Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold3956.1
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: 90864
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.28
Warning! 11133 characters in sequence are not A, C, G, or T
Found at i:5145 original size:48 final size:48
Alignment explanation
Indices: 5085--5180 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
5075 ATAAATATCT
5085 CAAAATAAATAATTCCTTTCTTTGCTATGTTTCTTTTATATAAAAATA
1 CAAAATAAATAATTCCTTTCTTTGCTATGTTTCTTTTATATAAAAATA
* * * *
5133 CAAAATACATAATTTCTTTGTTTGCTATGTTTCTTTTATATGAAAATA
1 CAAAATAAATAATTCCTTTCTTTGCTATGTTTCTTTTATATAAAAATA
5181 GATTCAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.47
Consensus pattern (48 bp):
CAAAATAAATAATTCCTTTCTTTGCTATGTTTCTTTTATATAAAAATA
Found at i:5793 original size:133 final size:133
Alignment explanation
Indices: 5588--6452 Score: 1016
Period size: 133 Copynumber: 6.3 Consensus size: 133
5578 TTAACATGTA
* * * * * *
5588 TAACCGTGGCATATCCACTTAGGACCACGTTA-ATGAATCAATATATGTAACCGTGGCATATCCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
*
5652 TTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATGAATTAATAT
66 CTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATGAATTAATAT
5717 ATG
131 ATG
*
5720 TAACCATGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
* *
5785 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACATTAATGAATTAATAT
66 CTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATGAATTAATAT
5850 ATG
131 ATG
*
5853 TAACCATGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
* *
5918 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACATTAATGAATTAATAT
66 CTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATGAATTAATAT
5983 ATG
131 ATG
*
5986 TAACCATGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
* ** * *
6051 CTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAGCACCACGTTACAT
66 CTTAGCACCACG-T--T--A-C-ATGT-T-TAACCGTGGTATATCCACTTAGCACCACATTA-AT
* * *
6116 GTATCAATATGTG
121 GAATTAATATATG
* * * * * *
6129 TAATCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAAAT-GTGGCATATCC
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGT-AATCGTGGTATATCC
* *
6192 ACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAA
65 ACTTAGCACCACGTTACATG--------T-T-TAACCGTGGTATATCCACTTAGCACCACATTAA
*
6257 TGAATCAATATATG
120 TGAATTAATATATG
***
6271 TAAATGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
* ** * *
6336 CTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAGCACCACGTTACAT
66 CTTAGCACCACG-T--T--A-C-ATGT-T-TAACCGTGGTATATCCACTTAGCACCACATTA-AT
* * *
6401 GTATCAATATGTG
121 GAATTAATATATG
* * * *
6414 TAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTAT
6453 AACCGTGGTA
Statistics
Matches: 652, Mismatches: 51, Indels: 49
0.87 0.07 0.07
Matches are distributed among these distances:
132 29 0.04
133 303 0.46
134 1 0.00
135 2 0.00
136 2 0.00
137 1 0.00
138 1 0.00
139 2 0.00
140 2 0.00
141 1 0.00
142 142 0.22
143 160 0.25
144 1 0.00
146 1 0.00
148 1 0.00
149 1 0.00
150 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (133 bp):
TAACCATGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
CTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAATGAATTAATAT
ATG
Found at i:5823 original size:38 final size:38
Alignment explanation
Indices: 5772--5966 Score: 140
Period size: 38 Copynumber: 4.6 Consensus size: 38
5762 TATGTGTAAT
5772 CGTGGTATATCCACTTAGCACCACGTTACACGTATAAC
1 CGTGGTATATCCACTTAGCACCACGTTACACGTATAAC
**
5810 CGTGGTATATCCACTTAGCACCACATTAATGAATTA-ATATATGTAAC
1 CGTGGTATATCCACTTAGCACCAC------G--TTACACGTA--TAAC
* * * * *
5857 CATGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTGTAAT
1 CGTGGTATATCCACTTAGCACCACGTTAC----A-C-----GTATAAC
5905 CGTGGTATATCCACTTAGCACCACGTTACACGTATAAC
1 CGTGGTATATCCACTTAGCACCACGTTACACGTATAAC
5943 CGTGGTATATCCACTTAGCACCAC
