Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 2 of 290
Found at i:343192 original size:42 final size:42
Alignment explanation
Indices: 343145--343229 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
343135 GAGTCATCAA
* *
343145 ATATTTGAGACTTTTGTGGTCCGAAAATACATGGCACTTCTC
1 ATATTTGAGACTTTTGTGATCCGAAAACACATGGCACTTCTC
343187 ATATTTGAGACTTTTGTGATCCGAAAACACATGGCACTTCTC
1 ATATTTGAGACTTTTGTGATCCGAAAACACATGGCACTTCTC
343229 A
1 A
343230 CCAAACAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (42 bp):
ATATTTGAGACTTTTGTGATCCGAAAACACATGGCACTTCTC
Found at i:354317 original size:42 final size:43
Alignment explanation
Indices: 354209--354325 Score: 157
Period size: 43 Copynumber: 2.7 Consensus size: 43
354199 GTACCAATGC
* *
354209 CATATCCCAAATATGGTCTTACATGTAATCTTGTATCGATGCT
1 CATATCCCAAATATGGTCTTACACGTAATCTTGTATCGATGAT
* * *
354252 AATAGCCCAAATATGGTCTTACACG-AAGTCTTTTATCGAT-AT
1 CATATCCCAAATATGGTCTTACACGTAA-TCTTGTATCGATGAT
*
354294 CATATCCCAGATATGGTCTTACACGTAATCTT
1 CATATCCCAAATATGGTCTTACACGTAATCTT
354326 AGTAACCCTA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (43 bp):
CATATCCCAAATATGGTCTTACACGTAATCTTGTATCGATGAT
Found at i:357925 original size:8 final size:8
Alignment explanation
Indices: 357897--357933 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
357887 CTGAGCATAC
357897 TGAGCATT
1 TGAGCATT
*
357905 TGAGGATT
1 TGAGCATT
357913 CTGAGCATT
1 -TGAGCATT
357922 TGAGCATT
1 TGAGCATT
357930 TGAG
1 TGAG
357934 GATTGTGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.30, T:0.35
Consensus pattern (8 bp):
TGAGCATT
Found at i:357931 original size:25 final size:26
Alignment explanation
Indices: 357883--357937 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
357873 TTCACGAGAT
357883 GATTCTGAGCATACTGAGCATTTGAG
1 GATTCTGAGCATACTGAGCATTTGAG
*
357909 GATTCTGAGCAT-TTGAGCATTTGAG
1 GATTCTGAGCATACTGAGCATTTGAG
357934 GATT
1 GATT
357938 GTGTCTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (26 bp):
GATTCTGAGCATACTGAGCATTTGAG
Found at i:361989 original size:40 final size:40
Alignment explanation
Indices: 361642--361980 Score: 606
Period size: 40 Copynumber: 8.5 Consensus size: 40
361632 GAGAATTGAG
361642 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
361682 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
361722 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
361762 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
361802 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
361842 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
* *
361882 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCC
1 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
* ** *
361922 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
* *
361962 AGTAATATATCCGTGCTAA
1 AGTGATATATCCGGGCTAA
361981 ACCTCGAAGT
Statistics
Matches: 290, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 290 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
Found at i:375835 original size:42 final size:42
Alignment explanation
Indices: 375763--375925 Score: 170
Period size: 42 Copynumber: 3.9 Consensus size: 42
375753 TTAGGGTTAC
* * *
375763 TGAGACTAT-GTGTAAGACCATATATGGGATATGGCATCTATA
1 TGAGACT-TCGTGTAAGACCATATCTAGGATATGGCATCGATA
* * *
375805 TGAAACTTCGTGTAAGGCCATATCTAGGATATGGCAT-GGTA
1 TGAGACTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
* * * *
375846 TGAGACTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTAGGATA-TGGCATCGATA
* *
375889 TGAGA-TCCCATGTAAGACCATATCTAGGATATGGCAT
1 TGAGACT-TCGTGTAAGACCATATCTAGGATATGGCAT
375926 TGGCATGGTA
Statistics
Matches: 98, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
41 28 0.29
42 44 0.45
43 26 0.27
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:375910 original size:84 final size:83
Alignment explanation
Indices: 375763--375925 Score: 220
Period size: 84 Copynumber: 2.0 Consensus size: 83
375753 TTAGGGTTAC
* * * * *
375763 TGAGACTATGTGTAAGACCATATATGGGATATGGCATCTATATGAAACTTCGTGTAAGGCCATAT
1 TGAGACTATGTGTAAGACCATAGATGGGATATGGCATCGATATGAAACTCCATGTAAGACCATAT
375828 CTAGGATATGGCATGGTA
66 CTAGGATATGGCATGGTA
* * * *
375846 TGAGACTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGA-TCCCATGTAAGACCAT
1 TGAGACTATGTGTAAGACCATAGATGGGATA-TGGCATCGATATGAAACT-CCATGTAAGACCAT
375910 ATCTAGGATATGGCAT
64 ATCTAGGATATGGCAT
375926 TGGCATGGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 28 0.41
84 41 0.59
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (83 bp):
TGAGACTATGTGTAAGACCATAGATGGGATATGGCATCGATATGAAACTCCATGTAAGACCATAT
CTAGGATATGGCATGGTA
Found at i:399327 original size:238 final size:238
Alignment explanation
Indices: 398909--399380 Score: 926
Period size: 238 Copynumber: 2.0 Consensus size: 238
398899 TGTTCATGGA
398909 TTATTTTGAATGAAATGAATGATTGTATGGTTGAAATTGAATTGTATTAGATCAAGAACAAAGAA
1 TTATTTTGAATGAAATGAATGATTGTATGGTTGAAATTGAATTGTATTAGATCAAGAACAAAGAA
398974 AATTCGACTTAGATCGTGGGAAGTCCAAAATAGTTGAATAGTCGATTCGTTTCCGTCTGAAATTT
66 AATTCGACTTAGATCGTGGGAAGTCCAAAATAGTTGAATAGTCGATTCGTTTCCGTCTGAAATTT
*
399039 GTACGAGGTAAGTCAAATTACAATTACGTGTTAAATTGACTAAATTCTGCGCATACAAACTGTAA
131 GTACGAGGTAAGTCAAATTACAATTACGTGTTAAATTGACTAAATTCTGCGCAAACAAACTGTAA
*
399104 TCTGTATTGGATGGCCTTGTGAGCCTGACGAATAAATTTCGAC
196 TCAGTATTGGATGGCCTTGTGAGCCTGACGAATAAATTTCGAC
399147 TTATTTTGAATGAAATGAATGATTGTATGGTTGAAATTGAATTGTATTAGATCAAGAACAAAGAA
1 TTATTTTGAATGAAATGAATGATTGTATGGTTGAAATTGAATTGTATTAGATCAAGAACAAAGAA
399212 AATTCGACTTAGATCGTGGGAAGTCCAAAATAGTTGAATAGTCGATTCGTTTCCGTCTGAAATTT
66 AATTCGACTTAGATCGTGGGAAGTCCAAAATAGTTGAATAGTCGATTCGTTTCCGTCTGAAATTT
399277 GTACGAGGTAAGTCAAATTACAATTACGTGTTAAATTGACTAAATTCTGCGCAAACAAACTGTAA
131 GTACGAGGTAAGTCAAATTACAATTACGTGTTAAATTGACTAAATTCTGCGCAAACAAACTGTAA
399342 TCAGTATTGGATGGCCTTGTGAGCCTGACGAATAAATTT
196 TCAGTATTGGATGGCCTTGTGAGCCTGACGAATAAATTT
399381 TGAGTAAACT
Statistics
Matches: 232, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
238 232 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (238 bp):
TTATTTTGAATGAAATGAATGATTGTATGGTTGAAATTGAATTGTATTAGATCAAGAACAAAGAA
AATTCGACTTAGATCGTGGGAAGTCCAAAATAGTTGAATAGTCGATTCGTTTCCGTCTGAAATTT
GTACGAGGTAAGTCAAATTACAATTACGTGTTAAATTGACTAAATTCTGCGCAAACAAACTGTAA
TCAGTATTGGATGGCCTTGTGAGCCTGACGAATAAATTTCGAC
Found at i:401041 original size:40 final size:40
Alignment explanation
Indices: 401011--401180 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 40
401001 GGACTAAGAT
* *
401011 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
401051 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
401091 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * * *
401131 CTGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
401170 CCGAAGGCATT
1 CCGAAGGCATT
401181 TGAACGAGGA
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 32 0.28
40 82 0.72
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:401107 original size:80 final size:79
Alignment explanation
Indices: 400958--401180 Score: 223
Period size: 80 Copynumber: 2.8 Consensus size: 79
400948 TTGAATGCTG
* * * ** * * * * *
400958 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
*
401022 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* * *
401038 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* **
401103 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
401118 TCCGGGTTACGTCCTGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
401181 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 35 0.29
80 80 0.67
81 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:401200 original size:79 final size:80
Alignment explanation
Indices: 401033--401215 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
401023 GTGCGAGATA
* * *
401033 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
401098 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
401113 TTAAATCCGGGTTACGTCCTGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
401177 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
401192 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
401216 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 13 0.15
79 46 0.54
80 26 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:406619 original size:54 final size:54
Alignment explanation
Indices: 406537--406640 Score: 208
Period size: 54 Copynumber: 1.9 Consensus size: 54
406527 AGCTCTGGGT
406537 ACCAAGCTGCATTTTAGCACTGCTTTCCACCCCCAAACCGATGGTCAATCCGAG
1 ACCAAGCTGCATTTTAGCACTGCTTTCCACCCCCAAACCGATGGTCAATCCGAG
406591 ACCAAGCTGCATTTTAGCACTGCTTTCCACCCCCAAACCGATGGTCAATC
1 ACCAAGCTGCATTTTAGCACTGCTTTCCACCCCCAAACCGATGGTCAATC
406641 TGAGCGGATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (54 bp):
ACCAAGCTGCATTTTAGCACTGCTTTCCACCCCCAAACCGATGGTCAATCCGAG
Found at i:408421 original size:49 final size:49
Alignment explanation
Indices: 408265--408433 Score: 232
Period size: 51 Copynumber: 3.4 Consensus size: 49
408255 TTATCACCTG
* * *
408265 CACATAGTACCACCCTTGTAATCAAAGCTACCTTCTTCACAAAATGGCCTT
1 CACATAGTACCACACTTGTAA-CAAAGCTATC-TCTTCTCAAAATGGCCTT
*
408316 CACATAGTACCACGCTTGTAACAAAGCTATCT-TTCTTCAGAAAGTGGCCTT
1 CACATAGTACCACACTTGTAACAAAGCTATCTCTTC-TCA-AAA-TGGCCTT
* *
408367 CACATAGTACCACACTTGTGACCAAGCTATCTCTTCTCAAAATGGCCTT
1 CACATAGTACCACACTTGTAACAAAGCTATCTCTTCTCAAAATGGCCTT
408416 CACATAGTACCACACTTG
1 CACATAGTACCACACTTG
408434 AGTCACTAGT
Statistics
Matches: 108, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
48 3 0.03
49 28 0.26
50 15 0.14
51 59 0.55
52 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (49 bp):
CACATAGTACCACACTTGTAACAAAGCTATCTCTTCTCAAAATGGCCTT
Found at i:417979 original size:22 final size:21
Alignment explanation
Indices: 417938--417979 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
417928 ATTATATCTA
*
417938 TTATAATTTATGTATTAATTT
1 TTATAATTTATGTATGAATTT
417959 TTATCAATTTA-GTATAGAATT
1 TTAT-AATTTATGTAT-GAATT
417980 AGTATTAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (21 bp):
TTATAATTTATGTATGAATTT
Found at i:418627 original size:25 final size:26
Alignment explanation
Indices: 418592--418657 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
418582 TTCTCCTAAA
* *
418592 TTTTAATTTTATTTAATCATT-TAAT
1 TTTTAAATTTATTGAATCATTATAAT
*
418617 TTTTCAATTTATTGAATCATTAATAAT
1 TTTTAAATTTATTGAATCATT-ATAAT
418644 TTTTAAATTT-TTGA
1 TTTTAAATTTATTGA
418658 GAAAATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 18 0.51
26 4 0.11
27 13 0.37
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTTAAATTTATTGAATCATTATAAT
Found at i:445215 original size:46 final size:46
Alignment explanation
Indices: 445150--445282 Score: 221
Period size: 46 Copynumber: 2.9 Consensus size: 46
445140 TTATCTTTGA
* * *
445150 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGT
445196 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGT
