Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 32 of 54
Found at i:13101205 original size:55 final size:55
Alignment explanation
Indices: 13101095--13101207 Score: 190
Period size: 55 Copynumber: 2.1 Consensus size: 55
13101085 GTATTTCATG
* *
13101095 CTTCAATACTATGAAAGTACCAACCAAATCCATCTCAAATGATTCAGCTTAAGTC
1 CTTCAATACTATGAAAGTACCAACCAAATCCATCTCAAATGATTCAACATAAGTC
* *
13101150 CTTCAATACTATGGAAGTACCAACCAAATCCATCTCAAATGATTCAACATGAGTC
1 CTTCAATACTATGAAAGTACCAACCAAATCCATCTCAAATGATTCAACATAAGTC
13101205 CTT
1 CTT
13101208 ATAGCTAGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.27
Consensus pattern (55 bp):
CTTCAATACTATGAAAGTACCAACCAAATCCATCTCAAATGATTCAACATAAGTC
Found at i:13102992 original size:226 final size:227
Alignment explanation
Indices: 13102593--13103043 Score: 625
Period size: 226 Copynumber: 2.0 Consensus size: 227
13102583 ATTTAATTTA
*
13102593 ATGATGATAGATTGTGTATTGACACCAATGGTTTTCCAAACATTTATGAATCTATTATGTATGTA
1 ATGATGATAGATTGTGTATTGACACCAATGGTTTTCCAAACATTTATGAATCTACTA-GTATGTA
* * * ** *
13102658 AATATGCTACTGCGTATTAGTTTTCAACAAGGGGGGACAAGTCCTTTCAAATATTTTCCTTCAAA
65 AATACGCTACTACGTACTAGTTTTCAACAAAAGGGGACAAGCCCTTTCAAATATTTTCCTTCAAA
* *
13102723 ATAAGATGAATGGTATGATATACATGTTTGACATAAAGTAGCATGCAAGATATGATGGGTGCATG
130 ATAAGATGAATGGTATGATATACATGCTTGACATAAAGTAGCATGCAAGATATAATGGGTGCATG
*
13102788 AGTTCCTTACTATGAGGTTATGATATGTATGCC
195 AGTTCCTTACTATGAGGTTATGACATGTATGCC
* ** * * *
13102821 ATGATGATTGATTGTGTATTGACACCAATGGTTTTTTAATCGTTTGTGAATCTACTA-TATGTAA
1 ATGATGATAGATTGTGTATTGACACCAATGGTTTTCCAAACATTTATGAATCTACTAGTATGTAA
* * * * *
13102885 ATACGTTATTATGTACTAGTTTTTAACAAAAGGGGACAAGCCCTTTCAAATGTTTTCCTTCAAAA
66 ATACGCTACTACGTACTAGTTTTCAACAAAAGGGGACAAGCCCTTTCAAATATTTTCCTTCAAAA
* * * * *
13102950 TGAGATGAATGGTATGATATACATGCTTGATATAATGTAGCATGTAAGGTATAATGGGTGCATGA
131 TAAGATGAATGGTATGATATACATGCTTGACATAAAGTAGCATGCAAGATATAATGGGTGCATGA
** *
13103015 GTTTTTTTCTATGAGGTTATGACATGTAT
196 GTTCCTTACTATGAGGTTATGACATGTAT
13103044 CTCATGAGAT
Statistics
Matches: 194, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
226 144 0.74
228 50 0.26
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (227 bp):
ATGATGATAGATTGTGTATTGACACCAATGGTTTTCCAAACATTTATGAATCTACTAGTATGTAA
ATACGCTACTACGTACTAGTTTTCAACAAAAGGGGACAAGCCCTTTCAAATATTTTCCTTCAAAA
TAAGATGAATGGTATGATATACATGCTTGACATAAAGTAGCATGCAAGATATAATGGGTGCATGA
GTTCCTTACTATGAGGTTATGACATGTATGCC
Found at i:13103213 original size:80 final size:79
Alignment explanation
Indices: 13103075--13103223 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 79
13103065 GAATATCATG
* * * *
13103075 TACACTATGGGCTAAGCATTAAATGAATTATGAGATTATGACATGAATGCCATAAGATGTTTGTT
1 TACACTATGGGCTAAGCATGAAATGAATTATGAGATTATGAAATGAATGCCATAAGATGTATGTG
13103140 TTGATTATGTTATT
66 TTGATTATGTTATT
* * * * *
13103154 TACACTATGGGCTAAGCATGGGAATTAATTATGAGATTATGAAATGTATGCTATGAGATGTATGT
1 TACACTATGGGCTAAGCAT-GAAATGAATTATGAGATTATGAAATGAATGCCATAAGATGTATGT
13103219 GTTGA
65 GTTGA
13103224 AAATTTTATA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 19 0.32
80 41 0.68
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (79 bp):
TACACTATGGGCTAAGCATGAAATGAATTATGAGATTATGAAATGAATGCCATAAGATGTATGTG
TTGATTATGTTATT
Found at i:13103249 original size:80 final size:80
Alignment explanation
Indices: 13103100--13103251 Score: 178
Period size: 80 Copynumber: 1.9 Consensus size: 80
13103090 GCATTAAATG
* * * ** * ***
13103100 AATTATGAGATTATGACATGAATGCCATAAGATGTTTGTTTTGATTATGTTATTTACACTATGGG
1 AATTATGAGATTATGAAATGAATGCCATAAGATGTATGTGTTGAAAATGTTATATACACTATACA
13103165 CTAAGCATGGGAATT
66 CTAAGCATGGGAATT
* * * * *
13103180 AATTATGAGATTATGAAATGTATGCTATGAGATGTATGTGTTGAAAATTTTATATACATTATACA
1 AATTATGAGATTATGAAATGAATGCCATAAGATGTATGTGTTGAAAATGTTATATACACTATACA
13103245 CTAAGCA
66 CTAAGCA
13103252 CAAAAATGGT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 58 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (80 bp):
AATTATGAGATTATGAAATGAATGCCATAAGATGTATGTGTTGAAAATGTTATATACACTATACA
CTAAGCATGGGAATT
Found at i:13105062 original size:42 final size:42
Alignment explanation
Indices: 13104998--13105206 Score: 224
Period size: 42 Copynumber: 5.0 Consensus size: 42
13104988 CATCTCATAT
* * * * *
13104998 GCAACGGCTTATGCGTACTCCCACTCGCATATAGCCGGGTCA
1 GCAATGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* * *
13105040 GCAATGGCTTATGTGCACTCCCACTCACACATAGCCGAGTCA
1 GCAATGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* * * * *
13105082 GCAACGACTTATGTGCACTCCTACTCGCATATAGTCAGGTCA
1 GCAATGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
* *
13105124 GCAACT-ACTTATGTGCAC-CCTTACTCGCACATAGCCAGGTCA
1 GCAA-TGGCTTATGTGCACTCC-TACTCGCACATAGCCGGGTCA
* * *
13105166 GTAATAGCTTATGTGCACTCCTACTCCCACATAGCCGGGTC
1 GCAATGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTC
13105207 CACATCAACA
Statistics
Matches: 142, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.02
42 137 0.96
43 2 0.01
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (42 bp):
GCAATGGCTTATGTGCACTCCTACTCGCACATAGCCGGGTCA
Found at i:13114658 original size:56 final size:56
Alignment explanation
Indices: 13114584--13114696 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 56
13114574 TTGACACTTG
13114584 TGAGTGGACTGCCGATC-AAATTGTTTTGGGAATATGACTGTTTTGAACAAAGTGT
1 TGAGTGGACTGCCGATCAAAATTGTTTTGGGAATATGACTGTTTTGAACAAAGTGT
*
13114639 NTGAGTGGACTGCCTATCAAAATTGTTTTGGGAATATGACTGTTTTGAACAAAGTGT
1 -TGAGTGGACTGCCGATCAAAATTGTTTTGGGAATATGACTGTTTTGAACAAAGTGT
13114696 T
1 T
13114697 TGAATGATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 17 0.31
57 38 0.69
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.35
Consensus pattern (56 bp):
TGAGTGGACTGCCGATCAAAATTGTTTTGGGAATATGACTGTTTTGAACAAAGTGT
Found at i:13114697 original size:31 final size:31
Alignment explanation
Indices: 13114600--13114697 Score: 73
Period size: 31 Copynumber: 3.3 Consensus size: 31
13114590 GACTGCCGAT
*
13114600 CAAATTGTTTTGGGAATATGACTGTTTTGAA
1 CAAAGTGTTTTGGGAATATGACTGTTTTGAA
* * * ** *
13114631 CAAAGTG-TNT--GAGT-GGACTG-CCT-AT
1 CAAAGTGTTTTGGGAATATGACTGTTTTGAA
*
13114656 CAAAATTGTTTTGGGAATATGACTGTTTTGAA
1 C-AAAGTGTTTTGGGAATATGACTGTTTTGAA
13114688 CAAAGTGTTT
1 CAAAGTGTTT
13114698 GAATGATTTT
Statistics
Matches: 45, Mismatches: 15, Indels: 14
0.61 0.20 0.19
Matches are distributed among these distances:
25 2 0.04
26 6 0.13
27 7 0.16
28 3 0.07
29 3 0.07
30 7 0.16
31 15 0.33
32 2 0.04
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.38
Consensus pattern (31 bp):
CAAAGTGTTTTGGGAATATGACTGTTTTGAA
Found at i:13114930 original size:43 final size:43
Alignment explanation
Indices: 13114862--13114984 Score: 169
Period size: 43 Copynumber: 2.9 Consensus size: 43
13114852 TTGACTCGAC
* *
13114862 TATGTGCGAGTAGAGAATGCGCATAAGCC-GAG-GATGACCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAA-CCTG-GTGATGACCCGGT
*
13114905 TATGTGCGAGTAGGGAGTGCTCATAACCTGGTGATGACCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCGGT
* *
13114948 TATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGA
13114985 TGATGATGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 3 0.04
43 69 0.96
ACGTcount: A:0.24, C:0.16, G:0.37, T:0.23
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCGGT
Found at i:13114995 original size:20 final size:20
Alignment explanation
Indices: 13114970--13115034 Score: 85
Period size: 20 Copynumber: 3.1 Consensus size: 20
13114960 GGGAGTGCGC
13114970 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
*
13114990 ATGAGCTGGTGATGATGAGG
1 ATGAGCTGGTGATGATGATG
* *
13115010 ATGGGTTGGTGAAATGATGATG
1 ATGAGCTGGTG--ATGATGATG
13115032 ATG
1 ATG
13115035 GTATATACGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 28 0.72
22 11 0.28
ACGTcount: A:0.26, C:0.03, G:0.42, T:0.29
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:13116279 original size:43 final size:43
Alignment explanation
Indices: 13116218--13116362 Score: 211
Period size: 43 Copynumber: 3.4 Consensus size: 43
13116208 GATTCTTTGA
* **
13116218 AGAGA-AGAAGTCGGTTCTCAAGTGAGAAGAACCAACACCTCGT
1 AGAGAGAGAA-TCGATTCTCAAGCAAGAAGAACCAACACCTCGT
* *
13116261 ATAGAGAGTATCGATTCTCAAGCAAGAAGAACCAACACCTCGT
1 AGAGAGAGAATCGATTCTCAAGCAAGAAGAACCAACACCTCGT
*
13116304 AGAGAGAGAATCGATTCTCAGGCAAGAAGAACCAACACCTCGT
1 AGAGAGAGAATCGATTCTCAAGCAAGAAGAACCAACACCTCGT
*
13116347 AGAGAAAGAATCGATT
1 AGAGAGAGAATCGATT
13116363 ATCGGGCAAG
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 89 0.97
44 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.17
Consensus pattern (43 bp):
AGAGAGAGAATCGATTCTCAAGCAAGAAGAACCAACACCTCGT
Found at i:13116352 original size:21 final size:21
Alignment explanation
Indices: 13116285--13116352 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
13116275 TTCTCAAGCA
13116285 AGAAGAACCAACACCTCGTAG
1 AGAAGAACCAACACCTCGTAG
* * ** *
13116306 AGAGAGAATCGA-TTCTCAGGCA-
1 AGA-AGAACCAACACCTC--GTAG
13116328 AGAAGAACCAACACCTCGTAG
1 AGAAGAACCAACACCTCGTAG