1 CGTGGTATATCCACTTAGCACCAC
5967 ATTAATGAAT
Statistics
Matches: 122, Mismatches: 14, Indels: 42
0.69 0.08 0.24
Matches are distributed among these distances:
38 53 0.43
39 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 3 0.02
46 3 0.02
47 25 0.20
48 29 0.24
50 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (38 bp):
CGTGGTATATCCACTTAGCACCACGTTACACGTATAAC
Found at i:6106 original size:95 final size:95
Alignment explanation
Indices: 5943--6445 Score: 952
Period size: 95 Copynumber: 5.3 Consensus size: 95
5933 CACGTATAAC
* * ***
5943 CGTGGTATATCCACTTAGCACCACATTAATGAATTAATATATGTAACCATGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAG
*
6008 CACCATGTTACATGTATCAATATGTGTAAT
66 CACCACGTTACATGTATCAATATGTGTAAT
6038 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAG
6103 CACCACGTTACATGTATCAATATGTGTAAT
66 CACCACGTTACATGTATCAATATGTGTAAT
6133 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAG
6198 CACCACGTTACATGTATCAATATGTGTAAT
66 CACCACGTTACATGTATCAATATGTGTAAT
6228 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAG
6293 CACCACGTTACATGTATCAATATGTGTAAT
66 CACCACGTTACATGTATCAATATGTGTAAT
6323 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAG
6388 CACCACGTTACATGTATCAATATGTGTAAT
66 CACCACGTTACATGTATCAATATGTGTAAT
6418 CGTGGTATATCCACTTAGCACCACGTTA
1 CGTGGTATATCCACTTAGCACCACGTTA
6446 CACGTATAAC
Statistics
Matches: 402, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 402 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (95 bp):
CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATATCCACTTAG
CACCACGTTACATGTATCAATATGTGTAAT
Found at i:6188 original size:190 final size:190
Alignment explanation
Indices: 5583--6445 Score: 1167
Period size: 190 Copynumber: 4.7 Consensus size: 190
5573 TCAAATTAAC
* * * *
5583 ATGTATAACCGTGGCATATCCACTTAGGACCACGTTAATGAATCAATATATGTAACCGTGGCATA
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
* * *
5648 TCCATTTAGCACCACGTTACATG--------T-T-TAACCGTGGTATATCCACTTAGCACCACAT
66 TCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGT
* *** *
5703 TAATGAATTAATATATGTAACCATGGCATATCCACTTAGCACCATGTTACATGTATCAAT
131 TAATGAATCAATATATGTAAATGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
** *
5763 ATGTGTAATCGTGGTATATCCACTTAGCACCACG-T--T--A-C-ACGTA--TAACCGTGGTATA
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
* * * * * * * *
5819 TCCACTTAGCACCACATTA-ATGAATTAATATATGTAACCATGGCATATCCACTTAGCACCATGT
66 TCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGT
* * *
5883 TACATGTATCAATATGTGT-AATCGTGGTATATCCACTTAGCACCACGTTAC----A-C---
131 TA-ATGAATCAATATATGTAAAT-GTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
* * * * *
5936 --GTATAACCGTGGTATATCCACTTAGCACCACATTAATGAATTAATATATGTAACCATGGCATA
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
*
5999 TCCACTTAGCACCATGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGT
66 TCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGT
6064 TAATGAATCAATATATGTAAATGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
131 TAATGAATCAATATATGTAAATGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
**
6124 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATA
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
6189 TCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGT
66 TCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGT
6254 TAATGAATCAATATATGTAAATGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
131 TAATGAATCAATATATGTAAATGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
**
6314 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAAATGTGGCATA
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
6379 TCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGT
66 TCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGT
6444 TA
131 TA
6446 CACGTATAAC
Statistics
