Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 98 of 349
Found at i:30352623 original size:39 final size:40
Alignment explanation
Indices: 30352561--30352780 Score: 209
Period size: 39 Copynumber: 5.6 Consensus size: 40
30352551 CCAGCATGAT
* * *
30352561 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
30352601 TGCTCTT-GGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * * *
30352640 TGCTCTTCGGGACTTAG-CCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
30352679 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAGCCCGGATATA-TCACTAGCACGAA
* * *
30352720 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
30352760 AGC-CTTCGG-ACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
30352781 CATCATTCGA
Statistics
Matches: 151, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 82 0.54
40 53 0.35
41 16 0.11
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:30352646 original size:79 final size:79
Alignment explanation
Indices: 30352548--30352702 Score: 231
Period size: 79 Copynumber: 2.0 Consensus size: 79
30352538 CGAATACACG
* * *
30352548 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTT-GGAA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGC-CGGATACATCACTAGCACGAATGCTCTTCGGAA
30352612 CTTAGCCCGGATACA
65 CTTAGCCCGGATACA
* * * *
30352627 TCACTAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCGCTAGCATGAATGCTCTTCGGGAC
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
30352692 TTAGCCCGGAT
66 TTAGCCCGGAT
30352703 TTAGTAACTC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 25 0.37
79 43 0.63
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
TTAGCCCGGATACA
Found at i:30352727 original size:79 final size:78
Alignment explanation
Indices: 30352561--30352743 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 78
30352551 CCAGCATGAT
* *
30352561 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTGGAACTTAGCCCGGATAC
1 TGCTCTTCGGGACTTAGC-CGGATACATCACTAGCACGAATGCTCTTGGAACTTAGCCCGGATAC
* **
30352626 ATCACTAGCATGAA
65 ATAACTAGCACCAA
* * * **
30352640 TGCTCTTCGGGACTTAGCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTT
1 TGCTCTTCGGGACTTAGCCGGATACATCACTAGCACGAATGCTCTT-GGAACTTAGCCCGGATAC
*
30352705 AGTAACTCGCACCAA
65 A-TAACTAGCACCAA
30352720 TGC-CTTC-GGATCTTAGTCCGGATA
1 TGCTCTTCGGGA-CTTAG-CCGGATA
30352744 TGGTCACTTA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
78 28 0.31
79 42 0.47
80 19 0.21
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (78 bp):
TGCTCTTCGGGACTTAGCCGGATACATCACTAGCACGAATGCTCTTGGAACTTAGCCCGGATACA
TAACTAGCACCAA
Found at i:30353125 original size:29 final size:29
Alignment explanation
Indices: 30353086--30353164 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
30353076 CTTAATAATC
*
30353086 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
30353116 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
30353145 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30353165 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:30355117 original size:37 final size:37
Alignment explanation
Indices: 30355067--30355145 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
30355057 TTATTACGAA
* *
30355067 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
30355104 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
30355141 GTCTT
1 GTCTT
30355146 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:30355341 original size:47 final size:47
Alignment explanation
Indices: 30355263--30355793 Score: 874
Period size: 47 Copynumber: 11.4 Consensus size: 47
30355253 CCCTTCGGGA
* * * * * * *
30355263 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30355310 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30355357 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30355404 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30355451 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30355498 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30355543 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30355590 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30355635 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30355682 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30355729 CTTATCACACATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30355775 CTTATCACATATATACACT
1 CTTATCACATATATACACT
30355794 GTCTTGGCTG
Statistics
Matches: 461, Mismatches: 19, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
45 89 0.19
46 26 0.06
47 346 0.75
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30355507 original size:22 final size:22
Alignment explanation
Indices: 30355479--30355551 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
30355469 TTTCACATTC
30355479 ATCACATCGGCTATTAGGCCTT
1 ATCACATCGGCTATTAGGCCTT
*** *** *
30355501 ATCACATATAC-ACTTTCACATT
1 ATCACATCGGCTA-TTAGGCCTT
30355523 CATCACATCGGCTATTAGGCCTT
1 -ATCACATCGGCTATTAGGCCTT
30355546 ATCACA
1 ATCACA
30355552 CATATACACT
Statistics
Matches: 34, Mismatches: 14, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
21 1 0.03
22 19 0.56
23 13 0.38
24 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATCGGCTATTAGGCCTT
Found at i:30361649 original size:3 final size:3
Alignment explanation
Indices: 30361641--30361668 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30361631 TGTTTACGAA
30361641 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
30361669 GTAATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:30363969 original size:11 final size:10
Alignment explanation
Indices: 30363937--30363990 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
30363927 CATGAGACCT
30363937 TGATAT-ACA
1 TGATATGACA
*
30363946 TGATTTGACA
1 TGATATGACA
30363956 TGATATGCACA
1 TGATATG-ACA
*
30363967 TGATATG-TA
1 TGATATGACA
30363976 TGATATGTACA
1 TGATATG-ACA
30363987 TGAT
1 TGAT
30363991 TTATTCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:30364077 original size:26 final size:26
Alignment explanation
Indices: 30364038--30364159 Score: 176
Period size: 26 Copynumber: 4.8 Consensus size: 26
30364028 GAGGAAGTGC
* * *
30364038 AAAAGGGCTCTTGCCCTAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCA
*
30364064 AAAAGGGCTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCA
30364090 AAAAGGGCTTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTTGCCCCAGTTTACCA
* *
30364116 AAAAAGGC-TTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTACCA
30364141 AAAAGGGC-TTTGCCCCAGT
1 AAAAGGGCTTTTGCCCCAGT
30364160 AATTGAAAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 34 0.38
26 56 0.62
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCA
Found at i:30366439 original size:12 final size:12
Alignment explanation
Indices: 30366422--30366446 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30366412 TATGTATGTT
30366422 TGAAAATTTTTA
1 TGAAAATTTTTA
30366434 TGAAAATTTTTA
1 TGAAAATTTTTA
30366446 T
1 T
30366447 TATTTGCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:30366508 original size:3 final size:3
Alignment explanation
Indices: 30366500--30366527 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30366490 TGTTTATTAA
30366500 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
30366528 GTAATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:30368828 original size:20 final size:21
Alignment explanation
Indices: 30368792--30368839 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
30368782 ACCTTGATAT
*
30368792 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
30368813 ACATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
30368833 ACATGAT
1 ACATGAT
30368840 GTATTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:30368956 original size:25 final size:26
Alignment explanation
Indices: 30368887--30368957 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
30368877 GAGGAAGTGC
30368887 AAAAGGGCTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
*
30368913 AAAAGGGCTTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
30368939 AAAAGGGC-TTTGCCCCAGT
1 AAAAGGGCTTTTGCCCCAGT
30368958 AATTGAAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 11 0.25
26 33 0.75
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:30370709 original size:13 final size:13
Alignment explanation
Indices: 30370693--30370725 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30370683 TTTAATTAAA
*
30370693 TTAGTTAATTAGT
1 TTAGATAATTAGT
30370706 TTAGATAATTAGT
1 TTAGATAATTAGT
30370719 TTA-ATAA
1 TTAGATAA
30370726 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:30372690 original size:43 final size:43
Alignment explanation
Indices: 30372530--30372694 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
30372520 CATAAGTTCG
* * * *
30372530 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
* * * * * * *
30372571 TATCAATGTCATTGTCCCGGACAGGGTCTTACACGTAAT-TGAT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
30372614 TA-ATGATGCCAATGT--CAGACATGGTCTTACATGTAATCTCAA
1 TACA--ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
*
30372656 TACAATGCCAATGTCCCAAACATGGTCTTACATGTAATC
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
30372695 ACATCTTGAT
Statistics
Matches: 96, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
41 32 0.33
42 10 0.10
43 54 0.56
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
Found at i:30376495 original size:23 final size:23
Alignment explanation
Indices: 30376469--30376525 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
30376459 GGTGTGATTT
*
30376469 ATTCTAGCAC-ATCAGTGCAATTC
1 ATTCTGGCACTAT-AGTGCAATTC
* *
30376492 ATTCTGGCACTATGGTGCTATTC
1 ATTCTGGCACTATAGTGCAATTC
30376515 ATTCTGGCACT
1 ATTCTGGCACT
30376526 TTTTTGTGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 28 0.93
24 2 0.07
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (23 bp):
