Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 19 of 161
Found at i:6311209 original size:23 final size:23
Alignment explanation
Indices: 6311167--6311226 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
6311157 TGTTTAGAGT
* * *
6311167 TTTTTAGAATATTAATTTTTATAA
1 TTTTTAAAATA-TAAATTTTAGAA
6311191 TTTTTAAAATATAAATTTTAGAA
1 TTTTTAAAATATAAATTTTAGAA
6311214 TTTTTATAAATAT
1 TTTTTA-AAATAT
6311227 TTTAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 16 0.50
24 16 0.50
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (23 bp):
TTTTTAAAATATAAATTTTAGAA
Found at i:6311230 original size:20 final size:20
Alignment explanation
Indices: 6311205--6311266 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
6311195 TAAAATATAA
6311205 ATTTTAGAATTTTTATAAAT
1 ATTTTAGAATTTTTATAAAT
*
6311225 ATTTTA-AA-TTTTAAAAATT
1 ATTTTAGAATTTTTATAAA-T
6311244 ATTTT-GAAATTTTT-TAAAT
1 ATTTTAG-AATTTTTATAAAT
6311263 -TTTT
1 ATTTT
6311267 GTTGAGACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
18 12 0.33
19 9 0.25
20 11 0.31
21 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
ATTTTAGAATTTTTATAAAT
Found at i:6313506 original size:54 final size:54
Alignment explanation
Indices: 6313438--6313581 Score: 157
Period size: 54 Copynumber: 2.7 Consensus size: 54
6313428 CTGTTGGGAT
**
6313438 AGTAAACACCGGGTAGTTCATCAGGACAGTAAACACGGGGTAG-TCTGTCAAGAC
1 AGTAAACATGGGGTAGTTCATCAGGACAGTAAACACGGGGTAGTTC-GTCAAGAC
* * * *
6313492 AGTAAACATGGGGTAGTTCAT-TGAGACAATAAATACGGGGTAGTTCGTCGAGAC
1 AGTAAACATGGGGTAGTTCATCAG-GACAGTAAACACGGGGTAGTTCGTCAAGAC
* * * * *
6313546 AATAAACGTGGGGTAGTTCGTCGGGAGAGTAAACAC
1 AGTAAACATGGGGTAGTTCATCAGGACAGTAAACAC
6313582 ATGGTTGTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
53 1 0.01
54 70 0.95
55 3 0.04
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (54 bp):
AGTAAACATGGGGTAGTTCATCAGGACAGTAAACACGGGGTAGTTCGTCAAGAC
Found at i:6313565 original size:27 final size:27
Alignment explanation
Indices: 6313440--6313616 Score: 133
Period size: 27 Copynumber: 6.6 Consensus size: 27
6313430 GTTGGGATAG
* * *
6313440 TAAACACCGGGTAGTTCATC-AGGACAG
1 TAAACACGGGGTAGTTCGTCGA-GACAA
* *
6313467 TAAACACGGGGTAG-TCTGTCAAGACAG
1 TAAACACGGGGTAGTTC-GTCGAGACAA
* * *
6313494 TAAACATGGGGTAGTTCATTGAGACAA
1 TAAACACGGGGTAGTTCGTCGAGACAA
*
6313521 TAAATACGGGGTAGTTCGTCGAGACAA
1 TAAACACGGGGTAGTTCGTCGAGACAA
** * * *
6313548 TAAACGTGGGGTAGTTCGTCGGGAGAG
1 TAAACACGGGGTAGTTCGTCGAGACAA
** * * * *
6313575 TAAACACATGGTTGTTTGTTGAGACAG
1 TAAACACGGGGTAGTTCGTCGAGACAA
*
6313602 TAAACACGGGATAGT
1 TAAACACGGGGTAGT
6313617 CCACTAAGAC
Statistics
Matches: 117, Mismatches: 30, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.02
27 112 0.96
28 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (27 bp):
TAAACACGGGGTAGTTCGTCGAGACAA
Found at i:6323677 original size:15 final size:15
Alignment explanation
Indices: 6323657--6323694 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6323647 TTGAGAAATC
6323657 AAAAAGAAAAGAAAG
1 AAAAAGAAAAGAAAG
*
6323672 AAAAAGAAAAGAGAG
1 AAAAAGAAAAGAAAG
*
6323687 AAGAAGAA
1 AAAAAGAA
6323695 GAAAAACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAGAAAG
Found at i:6324411 original size:26 final size:27
Alignment explanation
Indices: 6324382--6324438 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
6324372 TAAACAACTT
6324382 AATTACATTACACATATTT-TTTTAAA
1 AATTACATTACACATATTTATTTTAAA
*** * *
6324408 AATTTGTTTACATATTTTTATTTTAAA
1 AATTACATTACACATATTTATTTTAAA
6324435 AATT
1 AATT
6324439 GAGAAATACA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.53
Consensus pattern (27 bp):
AATTACATTACACATATTTATTTTAAA
Found at i:6330061 original size:20 final size:20
Alignment explanation
Indices: 6330018--6330079 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
6330008 ATAAACATTC
*
6330018 AATTAAATTTAATACTAAGAT
1 AATT-AATTTAATATTAAGAT
6330039 AATTAATTTAATATTAA-ATT
1 AATTAATTTAATATTAAGA-T
**
6330059 AA-TAAAATAATATTAAGAT
1 AATTAATTTAATATTAAGAT
6330078 AA
1 AA
6330080 ATATAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 16 0.44
20 16 0.44
21 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (20 bp):
AATTAATTTAATATTAAGAT
Found at i:6330119 original size:68 final size:69
Alignment explanation
Indices: 6329978--6330122 Score: 161
Period size: 68 Copynumber: 2.1 Consensus size: 69
6329968 TTAATCACTT
* * **
6329978 TAATATTAAATTAAACTAATATTTATCAAGATAAACATTCAATTAAATTTAATACTAAGATAATT
1 TAATATTAAATTAAACAAATATATATCAAGATAAACATAAAATTAAATTTAATACTAAGATAATT
**
6330043 AATT
66 AAAA
* * * *
6330047 TAATATTAAATTAATA-AAATA-ATATTAAGATAAATATAAAATTAAATTTAATATTAA-ATCTA
1 TAATATTAAATTAA-ACAAATATATATCAAGATAAACATAAAATTAAATTTAATACTAAGAT-AA
6330109 TTAAAA
64 TTAAAA
6330115 TAATATTA
1 TAATATTA
6330123 CTTTTGAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
67 2 0.03
68 43 0.67
69 18 0.28
70 1 0.02
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (69 bp):
TAATATTAAATTAAACAAATATATATCAAGATAAACATAAAATTAAATTTAATACTAAGATAATT
AAAA
Found at i:6338298 original size:14 final size:14
Alignment explanation
Indices: 6338279--6338310 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6338269 CTAATTAAAT
*
6338279 ATATAGATATACAC
1 ATATAGATACACAC
6338293 ATATAGATACACAC
1 ATATAGATACACAC
6338307 ATAT
1 ATAT
6338311 CATACATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (14 bp):
ATATAGATACACAC
Found at i:6343032 original size:23 final size:24
Alignment explanation
Indices: 6342996--6343040 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
6342986 TAGTCATTTA
* *
6342996 TTTTAATTTTTTTATT-TAAAAGT
1 TTTTAAGTTATTTATTATAAAAGT
6343019 TTTTAAGTTATTTATTATAAAA
1 TTTTAAGTTATTTATTATAAAA
6343041 ATAAATGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTAAGTTATTTATTATAAAAGT
Found at i:6355723 original size:40 final size:39
Alignment explanation
Indices: 6355658--6355918 Score: 301
Period size: 40 Copynumber: 6.6 Consensus size: 39
6355648 TACATCGTCA
* *
6355658 GATCC-ACCGAACACACTAGACAGAAGCTCATAAGAGCT
1 GATCCAACCGAACACACCAAACAGAAGCTCATAAGAGCT
* * *
6355696 AATCCACCCGAAGTACACCAAACAGAAGCTCATAAGAGCT
1 GATCCAACCGAA-CACACCAAACAGAAGCTCATAAGAGCT
6355736 GATCCAACCGTAACACACCAAACAGAAGCTCATAAGAGCT
1 GATCCAACCG-AACACACCAAACAGAAGCTCATAAGAGCT
* * * *
6355776 GATCC-ACTTGAAGCACACTAGACAGAAACTCATAAGAGCT
1 GATCCAAC-CGAA-CACACCAAACAGAAGCTCATAAGAGCT
*
6355816 GATCCAATCGTAACACACCAAACAGAAGCTCATAAGAGCT
1 GATCCAACCG-AACACACCAAACAGAAGCTCATAAGAGCT
* ** *
6355856 GATCCAACTGTAACATGCCAAACAAAAGCTCATAAGAGCT
1 GATCCAACCG-AACACACCAAACAGAAGCTCATAAGAGCT
* *
6355896 GGTCCAACCGAAACACGCCAAAC
1 GATCCAACCG-AACACACCAAAC
6355919 TGAAAGTATA
Statistics
Matches: 190, Mismatches: 26, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
38 4 0.02
39 9 0.05
40 172 0.91
41 5 0.03
ACGTcount: A:0.41, C:0.29, G:0.16, T:0.14
Consensus pattern (39 bp):
GATCCAACCGAACACACCAAACAGAAGCTCATAAGAGCT
Found at i:6355834 original size:120 final size:120
Alignment explanation
Indices: 6355669--6355901 Score: 360
Period size: 120 Copynumber: 1.9 Consensus size: 120
6355659 ATCCACCGAA
* * *
6355669 CACACTAGACAGAAGCTCATAAGAGCTAATCCACCCGAAGTACACCAAACAGAAGCTCATAAGAG
1 CACACTAGACAGAAACTCATAAGAGCTAATCCAACCGAAGCACACCAAACAGAAGCTCATAAGAG
*
6355734 CTGATCCAACCGTAACACACCAAACAGAAGCTCATAAGAGCTGATCCACTTGAAG
66 CTGATCCAACCGTAACACACCAAACAAAAGCTCATAAGAGCTGATCCACTTGAAG
* *
6355789 CACACTAGACAGAAACTCATAAGAGCTGATCCAATCGTAA-CACACCAAACAGAAGCTCATAAGA
1 CACACTAGACAGAAACTCATAAGAGCTAATCCAACCG-AAGCACACCAAACAGAAGCTCATAAGA
* ** *
6355853 GCTGATCCAACTGTAACATGCCAAACAAAAGCTCATAAGAGCTGGTCCA
65 GCTGATCCAACCGTAACACACCAAACAAAAGCTCATAAGAGCTGATCCA
6355902 ACCGAAACAC
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
120 100 0.98
121 2 0.02
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.15
Consensus pattern (120 bp):
CACACTAGACAGAAACTCATAAGAGCTAATCCAACCGAAGCACACCAAACAGAAGCTCATAAGAG
CTGATCCAACCGTAACACACCAAACAAAAGCTCATAAGAGCTGATCCACTTGAAG
Found at i:6362248 original size:61 final size:61
Alignment explanation
Indices: 6362178--6362308 Score: 149
Period size: 61 Copynumber: 2.1 Consensus size: 61
6362168 ATGTATGCAT
* * * * *
6362178 TATATATATGTGGTTTGAATATAGGT-TACAAATTCA-TTGAGCTAAATTTAATGTTTTGAAC
1 TATATATATGAGGTTCGAATATA-ATATACAAATT-ATTTGAGCTAAACTTAATGTTATGAAC
* * * *
6362239 TATACATATGAGGTTCGAATGTAATATACAAGTTATTTGAGCTAAACTTAATGTTATGAAT
1 TATATATATGAGGTTCGAATATAATATACAAATTATTTGAGCTAAACTTAATGTTATGAAC
6362300 TATATATAT
1 TATATATAT
6362309 TTATTCATGT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
60 2 0.03
61 56 0.97
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (61 bp):
TATATATATGAGGTTCGAATATAATATACAAATTATTTGAGCTAAACTTAATGTTATGAAC
Found at i:6362466 original size:41 final size:41
Alignment explanation
Indices: 6362421--6362556 Score: 218
Period size: 41 Copynumber: 3.3 Consensus size: 41
6362411 GCTCTATACT
* * *
6362421 TAGCAAGCTTAATGCCAGTGAAATAATTCAGACTTTATGTC
1 TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACGTC
*
6362462 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACGTC
1 TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACGTC
* *
6362503 TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACATT
1 TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACGTC
6362544 TAGCAGGCTTAAT
1 TAGCAGGCTTAAT
6362557 ACCGATGTTC
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACGTC
Found at i:6362588 original size:82 final size:82
Alignment explanation
Indices: 6362421--6362606 Score: 196
Period size: 82 Copynumber: 2.3 Consensus size: 82
6362411 GCTCTATACT
* ** * *
6362421 TAGCAAGCTTAATGCCAGTGAAATAATTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAAT
1 TAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACATCTAGCAGGCTTAATACCGATGAAAT
* * * *
6362486 ATTTCAGACTTTACGTC
66 ATATCAGACGTTAAGCC
* * ***
6362503 TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACATTTAGCAGGCTTAATACCGATGTTCT
