Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 192 of 378
Found at i:56613792 original size:20 final size:20
Alignment explanation
Indices: 56613767--56613822 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
56613757 TTATGAATAC
*
56613767 ATCATGTGCATATTATACAT
1 ATCATGTGCATATCATACAT
56613787 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
56613807 ATCATGTGCATATCAT
1 ATCATGTGCATATCAT
56613823 TTCAATATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:56613800 original size:11 final size:11
Alignment explanation
Indices: 56613767--56613822 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
56613757 TTATGAATAC
56613767 ATCATGTGCAT
1 ATCATGTGCAT
* *
56613778 AT--TATACAT
1 ATCATGTGCAT
56613787 ATCATGTGCAT
1 ATCATGTGCAT
*
56613798 ATCA--TACAT
1 ATCATGTGCAT
56613807 ATCATGTGCAT
1 ATCATGTGCAT
56613818 ATCAT
1 ATCAT
56613823 TTCAATATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:56613898 original size:25 final size:25
Alignment explanation
Indices: 56613870--56613917 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
56613860 ATAATTAAAC
* * *
56613870 CCTAAGGGTATAATGGTCATTTTTA
1 CCTAAGGGCAAAATAGTCATTTTTA
*
56613895 CCTAGGGGCAAAATAGTCATTTT
1 CCTAAGGGCAAAATAGTCATTTT
56613918 CATACTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (25 bp):
CCTAAGGGCAAAATAGTCATTTTTA
Found at i:56621863 original size:40 final size:40
Alignment explanation
Indices: 56621804--56621885 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
56621794 AATAGATGCA
*
56621804 AAACTTGAATTCTATAAGTTAAAGGTGTCTAATTGTTATG
1 AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
56621844 AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
1 AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
56621884 AA
1 AA
56621886 CTTTTAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (40 bp):
AAACTTGAATTCTACAAGTTAAAGGTGTCTAATTGTTATG
Found at i:56622084 original size:21 final size:21
Alignment explanation
Indices: 56622059--56622101 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
56622049 AGTCCCCCAT
56622059 AGTAGAAAATTTCAAGGGAAG
1 AGTAGAAAATTTCAAGGGAAG
56622080 AGTAGAAAATTTCAAGGGAAG
1 AGTAGAAAATTTCAAGGGAAG
56622101 A
1 A
56622102 CATAGCTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.28, T:0.19
Consensus pattern (21 bp):
AGTAGAAAATTTCAAGGGAAG
Found at i:56622372 original size:21 final size:22
Alignment explanation
Indices: 56622346--56622386 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
56622336 CTCTTAACAC
*
56622346 AGGGGT-ACACGCCCTTGTGGG
1 AGGGGTAACACGCCCGTGTGGG
56622367 AGGGGTAACACGCCCGTGTG
1 AGGGGTAACACGCCCGTGTG
56622387 ACATTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (22 bp):
AGGGGTAACACGCCCGTGTGGG
Found at i:56625442 original size:40 final size:40
Alignment explanation
Indices: 56625380--56625597 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
56625370 AAGCCAAGTA
* * *
56625380 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
56625419 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
56625459 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * *
56625499 CCTTCAGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
56625539 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
56625579 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56625598 TTATCATCCA
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.08
40 150 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:56631473 original size:40 final size:40
Alignment explanation
Indices: 56631365--56631614 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
56631355 CGGGATTTAA
* * * * *
56631365 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
56631405 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56631445 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56631485 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56631525 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56631565 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56631605 CCGGATATAT
1 CCGGATATAT
56631615 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:56639712 original size:28 final size:28
Alignment explanation
Indices: 56639651--56639748 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
56639641 TCACAAATTG
** * *
56639651 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
56639680 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
56639708 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
56639736 GCACTAAGTGTGC
1 GCACTAAGTGTGC
56639749 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:56641652 original size:17 final size:17
Alignment explanation
Indices: 56641630--56641663 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
56641620 GATGTAAAGG
56641630 AAGAGAAATAAA-AGAAA
1 AAGAG-AATAAACAGAAA
56641647 AAGAGAATAAACAGAAA
1 AAGAGAATAAACAGAAA
56641664 GATTGAGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.06
Consensus pattern (17 bp):
AAGAGAATAAACAGAAA
Found at i:56643651 original size:25 final size:25
Alignment explanation
Indices: 56643636--56643693 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
56643626 CTTTTCATTC
*
56643636 CCATATTCTCTGTTTCTTCTTGCTA
1 CCATATTCTATGTTTCTTCTTGCTA
*
56643661 CCATATTCTATGTTTCTTCTTACTA
1 CCATATTCTATGTTTCTTCTTGCTA
56643686 CCATATTC
1 CCATATTC
56643694 ACAGTTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.17, C:0.28, G:0.05, T:0.50
Consensus pattern (25 bp):
CCATATTCTATGTTTCTTCTTGCTA
Found at i:56643700 original size:25 final size:25
Alignment explanation
Indices: 56643636--56643700 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
56643626 CTTTTCATTC
* *
56643636 CCATATTCTCTGTTTCTTCTTGCTA
1 CCATATTCACTGTTTCTTCTTACTA
56643661 CCATATTCTA-TGTTTCTTCTTACTA
1 CCATATTC-ACTGTTTCTTCTTACTA
*
56643686 CCATATTCACAGTTT
1 CCATATTCACTGTTT
56643701 GTAAATGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.18, C:0.26, G:0.06, T:0.49
Consensus pattern (25 bp):
CCATATTCACTGTTTCTTCTTACTA
Found at i:56643780 original size:19 final size:19
Alignment explanation
Indices: 56643756--56643794 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
56643746 CGGTTCAACC
56643756 TTTGGTAGGCACCCAAATG
1 TTTGGTAGGCACCCAAATG
56643775 TTTGGTAGGCACCCAAATG
1 TTTGGTAGGCACCCAAATG
56643794 T
1 T
56643795 ATGTAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (19 bp):
TTTGGTAGGCACCCAAATG
Found at i:56645467 original size:2 final size:2
Alignment explanation
Indices: 56645460--56645484 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56645450 TATATGCATG
56645460 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
56645485 GCAATAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56645935 original size:39 final size:40
Alignment explanation
Indices: 56645892--56645989 Score: 108
Period size: 46 Copynumber: 2.3 Consensus size: 40
56645882 TATTGAATGC
*
56645892 ATACTTTCAATTTACTAA-AATAATAGATGAGTCCGAGAG
1 ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
**
56645931 ATACTTTCAATTTTTTACCAATCTTTCTAATAGATGAGTCCGAGAG
1 ATACTTTCAA---TTTACCAA---TAATAATAGATGAGTCCGAGAG
56645977 ATACTTTCAATTT
1 ATACTTTCAATTT
56645990 TTTACTAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
39 10 0.20
42 7 0.14
43 3 0.06
46 29 0.59
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (40 bp):
ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
Found at i:56646677 original size:21 final size:22
Alignment explanation
Indices: 56646628--56646680 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
56646618 AATTATTGAA
*
56646628 AATTTAAATTTATTTTATCATT
1 AATTTAAATTTATTTTATAATT
* *
56646650 AAATTAAATTTCTTTT-TAATT
1 AATTTAAATTTATTTTATAATT
*
56646671 ATTTTAAATT
1 AATTTAAATT
56646681 GTTTCAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTAAATTTATTTTATAATT
Found at i:56648297 original size:32 final size:32
Alignment explanation
Indices: 56648261--56648419 Score: 257
Period size: 32 Copynumber: 5.0 Consensus size: 32
56648251 TATAACTATG
56648261 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
56648293 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
56648325 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
56648357 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
56648389 CTAC-TTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
56648420 ATTTTTTATG
Statistics
Matches: 116, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
31 25 0.22
32 91 0.78
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:56648362 original size:64 final size:64
Alignment explanation
Indices: 56648261--56648419 Score: 284
Period size: 64 Copynumber: 2.5 Consensus size: 64
56648251 TATAACTATG
*
56648261 CTACTTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
* *
56648325 CTACTTTTTTATATGTGAACCTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
56648389 CTAC-TTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGAT
56648420 ATTTTTTATG
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
63 26 0.29
64 65 0.71
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.45
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
Found at i:56651918 original size:180 final size:180
Alignment explanation
Indices: 56651646--56651983 Score: 532
Period size: 180 Copynumber: 1.9 Consensus size: 180
56651636 TCCGAGAGCT
* * * *
56651646 GTACAATGAGATACATAATTTTTAGTGAAGAGAGGTCAGAACTGTCGGACAGTGAAACAGGGGTA