ATTCTGGCACTATAGTGCAATTC
Found at i:30384512 original size:30 final size:30
Alignment explanation
Indices: 30384478--30384538 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30384468 TCCTTAACTC
30384478 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30384508 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
30384538 A
1 A
30384539 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30397217 original size:46 final size:46
Alignment explanation
Indices: 30397160--30397326 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
30397150 ACACACCGTA
30397160 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
* ** * * *
30397206 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGAT
* *
30397259 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGA-ATCACATATCACACTGAT
* * *
30397305 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
30397327 TTCCGTCAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
46 44 0.45
47 7 0.07
48 5 0.05
49 1 0.01
50 1 0.01
51 6 0.06
52 5 0.05
53 28 0.29
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
Found at i:30398431 original size:21 final size:21
Alignment explanation
Indices: 30398405--30398462 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
30398395 GACACATAAG
*
30398405 TGCCTGAAATGACACACGAGA
1 TGCCTGAAACGACACACGAGA
* *
30398426 TGCCTGAAACGACACATGAGG
1 TGCCTGAAACGACACACGAGA
*
30398447 TGCCTGATACGACACA
1 TGCCTGAAACGACACA
30398463 AAAGGTGTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (21 bp):
TGCCTGAAACGACACACGAGA
Found at i:30398468 original size:21 final size:21
Alignment explanation
Indices: 30398391--30398495 Score: 79
Period size: 21 Copynumber: 5.0 Consensus size: 21
30398381 TCTGATCAGT
*
30398391 ATACGACACATAA-GTGCCTG
1 ATACGACACAAAAGGTGCCTG
* * ** *
30398411 AAATGACACACGAGATGCCTG
1 ATACGACACAAAAGGTGCCTG
* **
30398432 AAACGACACATGAGGTGCCTG
1 ATACGACACAAAAGGTGCCTG
*
30398453 ATACGACACAAAAGGTGTCTG
1 ATACGACACAAAAGGTGCCTG
30398474 AAATACGACACATAAA-GTGCCT
1 --ATACGACACA-AAAGGTGCCT
30398496 AATCAGTATA
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
20 9 0.13
21 41 0.60
23 15 0.22
24 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (21 bp):
ATACGACACAAAAGGTGCCTG
Found at i:30398475 original size:42 final size:43
Alignment explanation
Indices: 30398391--30398495 Score: 115
Period size: 42 Copynumber: 2.4 Consensus size: 43
30398381 TCTGATCAGT
* **
30398391 ATACGACACATAAGTGCCTGAAATGACACACGAGATGCCTG-A
1 ATACGACACATAAGTGCCTGAAACGACACAAAAGATGCCTGAA
* * * *
30398433 A-ACGACACATGAGGTGCCTGATACGACACAAAAGGTGTCTGAA
1 ATACGACACAT-AAGTGCCTGAAACGACACAAAAGATGCCTGAA
30398476 ATACGACACATAAAGTGCCT
1 ATACGACACAT-AAGTGCCT
30398496 AATCAGTATA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 9 0.18
42 24 0.47
43 2 0.04
44 16 0.31
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (43 bp):
ATACGACACATAAGTGCCTGAAACGACACAAAAGATGCCTGAA
Found at i:30398757 original size:23 final size:25
Alignment explanation
Indices: 30398691--30398785 Score: 104
Period size: 28 Copynumber: 3.6 Consensus size: 25
30398681 TGTCCAACCA
*
30398691 AAACACACCAG--TATAATCCTCCA
1 AAACACACCAGAATATAATCCTCCC
30398714 AAACACACCAGTATCATATAATCCTCCC
1 AAACACACCAG-A--ATATAATCCTCCC
30398742 AAACACACCAGAATAATATAATCCATCCC
1 AAACACACCAG---AATATAATCC-TCCC
30398771 AAACACACCAGAATA
1 AAACACACCAGAATA
30398786 GCACAAAGTG
Statistics
Matches: 63, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
23 11 0.17
26 4 0.06
28 31 0.49
29 15 0.24
30 2 0.03
ACGTcount: A:0.46, C:0.33, G:0.04, T:0.17
Consensus pattern (25 bp):
AAACACACCAGAATATAATCCTCCC
Found at i:30398770 original size:29 final size:28
Alignment explanation
Indices: 30398702--30398785 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
30398692 AACACACCAG
* * *
30398702 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCCAAACACACCAGAATAA
30398730 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCCAAACACACCAGAATAA
30398758 TATAATCCATCCCAAACACACCAGAATA
1 TATAATCC-TCCCAAACACACCAGAATA
30398786 GCACAAAGTG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 33 0.63
29 19 0.37
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCCAAACACACCAGAATAA
Found at i:30404644 original size:37 final size:37
Alignment explanation
Indices: 30404583--30404661 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
30404573 TTATTACGAA
* * *
30404583 GTCTTACCCGAACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
* *
30404620 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
30404657 GTCTT
1 GTCTT
30404662 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:30404954 original size:49 final size:47
Alignment explanation
Indices: 30404780--30405243 Score: 750
Period size: 47 Copynumber: 9.7 Consensus size: 47
30404770 CCCTTCGGGA
* * * * * *
30404780 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30404827 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30404874 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30404921 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30404970 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30405019 CTTATCACACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30405068 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30405115 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30405162 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30405209 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
30405244 AGAATCCTAA
Statistics
Matches: 396, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 257 0.65
49 135 0.34
51 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30409486 original size:13 final size:13
Alignment explanation
Indices: 30409470--30409502 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
30409460 TAGGCACGGG
30409470 CGTGTGACACGCC
1 CGTGTGACACGCC
30409483 CGTGTGACACGCC
1 CGTGTGACACGCC
30409496 CGTGTGA
1 CGTGTGA
30409503 GGAACTCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.18
Consensus pattern (13 bp):
CGTGTGACACGCC
Found at i:30416471 original size:25 final size:24
Alignment explanation
Indices: 30416442--30416488 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
30416432 AATAATAGAA
30416442 AAATTAGAAAATAAAATAAAAATTT
1 AAATT-GAAAATAAAATAAAAATTT
* *
30416467 AAATTGTAAATAAAGTAAAAAT
1 AAATTGAAAATAAAATAAAAAT
30416489 GGCTAAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (24 bp):
AAATTGAAAATAAAATAAAAATTT
Found at i:30420516 original size:22 final size:21
Alignment explanation
Indices: 30420475--30420516 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
30420465 ATTATATCTA
*
30420475 TTATAATTTATATATTAATTT
1 TTATAATTTATATATGAATTT
30420496 TTATCAATTTAGTATA-GAATT
1 TTAT-AATTTA-TATATGAATT
30420517 AGGATTAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (21 bp):
TTATAATTTATATATGAATTT
Found at i:30420577 original size:17 final size:18
Alignment explanation
Indices: 30420551--30420584 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30420541 TTTTTGTTTA
30420551 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
30420568 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
30420585 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:30425332 original size:23 final size:23
Alignment explanation
Indices: 30425302--30425347 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
30425292 CAAGAGATTA
30425302 GTTCAGTTTAATGACTATGTATG
1 GTTCAGTTTAATGACTATGTATG
*
30425325 GTTCAGTTTAATGAGTATGTATG
1 GTTCAGTTTAATGACTATGTATG
30425348 TGCACTAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (23 bp):
GTTCAGTTTAATGACTATGTATG
Found at i:30430738 original size:47 final size:47
Alignment explanation
Indices: 30430675--30431052 Score: 598
Period size: 47 Copynumber: 8.1 Consensus size: 47
30430665 GAAATGATAG
*
30430675 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
30430722 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
30430769 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
30430816 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
30430863 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30430910 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30430957 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * *
30431003 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30431049 TAAG
1 TAAG
30431053 TCCCGAAGGG
Statistics
Matches: 311, Mismatches: 18, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
45 36 0.12
47 275 0.88
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:30433102 original size:43 final size:43
Alignment explanation
Indices: 30433054--30433156 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
30433044 TTGGTTTTCA
30433054 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
30433097 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
30433140 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
30433157 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:30433173 original size:29 final size:29
Alignment explanation
Indices: 30433138--30433211 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
30433128 GTTGTGAGAT
* *
30433138 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
30433167 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
30433196 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30433212 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:30433645 original size:40 final size:40
Alignment explanation
Indices: 30433522--30433717 Score: 184
Period size: 40 Copynumber: 4.9 Consensus size: 40
30433512 TCGAATGATG
** *
30433522 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
30433562 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
30433602 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
30433642 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