1 TAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACATCTAGCAGGCTTAATACCGATGAAAT
*
6362568 GA-ATCAGGCGTTAAGCC
66 -ATATCAGACGTTAAGCC
*
6362585 TAGCAGGC-TACATGCTAGTGAA
1 TAGCAGGCTTA-ATGCCAGTGAA
6362607 TCATTTTAAA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 2 0.02
82 83 0.97
83 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (82 bp):
TAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACATCTAGCAGGCTTAATACCGATGAAAT
ATATCAGACGTTAAGCC
Found at i:6365685 original size:11 final size:10
Alignment explanation
Indices: 6365662--6365703 Score: 59
Period size: 11 Copynumber: 4.1 Consensus size: 10
6365652 CACTAAATCA
6365662 AAAATATTTGG
1 AAAA-ATTTGG
6365673 AAAAATTTAGG
1 AAAAATTT-GG
6365684 AAAAATTT-G
1 AAAAATTTGG
6365693 AAAAATTTGG
1 AAAAATTTGG
6365703 A
1 A
6365704 CTGCAGGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.31
10 6 0.21
11 14 0.48
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (10 bp):
AAAAATTTGG
Found at i:6388496 original size:40 final size:40
Alignment explanation
Indices: 6388398--6388660 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
6388388 TCCTCGTTCA
* * * ** *
6388398 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
6388437 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
6388477 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
6388517 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
6388557 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
6388597 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
6388637 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
6388661 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:6396444 original size:40 final size:40
Alignment explanation
Indices: 6396344--6396608 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
6396334 GCTCCTCGTT
* * * *
6396344 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
6396384 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
6396423 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
6396463 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
6396503 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
6396543 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
6396584 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
6396609 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:6396568 original size:80 final size:80
Alignment explanation
Indices: 6396311--6396608 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
6396301 AAATCACGTA
* ** * * *
6396311 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
6396373 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
6396389 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
6396452 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
6396469 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
6396533 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
6396549 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
6396609 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:6396617 original size:41 final size:41
Alignment explanation
Indices: 6396540--6396617 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
6396530 TTTGTATCTC
* * *
6396540 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
6396581 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
6396618 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:6398201 original size:44 final size:42
Alignment explanation
Indices: 6398135--6398252 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 42
6398125 TTATGTGTTA
*
6398135 TCGTGTAAGACCACGTCCGGGACGTTGGCATCGACTT-GTGATT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCG--TTAGTGATT
*
6398178 TACGTGTAAGACC-CTGTTTGGGACAG-TGGCATCGTTAGGTGATT
1 T-CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGTTA-GTGATT
* *
6398222 TCATGTAAGACCACGTCTAGGACGTTGGCAT
1 TCGTGTAAGACCACGTCTGGGACGTTGGCAT
6398253 TGTATGATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
42 3 0.05
43 25 0.40
44 34 0.54
45 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGTTAGTGATT
Found at i:6405800 original size:43 final size:43
Alignment explanation
Indices: 6405688--6405801 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
6405678 TGTGTTATCG
* *
6405688 TGTAAGACCACGTCCGGGACGTTGGCATCGACTTGTGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TTGTGATTTACA
* *
6405732 TGTAAGACC-CTGTTTGGGAAG-TGGCATCG-TTAGGTGATTT-CA
1 TGTAAGACCAC-GTCTGGGACGTTGGCATCGATT--GTGATTTACA
*
6405774 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
6405802 TGTATGATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
41 2 0.03
42 17 0.29
43 23 0.40
44 16 0.28
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTGTGATTTACA
Found at i:6411130 original size:16 final size:16
Alignment explanation
Indices: 6411109--6411141 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6411099 TGTTCATACA
6411109 CCCATGGTTAGCTTTT
1 CCCATGGTTAGCTTTT
6411125 CCCATGGTTAGCTTTT
1 CCCATGGTTAGCTTTT
6411141 C
1 C
6411142 TTTGTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.42
Consensus pattern (16 bp):
CCCATGGTTAGCTTTT
Found at i:6412316 original size:16 final size:16
Alignment explanation
Indices: 6412295--6412327 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6412285 TGTTCATACA
6412295 CCCATGGTTAGCTTTT
1 CCCATGGTTAGCTTTT
6412311 CCCATGGTTAGCTTTT
1 CCCATGGTTAGCTTTT
6412327 C
1 C
6412328 TTTGTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.42
Consensus pattern (16 bp):
CCCATGGTTAGCTTTT
Found at i:6413663 original size:31 final size:32
Alignment explanation
Indices: 6413612--6413673 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
6413602 ATATAAGAAT
6413612 TATTGTTACATACTTTTTATCATTTTAGTCAC
1 TATTGTTACATACTTTTTATCATTTTAGTCAC
*
6413644 TATTGTTACATA-TTTTTATCGTTTTAGTCA
1 TATTGTTACATACTTTTTATCATTTTAGTCA
6413674 TCGGTTGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.24, C:0.13, G:0.08, T:0.55
Consensus pattern (32 bp):
TATTGTTACATACTTTTTATCATTTTAGTCAC
Found at i:6413682 original size:32 final size:32
Alignment explanation
Indices: 6413613--6413683 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
6413603 TATAAGAATT
*
6413613 ATTGTTACATACTTTTTATCATTTTAGTCACT
1 ATTGTTACATACTTTTTATCATTTTAGTCACG
*
6413645 ATTGTTACATA-TTTTTATCGTTTTAGTCATCG
1 ATTGTTACATACTTTTTATCATTTTAGTCA-CG
*
6413677 GTTGTTA
1 ATTGTTA
6413684 ATTTACCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 17 0.49
32 18 0.51
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.54
Consensus pattern (32 bp):
ATTGTTACATACTTTTTATCATTTTAGTCACG
Found at i:6414057 original size:20 final size:21
Alignment explanation
Indices: 6414034--6414078 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
6414024 AATGAAAAAG
* *
6414034 AAAAATGAA-TTTTTTCTATA
1 AAAAATCAAGTTTTTCCTATA
*
6414054 AAAATTCAAGTTTTTCCTATA
1 AAAAATCAAGTTTTTCCTATA
6414075 AAAA
1 AAAA
6414079 CCTAAGTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAAATCAAGTTTTTCCTATA
Found at i:6415677 original size:25 final size:23
Alignment explanation
Indices: 6415648--6415702 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
6415638 GTTAAGATAG
*
6415648 TTTATGTT-ATGTTTTTGTTGTATT
1 TTTATGTTAATATTTTT-TTGT-TT
*
6415672 TGTTATTTTAATATTTTTTTGTTT
1 T-TTATGTTAATATTTTTTTGTTT
6415696 TTTATGT
1 TTTATGT
6415703 AGGTAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 5 0.19
24 4 0.15
25 10 0.38
26 7 0.27
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.73
Consensus pattern (23 bp):
TTTATGTTAATATTTTTTTGTTT
Found at i:6416841 original size:14 final size:14
Alignment explanation
Indices: 6416822--6416856 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
6416812 TTGACATTTT
*
6416822 TTCTAATGATATTA
1 TTCTAACGATATTA
6416836 TTCTAACGATATTA
1 TTCTAACGATATTA
6416850 TTCTAAC
1 TTCTAAC
6416857 ATGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (14 bp):
TTCTAACGATATTA
Found at i:6417523 original size:12 final size:12
Alignment explanation
Indices: 6417507--6417542 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6417497 AACTAGAGCT
6417507 AGAGCCAAAGCC
1 AGAGCCAAAGCC
* *
6417519 CGAGCCAAAGCA
1 AGAGCCAAAGCC
6417531 AGAGCCAAAGCC
1 AGAGCCAAAGCC
6417543 TGCTCTAGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.33, G:0.25, T:0.00
Consensus pattern (12 bp):
AGAGCCAAAGCC
Found at i:6418017 original size:49 final size:49
Alignment explanation
Indices: 6417957--6418177 Score: 313
Period size: 49 Copynumber: 4.5 Consensus size: 49
6417947 TTATTTATTT
6417957 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTTATA
1 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTTATA
6418006 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTTATA
1 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTTATA
* *
6418055 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTGTGGTCATA
1 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTTATA
* ** * * **
6418104 AATTAGA-TACATTACAACATTAAAACGAGAAACAAACTTTGT-AATATA
1 AATTAGATTA-ATTGCAACATTAAAACTTGGAACAAACTTTATGGTTATA
*
6418152 AATTAGA-TACATTACAACATTAAAAC
1 AATTAGATTA-ATTGCAACATTAAAAC
6418178 GAGGGACAAA
Statistics
Matches: 162, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
48 31 0.19
49 131 0.81
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.32
Consensus pattern (49 bp):
AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTTATA
Found at i:6418067 original size:98 final size:97
Alignment explanation
Indices: 6417957--6418253 Score: 341
Period size: 98 Copynumber: 3.1 Consensus size: 97
6417947 TTATTTATTT
* *
6417957 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTTATAAATTAGATTA-ATTGC
1 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATAAATTAGA-TACATTAC
** * **
6418021 AACATTAAAACTTGGAACAAACTTTATGGTTATA
65 AACATTAAAACGAGAAACAAACTTTAT-AATATA
*
6418055 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTGTGGTCATAAATTAGATACATTACA
1 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATAAATTAGATACATTACA
*
6418120 ACATTAAAACGAGAAACAAACTTTGTAATATA
66 ACATTAAAACGAGAAACAAACTTTATAATATA
* ** * * * ** * *
6418152 AATTAGA-TACATTACAACATTAAAACGAGGGACAAAATTTGTAAT-ATAAATTAGAAATATTAC
1 AATTAGATTA-ATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATAAATTAGATACATTAC
* *
6418215 AACATTAAAATGA-AGAACAAACTTTGTAATATA
65 AACATTAAAACGAGA-AACAAACTTTATAATATA
6418248 AATTAG
1 AATTAG
6418254 GTACATTAGC
Statistics
Matches: 177, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
95 1 0.01
96 54 0.31
97 41 0.23
98 81 0.46
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.31
Consensus pattern (97 bp):
AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATAAATTAGATACATTACA
ACATTAAAACGAGAAACAAACTTTATAATATA
Found at i:6418172 original size:48 final size:47
Alignment explanation
Indices: 6417957--6418253 Score: 306
Period size: 49 Copynumber: 6.1 Consensus size: 47
6417947 TTATTTATTT
* ** * **
6417957 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTTATA
1 AATTAGA-TAATTACAACATTAAAACGAGGAACAAACTTTGT-AATATA
* ** * **
6418006 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTTATA
1 AATTAGA-TAATTACAACATTAAAACGAGGAACAAACTTTGT-AATATA
* ** **
6418055 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTGTGGTCATA
1 AATTAGA-TAATTACAACATTAAAACGAGGAACAAACTTTGTAAT-ATA
*
6418104 AATTAGATACATTACAACATTAAAACGAGAAACAAACTTTGTAATATA
1 AATTAGATA-ATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
* *
6418152 AATTAGATACATTACAACATTAAAACGAGGGACAAAATTTGTAATATA
1 AATTAGATA-ATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
* * *
6418200 AATTAGAAATATTACAACATTAAAATGAAGAACAAACTTTGTAATATA
1 AATTAGATA-ATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
6418248 AATTAG
1 AATTAG
6418254 GTACATTAGC
Statistics
Matches: 229, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
48 100 0.44
49 129 0.56
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.31
Consensus pattern (47 bp):
AATTAGATAATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
Found at i:6422092 original size:4 final size:4
Alignment explanation
Indices: 6422083--6422128 Score: 67
Period size: 4 Copynumber: 11.2 Consensus size: 4
6422073 AAAAATACGT
6422083 TTTC TTTC TTTC TTTC TTCTC TTTTC TTTC TTTC TTTC TTT- TTTC T
1 TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC TTTC TTTC TTTC TTTC T
6422129 CCCTCTCTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.08
4 30 0.77
5 4 0.10
6 2 0.05
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:6422125 original size:18 final size:18
Alignment explanation
Indices: 6422087--6422124 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6422077 ATACGTTTTC
6422087 TTTCTTTCTTTCTTCTCT
1 TTTCTTTCTTTCTTCTCT
6422105 TTTCTTTCTTTCTT-TCT
1 TTTCTTTCTTTCTTCTCT
6422122 TTT
1 TTT
6422125 TTCTCCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTCTTTCTTCTCT
Found at i:6422140 original size:26 final size:26
Alignment explanation
Indices: 6422083--6422137 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
6422073 AAAAATACGT
* *
6422083 TTTCTTTCTTTCTTTCTTCTCTTTTC
1 TTTCTTTCTTTCTTTCTTCTCCTCTC
*
6422109 TTTCTTTCTTTCTTTTTTCTCCCTCTC
1 TTTCTTTCTTTCTTTCTTCT-CCTCTC
6422136 TT
1 TT
6422138 CTTCCTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTCTTTCTTTCTTTCTTCTCCTCTC
Found at i:6422140 original size:30 final size:30
Alignment explanation
Indices: 6422083--6422149 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
6422073 AAAAATACGT
* * *
6422083 TTTCTTTCTTTCTTTCTTCTCTTTTCTTTC
1 TTTCTTTCTTTCTTTCTCCTCTCTTCTTCC
6422113 TTTCTTTCTTT-TTTCTCCCTCTCTTCTTCC
1 TTTCTTTCTTTCTTTCT-CCTCTCTTCTTCC
6422143 TTATCTT
1 TT-TCTT
6422150 CTGCTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.16
30 23 0.72
31 4 0.12
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTCTTTCTTTCTTTCTCCTCTCTTCTTCC
Found at i:6424116 original size:17 final size:16
Alignment explanation
Indices: 6424067--6424118 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 16
6424057 GTTCAACAAA
6424067 CTAACTTCTTTAACAG
1 CTAACTTCTTTAACAG
6424083 ----CTT-TTTAACAG
1 CTAACTTCTTTAACAG
6424094 CTAACTTCTTTAACAG
1 CTAACTTCTTTAACAG
6424110 TCTAACTTC
1 -CTAACTTC
6424119 ACAACTGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
11 8 0.27
12 3 0.10
15 3 0.10
16 8 0.27
17 8 0.27
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (16 bp):
CTAACTTCTTTAACAG
Found at i:6435190 original size:16 final size:17
Alignment explanation
Indices: 6435162--6435199 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
6435152 GTCTTTTTAA
*
6435162 ATTTTATTTGATTTTTT
1 ATTTTATTTGATTTGTT
6435179 ATTTTA-TTGATTTGTT
1 ATTTTATTTGATTTGTT
6435195 ATTTT
1 ATTTT
6435200 CGAAACCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (17 bp):
ATTTTATTTGATTTGTT
Found at i:6437157 original size:3 final size:3
Alignment explanation
Indices: 6437138--6437187 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
6437128 AATTTATGTC
* * *
6437138 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATA ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6437184 ATA A
1 ATA A
6437188 AATGTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6437166 original size:18 final size:18
Alignment explanation
Indices: 6437138--6437184 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
6437128 AATTTATGTC
6437138 ATAAT-ATAATAACAATA
1 ATAATAATAATAACAATA
*
6437155 ATATTAATAATAACAATA
1 ATAATAATAATAACAATA
6437173 ATAATAA-AATAA
1 ATAATAATAATAA
6437185 TAAAATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAACAATA
Found at i:6438411 original size:34 final size:34
Alignment explanation
Indices: 6438364--6438438 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
6438354 TGGGAAAACG
* * *
6438364 TATAAATATTATG-AAATATAAACGTGTATATATA
1 TATAAAAACTATGAAAATA-AAACATGTATATATA
*
6438398 TATAAAAACTATGAAAATAAAATATGTATATATA
1 TATAAAAACTATGAAAATAAAACATGTATATATA
*
6438432 TTTAAAA
1 TATAAAA
6438439 CGTTTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 30 0.86
35 5 0.14
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.36
Consensus pattern (34 bp):
TATAAAAACTATGAAAATAAAACATGTATATATA
Found at i:6438518 original size:21 final size:19
Alignment explanation
Indices: 6438494--6438553 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
6438484 TATATGTAAG
*
6438494 TATAATGATAATAACATATAA
1 TATAATAATAATAA-A-ATAA
6438515 TATAATAATAATAAAATAA
1 TATAATAATAATAAAATAA
* *
6438534 TAACAATATTAATAAAATAA
1 T-ATAATAATAATAAAATAA
6438554 ATTAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 5 0.14
20 17 0.49
21 13 0.37
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
TATAATAATAATAAAATAA
Found at i:6438522 original size:3 final size:3
Alignment explanation
Indices: 6438495--6438553 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
6438485 ATATGTAAGT
* * *
6438495 ATA ATG ATA ATA ACA TATA AT- ATA ATA ATA ATA A-A ATA ATA ACA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
6438539 ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA A
6438554 ATTAAAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
2 6 0.14
3 36 0.82
4 2 0.05
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6438534 original size:29 final size:25
Alignment explanation
Indices: 6438501--6438554 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 25
6438491 AAGTATAATG
6438501 ATAATAACATATAATATAATAATAATAAA
1 ATAATAACA-AT-AT-TAATAA-AATAAA
6438530 ATAATAACAATATTAATAAAATAAA
1 ATAATAACAATATTAATAAAATAAA
6438555 TTAAAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 6 0.24
26 6 0.24
27 2 0.08
28 2 0.08
29 9 0.36
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAATAACAATATTAATAAAATAAA
Found at i:6440315 original size:100 final size:100
Alignment explanation
Indices: 6440190--6440381 Score: 294
Period size: 100 Copynumber: 1.9 Consensus size: 100
6440180 CTCAACTGCA
* * *
6440190 ATGTCGGGGAAACCAGATCCACCGTCGTAGCTTCAATCTATTCCATTGCACCACTAGGGAAGTAA
1 ATGTCGGGGAAACCAGATCCACCGTCGTAGCTTCAATCTATTCCACTACACCACCAGGGAAGTAA
* *
6440255 GATCTGCCGTTGTGGCTTTAATCTTTTTAATTGAT
66 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGAT
** * **
6440290 ATGTCGGGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTACACTGCCAGGGAAGTAA
1 ATGTCGGGGAAACCAGATCCACCGTCGTAGCTTCAATCTATTCCACTACACCACCAGGGAAGTAA
6440355 GATCCGCCGTTGTGGCTTCAATCTTTT
66 GATCCGCCGTTGTGGCTTCAATCTTTT
6440382 CCACTGTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (100 bp):
ATGTCGGGGAAACCAGATCCACCGTCGTAGCTTCAATCTATTCCACTACACCACCAGGGAAGTAA
GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGAT
Found at i:6440384 original size:50 final size:50
Alignment explanation
Indices: 6440204--6440386 Score: 134
Period size: 50 Copynumber: 3.7 Consensus size: 50
6440194 CGGGGAAACC
* * * * ** *
6440204 AGATCCACCGTCGTAGCTTCAATCTATTCCATTGCACCACTAGGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTTTTCCACTACACTGCCAGGGAAGTA
* * * * ** * * * * ***
6440254 AGATCTGCCGTTGTGGCTTTAATCTTTTTAATTGATA-TGTCGGGGAAACC
1 AGATCCGCCGTCGTAGCTTCAATCTTTTCCACT-ACACTGCCAGGGAAGTA
* *
6440304 AGATCTGCCGTCGTAGCTTCAATCTGTTCCACTACACTGCCAGGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTTTTCCACTACACTGCCAGGGAAGTA
* *
6440354 AGATCCGCCGTTGTGGCTTCAATCTTTTCCACT
1 AGATCCGCCGTCGTAGCTTCAATCTTTTCCACT
6440387 GTAATGCCAA
Statistics
Matches: 96, Mismatches: 35, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
49 2 0.02
50 93 0.97
51 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (50 bp):
AGATCCGCCGTCGTAGCTTCAATCTTTTCCACTACACTGCCAGGGAAGTA
Found at i:6440395 original size:50 final size:49
Alignment explanation
Indices: 6440245--6440395 Score: 142
Period size: 50 Copynumber: 3.0 Consensus size: 49
6440235 TTGCACCACT
* ** * *
6440245 AGGGAAGTAAGATCTGCCGTTGTGGCTTTAATCTTTTTAATTGATATGTC
1 AGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTCCACTGA-ATGCC
* *** * * *
6440295 GGGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACT-ACACTGCC
