Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 51
Found at i:5858641 original size:13 final size:13
Alignment explanation
Indices: 5858625--5858684 Score: 79
Period size: 13 Copynumber: 4.8 Consensus size: 13
5858615 TAACTGTAAA
5858625 AAATAAAATAATT
1 AAATAAAATAATT
5858638 AAATAAAATAATT
1 AAATAAAATAATT
* *
5858651 AAAT-AATTAAAT
1 AAATAAAATAATT
*
5858663 -AATACAATAATT
1 AAATAAAATAATT
5858675 AAATAAAATA
1 AAATAAAATA
5858685 CTAACAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 3 0.08
12 11 0.28
13 25 0.64
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:5858643 original size:8 final size:8
Alignment explanation
Indices: 5858630--5858680 Score: 65
Period size: 8 Copynumber: 6.8 Consensus size: 8
5858620 GTAAAAAATA
5858630 AAATAATT
1 AAATAATT
5858638 AAAT-A--
1 AAATAATT
5858643 AAATAATT
1 AAATAATT
5858651 AAATAATT
1 AAATAATT
5858659 AAATAA-T
1 AAATAATT
5858666 ACAATAATT
1 A-AATAATT
5858675 AAATAA
1 AAATAA
5858681 AATACTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
5 4 0.11
6 1 0.03
7 3 0.08
8 28 0.74
9 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (8 bp):
AAATAATT
Found at i:5858695 original size:24 final size:23
Alignment explanation
Indices: 5858642--5858695 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
5858632 ATAATTAAAT
*
5858642 AAAATAATTAAATAATTAAATAAT
1 AAAATAATTAAATAA-TAAATAAC
*
5858666 ACAATAATTAAATAA-AATACTAAC
1 AAAATAATTAAATAATAA-A-TAAC
5858690 AAAATA
1 AAAATA
5858696 TGATTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 2 0.08
23 1 0.04
24 22 0.88
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAATAATTAAATAATAAATAAC
Found at i:5861796 original size:3 final size:3
Alignment explanation
Indices: 5861788--5861825 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
5861778 AAGTTAATAA
5861788 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
5861826 ATCGATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:5862829 original size:55 final size:55
Alignment explanation
Indices: 5862768--5862881 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 55
5862758 AATTCGACTC
* ** * ** *
5862768 GTTGCTCGTTAATCTAGTTAAAATTTTGCTCAATTTGTGCTCGTTAATAAAATTT
1 GTTGCTCATTAAGATAGTTAAAATTTTGCTCAACTCATGCTCGTTAAAAAAATTT
* *
5862823 GTTGCTCATTAAGATTGTTAAAATTTTGCTCGACTCATGCTCGTTAAAAAAATTT
1 GTTGCTCATTAAGATAGTTAAAATTTTGCTCAACTCATGCTCGTTAAAAAAATTT
5862878 GTTG
1 GTTG
5862882 TTCGACTCGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (55 bp):
GTTGCTCATTAAGATAGTTAAAATTTTGCTCAACTCATGCTCGTTAAAAAAATTT
Found at i:5863645 original size:13 final size:13
Alignment explanation
Indices: 5863627--5863653 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5863617 GGGATGTTCA
5863627 AAACAGGGTACCC
1 AAACAGGGTACCC
5863640 AAACAGGGTACCC
1 AAACAGGGTACCC
5863653 A
1 A
5863654 TATTTTTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.30, G:0.22, T:0.07
Consensus pattern (13 bp):
AAACAGGGTACCC
Found at i:5863737 original size:15 final size:16
Alignment explanation
Indices: 5863712--5863745 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
5863702 CTCGGTCCAT
*
5863712 TAAGTTTGGATACTCG
1 TAAGTTTGGATACTAG
5863728 TAAG-TTGGATACTAG
1 TAAGTTTGGATACTAG
5863743 TAA
1 TAA
5863746 AACTTGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (16 bp):
TAAGTTTGGATACTAG
Found at i:5863928 original size:16 final size:17
Alignment explanation
Indices: 5863897--5863930 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
5863887 TTAAATTATA
5863897 TTATTAAAAGATAAAAT
1 TTATTAAAAGATAAAAT
5863914 TTATTAAAA-ATAAAAT
1 TTATTAAAAGATAAAAT
5863930 T
1 T
5863931 GAAGAAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TTATTAAAAGATAAAAT
Found at i:5866870 original size:572 final size:566
Alignment explanation
Indices: 5865519--5866984 Score: 2698
Period size: 572 Copynumber: 2.6 Consensus size: 566
5865509 GAGGCTCCCT
*
5865519 GTTCTTCCAAGACCAGCTCCAGGTGCTCCTGGTAAGATTCAGCACATATCTGCATCATCATCACT
1 GTTCTGCCAAGACCAGCTCCAGGTGCTCCTGGTAAGATTCAGCACATATCTGCATCATCATCACT
*
5865584 GTTCTTAGTTTGAGGTTTGGATGTTCAGTCATGAATTTATGCGGTGATAGTGAACATGGTGAATT
66 GTTGTTAGTTTGAGGTTTGGATGTTCAGTCATGAATTTATGCGGTGATAGTGAACATGGTGAATT
* * * *
5865649 TTCTTTTGCGTACTTCTTTATGTTACCATAAACCTGAAATATTATGTAGCATACCCTATTTGATT
131 TTCTTTTGCATACTTCTTTATGTTACCATAAAGCTGAAATTTTATGTAGCATACCTTATTTGATT
5865714 TATACCATCTTCTTTCCAATCAAGTCATTGGCTTTTTGACTCTAGATCTCAAGTGCTCGCATGCG
196 TATACCATCTTCTTTCCAATCAAGTCATTGGCTTTTTGACTCTAGATCTCAAGTGCTCGCATGCG
*
5865779 ATGAAATTGATTTTTTCCCTTTTATTGGTGACATTGCCAGGTTATGTTCCTGTTCCAGGAATGCT
261 ATGAAATTGA-TTTTTCCCCTTTATTGGTGACATTGCCAGGTTATGTTCCTGTTCCAGGAATGCT
5865844 GTTACCACCAATGGTGGCACCACCTGGTGCTCCTTTGCCTGGTCAAATAAATGGCCTTCCACGGC
325 GTTACCACCAATGGTGGCACCACCTGGTGCTCCTTTGCCTGGTCAAATAAATGGCCTTCCACGGC
5865909 CTCCTACACTGGCTCCACCAACAAAAAATCCTGGAACTGCAACAACACCCACTTCTTCTAACGGA
390 CTCCTACACTGGCTCCACCAACAAAAAATCCTGGAACTGCAACAACACCCACTTCTTCTAACGGA
5865974 CCACCCTCCATTGTTGTGCCTTCACAAGTGACGGGTCCGGCAACCCAAACAAGTGGAGGATTTGA
455 CCACCCTCCATTGTTGTGCCTTCACAAGTGACGGGTCCGGCAACCCAAACAAGTGGAGGATTTGA
5866039 CAATGCCAATGCCAATTCACAACCTTCTGGAGCTAATAATTAATCTA
520 CAATGCCAATGCCAATTCACAACCTTCTGGAGCTAATAATTAATCTA
5866086 GTTCTGCCAAGACCAGCTCCAGGTGCTCCTGGTAAGATTCAGCACATATCTGCATCATCATCACT
1 GTTCTGCCAAGACCAGCTCCAGGTGCTCCTGGTAAGATTCAGCACATATCTGCATCATCATCACT
5866151 GTTGTTAGTTTGAGGTTTGGATGTTCAGTCATGAATTTATGCGGTGATAGTGAACATGGTGAATT
66 GTTGTTAGTTTGAGGTTTGGATGTTCAGTCATGAATTTATGCGGTGATAGTGAACATGGTGAATT
5866216 TTCTTTTGCATACTTCTTTATGTTACCATAAAGCTGAAATTTTATGTAGCATACCTTATTTGATT
131 TTCTTTTGCATACTTCTTTATGTTACCATAAAGCTGAAATTTTATGTAGCATACCTTATTTGATT
5866281 TATACCATCTTCTTTCCAATCAAGTCATTGGCTTTTTGACTCTAGATCTCAAGTGCTCGCATGCG
196 TATACCATCTTCTTTCCAATCAAGTCATTGGCTTTTTGACTCTAGATCTCAAGTGCTCGCATGCG
5866346 ATGAAATTGATTTTTCCCCTTTATTGGTGACATTGCCAGGTTATGTTCCTGTTCCAGGAATGCTG
261 ATGAAATTGATTTTTCCCCTTTATTGGTGACATTGCCAGGTTATGTTCCTGTTCCAGGAATGCTG
* * *
5866411 TTGCCACCAATGGTGGCACCACCTGGTGCTGCTTTGCCTGGTCAAGTAAATGGCCTTCCACGGCC
326 TTACCACCAATGGTGGCACCACCTGGTGCTCCTTTGCCTGGTCAAATAAATGGCCTTCCACGGCC
*
5866476 TCCTACACTGGCTCCACCAACAACAAATCCTGGAACTGCAACAACACCCACTTCTTCTAACGGAC
391 TCCTACACTGGCTCCACCAACAAAAAATCCTGGAACTGCAACAACACCCACTTCTTCTAACGGAC
* **
5866541 CACCCTCCATTGTTGTGCCTTCACATGTGACGGGTCTTGCAACCCAAACAAGTGGAGGATTTGAC
456 CACCCTCCATTGTTGTGCCTTCACAAGTGACGGGTCCGGCAACCCAAACAAGTGGAGGATTTG--
5866606 AATGCCAATGCCAATGCCAATTCACAACCTTCTGGAGCTAATAATTAATCTA
519 -A---CAATGCCAATGCCAATTCACAACCTTCTGGAGCTAATAATTAATCTA
*
5866658 GTTCTGCCAAGATCAGCTCCAGGTGCTCCTGGTAAGATTCAGCACATATCTGCATCATCATCACT
1 GTTCTGCCAAGACCAGCTCCAGGTGCTCCTGGTAAGATTCAGCACATATCTGCATCATCATCACT
*
5866723 GTTGTTAGTTTGAGGTTTGGATGTTCAATCATGAATTTATGCGGTGATAGTGAACATGGTGAATT
66 GTTGTTAGTTTGAGGTTTGGATGTTCAGTCATGAATTTATGCGGTGATAGTGAACATGGTGAATT
*
5866788 TTCTTTTGCATACTTCTCTATGTTACCATAAAGCTGAAATTTTATGTAGCATACCTTATTTGATT
131 TTCTTTTGCATACTTCTTTATGTTACCATAAAGCTGAAATTTTATGTAGCATACCTTATTTGATT
