
* * * *
34091277 TTAGCGGCGCTTTTTTAAAAATGCCGCTAAAACACAAAGCATTAGCGGCACATTTTAAAAACACC
1 TTAGCGGCGCTTTCTCAAAAATGCCACTAAAACACAAACCATTAGCGGCACATTTTAAAAACACC
** * *
34091342 ACTAAAGCCCCAAGCATTAGCGGTACTTTCTCAAAAACGCCGCTAATGCGTTAAAGAACCAAGCA
66 ACTAAAGAACCAACCATTAGCGGCACTTTCTCAAAAACGCCGCTAATGCGTTAAAGAACCAAGCA
* * *
34091407 TTAGCGGCGCTTTCTCAAAAATGCCATTAAAGA-ACCAACCATT-GCGGCGC-TTTCTCAAAAAC
1 TTAGCGGCGCTTTCTCAAAAATGCCACTAAA-ACACAAACCATTAGCGGCACATTT-T-AAAAAC
* * * *
34091469 GCCGCTAAAGAACCAACCATTAGCGGCGCTTT-TGCAAAAATGCCGCTAA
63 ACCACTAAAGAACCAACCATTAGCGGCACTTTCT-CAAAAACGCCGCTAA
34091518 AGAACCCAGC
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
128 3 0.03
129 8 0.09
130 80 0.87
131 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (130 bp):
TTAGCGGCGCTTTCTCAAAAATGCCACTAAAACACAAACCATTAGCGGCACATTTTAAAAACACC
ACTAAAGAACCAACCATTAGCGGCACTTTCTCAAAAACGCCGCTAATGCGTTAAAGAACCAAGCA
Found at i:34091570 original size:41 final size:40
Alignment explanation
Indices: 34091393--34091605 Score: 178
Period size: 41 Copynumber: 5.2 Consensus size: 40
34091383 GCTAATGCGT
* * * * **
34091393 TAAAGAACCAAGCATTAGCGGCGCTTTCTCAAAAATGCCAT
1 TAAAG-ACCCAGCATTAGCGGCACTTTTTCAAAAACGCCGC
* * * *
34091434 TAAAGAACCAACCATT-GCGGCGCTTTCTCAAAAACGCCGC
1 TAAAG-ACCCAGCATTAGCGGCACTTTTTCAAAAACGCCGC
* * * * *
34091474 TAAAGAACCAACCATTAGCGGCGCTTTTGCAAAAATGCCGC
1 TAAAG-ACCCAGCATTAGCGGCACTTTTTCAAAAACGCCGC
34091515 TAAAGAACCCAGCATTAGCGGCACTTTTTCAAAAACGCCGC
1 TAAAG-ACCCAGCATTAGCGGCACTTTTTCAAAAACGCCGC
* ** **
34091556 TAAAG-CCTCGAGCATTAGCGACACTTTTTTGAAAACGCTAC
1 TAAAGACC-C-AGCATTAGCGGCACTTTTTCAAAAACGCCGC
34091597 TAAAGACCC
1 TAAAGACCC
34091606 GAAAGGTAAG
Statistics
Matches: 151, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
39 2 0.01
40 38 0.25
41 109 0.72
42 2 0.01
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (40 bp):
TAAAGACCCAGCATTAGCGGCACTTTTTCAAAAACGCCGC
Found at i:34091583 original size:82 final size:80
Alignment explanation
Indices: 34091393--34091560 Score: 246
Period size: 81 Copynumber: 2.1 Consensus size: 80
34091383 GCTAATGCGT
* *
34091393 TAAAGAACCAAGCATTAGCGGCGCTTTCTCAAAAATGCCATTAAAGAACCAACCATTGCGGCGCT
1 TAAAGAACCAAGCATTAGCGGCGCTTT-TCAAAAATGCCACTAAAGAACCAACCATTGCGGCACT
34091458 TTCTCAAAAACGCCGC
65 TTCTCAAAAACGCCGC
* * * *
34091474 TAAAGAACCAACCATTAGCGGCGCTTTTGCAAAAATGCCGCTAAAGAACCCAGCATTAGCGGCAC
1 TAAAGAACCAAGCATTAGCGGCGCTTTT-CAAAAATGCCACTAAAGAACCAACCATT-GCGGCAC
*
34091539 TTTTTCAAAAACGCCGC
64 TTTCTCAAAAACGCCGC
34091556 TAAAG
1 TAAAG
34091561 CCTCGAGCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 1 0.01
81 50 0.64
82 27 0.35
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (80 bp):
TAAAGAACCAAGCATTAGCGGCGCTTTTCAAAAATGCCACTAAAGAACCAACCATTGCGGCACTT
TCTCAAAAACGCCGC
Found at i:34091600 original size:82 final size:81
Alignment explanation
Indices: 34091393--34091602 Score: 199
Period size: 82 Copynumber: 2.6 Consensus size: 81
34091383 GCTAATGCGT
* * * * * *
34091393 TAAAGAACCAAGCATTAGCGGCGCTTTCT-CAAAAATGCCATTAAAGAACCAACCATTGCGGCGC
1 TAAAGAACCAACCATTAGCGACACTTT-TGCAAAAACGCCACTAAAGAACCAACCATTGCGGCAC
34091457 TTTCTCAAAAACGCCGC
65 TTTCTCAAAAACGCCGC
* * * * * *