13116349 AGAA
1 AGAA
13116353 AGAATCGATT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 16 0.50
22 12 0.38
23 2 0.06
ACGTcount: A:0.43, C:0.24, G:0.22, T:0.12
Consensus pattern (21 bp):
AGAAGAACCAACACCTCGTAG
Found at i:13116371 original size:43 final size:43
Alignment explanation
Indices: 13116242--13116452 Score: 226
Period size: 43 Copynumber: 4.9 Consensus size: 43
13116232 TTCTCAAGTG
* * * *
13116242 AGAAGAACCAACACCTCGTATAGAGAGTATCGATTCTCAAGCA
1 AGAAGAACCAACACCTCGTAGAGAAAGAATCGATTCTCAGGCA
*
13116285 AGAAGAACCAACACCTCGTAGAGAGAGAATCGATTCTCAGGCA
1 AGAAGAACCAACACCTCGTAGAGAAAGAATCGATTCTCAGGCA
* *
13116328 AGAAGAACCAACACCTCGTAGAGAAAGAATCGATTATCGGGCA
1 AGAAGAACCAACACCTCGTAGAGAAAGAATCGATTCTCAGGCA
* ** * * * * ** *
13116371 AGAAAAATTAATACCTCGTGGAGAAA-AATTGAATCTTGGGTA
1 AGAAGAACCAACACCTCGTAGAGAAAGAATCGATTCTCAGGCA
* * * *
13116413 AGAAAAACCAACACCTTGTAGAGAAAGAATTGATTTTCAG
1 AGAAGAACCAACACCTCGTAGAGAAAGAATCGATTCTCAG
13116453 TTGCAAGGAC
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 32 0.23
43 110 0.77
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (43 bp):
AGAAGAACCAACACCTCGTAGAGAAAGAATCGATTCTCAGGCA
Found at i:13119478 original size:19 final size:18
Alignment explanation
Indices: 13119439--13119480 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
13119429 TTTTAGTTAT
*
13119439 TTTTA-TAATTAGTTTAT
1 TTTTATTAATTAGTTTAA
*
13119456 TTTTATTAAGTTATTTTAA
1 TTTTATTAA-TTAGTTTAA
13119475 TTTTAT
1 TTTTAT
13119481 GTTTATTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 3 0.14
19 13 0.62
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTATTAATTAGTTTAA
Found at i:13138554 original size:23 final size:23
Alignment explanation
Indices: 13138524--13138573 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
13138514 GAAAATATAC
13138524 AAGATTGTAGACCTTCGATTTCT
1 AAGATTGTAGACCTTCGATTTCT
13138547 AAGATTGTAGACCTTCGATTTCT
1 AAGATTGTAGACCTTCGATTTCT
13138570 AAGA
1 AAGA
13138574 ATGCAATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (23 bp):
AAGATTGTAGACCTTCGATTTCT
Found at i:13141637 original size:20 final size:20
Alignment explanation
Indices: 13141612--13141652 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13141602 CGATATATGC
*
13141612 TATATAATAATATATTGTTA
1 TATATAATAATAAATTGTTA
*
13141632 TATATAATAGTAAATTGTTA
1 TATATAATAATAAATTGTTA
13141652 T
1 T
13141653 TGACTAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
TATATAATAATAAATTGTTA
Found at i:13141694 original size:2 final size:2
Alignment explanation
Indices: 13141682--13141720 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
13141672 TAAGTATACA
*
13141682 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13141721 TGTTATATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13141796 original size:19 final size:18
Alignment explanation
Indices: 13141746--13141812 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
13141736 TGTAGTTAAC
13141746 TATTAATATAAG-T--TA
1 TATTAATATAAGTTACTA
* * *
13141761 TATTACTATAGGATACTAA
1 TATTAATATAAGTTACT-A
*
13141780 TATTAATATAAGTTACTT
1 TATTAATATAAGTTACTA
*
13141798 TAGTAATATAAGTTA
1 TATTAATATAAGTTA
13141813 TACTATAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
15 10 0.24
16 1 0.02
18 15 0.37
19 15 0.37
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (18 bp):
TATTAATATAAGTTACTA
Found at i:13142072 original size:26 final size:26
Alignment explanation
Indices: 13141997--13142057 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
13141987 GCTATTATAG
* *
13141997 TATATAGTCTA-T-ATAACATAGACTA
1 TATATAGTATATTAATAA-ATATACTA
*
13142022 TATATTGTATATTAATAAATATACTA
1 TATATAGTATATTAATAAATATACTA
13142048 TATATAGTAT
1 TATATAGTAT
13142058 GATATATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 9 0.30
26 17 0.57
27 4 0.13
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43
Consensus pattern (26 bp):
TATATAGTATATTAATAAATATACTA
Found at i:13145000 original size:34 final size:34
Alignment explanation
Indices: 13144935--13145012 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
13144925 TTTCTTTCCT
* * *
13144935 ACTCTCTCTCCTGCGCCGCTGCCCGTTCTCTGCC
1 ACTCTCTCTCCTGCGCCGCTACCCCTACTCTGCC
* * *
13144969 ACTCTCTGTCCTTCGTCGCTACCCCTACTCTGCC
1 ACTCTCTCTCCTGCGCCGCTACCCCTACTCTGCC
* *
13145003 CCTTTCTCTC
1 ACTCTCTCTC
13145013 TGTAAAACCT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.05, C:0.49, G:0.13, T:0.33
Consensus pattern (34 bp):
ACTCTCTCTCCTGCGCCGCTACCCCTACTCTGCC
Found at i:13148360 original size:26 final size:26
Alignment explanation
Indices: 13148331--13148380 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
13148321 TCCTTGATGG
*
13148331 TATTGACTGTTTTTGCCTTCTTTTGC
1 TATTGACTGTTTTTGCCTTATTTTGC
13148357 TATTGACTGTTTTTGCCTTATTTT
1 TATTGACTGTTTTTGCCTTATTTT
13148381 ATTACTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (26 bp):
TATTGACTGTTTTTGCCTTATTTTGC
Found at i:13154298 original size:36 final size:35
Alignment explanation
Indices: 13154251--13154321 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
13154241 ACCCCTTGTA
*
13154251 AACTTTTATTTTCATATATATGATAGAAAGTTTATT
1 AACTTCTATTTTCATATATATGATA-AAAGTTTATT
*
13154287 AACTTCTATTTTCATATATATGATACAAGTTTATT
1 AACTTCTATTTTCATATATATGATAAAAGTTTATT
13154322 TCTATAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 9 0.27
36 24 0.73
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.49
Consensus pattern (35 bp):
AACTTCTATTTTCATATATATGATAAAAGTTTATT
Found at i:13154535 original size:31 final size:31
Alignment explanation
Indices: 13154500--13154561 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
13154490 TGAAAGTCAT
*
13154500 AATTATCTTTAAATAATTGAAAAATAAAAAA
1 AATTATCTTCAAATAATTGAAAAATAAAAAA
13154531 AATTATCTTCAAATAATTGAAAAATAAAAAA
1 AATTATCTTCAAATAATTGAAAAATAAAAAA
13154562 TATAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (31 bp):
AATTATCTTCAAATAATTGAAAAATAAAAAA
Found at i:13156031 original size:11 final size:11
Alignment explanation
Indices: 13155997--13156033 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
13155987 ACCTTAAATC
13155997 TATTTATATAA
1 TATTTATATAA
*
13156008 TATTTTTATTAA
1 TATTTATA-TAA
13156020 TATTTATATAA
1 TATTTATATAA
13156031 TAT
1 TAT
13156034 ATAATTGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTATATAA
Found at i:13156584 original size:59 final size:59
Alignment explanation
Indices: 13156512--13156629 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
13156502 AGAGGATTTT
* *
13156512 GGATAATATCTTTTTGTCCAAATCCATTTTATCCCAGTTTGACGTTGAATAATTTTTCA
1 GGATAATATCTTTTTGTCCAAATCCATTTTATCCCAATTTGACGTTAAATAATTTTTCA
* * * *
13156571 GGATAATATCTTTTTGTTCAAATCTATTTTATCTCAATTTGATGTTAAATAATTTTTCA
1 GGATAATATCTTTTTGTCCAAATCCATTTTATCCCAATTTGACGTTAAATAATTTTTCA
13156630 ATGTATCTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (59 bp):
GGATAATATCTTTTTGTCCAAATCCATTTTATCCCAATTTGACGTTAAATAATTTTTCA
Found at i:13157049 original size:35 final size:34
Alignment explanation
Indices: 13157005--13157084 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 34
13156995 TAGTTTCAGG
* *
13157005 ACCAAATGTTACACACTATGACCAAAGGTTCAACC
1 ACCAAATGTTACACACTAAGACCAAAGCTTCAA-C
* * *
13157040 ACCAGATGTTACATACTAAGGCCAAAGCTTCAAC
1 ACCAAATGTTACACACTAAGACCAAAGCTTCAAC
*
13157074 ACCAAACGTTA
1 ACCAAATGTTA
13157085 TCACGAGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 10 0.26
35 28 0.74
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (34 bp):
ACCAAATGTTACACACTAAGACCAAAGCTTCAAC
Found at i:13160681 original size:28 final size:28
Alignment explanation
Indices: 13160649--13160707 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
13160639 CTACAATAAC
*
13160649 TCATTTTTAAATACGTTTCTAGATCTTT
1 TCATTTTTAAATACGTTTCTAGACCTTT
* * *
13160677 TCATTTTTACATATGTTTCTTGACCTTT
1 TCATTTTTAAATACGTTTCTAGACCTTT
13160705 TCA
1 TCA
13160708 ATATTATTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (28 bp):
TCATTTTTAAATACGTTTCTAGACCTTT
Found at i:13164867 original size:25 final size:25
Alignment explanation
Indices: 13164808--13164871 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
13164798 AAGAAAATAA
13164808 AATTCTTATAATTATGATGATTCCC
1 AATTCTTATAATTATGATGATTCCC
* * * **
13164833 AATCCCTATAATTATGGTGAGTT-TT
1 AATTCTTATAATTATGATGA-TTCCC
13164858 AATTCTTATAATTA
1 AATTCTTATAATTA
13164872 CATTAATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
25 29 0.94
26 2 0.06
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (25 bp):
AATTCTTATAATTATGATGATTCCC
Found at i:13168943 original size:9 final size:9
Alignment explanation
Indices: 13168928--13168957 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
13168918 CTAAAATAGG
13168928 AAAAAAATA
1 AAAAAAATA
*
13168937 AAGAAAATA
1 AAAAAAATA
13168946 AAAAAAATA
1 AAAAAAATA
13168955 AAA
1 AAA
13168958 TCCCTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:13169667 original size:20 final size:21
Alignment explanation