30433682 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
30433718 CGTGTATTCA
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 110 0.85
41 19 0.15
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:30433658 original size:80 final size:81
Alignment explanation
Indices: 30433522--30433718 Score: 222
Period size: 80 Copynumber: 2.5 Consensus size: 81
30433512 TCGAATGATG
**
30433522 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGGACTAAGATCCGAAGAGCA
* *
30433584 TTGGTGCGAGTTACTAAA
65 TTCGTGCGAGTGA-TAAA
** * *
30433602 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
* *
30433666 TCGTGCTAGTGATATA
66 TCGTGCGAGTGATAAA
* * * *
30433682 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
30433719 GTGTATTCAG
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 73 0.74
81 20 0.20
82 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
TCGTGCGAGTGATAAA
Found at i:30437179 original size:47 final size:47
Alignment explanation
Indices: 30437116--30437448 Score: 531
Period size: 47 Copynumber: 7.1 Consensus size: 47
30437106 GAAATGATAG
*
30437116 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
30437163 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
30437210 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30437257 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30437304 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30437351 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
30437398 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
30437445 TAAG
1 TAAG
30437449 TCCCGAAGGG
Statistics
Matches: 270, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 270 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:30445380 original size:20 final size:20
Alignment explanation
Indices: 30445355--30445399 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30445345 AAAAACTAAA
* *
30445355 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
30445375 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
30445395 ATGAA
1 ATGAA
30445400 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:30447098 original size:21 final size:21
Alignment explanation
Indices: 30447068--30447115 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
30447058 CACTTGGGCA
*
30447068 TGTCCTAGGGTCACACGAGCG
1 TGTCCCAGGGTCACACGAGCG
* *
30447089 TGTCCCAGGGTCACACGGGTG
1 TGTCCCAGGGTCACACGAGCG
30447110 TGTCCC
1 TGTCCC
30447116 TTGGACTACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.21
Consensus pattern (21 bp):
TGTCCCAGGGTCACACGAGCG
Found at i:30449124 original size:25 final size:25
Alignment explanation
Indices: 30449096--30449144 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
30449086 TTCGGGTCTC
*
30449096 TATTTCTAAAAAATGAATTA-GAAAA
1 TATTTATAAAAAAT-AATTACGAAAA
*
30449121 TATTTATTAAAAATAATTACGAAA
1 TATTTATAAAAAATAATTACGAAA
30449145 TTAAGTGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (25 bp):
TATTTATAAAAAATAATTACGAAAA
Found at i:30450201 original size:15 final size:14
Alignment explanation
Indices: 30450181--30450222 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
30450171 CGATGAATTT
30450181 ATTGAATTTATATTG
1 ATTGAA-TTATATTG
*
30450196 ATTGAAATTATTTTG
1 ATTG-AATTATATTG
30450211 ATTGAATTATAT
1 ATTGAATTATAT
30450223 AATATATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (14 bp):
ATTGAATTATATTG
Found at i:30450638 original size:22 final size:21
Alignment explanation
Indices: 30450608--30450666 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
30450598 GGCACTTTAT
30450608 GTGTCGTATTTTAGGCACCTC
1 GTGTCGTATTTTAGGCACCTC
*
30450629 GTGTTCGTA--TCAGGCACCTC
1 GTG-TCGTATTTTAGGCACCTC
30450649 GTGT-GTCATTTTAGGCAC
1 GTGTCGT-ATTTTAGGCAC
30450667 TTTATGTGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 13 0.41
21 10 0.31
22 5 0.16
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (21 bp):
GTGTCGTATTTTAGGCACCTC
Found at i:30452627 original size:43 final size:44
Alignment explanation
Indices: 30452527--30452678 Score: 129
Period size: 43 Copynumber: 3.5 Consensus size: 44
30452517 TCCATATGTC
30452527 GTCTTACATGT-AATCAAATATCGATGCCACTGTCCCAGACAGG
1 GTCTTACATGTAAATCAAATATCGATGCCACTGTCCCAGACAGG
* * ** * *
30452570 GGCTTACATG-AAATCAAATAT-GATGTCGTTG-CCTCGGACATG
1 GTCTTACATGTAAATCAAATATCGATGCCACTGTCC-CAGACAGG
* * * *
30452612 GTCTTACATGTAAATCACAA-ATTGATGCCGAC-ATCCCAAACATG
1 GTCTTACATGTAAATCA-AATATCGATGCC-ACTGTCCCAGACAGG
*
30452656 GTCTTACACG-AAATCAAATATCG
1 GTCTTACATGTAAATCAAATATCG
30452679 GTAATCGTAT
Statistics
Matches: 86, Mismatches: 15, Indels: 16
0.74 0.13 0.14
Matches are distributed among these distances:
41 2 0.02
42 24 0.28
43 36 0.42
44 22 0.26
45 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (44 bp):
GTCTTACATGTAAATCAAATATCGATGCCACTGTCCCAGACAGG
Found at i:30456912 original size:16 final size:16
Alignment explanation
Indices: 30456891--30456922 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30456881 CTTTACCTGC
30456891 TGTCTGTGAATTCTCT
1 TGTCTGTGAATTCTCT
30456907 TGTCTGTGAATTCTCT
1 TGTCTGTGAATTCTCT
30456923 GATGTGTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (16 bp):
TGTCTGTGAATTCTCT
Found at i:30461066 original size:79 final size:81
Alignment explanation
Indices: 30460930--30461114 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
30460920 TTGAATGATG
*
30460930 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
30460994 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
30461009 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
30461071 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
30461089 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30461115 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:30461128 original size:40 final size:40
Alignment explanation
Indices: 30460931--30461114 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
30460921 TGAATGATGT
* * * *
30460931 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
30460971 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
30461011 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30461049 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30461090 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30461115 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:30461136 original size:79 final size:79
Alignment explanation
Indices: 30460983--30461147 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
30460973 GGACTAAGAT
* **
30460983 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
30461048 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
30461062 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
30461125 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
30461141 CCGAAGG
1 CCGAAGG
30461148 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:30468347 original size:39 final size:40
Alignment explanation
Indices: 30468246--30468430 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
30468236 TTGAATGATG
* * * *
30468246 TCCGGGCTATGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
30468285 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
30468326 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
30468366 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
30468404 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30468431 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 82 0.66
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:30468452 original size:79 final size:78
Alignment explanation
Indices: 30468247--30468463 Score: 219
Period size: 79 Copynumber: 2.7 Consensus size: 78
30468237 TGAATGATGT
* * *
30468247 CCGGGCTATGTCCCGAAGGC-TTTGTGCTAAGT-GACCATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTATGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
30468310 TGTGCGAGATACTAATT
62 TGTGCGAGATACTAATA
* * *
30468327 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATTCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTATGTCCCGAAGGCATTTGTGCGAG-TAGCTATA-TCCGGTTAAGT-CCGAAGGCATTT
*
30468390 GTGCGAGTTACT-ATAA
63 GTGCGAGATACTAAT-A
** *
30468406 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
30468464 TACGTGATTT
Statistics
Matches: 114, Mismatches: 14, Indels: 19
0.78 0.10 0.13
Matches are distributed among these distances:
78 3 0.03
79 65 0.57
80 46 0.40
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTATGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:30471085 original size:23 final size:24
Alignment explanation
Indices: 30471059--30471103 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
30471049 TAGATCAAGT
30471059 TATTG-TTGTATTCAT-TGATGACA
1 TATTGATT-TATTCATGTGATGACA
30471082 TATTGATTTATTCATGTGATGA
1 TATTGATTTATTCATGTGATGA
30471104 ATCTGAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.49
Consensus pattern (24 bp):
TATTGATTTATTCATGTGATGACA
Found at i:30477032 original size:34 final size:34
Alignment explanation
Indices: 30476994--30477064 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
30476984 CCTCTTTGTC
*
30476994 GTTTTAGTATAGAATTGAAAGGCCGAATATAGGA
1 GTTTTAGTATAGAATTGAAAAGCCGAATATAGGA
* **
30477028 GTTTTAGTATATAATTGAAAAGTTGAATATAGGA
1 GTTTTAGTATAGAATTGAAAAGCCGAATATAGGA
30477062 GTT
1 GTT
30477065 GTTCTTACGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (34 bp):
GTTTTAGTATAGAATTGAAAAGCCGAATATAGGA
Found at i:30478265 original size:27 final size:27
Alignment explanation
Indices: 30478226--30478418 Score: 155
Period size: 27 Copynumber: 7.2 Consensus size: 27
30478216 GGTCGTTAAG
* *
30478226 ACCCCCGACTTGTAAAATTACTGAAAT
1 ACCCTCGAGTTGTAAAATTACTGAAAT
30478253 ACCCTCGAGTTGTAAAATTACTGAAAT
1 ACCCTCGAGTTGTAAAATTACTGAAAT
* * * **
30478280 ACCC-CTAATTTGTGAAATTACCAAAAT
1 ACCCTC-GAGTTGTAAAATTACTGAAAT
* * *
30478307 ACCCTCAATTTGTGAAATTA-TCGAAAT