* *
445242 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTT
445283 CATTTCAGAG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.43
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGT
Found at i:447147 original size:10 final size:11
Alignment explanation
Indices: 447123--447180 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
447113 CTTTATATAC
447123 TAATAAAATAA
1 TAATAAAATAA
447134 TAATAAAA-AA
1 TAATAAAATAA
**
447144 TAATAAAGTATCT
1 TAATAAA--ATAA
* *
447157 TATTAAAATAT
1 TAATAAAATAA
447168 TAATAAAATAA
1 TAATAAAATAA
447179 TA
1 TA
447181 TTTATCTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 9 0.24
11 22 0.58
12 1 0.03
13 6 0.16
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:447766 original size:48 final size:48
Alignment explanation
Indices: 447723--447994 Score: 420
Period size: 48 Copynumber: 5.6 Consensus size: 48
447713 TCATATCGGT
* *
447723 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
447771 GCCGATGCCATGTCCCA-ATCATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGA-CATGGTCTTACACTGGCACACATATCAAC
* *
447819 GCCGATGCTATGTCCCAAACATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
447867 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* * ** * * *
447915 GCCGATGCCATGTCCCAGACATGGTCTTACACTGTCTCTTATCTCGGAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AAC
447964 GCCGATGCCATGTCCCAGACATGGTCTTACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACA
447995 TAGGATCTCA
Statistics
Matches: 209, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
47 1 0.00
48 175 0.84
49 33 0.16
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.24
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
Found at i:450787 original size:28 final size:28
Alignment explanation
Indices: 450747--450800 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
450737 CTTAATTTTA
450747 TCTTATATTGAAGTGGTTCATTGATTCC
1 TCTTATATTGAAGTGGTTCATTGATTCC
* *
450775 TCTTCTATTGAAGTGGTTCCTTGATT
1 TCTTATATTGAAGTGGTTCATTGATT
450801 TTCGCTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (28 bp):
TCTTATATTGAAGTGGTTCATTGATTCC
Found at i:453980 original size:50 final size:50
Alignment explanation
Indices: 453902--454000 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
453892 GGACTGTATG
*
453902 AATGTATTTGAATAGTTTTTTATTTGAATGATAATTGATTTTGAAAGGTT
1 AATGTATTTGAATAGTTTTTTATATGAATGATAATTGATTTTGAAAGGTT
*
453952 AATGTATTTGAATAGTTTTTTATATGAATGATAATTGGTTTTGAAAGGT
1 AATGTATTTGAATAGTTTTTTATATGAATGATAATTGATTTTGAAAGGT
454001 ATGGTTGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (50 bp):
AATGTATTTGAATAGTTTTTTATATGAATGATAATTGATTTTGAAAGGTT
Found at i:456497 original size:49 final size:47
Alignment explanation
Indices: 456428--456748 Score: 299
Period size: 49 Copynumber: 6.6 Consensus size: 47
456418 TGTTATGTGT
* * *
456428 TAGTGTAAGACCTATCTGGGACATGGCATCTACACCGATAGATGAGAG
1 TAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CCGATAGATGAAAG
* * * *
456476 CTAGTGTAAGACCTGTTTGGGACATGGCATCGGACTCGTTATATGAAAG
1 -TAGTGTAAGACCTGTCTGGGACATGGCATC-GACCCGATAGATGAAAG
* *
456525 TCAGTGTAAGACCT-TCTGGGACATGGCATCGACACTGATAGATGAGAG
1 T-AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CCGATAGATGAAAG
* * * *
456573 CCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGTTATATGAAAG
1 -TAGTGTAAGACCTGTCTGGGACATGGCATCGACC-CGATAGATGAAAG
* *
456622 TCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTC-ATTATATGAAAG
1 T-AGTGTAAGACCTGTCTGGGACATGGCATCGACC-CGA-TAGATGAAAG
* * * ** **
456671 TTGGTGTAAAACCTGTCTAGGACATGGCATCGACTTGAT--ATGTTAG
1 -TAGTGTAAGACCTGTCTGGGACATGGCATCGACCCGATAGATGAAAG
456717 TTAGTGTAAGACCATGTCTGGGACATGGCATC
1 -TAGTGTAAGACC-TGTCTGGGACATGGCATC
456749 AGCGTCTTAT
Statistics
Matches: 229, Mismatches: 32, Indels: 24
0.80 0.11 0.08
Matches are distributed among these distances:
46 16 0.07
47 20 0.09
48 39 0.17
49 151 0.66
50 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (47 bp):
TAGTGTAAGACCTGTCTGGGACATGGCATCGACCCGATAGATGAAAG
Found at i:456569 original size:97 final size:98
Alignment explanation
Indices: 456429--456748 Score: 425
Period size: 97 Copynumber: 3.3 Consensus size: 98
456419 GTTATGTGTT
* * * *
456429 AGTGTAAGACCTATCTGGGACATGGCATCTACACCGATAGATGAGAGCTAGTGTAAGACCTGTTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCTAGTGTAAGACCTGTCT
456494 GGGACATGGCATCGGACTCGTTATATGAAAGTC
66 GGGACATGGCATCGGACTCGTTATATGAAAGTC
*
456527 AGTGTAAGACCT-TCTGGGACATGGCATCGACACTGATAGATGAGAGCCAGTGTAAGACCTGTCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCTAGTGTAAGACCTGTCT
*
456591 GGGACATGGCATCGGCCTCGTTATATGAAAGTC
66 GGGACATGGCATCGGACTCGTTATATGAAAGTC
* * * * * * *
456624 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCATTATATGAAAGTTGGTGTAAAACCTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGA-TAGATGAGAGCTAGTGTAAGACCTGTC
* * ** *
456688 TAGGACATGGCATC-GACT--TGATATGTTAGTT
65 TGGGACATGGCATCGGACTCGTTATATGAAAGTC
456719 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACC-TGTCTGGGACATGGCATC
456749 AGCGTCTTAT
Statistics
Matches: 200, Mismatches: 19, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
95 20 0.10
96 18 0.09
97 98 0.49
98 64 0.32
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (98 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCTAGTGTAAGACCTGTCT
GGGACATGGCATCGGACTCGTTATATGAAAGTC
Found at i:456628 original size:146 final size:144
Alignment explanation
Indices: 456429--456748 Score: 403
Period size: 146 Copynumber: 2.2 Consensus size: 144
456419 GTTATGTGTT
* * * *
456429 AGTGTAAGACCTATCTGGGACATGGCATCTACACCGATAGATGAGAGCTAGTGTAAGACCTGTTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAGCTAGTGTAAGACCTGTCT
* * *
456494 GGGACATGGCATCGGACTCGTTATATGAAAGTCAGTGTAAGACCT-TCTGGGACATGGCATCGAC
66 GGGACATGGCATCGGACTCATTATATGAAAGTCAGTGTAAAACCTGTCTAGGACATGGCATCGAC
456558 ACTGATAGATGAGAGCC
131 -CTGAT--ATGAGAGCC
* * *
456575 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGTTATATGAAAG-TCAGTGTAAGACCTGT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAAAGCT-AGTGTAAGACCTGT
* **
456638 CTGGGACATGGCATCGGCCTCATTATATGAAAGTTGGTGTAAAACCTGTCTAGGACATGGCATCG
64 CTGGGACATGGCATCGGACTCATTATATGAAAGTCAGTGTAAAACCTGTCTAGGACATGGCATCG
* ** **
456703 ACTTGATATGTTAGTT
129 ACCTGATATGAGAGCC
456719 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACC-TGTCTGGGACATGGCATC
456749 AGCGTCTTAT
Statistics
Matches: 152, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
144 16 0.11
145 20 0.13
146 98 0.64
147 18 0.12
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (144 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAAAGCTAGTGTAAGACCTGTCT
GGGACATGGCATCGGACTCATTATATGAAAGTCAGTGTAAAACCTGTCTAGGACATGGCATCGAC
CTGATATGAGAGCC
Found at i:464282 original size:27 final size:27
Alignment explanation
Indices: 464245--464405 Score: 214
Period size: 27 Copynumber: 6.0 Consensus size: 27
464235 TTTACAAAAT
* *
464245 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCAAAATACCCCTGTAGGGTAGAAA
* * * *
464272 TGCCGAGATACCCTTGTAGGGTAGAAA
1 TACCAAAATACCCCTGTAGGGTAGAAA
464299 TACCAAAATACCCCTGTAGGGTAGAAA
1 TACCAAAATACCCCTGTAGGGTAGAAA
*
464326 TACCAAAATACCCCTGTAGGGTAGAAT
1 TACCAAAATACCCCTGTAGGGTAGAAA
* * *
464353 TACTAAAATACCCCTATAGGGTAGAAT
1 TACCAAAATACCCCTGTAGGGTAGAAA
* *
464380 TACCGAAATACCCTTGTAGGGTAGAA
1 TACCAAAATACCCCTGTAGGGTAGAA
464406 NNNNNNNNNN
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (27 bp):
TACCAAAATACCCCTGTAGGGTAGAAA
Found at i:464773 original size:27 final size:26
Alignment explanation
Indices: 464729--464779 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
464719 CTCGCTGCAA
*
464729 TCTGGTGGCCTCGCCACACATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
464756 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
464780 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:464930 original size:6 final size:6
Alignment explanation
Indices: 464901--465070 Score: 125
Period size: 6 Copynumber: 27.5 Consensus size: 6
464891 GCATTCACAA
* * *
464901 TCTGAT TATGAT TCTG-T TACCTGAT ACTGAT TCTGAT TCTG-T TACCTAAT
1 TCTGAT TCTGAT TCTGAT T--CTGAT TCTGAT TCTGAT TCTGAT T--CTGAT
* *
464951 TCTGAT TCTGGT TCTGAT TCTGAT TCTG-T TACCTGAT ACTGAT TCTGAT
1 TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT T--CTGAT TCTGAT TCTGAT
* * *
465000 TCTG-T TACCTAAT TCTGAT TCTGAT TCTGAT TTTGAT TCTG-T CACCTGAT
1 TCTGAT T--CTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT --TCTGAT
* *
465050 TCTGAT TCTCAT TTTGAT TCT
1 TCTGAT TCTGAT TCTGAT TCT
465071 AGTTCTAATA
Statistics
Matches: 129, Mismatches: 20, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
5 9 0.07
6 100 0.78
7 13 0.10
8 7 0.05
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TCTGAT
Found at i:464930 original size:25 final size:25
Alignment explanation
Indices: 464902--464966 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
464892 CATTCACAAT
* *
464902 CTGATTATGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
464927 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
*
464952 CTGATTCTGGTTCTG
1 CTGATTCTGATTCTG
464967 ATTCTGATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:464931 original size:19 final size:19
Alignment explanation
Indices: 464927--465058 Score: 128
Period size: 19 Copynumber: 6.7 Consensus size: 19
464917 TTACCTGATA
464927 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
464946 CTAATTCTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
464964 CTGATTCTGATTCTGTTACC
1 CTGATTCTGATTCTGTTA-C
464984 TGATACTGATTCTGATTCTGTTAC
1 -----CTGATTCTGATTCTGTTAC
*
465008 CTAATTCTGATTCTGATT--
1 CTGATTCTGATTCTG-TTAC
* *
465026 CTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
465045 CTGATTCTGATTCT
1 CTGATTCTGATTCT
465059 CATTTTGATT
Statistics
Matches: 94, Mismatches: 7, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
17 4 0.04
18 26 0.28
19 40 0.43
20 5 0.05
24 1 0.01
25 18 0.19
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:464969 original size:37 final size:37
Alignment explanation
Indices: 464921--465003 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
464911 ATTCTGTTAC
* *
464921 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
* *
464958 CTGGTTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
464995 CTGATTCTG
1 CTGATTCTG
465004 TTACCTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
Found at i:464994 original size:25 final size:25
Alignment explanation
Indices: 464964--465028 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
464954 GATTCTGGTT
*
464964 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
464989 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
465014 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