1 AGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTCCACTGA-A-TGCC
*
6440345 AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTCCACTGTAATGCC
1 AGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTCCACTG-AATGCC
6440395 A
1 A
6440396 AAGAGGTAGG
Statistics
Matches: 77, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
49 2 0.03
50 73 0.95
51 1 0.01
52 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (49 bp):
AGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTCCACTGAATGCC
Found at i:6452853 original size:3 final size:3
Alignment explanation
Indices: 6452831--6452887 Score: 64
Period size: 3 Copynumber: 19.3 Consensus size: 3
6452821 ATATGTAAGT
* *
6452831 ATA ATG ATA ATA ACA TATA ATA ATA ATA ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
6452876 TTA ATA A-A ATA A
1 ATA ATA ATA ATA A
6452888 ATTAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 4 0.09
3 39 0.87
4 2 0.04
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6452867 original size:17 final size:17
Alignment explanation
Indices: 6452830--6452887 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
6452820 TATATGTAAG
* *
6452830 TATAATGATAATAA-CA
1 TATAATAATAATAATAA
6452846 TATAATAATAATAATAA
1 TATAATAATAATAATAA
*
6452863 TATAATAATAATATTAA
1 TATAATAATAATAATAA
*
6452880 TAAAATAA
1 TATAATAA
6452888 ATTAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
16 13 0.35
17 24 0.65
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
TATAATAATAATAATAA
Found at i:6452869 original size:14 final size:14
Alignment explanation
Indices: 6452850--6452887 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
6452840 ATAACATATA
6452850 ATAATAATAATAAT
1 ATAATAATAATAAT
6452864 ATAATAATAAT-AT
1 ATAATAATAATAAT
6452877 -TAATAA-AATAA
1 ATAATAATAATAA
6452888 ATTAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 3 0.13
12 7 0.30
13 2 0.09
14 11 0.48
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:6454288 original size:22 final size:22
Alignment explanation
Indices: 6454260--6454301 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6454250 AAATTATATA
6454260 AACTTATAAAAACTATAAAATT
1 AACTTATAAAAACTATAAAATT
* *
6454282 AACTTATAAATATTATAAAA
1 AACTTATAAAAACTATAAAA
6454302 AAGTTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
AACTTATAAAAACTATAAAATT
Found at i:6454339 original size:9 final size:9
Alignment explanation
Indices: 6454239--6454419 Score: 62
Period size: 10 Copynumber: 18.6 Consensus size: 9
6454229 ATATATTAAG
6454239 AAAAATTAT
1 AAAAATTAT
*
6454248 TAAAATTAT
1 AAAAATTAT
*
6454257 ATAAACTTAT
1 A-AAAATTAT
*
6454267 AAAAACTAT
1 AAAAATTAT
6454276 AAAATTAACTTAT
1 -AAA--AA-TTAT
*
6454289 AAATATTAT
1 AAAAATTAT
6454298 AAAAAAGTTAT
1 -AAAAA-TTAT
*
6454309 --AAATTCCTT
1 AAAAATT--AT
*
6454318 AATAAATTCT
1 AA-AAATTAT
6454328 AAAAATTAT
1 AAAAATTAT
6454337 AAAAAATTAT
1 -AAAAATTAT
6454347 -AAAATTAAT
1 AAAAATT-AT
*
6454356 AAAAACATATT
1 AAAAA-TTA-T
* *
6454367 TAAAATAAT
1 AAAAATTAT
**
6454376 AATATTTTAT
1 AA-AAATTAT
6454386 AAAAATGTAT
1 AAAAAT-TAT
* * *
6454396 TAGAATTCTT
1 AAAAATT-AT
6454406 AAAAATTAT
1 AAAAATTAT
6454415 AAAAA
1 AAAAA
6454420 AATATTAAAA
Statistics
Matches: 125, Mismatches: 27, Indels: 40
0.65 0.14 0.21
Matches are distributed among these distances:
7 2 0.02
8 9 0.07
9 38 0.30
10 53 0.42
11 10 0.08
12 10 0.08
13 3 0.02
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6454343 original size:10 final size:10
Alignment explanation
Indices: 6454328--6454574 Score: 51
Period size: 10 Copynumber: 24.3 Consensus size: 10
6454318 AATAAATTCT
6454328 AAAAATTATA
1 AAAAATTATA
6454338 AAAAATTAT-
1 AAAAATTATA
6454347 -AAAATTAATA
1 AAAAATT-ATA
*
6454357 AAAACA-TATT
1 AAAA-ATTATA
* *
6454367 TAAAATAATA
1 AAAAATTATA
* **
6454377 ATATTTTAT-
1 AAAAATTATA
6454386 AAAAATGTAT-
1 AAAAAT-TATA
* * * *
6454396 TAGAATTCTT
1 AAAAATTATA
6454406 AAAAATTATA
1 AAAAATTATA
*
6454416 AAAAAATAT-
1 AAAAATTATA
*
6454425 TAAAATTGATA
1 AAAAATT-ATA
* **
6454436 TAAGCTTATA
1 AAAAATTATA
* *
6454446 AAATTTATTTTA
1 AAA--AATTATA
6454458 AAAAATTATA
1 AAAAATTATA
*
6454468 AAAAAATAT-
1 AAAAATTATA
*
6454477 TAAAATTGATA
1 AAAAATT-ATA
* **
6454488 TAAGCTTATA
1 AAAAATTATA
* *
6454498 AAATTTATTTTA
1 AAA--AATTATA
6454510 AAAAATTATA
1 AAAAATTATA
*
6454520 AAAAAATAT-
1 AAAAATTATA
*
6454529 TAAAATTGATA
1 AAAAATT-ATA
* **
6454540 TAAGCTTATA
1 AAAAATTATA
* *
6454550 AAATTTATTTTA
1 AAA--AATTATA
6454562 AAAAATTATA
1 AAAAATTATA
6454572 AAA
1 AAA
6454575 GCTTAAATTG
Statistics
Matches: 166, Mismatches: 52, Indels: 38
0.65 0.20 0.15
Matches are distributed among these distances:
8 6 0.04
9 23 0.14
10 96 0.58
11 19 0.11
12 22 0.13
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.37
Consensus pattern (10 bp):
AAAAATTATA
Found at i:6454343 original size:19 final size:19
Alignment explanation
Indices: 6454239--6454574 Score: 99
Period size: 19 Copynumber: 16.7 Consensus size: 19
6454229 ATATATTAAG
*
6454239 AAAAATTATTAAAATTATA
1 AAAAATTATAAAAATTATA
* * *
6454258 TAAACTTATAAAAACTATA
1 AAAAATTATAAAAATTATA
*
6454277 AAATTAACTTATAAATATTATA
1 AAA--AA-TTATAAAAATTATA
*
6454299 AAAAAGTTAT--AAATTCCTTA
1 AAAAA-TTATAAAAATT--ATA
* *
6454319 ATAAATTCTAAAAATTATA
1 AAAAATTATAAAAATTATA
6454338 AAAAATTAT-AAAATTAATA
1 AAAAATTATAAAAATT-ATA
* *
6454357 AAAACA-TATTTAAAATAATA
1 AAAA-ATTA-TAAAAATTATA
* **
6454377 ATATTTTATAAAAATGTAT-
1 AAAAATTATAAAAAT-TATA
* * *
6454396 TAGAATTCTTAAAAATTATA
1 AAAAATT-ATAAAAATTATA
* *
6454416 AAAAAATATTAAAATTGATA
1 AAAAATTATAAAAATT-ATA
* ** *
6454436 TAAGCTTATAAAATTTATTTTA
1 AAAAATTATAAAA---ATTATA
*
6454458 AAAAATTATAAAAA-AATA
1 AAAAATTATAAAAATTATA
* **
6454476 TTAAAATTGATATAAGCTTATA
1 -AAAAATT-ATA-AAAATTATA
* *
6454498 AAATTTATTTTAAAAAATTATA
1 AAA--AATTAT-AAAAATTATA
* *
6454520 AAAAAATATTAAAATTGATA
1 AAAAATTATAAAAATT-ATA
* ** *
6454540 TAAGCTTATAAAATTTATTTTA
1 AAAAATTATAAAA---ATTATA
6454562 AAAAATTATAAAA
1 AAAAATTATAAAA
6454575 GCTTAAATTG
Statistics
Matches: 221, Mismatches: 66, Indels: 57
0.64 0.19 0.17
Matches are distributed among these distances:
18 12 0.05
19 69 0.31
20 62 0.28
21 15 0.07
22 53 0.24
23 10 0.05
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAAATTATAAAAATTATA
Found at i:6454469 original size:52 final size:52
Alignment explanation
Indices: 6454406--6454574 Score: 338
Period size: 52 Copynumber: 3.2 Consensus size: 52
6454396 TAGAATTCTT
6454406 AAAAATTATAAAAAAATATTAAAATTGATATAAGCTTATAAAATTTATTTTA
1 AAAAATTATAAAAAAATATTAAAATTGATATAAGCTTATAAAATTTATTTTA
6454458 AAAAATTATAAAAAAATATTAAAATTGATATAAGCTTATAAAATTTATTTTA
1 AAAAATTATAAAAAAATATTAAAATTGATATAAGCTTATAAAATTTATTTTA
6454510 AAAAATTATAAAAAAATATTAAAATTGATATAAGCTTATAAAATTTATTTTA
1 AAAAATTATAAAAAAATATTAAAATTGATATAAGCTTATAAAATTTATTTTA
6454562 AAAAATTATAAAA
1 AAAAATTATAAAA
6454575 GCTTAAATTG
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 117 1.00
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (52 bp):
AAAAATTATAAAAAAATATTAAAATTGATATAAGCTTATAAAATTTATTTTA
Found at i:6458410 original size:84 final size:84
Alignment explanation
Indices: 6458277--6458434 Score: 235
Period size: 84 Copynumber: 1.9 Consensus size: 84
6458267 CGCCTTTGTT
* * *
6458277 TGGAAACAAAACAATATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTT
1 TGGAAACAAAACAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAAATTTT
6458342 ATTTAATTTAATTCTAATC
66 ATTTAATTTAATTCTAATC
* * * * * *
6458361 TGGAAACGAAATAAAATCAAATAAAATCTTGTTAAATGGCTGGAGTAAATCCCAAAATAAATTTT
1 TGGAAACAAAACAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAAATTTT
6458426 ATTTAATTT
66 ATTTAATTT
6458435 TAGTTTCTCG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 65 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (84 bp):
TGGAAACAAAACAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAAATTTT
ATTTAATTTAATTCTAATC
Found at i:6458603 original size:87 final size:84
Alignment explanation
Indices: 6458489--6458687 Score: 206
Period size: 85 Copynumber: 2.3 Consensus size: 84
6458479 TTGAATGACA
** * * *
6458489 GGAATAAATCCCAAAGCATATTTTATTTTAA-TTTAA-TACTCGTTTTGGAAATAAAATTAAAAT
1 GGAATAAATCCCAAA-CGGATTTTATTTTAACTTTAATTACCCG-TTT-GAAA-AAAATAAAAAG
* *
6458552 TGGAATAAAATTCATTGAACGGC
62 TGGAATAAAATCCATTAAACGGC
* * *
6458575 GAGAATAAATCCCTAAACGGATTATA-TTTAACTTTAATTTCCCGTTTGAAAATAATAAAAAGTG
1 G-GAATAAATCCC-AAACGGATTTTATTTTAACTTTAATTACCCGTTTGAAAAAAATAAAAAGTG
*
6458639 GAATAAAATCCATTAAATGGC
64 GAATAAAATCCATTAAACGGC
*
6458660 GGAATAAATCTCGAAACGGATTTTATTT
1 GGAATAAATC-CCAAACGGATTTTATTT
6458688 ACTTTTAATT
Statistics
Matches: 94, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
84 20 0.21
85 32 0.34
86 10 0.11
87 25 0.27
88 7 0.07
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (84 bp):
GGAATAAATCCCAAACGGATTTTATTTTAACTTTAATTACCCGTTTGAAAAAAATAAAAAGTGGA
ATAAAATCCATTAAACGGC
Found at i:6461502 original size:33 final size:33
Alignment explanation
Indices: 6461465--6461605 Score: 86
Period size: 33 Copynumber: 4.2 Consensus size: 33
6461455 ATAGCTAGGC
6461465 TATGGCATTCTGATGATAAGACCATAACTGGGT
1 TATGGCATTCTGATGATAAGACCATAACTGGGT
* * ** *** * *
6461498 TATGGCACTATGAACATAAGACCATGGTTAGAT
1 TATGGCATTCTGATGATAAGACCATAACTGGGT
* * * * * *
6461531 CATGGAAGTGTTTATATG-TAAGACCATAGCTGGGC
1 TATGGCA-T-TCT-GATGATAAGACCATAACTGGGT
* * *
6461566 TATGGTATTCTGATGATAATACCATAATTGGGT
1 TATGGCATTCTGATGATAAGACCATAACTGGGT
6461599 TATGGCA
1 TATGGCA
6461606 CTACGAATGT
Statistics
Matches: 74, Mismatches: 30, Indels: 8
0.66 0.27 0.07
Matches are distributed among these distances:
32 3 0.04
33 50 0.68
34 1 0.01
35 19 0.26
36 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (33 bp):
TATGGCATTCTGATGATAAGACCATAACTGGGT
Found at i:6461553 original size:101 final size:101
Alignment explanation
Indices: 6461378--6461608 Score: 365
Period size: 101 Copynumber: 2.3 Consensus size: 101
6461368 TGAATTGAAG
* * *