1 ACCCTCGAGTTGTAAAATTACT-GAAAT
*
30478334 ACCC-CTGACTTGTAAAATTACTGAAAT
1 ACCCTC-GAGTTGTAAAATTACTGAAAT
* * *
30478361 ACCC-CTAGTTTGT-AAATTATTAAAAT
1 ACCCTCGAG-TTGTAAAATTACTGAAAT
* *
30478387 ACTCTTGTAG-TGTAAAATTACTGAAAT
1 ACCCTCG-AGTTGTAAAATTACTGAAAT
30478414 ACCCT
1 ACCCT
30478419 TGTAGGGTAA
Statistics
Matches: 135, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
26 20 0.15
27 111 0.82
28 4 0.03
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
ACCCTCGAGTTGTAAAATTACTGAAAT
Found at i:30478299 original size:54 final size:54
Alignment explanation
Indices: 30478233--30478418 Score: 182
Period size: 54 Copynumber: 3.5 Consensus size: 54
30478223 AAGACCCCCG
*
30478233 ACTTGTAAAATTACTGAAATACCCTCGAGTTGTAAAATTA-CTGAAATACCCCTA
1 ACTTGTAAAATTACTGAAATACCCTCAAGTTGTAAAATTATC-GAAATACCCCTA
* * ** * * *
30478287 ATTTGTGAAATTACCAAAATACCCTCAATTTGTGAAATTATCGAAATACCCCTG
1 ACTTGTAAAATTACTGAAATACCCTCAAGTTGTAAAATTATCGAAATACCCCTA
* ** * * *
30478341 ACTTGTAAAATTACTGAAATACCC-CTAGTTTGT-AAATTATTAAAATACTCTTGT
1 ACTTGTAAAATTACTGAAATACCCTCAAG-TTGTAAAATTATCGAAATACCCCT-A
*
30478395 A-GTGTAAAATTACTGAAATACCCT
1 ACTTGTAAAATTACTGAAATACCCT
30478419 TGTAGGGTAA
Statistics
Matches: 108, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
53 38 0.35
54 69 0.64
55 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (54 bp):
ACTTGTAAAATTACTGAAATACCCTCAAGTTGTAAAATTATCGAAATACCCCTA
Found at i:30478400 original size:26 final size:26
Alignment explanation
Indices: 30478348--30478429 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
30478338 CTGACTTGTA
* * *
30478348 AAATTACTGAAATACCCCTAGT-TTGT
1 AAATTACTAAAATA-CCCTTGTAGTGT
* *
30478374 AAATTATTAAAATACTCTTGTAGTGT
1 AAATTACTAAAATACCCTTGTAGTGT
* *
30478400 AAAATTACTGAAATACCCTTGTAGGGT
1 -AAATTACTAAAATACCCTTGTAGTGT
30478427 AAA
1 AAA
30478430 ATGACTATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
25 5 0.11
26 18 0.40
27 22 0.49
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (26 bp):
AAATTACTAAAATACCCTTGTAGTGT
Found at i:30478832 original size:22 final size:22
Alignment explanation
Indices: 30478779--30478843 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
30478769 GCCGTTGAAT
*
30478779 CTAATTATGGCTCTGTGCCAAC
1 CTAAATATGGCTCTGTGCCAAC
* *
30478801 CTAAAAATGGCTCTGTGCCATC
1 CTAAATATGGCTCTGTGCCAAC
* * * *
30478823 TTGACTATGGCTTTGTGCCAA
1 CTAAATATGGCTCTGTGCCAA
30478844 ACGTATTTAC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
CTAAATATGGCTCTGTGCCAAC
Found at i:30495557 original size:40 final size:40
Alignment explanation
Indices: 30495490--30495736 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
30495480 CCTTCGGAGT
* *
30495490 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
* * *
30495529 TTAGTCCGGTTATAGTAACTCGCGCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
30495569 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
30495609 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
30495649 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
30495688 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
30495728 TTAGCCCGG
1 TTAGCCCGG
30495737 GTATCAATCC
Statistics
Matches: 196, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.01
39 40 0.20
40 155 0.79
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:30499932 original size:25 final size:25
Alignment explanation
Indices: 30499890--30499938 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
30499880 TCCATCACTC
** *
30499890 GTGAGAGCATACTGATTTATAGCTT
1 GTGAGAGCATACCAATTTACAGCTT
30499915 GTGAGAGCATACCAATTTACAGCT
1 GTGAGAGCATACCAATTTACAGCT
30499939 CAAATGAGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (25 bp):
GTGAGAGCATACCAATTTACAGCTT
Found at i:30499947 original size:25 final size:25
Alignment explanation
Indices: 30499919--30499976 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
30499909 TAGCTTGTGA
*
30499919 GAGCATACCAATTTACAGCTCAAAT
1 GAGCATACCAATTCACAGCTCAAAT
** *
30499944 GAGCATACTGATTCACAGCTCATAT
1 GAGCATACCAATTCACAGCTCAAAT
*
30499969 AAGCATAC
1 GAGCATAC
30499977 TTGTACATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (25 bp):
GAGCATACCAATTCACAGCTCAAAT
Found at i:30503998 original size:29 final size:29
Alignment explanation
Indices: 30503876--30504056 Score: 260
Period size: 28 Copynumber: 6.3 Consensus size: 29
30503866 AAGTCTACAT
* *
30503876 ACATTTATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
30503904 ACATTCATATGGCCCATTAGACCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
30503932 ACATTCATATGGCCCATTAGG-CCTAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
30503960 ACATTCATATGGCCCATTCGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
30503989 ACATTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
30504018 ACATCCATATGGCCCATTAGGCCCAAATA
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
30504047 ATATTCATAT
1 ACATTCATAT
30504057 TCATGCTTTC
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
27 2 0.01
28 69 0.50
29 67 0.49
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:30504309 original size:16 final size:16
Alignment explanation
Indices: 30504273--30504318 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
30504263 AAGCCTTCAG
*
30504273 CTTTTCAGCATTTCTG
1 CTTTTCAGCATTTCTA
* *
30504289 TTTTTTAGCATTTCTA
1 CTTTTCAGCATTTCTA
*
30504305 CTTTTCGGCATTTC
1 CTTTTCAGCATTTC
30504319 GGGATTTACC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.13, C:0.22, G:0.11, T:0.54
Consensus pattern (16 bp):
CTTTTCAGCATTTCTA
Found at i:30515508 original size:39 final size:39
Alignment explanation
Indices: 30515454--30515531 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
30515444 ATGATAAGTT
30515454 GATTTTTGAAGAATTAAAAACTTTTAGGTTGTTTCCCTA
1 GATTTTTGAAGAATTAAAAACTTTTAGGTTGTTTCCCTA
30515493 GATTTTTGAAGAATTAAAAACTTTTAGGTTGTTTCCCTA
1 GATTTTTGAAGAATTAAAAACTTTTAGGTTGTTTCCCTA
30515532 AGTTTAGGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (39 bp):
GATTTTTGAAGAATTAAAAACTTTTAGGTTGTTTCCCTA
Found at i:30519055 original size:29 final size:29
Alignment explanation
Indices: 30518989--30519084 Score: 149
Period size: 29 Copynumber: 3.3 Consensus size: 29
30518979 AAGTCTACAT
* * *
30518989 ACATGCATTTGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
30519017 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
30519046 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
30519075 ACATTCATAT
1 ACATTCATAT
30519085 TCATGCTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
28 20 0.32
29 42 0.68
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:30519322 original size:16 final size:16
Alignment explanation
Indices: 30519301--30519331 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30519291 AAACCTTCAG
30519301 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
*
30519317 CTTTTCGGTATTTCG
1 CTTTTCGGCATTTCG
30519332 GGATTTGCTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.23, G:0.19, T:0.48
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:30531625 original size:10 final size:10
Alignment explanation
Indices: 30531610--30531638 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
30531600 AACTGCTTTC
30531610 AAATGTTTTG
1 AAATGTTTTG
30531620 AAATGTTTTG
1 AAATGTTTTG
30531630 AAATGTTTT
1 AAATGTTTT
30531639 ACTGAACGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (10 bp):
AAATGTTTTG
Found at i:30538680 original size:68 final size:68
Alignment explanation
Indices: 30538513--30538688 Score: 184
Period size: 68 Copynumber: 2.6 Consensus size: 68
30538503 TAGTACCACC
* * * *
30538513 CATGTGACCTAGC--CA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGTGACCTAGCTACACATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAAT
30538575 CACA
65 CACA
** * *
30538579 CATGTGACCTAGCTACATTTATCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGTGACCTAGCTACACATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGA
30538641 ATCACA
63 ATCACA
30538647 CATGTGACCTAGCTACTACATAGTATCTCGTAGCTCTCTTGT
1 CATGTGACCTAGCTAC-ACATA-TATCTCGTAGCTCTCTTGT
30538689 ACACATGATG
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
66 13 0.14
68 39 0.42
69 8 0.09
70 6 0.07
71 26 0.28
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (68 bp):
CATGTGACCTAGCTACACATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATC
ACA
Found at i:30554164 original size:46 final size:47
Alignment explanation
Indices: 30554064--30554195 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 47
30554054 ATATTTGTGT
30554064 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGATGAGA
* *
30554111 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCT-TGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCAT-TGAGATG-AGA
*
30554157 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATT
1 GCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATT
30554196 ATACCCTATT
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
45 1 0.01
46 24 0.32
47 43 0.57
48 8 0.11
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGATGAGA
Found at i:30556855 original size:13 final size:13
Alignment explanation
Indices: 30556837--30556861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30556827 GCCTCGTGTA
30556837 GCCGAAGCTATTC
1 GCCGAAGCTATTC
30556850 GCCGAAGCTATT
1 GCCGAAGCTATT
30556862 TCGAACTGCA
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:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (13 bp):
GCCGAAGCTATTC
Found at i:30560553 original size:47 final size:46
Alignment explanation
Indices: 30560429--30560558 Score: 151
Period size: 46 Copynumber: 2.8 Consensus size: 46
30560419 TGTAACCCGC
*
30560429 CCATAAGCGAACTCGGACTCAACTCAACGAGCTTGG-GCGTTCACAT
1 CCATAA-CGAACTCGGACTCAACTCAACGAGCTCGGAGCGTTCACAT
*
30560475 CCATAACTGAACCCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAC-GAACTCGGACTCAACTCAACGAGCTCGGA-G-C--GTTCACAT