Matches: 601, Mismatches: 49, Indels: 56
0.85 0.07 0.08
Matches are distributed among these distances:
170 3 0.00
171 58 0.10
172 1 0.00
173 3 0.00
174 2 0.00
175 1 0.00
176 2 0.00
177 2 0.00
178 4 0.01
179 2 0.00
180 128 0.21
181 81 0.13
184 1 0.00
185 1 0.00
190 312 0.52
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (190 bp):
ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
TCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGT
TAATGAATCAATATATGTAAATGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:7452 original size:27 final size:27
Alignment explanation
Indices: 7412--7570 Score: 149
Period size: 27 Copynumber: 5.9 Consensus size: 27
7402 AGATGTTACA
* *
7412 TAAAATGACTGTTTTGCCCTTGTGAGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
* *
7439 TGAAATGATTGTTTTTCCCTTATGAGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
* * * *
7466 TAAAATAAATATTATGCCCTTATGAGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
* * *
7493 TAAAATGGTTGTTTTGCCTTTATGTGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
* * *
7520 TAAAATGAATATTTTGCCCTT-TTATGG
1 TAAAATGATTGTTTTGCCCTTATGA-GG
* * *
7547 TAAGATGATTGTTTTACCCCTATG
1 TAAAATGATTGTTTTGCCCTTATG
7571 TGATGTATGC
Statistics
Matches: 101, Mismatches: 29, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
26 1 0.01
27 99 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (27 bp):
TAAAATGATTGTTTTGCCCTTATGAGG
Found at i:7571 original size:54 final size:53
Alignment explanation
Indices: 7412--7572 Score: 171
Period size: 54 Copynumber: 3.0 Consensus size: 53
7402 AGATGTTACA
* * * * *
7412 TAAAATGACTGTTTTGCCCTTGTGAGGTGAAATGATTGTTTTTCCCTTATGAGG
1 TAAAATGAATATTTTGCCCTTATGAGGT-AAATGATTGTTTTACCCTTATGTGG
* * * * *
7466 TAAAATAAATATTATGCCCTTATGAGGTAAAATGGTTGTTTTGCCTTTATGTGG
1 TAAAATGAATATTTTGCCCTTATGAGGT-AAATGATTGTTTTACCCTTATGTGG
* *
7520 TAAAATGAATATTTTGCCCTT-TTATGGTAAGATGATTGTTTTACCCCTATGTG
1 TAAAATGAATATTTTGCCCTTATGA-GGTAA-ATGATTGTTTTACCCTTATGTG
7573 ATGTATGCTT
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
53 4 0.05
54 84 0.95
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (53 bp):
TAAAATGAATATTTTGCCCTTATGAGGTAAATGATTGTTTTACCCTTATGTGG
Found at i:14643 original size:27 final size:27
Alignment explanation
Indices: 14601--14713 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
14591 GAGGAAGCGT
*
14601 TCTGGTGGCTCAGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
14628 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* *
14656 TCTGGTGGCTTTGCCACAGTATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
14683 TCTGGTGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
14709 TCTGG
1 TCTGG
14714 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.72
28 16 0.21
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:14709 original size:54 final size:54
Alignment explanation
Indices: 14599--14713 Score: 153
Period size: 55 Copynumber: 2.1 Consensus size: 54
14589 TGGAGGAAGC
*
14599 GTTCTGGTGGCTCAGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCAGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
** * *
14653 GTTTCTGGTGGCTTTGCCAC-AGTATCTGTATCTGGTGACTCTGTCAC-AATATCT
1 G-TTCTGGTGGCTCAGCCACAAATATCTG-ATCTGGTGACTCTGCCACAAATATCT
14707 GTTCTGG
1 GTTCTGG
14714 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 6 0.11
54 16 0.30
55 32 0.59
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCTCAGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
Found at i:19932 original size:40 final size:40
Alignment explanation
Indices: 19841--20024 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
19831 TCCTCGTTCA
* * * * *
19841 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19880 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19920 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19960 AATGCCTTCGGGACTTAACCCGGATTTAGA-ATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTA-ATAACTCGCACG