5866853 TATACCATCTTCTTTCCAATCAAGTCATTGGCTTTTTGACTCTAGATCTCAAGTGCTCGCATGCG
196 TATACCATCTTCTTTCCAATCAAGTCATTGGCTTTTTGACTCTAGATCTCAAGTGCTCGCATGCG
* *
5866918 ATTAAATTGATTTTCCCCCTTTATTGGTGACATTGCCAGGTTATGTTCCTGTTCCAGGAATGCTG
261 ATGAAATTGATTTTTCCCCTTTATTGGTGACATTGCCAGGTTATGTTCCTGTTCCAGGAATGCTG
5866983 TT
326 TT
5866985 CCTGGAACTG
Statistics
Matches: 874, Mismatches: 19, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
566 240 0.27
567 264 0.30
569 1 0.00
572 369 0.42
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (566 bp):
GTTCTGCCAAGACCAGCTCCAGGTGCTCCTGGTAAGATTCAGCACATATCTGCATCATCATCACT
GTTGTTAGTTTGAGGTTTGGATGTTCAGTCATGAATTTATGCGGTGATAGTGAACATGGTGAATT
TTCTTTTGCATACTTCTTTATGTTACCATAAAGCTGAAATTTTATGTAGCATACCTTATTTGATT
TATACCATCTTCTTTCCAATCAAGTCATTGGCTTTTTGACTCTAGATCTCAAGTGCTCGCATGCG
ATGAAATTGATTTTTCCCCTTTATTGGTGACATTGCCAGGTTATGTTCCTGTTCCAGGAATGCTG
TTACCACCAATGGTGGCACCACCTGGTGCTCCTTTGCCTGGTCAAATAAATGGCCTTCCACGGCC
TCCTACACTGGCTCCACCAACAAAAAATCCTGGAACTGCAACAACACCCACTTCTTCTAACGGAC
CACCCTCCATTGTTGTGCCTTCACAAGTGACGGGTCCGGCAACCCAAACAAGTGGAGGATTTGAC
AATGCCAATGCCAATTCACAACCTTCTGGAGCTAATAATTAATCTA
Found at i:5869722 original size:108 final size:108
Alignment explanation
Indices: 5869532--5869748 Score: 371
Period size: 108 Copynumber: 2.0 Consensus size: 108
5869522 AAGAGAGATG
* * *
5869532 GGTTTTACTAGACAAGGTGGATTGAAGTCATGGAGAGGGGTTTGAGGCATTGTGATGAGTATGAA
1 GGTTTTACCAGACAAGGTGGATTGAAGCCATGGAGAGGGGTTTCAGGCATTGTGATGAGTATGAA
* *
5869597 ACCACCACCACCTTCGTGAAGTTCCCATCTCCTTGCACATCCT
66 ACCACCACCACCCTCGTGAAATTCCCATCTCCTTGCACATCCT
* *
5869640 GGTTTTACCAGACAGGGTGGATTGAAGCCATGGAGAGGGGTTTCAGGCATTGTGATTAGTATGAA
1 GGTTTTACCAGACAAGGTGGATTGAAGCCATGGAGAGGGGTTTCAGGCATTGTGATGAGTATGAA
5869705 ACCACCACCACCCTCGTGAAATTCCCATCTCCTTGCACATCCT
66 ACCACCACCACCCTCGTGAAATTCCCATCTCCTTGCACATCCT
5869748 G
1 G
5869749 AAATTTAAGT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (108 bp):
GGTTTTACCAGACAAGGTGGATTGAAGCCATGGAGAGGGGTTTCAGGCATTGTGATGAGTATGAA
ACCACCACCACCCTCGTGAAATTCCCATCTCCTTGCACATCCT
Found at i:5873993 original size:13 final size:13
Alignment explanation
Indices: 5873973--5874007 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
5873963 TTTCTGTTAG
5873973 GTTTGGGCCAGTCT
1 GTTTGGGCCAGT-T
5873987 G-TTGGGCCAGTT
1 GTTTGGGCCAGTT
5873999 GTTTGGGCC
1 GTTTGGGCC
5874008 TGCAATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 17 0.85
14 1 0.05
ACGTcount: A:0.06, C:0.20, G:0.40, T:0.34
Consensus pattern (13 bp):
GTTTGGGCCAGTT
Found at i:5874038 original size:3 final size:3
Alignment explanation
Indices: 5874030--5874085 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
5874020 TGTAATTATT
*
5874030 TAA TAA TAA TATA TAA TAA TAAA TAA -AA TAA TAA TAA TAA T-A TAT
1 TAA TAA TAA TA-A TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
5874075 TAA TAA TAA TA
1 TAA TAA TAA TA
5874086 TTAAAAACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:5874840 original size:105 final size:105
Alignment explanation
Indices: 5874657--5875583 Score: 1503
Period size: 105 Copynumber: 8.8 Consensus size: 105
5874647 CCAATATCCT
* * ** *
5874657 TTGAAATTGGCTCTGAAATTTGAAAAATGTCCGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGT-TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
5874722 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
65 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
5874763 TTGAAATTAGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTGCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
5874828 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAA
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* * *
5874868 TTGAAATTGGCCCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
1 TTGAAATTGGCTCTGAAATTGGGAAGTT-GTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
5874933 GAACTTGCGTTGTCTGGAGTCTAATATCCTTCGTTGTGAAG
65 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
5874974 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTT
1 TTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* * *
5875039 GAACTTGCGTTGTCTAGAGTCCAATATCCTTCGATATGAAG
65 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
5875080 TTGAAATTGGCTCTGGAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
5875145 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
5875185 TTGAAATTGGCTCTGGAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
5875250 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
** *
5875290 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAATGGTCCCTTCGTCATGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
5875355 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
5875395 TTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * *
5875460 AACTTGCGTCGTCTGGAGTCTAATATCCTTCGCTGTGAAG
66 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* * * * * * *
5875500 TTAAAATTGGCTCCGAAATTGGAAAATTATTATTGACAACCAGCCGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* *
5875565 AACTTGTGTTGTCTTGAGT
66 AACTTGCGTTGTCTGGAGT
5875584 GGCGTGATAT
Statistics
Matches: 770, Mismatches: 49, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
105 548 0.71
106 222 0.29
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
TTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
Found at i:5875437 original size:315 final size:314
Alignment explanation
Indices: 5874506--5875583 Score: 1586
Period size: 315 Copynumber: 3.4 Consensus size: 314
5874496 AGTCAGCCGC
* * * * *
5874506 CCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCCTTCGCTTGTGAAGTTGAAA
1 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG-TTGTGAAGTTGAAA
* * * ** * *
5874571 TTGGCTCTGAAACTGAAAAG-TTTGTTGACAGTCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGT
65 TTGGCTCTGAAATTGGAAAGTTTTATTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGC
* ** * * ** *
5874635 GCTGTCTTAAGTCCAATAT-C--C----T----TTGAAATTGGCTCTGAAATTTGAAAAATGTCC
130 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGT-T
*
5874689 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
194 GTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
*
5874754 GCTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
259 GCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
* *
5874810 GCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAATTGAAAT
1 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
* * *
5874875 TGGCCCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
66 TGGCTCTGAAATTGGAAAG-T-TTTATTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTG
*
5874940 CGTTGTCTGGAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
129 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-T
*
5875005 TGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTT
193 TGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTT
* * *
5875070 CGATATGAAGTTGAAATTGGCTCTGGAATTGGGAAGTTGTTGTTGACAACCAGCGGT