465029 ATTTTGATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:464998 original size:62 final size:62
Alignment explanation
Indices: 464901--465058 Score: 271
Period size: 62 Copynumber: 2.5 Consensus size: 62
464891 GCATTCACAA
*
464901 TCTGATTATGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGGT
1 TCTGATTATGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGAT
*
464963 TCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGAT
1 TCTGATTATGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGAT
* * *
465025 TCTGATTTTGATTCTGTCACCTGATTCTGATTCT
1 TCTGATTATGATTCTGTTACCTGATACTGATTCT
465059 CATTTTGATT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 91 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.47
Consensus pattern (62 bp):
TCTGATTATGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGAT
Found at i:465049 original size:31 final size:31
Alignment explanation
Indices: 464901--465070 Score: 150
Period size: 31 Copynumber: 5.5 Consensus size: 31
464891 GCATTCACAA
* * *
464901 TCTGATTATGATTCTGTTACCTGATACTGAT
1 TCTGATTCTGATTCTGTAACCTGATTCTGAT
* * *
464932 TCTGATTCTG-TTAC-CTAATTCTGATTCTGGT
1 TCTGATTCTGATT-CTGTAA-CCTGATTCTGAT
* *
464963 TCTGATTCTGATTCTGTTACCTGATACTGAT
1 TCTGATTCTGATTCTGTAACCTGATTCTGAT
* *
464994 TCTGATTCTG-TTAC-CTAATTCTGATTCTGAT
1 TCTGATTCTGATT-CTGTAA-CCTGATTCTGAT
* *
465025 TCTGATTTTGATTCTGTCACCTGATTCTGAT
1 TCTGATTCTGATTCTGTAACCTGATTCTGAT
* *
465056 TCTCATTTTGATTCT
1 TCTGATTCTGATTCT
465071 AGTTCTAATA
Statistics
Matches: 111, Mismatches: 20, Indels: 16
0.76 0.14 0.11
Matches are distributed among these distances:
30 8 0.07
31 95 0.86
32 8 0.07
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
TCTGATTCTGATTCTGTAACCTGATTCTGAT
Found at i:465068 original size:37 final size:37
Alignment explanation
Indices: 464989--465070 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
464979 TTACCTGATA
* *
464989 CTGATTCTGATTCTGTTACCTAATTCTGATTCTGATT
1 CTGATTCTGATTCTGTCACCTAATTCTGATTCTCATT
* *
465026 CTGATTTTGATTCTGTCACCTGATTCTGATTCTCATT
1 CTGATTCTGATTCTGTCACCTAATTCTGATTCTCATT
*
465063 TTGATTCT
1 CTGATTCT
465071 AGTTCTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTCTGTCACCTAATTCTGATTCTCATT
Found at i:467055 original size:49 final size:49
Alignment explanation
Indices: 466940--467217 Score: 262
Period size: 49 Copynumber: 5.7 Consensus size: 49
466930 TGATATGTGT
* * * *
466940 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTCGAGATAT-ACAA
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACACT-GATAGATGA-AA
* * * *
466988 GCTAGTGTAAGAACTGTCTTGGACATGGCATCGACACTGATAGATGAGA
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAAA
* * * * * *
467037 GCCAGTGTATGACTTGTCTGGGACATGGCATCGTCTC-GTTATATGAAA
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAAA
* * * *
467085 GTCAGTGTAAGACTTGTCTGGGACATGGCATCGACACCGATAGATGAGA
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAAA
* * * * *
467134 GCTAGTGTAAGACCTATCTTGGACATGGCATC-AGC-CTCGTTATATGAAA
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CACT-GATAGATGAAA
*
467183 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC
467218 TTGATGTGTT
Statistics
Matches: 185, Mismatches: 38, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
48 65 0.35
49 116 0.63
50 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAAA
Found at i:467109 original size:97 final size:97
Alignment explanation
Indices: 466940--467217 Score: 375
Period size: 97 Copynumber: 2.9 Consensus size: 97
466930 TGATATGTGT
* **
466940 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAAG-CTAGTGTAAGAAC
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGTTATATGA-AAGTC-AGTGTAAG-AC
* *
467002 TGTCTTGGACATGGCATCGACACTGATAGATGAGA
63 TGTCTGGGACATGGCATCGACACCGATAGATGAGA
* * *
467037 GCCAGTGTATGACTTGTCTGGGACATGGCATC-GTCTCGTTATATGAAAGTCAGTGTAAGACTTG
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGTTATATGAAAGTCAGTGTAAGAC-TG
467101 TCTGGGACATGGCATCGACACCGATAGATGAGA
65 TCTGGGACATGGCATCGACACCGATAGATGAGA
* * * *
467134 GCTAGTGTAAGACCTATCTTGGACATGGCATCAGCCTCGTTATATGAAAGTCAGTGTAAGACCTG
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGTTATATGAAAGTCAGTGTAAGA-CTG
467199 TCTGGGACATGGCATCGAC
65 TCTGGGACATGGCATCGAC
467218 TTGATGTGTT
Statistics
Matches: 162, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
96 2 0.01
97 104 0.64
98 55 0.34
99 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (97 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCGTTATATGAAAGTCAGTGTAAGACTGT
CTGGGACATGGCATCGACACCGATAGATGAGA
Found at i:467165 original size:146 final size:145
Alignment explanation
Indices: 466942--467215 Score: 358
Period size: 146 Copynumber: 1.9 Consensus size: 145
466932 ATATGTGTGC
* * *
466942 CAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGAACTGTCT
1 CAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAGATACAAGCTAGTGTAAGAACTATCT
* * *
467007 TGGACATGGCATC-GACACT-GATAGATGAGAGCCAGTGTATGACTTGTCTGGGACATGGCATCG
66 TGGACATGGCATCAG-C-CTCGATAGATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCG
467070 TCTCGTTATATGAAAGT
129 TCTCGTTATATGAAAGT
* * * *
467087 CAGTGTAAGACTTGTCTGGGACATGGCATCGACAC-CGATAGATGA-GAGCTAGTGTAAGACCTA
1 CAGTGTAAGACATGTCTGGGACAT-GCATCGAC-CTCGAGAGAT-ACAAGCTAGTGTAAGAACTA
* * *
467150 TCTTGGACATGGCATCAGCCTCGTTATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATC
63 TCTTGGACATGGCATCAGCCTCGATAGATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATC
467215 G
128 G
467216 ACTTGATGTG
Statistics
Matches: 111, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
145 25 0.23
146 83 0.75
147 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (145 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAGATACAAGCTAGTGTAAGAACTATCT
TGGACATGGCATCAGCCTCGATAGATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGTC
TCGTTATATGAAAGT
Found at i:467871 original size:14 final size:14
Alignment explanation
Indices: 467852--467880 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
467842 ATTTCATGAA
467852 TGAGAAATTGTTGG
1 TGAGAAATTGTTGG
467866 TGAGAAATTGTTGG
1 TGAGAAATTGTTGG
467880 T
1 T
467881 ATGGTTGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (14 bp):
TGAGAAATTGTTGG
Found at i:469624 original size:26 final size:26
Alignment explanation
Indices: 469574--469624 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
469564 TATTCTAGCA
**
469574 ATAACTAGGGTTTACATTTTTAAAAT
1 ATAACTAGGGTTTACATTTGGAAAAT
*
469600 ATAACTAGGGTTTATATTTGGAAAA
1 ATAACTAGGGTTTACATTTGGAAAA
469625 ATACCCATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (26 bp):
ATAACTAGGGTTTACATTTGGAAAAT
Found at i:480399 original size:39 final size:40
Alignment explanation
Indices: 480328--480472 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
480318 GCTCCTCGTT
* *
480328 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
480368 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
480407 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
480448 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
480473 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 44 0.49
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:484279 original size:164 final size:164
Alignment explanation
Indices: 484109--484437 Score: 658
Period size: 164 Copynumber: 2.0 Consensus size: 164
484099 ATGCAAAAAT
484109 TACCCTAATGGTTCGAGCCTTTCGAGGTGTCTGCCGAGCCAATTTTCACCTTTTGTGCAAAACTG
1 TACCCTAATGGTTCGAGCCTTTCGAGGTGTCTGCCGAGCCAATTTTCACCTTTTGTGCAAAACTG
484174 TCAAAAATAAACCAAATTTGTGAAAATTTATTATAAAAATAATTGAAATTCAATATGTTAATAAT
66 TCAAAAATAAACCAAATTTGTGAAAATTTATTATAAAAATAATTGAAATTCAATATGTTAATAAT
484239 TTAAGTGAAAATTAATTATTTTATAATTAAAGTA
131 TTAAGTGAAAATTAATTATTTTATAATTAAAGTA
484273 TACCCTAATGGTTCGAGCCTTTCGAGGTGTCTGCCGAGCCAATTTTCACCTTTTGTGCAAAACTG
1 TACCCTAATGGTTCGAGCCTTTCGAGGTGTCTGCCGAGCCAATTTTCACCTTTTGTGCAAAACTG
484338 TCAAAAATAAACCAAATTTGTGAAAATTTATTATAAAAATAATTGAAATTCAATATGTTAATAAT
66 TCAAAAATAAACCAAATTTGTGAAAATTTATTATAAAAATAATTGAAATTCAATATGTTAATAAT
484403 TTAAGTGAAAATTAATTATTTTATAATTAAAGTA
131 TTAAGTGAAAATTAATTATTTTATAATTAAAGTA
484437 T
1 T
484438 GAATTTCAAC
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 165 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (164 bp):
TACCCTAATGGTTCGAGCCTTTCGAGGTGTCTGCCGAGCCAATTTTCACCTTTTGTGCAAAACTG
TCAAAAATAAACCAAATTTGTGAAAATTTATTATAAAAATAATTGAAATTCAATATGTTAATAAT
TTAAGTGAAAATTAATTATTTTATAATTAAAGTA
Found at i:487851 original size:42 final size:42
Alignment explanation
Indices: 487805--487924 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
487795 ATCCGTTTTG
*
487805 CGTGTAAGACCATGTCTGGGACATTGGCATTGTATCTGATTT
1 CGTGTAAGACCATGTCTGGGACATTGGCATTGTATCTGATTA
* * * * * * *
487847 CGTGTAAGACCCTTTTTGGGACAATGGCATCGATGTTTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATTG-TATCTGATTA
* * * *
487890 CATGTAAGACCATGTCTAGGACGTCGGCATTGTAT
1 CGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
487925 ATGCTTTCTG
Statistics
Matches: 59, Mismatches: 18, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATTGTATCTGATTA
Found at i:490366 original size:21 final size:20
Alignment explanation
Indices: 490333--490371 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
490323 CCTTTGTCGA
490333 GTCTCACTCCTC-AGTGTGT
1 GTCTCACTCCTCAAGTGTGT
490352 GTCTCCACTACCTCAAGTGT
1 GTCT-CACT-CCTCAAGTGT
490372 TTCCTTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 4 0.24
22 5 0.29
ACGTcount: A:0.15, C:0.33, G:0.18, T:0.33
Consensus pattern (20 bp):
GTCTCACTCCTCAAGTGTGT
Found at i:492948 original size:39 final size:38
Alignment explanation
Indices: 492878--492974 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 38
492868 CACACCAATA
*
492878 TGACACCCAGTGTCTCATCGGATAGTTCGAAGTAATAGT
1 TGACACCCAGTGTCTCATCGGATAGTCCGAAGTAA-AGT
* *
492917 TGACACCTAGTGTCTCATCGGCCTAG-CCGAAGTAAAGT
1 TGACACCCAGTGTCTCATCGG-ATAGTCCGAAGTAAAGT
** **
492955 TGGTACCCAGTACCTCATCG
1 TGACACCCAGTGTCTCATCG
492975 AATCTATCCG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 18 0.37
39 28 0.57
40 3 0.06
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (38 bp):
TGACACCCAGTGTCTCATCGGATAGTCCGAAGTAAAGT
Found at i:498390 original size:15 final size:15
Alignment explanation
Indices: 498358--498386 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
498348 ATTTTCAGTG
498358 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
498373 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
498387 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:514317 original size:39 final size:40
Alignment explanation
Indices: 514222--514483 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
514212 TTGAATGATG
*
514222 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
514260 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
514301 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