* *
20000 AAGGCCTTC-GGATCTTAATCCGGAT
1 AATGCCTTCGGGA-CTTAACCCGGAT
20025 ATATTCACTT
Statistics
Matches: 128, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.27
40 92 0.72
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:20047 original size:80 final size:80
Alignment explanation
Indices: 19883--20063 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
19873 CTCACACCAT
* * * *
19883 GCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
19948 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* *
19963 GCCTTCGGGACTTAACCCGGATTTAGA-ATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGATA
1 GCCTTCGGGACTTAACCCGGATTTA-ACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATA
* * *
20026 TATTCACTTAGTAC-AAA
64 TAATAAC-TAGCACGAAA
*
20043 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
20064 CAGCATTCAA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
79 3 0.03
80 78 0.91
81 5 0.06
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTAGCACGAAA
Found at i:26275 original size:39 final size:40
Alignment explanation
Indices: 26180--26441 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
26170 TTGAATGATG
*
26180 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
26218 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
26259 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
26298 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
26337 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
26376 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
26415 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
26442 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:37109 original size:27 final size:27
Alignment explanation
Indices: 37068--37154 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
37058 GGAAGCGTTT
*
37068 TGGTGGCTCTACCACAAATATCTGATC
1 TGGTGGCTCTGCCACAAATATCTGATC
37095 TGGTGGCTCTGCCACAAATATCT-ATTTC
1 TGGTGGCTCTGCCACAAATATCTGA--TC
37123 TGGTGGCTCTGCCAC-AATATCTGTATC
1 TGGTGGCTCTGCCACAAATATCTG-ATC
37150 TGGTG
1 TGGTG
37155 ACTGTCACAA
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
26 1 0.02
27 36 0.65
28 17 0.31
29 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTGATC
Found at i:37132 original size:28 final size:27
Alignment explanation
Indices: 37068--37174 Score: 116
Period size: 27 Copynumber: 4.0 Consensus size: 27
37058 GGAAGCGTTT
*
37068 TGGTGGCTCTACCACAAATATCTGA-TC
1 TGGTGGCTCTGCCACAAATATCT-ATTC
37095 TGGTGGCTCTGCCACAAATATCTATTTC
1 TGGTGGCTCTGCCACAAATATCTA-TTC
*
37123 TGGTGGCTCTGCCAC-AATATCTGTATC
1 TGGTGGCTCTGCCACAAATATCTAT-TC
* *
37150 TGGT-G-ACTGTCAC-AATATCTATTC
1 TGGTGGCTCTGCCACAAATATCTATTC
37174 T
1 T
37175 AGTAGCCATG
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
24 3 0.04
25 14 0.19
26 3 0.04
27 35 0.49
28 17 0.24
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAAATATCTATTC
Found at i:42753 original size:33 final size:33
Alignment explanation
Indices: 42695--42793 Score: 128
Period size: 33 Copynumber: 3.0 Consensus size: 33
42685 CTAAGCCTAG
* *
42695 ATCAGTAACAGTCTAGGCCTGAGCCCTAT-TCAGC
1 ATCAGT-ACAGTCTGGGCCTTAGCCCTATAT-AGC
* *
42729 ATCAGTACAATCTGGGCCTTAGCCCTATATAGT
1 ATCAGTACAGTCTGGGCCTTAGCCCTATATAGC
*
42762 ATCAGCACAGTCTGGGCCTTAGCCCTATATAG
1 ATCAGTACAGTCTGGGCCTTAGCCCTATATAG
42794 TAATAGTGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
33 51 0.88
34 7 0.12
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (33 bp):
ATCAGTACAGTCTGGGCCTTAGCCCTATATAGC
Found at i:43040 original size:27 final size:26
Alignment explanation
Indices: 42984--43060 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
42974 CTGCCAAAAT
* * *
42984 AGTAAGTGTGGCAAAGCCACCAGTATC
1 AGTAA-TGTGGCATAGCCACCAGCAAC
43011 AGTAATTGTGGCATAGCCACCAGCAAC
1 AGTAA-TGTGGCATAGCCACCAGCAAC
* *