258 CGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
5875127 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
1 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
* * * *
5875192 TGGCTCTGGAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 TGGCTCTGAAATTGGAAAGTT-TTATTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGC
5875257 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
130 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTG
**
5875322 TTGACAACCAATGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
195 TTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
*
5875387 CTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
260 CTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
* * * *
5875442 CCCTTCGTCGTGAAGTTGAACTTGCGTCGTCTGGAGTCTAATATCCTTCGCTGTGAAGTTAAAAT
1 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
* * *
5875507 TGGCTCCGAAATTGGAAAATTATTATTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGT
66 TGGCTCTGAAATTGGAAAGTT-TTATTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGC
*
5875572 GTTGTCTTGAGT
130 GTTGTCTGGAGT
5875584 GGCGTGATAT
Statistics
Matches: 700, Mismatches: 58, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
303 29 0.04
304 44 0.06
306 53 0.08
307 1 0.00
309 1 0.00
313 1 0.00
315 246 0.35
316 104 0.15
317 220 0.31
318 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (314 bp):
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
TGGCTCTGAAATTGGAAAGTTTTATTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTGCG
TTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGT
TGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGC
TGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
Found at i:5888925 original size:124 final size:114
Alignment explanation
Indices: 5888659--5889463 Score: 785
Period size: 114 Copynumber: 6.9 Consensus size: 114
5888649 GATAGCTCAT
** * *
5888659 ACAAAAGG-TTGAACAAGCTCTTCTCATTATGAACTTCTTGTT-CTTCTTCAGATGAGTTCTTCT
1 ACAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * * * *
5888722 TATTATGAATTTTCTCTGGAAAAGTTGACCCATCGAATGATGAATTCAA
66 CATTATGAACTTTCTCTAGAAAAGTTGATCCATCCAATGATGAAGTCAA
* *
5888771 ACAAGAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTCT
1 ACAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
5888836 CATTATGAACTTTCTCTAGAAAAGTTGATGCTGATCTATCTCATTCTG-TGATAGAGTCAT
66 CATTATGAACTTTCTCTAGAAAAGTTGAT-C----C-ATC-CA--ATGATG--A-AGTCAA
* ** *
5888896 GCAAAAGG-TTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 ACAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * * *
5888960 TATTATGAATTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAA
66 CATTATGAACTTTCTCTAGAAAAGTTGATCCATCCAATGATGAAGTCAA
*
5889009 ACAAGAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 ACAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* ** *
5889074 CATTATGAACTTTCTCTGGAAAAGTTGATACTGATCTATCTCCTTCTG-TGATAGAGTCAT
66 CATTATGAACTTTCTCTAGAAAAGTTGAT-C----C-A--TCC-AATGATG--A-AGTCAA
* * * *
5889134 GCAAAAGG-TTGAACAAGA-TCTTCTCATTATGAACTTCTTTTTCATTCTTCAGATGAGTTCTTC
1 ACAAAAGGTTTGAACAA-ATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
5889197 TTATTATGAACTTTCTCTAGAAAAGTTGATCCATCGAATGATGAATTCAA
65 TCATTATGAACTTTCTCTAGAAAAGTTGATCCATCCAATGATGAAGTCAA
*
5889247 ACAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTTAGATGAGTTCTTCT
1 ACAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * * * **
5889312 CATTATGAA-TTCTATCTGGCAATGTTGATCCAT-CAAGTGATGAATTTGA
66 CATTATGAACTT-TCTCTAGAAAAGTTGATCCATCCAA-TGATGAAGTCAA
* * * * *
5889361 GCAAAAGG-TT-AACCAAGTTCTTCACATTATG-ATTT-TTTTTCCTTTTTCAGATGAGTTCTTC
1 ACAAAAGGTTTGAA-CAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
5889422 TCATTATGAACTCTTC-C-GGAAATGTTGATCCATCGAATGATG
65 TCATTATGAACT-TTCTCTAGAAAAGTTGATCCATCCAATGATG
5889464 CATTCGAATC
Statistics
Matches: 582, Mismatches: 73, Indels: 78
0.79 0.10 0.11
Matches are distributed among these distances:
110 20 0.03
111 36 0.06
112 15 0.03
113 75 0.13
114 219 0.38
115 6 0.01
116 6 0.01
117 1 0.00
118 4 0.01
119 4 0.01
120 4 0.01
121 1 0.00
122 6 0.01
123 6 0.01
124 158 0.27
125 21 0.04
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (114 bp):
ACAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACTTTCTCTAGAAAAGTTGATCCATCCAATGATGAAGTCAA
Found at i:5888933 original size:114 final size:114
Alignment explanation
Indices: 5888815--5889227 Score: 328
Period size: 124 Copynumber: 3.4 Consensus size: 114
5888805 TTTCTTCTTC
*
5888815 CTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGATGCTGATCTATCTCAT
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGAT-CTGATCTATCTCAT
*
5888880 TCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTT
65 TCTGTGATAGAGTCATGCAAAAGGTTGAACAAGATCTTCTCATTATGAA--------T
* * * *
5888938 CCTTCTTCAGATGAGTTCTTCTTATTATGAATTTTCTCTGGAAAAGTTGATC----C-ATC-GA-
1 -CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGATCTGATCTATCTCAT
* * ** *
5888996 ---ATGAT-GAATTCAAACAAGAGGTTTGAACAA-ATTCTTCTCATTATGAATTTCTTCTT
65 TCTGTGATAG-AGTCATGCAAAAGG-TTGAACAAGA-TCTTCTCATTATGAA--------T
* *
5889052 CCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATACTGATCTATCTCC
1 -CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGAT-CTGATCTATCTCA
5889117 TTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGATCTTCTCATTATGAACTTCTTTTT
64 TTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGATCTTCTCATTATGAA--------T
*
5889176 CATTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTAGAAAAGTTGATC
1 C-TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGATC
5889228 CATCGAATGA
Statistics
Matches: 247, Mismatches: 25, Indels: 35
0.80 0.08 0.11
Matches are distributed among these distances:
112 1 0.00
113 14 0.06
114 80 0.32
115 1 0.00
117 1 0.00
118 3 0.01
119 2 0.01
120 3 0.01
123 3 0.01
124 123 0.50
125 15 0.06
126 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (114 bp):
CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGATCTGATCTATCTCATT
CTGTGATAGAGTCATGCAAAAGGTTGAACAAGATCTTCTCATTATGAAT
Found at i:5888986 original size:238 final size:237
Alignment explanation
Indices: 5888572--5889320 Score: 1263
Period size: 238 Copynumber: 3.2 Consensus size: 237
5888562 GAATAAATTC
* * ** *
5888572 TTCTCCTT-CTTCTTCATATGAGTTCTTCTCATTATGAACACT-TCTGAAAATGTTGACGCTGAT
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGAAAA-GTTGATGCTGAT
* * * *
5888635 CTATCTCCTTTTGTGATAG-CTCATACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTG
65 CTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
*
5888699 TT-CTTCTTCAGATGAGTTCTTCTTATTATGAATTTTCTCTGGAAAAGTTGACCCATCGAATGAT
130 TTCCTTCTTCAGATGAGTTCTTCTTATTATGAATTTTCTCTGGAAAAGTTGATCCATCGAATGAT
5888763 GAATTCAAACAAGAGGTTTGAACAAATTCTTCTCATTATGAAT
195 GAATTCAAACAAGAGGTTTGAACAAATTCTTCTCATTATGAAT
*
5888806 TTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTAGAAAAGTTGATGCTGAT
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT-GAAAAGTTGATGCTGAT
*
5888871 CTATCTCATTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
65 CTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
5888936 TTCCTTCTTCAGATGAGTTCTTCTTATTATGAATTTTCTCTGGAAAAGTTGATCCATCGAATGAT
130 TTCCTTCTTCAGATGAGTTCTTCTTATTATGAATTTTCTCTGGAAAAGTTGATCCATCGAATGAT
5889001 GAATTCAAACAAGAGGTTTGAACAAATTCTTCTCATTATGAAT
195 GAATTCAAACAAGAGGTTTGAACAAATTCTTCTCATTATGAAT
*
5889044 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATACTGAT
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT-GAAAAGTTGATGCTGAT
* *
5889109 CTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGATCTTCTCATTATGAACTTCTTT
65 CTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
* * *
5889174 TTCATTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTAGAAAAGTTGATCCATCGAATGAT
130 TTCCTTCTTCAGATGAGTTCTTCTTATTATGAATTTTCTCTGGAAAAGTTGATCCATCGAATGAT
*
5889239 GAATTCAAACAAAAGGTTTGAACAAATTCTTCTCATTATGAAT
195 GAATTCAAACAAGAGGTTTGAACAAATTCTTCTCATTATGAAT
*
5889282 TTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
5889321 TTCTATCTGG
Statistics
Matches: 487, Mismatches: 23, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
234 7 0.01
235 30 0.06
236 31 0.06
237 49 0.10
238 370 0.76
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (237 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGAAAAGTTGATGCTGATC
TATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCT
TCCTTCTTCAGATGAGTTCTTCTTATTATGAATTTTCTCTGGAAAAGTTGATCCATCGAATGATG
AATTCAAACAAGAGGTTTGAACAAATTCTTCTCATTATGAAT
Found at i:5890643 original size:18 final size:18
Alignment explanation
Indices: 5890622--5890660 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
5890612 TGTTTATATG
5890622 AAATAAATTGAATTTCAA
1 AAATAAATTGAATTTCAA
5890640 AAATAAATTGAATTTCAA
1 AAATAAATTGAATTTCAA
5890658 AAA
1 AAA
5890661 GATAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (18 bp):
AAATAAATTGAATTTCAA
Found at i:5891054 original size:21 final size:21
Alignment explanation
Indices: 5891016--5891056 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5891006 ATTTTCTATT
5891016 TCATTATTTTTTTCCTTTTCA
1 TCATTATTTTTTTCCTTTTCA
*
5891037 TCATT-TTTTCTTTTCTTTTC
1 TCATTATTTT-TTTCCTTTTC
5891057 TTTTTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.71
Consensus pattern (21 bp):
TCATTATTTTTTTCCTTTTCA
Found at i:5894197 original size:223 final size:223
Alignment explanation
Indices: 5893809--5894254 Score: 847
Period size: 223 Copynumber: 2.0 Consensus size: 223
5893799 ATGTGCCCCA
5893809 CATGGTTACAAATGTTGTTTTTTTCCATGTCCTCAGGATTCATTTTTATCTGGTTATATCCTGAA
1 CATGGTTACAAATGTTGTTTTTTTCCATGTCCTCAGGATTCATTTTTATCTGGTTATATCCTGAA
*
5893874 AAACCGTCCATGAATGAAAACCATGCATGTCCTGCAGTATTGTCCACCAATGTGTCTATGTGAGG
66 AAACCGTCCATGAATGAAAACCATGCATGTCCGGCAGTATTGTCCACCAATGTGTCTATGTGAGG
5893939 TAATGAAAAGCTATCTTTCAGACTAGCTTTGTTGAGATCTCTGTAATCCACGCAAATTCAAACTT
131 TAATGAAAAGCTATCTTTCAGACTAGCTTTGTTGAGATCTCTGTAATCCACGCAAATTCAAACTT
5894004 TCCCATTCTTATTTGGTATTGGAACAAT
196 TCCCATTCTTATTTGGTATTGGAACAAT
5894032 CATGGTTACAAATGTTGTTTTTTTCCATGTCCTCAGGATTCATTTTTATCTGGTTATATCCTGAA
1 CATGGTTACAAATGTTGTTTTTTTCCATGTCCTCAGGATTCATTTTTATCTGGTTATATCCTGAA
*
5894097 AAATCGTCCATGAATGAAAACCATGCATGTCCGGCAGTATTGTCCACCAATGTGTCTATGTGAGG
66 AAACCGTCCATGAATGAAAACCATGCATGTCCGGCAGTATTGTCCACCAATGTGTCTATGTGAGG
* *
5894162 TAATGAAAAGCTATCTTTCAGACTAGCTTTGTTGAGATCTCTGTAATCCACGCACATTCGAACTT
131 TAATGAAAAGCTATCTTTCAGACTAGCTTTGTTGAGATCTCTGTAATCCACGCAAATTCAAACTT
*
5894227 TCCTATTCTTATTTGGTATTGGAACAAT
196 TCCCATTCTTATTTGGTATTGGAACAAT
5894255 GTTGGCTACC
Statistics
Matches: 218, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
223 218 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (223 bp):
CATGGTTACAAATGTTGTTTTTTTCCATGTCCTCAGGATTCATTTTTATCTGGTTATATCCTGAA
AAACCGTCCATGAATGAAAACCATGCATGTCCGGCAGTATTGTCCACCAATGTGTCTATGTGAGG
TAATGAAAAGCTATCTTTCAGACTAGCTTTGTTGAGATCTCTGTAATCCACGCAAATTCAAACTT
TCCCATTCTTATTTGGTATTGGAACAAT
Found at i:5902002 original size:28 final size:26
Alignment explanation
Indices: 5901947--5902004 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
5901937 AAATATTAAT
*
5901947 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATG
* *
5901973 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAAT-A-TACATATAAAAATTATG
5902001 AAAA
1 AAAA
5902005 AGAAAGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 8 0.30
27 1 0.04
28 18 0.67
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATG
Found at i:5904449 original size:3 final size:3
Alignment explanation
Indices: 5904441--5904489 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
5904431 TGTAATTATT
*
5904441 TAA TAA TAA TATA TAA TAA TAA -AA TAA TAA TAA T-A TAT TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5904485 TAA TA
1 TAA TA
5904490 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:5904469 original size:11 final size:11
Alignment explanation
Indices: 5904442--5904489 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
5904432 GTAATTATTT
5904442 AATAATAAT-A
1 AATAATAATAA
*
5904452 TATAATAATAA
1 AATAATAATAA
5904463 AATAATAATAA
1 AATAATAATAA
* *
5904474 TATATTAATAA
1 AATAATAATAA
5904485 TAATA
1 -AATA
5904490 TTAAAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 8 0.26
11 20 0.65
12 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAATAATAA
Found at i:5904490 original size:14 final size:13
Alignment explanation
Indices: 5904441--5904490 Score: 77
Period size: 14 Copynumber: 3.9 Consensus size: 13
5904431 TGTAATTATT
5904441 TAATAATAATATA
1 TAATAATAATATA
5904454 TAATAATAA-A-A
1 TAATAATAATATA
5904465 TAATAATAATATA
1 TAATAATAATATA
5904478 TTAATAATAATAT
1 -TAATAATAATAT
5904491 TAAAAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
11 10 0.29
12 2 0.06
13 10 0.29
14 12 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:5905018 original size:4 final size:4
Alignment explanation
Indices: 5905009--5905140 Score: 84
Period size: 4 Copynumber: 33.0 Consensus size: 4
5904999 ATAGCATAAA
* * * **
5905009 ACAT ACAT ACAT ACAT ATAT ATAT ACAT ATAT ACAT ACAT ACAT ATGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * * *
5905057 ACGT ACGT ACGT ACAT ACGT ACGT ACAT ATAT ATAT ACGT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
5905105 ACAT ACGT ACAT CCGT ATAT ACGT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
5905141 TGCGTTATAT
Statistics
Matches: 102, Mismatches: 26, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 102 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (4 bp):
ACAT
Found at i:5905110 original size:16 final size:16
Alignment explanation
Indices: 5905009--5905140 Score: 102
Period size: 16 Copynumber: 8.2 Consensus size: 16
5904999 ATAGCATAAA
*
5905009 ACATACATACATACAT
1 ACATACGTACATACAT
* ** *
5905025 ATATATATACATATAT
1 ACATACGTACATACAT
* **
5905041 ACATACATACATATGT
1 ACATACGTACATACAT
* *
5905057 ACGTACGTACGTACAT