34091474 TAAAGAACCAACCATTAGCGGCGCTTTTGCAAAAATGCCGCTAAAGAACCCAGCATTAGCGGCAC
1 TAAAGAACCAACCATTAGCGACACTTTTGCAAAAACGCCACTAAAGAACCAACCATT-GCGGCAC
*
34091539 TTTTTCAAAAACGCCGC
65 TTTCTCAAAAACGCCGC
* * * *** *
34091556 TAAAG-CCTCGAGCATTAGCGACACTTTTTTGAAAACGCTACTAAAGA
1 TAAAGAAC-CAACCATTAGCGACACTTTTGCAAAAACGCCACTAAAGA
34091603 CCCGAAAGGT
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 51 0.47
82 56 0.52
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.21
Consensus pattern (81 bp):
TAAAGAACCAACCATTAGCGACACTTTTGCAAAAACGCCACTAAAGAACCAACCATTGCGGCACT
TTCTCAAAAACGCCGC
Found at i:34092133 original size:106 final size:106
Alignment explanation
Indices: 34091948--34092174 Score: 445
Period size: 106 Copynumber: 2.1 Consensus size: 106
34091938 ACGACCTAAG
34091948 ACACGGGCGTGTGACTTAGCCGTGTGAGGCACATGGCCTGGCGACAGGATTGTGTGTCATCAAAT
1 ACACGGGCGTGTGACTTAGCCGTGTGAGGCACATGGCCTGGCGACAGGATTGTGTGTCATCAAAT
34092013 GATCTCCTGAAGGTTCAATTCAGTGAGTTACATGGCCTGGC
66 GATCTCCTGAAGGTTCAATTCAGTGAGTTACATGGCCTGGC
34092054 ACACGGGCGTGTGACTTAGCCGTGTGAGGCACATGGCCTGGCGACAGGATTGTGTGTCATCAAAT
1 ACACGGGCGTGTGACTTAGCCGTGTGAGGCACATGGCCTGGCGACAGGATTGTGTGTCATCAAAT
34092119 GATCTCCTGAAGGTTCAATTCAGTGAGTTACATGGCCTGGC
66 GATCTCCTGAAGGTTCAATTCAGTGAGTTACATGGCCTGGC
*
34092160 ACACGGGCATGTGAC
1 ACACGGGCGTGTGAC
34092175 ACGGTCGTGT
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 120 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (106 bp):
ACACGGGCGTGTGACTTAGCCGTGTGAGGCACATGGCCTGGCGACAGGATTGTGTGTCATCAAAT
GATCTCCTGAAGGTTCAATTCAGTGAGTTACATGGCCTGGC
Found at i:34095480 original size:34 final size:32
Alignment explanation
Indices: 34095426--34095528 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 32
34095416 CAACATGCAA
* * *
34095426 TAACAGTCTGAGCCTAAGCCCTATTCAGTAACAG
1 TAACAGTGTGGGCCTTAGCCC-A-TCAGTAACAG
*
34095460 TAACAGTGTGGGCGTTAGCCCA--A-T-ACAG
1 TAACAGTGTGGGCCTTAGCCCATCAGTAACAG
*
34095488 TAACAGTGTGGGCCTTAGCCCAATACAGTAATAG
1 TAACAGTGTGGGCCTTAGCCC-AT-CAGTAACAG
34095522 T-ACAGTG
1 TAACAGTG
34095529 CAATAATGCA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
28 24 0.42
29 2 0.04
30 1 0.02
32 1 0.02
33 8 0.14
34 21 0.37
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (32 bp):
TAACAGTGTGGGCCTTAGCCCATCAGTAACAG
Found at i:34095487 original size:28 final size:28
Alignment explanation
Indices: 34095456--34095518 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
34095446 CTATTCAGTA
*
34095456 ACAGTAACAGTGTGGGCGTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
34095484 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
34095512 ACAGTAA
1 ACAGTAA
34095519 TAGTACAGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:34095659 original size:26 final size:26
Alignment explanation
Indices: 34095625--34095705 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
34095615 AACACACCAA
* * * *
34095625 TATCGCAGCAAAGCTACCAATAATAG
1 TATCACAGCAAAGCTGCCAGTAACAG
*
34095651 TATCACAGCAAAGCTGCCAGTACCAG
1 TATCACAGCAAAGCTGCCAGTAACAG
34095677 TATCACAGCAAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
34095703 TAT
1 TAT
34095706 ATGTGGCAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAACAG
Found at i:34103127 original size:28 final size:28