43038 AGTGAATGTGACATAGTCACCAG
1 AGT-AATGTGGCATAGCCACCAG
43061 TACTGTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 41 0.95
28 2 0.05
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (26 bp):
AGTAATGTGGCATAGCCACCAGCAAC
Found at i:43254 original size:27 final size:27
Alignment explanation
Indices: 43203--43254 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
43193 GGCCATAATC
** *
43203 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCATACAAAGGCATTACA
*
43230 GTCATTTTACCCTACAAAGGCATTA
1 GTCATTTTACCATACAAAGGCATTA
43255 TGGTTATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCATACAAAGGCATTACA
Found at i:48589 original size:79 final size:77
Alignment explanation
Indices: 48487--48710 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 77
48477 GCTCCTCGGT
*
48487 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCGG
48552 ATTTAATAACTCGCA
64 ATTT-ATAACTCGCA
* * *
48567 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAACCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTTGCACAAATGCCTTCGGGACTTAACCCGG-
* *
48631 ATTTGTATCTCGCA
64 ATTTATAACTCGCA
* * * * *
48645 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAACTT-GCACAAATGCCTTCGGGACTTAACCCG
48709 GA
63 GA
48711 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 32 0.26
79 61 0.49
80 31 0.25
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCGGAT
TTATAACTCGCA
Found at i:48604 original size:39 final size:40
Alignment explanation
Indices: 48487--48710 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
48477 GCTCCTCGGT
* * *
48487 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
48527 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
48567 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
48606 CAAATGCCTTCGGG-CTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
48645 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
48686 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48711 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 69 0.43
40 75 0.46
41 16 0.10
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:51725 original size:13 final size:13
Alignment explanation
Indices: 51707--51731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51697 TCCGAGATAG
51707 AAAAATATTTTTT
1 AAAAATATTTTTT
51720 AAAAATATTTTT
1 AAAAATATTTTT
51732 GGTGTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAAATATTTTTT
Found at i:52970 original size:43 final size:43
Alignment explanation
Indices: 52892--53012 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
52882 ATAGGATTTA
*
52892 CGATATGTGATTGCGTGTAAGACCATGTCTAGGAC-ATCGACAT
1 CGATATGTGATTACGTGTAAGACCATGTCTAGGACAAT-GACAT
* * * *
52935 CGTATATGTGATT-CGTGTAAGACCCTGTTTGGGACAATGGCAT
1 CG-ATATGTGATTACGTGTAAGACCATGTCTAGGACAATGACAT
* *
52978 CGATATGTGATTACATGTAAGACCACGTCTAGGAC
1 CGATATGTGATTACGTGTAAGACCATGTCTAGGAC
53013 GTTGGCATTG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
42 10 0.15
43 44 0.67
44 12 0.18
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCATGTCTAGGACAATGACAT
Found at i:56789 original size:13 final size:13
Alignment explanation
Indices: 56766--56799 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
56756 GAACATATTA
56766 TAAACATTTTGTGT
1 TAAA-ATTTTGTGT
56780 TAAAATTTTGTGT
1 TAAAATTTTGTGT
56793 TAGAAAT
1 TA-AAAT
56800 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (13 bp):
TAAAATTTTGTGT
Found at i:58164 original size:46 final size:46
Alignment explanation
Indices: 58108--58195 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
58098 TAAGATCCGA
* *
58108 AGGCATTTGTGCTAGTAACTATATCCGGGCTAAGTCCCGAAGACTT
1 AGGCAGTTGTGCTAGTAACTATATCCGGGCTAAGACCCGAAGACTT
* *
58154 AGGCAGTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAG
1 AGGCAGTTGTGCTAGTAACTATATCCGGGCTAAGACCCGAAG
58196 GCATTTGTGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (46 bp):