514340 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
514379 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
514418 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
514457 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
514484 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:515379 original size:67 final size:67
Alignment explanation
Indices: 515302--515430 Score: 258
Period size: 67 Copynumber: 1.9 Consensus size: 67
515292 ACAAGTGACA
515302 TGTCACTAGGATATTTGGGCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAA
1 TGTCACTAGGATATTTGGGCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAA
515367 TG
66 TG
515369 TGTCACTAGGATATTTGGGCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 TGTCACTAGGATATTTGGGCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
515431 GAGCGTCCGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (67 bp):
TGTCACTAGGATATTTGGGCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAA
TG
Found at i:515440 original size:46 final size:46
Alignment explanation
Indices: 515390--515565 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
515380 TATTTGGGCA
*
515390 TCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
515436 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
515483 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
515529 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
515566 GTGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 64 0.59
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:515501 original size:93 final size:93
Alignment explanation
Indices: 515386--515558 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
515376 AGGATATTTG
* * *
515386 GGCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
515451 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
515479 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
515544 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
515559 CTTATGGGTG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (93 bp):
GGCATCCGAACGCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:525459 original size:13 final size:13
Alignment explanation
Indices: 525441--525465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
525431 CTAAAAATGT
525441 AAAAATCATCAAG
1 AAAAATCATCAAG
525454 AAAAATCATCAA
1 AAAAATCATCAA
525466 AATCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:542406 original size:25 final size:25
Alignment explanation
Indices: 542352--542421 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
542342 CGTTCTGACC
* *
542352 CACAACTCGTGTGAGAATACTAATT
1 CACAGCTCGTGTGAGCATACTAATT
* *
542377 TACAGCTCGTGTGAGCATA-TCGATT
1 CACAGCTCGTGTGAGCATACT-AATT
*
542402 CACAGCTAGTGTGAGCATAC
1 CACAGCTCGTGTGAGCATAC
542422 ATGTACAGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCATACTAATT
Found at i:544658 original size:23 final size:24
Alignment explanation
Indices: 544614--544669 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
544604 TGAGTATTTA
*
544614 AATGTATAT-ATTTAATTGAATTG
1 AATGTATATGATTTAATTAAATTG
*
544637 AATGTATATGATTTGA-TAAATTG
1 AATGTATATGATTTAATTAAATTG
544660 AAT-TAT-TGAT
1 AATGTATATGAT
544670 CATTAAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 18 0.60
24 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (24 bp):
AATGTATATGATTTAATTAAATTG
Found at i:544879 original size:23 final size:23
Alignment explanation
Indices: 544829--544937 Score: 116
Period size: 23 Copynumber: 4.7 Consensus size: 23
544819 CAGATATATT
* *
544829 AGCTCATAAGAGCTTACTGTTTTC
1 AGCTCATTAGAGCTTACCG-TTTC
*
544853 AGCTCATTGGAGCTTACCGTTTC
1 AGCTCATTAGAGCTTACCGTTTC
* *
544876 AGCTC-GTATGAGCTTACTG-TTC
1 AGCTCATTA-GAGCTTACCGTTTC
544898 AGCTCGA-TAGAGCTTACCGTTTC
1 AGCTC-ATTAGAGCTTACCGTTTC
*
544921 AGCTCAATAGAGCTTAC
1 AGCTCATTAGAGCTTAC
544938 TGTTCATTAG
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
22 19 0.26
23 38 0.52
24 16 0.22
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (23 bp):
AGCTCATTAGAGCTTACCGTTTC
Found at i:544914 original size:45 final size:44
Alignment explanation
Indices: 544829--544943 Score: 142
Period size: 45 Copynumber: 2.5 Consensus size: 44
544819 CAGATATATT
* *
544829 AGCTCATAAGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCGTTTC
1 AGCTC-TATGAGCTTACTG--TTCAGCTCATTAGAGCTTACCGTTTC
544876 AGCTCGTATGAGCTTACTGTTCAGCTCGA-TAGAGCTTACCGTTTC
1 AGCTC-TATGAGCTTACTGTTCAGCTC-ATTAGAGCTTACCGTTTC
*
544921 AGCTCAATAGAGCTTACTGTTCA
1 AGCTCTAT-GAGCTTACTGTTCA
544944 TTAGCTTAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 2 0.03
45 42 0.68
46 1 0.02
47 17 0.27
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (44 bp):
AGCTCTATGAGCTTACTGTTCAGCTCATTAGAGCTTACCGTTTC
Found at i:546364 original size:51 final size:51
Alignment explanation
Indices: 546271--546399 Score: 123
Period size: 51 Copynumber: 2.5 Consensus size: 51
546261 GGTTAGGTTG
* * ***
546271 CATGTGTAGTACTAAGTGCAGGCTACTATGGGTACCCGATAGCTTCAATCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGGGTAAAAGATAGCTTCAATCA
* * * ***
546322 CATGTGTGGTACTAAGTGCATGCCACTATGTGTAAAATATAGCTTTGGTCA
1 CATGTGTGGTACTAAGTGCAGGCCACTATGGGTAAAAGATAGCTTCAATCA
* * * *
546373 CAAGTGTGGTACCATGTGAAGGCCACT
1 CATGTGTGGTACTAAGTGCAGGCCACT
546400 TTGTGAATGT
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (51 bp):
CATGTGTGGTACTAAGTGCAGGCCACTATGGGTAAAAGATAGCTTCAATCA
Found at i:547424 original size:17 final size:17
Alignment explanation
Indices: 547402--547437 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
547392 TGAGGATGGC
547402 TAATATTAGTTAAGTTA
1 TAATATTAGTTAAGTTA
547419 TAATATTAGTTAAGTTA
1 TAATATTAGTTAAGTTA
547436 TA
1 TA
547438 TGTTTATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (17 bp):
TAATATTAGTTAAGTTA
Found at i:547986 original size:20 final size:20
Alignment explanation
Indices: 547961--548007 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
547951 AAGATTTGTT
*
547961 TTTATATAGATGAACTATTG
1 TTTATATAGATGAACTACTG
**
547981 TTTATACGGATGAACTACTG
1 TTTATATAGATGAACTACTG
*
548001 GTTATAT
1 TTTATAT
548008 GAATGAATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.43
Consensus pattern (20 bp):
TTTATATAGATGAACTACTG
Found at i:548013 original size:20 final size:20
Alignment explanation
Indices: 547970--548014 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
547960 TTTTATATAG
* * *
547970 ATGAACTATTGTTTATACGG
1 ATGAACTACTGGTTATACGA
*
547990 ATGAACTACTGGTTATATGA
1 ATGAACTACTGGTTATACGA
548010 ATGAA
1 ATGAA
548015 TTACAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (20 bp):
ATGAACTACTGGTTATACGA
Found at i:550054 original size:31 final size:30
Alignment explanation
Indices: 550017--550079 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
550007 TTTTGACTTG
* *
550017 GTTTTAATTTTTTTATTGATTTGATTTGAAAA
1 GTTTAAATTTATTT-TTG-TTTGATTTGAAAA
*
550049 GTTTAAAATTTATTTTTGTTTGTTTTGAAAA
1 GTTT-AAATTTATTTTTGTTTGATTTGAAAA
550080 CTCCGGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 12 0.44
32 7 0.26
33 8 0.30
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.59
Consensus pattern (30 bp):
GTTTAAATTTATTTTTGTTTGATTTGAAAA
Found at i:555717 original size:17 final size:19
Alignment explanation
Indices: 555681--555718 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
555671 TTTTAGTTAG
555681 TATTATGAGATAAAATTAT
1 TATTATGAGATAAAATTAT
*
555700 TATTATTAGA-AAAA-TAT
1 TATTATGAGATAAAATTAT
555717 TA
1 TA
555719 CTGCATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (19 bp):
TATTATGAGATAAAATTAT
Found at i:555831 original size:15 final size:15
Alignment explanation
Indices: 555813--555841 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
555803 ATATTTATAA
555813 AATTATTATTATTAT
1 AATTATTATTATTAT
555828 AATTATTATTATTA
1 AATTATTATTATTA
555842 GATAGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:558164 original size:60 final size:59
Alignment explanation
Indices: 558088--558217 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 59
558078 AACTATGTTA
* * * *
558088 ATATGGCCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCATATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
558148 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
558208 ATATGGGCTA
1 ATATGGGCTA
558218 AAGCCTAGTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 1 0.02
60 51 0.85
61 8 0.13
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:560311 original size:24 final size:24
Alignment explanation
Indices: 560284--560338 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
560274 AATGGGAACA
*
560284 GGAAATATCAAATCAGCAACAAAG
1 GGAAATAGCAAATCAGCAACAAAG
** *
560308 GGAAATAGCAAATTGGCAATAAAG
1 GGAAATAGCAAATCAGCAACAAAG
560332 GGAAATA
1 GGAAATA
560339 AAACCAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.53, C:0.11, G:0.22, T:0.15
Consensus pattern (24 bp):
GGAAATAGCAAATCAGCAACAAAG
Found at i:563707 original size:145 final size:145
Alignment explanation
Indices: 563444--563732 Score: 578
Period size: 145 Copynumber: 2.0 Consensus size: 145
563434 TTCGAGAGTA
563444 TTAACTGGAATTTTACAGCAAGTTCATTCATTCCCAAATCACATACCTTCGGAATTTAACCGGAT
1 TTAACTGGAATTTTACAGCAAGTTCATTCATTCCCAAATCACATACCTTCGGAATTTAACCGGAT
563509 ATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATTGTAATTCGCACAAATGCCTTCG
66 ATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATTGTAATTCGCACAAATGCCTTCG
563574 GGACTTAACCCGGAT
131 GGACTTAACCCGGAT
563589 TTAACTGGAATTTTACAGCAAGTTCATTCATTCCCAAATCACATACCTTCGGAATTTAACCGGAT
1 TTAACTGGAATTTTACAGCAAGTTCATTCATTCCCAAATCACATACCTTCGGAATTTAACCGGAT
563654 ATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATTGTAATTCGCACAAATGCCTTCG
66 ATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATTGTAATTCGCACAAATGCCTTCG
563719 GGACTTAACCCGGA
131 GGACTTAACCCGGA
563733 ATTAGTATCT
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 144 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (145 bp):
TTAACTGGAATTTTACAGCAAGTTCATTCATTCCCAAATCACATACCTTCGGAATTTAACCGGAT
ATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATTGTAATTCGCACAAATGCCTTCG
GGACTTAACCCGGAT
Found at i:563805 original size:39 final size:39
Alignment explanation
Indices: 563667--563811 Score: 163
Period size: 40 Copynumber: 3.7 Consensus size: 39
563657 GCTCCTCGTT
* *
563667 CAAATGCCTTCGGGACATAGCCCGGTTATTGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTGT-ATTCGCA
*
563707 CAAATGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATT-GTAT-TCGCA
* *
563747 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTGT-A-TTCGCA
563788 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
563812 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
39 24 0.26
40 57 0.63
41 9 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTGTATTCGCA
Found at i:569185 original size:45 final size:46