1 GTACAATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCGGACAATGAAACAGGAGTA
* * * *
56651711 CCTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAAATTTTTATGGTAAGAATA
66 CCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAGA
* * *
56651776 TATGTGAGTCTAGTTTCTGGGAAAATTAGTGGTTCTCAATTTGGAGTCTC
131 TATATGAGTCTAGTTTCAGAGAAAATTAGTGGTTCTCAATTTGGAGTCTC
* * * *
56651826 GTACCATGAAATAAATAGTTTTTAGTGAAGAGAGGTCGGAACTGTCGGACAATGAAATAGGAGTA
1 GTACAATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCGGACAATGAAACAGGAGTA
*
56651891 TCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAGA
66 CCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAGA
56651956 TATATGAGTCTAGTTTCAGAGAAAATTA
131 TATATGAGTCTAGTTTCAGAGAAAATTA
56651984 ACGAATCTTA
Statistics
Matches: 142, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
180 142 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (180 bp):
GTACAATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCGGACAATGAAACAGGAGTA
CCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAGA
TATATGAGTCTAGTTTCAGAGAAAATTAGTGGTTCTCAATTTGGAGTCTC
Found at i:56654798 original size:40 final size:40
Alignment explanation
Indices: 56654754--56654979 Score: 201
Period size: 40 Copynumber: 5.7 Consensus size: 40
56654744 GCTACTCGTT
* * *
56654754 CAAATACCTTCGGGACATAGCCCTG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATT-TAGTAACTCGCA
* *
56654794 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* * **
56654834 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTATCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAACTCGCA
* * *
56654874 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGAA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAACTCGCA
* * * ** *
56654914 GAATTGCCTTC-GGATCTTAGTACGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCGCA
*
56654955 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
56654980 CATCATTCGA
Statistics
Matches: 161, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 148 0.92
41 10 0.06
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
Found at i:56654876 original size:80 final size:81
Alignment explanation
Indices: 56654791--56654979 Score: 278
Period size: 80 Copynumber: 2.4 Consensus size: 81
56654781 ATAGTAGCTC
* *
56654791 GCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTC
1 GCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGAACAAATGCCTTCGGATCTTAGTA
56654856 CGGATTTAGTAAC-TA
66 CGGATTTAGTAACTTA
* * *
56654871 TCACAAATGCCTTC-GGATCTTAGT-CCGGATTTAGTAACTCGAAGAATTGCCTTCGGATCTTAG
1 GCACAAATGCCTTCGGGA-CTTA-TCCCGGATTTAGTAACTCGAACAAATGCCTTCGGATCTTAG
56654934 TACGGATTTAGTAACTTA
64 TACGGATTTAGTAACTTA
*
56654952 GCACAAA-GCCTTCGGGACTTAGCCCGGA
1 GCACAAATGCCTTCGGGACTTATCCCGGA
56654980 CATCATTCGA
Statistics
Matches: 97, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 3 0.03
80 82 0.85
81 12 0.12
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (81 bp):
GCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGAACAAATGCCTTCGGATCTTAGTA
CGGATTTAGTAACTTA
Found at i:56662852 original size:40 final size:41
Alignment explanation
Indices: 56662808--56663032 Score: 288
Period size: 40 Copynumber: 5.7 Consensus size: 41
56662798 GCTACTCGTT
* * *
56662808 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATT-TAGTAACTCGCA
*
56662848 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
56662888 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
56662928 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
* * *
56662968 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAAC-TCGCA
56663009 CAAA-GCCTTC-GGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCTTAGCCCGGA
56663033 CATTATTCGA
Statistics
Matches: 172, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 13 0.08
40 150 0.87
41 9 0.05
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:56666127 original size:15 final size:14
Alignment explanation
Indices: 56666107--56666151 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
56666097 TATGATATTG
56666107 TATCTTGGATTTCT
1 TATCTTGGATTTCT
*
56666121 CTATCTTGGACTTCT
1 -TATCTTGGATTTCT
*
56666136 TAATCCTGGATTTCT
1 T-ATCTTGGATTTCT
56666151 T
1 T
56666152 GTTATCTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 1 0.04
15 25 0.96
ACGTcount: A:0.16, C:0.20, G:0.13, T:0.51
Consensus pattern (14 bp):
TATCTTGGATTTCT
Found at i:56668683 original size:27 final size:27
Alignment explanation
Indices: 56668653--56668706 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
56668643 CTACATGTAT
*
56668653 CAGATGGATAAGTCACGTGTGTAGTAC
1 CAGATGGATAAGTCACATGTGTAGTAC
* *
56668680 CAGATTGATAGGTCACATGTGTAGTAC
1 CAGATGGATAAGTCACATGTGTAGTAC
56668707 TAAATGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
CAGATGGATAAGTCACATGTGTAGTAC
Found at i:56669593 original size:180 final size:181
Alignment explanation
Indices: 56669291--56669619 Score: 561
Period size: 180 Copynumber: 1.8 Consensus size: 181
56669281 ATCTGAGAGC
* * * *
56669291 TGTACCATGAGATAAATAATTTTTAGTGAATAGAGGTCGGAACTGTCGAACAGTGAAATAGGGGT
1 TGTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCGAAACTGTCGAACAGTGAAATAAGGGT
* *
56669356 ATCTTTAATGAATAAACTGTACTAATTGGCTAAAATAAAAATTATAAAATTTTTATGGTAAGAAT
66 ATCTTTAATGAATAAACTGTACTAATTGGCTAAAACAAAAATTATAAAAATTTTATGGTAAGAAT
56669421 ATATATGAGTATA-TTTTATGGTAAAATTAGTGGTTCTCAATTTGGAGTTT
131 ATATATGAGTATAGTTTTATGGTAAAATTAGTGGTTCTCAATTTGGAGTTT
*
56669471 TGTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCGAAACTGTCGGACAGTGAAATAAGGGT
1 TGTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCGAAACTGTCGAACAGTGAAATAAGGGT
* *
56669536 ATCTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAGAAT
66 ATCTTTAATGAATAAACTGTACTAATTGGCTAAAACAAAAATTATAAAAATTTTATGGTAAGAAT
*
56669601 ATATATGAGTCTAGTTTTA
131 ATATATGAGTATAGTTTTA
56669620 GAAAAAAATA
Statistics
Matches: 138, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
180 133 0.96
181 5 0.04
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (181 bp):
TGTACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCGAAACTGTCGAACAGTGAAATAAGGGT
ATCTTTAATGAATAAACTGTACTAATTGGCTAAAACAAAAATTATAAAAATTTTATGGTAAGAAT
ATATATGAGTATAGTTTTATGGTAAAATTAGTGGTTCTCAATTTGGAGTTT
Found at i:56671989 original size:38 final size:39
Alignment explanation
Indices: 56671876--56672018 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
56671866 CCGCACAAAG
*
56671876 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
56671916 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
56671955 GCCTTCGGGCTTAG-CCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
56671993 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
56672019 TCGAACATTC
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
38 34 0.37
39 50 0.54
40 9 0.10
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:56671997 original size:77 final size:79
Alignment explanation
Indices: 56671836--56672017 Score: 260
Period size: 77 Copynumber: 2.3 Consensus size: 79
56671826 TCGTTCAAAC
* * **
56671836 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
56671901 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
56671916 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTT-AGCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
56671979 CAATTTGCACAATT
66 CAATTTGCACAATT
56671993 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
56672018 CTCGAACATT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
77 49 0.53
78 3 0.03
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:56678226 original size:24 final size:21
Alignment explanation
Indices: 56678199--56678244 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
56678189 GAACTTTAAT
56678199 ATCTCTCGGTATACTGTTCATATG
1 ATCTCTC-GT-TACT-TTCATATG
*
56678223 ATCTTTCGTTACTTTCATATG
1 ATCTCTCGTTACTTTCATATG
56678244 A
1 A
56678245 AAATAGACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 2 0.10
24 6 0.29
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.46
Consensus pattern (21 bp):
ATCTCTCGTTACTTTCATATG
Found at i:56679255 original size:38 final size:39
Alignment explanation
Indices: 56679142--56679284 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
56679132 CCGCACAAAG
*
56679142 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
56679182 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
56679221 GCCTTCGGGCTTAG-CCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
56679259 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
56679285 TCGAACATTC
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
38 34 0.37
39 50 0.54
40 9 0.10
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:56679263 original size:77 final size:79
Alignment explanation
Indices: 56679102--56679283 Score: 260
Period size: 77 Copynumber: 2.3 Consensus size: 79
56679092 TCGTTCAAAC
* * **
56679102 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
56679167 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
56679182 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTT-AGCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
56679245 CAATTTGCACAATT
66 CAATTTGCACAATT
56679259 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
56679284 CTCGAACATT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
77 49 0.53
78 3 0.03
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:56685360 original size:28 final size:28
Alignment explanation