AGGCAGTTGTGCTAGTAACTATATCCGGGCTAAGACCCGAAGACTT
Found at i:58204 original size:40 final size:40
Alignment explanation
Indices: 58092--58235 Score: 132
Period size: 46 Copynumber: 3.5 Consensus size: 40
58082 CGGATGATAA
* * * *
58092 CCGGACTAAGATCCGAAGGCATTTGTGCTAGTAACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTATTGACTATAT
* *
58132 CCGGGCTAAGTCCCGAAGACTTAGGCAGTTGTGCTATTGACTATAT
1 CCGGGCTAAGACCC---GA---AGGCATTTGTGCTATTGACTATAT
*
58178 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTA-TTGACTATAT
58218 CC-GGCTAA-ATCCCGAAGG
1 CCGGGCTAAGA-CCCGAAGG
58236 TACTTGGGTT
Statistics
Matches: 87, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
38 1 0.01
39 14 0.16
40 31 0.36
41 3 0.03
43 4 0.05
46 34 0.39
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTATTGACTATAT
Found at i:64447 original size:13 final size:13
Alignment explanation
Indices: 64424--64457 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
64414 AAACATATTA
64424 TAAACATTTTGTGT
1 TAAA-ATTTTGTGT
64438 TAAAATTTTGTGT
1 TAAAATTTTGTGT
64451 TAGAAAT
1 TA-AAAT
64458 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (13 bp):
TAAAATTTTGTGT
Found at i:65801 original size:40 final size:40
Alignment explanation
Indices: 65753--66158 Score: 670
Period size: 40 Copynumber: 10.2 Consensus size: 40
65743 GGACTAAGAT
* *
65753 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
65793 CCAAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
65833 CCGAAGGCATTTGTACGAGTTACTATATCCGGGCCAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
65873 GCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
65913 CCGAAGGCATTTGTACGAGTTACTATATCCGGGCCAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
65953 GCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
65993 CCGAAGGCATTTGTACGAGTTACTATATCCGGGCCAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
66033 GCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
66073 CCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
66113 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
66152 CCGAAGG
1 CCGAAGG
66159 TACTTGGGTT
Statistics
Matches: 340, Mismatches: 26, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
39 15 0.04
40 325 0.96
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:74882 original size:38 final size:38
Alignment explanation
Indices: 74839--75129 Score: 132
Period size: 38 Copynumber: 6.9 Consensus size: 38
74829 TTTCAAATTA
*
74839 ACATGTACAACCGTGGCATATCCACTTATCACCACGTT
1 ACATGTACAACCGTGGCATATCCACTTAGCACCACGTT
** *
74877 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTACAACCGTGGCATATCCACTTAGCACCACG-T--T
* * * * *
74918 GAATCAATATATGTAACCATGTCATATCCACTTAGCACCACATT
1 --A-C-ATGTA--CAACCGTGGCATATCCACTTAGCACCACGTT
** * *
74962 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTACAACCGTGGCATATCCACTTAGCACCACG-T--T
* * **
75003 GAATCAATATATGTAAATGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--CAACCGTGGCATATCCACTTAGCACCACGTT
* *
75047 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTA-C---------AACCGTGGCATATCCACTTAGCACCACGTT
* * *
75095 ACACGTATAACCGTGGTATATCCACTTAGCACCAC
1 ACATGTACAACCGTGGCATATCCACTTAGCACCAC
75130 ATTTTTCATT
Statistics
Matches: 196, Mismatches: 30, Indels: 54
0.70 0.11 0.19
Matches are distributed among these distances:
38 84 0.43
39 2 0.01
40 7 0.04
41 4 0.02
42 2 0.01
43 2 0.01
44 4 0.02
45 6 0.03
46 2 0.01
47 50 0.26
48 33 0.17
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTACAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:74953 original size:47 final size:47
Alignment explanation
Indices: 74884--75095 Score: 237
Period size: 47 Copynumber: 4.7 Consensus size: 47
74874 GTTACATGTT
*
74884 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
74931 TAACCAT-GTCATATCCACTTAGCACCAC----AT-TA-C-ATGT-T-