Alignment explanation
Indices: 569081--569248 Score: 150
Period size: 45 Copynumber: 3.7 Consensus size: 46
569071 GCCACATTAT
* *
569081 GAGAGCCAGTGTAAGACCATGTTTGGGACATGACATCGACATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCATTGAGAC
* * * *
569129 GAGAGCTAGTGTAAGACGTGTCTGGGACA-ACATCGGCCTTGAGAG
1 GAGAGCCAGTGTAAGACATGTCTGGGACATACATCGGCATTGAGAC
* *
569174 GTA-AGCCAGTGTAAGACATGTCTAGGACATGCATCGGC--T-ACGA-
1 G-AGAGCCAGTGTAAGACATGTCTGGGACATACATCGGCATTGA-GAC
* *
569217 GATGTGTCAGTGTAAGACCATGTCTGGGACAT
1 GA-GAGCCAGTGTAAGA-CATGTCTGGGACAT
569249 GGCATCGACA
Statistics
Matches: 101, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 14 0.14
45 50 0.50
46 8 0.08
47 11 0.11
48 15 0.15
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATACATCGGCATTGAGAC
Found at i:576977 original size:46 final size:46
Alignment explanation
Indices: 576807--576977 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
576797 TTATTTGTGT
* * ** *
576807 GCCAGTGTAAGACATGTCTAGGACATGCATTGGGCACATTATGAGA
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGACGAGA
* **
576853 GCCAGTGTAAGACCATGTTTAGGACATGGCATCGG-CATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCA-CAAGACGAGA
* * * * *
576901 GCTAGTGTAAGACGTGTCTGGGACATGCATCGGCCCCAAGAGGTA-A
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGACG-AGA
*
576947 ACCAGTGTAAGACATGTCTAGGACATGCATC
1 GCCAGTGTAAGACATGTCTAGGACATGCATC
576978 AGCTACGAGA
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
46 51 0.50
47 28 0.28
48 22 0.22
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGACGAGA
Found at i:577048 original size:48 final size:45
Alignment explanation
Indices: 576809--577066 Score: 161
Period size: 46 Copynumber: 5.6 Consensus size: 45
576799 ATTTGTGTGC
* * * *
576809 CAGTGTAAGA-CATGTCTAGGACATGCATTGGGCACATTATGA-GAGC
1 CAGTGTAAGACCATGTCTAGGACATGCA-TCGGCAC-GTA-GAGGTGT
* * *
576855 CAGTGTAAGACCATGTTTAGGACATGGCATCGGCA-TTGAGACGAGAG-
1 CAGTGTAAGACCATGTCTAGGACAT-GCATCGGCACGT-AGA-G-GTGT
* * * ** **
576902 CTAGTGTAAGA-CGTGTCTGGGACATGCATCGGCCCCAAGAGGTAAAC
1 C-AGTGTAAGACCATGTCTAGGACATGCATCGGCACGTAGAGGT--GT
* *
576949 CAGTGTAAGA-CATGTCTAGGACATGCATCAGCTACG-AGATGTGT
1 CAGTGTAAGACCATGTCTAGGACATGCATCGGC-ACGTAGAGGTGT
* *
576993 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTAGGACAT-GCATCGGCACG--TAGAGGTGT
* *
577041 CAGTGTAAGACCATATCTAGAACATG
1 CAGTGTAAGACCATGTCTAGGACATG
577067 GTATTGGCAC
Statistics
Matches: 169, Mismatches: 26, Indels: 33
0.74 0.11 0.14
Matches are distributed among these distances:
44 11 0.07
45 20 0.12
46 62 0.37
47 33 0.20
48 43 0.25
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTAGGACATGCATCGGCACGTAGAGGTGT
Found at i:577067 original size:48 final size:47
Alignment explanation
Indices: 576809--577108 Score: 176
Period size: 48 Copynumber: 6.4 Consensus size: 47
576799 ATTTGTGTGC
* * *
576809 CAGTGTAAGA-CATGTCTAGGACAT-GCATTGGGCAC-ATTATGA-GAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCA-TCGGCACGA-TA-GAGGTGT
* * * *
576855 CAGTGTAAGACCATGTTTAGGACATGGCATCGGCATTGAGACGA-GAG-
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA-CGATA-GAGGTGT
* * * * **
576902 CTAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCCCCA-AGAGGTAAAC
1 C-AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGATAGAGGT--GT
* *
576949 CAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCTACG--AGATGTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ACGATAGAGGTGT
* *
576993 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACG-ATAGAGGTGT
* * * * * * *
577041 CAGTGTAAGACCATATCTAGAACATGGTATTGGCACGAATACGTGAGAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACG-ATA-GAG-GTGT
577091 CAGTGTAAGACCATGTCT
1 CAGTGTAAGACCATGTCT
577109 GGGGCAGGAC
Statistics
Matches: 201, Mismatches: 36, Indels: 30
0.75 0.13 0.11
Matches are distributed among these distances:
43 2 0.01
44 12 0.06
45 16 0.08
46 58 0.29
47 32 0.16
48 59 0.29
49 3 0.01
50 19 0.09
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGATAGAGGTGT
Found at i:577296 original size:20 final size:20
Alignment explanation
Indices: 577279--577317 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
577269 TGGTTTAATG
*
577279 ATGAGAGTTATAGTTTAAACA
1 ATGAGAGTTACAGTTT-AACA
577300 ATGAGAGTTACAGTTTAA
1 ATGAGAGTTACAGTTTAA
577318 GTTAAATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGAGAGTTACAGTTTAACA
Found at i:588581 original size:16 final size:18
Alignment explanation
Indices: 588545--588581 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
588535 GTGGATGATT
588545 TATTATGTTTTATACATA
1 TATTATGTTTTATACATA
588563 TATTATGTTTT-TA-ATA
1 TATTATGTTTTATACATA
588579 TAT
1 TAT
588582 GCTGACTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 11 0.58
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (18 bp):
TATTATGTTTTATACATA
Found at i:589955 original size:51 final size:51
Alignment explanation
Indices: 589895--589993 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
589885 GGACCTGAAT
589895 GTAAGCATTGAAATAAGCGACATTACGGTGAATGTAGAATAATAAGAGGAA
1 GTAAGCATTGAAATAAGCGACATTACGGTGAATGTAGAATAATAAGAGGAA
*
589946 GTAAGCATTGTAATAAGCGACATTACGGTGAATGTAGAATAATAAGAG
1 GTAAGCATTGAAATAAGCGACATTACGGTGAATGTAGAATAATAAGAG
589994 TAGTTTGTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.23
Consensus pattern (51 bp):
GTAAGCATTGAAATAAGCGACATTACGGTGAATGTAGAATAATAAGAGGAA
Found at i:603046 original size:30 final size:30
Alignment explanation
Indices: 603012--603071 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
603002 TCCTGAGCCA
603012 AGGGGCAAAAGTGTAAATATGTAAAAGTTT
1 AGGGGCAAAAGTGTAAATATGTAAAAGTTT
* *
603042 AGGGGCAAAATTGTAAATTTGTAAAAGTTT
1 AGGGGCAAAAGTGTAAATATGTAAAAGTTT
603072 GAGTTAACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (30 bp):
AGGGGCAAAAGTGTAAATATGTAAAAGTTT
Found at i:603649 original size:68 final size:68
Alignment explanation
Indices: 603535--603661 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 68
603525 TAGATGGTAT
* *
603535 GTAGCTAGGTCACATGTGTAATACAGGATGTATACCATGTGTACAAGAGAGATACGAGACATTAT
1 GTAGCTAGGTCACATGGGTAATACAGGATGTACACCATGTGTACAAGAGAGATACGAGACATTAT
603600 GAG
66 GAG
* * *
603603 GTAGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAGA
1 GTAGCTAGGTCACATGGGTAATAC-AGGATGTACACCATGT-GTACAAGAGAGATACGAGA
603662 TAAATGTAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
68 49 0.94
69 3 0.06
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (68 bp):
GTAGCTAGGTCACATGGGTAATACAGGATGTACACCATGTGTACAAGAGAGATACGAGACATTAT
GAG
Found at i:611945 original size:30 final size:29
Alignment explanation
Indices: 611911--611970 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
611901 TTCCCGAGCC
611911 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGC-AAAGTT
* * * *
611941 TAGGGGCATAATTGTAATTTTGCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAGTT
611970 T
1 T
611971 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAAATATGCAAAGTT
Found at i:612609 original size:15 final size:15
Alignment explanation
Indices: 612589--612618 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
612579 CATGTGTGGT
612589 TCCAAGTGAAGGACA
1 TCCAAGTGAAGGACA
612604 TCCAAGTGAAGGACA
1 TCCAAGTGAAGGACA
612619 CCATGTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (15 bp):
TCCAAGTGAAGGACA
Found at i:618391 original size:14 final size:14
Alignment explanation
Indices: 618360--618392 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
618350 TAGGTATGTA
*
618360 AAAAT-AGGGTGGC
1 AAAATGAGGGCGGC
618373 AAAATGAGGGCGGC
1 AAAATGAGGGCGGC
618387 AAAATG
1 AAAATG
618393 GCTTTGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.42, C:0.09, G:0.36, T:0.12
Consensus pattern (14 bp):
AAAATGAGGGCGGC
Found at i:620138 original size:42 final size:42
Alignment explanation
Indices: 620074--620153 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
620064 CGATCGACTT
620074 GCATCGATATGTGACTAAATGTAAGACCACGTCTGGGAAGTG
1 GCATCGATATGTGACTAAATGTAAGACCACGTCTGGGAAGTG
*
620116 GCATCGATATGTGACTACATGTAAGACCACGTCTGGGA
1 GCATCGATATGTGACTAAATGTAAGACCACGTCTGGGA
620154 TGCTGGCCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (42 bp):
GCATCGATATGTGACTAAATGTAAGACCACGTCTGGGAAGTG
Found at i:626024 original size:79 final size:80
Alignment explanation
Indices: 625862--626105 Score: 239
Period size: 79 Copynumber: 3.1 Consensus size: 80
625852 TTGAATGATG
* ** * * * *
625862 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGGGTGACCATATCCGGACTAAG-ATCCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCAAGAT-ACTATAACCGGGCTAAGTA-CCGAAGGCAT
*
625925 TTGTACGAGTTACTAAA
64 TTGTACGAGTTACTATA
* *
625942 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCAAGATACTATA-ACCGGGCTAAGTACCGAAGGCAT
*
626004 TTGTGCGAGTTACTATA
64 TTGTACGAGTTACTATA
** * * * *
626021 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAACCGGGCTATGTACCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCAAGATACTATAACCGGGCTAAGTACCGAAGGCATTT
*
626086 GAACGAG-TAGCTATA
66 GTACGAGTTA-CTATA
626101 TCCGG
1 TCCGG
626106 TTAAATTCCA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 68 0.49
80 59 0.43
81 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCAAGATACTATAACCGGGCTAAGTACCGAAGGCATTT
GTACGAGTTACTATA
Found at i:626054 original size:40 final size:40
Alignment explanation
Indices: 625862--626105 Score: 257
Period size: 40 Copynumber: 6.1 Consensus size: 40
625852 TTGAATGATG
* * *
625862 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* * *
625902 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
625942 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
625981 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
626021 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * **
626061 ACCGGGCTATGTACCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
626101 TCCGG
1 TCCGG
626106 TTAAATTCCA
Statistics
Matches: 175, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 36 0.21
40 132 0.75
41 7 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:626078 original size:119 final size:120
Alignment explanation
Indices: 625862--626086 Score: 298
Period size: 119 Copynumber: 1.9 Consensus size: 120
625852 TTGAATGATG
*
625862 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTGGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTGAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
625927 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAAT
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAAT
* * ** *
625982 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCCGAAGGTAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
* * *
626044 TTGTGCGAGTTACTATAA-CCGGGCTATG-TACCGAAGGCATTTG
64 TTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
626087 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