Alignment explanation
Indices: 34103088--34103177 Score: 137
Period size: 28 Copynumber: 3.2 Consensus size: 28
34103078 CTATTCAGTA
34103088 ACAGT-ACAGTGTGGGCCATAGCCCAAT
1 ACAGTAACAGTGTGGGCCATAGCCCAAT
*
34103115 ACAGTAACAGTGTGGGCCATAGCCTAAT
1 ACAGTAACAGTGTGGGCCATAGCCCAAT
* * *
34103143 ATAGTAACAGTATGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCATAGCCCAAT
34103171 ACAGTAA
1 ACAGTAA
34103178 TAGTACAGTG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
27 5 0.09
28 51 0.91
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCATAGCCCAAT
Found at i:34104804 original size:26 final size:27
Alignment explanation
Indices: 34104770--34104837 Score: 84
Period size: 26 Copynumber: 2.5 Consensus size: 27
34104760 CAACACACCA
* * *
34104770 ATATCGTAGCAACGCTGCCATTAATAGT
1 ATAT-GTAGCAAAGCTGCCAGTAACAGT
34104798 AT-TGTAGCAAAGCTGCCAGTAACAGT
1 ATATGTAGCAAAGCTGCCAGTAACAGT
*
34104824 ATATGTGGCAAAGC
1 ATATGTAGCAAAGC
34104838 CATTAGTACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.63
27 11 0.31
28 2 0.06
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
ATATGTAGCAAAGCTGCCAGTAACAGT
Found at i:34105365 original size:20 final size:20
Alignment explanation
Indices: 34105319--34105366 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
34105309 TGGCTCATCT
*
34105319 CGGCCCAACATGGCCTATTA
1 CGGCCCAACATGGCCAATTA
*
34105339 CGACCCAACATGGCCAATTA
1 CGGCCCAACATGGCCAATTA
*
34105359 TGGCCCAA
1 CGGCCCAA
34105367 GCCCATGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (20 bp):
CGGCCCAACATGGCCAATTA
Found at i:34109648 original size:40 final size:40
Alignment explanation
Indices: 34109564--34109747 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
34109554 TTGAATGCTG
* * * *
34109564 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
34109603 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
34109644 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
34109684 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
34109724 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34109748 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:34109701 original size:80 final size:81
Alignment explanation
Indices: 34109564--34109744 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
34109554 TTGAATGCTG
* * *
34109564 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
34109628 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
34109644 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
34109705 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
34109724 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
34109745 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:34109768 original size:39 final size:38
Alignment explanation
Indices: 34109645--34109794 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
34109635 GTTATTAATT
* ** * *
34109645 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
34109685 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
34109724 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
34109764 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
34109795 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Done.