1 TAACCATGGT-ATATCCACTTAGCACCACGTTAATGAATCAATATATG
74969 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
*** * * *
75016 TAAATGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCATGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
* *
75064 TAATCGTGGTATATCCACTTAGCACCACGTTA
1 TAACCATGGTATATCCACTTAGCACCACGTTA
75096 CACGTATAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
38 25 0.18
39 3 0.02
40 3 0.02
41 1 0.01
42 3 0.02
43 3 0.02
44 1 0.01
45 3 0.02
46 3 0.02
47 52 0.37
48 42 0.30
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.31
Consensus pattern (47 bp):
TAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:74957 original size:85 final size:84
Alignment explanation
Indices: 74854--75052 Score: 337
Period size: 85 Copynumber: 2.3 Consensus size: 84
74844 TACAACCGTG
* *
74854 GCATATCCACTTATCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAATG
1 GCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAATG
74919 AATCAATATATGTAACCATGT
66 AATCAATATATGTAA--ATGT
*
74940 -CATATCCACTTAGCACCACATTACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAATG
1 GCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAATG
75004 AATCAATATATGTAAATGT
66 AATCAATATATGTAAATGT
75023 GGCATATCCACTTAGCACCACGTTACATGT
1 -GCATATCCACTTAGCACCACGTTACATGT
75053 ATCAATATGT
Statistics
Matches: 107, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
83 4 0.04
85 103 0.96
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.31
Consensus pattern (84 bp):
GCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAATG
AATCAATATATGTAAATGT
Found at i:75078 original size:48 final size:48
Alignment explanation
Indices: 74975--75102 Score: 197
Period size: 48 Copynumber: 2.7 Consensus size: 48
74965 TGTTTAACCA
*
74975 TGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAAATG
1 TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAAATG
* *
75022 TGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGT-AATCG
1 TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAAAT-G
*
75070 TGGTATATCCACTTAGCACCACGTTACACGTAT
1 TGGTATATCCACTTAGCACCACGTTACATGTAT
75103 AACCGTGGTA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
47 28 0.38
48 46 0.62
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAAATG
Found at i:75087 original size:133 final size:132
Alignment explanation
Indices: 74889--75129 Score: 376
Period size: 133 Copynumber: 1.8 Consensus size: 132
74879 ATGTTTAACC
*
74889 GTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGTCATATCCACTTAGC
1 GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGTCATATCCACTTAGC
* *
74954 ACCACATTACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAA
66 ACCACATTACACGTATAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAA
75019 AT
131 AT
* * * *
75021 GTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGT-ATATCCACTTA
1 GTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCAT-GTCATATCCACTTA
* *
75085 GCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCAC
64 GCACCACATTACACGTATAACCATGGTATATCCACTTAGCACCAC
75130 ATTTTTCATT
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
132 26 0.27
133 70 0.71
134 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (132 bp):
GTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGTCATATCCACTTAGC
ACCACATTACACGTATAACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAA
AT
Found at i:77402 original size:15 final size:15
Alignment explanation
Indices: 77379--77420 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
77369 GAAGCTCCGA
77379 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
77394 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
77409 ATAAGGAAATCC
1 ATAAGGAAATCC
77421 CATTTACAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:82268 original size:40 final size:40
Alignment explanation