Indices: 56685299--56685396 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
56685289 TCACAAATTG
** * *
56685299 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
56685328 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
56685356 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
56685384 GCACTAAGTGTGC
1 GCACTAAGTGTGC
56685397 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:56688646 original size:11 final size:11
Alignment explanation
Indices: 56688630--56688668 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
56688620 CTATGAACTT
56688630 ATTCGACCATG
1 ATTCGACCATG
56688641 ATTCGACCATG
1 ATTCGACCATG
**
56688652 ATTCGAAAATG
1 ATTCGACCATG
56688663 ATTCGA
1 ATTCGA
56688669 TAGTGATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (11 bp):
ATTCGACCATG
Found at i:56688663 original size:22 final size:21
Alignment explanation
Indices: 56688638--56688689 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
56688628 TTATTCGACC
56688638 ATGATTCGACCA-TGATTCGAAA
1 ATGATTCGA-CAGTGATTCG-AA
* *
56688660 ATGATTCGATAGTGATTTGAA
1 ATGATTCGACAGTGATTCGAA
56688681 ATGATTCGA
1 ATGATTCGA
56688690 GTACAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (21 bp):
ATGATTCGACAGTGATTCGAA
Found at i:56688675 original size:11 final size:10
Alignment explanation
Indices: 56688638--56688689 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
56688628 TTATTCGACC
*
56688638 ATGATTCGACC
1 ATGATTCGA-A
56688649 ATGATTCGAAA
1 ATGATTCG-AA
56688660 ATGATTCGATA
1 ATGATTCGA-A
* *
56688671 GTGATTTGAA
1 ATGATTCGAA
56688681 ATGATTCGA
1 ATGATTCGA
56688690 GTACAATTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
10 9 0.26
11 24 0.71
12 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (10 bp):
ATGATTCGAA
Found at i:56703937 original size:30 final size:30
Alignment explanation
Indices: 56703901--56703962 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
56703891 TTGAAGTGTT
56703901 TTTCGAAAACCATGTTTCCATTAAAAACCC
1 TTTCGAAAACCATGTTTCCATTAAAAACCC
56703931 TTTCGAAAACCATGTTTCCATTAAAAACCC
1 TTTCGAAAACCATGTTTCCATTAAAAACCC
56703961 TT
1 TT
56703963 CTTAATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (30 bp):
TTTCGAAAACCATGTTTCCATTAAAAACCC
Found at i:56704541 original size:6 final size:6
Alignment explanation
Indices: 56704511--56704647 Score: 102
Period size: 6 Copynumber: 22.3 Consensus size: 6
56704501 AAGAAACATT
* *
56704511 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
56704558 GTGACAGA ATCAGA ATCAGA ATCAAA ATCAGA ATTAG- TTGACAGA ATTAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
56704609 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
56704648 GTGAATGCAA
Statistics
Matches: 102, Mismatches: 18, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
5 5 0.05
6 85 0.83
7 9 0.09
8 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:56704570 original size:31 final size:31
Alignment explanation
Indices: 56704532--56704647 Score: 133
Period size: 31 Copynumber: 3.5 Consensus size: 31
56704522 AATCAAAATG
56704532 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
*
56704563 AGAATCAGAATCAGAATCAAAATCAGAATTAGTTGAC
1 AGAATCAGAATCAGAATCAGAATCAG-----G-TGAC
* * *
56704600 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
*
56704631 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
56704648 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
31 43 0.60
32 1 0.01
36 1 0.01
37 27 0.38
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:56704575 original size:37 final size:37
Alignment explanation
Indices: 56704532--56704625 Score: 143
Period size: 37 Copynumber: 2.5 Consensus size: 37
56704522 AATCAAAATG
56704532 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
* * * *
56704569 AGAATCAGAATCAAAATCAGAATTAGTTGACAGAATT
1 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
*
56704606 AGAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAG
56704626 GTAACAGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:56704647 original size:37 final size:36
Alignment explanation
Indices: 56704534--56704647 Score: 130
Period size: 37 Copynumber: 3.2 Consensus size: 36
56704524 TCAAAATGAG
56704534 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCA
1 AATCAGAATCAGAATCAGAATCAGGTGACAGAATCA
* * *
56704570 GAATCAGAATCAAAATCAGAATTAGTTGACAGAAT--
1 -AATCAGAATCAGAATCAGAATCAGGTGACAGAATCA
* *
56704605 --T-AGAATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTGACAGAATC-A
56704639 AATCAGAAT
1 AATCAGAAT
56704648 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
31 25 0.40
32 1 0.02
36 1 0.02
37 36 0.57
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (36 bp):
AATCAGAATCAGAATCAGAATCAGGTGACAGAATCA
Found at i:56704814 original size:27 final size:26
Alignment explanation
Indices: 56704766--56704825 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
56704756 GCGAGGCTAC
*
56704766 CAGATATTGTGACGAAGTCACCAAAGA
1 CAGATATTGTGACGAAGCCACCAAA-A
* * * *
56704793 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAAAA
56704819 CAGATAT
1 CAGATAT
56704826 ATATATACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:56705185 original size:27 final size:27
Alignment explanation
Indices: 56705155--56705411 Score: 316
Period size: 27 Copynumber: 9.5 Consensus size: 27
56705145 AACACCTTAG
56705155 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * *
56705182 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * * *
56705209 GGGTAAAATAGTAATTTTGTAAGTCAA
1 GGGTAAAATGGTAATTTTATAAATCGA
*
56705236 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * *
56705263 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
56705290 GGGTAAAATGGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATTTTATAAATCGA
** *
56705317 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * *
56705344 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
56705371 GGGTAAAACGATAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
*
56705398 GGGTAAAATTGTAA
1 GGGTAAAATGGTAA
56705412 ATCGAGGGTA
Statistics
Matches: 203, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 203 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTATAAATCGA
Found at i:56705223 original size:54 final size:54
Alignment explanation
Indices: 56705155--56705502 Score: 390
Period size: 54 Copynumber: 6.6 Consensus size: 54
56705145 AACACCTTAG
* *
56705155 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGA
* * * * * *
56705209 GGGTAAAATAGTAATTTTGTAAGTCAAGGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGA
* * * *
56705263 GGATAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATTGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGA
* * *
56705317 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGA
* *
56705371 GGGTAAAA-CGATAATTTTATAAATCGAGGGT--AA----AA-T-TGTAAATCGA
1 GGGTAAAATAG-TAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGA
* * **
56705417 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGA
** * * *
56705471 GGGTAATTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTA
56705503 TTTCAGTAAT
Statistics
Matches: 252, Mismatches: 32, Indels: 20
0.83 0.11 0.07
Matches are distributed among these distances:
46 36 0.14
47 2 0.01
48 4 0.02
52 4 0.02
53 2 0.01
54 204 0.81
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (54 bp):
GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGA
Found at i:56705290 original size:81 final size:81
Alignment explanation
Indices: 56705155--56705502 Score: 383
Period size: 81 Copynumber: 4.4 Consensus size: 81
56705145 AACACCTTAG
*
56705155 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
* * * *
56705220 TAATTTTGTAAGTCAA
66 TAATTCTATAAATCGA
* * * * *
56705236 GGGTAAAATGGTAATTTTGTAAATCGAGGATAAAATAGTAATTTTGTAAATCGAGGGTAAAATGG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
*
56705301 TAATTCTATAAATTGA
66 TAATTCTATAAATCGA
** * * *
56705317 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAC-GATAATTCTATAAATCGAGGGTAAAA-C
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAATA
*
56705380 GATAATTTTATAAATCGA
65 G-TAATTCTATAAATCGA
* * * *
56705398 GGGT--AA----AA--TTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAA
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
56705455 TAATTCTATAAATCGA
66 TAATTCTATAAATCGA
** * *
56705471 GGGTAATTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTA
56705503 TTTCAGTAAT
Statistics
Matches: 221, Mismatches: 34, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
73 59 0.27
74 1 0.00
75 2 0.01
79 4 0.02
80 2 0.01
81 153 0.69
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (81 bp):
GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
TAATTCTATAAATCGA
Found at i:56705430 original size:19 final size:19
Alignment explanation
Indices: 56705390--56705430 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
56705380 GATAATTTTA
**
56705390 TAAATCGAGGGTAAAATTG
1 TAAATCGAGGGTAAAACAG
56705409 TAAATCGAGGGTAAAACAG
1 TAAATCGAGGGTAAAACAG
56705428 TAA
1 TAA
56705431 TTTTGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.22
Consensus pattern (19 bp):
TAAATCGAGGGTAAAACAG
Found at i:56705430 original size:27 final size:27
Alignment explanation
Indices: 56705400--56705476 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
56705390 TAAATCGAGG
*
56705400 GTAAAATTGTAAATCGAGGGTAAAACA
1 GTAAATTTGTAAATCGAGGGTAAAACA
*
56705427 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAAATTTGTAAATCGAGGGTAAAACA