1 ACATACGTACATACAT
* *
5905073 ACGTACGTACATATAT
1 ACATACGTACATACAT
* *
5905089 ATATACGTACATACGT
1 ACATACGTACATACAT
* *
5905105 ACATACGTACATCCGT
1 ACATACGTACATACAT
* *
5905121 ATATACGTACGTACAT
1 ACATACGTACATACAT
5905137 ACAT
1 ACAT
5905141 TGCGTTATAT
Statistics
Matches: 92, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 92 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (16 bp):
ACATACGTACATACAT
Found at i:5905973 original size:53 final size:53
Alignment explanation
Indices: 5905888--5905997 Score: 184
Period size: 53 Copynumber: 2.1 Consensus size: 53
5905878 AAGGGAGAAA
*
5905888 AGGGTTCAAAGCTTAAGGTAGCTGAAGCTCAAGCCCCATACTATAGTATTTAT
1 AGGGTTCAAAGCTTAAGGTAGCTGAAGCTCAAGCCCCATACTAGAGTATTTAT
* * *
5905941 AGGGTTCAAAGCTTAAGGTAGCTGAAGTTCAAGTCCCATGCTAGAGTATTTAT
1 AGGGTTCAAAGCTTAAGGTAGCTGAAGCTCAAGCCCCATACTAGAGTATTTAT
5905994 AGGG
1 AGGG
5905998 ACGACATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (53 bp):
AGGGTTCAAAGCTTAAGGTAGCTGAAGCTCAAGCCCCATACTAGAGTATTTAT
Found at i:5906792 original size:24 final size:24
Alignment explanation
Indices: 5906754--5906804 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
5906744 CTCCTTTTAT
*
5906754 ACTAAATTCCCCTTACATCTCATG
1 ACTAAAGTCCCCTTACATCTCATG
* *
5906778 ACTAAAGTCCTCTTATATCTCATG
1 ACTAAAGTCCCCTTACATCTCATG
5906802 ACT
1 ACT
5906805 GCTCCTAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (24 bp):
ACTAAAGTCCCCTTACATCTCATG
Found at i:5908315 original size:25 final size:25
Alignment explanation
Indices: 5908281--5908336 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
5908271 ACCATTTCGT
5908281 CACTTGGAACTTACCCTCAGCTTAA
1 CACTTGGAACTTACCCTCAGCTTAA
*
5908306 CACTTGGAACTTACTCTCAGCTTAA
1 CACTTGGAACTTACCCTCAGCTTAA
5908331 CACTTG
1 CACTTG
5908337 TAATTGAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (25 bp):
CACTTGGAACTTACCCTCAGCTTAA
Found at i:5925170 original size:21 final size:21
Alignment explanation
Indices: 5925144--5925195 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
5925134 TTTTATATAC
* * *
5925144 TATTTTTTTCAATTAAATTCA
1 TATTTTTTTCAATAAAACTAA
*
5925165 TATTTTTATTGAATAAAACTAA
1 TATTTTT-TTCAATAAAACTAA
5925187 TATTTTTTT
1 TATTTTTTT
5925196 TATTATTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (21 bp):
TATTTTTTTCAATAAAACTAA
Found at i:5926759 original size:40 final size:40
Alignment explanation
Indices: 5926704--5926784 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
5926694 CCAAATATAA
5926704 TTGGTAATTAAGTTGGATTAGTTAGGTATATTTAATAAAG
1 TTGGTAATTAAGTTGGATTAGTTAGGTATATTTAATAAAG
5926744 TTGGTAATTAAGTTGGATTAGTTAGGTATATTTAATAAAG
1 TTGGTAATTAAGTTGGATTAGTTAGGTATATTTAATAAAG
5926784 T
1 T
5926785 AAATATTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (40 bp):
TTGGTAATTAAGTTGGATTAGTTAGGTATATTTAATAAAG
Found at i:5928609 original size:17 final size:18
Alignment explanation
Indices: 5928587--5928629 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
5928577 TCAAAAGAGT
*
5928587 GTTTTGGGA-TATATCGA
1 GTTTTGGGACTATACCGA
*
5928604 GTTTTGGTATCTATACCGA
1 GTTTTGGGA-CTATACCGA
5928623 GTTTTGG
1 GTTTTGG
5928630 AATAATGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
19 14 0.64
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.44
Consensus pattern (18 bp):
GTTTTGGGACTATACCGA
Found at i:5928854 original size:801 final size:798
Alignment explanation
Indices: 5926762--5929391 Score: 2935
Period size: 801 Copynumber: 3.3 Consensus size: 798
5926752 TAAGTTGGAT
* * ** ** ** *
5926762 TAGTTAGGTATATTTAATAAAGTAAATATTTATTTTAGACAATGATTCTTACAAAATAATAATTC
1 TAGTTAGGTTTATTTAATAAAGTAAATATTTATTATAGGTAAAAATTCTTA-GGAATAAGAATTC
* * *
5926827 TTGGTGACCAAGTATTTAACTTTATAAATAGAGATTATATCTTAGCCTCTCGGATAATGT----G
65 TTGGTGACCAAGTATTTAACTCTATAAATAGAGATTATATCTTAGCCTTTAGGATAATGTGAGAG
* ** * **
5926888 AGAATTATTTTGGAGAGATGTTA-T-TTTTTGGGATCTCTGTAACTTTTGGGGTTTATGTTGTAG
130 AGAATTATTTTGGAGAGATGTAATTCTTTTTGGGATCTCTGTAAC-TTTCAGGTTTATATTACAG
* * *
5926951 AGATAGTTTTATAGGAATGTTGAAAGAGTGTTTTGAGATATATCAAGTTTGGTATCTATATCGTG
194 AGATAGTTTTATAGG-ATGTCGAAAGAGTGTTTTGGGATATATCAAGTTTGGTATCTATATCGAG
* * *
5927016 TTTTGGAATTCATTTGATATCAT-TCATTTGTACTCTTCGTGTTCTCTACGTTTATAGTGGATTA
258 TTTTGGAA-TAATGTGATATCATGT-ATTTGTACTCTTTGTGTTCTCTACGTTTATAGTGGATTA
* * ** * ** * *
5927080 TTTTTCATCTTGCTGATGGAGGTAGGTAAGGTCGAACCATGTTAAATTGTTTCTATTGTGCATGT
321 TTGTTCATCTCGCCCATGGAGGTAAGTAAGGTCGAACCACATTAAATT-TGTCTCTTGTGCATGT
*** *
5927145 CTTATTTTATGTTGATATTGTTTTTGTTATTTTTTCGCTC--AAATTCCTAACAAGTGGTATCAT
385 CTTATTTTATGTTGATATCACTTTGGTTATTTTTTCGCTCTTAAATTCCTAACAAGTGGTATCAT
* * * *
5927208 GAGTTATTGTTCGGTCTATGAAGTTTTGAAAGAATTTGTTGCTATGGATTTTTTTACCGATTTTA
450 GAGTTA-TGTTCGG-CTGTGAAGTTTTGAAAGAATTTG-T--TAT-GATTTTGTTAGCGATTTTG
* * * *
5927273 GAGACATGCAAGATGAATTTGTTGTAATAAGTTTTTAGTTGCA-AGGAAATAATTCTCAATTGAT
509 GAGACATGCAAGATAAATTTGTTGCAATAAGTTTTTAGTTGTAGA-GAAGTAATTCTCAATTGAT
* * *
5927337 CTAGTGATACTTCAATAGATACTGCATAAGAATTAATGTTGTTGAAA-AATTGACAGATG-TGCT
573 CTAGTGATACTTCAATAGATATTGCATAAGAATTAAAGTTGTT-AAAGACTTGACAG-TGATGCT
* * **
5927400 TAAACGAATATGCAACTTACATAAAGATTGAAATTG-TGAAGACTAGAAG-ACTAATTTTTGACA
636 TAAACGAATATGCAACTTACATAAAGATTGAAGTTGTTGAAGACTTGAAGAAC-AATTTTTGATG
* * * * *
5927463 AAATTTGGGTCAAAGGGAAGAATTGTTATGTTTTGACCCAAATTATAATTGGTAGTTAAGTT-GA
700 AAATTTGGGTCAAGGGGAAGATTTGTTATATTTTGA-ACAAATTATAATTGGTAATTAAGTTAG-
* *
5927527 ATTTTATTTTAATTCTAATGGTTAAAAATTACTTGG
763 ATTTTATTGTAATTCTAGTGGTTAAAAATTACTTGG
* * * *
5927563 TAGTTAGGTTTATTT-ATAAAGTAAATATTTATTTTAGG-AAATAATTTGTTTGGAATAAGAAAT
1 TAGTTAGGTTTATTTAATAAAGTAAATATTTATTATAGGTAAA-AA-TTCTTAGGAATAAGAATT
* * * * * * *
5927626 ATTGGTGATCAAGTATTTGACTCTATAAATATAAATTATATCTTAGCCTTTAGTATAATATGAGA
64 CTTGGTGACCAAGTATTTAACTCTATAAATAGAGATTATATCTTAGCCTTTAGGATAATGTGAGA
* * * *
5927691 GAGAATTATTTTGGTGAGATATAATTCTTTTTGGGATCTCTATAACTTTTAGGGTTTA-AGTTAC
129 GAGAATTATTTTGGAGAGATGTAATTCTTTTTGGGATCTCTGTAACTTTCA-GGTTTATA-TTAC
* * * * * * *
5927755 AAAGATAGTTTTACAGAATGTTGGAAA-AGTGTTTTGGGA-ATTACCAGGGTTTGGTATCTCTAT
192 AGAGATAGTTTTATAGGATG-TCGAAAGAGTGTTTTGGGATA-TATCA-AGTTTGGTATCTATAT
* * * * *
5927818 CGAGTTTTGGGATACATGTTATATCATGTATTTGTACTTTTTGTGTTCTCTACATTTATAGTGAA
254 CGAGTTTTGGAATA-ATGTGATATCATGTATTTGTACTCTTTGTGTTCTCTACGTTTATAGTGGA
** * * * *
5927883 TTATTGTTCATCTCGCCTGTGGAGGTATGCAAGGCCAAACCACATTAAATTTTGTCTCTTGTGCA
318 TTATTGTTCATCTCGCCCATGGAGGTAAGTAAGGTCGAACCACATTAAA-TTTGTCTCTTGTGCA
* *
5927948 TGTCTTGTTTTATGTTGATATCACTTTGGTTATTTTTTTGCT-TTCAAATTCCTAACAAGTGGTA
382 TGTCTTATTTTATGTTGATATCACTTTGGTTATTTTTTCGCTCTT-AAATTCCTAACAAGTGGTA
* * * *
5928012 TCAAGAGATATGGGTTGGGCTGT-AGAGTTTTGAAAGAATTTGTT-TGATTTTGTTAGTGATTTT
446 TCATGAGTTAT--GTTCGGCTGTGA-AGTTTTGAAAGAATTTGTTATGATTTTGTTAGCGATTTT
* * * * * *
5928075 GGAGACATGCAAGATTAATTT-TCTACAATAAGTTTTCAATTGTAGAGAAGTAAATCTCAATTTA
508 GGAGACATGCAAGATAAATTTGT-TGCAATAAGTTTTTAGTTGTAGAGAAGTAATTCTCAATTGA
*
5928139 TCTAGTGATACTTCAATAGATATTGCATAAGAATTAAAGTTGTTAAAGACTTGATAGTGATGC-T