*
30560525 -C-TCACGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAACGAACTCGGACTCAACTCAACGAGCTCGGA
30560559 ACTCAAATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
45 1 0.01
46 32 0.43
47 28 0.38
48 4 0.05
49 2 0.03
50 4 0.05
51 3 0.04
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.18
Consensus pattern (46 bp):
CCATAACGAACTCGGACTCAACTCAACGAGCTCGGAGCGTTCACAT
Found at i:30563847 original size:3 final size:3
Alignment explanation
Indices: 30563839--30563868 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
30563829 GTCTCAATTC
30563839 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
30563869 TCACCTCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CCT
Found at i:30563979 original size:34 final size:35
Alignment explanation
Indices: 30563941--30564011 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 35
30563931 CACATTTTCC
* *
30563941 TATCTT-TATGTTAGA-ACTTAATTTTTTATTTTGG
1 TATCTTGTATG-TAGATACTTAACTGTTTATTTTGG
* *
30563975 TATCTTGTTTGTAGATACTTGACTGTTTATTTTGG
1 TATCTTGTATGTAGATACTTAACTGTTTATTTTGG
30564010 TA
1 TA
30564012 CATTAATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 10 0.32
35 21 0.68
ACGTcount: A:0.21, C:0.07, G:0.15, T:0.56
Consensus pattern (35 bp):
TATCTTGTATGTAGATACTTAACTGTTTATTTTGG
Found at i:30568832 original size:79 final size:82
Alignment explanation
Indices: 30568721--30568905 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
30568711 GCTACTCGTT
* * * * *
30568721 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGCCTTC-GGATCTTAACCC
* *
30568784 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
30568801 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCACGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGCCTTCGGATCTTAACCCG
* *
30568864 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
30568881 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30568906 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 34 0.38
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:30568905 original size:40 final size:40
Alignment explanation
Indices: 30568721--30568905 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
30568711 GCTACTCGTT
* * * *
30568721 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
30568761 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
30568801 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-ACGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTA-GCA
* * *
30568840 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
30568881 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30568906 CATCATTCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 77 0.64
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:30574337 original size:32 final size:30
Alignment explanation
Indices: 30574294--30574363 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 30
30574284 AATTAAATCA
30574294 AAATT-AAAGTTT-TATGTATAACTTTGAACC
1 AAATTAAAAGTTTATATGTATAA--TTGAACC
*
30574324 ACAATTAAAAGTTTCATATTTATAATTGAACC
1 A-AATTAAAAGTTT-ATATGTATAATTGAACC
30574356 AAATTAAA
1 AAATTAAA
30574364 GTCCATGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
30 1 0.03
31 11 0.31
32 15 0.43
34 8 0.23
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (30 bp):
AAATTAAAAGTTTATATGTATAATTGAACC
Found at i:30574999 original size:23 final size:23
Alignment explanation
Indices: 30574973--30575034 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
30574963 TGATTTAAAC
30574973 AAATATTTATATTTATATAAT-TA
1 AAATATTTATATTT-TATAATATA
*
30574996 AAAT-TTTCATATTTTATACTATA
1 AAATATTT-ATATTTTATAATATA
30575019 AAATATTTATTATTTT
1 AAATATTTA-TATTTT
30575035 TTTAATGCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 8 0.24
23 17 0.50
24 9 0.26
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
AAATATTTATATTTTATAATATA
Found at i:30575603 original size:16 final size:15
Alignment explanation
Indices: 30575578--30575607 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30575568 TATTTAAAAT
30575578 TTAAAATTATTATTG
1 TTAAAATTATTATTG
30575593 TTAATAATTATTATT
1 TTAA-AATTATTATT
30575608 AAAATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TTAAAATTATTATTG
Found at i:30577318 original size:3 final size:3
Alignment explanation
Indices: 30577310--30577358 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
30577300 TCTACTTTTC
* * *
30577310 TCT TCT TCT TCT TCT TCT TTT TCT TCT TTT TCT TCT TTT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
30577358 T
1 T
30577359 TGCATTCGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TCT
Found at i:30577335 original size:18 final size:18
Alignment explanation
Indices: 30577312--30577358 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
30577302 TACTTTTCTC
30577312 TTCTTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTCTTT
*
30577330 TTCTTCTTTTTCTTCTTT
1 TTCTTCTTCTTCTTCTTT
30577348 TTCTTCTTCTT
1 TTCTTCTTCTT
30577359 TGCATTCGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTTCTTCTTCTTCTTT
Found at i:30578665 original size:26 final size:25
Alignment explanation
Indices: 30578619--30578669 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
30578609 ACAAAAACTT
*
30578619 CATAATCCTAATAATTATCAATATCA
1 CATAATACTAATAATTATCAA-ATCA
*
30578645 CATAATACTAA-ATTTATTCAAATCA
1 CATAATACTAATAATTA-TCAAATCA
30578670 TTTTTAAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (25 bp):
CATAATACTAATAATTATCAAATCA
Found at i:30586803 original size:17 final size:17
Alignment explanation
Indices: 30586772--30586804 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30586762 GCTAAAAACT
30586772 TAATTTTAAAGACTAAA
1 TAATTTTAAAGACTAAA
30586789 TAATGTTTAAA-ACTAA
1 TAAT-TTTAAAGACTAA
30586805 GTAGAAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
TAATTTTAAAGACTAAA
Found at i:30587577 original size:132 final size:132
Alignment explanation
Indices: 30587333--30587835 Score: 548
Period size: 132 Copynumber: 3.8 Consensus size: 132
30587323 AGCCGCGATT
* * * * * *
30587333 TTAGGTCAGTGAGCTATATGGGTTGTGATCTTAGGTCAACAAACCCAAATAGTTTTGGTTGCAAT
1 TTAGGTCGGTGAGCTGTATGGGTTGTGATCTTAGGTCAGCGAACCCAAATAATTTTGGCTGCAAT
* * *
30587398 CTTAGGTAGGCGAGCCACATAGGTCGTGATCTTATGTCAATGGACCTGAATAATTTCAGTCATGA
66 CTTAGGTCGGCGAGCCACATAGGTCGTGATCTTATGTCAACGAACCTGAATAATTTCAGTCATGA
30587463 TC
131 TC
30587465 TTAGGTCGGTGAGCTGTATGGGTTGTGATCTTAGGTCTA-CGAACCCGAAA-AATTTTGGCTGCA
1 TTAGGTCGGTGAGCTGTATGGGTTGTGATCTTAGGTC-AGCGAACCC-AAATAATTTTGGCTGCA
* * * * * *
30587528 ATTTTATGTCGGTGAGCCACATAGGTCGTGATCTTATGTCAACGAACCTGAATAATTT-TGGCTG
64 ATCTTAGGTCGGCGAGCCACATAGGTCGTGATCTTATGTCAACGAACCTGAATAATTTCAGTC-A
30587592 TGATC
128 TGATC
* ** * * *
30587597 TTAGGTTGGCAAGCTGTATGGGTTGTGATCTTAGGTCAGCGAACCCAAATTATTTTGGATGCGAT
1 TTAGGTCGGTGAGCTGTATGGGTTGTGATCTTAGGTCAGCGAACCCAAATAATTTTGGCTGCAAT
** * * * ** **
30587662 CTTAGGTCAACAAGCCACATAGGTCGTGATCTTACGTCAGCGAACCCAAATAATTTCAGTCACAA
66 CTTAGGTCGGCGAGCCACATAGGTCGTGATCTTATGTCAACGAACCTGAATAATTTCAGTCATGA
30587727 TC
131 TC
* ** * * *
30587729 TTAGGTCGGCT-AGTTGTATGGCCTGTGATCTTAGGTCAGTGAAACCAAATAATTTTGGCTGCGA
1 TTAGGTCGG-TGAGCTGTATGGGTTGTGATCTTAGGTCAGCGAACCCAAATAATTTTGGCTGCAA
* *** * * *
30587793 T-TTAGGTCAGCGAGCTGTATGGGTTGTGATCTTAGGTCAACGA
65 TCTTAGGTCGGCGAGCCACATAGGTCGTGATCTTATGTCAACGA
30587836 GCCCAAATAA
Statistics
Matches: 311, Mismatches: 53, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
131 39 0.13
132 266 0.86
133 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (132 bp):
TTAGGTCGGTGAGCTGTATGGGTTGTGATCTTAGGTCAGCGAACCCAAATAATTTTGGCTGCAAT
CTTAGGTCGGCGAGCCACATAGGTCGTGATCTTATGTCAACGAACCTGAATAATTTCAGTCATGA
TC
Found at i:30587757 original size:66 final size:65
Alignment explanation
Indices: 30587333--30587867 Score: 222
Period size: 66 Copynumber: 8.1 Consensus size: 65
30587323 AGCCGCGATT
* * ** * * * * *
30587333 TTAGGTCAGTGAGCTATATGGGTTGTGATCTTAGGTCAACAAACCCAAATAGTTTTGGTTGCAAT
1 TTAGGTCAGCGAGCTGTATGGCCTGTGATCTTAGGTCAGCGAACCCAAATA-ATTTAGTCGCAAT
30587398 C
65 C
*** * * ** * ** ***
30587399 TTAGGT-AGGCGAGCCACATAGGTC-GTGATCTTATGTCAATGGACCTGAATAATTTCAGTCATG
1 TTAGGTCA-GCGAGCTGTAT-GGCCTGTGATCTTAGGTCAGCGAACCCAAATAATTT-AGTCGCA
30587462 ATC
63 ATC
* * ** * *
30587465 TTAGGTCGGTGAGCTGTATGGGTTGTGATCTTAGGTCTA-CGAACCCGAAA-AATTTTGGCTGCA
1 TTAGGTCAGCGAGCTGTATGGCCTGTGATCTTAGGTC-AGCGAACCC-AAATAATTTAGTC-GCA
*
30587528 ATT
63 ATC
* * * *** * * * ** * * **
30587531 TTATGTCGGTGAGCCACATAGGTC-GTGATCTTATGTCAACGAACCTGAATAATTTTGGCTGTGA
1 TTAGGTCAGCGAGCTGTAT-GGCCTGTGATCTTAGGTCAGCGAACCCAAATAATTTAGTC-GCAA
30587595 TC
64 TC
** * ** * * *
30587597 TTAGGTTGGCAAGCTGTATGGGTTGTGATCTTAGGTCAGCGAACCCAAATTATTTTGGAT-GCGA
1 TTAGGTCAGCGAGCTGTATGGCCTGTGATCTTAGGTCAGCGAACCCAAA-TAATTTAG-TCGCAA
30587661 TC
64 TC
* * *** * * *
30587663 TTAGGTCAACAAGCCACATAGGTC-GTGATCTTACGTCAGCGAACCCAAATAATTTCAGTCACAA
1 TTAGGTCAGCGAGCTGTAT-GGCCTGTGATCTTAGGTCAGCGAACCCAAATAATTT-AGTCGCAA
30587727 TC
64 TC
* * * * * * * *
30587729 TTAGGTCGGCTAGTTGTATGGCCTGTGATCTTAGGTCAGTGAAACCAAATAATTTTGGCTGCGAT
1 TTAGGTCAGCGAGCTGTATGGCCTGTGATCTTAGGTCAGCGAACCCAAATAATTTAGTC-GCAAT
30587794 -
65 C
** * * *
30587794 TTAGGTCAGCGAGCTGTATGGGTTGTGATCTTAGGTCAACGAGCCCAAATAATTTTAGTTGCAAT
1 TTAGGTCAGCGAGCTGTATGGCCTGTGATCTTAGGTCAGCGAACCCAAATAA-TTTAGTCGCAAT
30587859 C
65 C
30587860 TTAGGTCA
1 TTAGGTCA
30587868 ATGAAGGTTA
Statistics
Matches: 343, Mismatches: 105, Indels: 42
0.70 0.21 0.09
Matches are distributed among these distances:
65 71 0.21
66 257 0.75
67 15 0.04
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (65 bp):
TTAGGTCAGCGAGCTGTATGGCCTGTGATCTTAGGTCAGCGAACCCAAATAATTTAGTCGCAATC
Found at i:30592000 original size:43 final size:43
Alignment explanation
Indices: 30591946--30592059 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 43
30591936 CCGAAAAAAC
* *