* *
56705454 AT-AATTCTATAAATCGAGGGTAA
1 GTAAATT-TGTAAATCGAGGGTAA
56705477 TTTGGTAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (27 bp):
GTAAATTTGTAAATCGAGGGTAAAACA
Found at i:56705432 original size:46 final size:46
Alignment explanation
Indices: 56705363--56705451 Score: 153
Period size: 46 Copynumber: 1.9 Consensus size: 46
56705353 GATAATTCTA
56705363 TAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATTG
1 TAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATTG
*
56705409 TAAATCGAGGGTAAAAC-AGTAATTTTGTAAATCGAGGGTAAAA
1 TAAATCGAGGGTAAAACGA-TAATTTTATAAATCGAGGGTAAAA
56705452 CAATAATTCT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 1 0.02
46 40 0.98
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (46 bp):
TAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATTG
Found at i:56705432 original size:73 final size:73
Alignment explanation
Indices: 56705336--56705476 Score: 230
Period size: 73 Copynumber: 1.9 Consensus size: 73
56705326 AGTAATTCTA
* *
56705336 TAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGG
1 TAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGG
56705401 TAAAATTG
66 TAAAATTG
* *
56705409 TAAATCGAGGGTAAAAC-AGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGAGG
1 TAAATCGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGG
56705473 GTAA
65 GTAA
56705477 TTTGGTAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
72 1 0.02
73 62 0.98
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.27
Consensus pattern (73 bp):
TAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGG
TAAAATTG
Found at i:56705485 original size:27 final size:27
Alignment explanation
Indices: 56705455--56705648 Score: 169
Period size: 27 Copynumber: 7.2 Consensus size: 27
56705445 GGTAAAACAA
* * *
56705455 TAATTCTATAAATCGAGGGTAATTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
* **
56705482 TAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTTGG
** * * *
56705509 TAATTTTACAGGTGGAGGGTGTTTTAG
1 TAATTTTACAAATCGAGGGTATTTTGG
* *
56705536 TAATTTCAAAAATC-AGAGGTATTTTGG
1 TAATTTTACAAATCGAG-GGTATTTTGG
*
56705563 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTTGG
*
56705590 TAATTTTACAAA-CCAGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTTGG
* * * *
56705617 TAATTTTATAAACCAATGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTTGG
56705644 TAATT
1 TAATT
56705649 CTACCCTACA
Statistics
Matches: 140, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.02
27 134 0.96
28 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTTGG
Found at i:56705486 original size:100 final size:100
Alignment explanation
Indices: 56705309--56705502 Score: 298
Period size: 100 Copynumber: 1.9 Consensus size: 100
56705299 GGTAATTCTA
* *
56705309 TAAATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGG
*
56705374 TAAAACGATAATTTTATAAATCGAGGGTAAAATTG
66 TAAAACGATAATTTTACAAATCGAGGGTAAAATTG
* *
56705409 TAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGG
*** * *
56705474 TAATTTGGTAATTTTACAAGTCGAGGGTA
66 TAAAACGATAATTTTACAAATCGAGGGTA
56705503 TTTCAGTAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (100 bp):
TAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGG
TAAAACGATAATTTTACAAATCGAGGGTAAAATTG
Found at i:56705528 original size:127 final size:127
Alignment explanation
Indices: 56705155--56705476 Score: 331
Period size: 135 Copynumber: 2.5 Consensus size: 127
56705145 AACACCTTAG
** * ** * *
56705155 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-TA
1 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAACGA
* ** * * * * ** *
56705219 GTAATTTTGTAAGTCAAGGGTAAAATGGTAATTTTGTAAATCGAGGATAAAATAGTAATTTTGTA
66 -TAATTCTACAAATCGAGGGTAAAACGATAATTTTACAAATCGAGGGT---A-A--AA--TTGTA
56705284 AATCGA
122 AATCGA
** * *
56705290 GGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGA
1 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAACGA
* *
56705355 TAATTCTATAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATTGTAAATCGA
66 TAATTCTACAAATCGAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAATTGTAAATCGA
* *
56705417 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAA
1 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAA
56705477 TTTGGTAATT
Statistics
Matches: 167, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
127 65 0.39
129 2 0.01
131 1 0.01
132 1 0.01
135 97 0.58
136 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.30
Consensus pattern (127 bp):
GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAACGA
TAATTCTACAAATCGAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAATTGTAAATCGA
Found at i:56705667 original size:27 final size:27
Alignment explanation
Indices: 56705643--56705712 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
56705633 TGGTATTTTG
56705643 GTAATTCTACCCTACAAGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
*
56705670 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
* *
56705697 GTAATGCTAGCCTACA
1 GTAATTCTACCCTACA
56705713 GATATGAGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTTCA
Found at i:56707513 original size:46 final size:45
Alignment explanation
Indices: 56707463--56707633 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 45
56707453 TGGTTGAGCA
*
56707463 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATGCAAACG
* * * *
56707509 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGCAA--A--CG
*
56707556 TCCGAACTCGTTGAGTTGAGTCCGAGTT-CTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGCAAACG
* *
56707600 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTA
56707634 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 27 0.26
45 3 0.03
46 36 0.34
47 28 0.27
48 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGCAAACG
Found at i:56707626 original size:91 final size:92
Alignment explanation
Indices: 56707460--56707628 Score: 286
Period size: 91 Copynumber: 1.8 Consensus size: 92
56707450 GGATGGTTGA
* *
56707460 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT-ACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56707525 TGAGTCCGAGTTCGTGAGATGTAACTAG
65 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
56707553 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT-CTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
56707617 GAGTCCGAGTTC
66 GAGTCCGAGTTC
56707629 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 41 0.57
93 31 0.43
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56715062 original size:46 final size:46
Alignment explanation
Indices: 56715012--56715184 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
56715002 TGGTTGAGCA
*
56715012 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
56715058 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
56715105 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
56715151 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56715185 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56715168 original size:93 final size:93
Alignment explanation
Indices: 56715009--56715179 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
56714999 GGATGGTTGA
* *
56715009 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56715074 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
56715102 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56715167 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56715180 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56723165 original size:40 final size:39
Alignment explanation
Indices: 56723105--56723292 Score: 184
Period size: 40 Copynumber: 4.7 Consensus size: 39
56723095 TATTCGAATG
56723105 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGC-AAGTGACT
* * *
56723145 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGTGACT
* * *
56723185 A-ATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACT
* * * *
56723224 AAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGCT-ACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCAAG-TGACT
* *
56723264 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGT-CCGAAGGCATTTG
56723293 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 84 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACT
Found at i:56723244 original size:79 final size:81
Alignment explanation
Indices: 56723105--56723292 Score: 242
Period size: 79 Copynumber: 2.4 Consensus size: 81
56723095 TATTCGAATG
*
56723105 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGC
* *
56723169 ATTTGTGCGAGTTACT
66 ATTTATGCGAGCTACT
* * **
56723185 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAG
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAG
56723246 GCATTTATGCGAGCTACT
64 GCATTTATGCGAGCTACT
* *
56723264 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
56723293 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 1 0.01
79 59 0.63
80 34 0.36
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGC
ATTTATGCGAGCTACT
Found at i:56723314 original size:79 final size:78
Alignment explanation
Indices: 56723109--56723325 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
56723099 CGAATGATAT
* *
56723109 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
* * *
56723172 TGTGCGAGTTACTAATT
62 TATGCGAGCTACTAATA
*
56723189 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
56723252 ATGCGAGCTACT-ATAA
63 ATGCGAGCTACTAAT-A
* ** *
56723268 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