572 TCTAGTGATACTTCAATAGATATTGCATAAGAATTAAAGTTGTTAAAGACTTGACAGTGATGCTT
****
5928203 -AACGAATATGTGGTTTACATAAAGATTGAAGTTGTTGAAGACTTGAAGAACAATTTTTGATGAA
637 AAACGAATATGCAACTTACATAAAGATTGAAGTTGTTGAAGACTTGAAGAACAATTTTTGATGAA
*
5928267 ATTTGGGTCAAGGGGAAGATTTGTTATATTTTGAACAAATTTCTAATTGGTAATTAAGTTAGATT
702 ATTTGGGTCAAGGGGAAGATTTGTTATATTTTGAACAAA-TTATAATTGGTAATTAAGTTAGATT
* * *
5928332 TTATTGCAATTATAGTGGTTAAAGATTACTTGG
766 TTATTGTAATTCTAGTGGTTAAAAATTACTTGG
5928365 TAGTTAGGTTTATTTAATAAAGTAAATATTTATTATAGGTAAAAATT-TTAGGAATAAGAATTCT
1 TAGTTAGGTTTATTTAATAAAGTAAATATTTATTATAGGTAAAAATTCTTAGGAATAAGAATTCT
* * *
5928429 TGGTGACCAAGTATATGACTCTATAAATAGAGATTATGTCTTAGCCTTTAGGATAATGTGATG-G
66 TGGTGACCAAGTATTTAACTCTATAAATAGAGATTATATCTTAGCCTTTAGGATAATGTGA-GAG
*
5928493 AGAATTATTTTTGGAGAGATGTAATTCTTTTTGGGATCTCTGTAACCTTCAGGTTTATATTACAG
130 AGAATTA-TTTTGGAGAGATGTAATTCTTTTTGGGATCTCTGTAACTTTCAGGTTTATATTACAG
* * * * *
5928558 TGATAGTTTTGTATGGATGTCAAAAGAGTGTTTTGGGATATATCGAGTTTTGGTATCTATACCGA
194 AGATAGTTTTATA-GGATGTCGAAAGAGTGTTTTGGGATATATCAAG-TTTGGTATCTATATCGA
* * *
5928623 GTTTTGGAATAATGTGATATCATGTATTTGTACTCTTTGCGTTCTTTATGTTTATAGTGGATTAT
257 GTTTTGGAATAATGTGATATCATGTATTTGTACTCTTTGTGTTCTCTACGTTTATAGTGGATTAT
* * *
5928688 TGTTCATCTCGCCCATGGAGATAAGTAAGGTTGAACCACATTAAATATTGTCTCTTGTACATGTC
322 TGTTCATCTCGCCCATGGAGGTAAGTAAGGTCGAACCACATTAAAT-TTGTCTCTTGTGCATGTC
* *
5928753 TTATTTTATGTTGATATCACTTTGGTTATTTTTTCACTCTTAAATTCCTAACAAGTGATATCATG
386 TTATTTTATGTTGATATCACTTTGGTTATTTTTTCGCTCTTAAATTCCTAACAAGTGGTATCATG
* * *
5928818 AGTTATGATTCGAGCTGTGAAGTTTCGAAGGAATTTGTTACTGCATATTTTGTTAGCGTTTTTGG
451 AGTTATG-TTCG-GCTGTGAAGTTTTGAAAGAATTTGTTA-TG---ATTTTGTTAGCGATTTTGG
* * *
5928883 AGACATGGAAGATAAATTTGTTGCAATGAGTTTTTAGTTGTAGGGAAGTAATTCTCAATTGATCT
510 AGACATGCAAGATAAATTTGTTGCAATAAGTTTTTAGTTGTAGAGAAGTAATTCTCAATTGATCT
* * * * * * *
5928948 AATGATACTTCAATGGATATTGCGTAAGAATTGAAGTTGTTGAAGACTTGACAATGATGCTTCAA
575 AGTGATACTTCAATAGATATTGCATAAGAATTAAAGTTGTTAAAGACTTGACAGTGATGCTTAAA
* * * * *
5929013 TGGATATACAACTTATATAAAGATTGAAGTTGTTGAAGAATTGAAGAACAATTTTTGATGAAATT
640 CGAATATGCAACTTACATAAAGATTGAAGTTGTTGAAGACTTGAAGAACAATTTTTGATGAAATT
* *
5929078 TGGGTGAAGGGGGAAAATTTGTTATATTTTGAACCAAATTATAA-TGGTAATTAAGTTAGATTTT
705 TGGGTCAA-GGGGAAGATTTGTTATATTTTGAA-CAAATTATAATTGGTAATTAAGTTAGATTTT
5929142 ATTGTAATTCTAGTGGTTAAAAATTACTTGG
768 ATTGTAATTCTAGTGGTTAAAAATTACTTGG
* * * *
5929173 TAGTTAGATTTATTTAAT--A--AAATA---A--ATA--T--TAATT-TTAGCCATTAA-AATTC
1 TAGTTAGGTTTATTTAATAAAGTAAATATTTATTATAGGTAAAAATTCTTAG-GAATAAGAATTC
* * * *
5929223 TTGGTAACCAAGTATTTAACTATGTAAATAGAGATTATGTCTTAGCC-TTAGGATAATGTGAGAG
65 TTGGTGACCAAGTATTTAACTCTATAAATAGAGATTATATCTTAGCCTTTAGGATAATGTGAGAG
* * * * * * * * *
5929287 AGTATTATTTTGGAAAGATGTAATTCTTTTAT--AATTTGTGCAACATTT-GGGTTTATTTTGCA
130 AGAATTATTTTGGAGAGATGTAATTCTTTT-TGGGATCTCTGTAAC-TTTCAGGTTTATATTACA
* * * *
5929349 GAGATAATTTTGTAGGGATATAGAAAGAGTGTTTTGGGATATA
193 GAGATAGTTTTATA-GGATGTCGAAAGAGTGTTTTGGGATATA
5929392 CCGGGTTTCG
Statistics
Matches: 1554, Mismatches: 217, Indels: 125
0.82 0.11 0.07
Matches are distributed among these distances:
792 56 0.04
793 25 0.02
794 22 0.01
795 55 0.04
796 4 0.00
797 1 0.00
799 6 0.00
800 86 0.06
801 339 0.22
802 214 0.14
803 147 0.09
804 32 0.02
805 24 0.02
806 321 0.21
807 8 0.01
808 177 0.11
809 33 0.02
810 4 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (798 bp):
TAGTTAGGTTTATTTAATAAAGTAAATATTTATTATAGGTAAAAATTCTTAGGAATAAGAATTCT
TGGTGACCAAGTATTTAACTCTATAAATAGAGATTATATCTTAGCCTTTAGGATAATGTGAGAGA
GAATTATTTTGGAGAGATGTAATTCTTTTTGGGATCTCTGTAACTTTCAGGTTTATATTACAGAG
ATAGTTTTATAGGATGTCGAAAGAGTGTTTTGGGATATATCAAGTTTGGTATCTATATCGAGTTT
TGGAATAATGTGATATCATGTATTTGTACTCTTTGTGTTCTCTACGTTTATAGTGGATTATTGTT
CATCTCGCCCATGGAGGTAAGTAAGGTCGAACCACATTAAATTTGTCTCTTGTGCATGTCTTATT
TTATGTTGATATCACTTTGGTTATTTTTTCGCTCTTAAATTCCTAACAAGTGGTATCATGAGTTA
TGTTCGGCTGTGAAGTTTTGAAAGAATTTGTTATGATTTTGTTAGCGATTTTGGAGACATGCAAG
ATAAATTTGTTGCAATAAGTTTTTAGTTGTAGAGAAGTAATTCTCAATTGATCTAGTGATACTTC
AATAGATATTGCATAAGAATTAAAGTTGTTAAAGACTTGACAGTGATGCTTAAACGAATATGCAA
CTTACATAAAGATTGAAGTTGTTGAAGACTTGAAGAACAATTTTTGATGAAATTTGGGTCAAGGG
GAAGATTTGTTATATTTTGAACAAATTATAATTGGTAATTAAGTTAGATTTTATTGTAATTCTAG
TGGTTAAAAATTACTTGG
Found at i:5933976 original size:18 final size:18
Alignment explanation
Indices: 5933926--5933977 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
5933916 GAATTAAAAT
5933926 AATTAAAATTAAAGAATC
1 AATTAAAATTAAAGAATC
* *
5933944 AA-TAAACATGAAAGAATG
1 AATTAAA-ATTAAAGAATC
*
5933962 AATTAAAATTTAAGAA
1 AATTAAAATTAAAGAA
5933978 ATAAAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.14
18 20 0.71
19 4 0.14
ACGTcount: A:0.62, C:0.04, G:0.10, T:0.25
Consensus pattern (18 bp):
AATTAAAATTAAAGAATC
Found at i:5933987 original size:20 final size:20
Alignment explanation
Indices: 5933962--5933999 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5933952 TGAAAGAATG
5933962 AATTAA-AATTTAAGAAATAA
1 AATTAATAATTTAA-AAATAA
5933982 AATTAATAATTTAAAAAT
1 AATTAATAATTTAAAAAT
5934000 TACAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AATTAATAATTTAAAAATAA
Found at i:5936220 original size:36 final size:36
Alignment explanation
Indices: 5936167--5936526 Score: 488
Period size: 36 Copynumber: 10.0 Consensus size: 36
5936157 AAATGAGATT
* * * * * *
5936167 TTTTAAGGAAAATAATCTTAAGTAAGATAAAATATA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
*
5936203 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
* *
5936239 TTTTAAGAAAAACAATCTCAAGTGAGATTAAATTTG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
5936275 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
* * * * *
5936311 TTTTGAGGAAAACAATTTCAAGTAAGATAAAATATG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
*
5936347 TTTTAAGAAAAACAATCTCAAGTGAGATAAAACCTG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
* * * *
5936383 TTTTGAGGAAAACAATCTCAAGTGAGACAAATTCTG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
* *
5936419 TTTTAAGAAAAACAATCTCAAGTGAGAGAAAATATG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
* *
5936455 TTTTAAGGAAAACAATCTCAAGTGAGATAAAATTTG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
* *
5936491 TTTTAAGAAAAAAAATCTCGAGTGA-ATAAAATCTG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
5936526 T
1 T
5936527 AGTGAAATGA
Statistics
Matches: 286, Mismatches: 38, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
35 10 0.03
36 276 0.97
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (36 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAAATCTG
Found at i:5936623 original size:44 final size:43
Alignment explanation
Indices: 5936564--5936653 Score: 135
Period size: 44 Copynumber: 2.1 Consensus size: 43
5936554 TTGAGCGAGA
* *
5936564 TGATGTTGATACAACTCCTTATGTGGTGGAATCGAGCGAAATGT
1 TGATGCTGATACAACTCCTTATGTGATGGAATCGAGCGAAA-GT
* *
5936608 TGATGCTGATCCAACTCCTTATGTGATGGAATCGAGCTAAAGT