Indices: 13169642--13169680 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13169632 CTTGTCAAGA
*
13169642 CATGGATT-CAAGTGTTAAGG
1 CATGGATTACAAGTATTAAGG
13169662 CATGGATTACAAGTATTAA
1 CATGGATTACAAGTATTAA
13169681 AAGAAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (21 bp):
CATGGATTACAAGTATTAAGG
Found at i:13173533 original size:63 final size:63
Alignment explanation
Indices: 13173434--13173556 Score: 219
Period size: 63 Copynumber: 2.0 Consensus size: 63
13173424 TAATGGATGT
**
13173434 AACCGTGCATGTGTGGAATGGGCAGTGCACATGCTGGTTGAATGATGAGGTTTCGATAGTTAC
1 AACCGTGCATGTGCAGAATGGGCAGTGCACATGCTGGTTGAATGATGAGGTTTCGATAGTTAC
*
13173497 AACCGTGCATGTGCAGAGTGGGCAGTGCACATGCTGGTTGAATGATGAGGTTTCGATAGT
1 AACCGTGCATGTGCAGAATGGGCAGTGCACATGCTGGTTGAATGATGAGGTTTCGATAGT
13173557 GTAGACACTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.28
Consensus pattern (63 bp):
AACCGTGCATGTGCAGAATGGGCAGTGCACATGCTGGTTGAATGATGAGGTTTCGATAGTTAC
Found at i:13173789 original size:35 final size:37
Alignment explanation
Indices: 13173740--13173809 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
13173730 CGTCTGGCAG
*
13173740 GGTAGTGGAACGTG-CCCC-CCAGTGCCCAGGAACAA
1 GGTAGTGGAACGTGCCCCCTCCAGAGCCCAGGAACAA
*
13173775 GGTAGTGGAGCGTGCCCCCTCCAGAGCCCAGGAAC
1 GGTAGTGGAACGTGCCCCCTCCAGAGCCCAGGAAC
13173810 CGGGTATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 13 0.42
36 4 0.13
37 14 0.45
ACGTcount: A:0.23, C:0.33, G:0.33, T:0.11
Consensus pattern (37 bp):
GGTAGTGGAACGTGCCCCCTCCAGAGCCCAGGAACAA
Found at i:13174379 original size:130 final size:131
Alignment explanation
Indices: 13174133--13174402 Score: 452
Period size: 130 Copynumber: 2.1 Consensus size: 131
13174123 CTTTAGGTGA
* ** *
13174133 GAGAGGGTTTCGGCACCGACAGAGAGAGGGCAAAGAGAGAGCAGATCTAGGCTTCGGCAAAGGTA
1 GAGAGAGTTTCGGCACCGACAGAGAGAGGGCAAAGAGAGAGCAGATCTAGGCGCCGACAAAGGTA
*
13174198 GATTCGTGGGCTAGGTGGTCGGCGGTAGGAAGGGAGAAGGAGAATCCGATTTGTTTAGAGAGAAG
66 GATCCGTGGGCTAGGTGGTCGGCGGTAGGAAGGGAGAAGGAGAATCCGATTTGTTTAGAGAGAAG
13174263 G
131 G
* *
13174264 GAGAGAGTTT-GGCACCGACGGAGAGAGGGCAAAGAGAGAGCAGATCTAGGCGCCGACAGAGGTA
1 GAGAGAGTTTCGGCACCGACAGAGAGAGGGCAAAGAGAGAGCAGATCTAGGCGCCGACAAAGGTA
* *
13174328 GATCCGTGGGCTAGGTGGTCGGCGGTAGGAAGGGAGAGGGAGAATCTGATTTGTTTAGAGAGAAG
66 GATCCGTGGGCTAGGTGGTCGGCGGTAGGAAGGGAGAAGGAGAATCCGATTTGTTTAGAGAGAAG
13174393 G
131 G
13174394 GAGAGAGTT
1 GAGAGAGTT
13174403 AGGCTGCTAG
Statistics
Matches: 130, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
130 121 0.93
131 9 0.07
ACGTcount: A:0.29, C:0.13, G:0.42, T:0.16
Consensus pattern (131 bp):
GAGAGAGTTTCGGCACCGACAGAGAGAGGGCAAAGAGAGAGCAGATCTAGGCGCCGACAAAGGTA
GATCCGTGGGCTAGGTGGTCGGCGGTAGGAAGGGAGAAGGAGAATCCGATTTGTTTAGAGAGAAG
G
Found at i:13181883 original size:26 final size:26
Alignment explanation
Indices: 13181854--13181910 Score: 96
Period size: 27 Copynumber: 2.2 Consensus size: 26
13181844 AGAATGAGTA
*
13181854 AGAAGCACCCACTAATAGTCAATTAG
1 AGAAGAACCCACTAATAGTCAATTAG
13181880 AGAAAGAACCCACTAATAGTCAATTAG
1 AG-AAGAACCCACTAATAGTCAATTAG
13181907 AGAA
1 AGAA
13181911 ACAAGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (26 bp):
AGAAGAACCCACTAATAGTCAATTAG
Found at i:13181894 original size:27 final size:27
Alignment explanation
Indices: 13181860--13181911 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
13181850 AGTAAGAAGC
13181860 ACCCACTAATAGTCAATTAGAGAAAGA
1 ACCCACTAATAGTCAATTAGAGAAAGA
13181887 ACCCACTAATAGTCAATTAGAGAAA
1 ACCCACTAATAGTCAATTAGAGAAA
13181912 CAAGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (27 bp):
ACCCACTAATAGTCAATTAGAGAAAGA
Found at i:13183867 original size:29 final size:29
Alignment explanation
Indices: 13183812--13183867 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
13183802 AAGAAAATTT
** *
13183812 AAATAAATTTTTATATTTTTATTTTAATC
1 AAATAAATTTTTATATTAATATATTAATC
13183841 AAATAAATTTTTATGATTAATA-ATTAA
1 AAATAAATTTTTAT-ATTAATATATTAA
13183868 CTAAATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 18 0.78
30 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (29 bp):
AAATAAATTTTTATATTAATATATTAATC
Found at i:13183873 original size:29 final size:28
Alignment explanation
Indices: 13183811--13183873 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
13183801 TAAGAAAATT
** *
13183811 TAAATAAATTTTTATATTTTTATTTTAA
1 TAAATAAATTTTTATATTAATATATTAA
13183839 TCAAATAAATTTTTATGATTAATA-ATTAA
1 T-AAATAAATTTTTAT-ATTAATATATTAA
13183868 CTAAAT
1 -TAAAT
13183874 CAAAATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 22 0.76
30 6 0.21
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (28 bp):
TAAATAAATTTTTATATTAATATATTAA
Found at i:13185116 original size:19 final size:19
Alignment explanation
Indices: 13185079--13185119 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
13185069 TGTTAATATT
*
13185079 TTAATAATAAATTATTAAA
1 TTAATAATAAATTAATAAA
**
13185098 TTAATAATATTTTAATAAA
1 TTAATAATAAATTAATAAA
13185117 TTA
1 TTA
13185120 TCTTAAACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAATAATAAATTAATAAA
Found at i:13191243 original size:14 final size:15
Alignment explanation
Indices: 13191214--13191252 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
13191204 AAAAAATCAA
13191214 TTTTCTTTCATTTTC
1 TTTTCTTTCATTTTC
*
13191229 TTTTCTTT-GTTTTC
1 TTTTCTTTCATTTTC
13191243 TTTTCCTTTC
1 TTTT-CTTTC
13191253 TTACTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTCTTTCATTTTC
Found at i:13192478 original size:60 final size:61
Alignment explanation
Indices: 13192382--13192553 Score: 213
Period size: 60 Copynumber: 2.8 Consensus size: 61
13192372 GATAGGAGAC
* * * * *
13192382 AAAACAGAAAGTTTTTCGTTGCAGTGAGATTGAATCTCGCTACAGCGAAATTGTAACCC-A
1 AAAACAGAAAGTTTCTCGTTGCAGCGAGATTCAATCTCGCTGCAGCGAAATTGCAACCCAA
* ** *
13192442 GAAACAGAAAGTTTCTCACTGCAGCGAGATTCAATCTCGCTGCAGCAAAATTGCAACCCAA
1 AAAACAGAAAGTTTCTCGTTGCAGCGAGATTCAATCTCGCTGCAGCGAAATTGCAACCCAA
* * *
13192503 AAAACAG-AATTATTCTCGTTGCAGCGAAATTCATTCTCGCTGCAGCGAAAT
1 AAAACAGAAAGT-TTCTCGTTGCAGCGAGATTCAATCTCGCTGCAGCGAAAT
13192554 GCTACAGTGA
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
60 53 0.56
61 41 0.44
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (61 bp):
AAAACAGAAAGTTTCTCGTTGCAGCGAGATTCAATCTCGCTGCAGCGAAATTGCAACCCAA
Found at i:13192538 original size:21 final size:20
Alignment explanation
Indices: 13192510--13192553 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
13192500 CAAAAAACAG
*
13192510 AATTATTCTCGTTGCAGCGA
1 AATTATTCTCGCTGCAGCGA
13192530 AATTCATTCTCGCTGCAGCGA
1 AATT-ATTCTCGCTGCAGCGA
13192551 AAT
1 AAT
13192554 GCTACAGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (20 bp):
AATTATTCTCGCTGCAGCGA
Found at i:13192971 original size:38 final size:39
Alignment explanation
Indices: 13192876--13192978 Score: 131
Period size: 38 Copynumber: 2.6 Consensus size: 39
13192866 TCCCGGCTCA
13192876 TGTACATCCCCCCACATCGTGCAC-ATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACAATAG-CGG-ACCATCG
* * *
13192916 TGTGCATCCCCCCACATCGTGCACAATTAG-TG-CCATTG
1 TGTACATCCCCCCACATCGTGCACAA-TAGCGGACCATCG
13192954 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
13192979 CGGGCACTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
38 29 0.51
40 24 0.42
41 1 0.02
42 3 0.05
ACGTcount: A:0.22, C:0.40, G:0.17, T:0.21
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACAATAGCGGACCATCG
Found at i:13195280 original size:12 final size:12
Alignment explanation
Indices: 13195263--13195287 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13195253 CTATTTTGGG
13195263 AACGTTATATAT
1 AACGTTATATAT
13195275 AACGTTATATAT
1 AACGTTATATAT
13195287 A
1 A
13195288 TATATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
AACGTTATATAT
Found at i:13195285 original size:2 final size:2
Alignment explanation
Indices: 13195280--13195306 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13195270 TATATAACGT
13195280 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13195307 TCTTGGTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13198816 original size:36 final size:35
Alignment explanation
Indices: 13198758--13198826 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
13198748 TGTATTTTCA
*
13198758 AAATAAAAGTTATATCTCTTCATATGAAAAGTTTG
1 AAATAAAAGTTATATCTCTTCATATAAAAAGTTTG
* * *
13198793 AAATGAAAAGTTATGTTTTTTCATATAAAAAGTT
1 AAAT-AAAAGTTATATCTCTTCATATAAAAAGTT
13198827 GTGACTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (35 bp):
AAATAAAAGTTATATCTCTTCATATAAAAAGTTTG
Found at i:13204008 original size:16 final size:17
Alignment explanation
Indices: 13203984--13204020 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
13203974 TTTAAATAGA
13203984 AAAATACAACT-AAC-T
1 AAAATACAACTCAACTT
13203999 AAAATAACAACTCAACTT
1 AAAAT-ACAACTCAACTT
13204017 AAAA
1 AAAA
13204021 AGATATAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 6 0.32
17 3 0.16
18 5 0.26
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAATACAACTCAACTT
Found at i:13206660 original size:21 final size:18
Alignment explanation
Indices: 13206619--13206663 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
13206609 TATAAATCTC
*
13206619 ATTTTTATTAAAAAAAAT
1 ATTTTAATTAAAAAAAAT
13206637 ATTTTAATTGAAAAACATAAT
1 ATTTTAATT-AAAAA-A-AAT
13206658 ATTTTA
1 ATTTTA
13206664 TAATTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 5 0.22
20 1 0.04
21 9 0.39
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTTTAATTAAAAAAAAT
Found at i:13208006 original size:19 final size:19
Alignment explanation
Indices: 13207982--13208019 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13207972 ACTTCTAAAC
13207982 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13208001 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13208020 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13210894 original size:86 final size:85
Alignment explanation
Indices: 13210748--13210919 Score: 335
Period size: 86 Copynumber: 2.0 Consensus size: 85
13210738 AGGCACAATT
13210748 TCCTTTGATGTAAATCTTTTCGAAAAGCTTGTTTTGCCGGTTTAAAACACTTTACGTATAATATA
1 TCCTTTGATGTAAATCTTTTCGAAAAGCTTGTTTTGCCGGTTTAAAACACTTTACGTATAATATA
13210813 TATATATTCCAAATAATTTC
66 TATATATTCCAAATAATTTC
13210833 TNCCTTTGATGTAAATCTTTTCGAAAAGCTTGTTTTGCCGGTTTAAAACACTTTACGTATAATAT
1 T-CCTTTGATGTAAATCTTTTCGAAAAGCTTGTTTTGCCGGTTTAAAACACTTTACGTATAATAT
13210898 ATATATATTCCAAATAATTTC
65 ATATATATTCCAAATAATTTC
13210919 T
1 T
13210920 AAAAATAACT
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 1 0.01
86 85 0.99
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.42
Consensus pattern (85 bp):
TCCTTTGATGTAAATCTTTTCGAAAAGCTTGTTTTGCCGGTTTAAAACACTTTACGTATAATATA
TATATATTCCAAATAATTTC
Found at i:13211015 original size:2 final size:2
Alignment explanation
Indices: 13211008--13211041 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13210998 TACATACATG
13211008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13211042 CGAAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13215063 original size:25 final size:27
Alignment explanation
Indices: 13215005--13215065 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 27
13214995 TTTTTCAAAT
13215005 TTTTTTTCCTATTTGGGCCATGCCCAC
1 TTTTTTTCCTATTTGGGCCATGCCCAC
*
13215032 TTATTTT-CTA-TTGGGCCATGCCCATTC
1 TTTTTTTCCTATTTGGGCCATGCCCA--C
13215059 TTTTTTT
1 TTTTTTT
13215066 TTTCTTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 14 0.47
26 3 0.10
27 13 0.43
ACGTcount: A:0.11, C:0.25, G:0.13, T:0.51
Consensus pattern (27 bp):
TTTTTTTCCTATTTGGGCCATGCCCAC
Found at i:13215077 original size:16 final size:16
Alignment explanation
Indices: 13215056--13215086 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13215046 GCCATGCCCA
*
13215056 TTCTTTTTTTTTTCTT
1 TTCTTTTCTTTTTCTT
13215072 TTCTTTTCTTTTTCT
1 TTCTTTTCTTTTTCT
13215087 CTCTTCCACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTCTTTTCTTTTTCTT
Found at i:13215350 original size:58 final size:58
Alignment explanation
Indices: 13215243--13215355 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 58
13215233 AATTGGTAAC
* * * *
13215243 AACAGCTCCAATTTTTCTATACAAATTGGCAGCAAGCGGCTCTATTTTTTCTGCAGCA
1 AACAGCTCCAATTTTTCTATACAAATTGGCAACAAGCAGCTCCAATTTTTCTGCAGCA
* * **
13215301 AACAGCTCCAATTTTTTTGTACAAATTGGCAACAATTAGCTCCAATTTTTCTGCA
1 AACAGCTCCAATTTTTCTATACAAATTGGCAACAAGCAGCTCCAATTTTTCTGCA
13215356 TCCAAAATCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (58 bp):
AACAGCTCCAATTTTTCTATACAAATTGGCAACAAGCAGCTCCAATTTTTCTGCAGCA
Found at i:13215423 original size:23 final size:23
Alignment explanation
Indices: 13215397--13215442 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13215387 TCAGCAATTA
13215397 ACCTCAAAAAAATCAGCTTTCTT
1 ACCTCAAAAAAATCAGCTTTCTT
***
13215420 ACCTCAAAATTTTCAGCTTTCTT
1 ACCTCAAAAAAATCAGCTTTCTT
13215443 CTTCCTCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (23 bp):
ACCTCAAAAAAATCAGCTTTCTT
Found at i:13215559 original size:16 final size:16
Alignment explanation
Indices: 13215540--13215581 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
13215530 CTTTCTCTCC
13215540 CTTTTTCTCTTCATTT
1 CTTTTTCTCTTCATTT
*
13215556 CTTTCTTC-CTTTATTT
1 CTTT-TTCTCTTCATTT
13215572 -TTTTTCTCTT
1 CTTTTTCTCTT
13215582 TTTCTTCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 3 0.13
15 6 0.26
16 11 0.48
17 3 0.13
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (16 bp):
CTTTTTCTCTTCATTT
Found at i:13215825 original size:2 final size:2
Alignment explanation
Indices: 13215818--13215870 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
13215808 TTATTGTTAT
13215818 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13215860 TA TA TA TA TA T
1 TA TA TA TA TA T
13215871 TCAGGTTACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13221264 original size:2 final size:2
Alignment explanation
Indices: 13221257--13221283 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13221247 TACAATTTAA
13221257 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13221284 CATCATCCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13235499 original size:286 final size:285
Alignment explanation
Indices: 13234987--13235511 Score: 881
Period size: 286 Copynumber: 1.8 Consensus size: 285
13234977 AGTTTTTATT
* * *
13234987 TATATATGACCTCACATGGCATGATTCATGAAGTTGACTGAAATTATATAATTGCCATACTTGGA
1 TATATATGACCTCACATGGCATGAATCATGAAGTTGACTGAAATTATATAATTCCCATACTTGAA
* * * *
13235052 CTAGTGAACCATTAAACTACATTAAGGACTTGAGGTTCCTTCAAGGGGAAAATTTTAAGCACCAA
66 CCAATGAACCATTAAACTACATTAAGGACATGAGGTTCCTTCAACGGGAAAATTTTAAGCACCAA
* *
13235117 TCAAGCTAAGTTGTCATGACAATATTTTTCATATCTTTAGTGCATTGATAGCCTTAAATAAATTC
131 TCAAACTAAGTTGTCATAACAATATTTTTCATATCTTTAGTGCATTGATAGCCTTAAATAAATTC
*
13235182 CAATTTATGTATTTCCTGAGGAAGGAAGACTTACAACAGGTTGCCGTCTATATATATATATGACC
196 CAATTTAAGTATTTCCTGAGGAAGGAAGACTTACAACAGGTTGCCGTCTATATATATATATGACC
13235247 TCACATGGCATGAATCATNCTAATTA
261 TCACATGGCATGAATCAT-CTAATTA
13235273 TATATATGACCTCACATGGCATGAATCATGAAGTTGACTGAAATTATATAATTCCCATACTTGAA
1 TATATATGACCTCACATGGCATGAATCATGAAGTTGACTGAAATTATATAATTCCCATACTTGAA
* * *
13235338 CCAATGAACCATTAAATTACATTAAGGACATGAGGTTCCTTTAACGGGAAAATTTTAAGCACTAA
66 CCAATGAACCATTAAACTACATTAAGGACATGAGGTTCCTTCAACGGGAAAATTTTAAGCACCAA
*
13235403 TCAAACTACGTTGTCATAACAATATTTTTCATATCTTTAGTGCATTGATAG-CTCTAAATAAATT
131 TCAAACTAAGTTGTCATAACAATATTTTTCATATCTTTAGTGCATTGATAGCCT-TAAATAAATT
* *
13235467 CCAATTTAAGTTTTTTCTGAGGAAGGAAGACTTACAACAGGTTGC
195 CCAATTTAAGTATTTCCTGAGGAAGGAAGACTTACAACAGGTTGC
13235512 ATTCTATTTT
Statistics
Matches: 222, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
285 2 0.01
286 220 0.99
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (285 bp):
TATATATGACCTCACATGGCATGAATCATGAAGTTGACTGAAATTATATAATTCCCATACTTGAA
CCAATGAACCATTAAACTACATTAAGGACATGAGGTTCCTTCAACGGGAAAATTTTAAGCACCAA
TCAAACTAAGTTGTCATAACAATATTTTTCATATCTTTAGTGCATTGATAGCCTTAAATAAATTC
CAATTTAAGTATTTCCTGAGGAAGGAAGACTTACAACAGGTTGCCGTCTATATATATATATGACC
TCACATGGCATGAATCATCTAATTA
Found at i:13239451 original size:19 final size:20
Alignment explanation
Indices: 13239423--13239460 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13239413 TTCTAAAATC
*
13239423 TTTTACTTTTAA-ATTTATT
1 TTTTAATTTTAATATTTATT
13239442 TTTTAATTTTAATATTTAT
1 TTTTAATTTTAATATTTAT
13239461 CATTACACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTAATTTTAATATTTATT
Found at i:13240025 original size:22 final size:20
Alignment explanation
Indices: 13240000--13240047 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
13239990 CTTTCAATTT
*
13240000 ATTTTTTATTAAAATATTAGTA
1 ATTTTTTATT-AAATAATA-TA
*
13240022 ATTTATTATTAAATAATATA
1 ATTTTTTATTAAATAATATA
13240042 ATTTTT
1 ATTTTT
13240048 ATTTTAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTTTTATTAAATAATATA
Found at i:13247951 original size:74 final size:75
Alignment explanation
Indices: 13247862--13248009 Score: 235
Period size: 74 Copynumber: 2.0 Consensus size: 75
13247852 TTTTACCATT
13247862 GTTCTTGTAAAGGTAACAGTATTTAATTTTCAATAAAAAGACAATACAATTCTTATAATTTTCA-
1 GTTCTTGTAAAGGTAACAGTATTTAATTTTCAATAAAAAGACAATACAATTCTTATAATTTTCAT
*
13247926 CTAAAAGACC
66 CAAAAAGACC
* * * * *
13247936 GTTCTTGTAAAGGTAATAGTATTTAATTTTCCATAAAAAGACAATATAGTTTTTATAATTTTCAT
1 GTTCTTGTAAAGGTAACAGTATTTAATTTTCAATAAAAAGACAATACAATTCTTATAATTTTCAT
13248001 CAAAAAGAC
66 CAAAAAGAC
13248010 AACAAGATCT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
74 59 0.88
75 8 0.12
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.37
Consensus pattern (75 bp):
GTTCTTGTAAAGGTAACAGTATTTAATTTTCAATAAAAAGACAATACAATTCTTATAATTTTCAT
CAAAAAGACC
Found at i:13248023 original size:32 final size:32
Alignment explanation
Indices: 13247959--13248024 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
13247949 TAATAGTATT
* *
13247959 TAATTTTCCATAAAAAGACAATATAGTTTTTA
1 TAATTTTCCATAAAAAGACAACATAGTCTTTA
13247991 TAATTTT-CATCAAAAAGACAACA-AGATCTTTA
1 TAATTTTCCAT-AAAAAGACAACATAG-TCTTTA