56723326 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 66 0.56
80 48 0.41
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTATG
CGAGCTACTAATA
Found at i:56725805 original size:53 final size:53
Alignment explanation
Indices: 56725628--56725834 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 53
56725618 ATTAGTGTTT
* * * * * *
56725628 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTAGTAAGTTCTTCAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAT-AAGGC
* * * * * *
56725682 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* ** * * *
56725737 AAAGATCCCATGTAAGACCATGCCAAGGCATCGCAATGGTGAGTTCATAAGGC
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
56725790 AAGGAAACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
56725835 TAAAAAGGAA
Statistics
Matches: 121, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 44 0.36
54 36 0.30
55 40 0.33
56 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGAAACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:56728317 original size:21 final size:21
Alignment explanation
Indices: 56728292--56728334 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
56728282 CCATGATTCG
56728292 GAAATGATTTGAC-AGTGATTT
1 GAAATGATTTGACTAG-GATTT
56728313 GAAATGATTTGACTAGGATTT
1 GAAATGATTTGACTAGGATTT
56728334 G
1 G
56728335 GTATTGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (21 bp):
GAAATGATTTGACTAGGATTT
Found at i:56731537 original size:26 final size:26
Alignment explanation
Indices: 56731508--56731615 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
56731498 TGATACAAAT
56731508 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56731534 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56731560 TGATAATGGGCTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56731586 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56731612 TGAT
1 TGAT
56731616 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56738228 original size:49 final size:50
Alignment explanation
Indices: 56738174--56738270 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 50
56738164 TGATACAAAT
56738174 TGATAATGGGTTAGGTAAATGTTCCATGATAATGG-TAGGTAAATGTTTA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTA
56738223 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTT
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTT
56738271 CCATGATGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 35 0.74
50 12 0.26
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (50 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTA
Found at i:56738243 original size:25 final size:25
Alignment explanation
Indices: 56738174--56738277 Score: 167
Period size: 25 Copynumber: 4.2 Consensus size: 25
56738164 TGATACAAAT
56738174 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
56738200 TGATAATGG-TAGGTAAATGTT-TA
1 TGATAATGGTTAGGTAAATGTTCCA
56738223 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
56738249 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
56738274 TGAT
1 TGAT
56738278 GGAATTTCAT
Statistics
Matches: 73, Mismatches: 2, Indels: 7
0.89 0.02 0.09
Matches are distributed among these distances:
23 8 0.11
24 14 0.19
25 36 0.49
26 15 0.21
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:56741791 original size:17 final size:16
Alignment explanation
Indices: 56741771--56741814 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
56741761 TTAAATAATA
*
56741771 TAATTTTATTTTAAAAT
1 TAATTTTATTGT-AAAT
*
56741788 TAATTATTAATGTAAAT
1 TAATT-TTATTGTAAAT
56741805 TAATTTTATT
1 TAATTTTATT
56741815 CAAGTTGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 14 0.61
18 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TAATTTTATTGTAAAT
Found at i:56741798 original size:29 final size:30
Alignment explanation
Indices: 56741744--56741812 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
56741734 AATTTTATTT
* *
56741744 ATTTATTTTTAAATTTATTAAATAATATAA
1 ATTTATTTTAAAATTAATTAAATAATATAA
* * *
56741774 TTTTATTTTAAAATTAATT-ATTAATGTAA
1 ATTTATTTTAAAATTAATTAAATAATATAA
*
56741803 ATTAATTTTA
1 ATTTATTTTA
56741813 TTCAAGTTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (30 bp):
ATTTATTTTAAAATTAATTAAATAATATAA
Found at i:56742616 original size:18 final size:18
Alignment explanation
Indices: 56742593--56742628 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
56742583 AATTAATATT
*
56742593 TTAATTAAACTAATTAAA
1 TTAATTAAACTAACTAAA
*
56742611 TTAATTAACCTAACTAAA
1 TTAATTAAACTAACTAAA
56742629 CCTAATGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAATTAAACTAACTAAA
Found at i:56751841 original size:47 final size:46
Alignment explanation
Indices: 56751767--56751935 Score: 157
Period size: 47 Copynumber: 3.6 Consensus size: 46
56751757 AAACTTAACA
* *
56751767 GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCAAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTAACATCATC-AGGCC
* *
56751814 GATGCATGTCCCAAACATGTCTGACACTGGC--AC-TCACCTCTATGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTAACATCA--TC-AGGCC
* * * * *
56751860 GATGACATGTCCCAAACGTGGTCTTACACGGGCTATCATGATGC-GGCT
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTAACATCAT-CAGGCC
*
56751908 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAAACATGTCTTACACT
56751936 AGCCCTCGTC
Statistics
Matches: 99, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 19 0.19
47 53 0.54
48 17 0.17
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTAACATCATCAGGCC
Found at i:56754918 original size:9 final size:9
Alignment explanation
Indices: 56754900--56754958 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
56754890 TTTATACAAA
*
56754900 TAATTTGGT
1 TAATTCGGT
56754909 TAATTCGGT
1 TAATTCGGT
* *
56754918 TAATTTGGG
1 TAATTCGGT
56754927 TAATTCGGT
1 TAATTCGGT
*
56754936 TAATTCGAT
1 TAATTCGGT
*
56754945 TAATTCAGT
1 TAATTCGGT
56754954 TAATT
1 TAATT
56754959 TTATACTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.27, C:0.07, G:0.19, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:56754923 original size:18 final size:18
Alignment explanation
Indices: 56754900--56754959 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
56754890 TTTATACAAA
56754900 TAATTTGGTTAATTCGGT
1 TAATTTGGTTAATTCGGT
*
56754918 TAATTTGGGTAATTCGGT
1 TAATTTGGTTAATTCGGT
* * *
56754936 TAATTCGATTAATTCAGT
1 TAATTTGGTTAATTCGGT
56754954 TAATTT
1 TAATTT
56754960 TATACTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (18 bp):
TAATTTGGTTAATTCGGT
Found at i:56761567 original size:25 final size:25
Alignment explanation
Indices: 56761538--56761585 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56761528 TTATAATATG
* * *
56761538 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
56761563 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
56761586 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:56761654 original size:20 final size:20
Alignment explanation
Indices: 56761629--56761687 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
56761619 TAAATATGGT
56761629 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
56761649 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
56761669 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
56761688 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:56761669 original size:11 final size:11
Alignment explanation
Indices: 56761633--56761687 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
56761623 TATGGTATGT
56761633 ATGATATGCAC
1 ATGATATGCAC
* *
56761644 ATGAAATG--T
1 ATGATATGCAC
56761653 ATGATATGCAC
1 ATGATATGCAC
*
56761664 ATGATATG--T
1 ATGATATGCAC
56761673 ATGATATGCAC
1 ATGATATGCAC
56761684 ATGA
1 ATGA
56761688 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:56761765 original size:24 final size:24
Alignment explanation
Indices: 56761738--56761856 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
56761728 GAGGAAGTGA
*
56761738 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
56761762 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
56761785 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
56761809 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
56761833 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56761857 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:56761807 original size:47 final size:48
Alignment explanation
Indices: 56761738--56761856 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
56761728 GAGGAAGTGA
56761738 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
56761785 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
56761833 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56761857 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:56762083 original size:31 final size:31
Alignment explanation
Indices: 56762048--56762111 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
56762038 CGTTTACAGT
56762048 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
56762079 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
56762110 AA
1 AA
56762112 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:56769670 original size:25 final size:25
Alignment explanation
Indices: 56769641--56769688 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56769631 TTATAATATG
* * *
56769641 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
56769666 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