30591946 GCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGT
1 GCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTGAGAAAAGT
* * ** * *
30591989 GCCTCTAAAAGTTATTTCTTTTAGAGGCGTTTGTGATAAAAGT
1 GCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTGAGAAAAGT
*
30592032 GCCGCTAAAAGTCATGACTTTTTGCGGC
1 GCCGCTAAAAGTCATGACTTTTAGCGGC
30592060 ATTTTTGTTA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
GCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTGAGAAAAGT
Found at i:30592466 original size:21 final size:21
Alignment explanation
Indices: 30592442--30592481 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30592432 CTACTCTGCT
*
30592442 CTGCCTCCCTTGCTGCTGCCA
1 CTGCCTCCCTCGCTGCTGCCA
*
30592463 CTGCCTCCCTCGCTTCTGC
1 CTGCCTCCCTCGCTGCTGC
30592482 ATCCGCTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.50, G:0.17, T:0.30
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCA
Found at i:30592880 original size:13 final size:13
Alignment explanation
Indices: 30592862--30592894 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
30592852 CTAACGATGA
*
30592862 ATTATAATTAAAC
1 ATTATAATGAAAC
30592875 ATTATAATGAAAC
1 ATTATAATGAAAC
30592888 ATTATAA
1 ATTATAA
30592895 ATATTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (13 bp):
ATTATAATGAAAC
Found at i:30596225 original size:12 final size:12
Alignment explanation
Indices: 30596210--30596235 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30596200 ATCATCCTCT
30596210 TCATCAGATTCA
1 TCATCAGATTCA
30596222 TCATCAGATTCA
1 TCATCAGATTCA
30596234 TC
1 TC
30596236 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:30598117 original size:52 final size:52
Alignment explanation
Indices: 30598033--30598258 Score: 294
Period size: 52 Copynumber: 4.3 Consensus size: 52
30598023 CGTAAGGTAA
* * * * * * *
30598033 GTAAGTTTTGTATGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATTATATGATATATATTTATGT-A-TTAT
*
30598087 GT-A-TTATGTAAGTTTTGTAAGTTATTATATGATATATATTTATGTATTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTAT
*
30598137 GTAAGTTTTGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTAT
* * *
30598189 GTAAGTTTTGTAAGTTACGTAAGTTATGATATGATATATATTTATGTATTAT
1 GTAAGTTATGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTAT
* *
30598241 GTAAGTTTTGTAAATTAT
1 GTAAGTTATGTAAGTTAT
30598259 TATATGATAT
Statistics
Matches: 156, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
50 5 0.03
51 2 0.01
52 146 0.94
53 1 0.01
54 2 0.01
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (52 bp):
GTAAGTTATGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTAT
Found at i:30598150 original size:9 final size:9
Alignment explanation
Indices: 30598133--30598216 Score: 68
Period size: 9 Copynumber: 9.6 Consensus size: 9
30598123 TATTTATGTA
30598133 TTATGTAAG
1 TTATGTAAG
*
30598142 TTTTGTAAG
1 TTATGTAAG
30598151 TTATGTAAG
1 TTATGTAAG
30598160 TTAT-TATA-
1 TTATGTA-AG
* * *
30598168 TGATATATAT
1 TTATGTA-AG
30598178 TTATGT-A-
1 TTATGTAAG
30598185 TTATGTAAG
1 TTATGTAAG
*
30598194 TTTTGTAAG
1 TTATGTAAG
*
30598203 TTACGTAAG
1 TTATGTAAG
30598212 TTATG
1 TTATG
30598217 ATATGATATA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
7 6 0.10
8 7 0.11
9 44 0.72
10 4 0.07
ACGTcount: A:0.31, C:0.01, G:0.18, T:0.50
Consensus pattern (9 bp):
TTATGTAAG
Found at i:30601186 original size:115 final size:115
Alignment explanation
Indices: 30601040--30601471 Score: 564
Period size: 116 Copynumber: 3.7 Consensus size: 115
30601030 TAATTTAACA
* * *
30601040 TTAGCGGCATTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCGTTTTACCCCAAAACGC
1 TTAGTGGCGTTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCATTTTACCCCAAAACGC
* *
30601105 CATTAATAATTCAACAAAACGTCGCTGTTTTGTTTTAAACGAAATCACCT
66 CACTAATAATCCAACAAAACGTCGCTGTTTTGTTTTAAACGAAATCACCT
* * * * ** *
30601155 TTAGCGGCGTTTTTGA-CCTAGCGCCGCTAAAAACGCACATATTGCGGCATTTAACCTTAAAATG
1 TTAGTGGCGTTTAT-ACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCATTTTACCCCAAAACG
* *
30601219 CCACTAATAATCCAACAAAACGTCGCCCT-TTTTGTTTTAACCGGAATCACCT
65 CCACTAATAATCCAACAAAACGTCG--CTGTTTTGTTTTAAACGAAATCACCT
* * ** *
30601271 TTAGTGGCATTTATACCCTAGCGCCGCTAAAAACGCACCAATTGCGGCGATTTTTTCCTAAAACG
1 TTAGTGGCGTTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGC-ATTTTACCCCAAAACG
* *
30601336 CCACTAATAATCCAACAAAACTTCGCCGTTTTGTTTTAAACGAAATCACCT
65 CCACTAATAATCCAACAAAACGTCGCTGTTTTGTTTTAAACGAAATCACCT
* * *
30601387 TTAGTGGCGTTTATACCCTAGTGCCGCTAAAAACGCACCTATTGCGACATTTTA-CACAAAACGC
1 TTAGTGGCGTTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCATTTTACCCCAAAACGC
* *
30601451 CACTAACAAATCCAATAAAAC
66 CACTAA-TAATCCAACAAAAC
30601472 AGCATCGTTT
Statistics
Matches: 275, Mismatches: 35, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
114 14 0.05
115 96 0.35
116 128 0.47
117 37 0.13
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (115 bp):
TTAGTGGCGTTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCATTTTACCCCAAAACGC
CACTAATAATCCAACAAAACGTCGCTGTTTTGTTTTAAACGAAATCACCT
Found at i:30601465 original size:232 final size:230
Alignment explanation
Indices: 30601040--30601471 Score: 643
Period size: 232 Copynumber: 1.9 Consensus size: 230
30601030 TAATTTAACA
*
30601040 TTAGCGGCATTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCGTTTTACCCCAAAACGC
1 TTAGCGGCATTTATACCCTAGCGCCGCTAAAAACGCACCAATTGCGGCGTTTTACCCCAAAACGC
* * * *
30601105 CATTAATAATTCAACAAAACGTCGCTGTTTTGTTTTAAACGAAATCACCTTTAGCGGCGTTTTTG
66 CACTAATAATCCAACAAAACGTCGCCGTTTTGTTTTAAACGAAATCACCTTTAGCGGCGTTTATG
* * *
30601170 ACCTAGCGCCGCTAAAAACGCACATATTGCGGCATTTAACCTTAAAATGCCACTAATAATCCAAC
131 ACCTAGCGCCGCTAAAAACGCACATATTGCGACATTTAACC-TAAAACGCCACTAAAAATCCAAC
30601235 AAAACGTCGCCCTTTTTGTTTTAACCGGAATCACCT
195 AAAACGTCGCCCTTTTTGTTTTAACCGGAATCACCT
* ** *
30601271 TTAGTGGCATTTATACCCTAGCGCCGCTAAAAACGCACCAATTGCGGCGATTTTTTCCTAAAACG
1 TTAGCGGCATTTATACCCTAGCGCCGCTAAAAACGCACCAATTGCGGCG-TTTTACCCCAAAACG
* *
30601336 CCACTAATAATCCAACAAAACTTCGCCGTTTTGTTTTAAACGAAATCACCTTTAGTGGCGTTTAT
65 CCACTAATAATCCAACAAAACGTCGCCGTTTTGTTTTAAACGAAATCACCTTTAGCGGCGTTTAT
* * *
30601401 -ACCCTAGTGCCGCTAAAAACGCACCTATTGCGACATTTTACAC-AAAACGCCACTAACAAATCC
130 GA-CCTAGCGCCGCTAAAAACGCACATATTGCGACATTTAAC-CTAAAACGCCACTAA-AAATCC
*
30601464 AATAAAAC
192 AACAAAAC
30601472 AGCATCGTTT
Statistics
Matches: 179, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
231 60 0.34
232 118 0.66
233 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (230 bp):
TTAGCGGCATTTATACCCTAGCGCCGCTAAAAACGCACCAATTGCGGCGTTTTACCCCAAAACGC
CACTAATAATCCAACAAAACGTCGCCGTTTTGTTTTAAACGAAATCACCTTTAGCGGCGTTTATG
ACCTAGCGCCGCTAAAAACGCACATATTGCGACATTTAACCTAAAACGCCACTAAAAATCCAACA
AAACGTCGCCCTTTTTGTTTTAACCGGAATCACCT
Found at i:30601622 original size:14 final size:15
Alignment explanation
Indices: 30601597--30601627 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
30601587 AATGCTATTT
30601597 AATATAAAATTAAAA
1 AATATAAAATTAAAA
30601612 AATAT-AAATTAAAA
1 AATATAAAATTAAAA
30601626 AA
1 AA
30601628 CAATCACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AATATAAAATTAAAA
Found at i:30601770 original size:26 final size:26
Alignment explanation
Indices: 30601741--30601790 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
30601731 AAGAATTAGA
30601741 TAAAATTTGAAATCTTGAAAATTTTT
1 TAAAATTTGAAATCTTGAAAATTTTT
* * *
30601767 TAAAATTTTAATTCTTTAAAATTT
1 TAAAATTTGAAATCTTGAAAATTT
30601791 GAAATTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (26 bp):
TAAAATTTGAAATCTTGAAAATTTTT
Found at i:30601779 original size:16 final size:16
Alignment explanation
Indices: 30601760--30601790 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30601750 AAATCTTGAA
*
30601760 AATTTTTTAAAATTTT
1 AATTCTTTAAAATTTT
30601776 AATTCTTTAAAATTT
1 AATTCTTTAAAATTT
30601791 GAAATTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTCTTTAAAATTTT
Found at i:30601920 original size:7 final size:7
Alignment explanation
Indices: 30601905--30601949 Score: 72
Period size: 7 Copynumber: 6.3 Consensus size: 7
30601895 ACACTAATTA
30601905 CCCTAAAC
1 CCCT-AAC
30601913 CCCTAAC
1 CCCTAAC
30601920 CCCTAAC
1 CCCTAAC
30601927 CCCTAAC
1 CCCTAAC
*
30601934 CCTTAAC
1 CCCTAAC
30601941 CCCTAAC
1 CCCTAAC
30601948 CC
1 CC
30601950 ATGTCCTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
7 31 0.89
8 4 0.11
ACGTcount: A:0.29, C:0.56, G:0.00, T:0.16
Consensus pattern (7 bp):
CCCTAAC
Found at i:30601997 original size:7 final size:7
Alignment explanation
Indices: 30601987--30602065 Score: 52
Period size: 7 Copynumber: 10.9 Consensus size: 7
30601977 CACTTAAATT
30601987 CTAAACC
1 CTAAACC
30601994 CTAAACC
1 CTAAACC
30602001 CTATAACTC
1 CTA-AAC-C
*
30602010 GTAAACCC
1 CTAAA-CC
*
30602018 CT-AACT
1 CTAAACC
*
30602024 CTTAACC
1 CTAAACC
30602031 CTTAAACC
1 C-TAAACC
*
30602039 CTAAGCC
1 CTAAACC
* *
30602046 ATAAAAC
1 CTAAACC
*
30602053 ATAAACC
1 CTAAACC
30602060 CTAAAC
1 CTAAAC
30602066 TTCTACCCCT
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
6 3 0.05
7 36 0.64
8 13 0.23
9 4 0.07
ACGTcount: A:0.42, C:0.35, G:0.03, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:30602320 original size:7 final size:7
Alignment explanation
Indices: 30602308--30602371 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
30602298 CCCATGGCCA
30602308 TTAAACC
1 TTAAACC
30602315 TTAAACC
1 TTAAACC
*
30602322 ATAAAACC
1 -TTAAACC
*
30602330 CTAAACC
1 TTAAACC
* *
30602337 ATAGACC
1 TTAAACC
30602344 TTAAACC
1 TTAAACC
**
30602351 TTAAATA
1 TTAAACC
30602358 TTAAACC
1 TTAAACC
*
30602365 CTAAACC
1 TTAAACC
30602372 AAAAAATAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:30602328 original size:15 final size:15
Alignment explanation
Indices: 30602305--30602355 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
30602295 AGACCCATGG
*
30602305 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