13248023 TA
1 TA
13248025 TTTGAAAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 5 0.17
32 25 0.83
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (32 bp):
TAATTTTCCATAAAAAGACAACATAGTCTTTA
Found at i:13254825 original size:74 final size:74
Alignment explanation
Indices: 13254704--13254850 Score: 240
Period size: 74 Copynumber: 2.0 Consensus size: 74
13254694 ATTCAAATTT
* * * *
13254704 AAATTCTTTGACAGTGAGCTTTTAGCTGGCTAATCATACTTCTTAGTCGATTAAGTTTTCTCTAT
1 AAATTCTTTGACAGTGAGCTTTTACCTGGCTAACCACACTTCTTAGTCGATTAAGTCTTCTCTAT
13254769 CTCGCAATC
66 CTCGCAATC
* *
13254778 AAATTCTTTGACAGTGAGCTTTTACCTGGCTAACCACACTTCTTAGTCGATTAAGTCTTCTTTGT
1 AAATTCTTTGACAGTGAGCTTTTACCTGGCTAACCACACTTCTTAGTCGATTAAGTCTTCTCTAT
13254843 CTCGCAAT
66 CTCGCAAT
13254851 TTGCTTTACT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (74 bp):
AAATTCTTTGACAGTGAGCTTTTACCTGGCTAACCACACTTCTTAGTCGATTAAGTCTTCTCTAT
CTCGCAATC
Found at i:13280939 original size:17 final size:18
Alignment explanation
Indices: 13280904--13280940 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13280894 CTGTCTCCTG
13280904 TTTATTTTTTGTTTAATT
1 TTTATTTTTTGTTTAATT
*
13280922 TTTATTTTTT-TTTCATT
1 TTTATTTTTTGTTTAATT
13280939 TT
1 TT
13280941 AAAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTATTTTTTGTTTAATT
Found at i:13281290 original size:18 final size:19
Alignment explanation
Indices: 13281260--13281297 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13281250 GACCAATTAT
13281260 AGAACAAATCAACAA-CTC
1 AGAACAAATCAACAAGCTC
13281278 AGAA-AAATCCAACAAGCTC
1 AGAACAAAT-CAACAAGCTC
13281297 A
1 A
13281298 CCGTACACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.55, C:0.26, G:0.08, T:0.11
Consensus pattern (19 bp):
AGAACAAATCAACAAGCTC
Found at i:13282568 original size:42 final size:42
Alignment explanation
Indices: 13282509--13282594 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
13282499 ACACCACCTA
13282509 CTCAATATATTTCTGCTTACAATCAACTAAGAAAAACTCATG
1 CTCAATATATTTCTGCTTACAATCAACTAAGAAAAACTCATG
13282551 CTCAATATATTTCTGCTTACAATCAACTAAGAAAAACTCATG
1 CTCAATATATTTCTGCTTACAATCAACTAAGAAAAACTCATG
13282593 CT
1 CT
13282595 TTCTCCTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (42 bp):
CTCAATATATTTCTGCTTACAATCAACTAAGAAAAACTCATG
Found at i:13288274 original size:15 final size:16
Alignment explanation
Indices: 13288254--13288286 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13288244 TTATTGATTC
*
13288254 TTATGTA-GTTTTTGT
1 TTATGTATGCTTTTGT
13288269 TTATGTATGCTTTTGT
1 TTATGTATGCTTTTGT
13288285 TT
1 TT
13288287 TTAAGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.12, C:0.03, G:0.18, T:0.67
Consensus pattern (16 bp):
TTATGTATGCTTTTGT
Found at i:13303638 original size:20 final size:20
Alignment explanation
Indices: 13303613--13303658 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
13303603 CTTCTAAACC
13303613 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
* *
13303633 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCCAATAAG
13303653 TCAAAT
1 TCAAAT
13303659 GGGGCCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:13311878 original size:36 final size:36
Alignment explanation
Indices: 13311823--13311895 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
13311813 TTCAACAGGG
* * *
13311823 TTAGATGTAATCTTTACAACATGTTTTTTAATAGGA
1 TTAGATGTAACCTTCACAACATGTCTTTTAATAGGA
* *
13311859 TTAGGTGTAACCTTCACAACATGTCTTTTCATAGGA
1 TTAGATGTAACCTTCACAACATGTCTTTTAATAGGA
13311895 T
1 T
13311896 CAAGCGAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (36 bp):
TTAGATGTAACCTTCACAACATGTCTTTTAATAGGA
Found at i:13313202 original size:22 final size:22
Alignment explanation
Indices: 13313150--13313202 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
13313140 TTATGCGGAT
*
13313150 TTTATTCATGTTCAAAAACATC
1 TTTATTCATGTTCAAAAACATA
*
13313172 TTTCATTCATTTTC-AAAACATA
1 TTT-ATTCATGTTCAAAAACATA
13313194 TTTAGTTCA
1 TTTA-TTCA
13313203 ATCAATTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 17 0.63
23 9 0.33
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (22 bp):
TTTATTCATGTTCAAAAACATA
Found at i:13319774 original size:33 final size:36
Alignment explanation
Indices: 13319730--13319811 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 36
13319720 CGTATTCTTT
* *
13319730 TCCTCTGTCAGCCACCCTTCC-TCCG-TG-TTCATC
1 TCCTCTCTCAGCCACCCGTCCTTCCGTTGCTTCATC
*
13319763 TCCTCTCTCAGCCAGCCGTCCTTCCGTTGTCTTCATC
1 TCCTCTCTCAGCCACCCGTCCTTCCGTTG-CTTCATC
13319800 TCCTCTCTCAGC
1 TCCTCTCTCAGC
13319812 TGGTCGTCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 18 0.43
34 4 0.10
35 2 0.05
37 18 0.43
ACGTcount: A:0.09, C:0.45, G:0.12, T:0.34
Consensus pattern (36 bp):
TCCTCTCTCAGCCACCCGTCCTTCCGTTGCTTCATC
Found at i:13319875 original size:35 final size:34
Alignment explanation
Indices: 13319827--13319927 Score: 100
Period size: 35 Copynumber: 3.0 Consensus size: 34
13319817 GTCTTCCTCT
*
13319827 CTCTCAACGGTGGGTCTTCCCCTTTCTCTCAGCCG
1 CTCTC-ACCGTGGGTCTTCCCCTTTCTCTCAGCCG
* * * **
13319862 CTCTCACCCGTGGGTCTGCCCCTCTCTCTCAACTT
1 CTCTCA-CCGTGGGTCTTCCCCTTTCTCTCAGCCG
*
13319897 CTCTCACC-T--GTCTTCCCCTTTCTCTCCGCCG
1 CTCTCACCGTGGGTCTTCCCCTTTCTCTCAGCCG
13319928 TCCATAGTCG
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
31 16 0.30
33 1 0.02
34 3 0.06
35 33 0.62
ACGTcount: A:0.07, C:0.46, G:0.15, T:0.33
Consensus pattern (34 bp):
CTCTCACCGTGGGTCTTCCCCTTTCTCTCAGCCG
Found at i:13321570 original size:16 final size:16
Alignment explanation
Indices: 13321549--13321580 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13321539 TAATAACTAG
*
13321549 TTTATTTTATTTTCAC
1 TTTATTCTATTTTCAC
13321565 TTTATTCTATTTTCAC
1 TTTATTCTATTTTCAC
13321581 ATAATATCAA
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:0.19, C:0.16, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATTCTATTTTCAC
Found at i:13333391 original size:2 final size:2
Alignment explanation
Indices: 13333384--13333427 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
13333374 AAAAGGGGAA
13333384 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13333426 AG
1 AG
13333428 CTTTCAATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13339611 original size:20 final size:21
Alignment explanation
Indices: 13339568--13339621 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
13339558 ACTCTTGCGA
13339568 AACATAAAAATAAATATATAT
1 AACATAAAAATAAATATATAT
*
13339589 AACATAAAACTAACAT-TAT-T
1 AACATAAAAATAA-ATATATAT
*
13339609 AAC-TTAAAATAAA
1 AACATAAAAATAAA
13339622 CATTCAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.03
19 7 0.24
20 4 0.14
21 15 0.52
22 2 0.07
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (21 bp):
AACATAAAAATAAATATATAT
Found at i:13339623 original size:20 final size:21
Alignment explanation
Indices: 13339568--13339625 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
13339558 ACTCTTGCGA
*
13339568 AACATAAAAATAAATA-TATAT
1 AACAT-AAAATAAACATTATAT
13339589 AACATAAAACT-AACATTAT-T
1 AACATAAAA-TAAACATTATAT
*
13339609 AACTTAAAATAAACATT
1 AACATAAAATAAACATT
13339626 CAAAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 1 0.03
20 22 0.69
21 9 0.28
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.29
Consensus pattern (21 bp):
AACATAAAATAAACATTATAT
Found at i:13351023 original size:24 final size:25
Alignment explanation
Indices: 13350996--13351045 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
13350986 GTTGTGCTCA
*
13350996 AATCT-GCTTGTTATGCGGTGAGCC
1 AATCTGGCTTGTTATGCGGTAAGCC
*
13351020 AATCTGGCTTGTTATGCTGTAAGCC
1 AATCTGGCTTGTTATGCGGTAAGCC
13351045 A
1 A
13351046 GTTTGTTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (25 bp):
AATCTGGCTTGTTATGCGGTAAGCC
Found at i:13351530 original size:35 final size:35
Alignment explanation
Indices: 13351488--13351593 Score: 140
Period size: 39 Copynumber: 2.9 Consensus size: 35
13351478 AAGGTTAGGT
* * * *
13351488 GTAACCTTTACAATATGCCTTTTGCAAGATCAGAC
1 GTAACCTTTACAACATTCTTTTTACAAGATCAGAC
13351523 GTAACCTTTACAACATTCTTTTTACAAGATCAATCAGAC
1 GTAACCTTTACAACATTCTTTTTACAAG----ATCAGAC
13351562 GTAACCTTTACAACATTCTTTTTACAAGATCA
1 GTAACCTTTACAACATTCTTTTTACAAGATCA
13351594 AGCATAACCT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
35 28 0.44
39 35 0.56
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (35 bp):
GTAACCTTTACAACATTCTTTTTACAAGATCAGAC
Found at i:13351570 original size:39 final size:39
Alignment explanation
Indices: 13351516--13351594 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
13351506 CTTTTGCAAG
13351516 ATCAGACGTAACCTTTACAACATTCTTTTTACAAGATCA
1 ATCAGACGTAACCTTTACAACATTCTTTTTACAAGATCA
13351555 ATCAGACGTAACCTTTACAACATTCTTTTTACAAGATCA
1 ATCAGACGTAACCTTTACAACATTCTTTTTACAAGATCA
13351594 A
1 A
13351595 GCATAACCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (39 bp):
ATCAGACGTAACCTTTACAACATTCTTTTTACAAGATCA
Found at i:13352265 original size:7 final size:7
Alignment explanation