118 2 0.02
119 70 0.76
120 20 0.22
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTGAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAAT
Found at i:640129 original size:27 final size:27
Alignment explanation
Indices: 640099--640276 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
640089 ATATTGAGTC
* * * *
640099 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
640126 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
640153 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
640181 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
640208 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
640235 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
640262 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
640277 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:640238 original size:82 final size:81
Alignment explanation
Indices: 640120--640275 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
640110 TGCTATATAA
* *
640120 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
640185 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
640202 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
640266 CACTTAGTGC
65 CACTTAGTGC
640276 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:658575 original size:49 final size:48
Alignment explanation
Indices: 658372--658882 Score: 346
Period size: 49 Copynumber: 10.7 Consensus size: 48
658362 ATATTTGTGT
*
658372 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-AT-TATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-CACGATATAGGAGA
* * * * * *
658418 GCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCCTCAAGAT-GTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-CACGATATAGGAGA
* * * * *
658466 GCCCA-TGTAAGA-CTTGTTTGGGACAT-GCATCGGCTACGAGAT--GTG-
1 G-CTAGTGTAAGACCATGTCTGGGACATGGCATC-GC-ACGATATAGGAGA
*
658511 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATATAGGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGCACG-ATATAGGAGA
* * * * ** *
658559 GCTAGTGCAAGACCATGTCTGGAACATGGCGTCGGCCTCGAT-TTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-CACGATATAGGAGA
658608 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATATAGGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGCACG-ATATAGGAGA
* * * * ** *
658657 GCTAGTGCAAGACCATGTCTGGAACATGGCGTCGGCCTCGAT-TTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-CACGATATAGGAGA
658706 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATATAGGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGCACG-ATATAGGAGA
* * * * ** *
658755 GCTAGTGCAAGACCATGTCTGGAACATGGCGTCGGCCTCGAT-TTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-CACGATATAGGAGA
*
658804 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCG-AC-TTGAT-GGATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGCACGAT-ATAGGA-GA
* *
658851 GCCAGTGTAAGACCATGTTTGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
658883 TGACATTAAA
Statistics
Matches: 368, Mismatches: 63, Indels: 67
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.00
44 11 0.03
45 19 0.05
46 31 0.08
47 63 0.17
48 30 0.08
49 192 0.52
50 12 0.03
51 9 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGCACGATATAGGAGA
Found at i:658625 original size:98 final size:98
Alignment explanation
Indices: 658510--658837 Score: 656
Period size: 98 Copynumber: 3.3 Consensus size: 98
658500 TACGAGATGT
658510 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATATAGGAGAGCTAGTGCAAGACCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATATAGGAGAGCTAGTGCAAGACCAT
658575 GTCTGGAACATGGCGTCGGCCTCGATTTTGATA
66 GTCTGGAACATGGCGTCGGCCTCGATTTTGATA
658608 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATATAGGAGAGCTAGTGCAAGACCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATATAGGAGAGCTAGTGCAAGACCAT
658673 GTCTGGAACATGGCGTCGGCCTCGATTTTGATA
66 GTCTGGAACATGGCGTCGGCCTCGATTTTGATA
658706 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATATAGGAGAGCTAGTGCAAGACCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATATAGGAGAGCTAGTGCAAGACCAT
658771 GTCTGGAACATGGCGTCGGCCTCGATTTTGATA
66 GTCTGGAACATGGCGTCGGCCTCGATTTTGATA
658804 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
658838 ACTTGATGGA
Statistics
Matches: 230, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 230 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (98 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGCACGAATATAGGAGAGCTAGTGCAAGACCAT
GTCTGGAACATGGCGTCGGCCTCGATTTTGATA
Found at i:661795 original size:22 final size:22
Alignment explanation
Indices: 661765--661843 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 22
661755 CAAGCTGATA
*
661765 AACAATAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTATTGAGCTG
*
661787 AACAGTAAGCTCT-TTCAAGCT-
1 AACAGTAAGCTCTATT-GAGCTG
* * *
661808 ACATAGGTAAGCTCCAATGAGCTG
1 A-ACA-GTAAGCTCTATTGAGCTG
661832 AAACAGTAAGCT
1 -AACAGTAAGCT
661844 ATTAGAAGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
21 3 0.07
22 18 0.41
23 19 0.43
24 3 0.07
25 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (22 bp):
AACAGTAAGCTCTATTGAGCTG
Found at i:662761 original size:52 final size:51
Alignment explanation
Indices: 662691--662788 Score: 144
Period size: 52 Copynumber: 1.9 Consensus size: 51
662681 CTTAAAAATC
* * *
662691 CTTATTTGTTTCTTAAATTCGGTTTA-ATGATGAATGGTTTAACAAGATGTT
1 CTTATTTGTTTCTCAAATTCGG-TAAGATGATGAATGATTTAACAAGATGTT
662742 CTTATTTTGTTTCTCAAATTCGGTAAGATGATGAATGATTTAACAAG
1 CTTA-TTTGTTTCTCAAATTCGGTAAGATGATGAATGATTTAACAAG
662789 TTTTTATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 6 0.14
52 36 0.86
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (51 bp):
CTTATTTGTTTCTCAAATTCGGTAAGATGATGAATGATTTAACAAGATGTT
Found at i:662799 original size:52 final size:52
Alignment explanation
Indices: 662695--662799 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 52
662685 AAAATCCTTA
* * * *
662695 TTTGTTTCTTAAATTCGGTTTAATGATGAATGGTTTAACAAGATGTTCTTAT
1 TTTGTTTCTCAAATTCGGTTAAATGATGAATGATTTAACAAGATGTTATTAT
* *
662747 TTTGTTTCTCAAATTCGG-TAAGATGATGAATGATTTAACAAGTTTTTATTAT
1 TTTGTTTCTCAAATTCGGTTAA-ATGATGAATGATTTAACAAGATGTTATTAT
662799 T
1 T
662800 ATTTTTTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 2 0.04
52 44 0.96
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.48
Consensus pattern (52 bp):
TTTGTTTCTCAAATTCGGTTAAATGATGAATGATTTAACAAGATGTTATTAT
Found at i:667091 original size:40 final size:40
Alignment explanation
Indices: 667032--667242 Score: 225
Period size: 40 Copynumber: 5.3 Consensus size: 40
667022 TGTTCGGATG
* * *
667032 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTGACT
* *
667072 A-ATTCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
* * *
667112 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
667152 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* * * *
667191 ATAACCGGGCTAAGTCCCAAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
667231 ATATCC-GGCTAA
1 ATAACCGGGCTAA
667243 ACTCCGAAGG
Statistics
Matches: 149, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 44 0.30
40 101 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:667252 original size:79 final size:79
Alignment explanation
Indices: 667032--667242 Score: 275
Period size: 79 Copynumber: 2.7 Consensus size: 79
667022 TGTTCGGATG
*
667032 ATAACCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCAAG-GCATTTGAGCTAGTGGCTATA-TCCGGGCTAAGTCCCGAAGGC
*
667096 ATTCGTGCGAGCTACT
64 ATTCGTGCAAGCTACT
* * * * **
667112 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCC-AAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
* *
667176 TTTGTGCAAGTTACT
65 TTCGTGCAAGCTACT
667191 ATAACCGGGCTAAGTCCCAAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCC-AAGGCATTTGAGCTAGTGGCTATATCCGGGCTAA
667243 ACTCCGAAGG
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 75 0.68
80 33 0.30
81 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCAT
TCGTGCAAGCTACT
Found at i:675279 original size:27 final size:27
Alignment explanation
Indices: 675239--675353 Score: 155
Period size: 27 Copynumber: 4.3 Consensus size: 27
675229 AGCATGGCTG
* *
675239 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
675265 CCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
675292 CCAGAACAGATATTTGTGGC-GTAGCCA
1 CCAGAACAGATATTTGTGGCAG-AGCCA
*
675319 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
675347 CCAGAAC
1 CCAGAAC
675354 TCTTCCTCCA
Statistics
Matches: 81, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
26 13 0.16
27 43 0.53
28 25 0.31
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:679582 original size:28 final size:28
Alignment explanation
Indices: 679546--679624 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
679536 GCAATCAAAT
* *
679546 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTCAGTGTGCGAAATATTGAGA
**
679574 ATGGCACTCAGTGTGCGAGGTATTGAGA
1 ATGGCACTCAGTGTGCGAAATATTGAGA
* * *
679602 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTCAGTGTGCGAAATAT
679625 CGAATGATTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (28 bp):
ATGGCACTCAGTGTGCGAAATATTGAGA
Found at i:686467 original size:28 final size:28
Alignment explanation
Indices: 686396--686485 Score: 112
Period size: 28 Copynumber: 3.3 Consensus size: 28
686386 GTGACAGAGT
* * * * *
686396 CACCAGATATAGATA-TTGTGGTAGAAC
1 CACCAGAAACAGATATTTGTGGCATAGC
*
686423 CACCA-AAACAGATATTTGTGGCGTAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
686450 CACCAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
686478 CACCAGAA
1 CACCAGAA
686486 CTCTTCCTCC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 7 0.13
27 18 0.33
28 29 0.54
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:688510 original size:28 final size:27
Alignment explanation
Indices: 688453--688510 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
688443 TTATACAGTC
* * *
688453 AAAACACAGAAATTCTAAAATTCATTAA
1 AAAACACAGAAATCCCAAAAATCA-TAA
* *
688481 AAATCACAGAAATCCCAAAAATCCTAA
1 AAAACACAGAAATCCCAAAAATCATAA
688508 AAA
1 AAA
688511 TTAGGGTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.59, C:0.19, G:0.03, T:0.19
Consensus pattern (27 bp):
AAAACACAGAAATCCCAAAAATCATAA
Found at i:698811 original size:64 final size:64
Alignment explanation
Indices: 698730--698913 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
698720 AGACATTATG
* * *
698730 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGATCTAC-AGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGA-GATAA
* * * * *
698794 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
698859 AA
63 AA
* * *
698861 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
698914 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 29 0.30