1 TGATGCTGATACAACTCCTTATGTGATGGAATCGAGCGAAAGT
5936651 TGA
1 TGA
5936654 ACAAACGCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 5 0.12
44 37 0.88
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
TGATGCTGATACAACTCCTTATGTGATGGAATCGAGCGAAAGT
Found at i:5938233 original size:22 final size:22
Alignment explanation
Indices: 5938168--5938234 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
5938158 ATGTAGAATT
*
5938168 TGTCCCGAAGGACCACGTTAAAA
1 TGTCCCGAAGGACCACG-TAGAA
* * ** *
5938191 TATCCCGAAGGATCATATAGAC
1 TGTCCCGAAGGACCACGTAGAA
5938213 TGTCCCGAAGGACCACGTAGAA
1 TGTCCCGAAGGACCACGTAGAA
5938235 CCCTCGACTC
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.18
Consensus pattern (22 bp):
TGTCCCGAAGGACCACGTAGAA
Found at i:5938970 original size:20 final size:20
Alignment explanation
Indices: 5938941--5938978 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5938931 ATCGAATTAG
*
5938941 CCTTAAAGTAGCGATACTGT
1 CCTTAAAGTACCGATACTGT
*
5938961 CCTTATAGTACCGATACT
1 CCTTAAAGTACCGATACT
5938979 CTTGCCCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (20 bp):
CCTTAAAGTACCGATACTGT
Found at i:5944841 original size:24 final size:23
Alignment explanation
Indices: 5944821--5944946 Score: 98
Period size: 24 Copynumber: 5.4 Consensus size: 23
5944811 ACCGAAGTGG
*
5944821 CACGTAGAATTTGTCCTGAAGGA
1 CACGTAGAATTTATCCTGAAGGA
* *
5944844 CTGCGTAGAATTTATCCTAAAGGA
1 C-ACGTAGAATTTATCCTGAAGGA
5944868 CCACGTAGAATTTAT-CTCGAAGGA
1 -CACGTAGAATTTATCCT-GAAGGA
* *
5944892 CCACGTAGAA-ATATCCTGAATGA
1 -CACGTAGAATTTATCCTGAAGGA
* * *
5944915 TCACATAG-A-TTGTCCCGAAGGA
1 -CACGTAGAATTTATCCTGAAGGA
5944937 CCACGTAGAA
1 -CACGTAGAA
5944947 CCCTCGACTC
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
22 16 0.19
23 18 0.22
24 48 0.58
25 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (23 bp):
CACGTAGAATTTATCCTGAAGGA
Found at i:5946407 original size:44 final size:44
Alignment explanation
Indices: 5946339--5946427 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
5946329 ATTAATGTGA
5946339 GTAAACTTCACAAGCTTGTATTTGTTAAAATATATATTCTCTTT
1 GTAAACTTCACAAGCTTGTATTTGTTAAAATATATATTCTCTTT
* *
5946383 GTAAGCTTCACAATCTTGTATTTGTTAAAATATATATTCTCTTT
1 GTAAACTTCACAAGCTTGTATTTGTTAAAATATATATTCTCTTT
5946427 G
1 G
5946428 CTTTTGTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.46
Consensus pattern (44 bp):
GTAAACTTCACAAGCTTGTATTTGTTAAAATATATATTCTCTTT
Found at i:5952133 original size:21 final size:21
Alignment explanation
Indices: 5952109--5952168 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
5952099 TGAGAAATAT
* *
5952109 AAGTCTAAAGGTTTAAATTTG
1 AAGTCTAAAGCTCTAAATTTG
*
5952130 AAGTCTAATGCTCTAAATTTG
1 AAGTCTAAAGCTCTAAATTTG
*
5952151 AAGTCTAATGCTCTAAAT
1 AAGTCTAAAGCTCTAAAT
5952169 ATGGACTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
AAGTCTAAAGCTCTAAATTTG
Found at i:5952310 original size:18 final size:18
Alignment explanation
Indices: 5952251--5952316 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
5952241 AAGGAAAATG
5952251 AATTAAA-AA-AAA-TAA
1 AATTAAAGAATAAATTAA
*
5952266 AATTAAAGAATAAATGAA
1 AATTAAAGAATAAATTAA
* **
5952284 CATGCAAGAATAAATTAA
1 AATTAAAGAATAAATTAA
*
5952302 AATTTAAGAAATAAA
1 AATTAAAG-AATAAA
5952317 ATTTATAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
15 7 0.18
16 2 0.05
17 3 0.08
18 21 0.54
19 6 0.15
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (18 bp):
AATTAAAGAATAAATTAA
Found at i:5952395 original size:25 final size:26
Alignment explanation
Indices: 5952353--5952404 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
5952343 AATTTACTTT
* *
5952353 ACAAAATTAATGTTAGGACT-AATTA
1 ACAAAATTAATCTAAGGACTAAATTA
* *
5952378 ACAAGATTAATCTAAGGATTAAATTA
1 ACAAAATTAATCTAAGGACTAAATTA
5952404 A
1 A
5952405 AACATCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.31
Consensus pattern (26 bp):
ACAAAATTAATCTAAGGACTAAATTA
Found at i:5963585 original size:8 final size:8
Alignment explanation
Indices: 5963533--5963585 Score: 56
Period size: 8 Copynumber: 6.8 Consensus size: 8
5963523 AAAAAATTTC
5963533 TAAAAA-A
1 TAAAAATA
5963540 TAAAAATA
1 TAAAAATA
*
5963548 AAAATAAT-
1 TAAA-AATA
*
5963556 TGAAAATA
1 TAAAAATA
*
5963564 TGAAAATA
1 TAAAAATA
5963572 TAAAAATA
1 TAAAAATA
5963580 TAAAAA
1 TAAAAA
5963586 AAATGTTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
7 9 0.23
8 27 0.69
9 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (8 bp):
TAAAAATA
Found at i:5968073 original size:2 final size:2
Alignment explanation
Indices: 5968066--5968144 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
5968056 ATCCTTGTTC
5968066 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5968108 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
5968145 ATACCTCATT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5969302 original size:31 final size:31
Alignment explanation
Indices: 5969233--5969302 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
5969223 TTGGATTCTG
5969233 CAGGTCAAGTCAAATCAAATACAAGTTGTGT
1 CAGGTCAAGTCAAATCAAATACAAGTTGTGT
* *
5969264 TAAGTCAAGTCAAATCAAATACAAGTTGTGT
1 CAGGTCAAGTCAAATCAAATACAAGTTGTGT
5969295 CAGGTCAA
1 CAGGTCAA
5969303 TTTGATGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (31 bp):
CAGGTCAAGTCAAATCAAATACAAGTTGTGT
Found at i:5969996 original size:2 final size:2
Alignment explanation
Indices: 5969989--5970073 Score: 92
Period size: 2 Copynumber: 45.0 Consensus size: 2
5969979 AACTATAAAG
* *
5969989 TA TA TA TA TA TA TA T- TA -A TA TG CA TA TA TA T- TA -A TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
5970026 TA TA TA TGC T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5970068 TA TA TA
1 TA TA TA
5970074 AAGTAATTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
1 6 0.08
2 64 0.90
3 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5979960 original size:36 final size:37
Alignment explanation
Indices: 5979853--5979969 Score: 96
Period size: 37 Copynumber: 3.1 Consensus size: 37
5979843 TTAATTATCG
* *
5979853 TAACTAACAATTTGTTTTAACTTTTAAAGAGTAATCATA
1 TAACTAACAATTTGTTTTAACTTTTAAAAAATAATC--A
* * *
5979892 TTAATTATCATAGTTTG-TTTAA-TTGTCAAAAAA-ATATCA
1 -TAACTAACA-A-TTTGTTTTAACTT-TTAAAAAATA-ATCA
*
5979931 TAACTAACAATTTGTTTTAACTTTTAAAAATTAATCA
1 TAACTAACAATTTGTTTTAACTTTTAAAAAATAATCA
5979968 TA
1 TA
5979970 TTAATTATCA
Statistics
Matches: 61, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
36 4 0.07
37 18 0.30
38 10 0.16
39 1 0.02
40 10 0.16
41 14 0.23
42 4 0.07
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (37 bp):
TAACTAACAATTTGTTTTAACTTTTAAAAAATAATCA
Found at i:5980415 original size:165 final size:165
Alignment explanation
Indices: 5980138--5980480 Score: 650
Period size: 165 Copynumber: 2.1 Consensus size: 165
5980128 GTAAATATCA
* * *
5980138 TATCAGTTCAATAACAAATCGGATCATTTACAGGTTGATTCAATTATTGGTTAGGTTCATAACAG
1 TATCGGTTCAATTACAAATCAGATCATTTACAGGTTGATTCAATTATTGGTTAGGTTCATAACAG
*