Indices: 13352253--13352277 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13352243 AATTTTTTTG
13352253 CCTAAAC
1 CCTAAAC
13352260 CCTAAAC
1 CCTAAAC
13352267 CCTAAAC
1 CCTAAAC
13352274 CCTA
1 CCTA
13352278 TAAAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (7 bp):
CCTAAAC
Found at i:13364652 original size:36 final size:36
Alignment explanation
Indices: 13364543--13364803 Score: 164
Period size: 36 Copynumber: 7.2 Consensus size: 36
13364533 TCTCACTAGC
* *
13364543 TCATGTGCACTCCCACACCGCACATAGC-TAGAATCA
1 TCATGTGCACTCCCACACCGCACATGGCATA-TATCA
* * *
13364579 TCCTGTGCACTCCCACACCGCATAAGGCA-ATATCA
1 TCATGTGCACTCCCACACCGCACATGGCATATATCA
* * *
13364614 TCATGTGCACTCTCGCATCGCACATGGCATATATCA
1 TCATGTGCACTCCCACACCGCACATGGCATATATCA
* * * *
13364650 TCAGTGTGTGCACT--CACACAGCACA--CCACTATCACCG
1 TCA---TGTGCACTCCCACACCGCACATGGCA-TAT-ATCA
*
13364687 TCATGTGCACTCCCACACCGTACATGGCATATATCA
1 TCATGTGCACTCCCACACCGCACATGGCATATATCA
** * * * *
13364723 TCAGTGTGTGCACTTACACAACACACCACT-G--T-CACCA
1 TCA---TGTGCACTCCCACACCGCA-CA-TGGCATATATCA
*
13364760 TCATGTGCACTCTCACACCGCACATGGCATATATCA
1 TCATGTGCACTCCCACACCGCACATGGCATATATCA
13364796 TCAATGTG
1 TC-ATGTG
13364804 TGCACTCACG
Statistics
Matches: 169, Mismatches: 35, Indels: 41
0.69 0.14 0.17
Matches are distributed among these distances:
32 1 0.01
33 3 0.02
34 23 0.14
35 30 0.18
36 56 0.33
37 27 0.16
38 3 0.02
39 22 0.13
40 3 0.02
41 1 0.01
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATGGCATATATCA
Found at i:13364664 original size:39 final size:38
Alignment explanation
Indices: 13364582--13364812 Score: 132
Period size: 39 Copynumber: 6.3 Consensus size: 38
13364572 AGAATCATCC
* * *
13364582 TGTGCACTCCCACACCGCATAAGGCA-ATATCATCA---
1 TGTGCACTCACACA-CGCACATGGCATATATCATCAGTG
* *
13364617 TGTGCACTCTCGCATCGCACATGGCATATATCATCAGTG
1 TGTGCACTCACACA-CGCACATGGCATATATCATCAGTG
* * * *
13364656 TGTGCACTCACACA-GCACA--CCA-CTATCA-CCGTCA
1 TGTGCACTCACACACGCACATGGCATATATCATCAGT-G
* *
13364690 TGTGCACTCCCACACCGTACATGGCATATATCATCAGTG
1 TGTGCACTCACACA-CGCACATGGCATATATCATCAGTG
* * * * *
13364729 TGTGCACTTACACA-ACACA--CCACTGTCACCATCA---
1 TGTGCACTCACACACGCACATGGCA-TAT-ATCATCAGTG
* *
13364763 TGTGCACTCTCACACCGCACATGGCATATATCATCAATG
1 TGTGCACTCACACA-CGCACATGGCATATATCATCAGTG
13364802 TGTGCACTCAC
1 TGTGCACTCAC
13364813 GTAGCACACC
Statistics
Matches: 145, Mismatches: 31, Indels: 36
0.68 0.15 0.17
Matches are distributed among these distances:
33 3 0.02
34 30 0.21
35 25 0.17
36 25 0.17
37 16 0.11
38 4 0.03
39 39 0.27
40 3 0.02
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (38 bp):
TGTGCACTCACACACGCACATGGCATATATCATCAGTG
Found at i:13364694 original size:34 final size:34
Alignment explanation
Indices: 13364656--13364849 Score: 88
Period size: 34 Copynumber: 5.4 Consensus size: 34
13364646 ATCATCAGTG
13364656 TGTGCACTCACACAGCACACCACTATCACCGTCA
1 TGTGCACTCACACAGCACACCACTATCACCGTCA
* * * * * *
13364690 TGTGCACTCCCACACCGTACATGGCATATATCATCAGT-G
1 TGTGCACT--CACACAGCACA--CCA-CTATCA-CCGTCA
* * * *
13364729 TGTGCACTTACACAACACACCACTGTCACCATCA
1 TGTGCACTCACACAGCACACCACTATCACCGTCA
* * * *
13364763 TGTGCACTCTCACACCGCACATGGCA-TAT-ATCATCAA
1 TGTGCA--CTCACACAGCACA--CCACTATCACCGTC-A
** *
13364800 TGTGTGCACTCACGTAGCACACCATTATCACCGTCA
1 --TGTGCACTCACACAGCACACCACTATCACCGTCA
*
13364836 TGTGCACTCCCACA
1 TGTGCACTCACACA
13364850 CCGCACATGC
Statistics
Matches: 113, Mismatches: 31, Indels: 32
0.64 0.18 0.18
Matches are distributed among these distances:
33 2 0.02
34 29 0.26
35 4 0.04
36 28 0.25
37 24 0.21
38 4 0.04
39 19 0.17
40 3 0.03
ACGTcount: A:0.28, C:0.36, G:0.14, T:0.23
Consensus pattern (34 bp):
TGTGCACTCACACAGCACACCACTATCACCGTCA
Found at i:13364712 original size:73 final size:73
Alignment explanation
Indices: 13364614--13364858 Score: 373
Period size: 73 Copynumber: 3.4 Consensus size: 73
13364604 GGCAATATCA
* * *
13364614 TCATGTGCACTCTCGCATCGCACATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCAC
1 TCATGTGCACTCCCACACCGCACATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCAC
13364679 TATCACCG
66 TATCACCG
* * *
13364687 TCATGTGCACTCCCACACCGTACATGGCATATATCATCAGTGTGTGCACTTACACAACACACCAC
1 TCATGTGCACTCCCACACCGCACATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCAC
* *
13364752 TGTCACCA
66 TATCACCG
* * ** *
13364760 TCATGTGCACTCTCACACCGCACATGGCATATATCATCAATGTGTGCACTCACGTAGCACACCAT
1 TCATGTGCACTCCCACACCGCACATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCAC
13364825 TATCACCG
66 TATCACCG
13364833 TCATGTGCACTCCCACACCGCACATG
1 TCATGTGCACTCCCACACCGCACATG
13364859 CACGGTTACA
Statistics
Matches: 153, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 153 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (73 bp):
TCATGTGCACTCCCACACCGCACATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCAC
TATCACCG
Found at i:13369310 original size:29 final size:29
Alignment explanation
Indices: 13369268--13369355 Score: 158
Period size: 29 Copynumber: 3.0 Consensus size: 29
13369258 TCTGAATAAA
* *
13369268 TTTCACTTGAGCCATTGTAATTTTATGTT
1 TTTCACTTGAGCCATTGCAATTCTATGTT
13369297 TTTCACTTGAGCCATTGCAATTCTATGTT
1 TTTCACTTGAGCCATTGCAATTCTATGTT
13369326 TTTCACTTGAGCCATTGCAATTCTATGTT
1 TTTCACTTGAGCCATTGCAATTCTATGTT
13369355 T
1 T
13369356 ACTCCTCTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (29 bp):
TTTCACTTGAGCCATTGCAATTCTATGTT
Found at i:13373278 original size:9 final size:10
Alignment explanation
Indices: 13373260--13373285 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13373250 CGAGTTATGA
13373260 TAATTTTTTT
1 TAATTTTTTT
13373270 TAATTTTTTT
1 TAATTTTTTT
13373280 TAATTT
1 TAATTT
13373286 GGGGAAGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TAATTTTTTT
Found at i:13374799 original size:6 final size:6
Alignment explanation
Indices: 13374788--13374827 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
13374778 ATATTAATAA
* *
13374788 CTTTTT CTTTTT CTTTTT CTTTTC CTTTTT CTTTTA CTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTT
13374828 GGAATCTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (6 bp):
CTTTTT
Found at i:13375292 original size:21 final size:21
Alignment explanation
Indices: 13375253--13375298 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
13375243 CATTAATAGT
* * *
13375253 CTTTTATATATATACAATTGA
1 CTTTTATATATAGAAAATTAA
*
13375274 CTTTTATTTATAGAAAATTAA
1 CTTTTATATATAGAAAATTAA
13375295 CTTT
1 CTTT
13375299 ACACTTTAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (21 bp):
CTTTTATATATAGAAAATTAA
Found at i:13376128 original size:19 final size:19
Alignment explanation
Indices: 13376104--13376169 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
13376094 CATGATGCAC
*
13376104 GTTCTTCCATAATGGACTT
1 GTTCTTCCATAATGGACAT
* * *
13376123 GTTCTTCCCTTGATGAACAT
1 GTTCTT-CCATAATGGACAT
*
13376143 GTTCTTCCATAATGGACGT
1 GTTCTTCCATAATGGACAT
*
13376162 ATTCTTCC
1 GTTCTTCC
13376170 CTTGATAAAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 22 0.59
20 15 0.41
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (19 bp):
GTTCTTCCATAATGGACAT
Found at i:13376147 original size:20 final size:20
Alignment explanation
Indices: 13376122--13376189 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
13376112 ATAATGGACT
13376122 TGTTCTTCCCTTGATGAACA
1 TGTTCTTCCCTTGATGAACA
* * * *
13376142 TGTTCTT-CCATAATGGACG
1 TGTTCTTCCCTTGATGAACA
* *
13376161 TATTCTTCCCTTGATAAACA
1 TGTTCTTCCCTTGATGAACA
*
13376181 TGTTTTTCC
1 TGTTCTTCC
13376190 TAAACATGTT
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
19 14 0.40
20 21 0.60
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.43
Consensus pattern (20 bp):
TGTTCTTCCCTTGATGAACA
Found at i:13376148 original size:39 final size:39
Alignment explanation
Indices: 13376104--13376189 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
13376094 CATGATGCAC
* * *
13376104 GTTCTTCCATAATGGACTTGTTCTTCCCTTGATGAACAT
1 GTTCTTCCATAATGGACGTATTCTTCCCTTGATAAACAT
13376143 GTTCTTCCATAATGGACGTATTCTTCCCTTGATAAACAT
1 GTTCTTCCATAATGGACGTATTCTTCCCTTGATAAACAT
*
13376182 GTTTTTCC
1 GTTCTTCC
13376190 TAAACATGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (39 bp):
GTTCTTCCATAATGGACGTATTCTTCCCTTGATAAACAT
Found at i:13376195 original size:15 final size:15
Alignment explanation
Indices: 13376175--13376204 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13376165 CTTCCCTTGA
*
13376175 TAAACATGTTTTTCC
1 TAAACATGTTCTTCC
13376190 TAAACATGTTCTTCC
1 TAAACATGTTCTTCC
13376205 CATGACGTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (15 bp):
TAAACATGTTCTTCC
Found at i:13377942 original size:39 final size:39
Alignment explanation
Indices: 13377869--13377966 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 39
13377859 GAACGTGTTC
* * * *
13377869 TTCCATAACGGACTTGTTCTTCCCTTGATGAACATATTT
1 TTCCATAAAGGACATGTTCTTCCCTTAATAAACATATTT
* * *
13377908 TTCCATAAAGGACATGTTCTTTCTTTAATAAACATGTTT
1 TTCCATAAAGGACATGTTCTTCCCTTAATAAACATATTT