68 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:707668 original size:55 final size:53
Alignment explanation
Indices: 707485--707739 Score: 220
Period size: 55 Copynumber: 4.8 Consensus size: 53
707475 ACACGGGTAC
* * * *
707485 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
*
707534 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
* * * *
707587 CTCACCAATGCCATGCCTTGGCATGGTCTGACATAGG-A-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GGTATCC-TTGCCTTAT-G-AA
* * * * * *
707642 CTTATCAATGCCATATCTTGAAATGGTCTTACATGATTTCCTTGCCTT-GGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
* * *
707695 CCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
707740 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
49 38 0.23
50 1 0.01
52 2 0.01
53 46 0.28
54 13 0.08
55 64 0.39
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
Found at i:707676 original size:108 final size:110
Alignment explanation
Indices: 707532--707730 Score: 278
Period size: 108 Copynumber: 1.8 Consensus size: 110
707522 ATCCTTTTGA
* * * * *
707532 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATATCTTGAAATGGTCTTACATGATATCCTTGCCTT-GGAAACCTCACCAA
707595 -TGCCATGCCTTGGCATGGTCTGACATAGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTGACATAGGACCTTTGCCTTATAGT
* * *
707640 AACTTATCAATGCCATATCTTGAAATGGTCTTACATGATTTCCTTGCCTTGGAAACCTTACCAAT
1 AACTTACCAATGCCATATCTTGAAATGGTCTTACATGATATCCTTGCCTTGGAAACCTCACCAAT
* *
707705 TGTCATGCCTTGGCATGGTCTTACAT
66 TGCCATGCCTTGGCATGGTCTGACAT
707731 GGTATCCTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.59
109 7 0.09
110 24 0.31
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATATCTTGAAATGGTCTTACATGATATCCTTGCCTTGGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTGACATAGGACCTTTGCCTTATAGT
Found at i:713706 original size:18 final size:18
Alignment explanation
Indices: 713683--713717 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
713673 TGATGAGGAG
713683 TGCTTAAGAGCTTTCAAA
1 TGCTTAAGAGCTTTCAAA
713701 TGCTTAAGAGCTTTCAA
1 TGCTTAAGAGCTTTCAA
713718 GGATTTGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (18 bp):
TGCTTAAGAGCTTTCAAA
Found at i:731794 original size:19 final size:19
Alignment explanation
Indices: 731766--731810 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
731756 GATATATTTC
731766 AAAT-TTATTTA-GATAGAT
1 AAATCTTATTTATG-TAGAT
731784 AAATCTTATTTATGTAGAT
1 AAATCTTATTTATGTAGAT
731803 AAATCTTA
1 AAATCTTA
731811 AAATAACTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.16
19 20 0.80
20 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (19 bp):
AAATCTTATTTATGTAGAT
Found at i:731894 original size:42 final size:42
Alignment explanation
Indices: 731848--731931 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
731838 ATATTTTATT
* * *
731848 TTATCTTTTAGTTGTTTATTAGAACAAGGGAATTATTTTCCC
1 TTATCTTTTAGTAGTTTACTAGAACAAGGGAATCATTTTCCC
*
731890 TTATCTTTTAGTAGTTTACTAGAATAAGGGAATCATTTTCCC
1 TTATCTTTTAGTAGTTTACTAGAACAAGGGAATCATTTTCCC
731932 AATTAGGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.45
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTACTAGAACAAGGGAATCATTTTCCC
Found at i:737615 original size:42 final size:42
Alignment explanation
Indices: 737451--737604 Score: 166
Period size: 42 Copynumber: 3.6 Consensus size: 42
737441 TACCATACTA
* * * *
737451 ATGCCATATCCCAAATATGGTCTAACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * * * * *
737493 ATGCTAATAGCCCAGCTATGGTCTTACACGAAATCTTATATCA
1 ATGC-CATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * *
737536 ATGTCATATCCCAGATATGGTCTTATACGTAGTCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCAT-ATCG
737578 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
737605 TCTAGTCTCA
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 56 0.63
43 33 0.37
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:739296 original size:19 final size:19
Alignment explanation
Indices: 739267--739312 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
739257 GGATATATTT
739267 TAAAT-TTATTTA-GATAGA
1 TAAATCTTATTTATG-TAGA
739285 TAAATCTTATTTATGTAGA
1 TAAATCTTATTTATGTAGA
739304 TAAATCTTA
1 TAAATCTTA
739313 GAATAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.19
19 20 0.77
20 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (19 bp):
TAAATCTTATTTATGTAGA
Found at i:748866 original size:50 final size:49
Alignment explanation
Indices: 748643--748911 Score: 174
Period size: 46 Copynumber: 5.7 Consensus size: 49
748633 TTATTTGTAT
* * *
748643 GCTAGTATAAGA-CATGCCTGGGACAT-GCATCGGC-CACAT-TATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACA-ATATGTGAGA
* *
748689 GCTAGTGTAAGA-CATGTCAGGGACAT-GCATCGGCTACAAGATGT--G-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAATATGTGAGA
* ** * * *
748734 TC-AGTGTAAGACCATGTCTAAGATATGGCATCGGCAC-GTAT-AGAG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAATATGTGAGA
* * * *
748779 GTGTCGGTGTGAGACCATGTCTAGGACATGAG-ATCGGCACGAATATGTGAGA
1 G-CT-AGTGTAAGACCATGTCTGGGACATG-GCATCGGCAC-AATATGTGAGA
* * * *
748831 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCAGT-T-TCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAATATGT-GAGA
*
748880 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
748912 TGGTATTATA
Statistics
Matches: 174, Mismatches: 31, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
44 11 0.06
45 14 0.08
46 40 0.23
47 1 0.01
48 34 0.20
49 36 0.21
50 31 0.18
51 6 0.03
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAATATGTGAGA
Found at i:751195 original size:54 final size:54
Alignment explanation
Indices: 751018--752017 Score: 1779
Period size: 54 Copynumber: 18.5 Consensus size: 54
751008 CATTTCTATG
* * * * * * * *
751018 TCTTGACATGGTCTTACGTGGTATCATTGCCTTAT-GAACTCACCAATGCCATG
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
* *** * *
751071 CCTTGGCATGGTCTTACATG-GGACCTTTGCCTTATAGTAACTCATCAATGCCATG
1 TCTTGGCATGGTCTTACATGATTTCC-TTGCCTTATAG-AACTTATCAATGCCATA
* * * *
751126 TCTTGACATAGTCTTACATGATTTCCTTACCTTATAGAACTTATCAATGCCATG
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
*
751180 CCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751234 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751288 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751342 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751396 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751450 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751504 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751558 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751612 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751666 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751720 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751774 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751828 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751882 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
751936 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
1 TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
* *
751990 CCTTGGCATGGTCTTACATGATATCCTT
1 TCTTGGCATGGTCTTACATGATTTCCTT
752018 ATCTTACCAA
Statistics
Matches: 919, Mismatches: 24, Indels: 7
0.97 0.03 0.01
Matches are distributed among these distances:
52 1 0.00
53 26 0.03
54 847 0.92
55 43 0.05
56 2 0.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (54 bp):
TCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATA
Found at i:752112 original size:95 final size:89
Alignment explanation
Indices: 751975--752208 Score: 216
Period size: 95 Copynumber: 2.5 Consensus size: 89
751965 CCTTATAGAA
* * * * *
751975 CTTATCAATGCCATACCTTGGCATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCC
1 CTTACCAATGCCACATCTTGACATGGTCTTACATG-GATCCTTATCTTACC-AATGCCATG-TCC
* *
752040 AAACATGGTCTTACATGGTATCCTTGC
63 AAACATGGTCTTACACGGGATCCTTGC
** * * *
752067 CTTAGTGCCAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAATCAGTGCCGATGCCATG
1 CTTA---CCAATGCCACATCTTGACATGGTCTTACATGGA-TCCTT-ATC-TTACCAATGCCATG
***
752132 TCTTGACATGGTCTTACACGGGATCCTTGC
60 TCCAAACATGGTCTTACACGGGATCCTTGC
* **
752162 CTTACCAATTCCATGTCTTGACATGGTCTTACATGGTATCCTTATCT
1 CTTACCAATGCCACATCTTGACATGGTCTTACATGG-ATCCTTATCT
752209 GTCAATTCCT
Statistics
Matches: 114, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
91 3 0.03
92 36 0.32
93 1 0.01
94 1 0.01
95 59 0.52
96 11 0.10
97 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.35
Consensus pattern (89 bp):
CTTACCAATGCCACATCTTGACATGGTCTTACATGGATCCTTATCTTACCAATGCCATGTCCAAA
CATGGTCTTACACGGGATCCTTGC
Found at i:752159 original size:47 final size:46
Alignment explanation
Indices: 751980--752207 Score: 156
Period size: 47 Copynumber: 4.9 Consensus size: 46
751970 TAGAACTTAT
** * ** * *
751980 CAATGCCATACCTTGGCATGGTCTTACATGATATCCTTATC-TTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTATCAGTGC
*** * * *
752025 CAAATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGCCTTAGTGC
1 C-AATGCCATG-TCTTGACATGGTCTTACATGGGATCCTT--ATCAGTGC
** **
752075 CAATGCCACATCTTGATGTGGTCTTACAT-GGAGTCCTTAATCAGTGC
1 CAATGCCATGTCTTGACATGGTCTTACATGGGA-TCCTT-ATCAGTGC
* * * ** *
752122 CGATGCCATGTCTTGACATGGTCTTACACGGGATCCTT-GCCTTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTATCAGTGC
* *
752167 CAATTCCATGTCTTGACATGGTCTTACATGGTATCCTTATC
1 CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTATC
752208 TGTCAATTCC
Statistics
Matches: 138, Mismatches: 37, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
45 38 0.28
46 9 0.07
47 58 0.42
48 22 0.16
49 8 0.06
50 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (46 bp):
CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTATCAGTGC
Found at i:754105 original size:28 final size:28
Alignment explanation
Indices: 754069--754128 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
754059 CATGGGCTAA
* *
754069 GACATGGGCGTGTCGAGGCCGTGTGAGG
1 GACACGGGCGTGTCGAGGCCGTGTAAGG
754097 GACACGGGCGTGTCGAGGCCGTGTAAGG
1 GACACGGGCGTGTCGAGGCCGTGTAAGG
754125 GACA
1 GACA
754129 TAGGCCATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.18, C:0.20, G:0.47, T:0.15
Consensus pattern (28 bp):
GACACGGGCGTGTCGAGGCCGTGTAAGG
Found at i:756877 original size:20 final size:18
Alignment explanation
Indices: 756847--756889 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
756837 TTTGTAAAGT
*
756847 TTGTAAAATAAGTTGTAAA
1 TTGTGAAATAA-TTGTAAA
756866 TGTGTGAAATAATTG-AAA
1 T-TGTGAAATAATTGTAAA
756884 TTGTGA
1 TTGTGA
756890 GTTGTTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (18 bp):
TTGTGAAATAATTGTAAA
Found at i:762545 original size:89 final size:89
Alignment explanation
Indices: 762394--762571 Score: 338
Period size: 89 Copynumber: 2.0 Consensus size: 89
762384 GAATTGGGCC