30602320 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
30602335 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
30602349 CCTTAAA
1 CCATAAA
30602356 TATTAAACCC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:30608232 original size:197 final size:196
Alignment explanation
Indices: 30607897--30608283 Score: 720
Period size: 197 Copynumber: 2.0 Consensus size: 196
30607887 TTTCAATATG
30607897 AAAATGGCACCAACTCCCTTATTGAACATAGTCACTGAAAACAAACTCAACGGAAACAACTGTAA
1 AAAATGGCACCAACTCCCTTATTGAACATAGTCACTGAAAACAAACTCAACGGAAACAACTGTAA
*
30607962 GGAATGGAAAAGGAACTTGATAATTGTCTTAAGTTGTGAGAAACTTAAAAATGTTCTTGATACTA
66 GGAATGGAAAAGGAAATTGATAATTGTCTTAAGTTGTGAGAAACTTAAAAATGTTCTTGATACTA
30608027 AGTGCCCTCCGACCACTCAAGTTAAGGCCAGAAAACGCTAGGAAGAGTTTGATGAGATAGCAACA
131 AGTGCCCT-CGACCACTCAAGTTAAGGCCAGAAAACGCTAGGAAGAGTTTGATGAGATAGCAACA
30608092 CA
195 CA
*
30608094 AAAATGGCACCAACTCCCTTATTGAACATAGTCACTGAAAACGAACTCAACGGAAACAACTGTAA
1 AAAATGGCACCAACTCCCTTATTGAACATAGTCACTGAAAACAAACTCAACGGAAACAACTGTAA
* * *
30608159 TGAATGGAAAAGGAAATTGATAATTGTCTTATGTTGTGAGAAACTTAAAATTGTTCTTGATACTA
66 GGAATGGAAAAGGAAATTGATAATTGTCTTAAGTTGTGAGAAACTTAAAAATGTTCTTGATACTA
30608224 AGTGCCCTCGACCACTCAAGTTAAGGCCAGAAAACGCTAGGAAGAGTTTGATGAGATAGC
131 AGTGCCCTCGACCACTCAAGTTAAGGCCAGAAAACGCTAGGAAGAGTTTGATGAGATAGC
30608284 TTGTTGCTAT
Statistics
Matches: 185, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
196 52 0.28
197 133 0.72
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (196 bp):
AAAATGGCACCAACTCCCTTATTGAACATAGTCACTGAAAACAAACTCAACGGAAACAACTGTAA
GGAATGGAAAAGGAAATTGATAATTGTCTTAAGTTGTGAGAAACTTAAAAATGTTCTTGATACTA
AGTGCCCTCGACCACTCAAGTTAAGGCCAGAAAACGCTAGGAAGAGTTTGATGAGATAGCAACAC
A
Found at i:30611455 original size:29 final size:29
Alignment explanation
Indices: 30611422--30611479 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
30611412 TTCCTGTAAC
30611422 TTCAAATCCAACAACAAACTTCAAATCTA
1 TTCAAATCCAACAACAAACTTCAAATCTA
30611451 TTCAAATCCAACAACAAACTTCAAATCTA
1 TTCAAATCCAACAACAAACTTCAAATCTA
30611480 AATGACAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (29 bp):
TTCAAATCCAACAACAAACTTCAAATCTA
Found at i:30612328 original size:28 final size:30
Alignment explanation
Indices: 30612276--30612335 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
30612266 TTTTACCCTT
* *
30612276 AATTGAGTCAAAACTAAAATTTTTAATTAA
1 AATTGAGTCAAAACTAAAATGTTTAAATAA
*
30612306 AATTGAGT-AAAA-TCAAATGTTTAAATAA
1 AATTGAGTCAAAACTAAAATGTTTAAATAA
30612334 AA
1 AA
30612336 GATAAGCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 15 0.56
29 4 0.15
30 8 0.30
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.33
Consensus pattern (30 bp):
AATTGAGTCAAAACTAAAATGTTTAAATAA
Found at i:30616823 original size:48 final size:48
Alignment explanation
Indices: 30616771--30616863 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
30616761 CGGTAGTGAC
* * *
30616771 ATGTGATGC-CATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGTT
1 ATGTGAT-CTCATGTAAGACCAGGTCCGGGACATGGCATTGGCATCGTT
*
30616819 ATGTGATCTTATGTAAGACCAGGTCCGGGACATGGCATTGGCATC
1 ATGTGATCTCATGTAAGACCAGGTCCGGGACATGGCATTGGCATC
30616864 ATAATGGGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.03
48 39 0.98
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (48 bp):
ATGTGATCTCATGTAAGACCAGGTCCGGGACATGGCATTGGCATCGTT
Found at i:30642330 original size:40 final size:40
Alignment explanation
Indices: 30642286--30642452 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
30642276 GGATTGATAC
* *
30642286 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
30642326 CCGGGCTAAG-CCCGAAGGCAGTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
30642365 CCGGGCTATGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
30642405 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
30642445 CC-GGCTAA
1 CCGGGCTAA
30642453 ACTCCGAAGG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 41 0.37
40 71 0.63
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:30642451 original size:79 final size:79
Alignment explanation
Indices: 30642286--30642452 Score: 214
Period size: 79 Copynumber: 2.1 Consensus size: 79
30642276 GGATTGATAC
* * *
30642286 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAGTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAGTTGA
30642351 GCGAGTTACTATAT
66 GCGAGTTACTATAT
* * * *
30642365 CCGGGCTATGTCCTGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCAGTT
*
30642429 GAGCTAG-TAGCTATAT
64 GAGCGAGTTA-CTATAT
30642445 CC-GGCTAA
1 CCGGGCTAA
30642453 ACTCCGAAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.64
80 25 0.33
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAGTTGA
GCGAGTTACTATAT
Found at i:30650419 original size:40 final size:40
Alignment explanation
Indices: 30650314--30650520 Score: 287
Period size: 40 Copynumber: 5.2 Consensus size: 40
30650304 GGATTGATAC
*
30650314 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-T
* * * *
30650354 TCGGACTAAG-CCCGAAGGCAGTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* *
30650393 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
30650433 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
30650473 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
30650513 CC-GGCTAA
1 CCGGGCTAA
30650521 ACTCCGAAGG
Statistics
Matches: 152, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 40 0.26
40 112 0.74
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:30650528 original size:119 final size:119
Alignment explanation
Indices: 30650314--30650530 Score: 298
Period size: 119 Copynumber: 1.8 Consensus size: 119
30650304 GGATTGATAC
** *
30650314 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGACTAAGCCCGAAGGCAGTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATACCGGACTAAGCCCGAAGGCAGTTGA
*
30650379 GCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
66 GCGAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
30650433 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-ACCGGACTAAG-CCCGAAGGCAGTT
*
30650497 GAGCTAG-TAGCTATATCC-GGCTAAACT-CCGAAGG
64 GAGCGAGTTA-CTATATCCGGGCT-AACTCCCGAAGG
30650531 TACTTGGTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
118 2 0.02
119 56 0.65
120 28 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATACCGGACTAAGCCCGAAGGCAGTTGA
GCGAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:30653881 original size:15 final size:15
Alignment explanation
Indices: 30653861--30653897 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
30653851 CTTACTTGCC
*
30653861 GTGTCATCTGGCCAT
1 GTGTCACCTGGCCAT
30653876 GTGTCACCTGGCCAT
1 GTGTCACCTGGCCAT
*
30653891 GTTTCAC
1 GTGTCAC
30653898 ACAAGGCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.30, G:0.24, T:0.32
Consensus pattern (15 bp):
GTGTCACCTGGCCAT
Found at i:30655492 original size:15 final size:16
Alignment explanation
Indices: 30655472--30655501 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30655462 CGAATGAATT
30655472 TAACTCA-ATTCAATA
1 TAACTCATATTCAATA
30655487 TAACTCATATTCAAT
1 TAACTCATATTCAAT
30655502 TTAGTCCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (16 bp):
TAACTCATATTCAATA
Found at i:30656997 original size:67 final size:68
Alignment explanation
Indices: 30656877--30657292 Score: 356
Period size: 67 Copynumber: 6.2 Consensus size: 68
30656867 AGCTATAGTT
* * * * * * *
30656877 TTACACATCATA-CCTCATGTTTAATGTCAT-GGAGGACTCTCCACGTT-TACATAGTCAAGAAA
1 TTACACATCATACCCT-ATGTTTAATGTCCTCGCA-GACTCTCTATGTTGT-CATAGCCGAGATA
30656939 T-GTTC
63 TGGTTC
* * * *
30656944 TTACACATCATACCCTATGTTTAATG-CCTTCGCAGACACTCTATGTTGTCATAGCCTAGCTATA
1 TTACACATCATACCCTATGTTTAATGTCC-TCGCAGACTCTCTATGTTGTCATAGCCGAGATATG
30657008 G-TC
65 GTTC
* * * * *
30657011 TTACACATCATATCGC-ATGTTTAATGTCCT-GACGGACTCTCTATATTGTCATCGCCGAAATAT
1 TTACACATCATA-CCCTATGTTTAATGTCCTCG-CAGACTCTCTATGTTGTCATAGCCGAGATAT
30657074 GGTT-
64 GGTTC
* * * ** * * *
30657078 TTACACATCATACCTTATGTTTGATGTCCTGGTGGACTCTCTATGTTGCCATAGCCGAGCTATCG
1 TTACACATCATACCCTATGTTTAATGTCCTCGCAGACTCTCTATGTTGTCATAGCCGAGATATGG
30657143 -TC
66 TTC
** * * *
30657145 TTACACATCATA-CCTCATGTTTAATGTCCTAACAGACTCTCTTTGTTGTCATAGACGAGCTATG
1 TTACACATCATACCCT-ATGTTTAATGTCCTCGCAGACTCTCTATGTTGTCATAGCCGAGATATG
30657209 GTT-
65 GTTC
* * * **
30657212 TTACACATCATACCCTATGTTTAATGTTCTGGCAAACTCTCTATGTT-TCCATAGTTGAGATATG
1 TTACACATCATACCCTATGTTTAATGTCCTCGCAGACTCTCTATGTTGT-CATAGCCGAGATATG
30657276 G-TC
65 GTTC
30657279 TTACACATCATACC
1 TTACACATCATACC
30657293 TCATTACAGC
Statistics
Matches: 286, Mismatches: 46, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
66 8 0.03
67 261 0.91
68 17 0.06
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (68 bp):
TTACACATCATACCCTATGTTTAATGTCCTCGCAGACTCTCTATGTTGTCATAGCCGAGATATGG
TTC
Found at i:30657082 original size:134 final size:134
Alignment explanation
Indices: 30656867--30657296 Score: 474
Period size: 134 Copynumber: 3.2 Consensus size: 134
30656857 ACTATAACCA
* * * *
30656867 AGCTATAGTTTTACACATCATACCTCATGTTTAATGTCATGGA-GGACTCTCCACGTT-TACATA
1 AGCTATAGTCTTACACATCATACCTCATGTTTAATGTCCT-GACGGACTCTCTATGTTGT-CATA
* *
30656930 GTC-AAGAAAT-GTTCTTACACATCATACCCTATGTTTAATG-CCTTCGCAGACACTCTATGTTG
64 GACGAA-ATATGGTT-TTACACATCATACCCTATGTTTAATGTCC-TCGCAGACACTCTATGTTG
* *
30656992 TCATAGCCT
126 CCATAGCCG
* * * * *
30657001 AGCTATAGTCTTACACATCATATCGCATGTTTAATGTCCTGACGGACTCTCTATATTGTCATCGC
1 AGCTATAGTCTTACACATCATACCTCATGTTTAATGTCCTGACGGACTCTCTATGTTGTCATAGA
* * * ** *
30657066 CGAAATATGGTTTTACACATCATACCTTATGTTTGATGTCCTGGTGGACTCTCTATGTTGCCATA
66 CGAAATATGGTTTTACACATCATACCCTATGTTTAATGTCCTCGCAGACACTCTATGTTGCCATA
30657131 GCCG
131 GCCG
* * * *
30657135 AGCTATCGTCTTACACATCATACCTCATGTTTAATGTCCTAACAGACTCTCTTTGTTGTCATAGA
1 AGCTATAGTCTTACACATCATACCTCATGTTTAATGTCCTGACGGACTCTCTATGTTGTCATAGA