56769689 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:56769757 original size:20 final size:20
Alignment explanation
Indices: 56769732--56769790 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
56769722 TAAATATGGT
56769732 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
56769752 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
56769772 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
56769791 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:56769772 original size:11 final size:11
Alignment explanation
Indices: 56769736--56769790 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
56769726 TATGGTATGT
56769736 ATGATATGCAC
1 ATGATATGCAC
* *
56769747 ATGAAATG--T
1 ATGATATGCAC
56769756 ATGATATGCAC
1 ATGATATGCAC
*
56769767 ATGATATG--T
1 ATGATATGCAC
56769776 ATGATATGCAC
1 ATGATATGCAC
56769787 ATGA
1 ATGA
56769791 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:56769868 original size:24 final size:24
Alignment explanation
Indices: 56769841--56769959 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
56769831 GAGGAAGTGA
*
56769841 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
56769865 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
56769888 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
56769912 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
56769936 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56769960 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:56769910 original size:47 final size:48
Alignment explanation
Indices: 56769841--56769959 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
56769831 GAGGAAGTGA
56769841 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
56769888 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
56769936 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56769960 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:56770185 original size:31 final size:31
Alignment explanation
Indices: 56770150--56770213 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
56770140 CGTTTACAGT
56770150 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* ** *
56770181 AAAGGCTTCGGTCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
56770212 AA
1 AA
56770214 CATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:56774375 original size:154 final size:155
Alignment explanation
Indices: 56774096--56774826 Score: 1334
Period size: 154 Copynumber: 4.7 Consensus size: 155
56774086 CACTTCTGGT
*
56774096 TTATTT-ATTTTATATTTAATTTTTAGTTT-AAAAATGTGTGGAATAAAGGGTCATTTCGACCTA
1 TTATTTAATTTTGT-TTTAATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTA
56774159 AGTACTAATCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCGAATT
65 AGTACTAATCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCGAATT
56774224 TTC-ATTTATTTTATTCTAATTGCTA
130 TTCTATTTATTTTATTCTAATTGCTA
56774249 TTATTTAATTTTGTTTTAATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTAA
1 TTATTTAATTTTGTTTTAATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTAA
56774314 GTACTAATCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCGAA-TT
66 GTACTAATCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCGAATTT
*
56774378 TCCATTTATTTTATTCTAATTGCTA
131 TCTATTTATTTTATTCTAATTGCTA
56774403 TTATTTAATTTTGTTTTAATTTTTAGTTTAAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTA
1 TTATTTAATTTTGTTTTAATTTTTAGTTT-AAAAAATGTGTGGAATAAAGGGTCATTTCGACCTA
56774468 AGTACTAATCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCGAA-T
65 AGTACTAATCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCGAATT
56774532 TTCTATTTATTTTATTCTAATTGCTA
130 TTCTATTTATTTTATTCTAATTGCTA
*
56774558 TTATTTAATTTTGTTTTGATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTAA
1 TTATTTAATTTTGTTTTAATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTAA
*
56774623 GTACTAATCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTC-AAATT
66 GTACTAATCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCGAATTT
56774687 TCTATTTATTTTATTCTAATTGCTA
131 TCTATTTATTTTATTCTAATTGCTA
*
56774712 TTATTTAATTTTGTTTTAATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTTGACCTAA
1 TTATTTAATTTTGTTTTAATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTAA
56774777 GTACTAAT-TCCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTA-TTATTT
66 GTACTAATCT-CTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTT
56774827 AACTTAGCCT
Statistics
Matches: 567, Mismatches: 5, Indels: 12
0.97 0.01 0.02
Matches are distributed among these distances:
153 34 0.06
154 381 0.67
155 152 0.27
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.54
Consensus pattern (155 bp):
TTATTTAATTTTGTTTTAATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTAA
GTACTAATCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCGAATTT
TCTATTTATTTTATTCTAATTGCTA
Found at i:56774558 original size:21 final size:23
Alignment explanation
Indices: 56774511--56774568 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
56774501 GTTTCCTCAT
*
56774511 TATTTATTTCATATTTCGAATTTC
1 TATTTATTT-ATATTTCGAATTGC
*
56774535 TATTTATTT-TA-TTCTAATTGC
1 TATTTATTTATATTTCGAATTGC
56774556 TA-TTATTTA-ATTT
1 TATTTATTTATATTT
56774569 TGTTTTGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 2 0.07
24 9 0.30
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (23 bp):
TATTTATTTATATTTCGAATTGC
Found at i:56774696 original size:309 final size:308
Alignment explanation
Indices: 56774126--56774826 Score: 1318
Period size: 309 Copynumber: 2.3 Consensus size: 308
56774116 TTTTAGTTTA
56774126 AAAATGTGTGGAATAAAGGGTCATTTCGACCTAAGTACTAATCTCTTTTTAGTTTTGTTTTAATT
1 AAAATGTGTGGAATAAAGGGTCATTTCGACCTAAGTACTAATCTCTTTTTAGTTTTGTTTTAATT
56774191 TGTTTCCTCATTATTTATTTCATATTTCGAATTTTCATTTATTTTATTCTAATTGCTATTATTTA
66 TGTTTCCTCATTATTTATTTCATATTTCGAATTTTCATTTATTTTATTCTAATTGCTATTATTTA
56774256 ATTTTGTTTTAATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTAAGTACTAA
131 ATTTTGTTTTAATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTAAGTACTAA
*
56774321 TCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCGAATTTCCATTTA
196 TCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCAAATTTCCATTTA
56774386 TTTTATTCTAATTGCTATTATTTAATTTTGTTTTAATTTTTAGTTTAAA
261 TTTTATTCTAATTGCTATTATTTAATTTTGTTTTAATTTTTAGTTT-AA
56774435 AAAATGTGTGGAATAAAGGGTCATTTCGACCTAAGTACTAATCTCTTTTTAGTTTTGTTTTAATT
1 AAAATGTGTGGAATAAAGGGTCATTTCGACCTAAGTACTAATCTCTTTTTAGTTTTGTTTTAATT
56774500 TGTTTCCTCATTATTTATTTCATATTTCGAA-TTTCTATTTATTTTATTCTAATTGCTATTATTT
66 TGTTTCCTCATTATTTATTTCATATTTCGAATTTTC-ATTTATTTTATTCTAATTGCTATTATTT
*
56774564 AATTTTGTTTTGATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTAAGTACTA
130 AATTTTGTTTTAATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTAAGTACTA
*
56774629 ATCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCAAATTTCTATTT
195 ATCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCAAATTTCCATTT
56774694 ATTTTATTCTAATTGCTATTATTTAATTTTGTTTTAATTTTTAGTTTAA
260 ATTTTATTCTAATTGCTATTATTTAATTTTGTTTTAATTTTTAGTTTAA
*
56774743 AAAATGTGTGGAATAAAGGGTCATTTTGACCTAAGTACTAAT-TCCTTTTTAGTTTTGTTTTAAT
1 AAAATGTGTGGAATAAAGGGTCATTTCGACCTAAGTACTAATCT-CTTTTTAGTTTTGTTTTAAT
56774807 TTGTTTCCTCATTA-TTATTT
65 TTGTTTCCTCATTATTTATTT
56774827 AACTTAGCCT
Statistics
Matches: 386, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
307 7 0.02
308 81 0.21
309 298 0.77
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.53
Consensus pattern (308 bp):
AAAATGTGTGGAATAAAGGGTCATTTCGACCTAAGTACTAATCTCTTTTTAGTTTTGTTTTAATT
TGTTTCCTCATTATTTATTTCATATTTCGAATTTTCATTTATTTTATTCTAATTGCTATTATTTA
ATTTTGTTTTAATTTTTAGTTTAAAAAATGTGTGGAATAAAGGGTCATTTCGACCTAAGTACTAA
TCTCTTTTTAGTTTTGTTTTAATTTGTTTCCTCATTATTTATTTCATATTTCAAATTTCCATTTA
TTTTATTCTAATTGCTATTATTTAATTTTGTTTTAATTTTTAGTTTAA
Found at i:56774712 original size:21 final size:23
Alignment explanation
Indices: 56774665--56774722 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
56774655 GTTTCCTCAT
*
56774665 TATTTATTTCATATTTCAAATTTC
1 TATTTATTT-ATATTTCAAATTGC
*
56774689 TATTTATTT-TA-TTCTAATTGC
1 TATTTATTTATATTTCAAATTGC
56774710 TA-TTATTTA-ATTT
1 TATTTATTTATATTT
56774723 TGTTTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 2 0.07
24 9 0.30
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTTATTTATATTTCAAATTGC
Found at i:56782906 original size:54 final size:54
Alignment explanation
Indices: 56782842--56782956 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
56782832 AGCATGGCTG
* *
56782842 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGGTACTCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAG-TACAGATACTCGTGGCAGAGCCA
* * * * *
56782896 CCAGAACAGATATATGTGGCAGAGCCACCAGTTCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGTACAGATACTCGTGGCAGAGCCA
56782950 CCAGAAC
1 CCAGAAC
56782957 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 37 0.70
55 16 0.30
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGTACAGATACTCGTGGCAGAGCCA
Found at i:56782914 original size:27 final size:27
Alignment explanation
Indices: 56782842--56782956 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
56782832 AGCATGGCTG
* *
56782842 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
56782868 CCAGATACAGGTACT-CGTGGCAGAGCCA
1 CCAGA-ACAGATA-TATGTGGCAGAGCCA
56782896 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
** * *
56782923 CCAGTTCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
56782950 CCAGAAC
1 CCAGAAC