13377947 TTCC-T-AA--ACATGTTCTTCCC
1 TTCCATAAAGGACATGTTCTTCCC
13377967 ATGATGTTCA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
35 11 0.22
37 2 0.04
38 1 0.02
39 36 0.72
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (39 bp):
TTCCATAAAGGACATGTTCTTCCCTTAATAAACATATTT
Found at i:13377956 original size:15 final size:15
Alignment explanation
Indices: 13377936--13377965 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13377926 CTTTCTTTAA
*
13377936 TAAACATGTTTTTCC
1 TAAACATGTTCTTCC
13377951 TAAACATGTTCTTCC
1 TAAACATGTTCTTCC
13377966 CATGATGTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (15 bp):
TAAACATGTTCTTCC
Found at i:13380321 original size:23 final size:23
Alignment explanation
Indices: 13380295--13380354 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
13380285 TGAGCTGGTG
* * *
13380295 ATGATAATGATGTGACGGTGTGT
1 ATGATAATGATGGGACGATGTGC
* *
13380318 ATGATGATGATGGGATGATGTGC
1 ATGATAATGATGGGACGATGTGC
13380341 ATGATAATGATGGG
1 ATGATAATGATGGG
13380355 TATACGTATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.28, C:0.03, G:0.37, T:0.32
Consensus pattern (23 bp):
ATGATAATGATGGGACGATGTGC
Found at i:13389380 original size:19 final size:20
Alignment explanation
Indices: 13389356--13389395 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13389346 TCAGATTTCA
13389356 TTTTAA-AATAAAATAAAAT
1 TTTTAATAATAAAATAAAAT
* *
13389375 TTTTAATAATTAATTAAAAT
1 TTTTAATAATAAAATAAAAT
13389395 T
1 T
13389396 AAATTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTAATAATAAAATAAAAT
Found at i:13390160 original size:2 final size:2
Alignment explanation
Indices: 13390153--13390221 Score: 104
Period size: 2 Copynumber: 34.5 Consensus size: 2
13390143 GGCAAGAATG
* *
13390153 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TN GA -A TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
13390195 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13390222 TTCTATGTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
1 1 0.02
2 59 0.95
3 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13393084 original size:60 final size:61
Alignment explanation
Indices: 13393011--13393189 Score: 199
Period size: 60 Copynumber: 3.0 Consensus size: 61
13393001 AGACATCATC
* * *
13393011 ACCTACTCGTGGGAACTGCCCACACCACAAGATGAATCGGGGCTTCAGGTC-CCCTTTTTT
1 ACCTACTCGTGGGAACTGCCCACACCACAAGATAAATCGAGGCTTCAAGTCTCCCTTTTTT
* *
13393071 ACCTACTCGTGGGAACTGCCCACGCCACCAGATAAATCGAGGCTTCAAGTCTCCC---TTT
1 ACCTACTCGTGGGAACTGCCCACACCACAAGATAAATCGAGGCTTCAAGTCTCCCTTTTTT
* * * * *
13393129 ACCTAC-CGTAGGAGCTACCCACGTCACCA-AATATAAATCGAGGCTTCAGGTCTCCCTTTTT
1 ACCTACTCGTGGGAACTGCCCA---CACCACAAGATAAATCGAGGCTTCAAGTCTCCCTTTTT
13393190 ACAAACAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
57 12 0.12
58 9 0.09
59 24 0.24
60 50 0.50
61 3 0.03
62 2 0.02
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (61 bp):
ACCTACTCGTGGGAACTGCCCACACCACAAGATAAATCGAGGCTTCAAGTCTCCCTTTTTT
Found at i:13394006 original size:68 final size:68
Alignment explanation
Indices: 13393798--13394196 Score: 491
Period size: 68 Copynumber: 5.8 Consensus size: 68
13393788 TCGTTTTTTT
* * *
13393798 TTCTTCTCCTCTGTCGCTGCTCTTTCTCTCTTTTTTCTTCTTTTTCTTTTTTCTTATTTCTTCCC
1 TTCTTCTCCTC-GTCGCTGCTCCTTCTCTCTTTTTTCTTCTTTTTCTTTCTT-TTCTTTCTTCCC
*
13393863 TATCC
64 TCTCC
* * *
13393868 TTCTTCTCCTCATCGTTGCTCCTTCTCTCTTTTTCCTTCTTCTTT-TTT-TTTTCTTTCTTCCCT
1 TTCTTCTCCTCGTCGCTGCTCCTTCTCTCTTTTTTCTTCTT-TTTCTTTCTTTTCTTTCTTCCCT
13393931 CTCC
65 CTCC
*
13393935 TTCTTCTCCTCGTCGCTGCTCCTTCTCTCTTTTTTCTTCTTTTTCTTTATTTTCTTTCTTCCCTC
1 TTCTTCTCCTCGTCGCTGCTCCTTCTCTCTTTTTTCTTCTTTTTCTTTCTTTTCTTTCTTCCCTC
13394000 TCC
66 TCC
* * * * *
13394003 TTCTTCTCCTCGTCCCTGCTCCTTCTCTCCTTCTCCTTCTTTTTCTTTCTCTTCTTTCTTCCCTC
1 TTCTTCTCCTCGTCGCTGCTCCTTCTCTCTTTTTTCTTCTTTTTCTTTCTTTTCTTTCTTCCCTC
*
13394068 TCT
66 TCC
* * * *
13394071 TTCTTCTCCTTGTCGCTGCTCCCTT-TCT-TCTTCTCTTTCTTTTTCTTTCTCTTCTTTCTTCCC
1 TTCTTCTCCTCGTCGCTGCT-CCTTCTCTCTTTTTTC-TTCTTTTTCTTTCTTTTCTTTCTTCCC
*
13394134 TCTCT
64 TCTCC
* *
13394139 TTCTTCTCCCTCGTCGCTATGCTCCCTCTCTCTTTCTTTTTCTCTTTTTCTTTCTTTT
1 TTCTTCT-CCTCGTCGC--TGCTCCTTCTCTCTTT-TTTCT-TCTTTTTCTTTCTTTT
13394197 TCCTCTCTTT
Statistics
Matches: 288, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
66 3 0.01
67 58 0.20
68 142 0.49
69 41 0.14
70 17 0.06
71 7 0.02
72 3 0.01
73 17 0.06
ACGTcount: A:0.01, C:0.36, G:0.04, T:0.59
Consensus pattern (68 bp):
TTCTTCTCCTCGTCGCTGCTCCTTCTCTCTTTTTTCTTCTTTTTCTTTCTTTTCTTTCTTCCCTC
TCC
Found at i:13394018 original size:21 final size:21
Alignment explanation
Indices: 13393994--13394033 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13393984 TTTTCTTTCT
13393994 TCCCT-CTCCTTCTTCTCCTCG
1 TCCCTGCTCCTTC-TCTCCTCG
13394015 TCCCTGCTCCTTCTCTCCT
1 TCCCTGCTCCTTCTCTCCT
13394034 TCTCCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.00, C:0.53, G:0.05, T:0.42
Consensus pattern (21 bp):
TCCCTGCTCCTTCTCTCCTCG
Found at i:13394069 original size:16 final size:16
Alignment explanation
Indices: 13393986--13394139 Score: 54
Period size: 16 Copynumber: 9.1 Consensus size: 16
13393976 TTTCTTTATT
13393986 TTCTTTCTTCCCTCTCC
1 TTCTTTCTTCCCTCT-C
13394003 TTCTTCTCCTCGTCCCTGCTCC
1 TTCTT-T-CT--TCCCT-CT-C
*
13394025 TTCTCTCCTTCTCCT-TC
1 TTCT-TTCTTC-CCTCTC
13394042 TT-TTTCTT---TCTC
1 TTCTTTCTTCCCTCTC
13394054 TTCTTTCTTCCCTCTC
1 TTCTTTCTTCCCTCTC
*
13394070 TTTCTTCTCCTTGTCGCTGCTC
1 -TTCTT-T-C-T-TCCCT-CTC
* *
13394092 -CCTTTCTT-CTTCTC
1 TTCTTTCTTCCCTCTC
**
13394106 TTTCTTT-TTCTTTCTC
1 -TTCTTTCTTCCCTCTC
13394122 TTCTTTCTTCCCTCTC
1 TTCTTTCTTCCCTCTC
13394138 TT
1 TT
13394140 TCTTCTCCCT
Statistics
Matches: 105, Mismatches: 10, Indels: 45
0.66 0.06 0.28
Matches are distributed among these distances:
11 1 0.01
12 4 0.04
13 6 0.06
14 3 0.03
15 13 0.12
16 24 0.23
17 14 0.13
18 4 0.04
19 6 0.06
20 7 0.07
21 11 0.10
22 11 0.10
23 1 0.01
ACGTcount: A:0.00, C:0.40, G:0.03, T:0.56
Consensus pattern (16 bp):
TTCTTTCTTCCCTCTC
Found at i:13394192 original size:18 final size:19
Alignment explanation
Indices: 13394164--13394211 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
13394154 GCTATGCTCC
*
13394164 CTCTCTCTTTCTTTTT-CT
1 CTCTTTCTTTCTTTTTCCT
*
13394182 CTTTTTCTTTCTTTTTCCT
1 CTCTTTCTTTCTTTTTCCT
13394201 CTCTTT-TTTCT
1 CTCTTTCTTTCT
13394212 CTCCTTCGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (19 bp):
CTCTTTCTTTCTTTTTCCT
Found at i:13394233 original size:136 final size:135
Alignment explanation
Indices: 13393797--13394268 Score: 450
Period size: 136 Copynumber: 3.5 Consensus size: 135
13393787 TTCGTTTTTT
* * * *
13393797 TTTCTTCTCCTCTGTCGCTGCTCTTTCTCTCTT-TTTTC-TTCTTTTTCTTTTTTCTTATTTCTT
1 TTTCTTCTCC-CT-TCGCTGCTC-CTCTTTCTTCTTCTCTTTCTTTTTC-TTTTTCTTCTTTCTT
* * * *
13393860 CCCTATCCTTCTTCTCCTCATCG-TTGCTCCTTCTCTCTTT-TTCCTTCTTCTTTTTTTTTTCTT
62 CCCTCTCCTTCTTCTCCTCGTCGCTTGCTCCTTCTCTCTTTCTTCTTTC-TC-TTTTTCTTTCTT
13393923 TCTTCCCTCTC
125 TCTTCCCTCTC
* * * *
13393934 CTTCTTCTCCTCGTCGCTGCTCCTTCTCTCTT-TTTTC-TTCTTTTTCTTTATT-TTCTTTCTTC
1 TTTCTTCTCC-CTTCGCTGCTCC-TCTTTCTTCTTCTCTTTCTTTTTCTTT-TTCTTCTTTCTTC
* * *
13393996 CCTCTCCTTCTTCTCCTCGTC-CCTGCTCCTTCTCTCCTTCTCCTTCTTTTTCTTTCTC-TTCTT
63 CCTCTCCTTCTTCTCCTCGTCGCTTGCTCCTTCTCT-CTT-T-CTTCTTTCTCTTTTTCTTTCTT
13394059 TCTTCCCTCTC
125 TCTTCCCTCTC
* *
13394070 TTTCTTCTCCTTGTCGCTGCTCC-CTTTCTTCTTCTCTTTCTTTTTCTTTCTCTTCTTTCTTCCC
1 TTTCTTCTCCCT-TCGCTGCTCCTCTTTCTTCTTCTCTTTCTTTTTCTTTTTCTTCTTTCTTCCC
* *
13394134 TCTCTTTCTTCTCCCTCGTCGCTATGCTCCCTCTCTCTTTCTT-TTTCTCTTTTTCTTTCTTT-T
65 TCTCCTTCTTCT-CCTCGTCGCT-TGCTCCTTCTCTCTTTCTTCTTTCTCTTTTTCTTTCTTTCT
13394197 T-CCTCTC
128 TCCCTCTC
* * * * *
13394204 TTTTTTCTCTCCTTCG-AGCCCCCTACTTTCTTCCTTCTCTTTCCTCTTCTTTTTCTTCTTCTCT
1 TTTCTTCTC-CCTTCGCTG-CTCCT-CTTTCTT-CTTCTCTTTCTTTTTCTTTTTCTTCTT-TCT
13394268 T
61 T
13394269 TTTCTTTCTT
Statistics
Matches: 285, Mismatches: 29, Indels: 41
0.80 0.08 0.12
Matches are distributed among these distances:
133 1 0.00
134 26 0.09
135 62 0.22
136 122 0.43
137 48 0.17
138 10 0.04
139 16 0.06
ACGTcount: A:0.01, C:0.36, G:0.04, T:0.58
Consensus pattern (135 bp):
TTTCTTCTCCCTTCGCTGCTCCTCTTTCTTCTTCTCTTTCTTTTTCTTTTTCTTCTTTCTTCCCT
CTCCTTCTTCTCCTCGTCGCTTGCTCCTTCTCTCTTTCTTCTTTCTCTTTTTCTTTCTTTCTTCC
CTCTC
Found at i:13394267 original size:24 final size:24
Alignment explanation
Indices: 13394230--13394285 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
13394220 AGCCCCCTAC
13394230 TTTCTTCCTTCTCTTTC-CTCTTCTT
1 TTTCTT-CTTCTCTTTCTCT-TTCTT
*
13394255 TTTCTTCTTCTCTTTTTCTTTCTT
1 TTTCTTCTTCTCTTTCTCTTTCTT
13394279 TTTCTTC
1 TTTCTTC
13394286 CTTTTTGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTCTTCTTCTCTTTCTCTTTCTT
Found at i:13394280 original size:10 final size:10
Alignment explanation
Indices: 13394250--13394291 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
13394240 CTCTTTCCTC
*
13394250 TTCTTT-TTC
1 TTCTTTCTTT
13394259 TTCTTCTCTTT
1 TTCTT-TCTTT
13394270 TTCTTTCTTT
1 TTCTTTCTTT
*