6461378 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGATTGGACTATGGTAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGATTAGACTATGGAAGTGTTT
*
6461443 ATATGTAAGAGCATAGCTAGGCTATGGCATTCTGAT
66 ATATGTAAGACCATAGCTAGGCTATGGCATTCTGAT
*
6461479 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTAGA-TCATGGAAGTGTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGATTAGACT-ATGGAAGTGTT
* *
6461543 TATATGTAAGACCATAGCTGGGCTATGGTATTCTGAT
65 TATATGTAAGACCATAGCTAGGCTATGGCATTCTGAT
* *
6461580 GATAATACCATAATTGGGTTATGGCACTA
1 GATAAGACCATAACTGGGTTATGGCACTA
6461609 CGAATGTAAA
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
100 1 0.01
101 119 0.99
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGATTAGACTATGGAAGTGTTT
ATATGTAAGACCATAGCTAGGCTATGGCATTCTGAT
Found at i:6467577 original size:19 final size:20
Alignment explanation
Indices: 6467549--6467587 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
6467539 ATAGCGTACC
6467549 ATTTTGGTAT-TTATTTTTT
1 ATTTTGGTATCTTATTTTTT
* *
6467568 ATTTTTGTATCTTCTTTTTT
1 ATTTTGGTATCTTATTTTTT
6467588 TTTCTTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (20 bp):
ATTTTGGTATCTTATTTTTT
Found at i:6470400 original size:41 final size:41
Alignment explanation
Indices: 6470332--6470581 Score: 197
Period size: 41 Copynumber: 6.2 Consensus size: 41
6470322 TGGACTTTCG
* * *
6470332 GGGATTTAGTGGCGTATTT-TAGGAAGCGCCGCTAATGCTCA
1 GGGATTTAGCGGCGT-TTTCGAGAAAGCGCCGCTAATGCTCA
* * * * *
6470373 GGGATTTAGCGGCATTTTCGAGAAAGCGCTGCTAAAGATTA
1 GGGATTTAGCGGCGTTTTCGAGAAAGCGCCGCTAATGCTCA
** * ** * *
6470414 GGCTTTTTGCGGCGTTTTTTAGAAAGCGACGCTAATGCTTA
1 GGGATTTAGCGGCGTTTTCGAGAAAGCGCCGCTAATGCTCA
* * * *
6470455 GGGCTTTAGC-G-ATTTT-GAGGAAGCGTCGCTAATGCT-A
1 GGGATTTAGCGGCGTTTTCGAGAAAGCGCCGCTAATGCTCA
* * * *
6470492 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTATTGCTCA
1 GGGATTTAGCGGCGTTTTCGAGAAAGCGCCGCTAATGCTCA
* * * *
6470533 AGGATTTAGTGGCGTTTTCTA-AAATGCGCCGCTAATACTCA
1 GGGATTTAGCGGCGTTTTCGAGAAA-GCGCCGCTAATGCTCA
6470574 GGGATTTA
1 GGGATTTA
6470582 AAATAATTTA
Statistics
Matches: 164, Mismatches: 39, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
37 11 0.07
38 18 0.11
39 8 0.05
40 23 0.14
41 104 0.63
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (41 bp):
GGGATTTAGCGGCGTTTTCGAGAAAGCGCCGCTAATGCTCA
Found at i:6470525 original size:78 final size:82
Alignment explanation
Indices: 6470336--6470551 Score: 223
Period size: 82 Copynumber: 2.7 Consensus size: 82
6470326 CTTTCGGGGA
*
6470336 TTTAGTGGCGTATTTTAGG-AAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTCGAGAAAGC
1 TTTAGCGGCGT-TTTTAGGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTCGAGAAAGC
*
6470400 GCTGCTAAAGATTAGGCT
65 GCTGCTAAAGACTAGGCT
* * * * *
6470418 TTTTGCGGCGTTTTTTA-GAAAGCGACGCTAATGCTTAGGGCTTTAGC-G-ATTTT-GAGGAAGC
1 TTTAGCGGCG-TTTTTAGGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTCGAGAAAGC
*
6470479 G-TCGCTAATG-CTAGGGC-
65 GCT-GCTAAAGACTA-GGCT
* * * * *
6470496 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTATTGCTCAAGGATTTAGTGGCGTTTTC
1 TTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTC
6470552 TAAAATGCGC
Statistics
Matches: 109, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
77 5 0.05
78 36 0.33
79 18 0.17
80 9 0.08
81 2 0.02
82 38 0.35
83 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (82 bp):
TTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTCGAGAAAGCG
CTGCTAAAGACTAGGCT
Found at i:6470566 original size:119 final size:119
Alignment explanation
Indices: 6470347--6470568 Score: 261
Period size: 119 Copynumber: 1.9 Consensus size: 119
6470337 TTAGTGGCGT
*
6470347 ATTTTAGGAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTCGAGAAAGCGCTGCTAAAGAT
1 ATTTTAGGAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTCGAGAAAGCGCCGCTAAAGAT
* * * *
6470412 TAGGCTTTTTGCGGCGTTTTTTAGAAAGCGACGCTAATGCTTAGGGCTTTAGCG
66 AAGGCATTTAGCGGCGTTTTCTAGAAAGCGACGCTAATGCTTAGGGCTTTAGCG
* * * * * ** *
6470466 ATTTTGAGGAAGCGTCGCTAATGCT-AGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTATTGC
1 ATTTT-AGGAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTCGAGAAAGCGCCGCTAAAGA
* *
6470530 TCAAGG-ATTTAGTGGCGTTTTCTA-AAATGCGCCGCTAAT
65 T-AAGGCATTTAGCGGCGTTTTCTAGAAA-GCGACGCTAAT
6470569 ACTCAGGGAT
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
118 3 0.04
119 61 0.72
120 21 0.25
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (119 bp):
ATTTTAGGAAGCGCCGCTAATGCTCAGGGATTTAGCGGCATTTTCGAGAAAGCGCCGCTAAAGAT
AAGGCATTTAGCGGCGTTTTCTAGAAAGCGACGCTAATGCTTAGGGCTTTAGCG
Found at i:6470775 original size:14 final size:14
Alignment explanation
Indices: 6470756--6470804 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
6470746 TATTACTATA
*
6470756 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
6470770 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
6470784 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
6470798 GTTTAGG
1 GTTTAGG
6470805 TGTTACCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:6471242 original size:15 final size:14
Alignment explanation
Indices: 6471221--6471269 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
6471211 CAAATTTTAA
6471221 GGTTTAGGGATTAT
1 GGTTTAGGGATTAT
6471235 GTGTTTAGGGATTAT
1 G-GTTTAGGGATTAT
* *
6471250 GGATTATGGATTAT
1 GGTTTAGGGATTAT
6471264 GGTTTA
1 GGTTTA
6471270 AGGGTTGGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 17 0.55
15 14 0.45
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:6471312 original size:22 final size:22
Alignment explanation
Indices: 6471287--6471328 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6471277 GGGTTTAAAA
*
6471287 TTTAGGGGTTAAGGGTTATGGG
1 TTTAGGGATTAAGGGTTATGGG
*
6471309 TTTAGGGATTAAGGTTTATG
1 TTTAGGGATTAAGGGTTATG
6471329 ATTTACGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.40
Consensus pattern (22 bp):
TTTAGGGATTAAGGGTTATGGG
Found at i:6475520 original size:43 final size:43
Alignment explanation
Indices: 6475443--6475686 Score: 232
Period size: 43 Copynumber: 5.7 Consensus size: 43
6475433 TAAATATTTT
* *
6475443 TAAAGGTCATGTT-TTTAGCGGC-TTTTTGTAGAAAAAGCGACGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTATG--GAAAAAGCGACGC
* *
6475486 TAAAGGTCTTGTTCTTTAGCGTCGTTTATGGAAAAAGC-ATCGT
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTATGGAAAAAGCGA-CGC
* * * *
6475529 TAAAGGTCATATTCTATAGAGGCGTTTATGGGAAAAATGC--CGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTAT-GGAAAAA-GCGACGC
* * * *
6475572 TAAAGGTCATT-ATCTTTAGCGGCGTTTGTGGAAGAAGCGTCGC
1 TAAAGGTC-TTGTTCTTTAGCGGCGTTTATGGAAAAAGCGACGC
* * *
6475615 TAAAGGTCTTGTTCTTTAGCGGCGTTT-TTGAGAAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTATGGAAAAAGCGACGC
* *
6475657 GAAAGGTCTTGTTCTATAGCGGCGTTTATG
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTATG
6475687 TCTAAAAATG
Statistics
Matches: 167, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
41 2 0.01
42 45 0.27
43 97 0.58
44 16 0.10
45 7 0.04
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTATGGAAAAAGCGACGC
Found at i:6475694 original size:129 final size:129
Alignment explanation
Indices: 6475443--6475705 Score: 316
Period size: 129 Copynumber: 2.0 Consensus size: 129
6475433 TAAATATTTT
* *
6475443 TAAAGGTCATGTTTTTAGCGGCTTTTTGTAGAAAAAGCGACGCTAAAGGTCTTGTTCTTTAGCGT
1 TAAAGGTCATGTTTTTAGCGGCTGTTTGTAGAAAAAGCGACGCTAAAGGTCTTGTTCTTTAGCGG
* ** *
6475508 CGTTTATGGAAAAAGCATCGTTAAAGGTCATATTCTATAGAGGCGTTTATGGGAAAAATGCCGC
66 CGTTTATGGAAAAAGCACCGCGAAAGGTCATATTCTATAGAGGCGTTTATGCGAAAAATGCCGC
* * *
6475572 TAAAGGTCAT-TATCTTTAGCGGC-GTTTGTGGAAGAAGCGTCGCTAAAGGTCTTGTTCTTTAGC
1 TAAAGGTCATGT-T-TTTAGCGGCTGTTTGTAGAAAAAGCGACGCTAAAGGTCTTGTTCTTTAGC
* * * * * * * *
6475635 GGCGTTT-TTGAGAAAGCGCCGCGAAAGGTCTTGTTCTATAGCGGCGTTTATGTCTAAAAATGTC
64 GGCGTTTATGGAAAAAGCACCGCGAAAGGTCATATTCTATAGAGGCGTTTATG-CGAAAAATGCC
6475699 GC
128 GC
*
6475701 AAAAG
1 TAAAG
6475706 TTAGCGGCGT
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
128 37 0.33
129 67 0.59
130 9 0.08
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (129 bp):
TAAAGGTCATGTTTTTAGCGGCTGTTTGTAGAAAAAGCGACGCTAAAGGTCTTGTTCTTTAGCGG
CGTTTATGGAAAAAGCACCGCGAAAGGTCATATTCTATAGAGGCGTTTATGCGAAAAATGCCGC
Found at i:6477277 original size:33 final size:33
Alignment explanation
Indices: 6477240--6477351 Score: 111
Period size: 33 Copynumber: 3.5 Consensus size: 33
6477230 CGCAGTATAG
* * * *
6477240 CACTCCTCTCGGCTCGTATACACCGCATTATTC
1 CACTCCTCCCGGCTCGTATCCACCGCAATACTC
*** *
6477273 CACTCCTCTTTGCTCGTATCCACTGCAATACT-
1 CACTCCTCCCGGCTCGTATCCACCGCAATACTC
* *
6477305 C-CTCCTCCCGGATCGTATCCACCGCAGTACTC
1 CACTCCTCCCGGCTCGTATCCACCGCAATACTC
*
6477337 CACTTCTCCCGGCTC
1 CACTCCTCCCGGCTC
6477352 AAGTTCATCG
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
31 24 0.38
32 2 0.03
33 37 0.59
ACGTcount: A:0.16, C:0.43, G:0.12, T:0.29
Consensus pattern (33 bp):
CACTCCTCCCGGCTCGTATCCACCGCAATACTC
Found at i:6477721 original size:48 final size:48
Alignment explanation
Indices: 6477650--6477972 Score: 472
Period size: 48 Copynumber: 6.7 Consensus size: 48
6477640 ACTTTGTAAT
* *
6477650 ATGAATAAACTTTGTAATATAAATTAGATACATTACAATATTAAAATG
1 ATGAACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
* * *
6477698 ATGAACACAA-TTTGCAATATAAATTAGATACATTATAATATTAAAATG
1 ATGAACA-AACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
* *
6477746 ATGAACAAAATTTGTAATATAAATTAGATACATTACAACATTAAAACG
1 ATGAACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
* * *
6477794 AGGAACAAACTTTGTAATATAAATTAAATACATTACAACATTAAAACG
1 ATGAACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
*
6477842 A-GAAACAAACTTTGTAATATAAATTAGATATATTACAACATTAAAATG
1 ATG-AACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
* *
6477890 AGGAACAAACTTTGTAATATAAATTAGATGCATTACAACATTAAAATG
1 ATGAACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
*
6477938 AAT-AACAAACTTTGTAATATAAATTAGGTACATTA
1 -ATGAACAAACTTTGTAATATAAATTAGATACATTA
6477973 GCTCAATTCC
Statistics