Indices: 82115--82300 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
82105 TTGAATGATG
* * * * *
82115 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAACTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
82155 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
82195 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
82235 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
82276 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
82301 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.92
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:82318 original size:80 final size:79
Alignment explanation
Indices: 82168--82333 Score: 194
Period size: 80 Copynumber: 2.1 Consensus size: 79
82158 GGACTAAGAT
***
82168 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTA
1 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
*
82233 AATCCGGGTTAAGTC
66 AATCC-GGTTAAATC
* * *
82248 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-TAG
1 CCGAAGGCATTTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTTA-
* *
82310 CTATATCCGGTTAAATT
63 CTAAATCCGGTTAAATC
82327 CCGAAGG
1 CCGAAGG
82334 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 17 0.23
80 55 0.74
81 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTA
AATCCGGTTAAATC
Found at i:84361 original size:40 final size:40
Alignment explanation
Indices: 84299--84516 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
84289 AAGCCAAGTA
* * * *
84299 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
84338 CCTTCGGGACATAGCCCGGATATAGTAACTCGTACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84378 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
84418 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * **
84458 CCTTCGGGACTTAGCCCGGGA-CTAGTCACTAGTGCAAATG
1 CCTTCGGGACTTAGCCC-GGATATAGTAACTCGCACAAATG
84498 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
84517 TTATCATCCA
Statistics
Matches: 163, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 146 0.90
41 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:86452 original size:45 final size:45
Alignment explanation
Indices: 86369--86556 Score: 279
Period size: 45 Copynumber: 4.2 Consensus size: 45
86359 GGCTGTCACA
*
86369 TGCTAGGCTCAAAGGCCCAAATAATATCTCACCT-GCATCATAGCC
1 TGCTAGGCTCAAAGGCCCGAATAATATCTCA-CTGGCATCATAGCC
* * * *
86414 TACTAGGCTTAAAGGCCCGAATAGTATTTCACTGGCATCATAGCC
1 TGCTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATCATAGCC
*
86459 TGCTAGGCTCAAAGGCCTGAATAATATCTCACTGGCATCATAGCC
1 TGCTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATCATAGCC
* * *
86504 TGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCATAGCC
1 TGCTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATCATAGCC
86549 TGCTAGGC
1 TGCTAGGC
86557 CCGAAGTCCG
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 2 0.02
45 126 0.98
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
TGCTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATCATAGCC
Found at i:86522 original size:90 final size:90
Alignment explanation
Indices: 86369--86556 Score: 315
Period size: 90 Copynumber: 2.1 Consensus size: 90
86359 GGCTGTCACA
*
86369 TGCTAGGCTCAAAGGCCCAAATAATATCTCACCTGCATCATAGCCTACTAGGCTTAAAGGCCCGA
1 TGCTAGGCTCAAAGGCCCAAATAATATCTCACCTGCATCATAGCCTACTAGGCTCAAAGGCCCGA
*
86434 ATAGTATTTCACTGGCATCATAGCC
66 ATAGTATTTCACCGGCATCATAGCC
** *
86459 TGCTAGGCTCAAAGGCCTGAATAATATCTCA-CTGGCATCATAGCCTGCTAGGCTCAAAGGCCCG
1 TGCTAGGCTCAAAGGCCCAAATAATATCTCACCT-GCATCATAGCCTACTAGGCTCAAAGGCCCG
86523 AATAGTATTTCACCGGCATCATAGCC
65 AATAGTATTTCACCGGCATCATAGCC
86549 TGCTAGGC
1 TGCTAGGC
86557 CCGAAGTCCG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 2 0.02
90 90 0.98
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (90 bp):
TGCTAGGCTCAAAGGCCCAAATAATATCTCACCTGCATCATAGCCTACTAGGCTCAAAGGCCCGA
ATAGTATTTCACCGGCATCATAGCC
Done.