762394 CTTCAATGCTTTATCAGCCCAACTGGCCTTACTGAATTGGACCCTTTGAGCGCTGTTTCCTTATT
1 CTTCAATGCTTTATCAGCCCAACTGGCCTTACTGAATTGGACCCTTTGAGCGCTGTTTCCTTATT
*
762459 ATTAATCTGGGCCTGAGCAGGATT
66 ATTAATCTGAGCCTGAGCAGGATT
762483 CTTCAATGCTTTATCAGCCCAACTGGCCTTACTGAATTGGACCCTTTGAGCGCTGTTTCCTTATT
1 CTTCAATGCTTTATCAGCCCAACTGGCCTTACTGAATTGGACCCTTTGAGCGCTGTTTCCTTATT
*
762548 ATTAATCTGAGCCTGAGTAGGATT
66 ATTAATCTGAGCCTGAGCAGGATT
762572 GAAATCTTGG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (89 bp):
CTTCAATGCTTTATCAGCCCAACTGGCCTTACTGAATTGGACCCTTTGAGCGCTGTTTCCTTATT
ATTAATCTGAGCCTGAGCAGGATT
Found at i:764614 original size:21 final size:22
Alignment explanation
Indices: 764585--764629 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
764575 CTCTCACAAC
764585 AATTCTCTCTAAATTCTTT-TCA
1 AATTCTCTCTAAATT-TTTGTCA
*
764607 AATT-TCTCTCAATTTTTGTCA
1 AATTCTCTCTAAATTTTTGTCA
764628 AA
1 AA
764630 GTTGTTTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 14 0.67
22 4 0.19
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTCTCTCTAAATTTTTGTCA
Found at i:765804 original size:7 final size:7
Alignment explanation
Indices: 765792--765824 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
765782 TAGCCGTTTC
765792 GTATTTA
1 GTATTTA
765799 GTATTTA
1 GTATTTA
765806 GTATTTA
1 GTATTTA
*
765813 TTATTTA
1 GTATTTA
765820 GTATT
1 GTATT
765825 ACCTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (7 bp):
GTATTTA
Found at i:766465 original size:18 final size:18
Alignment explanation
Indices: 766442--766483 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
766432 TGTCAGGTGC
*
766442 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
*
766460 TATCCTAACCCTTTTATG
1 TATCCTAACCCTTATATG
*
766478 TTTCCT
1 TATCCT
766484 TTTCCTAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:766755 original size:22 final size:21
Alignment explanation
Indices: 766730--766774 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
766720 CCCACAACTA
766730 AATCCCCAGCCGGAGCAACCAC
1 AATCCCCA-CCGGAGCAACCAC
766752 AATCCCCACCGGAGCAACCAC
1 AATCCCCACCGGAGCAACCAC
766773 AA
1 AA
766775 CCCTCGCCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.36, C:0.44, G:0.16, T:0.04
Consensus pattern (21 bp):
AATCCCCACCGGAGCAACCAC
Found at i:766784 original size:21 final size:21
Alignment explanation
Indices: 766730--766785 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
766720 CCCACAACTA
766730 AATCCCCAGCCGGAGCAACCAC
1 AATCCCC-GCCGGAGCAACCAC
*
766752 AATCCCCACCGGAGCAACCAC
1 AATCCCCGCCGGAGCAACCAC
766773 AA-CCCTCGCCGGA
1 AATCCC-CGCCGGA
766786 AGCTGAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 3 0.10
21 21 0.68
22 7 0.23
ACGTcount: A:0.30, C:0.46, G:0.18, T:0.05
Consensus pattern (21 bp):
AATCCCCGCCGGAGCAACCAC
Found at i:767046 original size:9 final size:9
Alignment explanation
Indices: 767032--767062 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
767022 TTGACTACGG
767032 TAATATTTT
1 TAATATTTT
767041 TAATATTTT
1 TAATATTTT
767050 T-ATATTTT
1 TAATATTTT
767058 TAATA
1 TAATA
767063 AAATATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TAATATTTT
Found at i:770381 original size:125 final size:126
Alignment explanation
Indices: 770096--770933 Score: 1324
Period size: 125 Copynumber: 6.7 Consensus size: 126
770086 AGTCTAAGGC
* * * *
770096 TTTT-TCAGATACTACTATAGCAAAAGAGCGTCCACTTGGGAGCTTTTTTTCATAATTTTGCTGA
1 TTTTATCAGATACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTCTCATAATTTTGCTGA
* *
770160 AAGTGCATCATTCTTAAAG-TGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
66 AAGTGCATCCTTCTTGAAGCT-TTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
770221 TTTTATCAGATACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTCTCATAATTTTGCTGA
1 TTTTATCAGATACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTCTCATAATTTTGCTGA
*
770286 AAGTGCATCCTTCTTGAAGCTTTTTTGACACTATTTGTTCAGAAACATCTTCTC-GAATTA
66 AAGTGCATCCTTCTTGAAGCTTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
770346 TTTTATCAGATACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTCTCATAATTTTGCTGA
1 TTTTATCAGATACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTCTCATAATTTTGCTGA
770411 AAGTGCATCCTTCTTGAAGCTTTTTTGACACTATTTGTTCAGAAA-ATCTTCTCAAAATTA
66 AAGTGCATCCTTCTTGAAGCTTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
770471 TTTTATCAGATACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTCTCATAATTTTGCTGA
1 TTTTATCAGATACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTCTCATAATTTTGCTGA
*
770536 AAGTGCATCCTTCTTGAAGCTTTTTTGACACTATTTGTTCAGAAACATCTTCTC-GAATTA
66 AAGTGCATCCTTCTTGAAGCTTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * * * *
770596 TTTTATCAGATACTACTGTAGCAAAAGAGTTTCCACGTGGGAGATTTTTCCCGTAATTTTGCTGA
1 TTTTATCAGATACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTCTCATAATTTTGCTGA
* * *
770661 AAGTGCATCATTCTTTAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
66 AAGTGCATCCTTCTTGAAGCTTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * * *
770722 TTTTATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCCGTAATTTTGCTGA
1 TTTTATCAGATACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTCTCATAATTTTGCTGA
*
770787 AAGTGCATCCTTC-----G--TTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTA
66 AAGTGCATCCTTCTTGAAGCTTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * ** *
770841 TTTTATCAGATACTACTATAGCAAAAGAGCGTCCATGTGGGAGCTTTTTC-CTATAATTTTGCTA
1 TTTTATCAGATACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTCTC-ATAATTTTGCTG
*
770905 AAAGTGCATCCTTCTTGAAGCGTTTTTGA
65 AAAGTGCATCCTTCTTGAAGCTTTTTTGA
770934 ATCTTCTCAA
Statistics
Matches: 673, Mismatches: 27, Indels: 25
0.93 0.04 0.03
Matches are distributed among these distances:
118 1 0.00
119 111 0.16
121 1 0.00
124 9 0.01
125 350 0.52
126 200 0.30
127 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTTATCAGATACTACTGTAGCAAAAGAGTGTCCACATGGGAGCTTTTTCTCATAATTTTGCTGA
AAGTGCATCCTTCTTGAAGCTTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
Found at i:771291 original size:15 final size:16
Alignment explanation
Indices: 771255--771293 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
771245 CCTTAAATAA
771255 CACTAAAACCCTAAAC
1 CACTAAAACCCTAAAC
*
771271 CACTAAAA-CCTTAAC
1 CACTAAAACCCTAAAC
*
771286 CCCTAAAA
1 CACTAAAA
771294 TAATCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (16 bp):
CACTAAAACCCTAAAC
Found at i:771321 original size:154 final size:154
Alignment explanation
Indices: 771154--771688 Score: 1061
Period size: 154 Copynumber: 3.5 Consensus size: 154
771144 TAAACCACCA
771154 AAAAACCCTAAACCACTAAGCCTTAATTTAATTGATTTTTTCTTATTTTCATAGTTAATTTAATT
1 AAAAACCCTAAACCACTAAGCCTTAATTTAATTGATTTTTTCTTATTTTCATAGTTAATTTAATT
771219 AATTAACCCTCGTTCATTAATTTTTCCCTTAAATAACACTAAAACCCTAAACCACTAAAACCTTA
66 AATTAACCCTCGTTCATTAATTTTTCCCTTAAATAACACTAAAACCCTAAACCACTAAAACCTTA
771284 ACCCCTAAAATAATCAAAAACCCT
131 ACCCCTAAAATAATCAAAAACCCT
771308 AAAAACCCTAAACCACTAAGCCTTAATTTAATTGATTTTTTCTTATTTTCATAGTTAATTTAATT
1 AAAAACCCTAAACCACTAAGCCTTAATTTAATTGATTTTTTCTTATTTTCATAGTTAATTTAATT
771373 AATTAACCCTCGTTCATTAATTTTTCCCTTAAATAACACTAAAACCCTAAACCACTAAAACCTTA
66 AATTAACCCTCGTTCATTAATTTTTCCCTTAAATAACACTAAAACCCTAAACCACTAAAACCTTA
771438 ACCCCTAAAATAATCAAAAACCCT
131 ACCCCTAAAATAATCAAAAACCCT
771462 AAAAACCCTAAACCACTAAGCCTTAATTTAATTGATTTTTTCTTATTTTCATAGTTAATTTAATT
1 AAAAACCCTAAACCACTAAGCCTTAATTTAATTGATTTTTTCTTATTTTCATAGTTAATTTAATT
771527 AATTAACCCTCGTTCATTAATTTTTCCCTTAAATAACACTAAAACCCTAAACCACTAAAACCTTA
66 AATTAACCCTCGTTCATTAATTTTTCCCTTAAATAACACTAAAACCCTAAACCACTAAAACCTTA
771592 ACCCCTAAAATAATCAAAAACCCT
131 ACCCCTAAAATAATCAAAAACCCT
*
771616 AAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTTAATTTAATT
1 AAAAACCCTAAACCACTAAGCCTTAATTTAATTGATTTTTTCTTATTTTCATAGTTAATTTAATT
771681 AATTAACC
66 AATTAACC
771689 TTCAACTCTA
Statistics
Matches: 380, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 380 1.00
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.35
Consensus pattern (154 bp):
AAAAACCCTAAACCACTAAGCCTTAATTTAATTGATTTTTTCTTATTTTCATAGTTAATTTAATT
AATTAACCCTCGTTCATTAATTTTTCCCTTAAATAACACTAAAACCCTAAACCACTAAAACCTTA
ACCCCTAAAATAATCAAAAACCCT
Found at i:771445 original size:15 final size:16
Alignment explanation
Indices: 771409--771447 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
771399 CCTTAAATAA
771409 CACTAAAACCCTAAAC
1 CACTAAAACCCTAAAC
*
771425 CACTAAAA-CCTTAAC
1 CACTAAAACCCTAAAC
*
771440 CCCTAAAA
1 CACTAAAA
771448 TAATCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (16 bp):
CACTAAAACCCTAAAC
Found at i:771599 original size:15 final size:16
Alignment explanation
Indices: 771563--771601 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
771553 CCTTAAATAA
771563 CACTAAAACCCTAAAC
1 CACTAAAACCCTAAAC
*
771579 CACTAAAA-CCTTAAC
1 CACTAAAACCCTAAAC
*
771594 CCCTAAAA
1 CACTAAAA
771602 TAATCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (16 bp):
CACTAAAACCCTAAAC
Found at i:771735 original size:114 final size:114
Alignment explanation
Indices: 771607--772198 Score: 1130
Period size: 114 Copynumber: 5.2 Consensus size: 114
771597 TAAAATAATC
771607 AAAAACCCTAAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTT
1 AAAAACCCTAAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTT
771672 AATTTAATTAATTAACCTTCAACTCTAAGTGTTCATTAATTTTTCCTTA
66 AATTTAATTAATTAACCTTCAACTCTAAGTGTTCATTAATTTTTCCTTA
771721 AAAAACCCTAAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTT
1 AAAAACCCTAAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTT
771786 AATTTAATTAATTAACCTTCAACTCTAAGTGTTCATTAATTTTTCCTTA
66 AATTTAATTAATTAACCTTCAACTCTAAGTGTTCATTAATTTTTCCTTA
771835 AAAAACCCTAAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTT
1 AAAAACCCTAAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTT
771900 AATTTAATTAATTAACCTTCAACTCTAAGTGTTCATTAATTTTTCCTTA
66 AATTTAATTAATTAACCTTCAACTCTAAGTGTTCATTAATTTTTCCTTA
771949 AAAAACCCTAAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTT
1 AAAAACCCTAAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTT
772014 AATTTAATTAATTAACCTTCAACTCTAAGTGTTCATTAATTTTTCCTTA
66 AATTTAATTAATTAACCTTCAACTCTAAGTGTTCATTAATTTTTCCTTA
772063 AAAAACCCTAAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTT
1 AAAAACCCTAAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTT
* *
772128 AATTTAATTAATTAACCCTCAACTTTAAGTGTTCATTAATTTTTCCCTTA
66 AATTTAATTAATTAACCTTCAACTCTAAGTGTTCATTAATTTTT-CCTTA
* * *
772178 AAAAACACAAAAAACTCTAAA
1 AAAAACCCTAAAAACCCTAAA
772199 TCGCTAAAAC
Statistics
Matches: 472, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
114 449 0.95
115 23 0.05
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (114 bp):
AAAAACCCTAAAAACCCTAAACCACTAAGCCCTAATTTAATTGATTTTTTCTTATTTTCATAGTT
AATTTAATTAATTAACCTTCAACTCTAAGTGTTCATTAATTTTTCCTTA
Done.