** * * * * *
30657200 CGAGCTATGGTTTTACACATCATACCCTATGTTTAATGTTCTGGCAAACTCTCTATGTTTCCATA
66 CGAAATATGGTTTTACACATCATACCCTATGTTTAATGTCCTCGCAGACACTCTATGTTGCCATA
**
30657265 GTTG
131 GCCG
* *
30657269 AGATATGGTCTTACACATCATACCTCAT
1 AGCTATAGTCTTACACATCATACCTCAT
30657297 TACAGCCCAT
Statistics
Matches: 251, Mismatches: 40, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
133 2 0.01
134 241 0.96
135 8 0.03
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (134 bp):
AGCTATAGTCTTACACATCATACCTCATGTTTAATGTCCTGACGGACTCTCTATGTTGTCATAGA
CGAAATATGGTTTTACACATCATACCCTATGTTTAATGTCCTCGCAGACACTCTATGTTGCCATA
GCCG
Found at i:30657219 original size:201 final size:201
Alignment explanation
Indices: 30656874--30657296 Score: 487
Period size: 201 Copynumber: 2.1 Consensus size: 201
30656864 CCAAGCTATA
* *
30656874 GTTTTACACATCATACCTCATGTTTAATGTCATGGAGGACTCTCCACGTTTACATAGTCAAGAAA
1 GTTTTACACATCATACCTCATGTTTAATGTCATGGAGGACTCTCCACGTTGACATAGCCAAGAAA
** * *
30656939 TGTTCTTACACATCATACCCTATGTTTAATGCCTTCGCAGACACTCTATGTTGTCATAGCCTAGC
66 TGTTCTTACACATCATACCCTATGTTTAATGCCTTAACAGACACTCTATGTTGTCATAGACGAGC
* ** *
30657004 TATAGTCTTACACATCATATCGC-ATGTTTAATGTCCTGACGGACTCTCTATATTGT-CATCGCC
131 TATAGTCTTACACATCATA-CCCTATGTTTAATGTCCTGACAAACTCTCTATATT-TCCATAGCC
30657067 GAAATATG
194 GAAATATG
* * * * * * * * **
30657075 GTTTTACACATCATACCTTATGTTTGATGTCCTGGTGGACTCTCTATGTTGCCATAGCCGAGCTA
1 GTTTTACACATCATACCTCATGTTTAATGTCATGGAGGACTCTCCACGTTGACATAGCCAAGAAA
* *
30657140 TCG-TCTTACACATCATA-CCTCATGTTTAATGTCC-TAACAGACTCTCTTTGTTGTCATAGACG
66 T-GTTCTTACACATCATACCCT-ATGTTTAATG-CCTTAACAGACACTCTATGTTGTCATAGACG
* * * * * *
30657202 AGCTATGGTTTTACACATCATACCCTATGTTTAATGTTCTGGCAAACTCTCTATGTTTCCATAGT
128 AGCTATAGTCTTACACATCATACCCTATGTTTAATGTCCTGACAAACTCTCTATATTTCCATAGC
* *
30657267 TGAGATATG
193 CGAAATATG
*
30657276 GTCTTACACATCATACCTCAT
1 GTTTTACACATCATACCTCAT
30657297 TACAGCCCAT
Statistics
Matches: 185, Mismatches: 32, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
200 6 0.03
201 176 0.95
202 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (201 bp):
GTTTTACACATCATACCTCATGTTTAATGTCATGGAGGACTCTCCACGTTGACATAGCCAAGAAA
TGTTCTTACACATCATACCCTATGTTTAATGCCTTAACAGACACTCTATGTTGTCATAGACGAGC
TATAGTCTTACACATCATACCCTATGTTTAATGTCCTGACAAACTCTCTATATTTCCATAGCCGA
AATATG
Found at i:30675527 original size:19 final size:18
Alignment explanation
Indices: 30675497--30675545 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
30675487 AATAGTGAAA
*
30675497 AAAACAAT--AAAATAAT
1 AAAACAATAAAAAAAAAT
30675513 AACAA-AATAGAAAAAAAAT
1 AA-AACAATA-AAAAAAAAT
30675532 AAAACAATAAAAAA
1 AAAACAATAAAAAA
30675546 GTAGATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 5 0.19
17 2 0.07
18 7 0.26
19 13 0.48
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.12
Consensus pattern (18 bp):
AAAACAATAAAAAAAAAT
Found at i:30675533 original size:27 final size:28
Alignment explanation
Indices: 30675495--30675550 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
30675485 AAAATAGTGA
*
30675495 AAAAAACAATAAAATAATAACAAAA-TAG
1 AAAAAACAATAAAACAATAA-AAAAGTAG
30675523 AAAAAA-AATAAAACAATAAAAAAGTAG
1 AAAAAACAATAAAACAATAAAAAAGTAG
30675550 A
1 A
30675551 TTTTTGTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 16 0.62
28 6 0.23
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.12
Consensus pattern (28 bp):
AAAAAACAATAAAACAATAAAAAAGTAG
Found at i:30678804 original size:46 final size:46
Alignment explanation
Indices: 30678671--30678886 Score: 179
Period size: 46 Copynumber: 4.7 Consensus size: 46
30678661 CATAATCGTA
*
30678671 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACAC--CTCGTA-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACACGTCTCG-AGG
* * ** *
30678717 CTGATGCATGTCCCAGACATGTCTTATACTGGCTTATGTCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACACGTCTCGAGG
* * * * * *
30678763 CTGATGCATGTCCCAAACATGTCTTACACTCGCACTCGTCTCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCACACGTCTCGAGG
* * * * * * *
30678809 CCAATGCCATGTCCCAAATATGGTCTTACACTGGCTCACATAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACACGT-CTCGAGG
30678857 CCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
30678887 AGCTCATACA
Statistics
Matches: 135, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 61 0.45
47 25 0.19
48 21 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCACACGTCTCGAGG
Found at i:30678892 original size:46 final size:47
Alignment explanation
Indices: 30678619--30678892 Score: 149
Period size: 46 Copynumber: 5.8 Consensus size: 47
30678609 TCAGCTTCGA
* *
30678619 GGCCGATGCCATGTCCCAGACACAGTCTTACACTAACTCTCACATAATCGT
1 GGCCGATGCCATGTCCCAGACA-TGTCTTACACT-A-GCTCACATAAT-GT
* * * *
30678670 -ACCGATGCCATGTCCCAGACATGGTCTTACACT-GACACACCT--CGT
1 GGCCGATGCCATGTCCCAGACAT-GTCTTACACTAG-CTCACATAATGT
* * * * * ** * *
30678715 AGCTGATG-CATGTCCCAGACATGTCTTATACTGGCTTATGT-CTCGA
1 GGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCACATAAT-GT
* * * *
30678761 GGCTGATG-CATGTCCCAAACATGTCTTACACTCGCACTCGTC-TCAA--T
1 GGCCGATGCCATGTCCCAGACATGTCTTACACTAG--CTC-ACAT-AATGT
* * * *
30678808 -GCCAATGCCATGTCCCAAATATGGTCTTACACTGGCTCACATAATGT
1 GGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCACATAATGT
30678855 GGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCA
1 GGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCA
30678893 TACAAATGAC
Statistics
Matches: 173, Mismatches: 33, Indels: 39
0.71 0.13 0.16
Matches are distributed among these distances:
44 12 0.07
45 20 0.12
46 60 0.35
47 26 0.15
48 25 0.14
50 30 0.17
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
GGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCACATAATGT
Found at i:30679494 original size:35 final size:35
Alignment explanation
Indices: 30679448--30679519 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
30679438 GCTAACACCT
30679448 TTCACAAAAGTTGTTTATAAGACAACCAAGACTCA
1 TTCACAAAAGTTGTTTATAAGACAACCAAGACTCA
30679483 TTCACAAAAGTTGTTTATAAGACAACCAAGACTCA
1 TTCACAAAAGTTGTTTATAAGACAACCAAGACTCA
30679518 TT
1 TT
30679520 TTCTTCCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (35 bp):
TTCACAAAAGTTGTTTATAAGACAACCAAGACTCA
Found at i:30686451 original size:45 final size:46
Alignment explanation
Indices: 30686335--30686466 Score: 137
Period size: 50 Copynumber: 2.8 Consensus size: 46
30686325 CATGGGTAAA
*
30686335 GTGCCGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACT
1 GTGCCGATA-CATGTCCCAGACATGGTCTTACACTAG--CACACAT-ACT
*
30686385 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CT
1 GTGCCGAT-ACATGTCCCAGACATGGTCTTACACTAGCACACATACT
* *
30686429 CGTAGCCGATACATGTCACAGACAT-GTCTTATACTAGC
1 -GT-GCCGATACATGTCCCAGACATGGTCTTACACTAGC
30686467 TTATGTCCCG
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
44 11 0.15
45 16 0.22
46 11 0.15
49 1 0.01
50 33 0.46
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
GTGCCGATACATGTCCCAGACATGGTCTTACACTAGCACACATACT
Found at i:30688167 original size:27 final size:27
Alignment explanation
Indices: 30688100--30688168 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
30688090 ACCGTTTCTC
* * *
30688100 TCAGTGTTTTCCATATGCATTATTCTT
1 TCAGTGTTTACCATATGCACTATTCCT
** ** *
30688127 TCAAAGTTCGCCATATGTACTATTCCT
1 TCAGTGTTTACCATATGCACTATTCCT
30688154 TCAGTGTTTACCATA
1 TCAGTGTTTACCATA
30688169 CCTTCCAGTC
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (27 bp):
TCAGTGTTTACCATATGCACTATTCCT
Found at i:30688423 original size:27 final size:27
Alignment explanation
Indices: 30688362--30688423 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
30688352 CCACAAAATT
* *
30688362 TTCCATTCCATAGATTTCCAGAAAGGC
1 TTCCATTTCATAGATTTCCAAAAAGGC
*
30688389 TTCCATTTCATATATTTCCAAAAAGGC
1 TTCCATTTCATAGATTTCCAAAAAGGC
30688416 TTCCATTT
1 TTCCATTT
30688424 TTTTAGCACG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (27 bp):
TTCCATTTCATAGATTTCCAAAAAGGC
Found at i:30689984 original size:29 final size:28
Alignment explanation
Indices: 30689950--30690004 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
30689940 AGTTATACCA
*
30689950 ATTTGGCTTCGGGCCAAGCATATCAGTTG
1 ATTTGGCTTCAGGCCAAG-ATATCAGTTG
*
30689979 ATTTGGCTTCAGGCCATGATATCAGT
1 ATTTGGCTTCAGGCCAAGATATCAGT
30690005 ACTTTAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (28 bp):
ATTTGGCTTCAGGCCAAGATATCAGTTG
Found at i:30708760 original size:45 final size:45
Alignment explanation
Indices: 30708662--30708834 Score: 174
Period size: 45 Copynumber: 3.9 Consensus size: 45
30708652 TTTTCACAAA
* * * * * *
30708662 TCACCGGCATT-TCGCCTGCTAGGATC-GAGGCCCGATTA-TCATT
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
* *
30708705 TCATCAGCATTATAGCCTGCTAGGCTTGAAA-GCCCGAATAGTATC
1 TCACCAGCATTATAGCCTGCTAGGC-TCAAAGGCCCGAATAGTATC
* * * *
30708750 TCACCGGCATTATAGCCTACTAGGCCCAAAGGCCCGAATAGTGTC
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
30708795 TCACTAGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
30708835 TAATACCAGC
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
43 9 0.08
44 14 0.13
45 81 0.76
46 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:30708875 original size:38 final size:38
Alignment explanation
Indices: 30708827--30709035 Score: 310
Period size: 38 Copynumber: 5.5 Consensus size: 38
30708817 GGCTCAAAGG
* * *
30708827 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
30708865 CCCGGATATAATATCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
30708903 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
30708941 CCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
30708979 CCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
30709017 CTCGGATATAATTCCAGCA
1 CCCGGATATAATACCAGCA
30709036 TATTGCCTAC
Statistics
Matches: 158, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 158 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Done.