13394280 TTCTTCCTTT
1 TTCTTTCTTT
13394290 TT
1 TT
13394292 GGCAGGTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 5 0.17
10 17 0.59
11 7 0.24
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TTCTTTCTTT
Found at i:13394372 original size:13 final size:13
Alignment explanation
Indices: 13394354--13394394 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 13
13394344 GGCCCCCCCT
13394354 TTTTCTTCTTCTC
1 TTTTCTTCTTCTC
13394367 TTTTCTTCTT-TC
1 TTTTCTTCTTCTC
*
13394379 GTTTC-TCTTCTC
1 TTTTCTTCTTCTC
13394391 TTTT
1 TTTT
13394395 GTCTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 4 0.16
12 11 0.44
13 10 0.40
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTTCTTCTTCTC
Found at i:13397891 original size:18 final size:20
Alignment explanation
Indices: 13397870--13397908 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
13397860 GTACTTTTTT
13397870 AAAAATAAAA-TTTA-AAAA
1 AAAAATAAAACTTTAGAAAA
13397888 AAAAATAAAACTTTAGAAAA
1 AAAAATAAAACTTTAGAAAA
13397908 A
1 A
13397909 GCTCCAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 4 0.21
20 5 0.26
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAATAAAACTTTAGAAAA
Found at i:13398383 original size:6 final size:6
Alignment explanation
Indices: 13398362--13398419 Score: 66
Period size: 6 Copynumber: 9.5 Consensus size: 6
13398352 AATCTAGTTT
13398362 TTTTTAA TTGTTTA TTTTTA TTTTTA TTTTTA --TTTA TTTTTCA TTTTTA
1 TTTTT-A TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA
*
13398411 TTTTAA TTT
1 TTTTTA TTT
13398420 GATCTTTAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
4 4 0.09
6 28 0.61
7 11 0.24
8 3 0.07
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:13398402 original size:23 final size:22
Alignment explanation
Indices: 13398372--13398419 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
13398362 TTTTTAATTG
* *
13398372 TTTATTTTTATTTTTATTTTTA
1 TTTATTTTCATTTTTATTTTAA
13398394 TTTATTTTTCATTTTTATTTTAA
1 TTTA-TTTTCATTTTTATTTTAA
13398417 TTT
1 TTT
13398420 GATCTTTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTATTTTCATTTTTATTTTAA
Found at i:13398407 original size:17 final size:16
Alignment explanation
Indices: 13398378--13398413 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
13398368 ATTGTTTATT
13398378 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
13398394 TTTATTTTTCATTTTTA
1 TTTATTTTT-ATTTTTA
13398411 TTT
1 TTT
13398414 TAATTTGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:13398407 original size:29 final size:29
Alignment explanation
Indices: 13398359--13398419 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
13398349 CTTAATCTAG
*
13398359 TTTTTTTTAATTGTTTATTTTTATTTTTA
1 TTTTTTTTAATTGTTTATTTTTATTTTAA
13398388 TTTTTATTT-ATT-TTTCATTTTTATTTTAA
1 TTTTT-TTTAATTGTTT-ATTTTTATTTTAA
13398417 TTT
1 TTT
13398420 GATCTTTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 3 0.10
29 23 0.79
30 3 0.10
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (29 bp):
TTTTTTTTAATTGTTTATTTTTATTTTAA
Found at i:13399318 original size:36 final size:36
Alignment explanation
Indices: 13399266--13399378 Score: 104
Period size: 36 Copynumber: 3.2 Consensus size: 36
13399256 AAGATTCTTG
*
13399266 CTTTTTAACG-GTATCAAGTGATAACCCTTATAAAGA
1 CTTTTTAACGAG-ATCAAGTGATAACCCTTACAAAGA
* * ** * * *
13399302 TTTTTTCACGAGATCAAGCAATAATCCTTACAACGG
1 CTTTTTAACGAGATCAAGTGATAACCCTTACAAAGA
* * *
13399338 CTTTTTAACGGGATCAAGTGATAACCCTCACAATG-
1 CTTTTTAACGAGATCAAGTGATAACCCTTACAAAGA
13399373 CTTTTT
1 CTTTTT
13399379 CATAAGATCA
Statistics
Matches: 60, Mismatches: 16, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
35 6 0.10
36 53 0.88
37 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (36 bp):
CTTTTTAACGAGATCAAGTGATAACCCTTACAAAGA
Found at i:13405476 original size:36 final size:36
Alignment explanation
Indices: 13405434--13405548 Score: 160
Period size: 36 Copynumber: 3.2 Consensus size: 36
13405424 CTTTTTAACG
**
13405434 GGGATCAAGTGATAACCCTCACAATGGCTTTTTCAT
1 GGGATCAAGCAATAACCCTCACAATGGCTTTTTCAT
* * * *
13405470 GGGATCAAGCAATAACCTTTACAACGGCTTTTTAAT
1 GGGATCAAGCAATAACCCTCACAATGGCTTTTTCAT
*
13405506 GAGATCAAGCAATAACCCTCACAAT-GCTTTTTCAT
1 GGGATCAAGCAATAACCCTCACAATGGCTTTTTCAT
13405541 GGGATCAA
1 GGGATCAA
13405549 CTAAAACCCA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
35 16 0.24
36 51 0.76
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (36 bp):
GGGATCAAGCAATAACCCTCACAATGGCTTTTTCAT
Found at i:13408352 original size:2 final size:2
Alignment explanation
Indices: 13408345--13408389 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
13408335 NNNNNNNNNN
13408345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13408387 AT A
1 AT A
13408390 AATAAAGTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13408754 original size:34 final size:33
Alignment explanation
Indices: 13408716--13408837 Score: 129
Period size: 34 Copynumber: 3.6 Consensus size: 33
13408706 CTTTAAAGTT
*
13408716 TTGGCTGCTGAGTTTTGAGGAAGAAAAGAGCAGC
1 TTGGCTGCTGATTTTTGAGG-AGAAAAGAGCAGC
*
13408750 TTGGCTGCTGATTTTTGGAGGGAGAATAGAGCAGC
1 TTGGCTGCTGATTTTT-GA-GGAGAAAAGAGCAGC
* * * **
13408785 TTAGCTACTGATTTTTAAGGAGAAATAGAATAGC
1 TTGGCTGCTGATTTTTGAGGAGAAA-AGAGCAGC
*
13408819 TTTGCTGCTGA-TTTTGAGG
1 TTGGCTGCTGATTTTTGAGG
13408838 TTAATATGAG
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
33 13 0.18
34 31 0.42
35 28 0.38
36 2 0.03
ACGTcount: A:0.27, C:0.11, G:0.31, T:0.31
Consensus pattern (33 bp):
TTGGCTGCTGATTTTTGAGGAGAAAAGAGCAGC
Found at i:13408796 original size:35 final size:34
Alignment explanation
Indices: 13408723--13408837 Score: 108
Period size: 35 Copynumber: 3.4 Consensus size: 34
13408713 GTTTTGGCTG
* * *
13408723 CTGAGTTTTGAGGAAGAAAAGAGCAGCTTGGCTG
1 CTGATTTTTGAGGAAGAAAAGAGCAGCTTAGCTA
* *
13408757 CTGATTTTTGGAGGGAGAATAGAGCAGCTTAGCTA
1 CTGATTTTT-GAGGAAGAAAAGAGCAGCTTAGCTA
* ** * *
13408792 CTGATTTTTAAGG-AGAAATAGAATAGCTTTGCTG
1 CTGATTTTTGAGGAAGAAA-AGAGCAGCTTAGCTA
13408826 CTGA-TTTTGAGG
1 CTGATTTTTGAGG
13408838 TTAATATGAG
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
33 11 0.16
34 26 0.39
35 30 0.45
ACGTcount: A:0.29, C:0.10, G:0.30, T:0.30
Consensus pattern (34 bp):
CTGATTTTTGAGGAAGAAAAGAGCAGCTTAGCTA
Found at i:13409127 original size:25 final size:24
Alignment explanation
Indices: 13409073--13409129 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
13409063 ATATGCATAT
*
13409073 AAATGGGCATGGCCCAATAAGAAA
1 AAATGGGCATGACCCAATAAGAAA
* *
13409097 AGAATGGGCATGACCCAATTAGGAAG
1 A-AATGGGCATGACCCAA-TAAGAAA
13409123 AAATGGG
1 AAATGGG
13409130 AAGAGCCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 21 0.75
26 6 0.21
ACGTcount: A:0.42, C:0.14, G:0.30, T:0.14
Consensus pattern (24 bp):
AAATGGGCATGACCCAATAAGAAA
Found at i:13412275 original size:23 final size:23
Alignment explanation
Indices: 13412249--13412329 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
13412239 TAAGGTTTAA
* *
13412249 CATTACGTGAATGGTTAATATGT
1 CATTACGTGAATGGTTGATAGGT
* *
13412272 CATTGCATGAATGGTTGATAGGT
1 CATTACGTGAATGGTTGATAGGT
* * *
13412295 CATTGCGAGAGTGGTTGATAGGT
1 CATTACGTGAATGGTTGATAGGT
13412318 CATTACGTGAAT
1 CATTACGTGAAT
13412330 ATGGTTCAGG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.27, C:0.10, G:0.28, T:0.35
Consensus pattern (23 bp):
CATTACGTGAATGGTTGATAGGT
Found at i:13416224 original size:26 final size:26
Alignment explanation
Indices: 13416192--13416252 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
13416182 AACATTGTTG
* *
13416192 TGTATCATCTCA-AAATTATTCTTTGT
1 TGTATCAT-TCACAAATTAGTATTTGT
* *
13416218 TGTATCATTTACAAATTAGTATTTTT
1 TGTATCATTCACAAATTAGTATTTGT
13416244 TGTATCATT
1 TGTATCATT
13416253 TTACAAAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.52
Consensus pattern (26 bp):
TGTATCATTCACAAATTAGTATTTGT
Found at i:13416684 original size:23 final size:23
Alignment explanation
Indices: 13416575--13416674 Score: 146
Period size: 23 Copynumber: 4.3 Consensus size: 23
13416565 GAATGGTGCG
*
13416575 TATGGAATCACGTGACTAGTTGA
1 TATGGAATCGCGTGACTAGTTGA
* *
13416598 TATGGCATCGCGTGACTATTTGA
1 TATGGAATCGCGTGACTAGTTGA
*
13416621 TATGGAATTGCGTGACTAGTTGA
1 TATGGAATCGCGTGACTAGTTGA
* *
13416644 TATGGAATCGTGTGACTAGTTAA
1 TATGGAATCGCGTGACTAGTTGA
13416667 TATGGAAT
1 TATGGAAT
13416675 TGTGCGACTA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (23 bp):
TATGGAATCGCGTGACTAGTTGA
Found at i:13416684 original size:46 final size:46
Alignment explanation
Indices: 13416588--13416684 Score: 140
Period size: 46 Copynumber: 2.1 Consensus size: 46
13416578 GGAATCACGT
* * * *
13416588 GACTAGTTGATATGGCATCGCGTGACTATTTGATATGGAATTGCGT
1 GACTAGTTGATATGGAATCGCGTGACTAGTTAATATGGAATTGCGC
* *
13416634 GACTAGTTGATATGGAATCGTGTGACTAGTTAATATGGAATTGTGC
1 GACTAGTTGATATGGAATCGCGTGACTAGTTAATATGGAATTGCGC
13416680 GACTA
1 GACTA
13416685 TTTGCATGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (46 bp):
GACTAGTTGATATGGAATCGCGTGACTAGTTAATATGGAATTGCGC
Done.