56782957 GCTTCCTCCA
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.71
28 15 0.21
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:56783391 original size:16 final size:15
Alignment explanation
Indices: 56783370--56783399 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
56783360 ACAATACTGA
56783370 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
56783386 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
56783400 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:56784608 original size:26 final size:26
Alignment explanation
Indices: 56784572--56784681 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
56784562 CATGAAATTC
56784572 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
56784598 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
56784624 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
56784650 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
56784676 TTATCA
1 TTATCA
56784682 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:56785655 original size:3 final size:3
Alignment explanation
Indices: 56785649--56785698 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
56785639 CATATGTTAA
56785649 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
56785697 AA
1 AA
56785699 AACAAAGTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:56788688 original size:93 final size:93
Alignment explanation
Indices: 56788576--56788750 Score: 280
Period size: 93 Copynumber: 1.9 Consensus size: 93
56788566 CGCCCATAAG
* * *
56788576 CGAACTCGGACTCAACTCAACCAGCTT-GGGTGTTCGCATCCATAAGTGAACTTGGACTCAACTC
1 CGAACTCGGACTCAACTCAACCAG-TTCGGATGTTCGCATCCATAAGTGAACTCGAACTCAACTC
*
56788640 AACGAGCTCGGATGCCTAGTTGCATCTCA
65 AACGAGCTCGAATGCCTAGTTGCATCTCA
*
56788669 CGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACCAGTTCGGATGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
56788734 ACGAGTTCGAATGCCTA
66 ACGAGCTCGAATGCCTA
56788751 AATATCCGAA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACCAGTTCGGATGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGCTCGAATGCCTAGTTGCATCTCA
Found at i:56788739 original size:46 final size:46
Alignment explanation
Indices: 56788569--56788742 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
56788559 TGTAACCCGC
* *
56788569 CCATAAGCGAACTCGGACTCAACTCAACCAGCTT-GGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGATGTTCGCAT
* * * *
56788615 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
*
56788665 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
56788708 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
56788743 AATGCCTAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 4 0.04
46 58 0.55
47 29 0.27
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:56793816 original size:21 final size:21
Alignment explanation
Indices: 56793781--56793830 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
56793771 CGGTAGACAA
* * *
56793781 ACCGTGTGGCTAAGGGACATG
1 ACCGTGTGGCCAAGGCACACG
*
56793802 ACCGTGTGTCCAAGGCACACG
1 ACCGTGTGGCCAAGGCACACG
*
56793823 CCCGTGTG
1 ACCGTGTG
56793831 AAAATCGACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (21 bp):
ACCGTGTGGCCAAGGCACACG
Found at i:56795878 original size:40 final size:40
Alignment explanation
Indices: 56795834--56796059 Score: 138
Period size: 40 Copynumber: 5.7 Consensus size: 40
56795824 GCTACTTGTT
*
56795834 CAAATACCTCCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATACCTCCGGGACATAGCCCGGATT-TAGTAACTCGCA
* * * *
56795874 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATACCTCCGGGACATAGCCCGGATTTAGTAACTCGCA
* ** * * *
56795914 CAAATGCCT-TTGGATCTTAGTCCGGATTTAGTAACTCACA
1 CAAATACCTCCGGGA-CATAGCCCGGATTTAGTAACTCGCA
* * * * * *
56795954 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATACCTCCGGGA-CATAGCCCGGATTTAGTAACTCGCA
* * * * * *
56795994 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATACCTCCGGGA-CATAGCCCGGATTTAGTAAC-TCGCA
* * *
56796035 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATACCTCCGGGACATAGCCCGGA
56796060 CATCATTCGA
Statistics
Matches: 163, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 149 0.91
41 11 0.07
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATACCTCCGGGACATAGCCCGGATTTAGTAACTCGCA
Found at i:56795962 original size:80 final size:79
Alignment explanation
Indices: 56795862--56796059 Score: 265
Period size: 80 Copynumber: 2.5 Consensus size: 79
56795852 AGCCCGGTTA
* * *
56795862 TAGTAGCTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTTGG
1 TAGTAACTCACAC-AATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
56795927 ATCTTAGTCCGGATT
65 ATCTTAGTCCGGATT
* *
56795942 TAGTAACTCACACAATTGCCTTC-GGATCTTAGT-CCGGATTTAGTAACTCGTACAATTGCCTTC
1 TAGTAACTCACACAA-TGCCTTCGGGA-CTTA-TCCCGGATTTAGTAACTCGCACAAATGCCTTC
56796005 GGATCTTAGTCCGGATT
63 GGATCTTAGTCCGGATT
* * *
56796022 TAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TAGTAACTCA-CACAATGCCTTCGGGACTTATCCCGGA
56796060 CATCATTCGA
Statistics
Matches: 104, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
79 5 0.05
80 90 0.87
81 9 0.09
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (79 bp):
TAGTAACTCACACAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGGA
TCTTAGTCCGGATT
Found at i:56796776 original size:2 final size:2
Alignment explanation
Indices: 56796769--56796798 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56796759 ATGTGCAAAC
56796769 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56796799 GCAAGAGCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56798682 original size:18 final size:17
Alignment explanation
Indices: 56798638--56798686 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
56798628 ATAGTAACAA
56798638 CCAATATTCAGTATCAT
1 CCAATATTCAGTATCAT
*
56798655 CCAGACATTCAGTAGT-AGT
1 CCA-ATATTCAGTA-TCA-T
56798674 CCAATATTCAGTA
1 CCAATATTCAGTA
56798687 ACAATCAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (17 bp):
CCAATATTCAGTATCAT
Found at i:56798750 original size:18 final size:18
Alignment explanation
Indices: 56798727--56798767 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
56798717 AGTCAGTCAA
*
56798727 CAGTAATAATCAATTAAT
1 CAGTAATAACCAATTAAT
* *
56798745 CAGTAATAACCATTTATT
1 CAGTAATAACCAATTAAT
56798763 CAGTA
1 CAGTA
56798768 GCAGTCGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (18 bp):
CAGTAATAACCAATTAAT
Found at i:56798778 original size:18 final size:18
Alignment explanation
Indices: 56798758--56798821 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
56798748 TAATAACCAT
**
56798758 TTATTCAGTAGCAGTCGT
1 TTATTCAGTAGCAGTCAA
* * * *
56798776 TTATTTAGTAACGGTTAA
1 TTATTCAGTAGCAGTCAA
56798794 TTATTCAGTAGCAGTCAA
1 TTATTCAGTAGCAGTCAA
56798812 TTATTCAGTA
1 TTATTCAGTA
56798822 CCTTTATTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (18 bp):
TTATTCAGTAGCAGTCAA
Found at i:56800001 original size:19 final size:18
Alignment explanation
Indices: 56799966--56800001 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56799956 TCCTAGTTCT
*
56799966 CCCTTTTCTTTTTCTTTC
1 CCCTTTTCTTCTTCTTTC
56799984 CCCTTTTCTTCCTTCTTT
1 CCCTTTTCTT-CTTCTTT
56800002 TCCCATTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CCCTTTTCTTCTTCTTTC
Found at i:56800066 original size:2 final size:2
Alignment explanation
Indices: 56800061--56800092 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
56800051 TTTCATTTAC
*
56800061 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56800093 ATAACTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:56805306 original size:18 final size:17
Alignment explanation
Indices: 56805262--56805310 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
56805252 ATAGTAACAA
56805262 CCAATATTCAGTATCAT
1 CCAATATTCAGTATCAT
*
56805279 CCAGACATTCAGTAGT-AGT
1 CCA-ATATTCAGTA-TCA-T
56805298 CCAATATTCAGTA
1 CCAATATTCAGTA
56805311 ACAATCAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (17 bp):
CCAATATTCAGTATCAT
Found at i:56805374 original size:18 final size:18
Alignment explanation
Indices: 56805351--56805392 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
56805341 AGTCAGTCAA
*
56805351 CAGTAATAATCAGTTAAT
1 CAGTAATAACCAGTTAAT
* *
56805369 CAGTAATAACCATTTATT
1 CAGTAATAACCAGTTAAT
56805387 CAGTAA
1 CAGTAA
56805393 CAGTCGTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (18 bp):
CAGTAATAACCAGTTAAT
Found at i:56805421 original size:18 final size:18
Alignment explanation
Indices: 56805382--56805445 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
56805372 TAATAACCAT
56805382 TTATTCAGTAACAGTCGT--
1 TTATTCAGTAACAG--GTAA
56805400 TTATTCAGTAACAGGTAA
1 TTATTCAGTAACAGGTAA
* **
56805418 TTATTCAGTAGCAGAAAA
1 TTATTCAGTAACAGGTAA
56805436 TTATTCAGTA
1 TTATTCAGTA
56805446 CCTTTATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
16 2 0.05
18 39 0.95
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGGTAA
Found at i:56806615 original size:62 final size:62
Alignment explanation
Indices: 56806541--56806660 Score: 240
Period size: 62 Copynumber: 1.9 Consensus size: 62
56806531 CAAAATTAAG
56806541 TAAAAATGGTTAAATTGACTTACCTATTAAAGTTTGAAGTTCCAAATCCTAATTCTCCAATT
1 TAAAAATGGTTAAATTGACTTACCTATTAAAGTTTGAAGTTCCAAATCCTAATTCTCCAATT
56806603 TAAAAATGGTTAAATTGACTTACCTATTAAAGTTTGAAGTTCCAAATCCTAATTCTCC
1 TAAAAATGGTTAAATTGACTTACCTATTAAAGTTTGAAGTTCCAAATCCTAATTCTCC
56806661 CTTTTCTTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (62 bp):