Matches: 252, Mismatches: 18, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
47 3 0.01
48 245 0.97
49 4 0.02
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (48 bp):
ATGAACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
Found at i:6481957 original size:27 final size:27
Alignment explanation
Indices: 6481890--6481958 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
6481880 AAATTTAATA
* * *
6481890 CACTGGTGCCGCCTATCAGATAGGGGT
1 CACTAGTGCCGCCTATCAGATAAGGGC
* *
6481917 CACCAATGCCGCCTATCAGATAAGGGC
1 CACTAGTGCCGCCTATCAGATAAGGGC
*
6481944 CACTAGTGCTGCCTA
1 CACTAGTGCCGCCTA
6481959 CCACACCCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.20
Consensus pattern (27 bp):
CACTAGTGCCGCCTATCAGATAAGGGC
Found at i:6482840 original size:31 final size:33
Alignment explanation
Indices: 6482767--6482856 Score: 94
Period size: 35 Copynumber: 2.7 Consensus size: 33
6482757 AAGGGTGAGA
*
6482767 AGTAAAAGTTTAGGGGGAAAATAAAAAGTTTTGGAG
1 AGTAAAAGTTTAGAGGGAAAATAAAAAG---TGGAG
* *
6482803 AATAAAAGTTT-GAGGGAAAATAAATAG-GGAG
1 AGTAAAAGTTTAGAGGGAAAATAAAAAGTGGAG
* *
6482834 AGTAAAATTTTGGAGGGAAAATA
1 AGTAAAAGTTTAGAGGGAAAATA
6482857 TTAAAAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
31 13 0.27
32 11 0.23
35 14 0.29
36 10 0.21
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (33 bp):
AGTAAAAGTTTAGAGGGAAAATAAAAAGTGGAG
Found at i:6487292 original size:68 final size:68
Alignment explanation
Indices: 6487089--6487294 Score: 403
Period size: 68 Copynumber: 3.0 Consensus size: 68
6487079 AATCAATCAG
6487089 TTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTTTTC
1 TTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTTTTC
*
6487154 CAG
66 CAA
6487157 TTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTTTTC
1 TTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTTTTC
6487222 CAA
66 CAA
6487225 TTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTTTTC
1 TTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTTTTC
6487290 CAA
66 CAA
6487293 TT
1 TT
6487295 TCTTCTTGTG
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 137 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (68 bp):
TTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTTTTC
CAA
Found at i:6488019 original size:2 final size:2
Alignment explanation
Indices: 6488006--6488045 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
6487996 ATCTAAATAT
*
6488006 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6488046 CATATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:6493410 original size:8 final size:8
Alignment explanation
Indices: 6493386--6493440 Score: 94
Period size: 8 Copynumber: 6.9 Consensus size: 8
6493376 TTTACTTTAA
6493386 TTTT-AAT
1 TTTTAAAT
6493393 TTTTAGAAT
1 TTTTA-AAT
6493402 TTTTAAAT
1 TTTTAAAT
6493410 TTTTAAAT
1 TTTTAAAT
6493418 TTTTAAAT
1 TTTTAAAT
6493426 TTTTAAAT
1 TTTTAAAT
6493434 TTTTAAA
1 TTTTAAA
6493441 AAGAATTTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
7 4 0.09
8 34 0.74
9 8 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TTTTAAAT
Found at i:6496769 original size:8 final size:8
Alignment explanation
Indices: 6496745--6496799 Score: 94
Period size: 8 Copynumber: 6.9 Consensus size: 8
6496735 TTTACTTTAA
6496745 TTTT-AAT
1 TTTTAAAT
6496752 TTTTAGAAT
1 TTTTA-AAT
6496761 TTTTAAAT
1 TTTTAAAT
6496769 TTTTAAAT
1 TTTTAAAT
6496777 TTTTAAAT
1 TTTTAAAT
6496785 TTTTAAAT
1 TTTTAAAT
6496793 TTTTAAA
1 TTTTAAA
6496800 AAGAATTTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
7 4 0.09
8 34 0.74
9 8 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TTTTAAAT
Found at i:6499206 original size:24 final size:25
Alignment explanation
Indices: 6499179--6499226 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
6499169 AGAGGAAAGT
6499179 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
6499203 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
6499227 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:6502023 original size:57 final size:56
Alignment explanation
Indices: 6501961--6502111 Score: 223
Period size: 56 Copynumber: 2.7 Consensus size: 56
6501951 GTTGGGACAT
* *
6501961 TGATGGTTGACATCCTTGTACTAGATTTGAGAAAAAAAATTTTGGGTGCTGGCACAC
1 TGATGGTTGACACCCTTGTACTAGATTTGA-AAAAAAAAATTTGGGTGCTGGCACAC
* *
6502018 TGATGGTCGACACCCTTGTACTAGATTTGAAAAAAAAAATTTGGGTGCTGGGACAC
1 TGATGGTTGACACCCTTGTACTAGATTTGAAAAAAAAAATTTGGGTGCTGGCACAC
* * *
6502074 TGATGGGTAACACCCTTGTACCAGATTT-AAAAAAAAAA
1 TGATGGTTGACACCCTTGTACTAGATTTGAAAAAAAAAA
6502112 GGTGTTGTGA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
55 10 0.12
56 48 0.56
57 28 0.33
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (56 bp):
TGATGGTTGACACCCTTGTACTAGATTTGAAAAAAAAAATTTGGGTGCTGGCACAC
Found at i:6502128 original size:51 final size:54
Alignment explanation
Indices: 6501974--6502130 Score: 160
Period size: 56 Copynumber: 2.9 Consensus size: 54
6501964 TGGTTGACAT
* * * *
6501974 CCTTGTACTAGATTTGAGAAAAAAAATTTTGGGTGCTGGCACACTGAT-GGTCGACAC
1 CCTTGTACCAGATTTGA-AAAAAAAA--AT-GGTGCTGGGACACTGATGGGTCAACAC
*
6502031 CCTTGTACTAGATTTGAAAAAAAAAATTTGGGTGCTGGGACACTGATGGGT-AACAC
1 CCTTGTACCAGATTTGAAAAAAAAAA--T-GGTGCTGGGACACTGATGGGTCAACAC
* *
6502087 CCTTGTACCAGATTT-AAAAAAAAAA-GGTGTTGTGACACTGATGG
1 CCTTGTACCAGATTTGAAAAAAAAAATGGTGCTGGGACACTGATGG
6502131 CCAGCACCCT
Statistics
Matches: 91, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
51 17 0.19
55 10 0.11
56 44 0.48
57 20 0.22
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (54 bp):
CCTTGTACCAGATTTGAAAAAAAAAATGGTGCTGGGACACTGATGGGTCAACAC
Found at i:6504136 original size:13 final size:14
Alignment explanation
Indices: 6504099--6504137 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
6504089 TATTTTAAAG
6504099 ATTTATAAATTTGT
1 ATTTATAAATTTGT
*
6504113 ATTTCTAAATTT-T
1 ATTTATAAATTTGT
*
6504126 TTTTATAAATTT
1 ATTTATAAATTT
6504138 ATAGGTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (14 bp):
ATTTATAAATTTGT
Found at i:6505209 original size:47 final size:48
Alignment explanation
Indices: 6505150--6505241 Score: 143
Period size: 47 Copynumber: 1.9 Consensus size: 48
6505140 TATCCAATTA
*
6505150 TTAAATAAATAAAATTTTTAA-TTATTATATAGTG-TAAAATAAATGTT
1 TTAAATAAAT-AAATTATTAAGTTATTATATAGTGTTAAAATAAATGTT
*
6505197 TTAAATAAATAAATTATTAAGTTATTATATAGTGTTAAAGTAAAT
1 TTAAATAAATAAATTATTAAGTTATTATATAGTGTTAAAATAAAT
6505242 AAATTATTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
46 9 0.22
47 23 0.56
48 9 0.22
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (48 bp):
TTAAATAAATAAATTATTAAGTTATTATATAGTGTTAAAATAAATGTT
Found at i:6505290 original size:80 final size:82
Alignment explanation
Indices: 6505120--6505326 Score: 290
Period size: 80 Copynumber: 2.6 Consensus size: 82
6505110 TAGTGTGAAA
* * *
6505120 TAAATAAA-AAATTATTCAATTATCCA-AT--TATTAAA-TAAATAAAATT-TTTAATTATTATA
1 TAAATAAATAAATTATTCAATTAT-TATATAGTGTTAAAGTAAAT-AAATTATTCAATTATTATA
6505179 TAGTGTAAAATAAATGTTT
64 TAGTGTAAAATAAATGTTT
6505198 TAAATAAATAAATTATT-AAGTTATTATATAGTGTTAAAGTAAATAAATTATTCAATTA-T-TAT
1 TAAATAAATAAATTATTCAA-TTATTATATAGTGTTAAAGTAAATAAATTATTCAATTATTATAT
6505260 AGTGTAAAATAAATGTTT
65 AGTGTAAAATAAATGTTT
6505278 TAAATAAATAAATTATTCAATTATTATATAGTG-TAAAGTAAATAAATTA
1 TAAATAAATAAATTATTCAATTATTATATAGTGTTAAAGTAAATAAATTA
6505327 AATAAACAAA
Statistics
Matches: 118, Mismatches: 3, Indels: 15
0.87 0.02 0.11
Matches are distributed among these distances:
78 11 0.09
79 30 0.25
80 51 0.43
81 14 0.12
82 12 0.10
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (82 bp):
TAAATAAATAAATTATTCAATTATTATATAGTGTTAAAGTAAATAAATTATTCAATTATTATATA
GTGTAAAATAAATGTTT
Found at i:6505328 original size:47 final size:47
Alignment explanation
Indices: 6505231--6505375 Score: 215
Period size: 47 Copynumber: 3.1 Consensus size: 47
6505221 TTATATAGTG
***
6505231 TTAAAGTAAATAAATTATTCAATTA-T-TATAGTGTAAAATAAATGTT
1 TTAAA-TAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
*
6505277 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAGTAAATAAA
1 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
*
6505324 TTAAATAAACAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
1 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
6505371 -TAAAT
1 TTAAAT
6505376 TATTCAACAA
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
45 19 0.21
46 11 0.12
47 61 0.67
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (47 bp):
TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
Found at i:6508647 original size:36 final size:37
Alignment explanation
Indices: 6508574--6508656 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 37
6508564 ATTTTTGTCC
*
6508574 CCAATTTAACCAATGGTCTACTTACAATTTAAAGGCCT
1 CCAATTTAACCAATGGTCTAATTA-AATTTAAAGGCCT
*
6508612 CCAATTTAACCAATGGTCTAATT-AATTTAAGGGCCT
1 CCAATTTAACCAATGGTCTAATTAAATTTAAAGGCCT
6508648 CCAATTTAA
1 CCAATTTAA
6508657 AATTTCATGA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 21 0.49
38 22 0.51
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (37 bp):
CCAATTTAACCAATGGTCTAATTAAATTTAAAGGCCT
Found at i:6508826 original size:9 final size:9
Alignment explanation
Indices: 6508802--6508835 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
6508792 ATTGTAGACC
6508802 ATAAGAATATA
1 ATAA-AATA-A
6508813 ATAAAATAA
1 ATAAAATAA
6508822 ATAAAATAA
1 ATAAAATAA
6508831 ATAAA
1 ATAAA
6508836 TTTTTCCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 15 0.65
10 4 0.17
11 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
ATAAAATAA
Found at i:6509218 original size:20 final size:19
Alignment explanation
Indices: 6509193--6509247 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
6509183 ATAGGAATAG
6509193 ATAAATAATATAAAAAGGAA
1 ATAAATAATATAAAAA-GAA
* * * *
6509213 ATAAATAAAATAGAAATAT
1 ATAAATAATATAAAAAGAA
*
6509232 ATCAATAATATAAAAA
1 ATAAATAATATAAAAA
6509248 CAATATTCTA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (19 bp):
ATAAATAATATAAAAAGAA
Found at i:6509276 original size:24 final size:22
Alignment explanation
Indices: 6509216--6509300 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 22
6509206 AAAGGAAATA
6509216 AATA-AAATAGAAATATATCAAT
1 AATATAAATA-AAATATATCAAT
6509238 AATATAAA-AACAATAT-TCTAAT
1 AATATAAATAA-AATATATC-AAT
* *
6509260 ATATTATAAATAAAATAGATAAAT
1 A-A-TATAAATAAAATATATCAAT
*
6509284 AA-ATTAATAAAATATAT
1 AATATAAATAAAATATAT
6509301 AAATCAATTC
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
21 16 0.31
22 14 0.27
23 5 0.10
24 14 0.27
25 3 0.06
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (22 bp):
AATATAAATAAAATATATCAAT
Found at i:6509294 original size:21 final size:21
Alignment explanation
Indices: 6509268--6509309 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6509258 ATATATTATA
6509268 AATAAAATAGATAAATAAATT
1 AATAAAATAGATAAATAAATT
* *
6509289 AATAAAATATATAAATCAATT
1 AATAAAATAGATAAATAAATT
6509310 CTAATACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AATAAAATAGATAAATAAATT
Found at i:6509959 original size:109 final size:107
Alignment explanation
Indices: 6509758--6509987 Score: 338
Period size: 109 Copynumber: 2.1 Consensus size: 107
6509748 TGGATTAAGA
* *
6509758 TTTAAGAA-GATATTTGGCTATTTGGTCAAATGAAAAGTCGAAACCCAACACATTAGGGCACGTT
1 TTTAA-AAGGATATTTGGCTATTTGGTCAAATGAAAAATCGAAACCCAACACATTAGGGCACGCT
*
6509822 TTCTCGAATTTCCAAAAGAAAAATATTGCCTTATTTTGAAATT
65 TTCTCGAATTTCCAAAAGAAAAACATTGCCTTATTTTGAAATT
* *
6509865 TTTAAAAGGATATTTGGCTATTTGGTCGAACGA-GAAAAATCGAAACCTAGCACATTAGGGCACG
1 TTTAAAAGGATATTTGGCTATTTGGTC-AA--ATGAAAAATCGAAACCCAACACATTAGGGCACG
* * *
6509929 CTTTCTCGAATTTCCTAACGCAAAACATTGCCTTATTTTGAAATT
63 CTTTCTCGAATTTCCAAAAGAAAAACATTGCCTTATTTTGAAATT
6509974 TTTAAAAGGATATT
1 TTTAAAAGGATATT
6509988 AGTATGCGTA
Statistics
Matches: 111, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
106 2 0.02
107 24 0.22
108 2 0.02
109 82 0.74
110 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (107 bp):
TTTAAAAGGATATTTGGCTATTTGGTCAAATGAAAAATCGAAACCCAACACATTAGGGCACGCTT
TCTCGAATTTCCAAAAGAAAAACATTGCCTTATTTTGAAATT
Found at i:6510308 original size:12 final size:11
Alignment explanation
Indices: 6510276--6510326 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
6510266 TTAAAATTAT
*
6510276 TATATAAAAAA
1 TATATAATAAA
6510287 TATAT-ATAAA
1 TATATAATAAA
6510297 TATATAAGTAAA
1 TATATAA-TAAA
* *
6510309 CATATACATACA
1 TATATA-ATAAA
6510321 TATATA
1 TATATA
6510327 TGTATGTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 9 0.27
11 6 0.18
12 17 0.52
13 1 0.03
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (11 bp):
TATATAATAAA
Found at i:6510680 original size:41 final size:40
Alignment explanation
Indices: 6510603--6510803 Score: 258
Period size: 41 Copynumber: 4.9 Consensus size: 40
6510593 GAGTTTTAGG
* *
6510603 GGGCATTTAGCGGCGTTTTTGAAAAATCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTC
* *
6510644 GGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCACTAATACTC
1 GGGCCTTTAGCGGCGTTTTTAAA-AAGCGCCGCTAATGCTC
* * *
6510685 AGGCCTTTAGCGTCGTTTTTTGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCG-TTTTTAAAAAGCGCCGCTAATGCTC
* * *
6510726 GGGCCTTTAGTGGCATTTTTTGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGC-GTTTTTAAAAAGCGCCGCTAATGCTC
*
6510767 GTGCCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCG-TTTTTAAAAAGCGCCGCTAAT
6510804 AATAATAAAA
Statistics
Matches: 139, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.02
41 129 0.93
42 7 0.05
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.30
Consensus pattern (40 bp):
GGGCCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTC
Found at i:6511339 original size:15 final size:14
Alignment explanation
Indices: 6511315--6511354 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
6511305 GAACCATGAA
6511315 CTTGGATTTTCATT
1 CTTGGATTTTCATT
6511329 CTTGCGATTTTCATT
1 CTTG-GATTTTCATT
6511344 CTTGGAATTTT
1 CTTGG-ATTTT
6511355 TGTGAGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (14 bp):
CTTGGATTTTCATT
Found at i:6513055 original size:17 final size:17
Alignment explanation
Indices: 6513033--6513065 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6513023 ATTTTTATTT
6513033 TGTAGCATTAAGTTTTC
1 TGTAGCATTAAGTTTTC
6513050 TGTAGCATTAAGTTTT
1 TGTAGCATTAAGTTTT
6513066 TATTTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.48
Consensus pattern (17 bp):
TGTAGCATTAAGTTTTC
Found at i:6513506 original size:43 final size:43
Alignment explanation
Indices: 6513438--6513616 Score: 190
Period size: 43 Copynumber: 4.3 Consensus size: 43
6513428 AGTTTATGTT
* * * * *
6513438 TTTAGCAGCGTTTTTGCTAGAAGCGCCGCAAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
* *
6513481 TATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
** *
6513524 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
** * *
6513567 TTTAGC-G-G--TG-G-GGAAAGCGCCGCTAAAAGTCGTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
6513604 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
6513617 TTTTCGGCAC
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
37 30 0.25
38 2 0.02
39 3 0.03
41 2 0.02
42 1 0.01
43 81 0.68
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:6513695 original size:22 final size:22
Alignment explanation
Indices: 6513659--6513701 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6513649 TAACGGCGCT
*
6513659 AAAAAGCGTCACTAAAGGCCTA
1 AAAAAGCGTCACTAAAAGCCTA
**
6513681 AAAAAGCGTTGCTAAAAGCCT
1 AAAAAGCGTCACTAAAAGCCT
6513702 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (22 bp):
AAAAAGCGTCACTAAAAGCCTA
Found at i:6513842 original size:25 final size:24
Alignment explanation
Indices: 6513810--6513856 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
6513800 AAAATATGTA
6513810 CATGTATATATATTATAAAAAAACG
1 CATGTATATATA-TATAAAAAAACG
*
6513835 CATGTATATATATATAACAAAA
1 CATGTATATATATATAAAAAAA
6513857 TTTAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (24 bp):
CATGTATATATATATAAAAAAACG
Found at i:6516620 original size:109 final size:107
Alignment explanation
Indices: 6516431--6516660 Score: 343
Period size: 109 Copynumber: 2.1 Consensus size: 107
6516421 TGGATTAAGA
* * * * *
6516431 TTTAAGAGGATATTTGGCTATTTGGTCGAACGAGAAGTCGAAACCCAGCACATTAGGGCACGTTT
1 TTTAAAAGGATATTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACATTAGGGCACGCTT
* * * *
6516496 TTTTGAATTTCCAAACGCAAAATATTGCCTTATTTTTAAATT
66 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
*
6516538 TTTAAAAGGATATTTAGCTATTTGGTCGAACAAGAAAAATCGAAACCTAGCACATTAGGGCACGC
1 TTTAAAAGGATATTTAGCTATTTGGTCGAAC--GAAAAATCGAAACCCAGCACATTAGGGCACGC
*
6516603 TTTCTCGAATTTCCAAACGCGAAACATTGCCTTATTTTGAAATT
64 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
6516647 TTTAAAAGGATATT
1 TTTAAAAGGATATT
6516661 AGTATGCGTA
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
107 29 0.26
109 81 0.74
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (107 bp):
TTTAAAAGGATATTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACATTAGGGCACGCTT
TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:6517002 original size:12 final size:12
Alignment explanation
Indices: 6516961--6517021 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
6516951 TTAAAATTAT
6516961 TATATAAA-A-A
1 TATATAAATATA
*
6516971 TATATATATATA
1 TATATAAATATA
6516983 TATATAAATATA
1 TATATAAATATA
*
6516995 TA-AGTAAACATA
1 TATA-TAAATATA
* *
6517007 TACATACATATA
1 TATATAAATATA
6517019 TAT
1 TAT
6517022 GTATGTACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 7 0.17
11 2 0.05
12 31 0.76
13 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (12 bp):
TATATAAATATA
Found at i:6522190 original size:7 final size:7
Alignment explanation
Indices: 6522178--6522268 Score: 64
Period size: 7 Copynumber: 12.6 Consensus size: 7
6522168 AGTATTTTGA
6522178 AAAATAT
1 AAAATAT
6522185 AAAATAT
1 AAAATAT
6522192 AAAATAT
1 AAAATAT
6522199 AAAA-ATT
1 AAAATA-T
*
6522206 ATAATAT
1 AAAATAT
6522213 AAAATAT
1 AAAATAT
6522220 ATAAAT-T
1 A-AAATAT
6522227 AATAA-A-
1 AA-AATAT
*
6522233 AAATTAT
1 AAAATAT
*
6522240 GAAATTAT
1 -AAAATAT
6522248 AACAAATAT
1 -A-AAATAT
6522257 AAATATAT
1 AAA-ATAT
6522265 AAAA
1 AAAA
6522269 GAACTAAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
5 1 0.01
6 5 0.07
7 37 0.54
8 21 0.30
9 5 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (7 bp):
AAAATAT
Found at i:6522211 original size:28 final size:29
Alignment explanation
Indices: 6522179--6522268 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 29
6522169 GTATTTTGAA
6522179 AAATATAAAATATAAAATATAAAAATTAT
1 AAATATAAAATATAAAATATAAAAATTAT
6522208 -AATATAAAATATATAAATTAATAAAAAATTAT
1 AAATATAAAATATA-AAA-T-AT-AAAAATTAT
6522240 GAAATTATAACAAATATAAATATATAAAA
1 -AAA-TAT-A-AAATATAAA-ATATAAAA
6522269 GAACTAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
28 13 0.25
29 3 0.06
30 1 0.02
31 2 0.04
32 9 0.18
34 6 0.12
35 5 0.10
36 4 0.08
37 8 0.16
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (29 bp):
AAATATAAAATATAAAATATAAAAATTAT
Found at i:6522217 original size:35 final size:37
Alignment explanation
Indices: 6522179--6522268 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 37
6522169 GTATTTTGAA
6522179 AAATATAAAATATAAAATATAAAAATTAT-AA-TAT-A
1 AAATATAAAATATAAAATA-AAAAATTATAAATTATAA
6522214 AAATATATAAAT-T--AATAAAAAATTATGAAATTATAA
1 AAATATA-AAATATAAAATAAAAAATTAT-AAATTATAA
6522250 CAAATATAAATATATAAAA
1 -AAATATAAA-ATATAAAA
6522269 GAACTAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
32 9 0.20
33 4 0.09
34 2 0.04
35 11 0.24
36 7 0.16
37 9 0.20
38 1 0.02
40 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (37 bp):
AAATATAAAATATAAAATAAAAAATTATAAATTATAA
Found at i:6522235 original size:19 final size:19
Alignment explanation
Indices: 6522187--6522257 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
6522177 AAAAATATAA
* *
6522187 AATATAAAATATAAAAATTAT
1 AATAAAAAATATATAAA-T-T
*