TAAAAATGGTTAAATTGACTTACCTATTAAAGTTTGAAGTTCCAAATCCTAATTCTCCAATT
Found at i:56806694 original size:19 final size:18
Alignment explanation
Indices: 56806659--56806694 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56806649 TCCTAATTCT
*
56806659 CCCTTTTCTTTTTCTTTC
1 CCCTTTTCTTGTTCTTTC
56806677 CCCTTTTCTTCGTTCTTT
1 CCCTTTTCTT-GTTCTTT
56806695 TCCCATTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (18 bp):
CCCTTTTCTTGTTCTTTC
Found at i:56806725 original size:15 final size:16
Alignment explanation
Indices: 56806707--56806736 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
56806697 CCATTTGCTA
56806707 TTTTGTTT-CTTTCTC
1 TTTTGTTTCCTTTCTC
56806722 TTTTGTTTCCTTTCT
1 TTTTGTTTCCTTTCT
56806737 TTCTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTTGTTTCCTTTCTC
Found at i:56806799 original size:13 final size:12
Alignment explanation
Indices: 56806767--56806800 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
56806757 TATATATATA
56806767 TATATAATAACT
1 TATATAATAACT
56806779 TA-ATAATATACT
1 TATATAATA-ACT
56806791 TATATAATAA
1 TATATAATAA
56806801 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:56811596 original size:47 final size:48
Alignment explanation
Indices: 56811527--56811741 Score: 149
Period size: 47 Copynumber: 4.6 Consensus size: 48
56811517 GGTGCCAATG
** *
56811527 CCATGTCTTAGACACGGTCTTACACTGGCTCAT-ATCTCAAGTCGATA
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGATA
* * *
56811574 CCATGTCCCAGACATGGTCTTACACTGACT-ATCATTTCGTAGTCGAT-
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGTCGATA
* * * * * * * *
56811621 GCATGTCCTAGACAT-GTCTTACATTAGCTTA-CATCTCGAGGCCA-A
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGATA
* * * * * * *
56811666 TGCATGTTCCAGACAT-GTCTTACACTAGC-CATCGTTTCAATGCCGATG
1 -CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA-GTCGATA
*
56811714 CCATGTCCCAAACATGGTCTTACACTGG
1 CCATGTCCCAGACATGGTCTTACACTGG
56811742 TTCACACACG
Statistics
Matches: 130, Mismatches: 29, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
45 5 0.04
46 48 0.37
47 59 0.45
48 18 0.14
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGATA
Found at i:56818007 original size:29 final size:29
Alignment explanation
Indices: 56817974--56818133 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
56817964 GTGACGAGAT
*
56817974 TGGCACTAAGTGTGCATGCTGTAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
56818003 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
56818032 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
56818061 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
56818090 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
56818119 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
56818134 GAAATCGAGT
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 107 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:56822393 original size:47 final size:45
Alignment explanation
Indices: 56822317--56822488 Score: 127
Period size: 46 Copynumber: 3.7 Consensus size: 45
56822307 AGGGTAAGGT
* *
56822317 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCAT-ATCTCA-A
1 GCCGAT-CCATGTCCCAGACA-TGTCTTACACTGGCT-ATCAT-TCAGA
* * * *
56822364 GTCGATACCATGTCCCAGACATAGTCTTACCCTGACTATCATTTAGTA
1 GCCGAT-CCATGTCCCAGACAT-GTCTTACACTGGCTATCATTCAG-A
* *
56822412 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTC-GA
1 GCCGATCCATGTCCCAGACATGTCTTACACTGGCTAT-CAT-TCAGA
* * *
56822457 GGCCGATGCATGCCCCAGGCATGTCTTACACT
1 -GCCGATCCATGTCCCAGACATGTCTTACACT
56822489 AGCCCTCGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 48 0.47
47 47 0.46
48 6 0.06
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATCCATGTCCCAGACATGTCTTACACTGGCTATCATTCAGA
Found at i:56822463 original size:46 final size:45
Alignment explanation
Indices: 56822372--56822540 Score: 135
Period size: 46 Copynumber: 3.6 Consensus size: 45
56822362 AAGTCGATAC
* * * * *
56822372 CATGTCCCAGACATAGTCTTACCCTGACTATCATTTAGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-TC-GTTCGAAGGCCGATG
56822419 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CGT-TCGAAGGCCGATG
* * * * * ** *
56822465 CATGCCCCAGGCATGTCTTACACTAGCCCTCGTTTGAATACTGATG
1 CATGTCCCAGACATGTCTTACACT-GGCTTCGTTCGAAGGCCGATG
56822511 CCATGTCCCAGACATGGTCTTACACTGGCT
1 -CATGTCCCAGACAT-GTCTTACACTGGCT
56822541 CACACACGAA
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 5 0.05
46 53 0.54
47 31 0.31
48 10 0.10
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCGTTCGAAGGCCGATG
Found at i:56825282 original size:67 final size:70
Alignment explanation
Indices: 56825197--56825393 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
56825187 GCACCCTGTA
* * * *
56825197 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAA-
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
56825258 GTAAAT
65 GTAAAT
*
56825264 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
56825329 GTAAAT
65 GTAAAT
* *
56825335 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTGGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
56825394 AGACAAATCG
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
67 24 0.20
68 3 0.03
69 1 0.01
70 27 0.23
71 64 0.54
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGG
TAAAT
Found at i:56825316 original size:70 final size:71
Alignment explanation
Indices: 56825231--56825393 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
56825221 GAGATGTATC
56825231 CCATGTAGACAAGAGAGCTACGTGAAA-GTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56825295 AGGACA
66 AGGACA
56825301 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56825366 AGGACA
66 AGGACA
*
56825372 CCATGTGGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56825394 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 27 0.30
71 64 0.70
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56833245 original size:41 final size:41
Alignment explanation
Indices: 56833200--56833317 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
56833190 TGAAAGATAA
56833200 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
56833241 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56833271 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56833312 ATGTAG
1 ATGTAG
56833318 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:56833256 original size:71 final size:71
Alignment explanation
Indices: 56833168--56833331 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56833158 GAGATGTATC
56833168 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56833233 AGGACA
66 AGGACA
56833239 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56833304 AGGACA
66 AGGACA
56833310 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56833332 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56839657 original size:27 final size:27
Alignment explanation
Indices: 56839623--56839687 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
56839613 TAACATCGAG
56839623 TAAGCATAAAAGAATAGTAAGTTCATA
1 TAAGCATAAAAGAATAGTAAGTTCATA
* *
56839650 TAAGCATAAAAGATTAGTAAGTTCGTA
1 TAAGCATAAAAGAATAGTAAGTTCATA
*
56839677 TAATCATAAAA
1 TAAGCATAAAA
56839688 CAAAACTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.28
Consensus pattern (27 bp):
TAAGCATAAAAGAATAGTAAGTTCATA
Found at i:56844939 original size:38 final size:38
Alignment explanation
Indices: 56844883--56844962 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
56844873 GATGTGTATT
* * *
56844883 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
56844921 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
56844959 CGGG
1 CGGG
56844963 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:56845051 original size:85 final size:85
Alignment explanation
Indices: 56844934--56845121 Score: 299
Period size: 85 Copynumber: 2.2 Consensus size: 85
56844924 GATAAATCCC
*
56844934 GCAGGCCTAGTGCTGGT-ATTATATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 GCAGGCCTAGTGCCGGTGATTATATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
56844998 TATTC-GGCCTTCGTGCCTA
66 TATTCGGGCCTTCGTGCCTA
* * *
56845017 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGT
1 GCAGGCCTAGTGCCGGTGAT-TATATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGT
56845082 GTATTCGGGCCTTCGTGCCTA
65 GTATTCGGGCCTTCGTGCCTA
* *
56845103 GCAGGCGTAATGCCGGTGA
1 GCAGGCCTAGTGCCGGTGA
56845122 AATGATATGT
Statistics
Matches: 96, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
83 15 0.16
84 2 0.02
85 48 0.50
86 31 0.32
ACGTcount: A:0.13, C:0.24, G:0.34, T:0.29
Consensus pattern (85 bp):
GCAGGCCTAGTGCCGGTGATTATATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
TATTCGGGCCTTCGTGCCTA
Found at i:56845064 original size:43 final size:43
Alignment explanation
Indices: 56844934--56845121 Score: 301
Period size: 43 Copynumber: 4.4 Consensus size: 43
56844924 GATAAATCCC
* * *
56844934 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
56844975 GCAGGCTTAGTGCCGGTGATGTGTATTC-GGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
56845017 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
56845060 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
56845103 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
56845122 AATGATATGT
Statistics
Matches: 137, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
41 15 0.11
42 44 0.32
43 78 0.57
ACGTcount: A:0.13, C:0.24, G:0.34, T:0.29
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Done.