6522208 AATATAAAATATATAAATT
1 AATAAAAAATATATAAATT
6522227 AATAAAAAAT-TATGAAATT
1 AATAAAAAATATAT-AAATT
*
6522246 -ATAACAAATATA
1 AATAAAAAATATA
6522258 AATATATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
18 11 0.24
19 17 0.38
20 1 0.02
21 16 0.36
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (19 bp):
AATAAAAAATATATAAATT
Found at i:6547612 original size:31 final size:31
Alignment explanation
Indices: 6547570--6547647 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
6547560 CACTTGTACT
* *
6547570 AAAAATTAATTAAACCCTCGTAAAATAATTG
1 AAAAATAAATTAAACCCTCATAAAATAATTG
* * * *
6547601 AAAAATAAATTAAGCCCTCATAAATTTATTT
1 AAAAATAAATTAAACCCTCATAAAATAATTG
*
6547632 AAAAATCAATTAAACC
1 AAAAATAAATTAAACC
6547648 TTTTTCATGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.29
Consensus pattern (31 bp):
AAAAATAAATTAAACCCTCATAAAATAATTG
Found at i:6557294 original size:33 final size:33
Alignment explanation
Indices: 6557257--6557323 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
6557247 CAATGAAAGC
* *
6557257 AGCACTCATTCTTAGTTTAAACAAATACACAGT
1 AGCACTCATGCATAGTTTAAACAAATACACAGT
6557290 AGCACTCATGCATAGTTTAAACAAATACACAGT
1 AGCACTCATGCATAGTTTAAACAAATACACAGT
6557323 A
1 A
6557324 CATTTCCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (33 bp):
AGCACTCATGCATAGTTTAAACAAATACACAGT
Found at i:6565426 original size:22 final size:23
Alignment explanation
Indices: 6565378--6565431 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
6565368 GACCCGTTTT
* *
6565378 TTAAAATTAAAATTATATTTTTA
1 TTAAAATTAAAACTATATTGTTA
6565401 TTAAAATTAAAACTA-ATTGTTA
1 TTAAAATTAAAACTATATTGTTA
6565423 TTAAAATTA
1 TTAAAATTA
6565432 TATCAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TTAAAATTAAAACTATATTGTTA
Found at i:6565440 original size:22 final size:22
Alignment explanation
Indices: 6565378--6565440 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
6565368 GACCCGTTTT
* * *
6565378 TTAAAATTAAAATTATATTTTTA
1 TTAAAATTAAAA-CAAATTGTTA
*
6565401 TTAAAATTAAAACTAATTGTTA
1 TTAAAATTAAAACAAATTGTTA
* *
6565423 TTAAAATTATATCAAATT
1 TTAAAATTAAAACAAATT
6565441 ATATTTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 21 0.64
23 12 0.36
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAAATTAAAACAAATTGTTA
Found at i:6570432 original size:445 final size:445
Alignment explanation
Indices: 6569603--6570491 Score: 1751
Period size: 445 Copynumber: 2.0 Consensus size: 445
6569593 AAATAAGAAA
6569603 TTGAAAGATTTCATTGAAATTGTTTGTTTGGAAATTTCCTGAAAAGTTAATCATAGGTTCTTCTC
1 TTGAAAGATTTCATTGAAATTGTTTGTTTGGAAATTTCCTGAAAAGTTAATCATAGGTTCTTCTC
6569668 TCCATCGGAGAAATAGGGCTGTTATGCTCATTACTAAACTTGTTGAAGAGATGAAATATAACCAG
66 TCCATCGGAGAAATAGGGCTGTTATGCTCATTACTAAACTTGTTGAAGAGATGAAATATAACCAG
6569733 GGTATATCTTTTTGATCAGAGGTTGAATCGATCATCAGAAGAAGAATTAGGCCAAAAATTAGGAT
131 GGTATATCTTTTTGATCAGAGGTTGAATCGATCATCAGAAGAAGAATTAGGCCAAAAATTAGGAT
6569798 ACATTCTTAGAAAACAAAAATTCCATCGAAGAGAAGCAAATGAAAGGCTTTCATAAAAATTCTTG
196 ACATTCTTAGAAAACAAAAATTCCATCGAAGAGAAGCAAATGAAAGGCTTTCATAAAAATTCTTG
6569863 TAGAATTGAGAATGAAGTTTTCATTTTGTACATGCCAGATCATGAAATCTCCAAAAAAAAATCTA
261 TAGAATTGAGAATGAAGTTTTCATTTTGTACATGCCAGATCATGAAATCTCCAAAAAAAAATCTA
6569928 ATTGTTTTGAACTTTCTATTTTTGGAATGGGAATATTTACGGAATCCCCATGAATAGGATCAAAC
326 ATTGTTTTGAACTTTCTATTTTTGGAATGGGAATATTTACGGAATCCCCATGAATAGGATCAAAC
6569993 CTTATTCCATGGTATTTACATGAGATTCCTCTTTCTTATTCTTAAGCAAGTCCCC
391 CTTATTCCATGGTATTTACATGAGATTCCTCTTTCTTATTCTTAAGCAAGTCCCC
6570048 TTGAAAGATTTCATTGAAATTGTTTGTTTGGAAATTTCCTGAAAAGTTAATCATAGGTTCTTCTC
1 TTGAAAGATTTCATTGAAATTGTTTGTTTGGAAATTTCCTGAAAAGTTAATCATAGGTTCTTCTC
6570113 TCCATCGGAGAAATAGGGCTGTTATGCTCATTACTAAACTTGTTGAAGAGATGAAATATAACCAG
66 TCCATCGGAGAAATAGGGCTGTTATGCTCATTACTAAACTTGTTGAAGAGATGAAATATAACCAG
6570178 GGTATATCTTTTTGATCAGAGGTTGAATCGATCATCAGAAGAAGAATTAGGCCAAAAATTAGGAT
131 GGTATATCTTTTTGATCAGAGGTTGAATCGATCATCAGAAGAAGAATTAGGCCAAAAATTAGGAT
* *
6570243 ACATTCTTAGAAAATAAAACTTCCATCGAAGAGAAGCAAATGAAAGGCTTTCATAAAAATTCTTG
196 ACATTCTTAGAAAACAAAAATTCCATCGAAGAGAAGCAAATGAAAGGCTTTCATAAAAATTCTTG
6570308 TAGAATTGAGAATGAAGTTTTCATTTTGTACATGCCAGATCATGAAATCTCCAAAAAAAAATCTA
261 TAGAATTGAGAATGAAGTTTTCATTTTGTACATGCCAGATCATGAAATCTCCAAAAAAAAATCTA
6570373 ATTGTTTTGAACTTTCTATTTTTGGAATGGGAATATTTACGGAATCCCCATGAATAGGATCAAAC
326 ATTGTTTTGAACTTTCTATTTTTGGAATGGGAATATTTACGGAATCCCCATGAATAGGATCAAAC
*
6570438 CTTATTCCATGGTATTTACATGAGATTCCTGTTTCTTATTCTTAAGCAAGTCCC
391 CTTATTCCATGGTATTTACATGAGATTCCTCTTTCTTATTCTTAAGCAAGTCCC
6570492 TGATAGGGCT
Statistics
Matches: 441, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
445 441 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (445 bp):
TTGAAAGATTTCATTGAAATTGTTTGTTTGGAAATTTCCTGAAAAGTTAATCATAGGTTCTTCTC
TCCATCGGAGAAATAGGGCTGTTATGCTCATTACTAAACTTGTTGAAGAGATGAAATATAACCAG
GGTATATCTTTTTGATCAGAGGTTGAATCGATCATCAGAAGAAGAATTAGGCCAAAAATTAGGAT
ACATTCTTAGAAAACAAAAATTCCATCGAAGAGAAGCAAATGAAAGGCTTTCATAAAAATTCTTG
TAGAATTGAGAATGAAGTTTTCATTTTGTACATGCCAGATCATGAAATCTCCAAAAAAAAATCTA
ATTGTTTTGAACTTTCTATTTTTGGAATGGGAATATTTACGGAATCCCCATGAATAGGATCAAAC
CTTATTCCATGGTATTTACATGAGATTCCTCTTTCTTATTCTTAAGCAAGTCCCC
Found at i:6571279 original size:3 final size:3
Alignment explanation
Indices: 6571271--6571307 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6571261 AGATGAAAAC
6571271 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6571308 GGGATATCCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6571647 original size:6 final size:6
Alignment explanation
Indices: 6571636--6571671 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
6571626 TTTACAATAT
6571636 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA
6571672 TATAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:6577441 original size:4 final size:4
Alignment explanation
Indices: 6577432--6577465 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
6577422 AAGTTTTATT
6577432 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
6577466 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:6577473 original size:22 final size:22
Alignment explanation
Indices: 6577415--6577474 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
6577405 AAGTGGCCCA
*
6577415 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
6577439 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
6577460 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
6577475 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:6581261 original size:35 final size:35
Alignment explanation
Indices: 6581216--6581305 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 35
6581206 ATGCATTTTG
*
6581216 TTATATATATATATACATACGTACATATT-TTTAAT
1 TTATTTATATATATACATACGTACATATTATTT-AT
* *
6581251 TTATTTATATATATACATACTTATATATTATTTAT
1 TTATTTATATATATACATACGTACATATTATTTAT
* *
6581286 ATACTTTATATATGTACATA
1 TTA-TTTATATATATACATA
6581306 TATGTGTTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
35 30 0.62
36 18 0.38
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (35 bp):
TTATTTATATATATACATACGTACATATTATTTAT
Found at i:6584735 original size:20 final size:20
Alignment explanation
Indices: 6584697--6584735 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6584687 TAAATTATGC
6584697 ATATTTATATGTTTGAATTAA
1 ATATTTATATG-TTGAATTAA
6584718 ATATTGTATATG-TGAATT
1 ATATT-TATATGTTGAATT
6584736 TGTGTAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (20 bp):
ATATTTATATGTTGAATTAA
Found at i:6585147 original size:6 final size:6
Alignment explanation
Indices: 6585128--6585158 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
6585118 GGGTTTGTAT
*
6585128 TTTCTG TTTTTG TTTCTG TTTCTG TTTCTG T
1 TTTCTG TTTCTG TTTCTG TTTCTG TTTCTG T
6585159 GGGAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.16, T:0.71
Consensus pattern (6 bp):
TTTCTG
Found at i:6588037 original size:27 final size:27
Alignment explanation
Indices: 6587972--6588041 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
6587962 CAAATTTTAG
* *
6587972 ATTGTTGGATTTTGATATATGTCTTGA
1 ATTGTTGGATATTGATATATGTCTTAA
* *
6587999 ATTGGTTAGATATTGAT-TATGTTTTAA
1 ATT-GTTGGATATTGATATATGTCTTAA
6588026 CATTGTTGGATATTGA
1 -ATTGTTGGATATTGA
6588042 ATTGATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (27 bp):
ATTGTTGGATATTGATATATGTCTTAA
Found at i:6589201 original size:14 final size:14
Alignment explanation
Indices: 6589178--6589219 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
6589168 ACAGAAAAGT
*
6589178 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
6589192 AAATCATTTTACGG
1 AAAACATTTTACAG
6589206 AAAACATTTTACAG
1 AAAACATTTTACAG
6589220 CCAATCAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:6589203 original size:34 final size:35
Alignment explanation
Indices: 6589143--6589209 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
6589133 CAAACACCAG
* *
6589143 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
6589178 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
6589210 CATTTTACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:6603891 original size:22 final size:23
Alignment explanation
Indices: 6603866--6603913 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
6603856 AAATCATTTT
6603866 TAGTCT-TTTATAACCCATCGGC
1 TAGTCTCTTTATAACCCATCGGC
6603888 TAGTCTCCTTTATAACCCATCGGC
1 TAGTCT-CTTTATAACCCATCGGC
6603912 TA
1 TA
6603914 ACCCATGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.25
24 18 0.75
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.35
Consensus pattern (23 bp):
TAGTCTCTTTATAACCCATCGGC
Found at i:6607586 original size:26 final size:27
Alignment explanation
Indices: 6607542--6607592 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
6607532 CCAAATTTTC
*
6607542 TTTCTTTCTTTCCTTCCCT-TTTTCTT
1 TTTCTTTCTTTCCTCCCCTGTTTTCTT
6607568 TTTCTTTCATTT-CTCCCCTGTTTTC
1 TTTCTTTC-TTTCCTCCCCTGTTTTC
6607593 GTTTGCCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTCTTTCTTTCCTCCCCTGTTTTCTT
Done.