5980203 GTCGGGTCGATAATAGGTTGGGTAATACCAGTTATTTACTAGGTCAATCTCGGGTTCGGGTTCAT
66 GTCGGGTCGATAATAGGTTGGGTAATACCAGTTATTTACTAGGTCAATCTAGGGTTCGGGTTCAT
5980268 ATCAGTTGGATGCAGATTAGGTTCAATTATCATAT
131 ATCAGTTGGATGCAGATTAGGTTCAATTATCATAT
5980303 TATCGGTTCAATTACAAATCAGATCATTTACAGGTTGATTCAATTATTGGTTAGGTTCATAACAG
1 TATCGGTTCAATTACAAATCAGATCATTTACAGGTTGATTCAATTATTGGTTAGGTTCATAACAG
5980368 GTCGGGTCGATAATAGGTTGGGTAATACCAGTTATTTACTAGGTCAATCTAGGGTTCGGGTTCAT
66 GTCGGGTCGATAATAGGTTGGGTAATACCAGTTATTTACTAGGTCAATCTAGGGTTCGGGTTCAT
5980433 ATCAGTTGGATGCAGATTAGGTTCAATTATCATAT
131 ATCAGTTGGATGCAGATTAGGTTCAATTATCATAT
5980468 TATCGGTTCAATT
1 TATCGGTTCAATT
5980481 CGGGTTCAAG
Statistics
Matches: 174, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
165 174 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (165 bp):
TATCGGTTCAATTACAAATCAGATCATTTACAGGTTGATTCAATTATTGGTTAGGTTCATAACAG
GTCGGGTCGATAATAGGTTGGGTAATACCAGTTATTTACTAGGTCAATCTAGGGTTCGGGTTCAT
ATCAGTTGGATGCAGATTAGGTTCAATTATCATAT
Found at i:5987656 original size:234 final size:238
Alignment explanation
Indices: 5987239--5987720 Score: 882
Period size: 234 Copynumber: 2.0 Consensus size: 238
5987229 ACCTTTCTTA
*
5987239 ATACAAAGTATCTTATTTCAAAAATATACATGTATATATAAACTTTGTTACGGTTGCCTGGTGGC
1 ATACAAAGTATCCTATTTCAAAAATATACATGTATATATAAACTTTGTTACGGTTGCCTGGTGGC
5987304 TAGAACATTGATAGATGATAGATGTAATCTATAGATAAGCAGCTAAAAGAAAAATTGGTGGCCAA
66 TAGAACATTGATAGATGATA-ATG--ATCTATAGATAAGCAGCTAAAAGAAAAATTGGTGGCCAA
5987369 AGAATATAAAAGGTTACATGTTTGTAGAATTATAGATAATTCACTCAGTAGCTAAAGATTCAAAT
128 AGAATATAAAAGGTTACATGTTTGTAGAATTATAGATAATTCACTCAGTAGCTAAAGATTCAAAT
5987434 GCAATAGGAGCCTAAAATCATAAACGACAAATATATGCATATGCTC
193 GCAATAGGAGCCTAAAATCATAAACGACAAATATATGCATATGCTC
5987480 ATACAAAGTATCCTATTTCAAAAATATACATGTATATATAAACTTTGTTACGGTTGCCTGGTGGC
1 ATACAAAGTATCCTATTTCAAAAATATACATGTATATATAAACTTTGTTACGGTTGCCTGGTGGC
*
5987545 TAGAACATTGATAGATG-T-A-G-TCTATAGATAAGCAGCTAAAAGAAAAGTTGGTGGCCAAAGA
66 TAGAACATTGATAGATGATAATGATCTATAGATAAGCAGCTAAAAGAAAAATTGGTGGCCAAAGA
*
5987606 ATATAAAAGGTTACATGTTTGTAGAATTATAGATAATTCACTCGGTAGCTAAAGATTCAAATGCA
131 ATATAAAAGGTTACATGTTTGTAGAATTATAGATAATTCACTCAGTAGCTAAAGATTCAAATGCA
5987671 ATAGGAGCCTAAAATCATAAACGACAAATATATGCATATGCTC
196 ATAGGAGCCTAAAATCATAAACGACAAATATATGCATATGCTC
5987714 ATACAAA
1 ATACAAA
5987721 ACTAAGACGT
Statistics
Matches: 238, Mismatches: 3, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
234 154 0.65
237 1 0.00
238 1 0.00
240 1 0.00
241 81 0.34
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (238 bp):
ATACAAAGTATCCTATTTCAAAAATATACATGTATATATAAACTTTGTTACGGTTGCCTGGTGGC
TAGAACATTGATAGATGATAATGATCTATAGATAAGCAGCTAAAAGAAAAATTGGTGGCCAAAGA
ATATAAAAGGTTACATGTTTGTAGAATTATAGATAATTCACTCAGTAGCTAAAGATTCAAATGCA
ATAGGAGCCTAAAATCATAAACGACAAATATATGCATATGCTC
Found at i:5991332 original size:18 final size:19
Alignment explanation
Indices: 5991290--5991333 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
5991280 ATATTTGACT
* *
5991290 TTATTTATAATTTTTTACA
1 TTATTTATAATTTTTAAAA
5991309 TCTATTTATAA-TTTTAAAA
1 T-TATTTATAATTTTTAAAA
5991328 TTATTT
1 TTATTT
5991334 TATATGACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTATAATTTTTAAAA
Found at i:5992661 original size:21 final size:21
Alignment explanation
Indices: 5992615--5992663 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
5992605 TGAAGGAAAT
5992615 AGTAT-GA-ACTGGATGAACA
1 AGTATCGATACTGGATGAACA
* *
5992634 A-TATCGATACTGGTTGAAGA
1 AGTATCGATACTGGATGAACA
5992654 AGTATCGATA
1 AGTATCGATA
5992664 TTGATGTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 3 0.12
19 3 0.12
20 11 0.44
21 8 0.32
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (21 bp):
AGTATCGATACTGGATGAACA
Found at i:5993525 original size:23 final size:22
Alignment explanation
Indices: 5993498--5993572 Score: 89
Period size: 23 Copynumber: 3.4 Consensus size: 22
5993488 GTCGAGGGTT
*
5993498 CTATGTGGTCCTTCGAGACAAAA
1 CTATGTGGTCATTCG-GACAAAA
*
5993521 CTATGTGGTCATTCGGGACAAAT
1 CTATGTGGTCATTC-GGACAAAA
* *
5993544 CTATATGGTCATTCGG-GAAAA
1 CTATGTGGTCATTCGGACAAAA
5993565 CTATGTGG
1 CTATGTGG
5993573 CACTTCTGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.22
22 2 0.04
23 32 0.71
24 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (22 bp):
CTATGTGGTCATTCGGACAAAA
Found at i:5995708 original size:2 final size:2
Alignment explanation
Indices: 5995695--5995743 Score: 89
Period size: 2 Copynumber: 24.0 Consensus size: 2
5995685 AATGGAGGAG
5995695 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5995738 TA TA TA
1 TA TA TA
5995744 AGGTGATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 44 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5998638 original size:21 final size:21
Alignment explanation
Indices: 5998609--5998664 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
5998599 ATGAACTAGA
* *
5998609 TGAACAGTATCGATATTGGT-
1 TGAAGAGTATCGATATTGATG
5998629 TGAAGAAGTATCGATATTGATG
1 TGAAG-AGTATCGATATTGATG
5998651 TGAAG-GTATCGATA
1 TGAAGAGTATCGATA
5998665 CTAAGGATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.41
21 14 0.44
22 5 0.16
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (21 bp):
TGAAGAGTATCGATATTGATG
Found at i:5999537 original size:23 final size:21
Alignment explanation
Indices: 5999501--5999618 Score: 114
Period size: 23 Copynumber: 5.3 Consensus size: 21
5999491 TTGAGGGTTT
5999501 TATGTGGTCCTTCGGGACAAAAC
1 TATGTGG-CCTTCGGGAC-AAAC
*
5999524 TATGTGGCCATTCGAGACAAAC
1 TATGTGGCC-TTCGGGACAAAC
5999546 TTATGTGGTCCTTCGGGACAAACC
1 -TATGTGG-CCTTCGGGACAAA-C
*
5999570 TATGTGGTCATTCGGGACAAA-
1 TATGTGG-CCTTCGGGACAAAC
*
5999591 TATGTGGCACTTCGGTG-CAAAT
1 TATGTGGC-CTTCGG-GACAAAC
5999613 TATGTG
1 TATGTG
5999619 AGTTGTGGTG
Statistics
Matches: 84, Mismatches: 4, Indels: 15
0.82 0.04 0.15
Matches are distributed among these distances:
20 1 0.01
21 16 0.19
22 13 0.15
23 51 0.61
24 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (21 bp):
TATGTGGCCTTCGGGACAAAC
Found at i:5999553 original size:46 final size:45
Alignment explanation
Indices: 5999500--5999605 Score: 153
Period size: 46 Copynumber: 2.4 Consensus size: 45
5999490 GTTGAGGGTT
5999500 TTATGTGGTCCTTCGGGACAAAACTATGTGGCCATTCGAGACAAA
1 TTATGTGGTCCTTCGGGACAAAACTATGTGGCCATTCGAGACAAA
* * *
5999545 CTTATGTGGTCCTTCGGGACAAACCTATGTGGTCATTCGGGACAAA
1 -TTATGTGGTCCTTCGGGACAAAACTATGTGGCCATTCGAGACAAA
5999591 -TATGTGG-CACTTCGG
1 TTATGTGGTC-CTTCGG
5999606 TGCAAATTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
43 1 0.02
44 13 0.23
46 42 0.75
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (45 bp):
TTATGTGGTCCTTCGGGACAAAACTATGTGGCCATTCGAGACAAA
Found at i:6015222 original size:24 final size:26
Alignment explanation
Indices: 6015190--6015248 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
6015180 GTTAAATTCC
6015190 AAAAGTACTTGGA-TGAG-AAATTATG
1 AAAA-TACTTGGATTGAGAAAATTATG
* *
6015215 AAAATACTTTGATTGGGTAAAATTATG
1 AAAATACTTGGATTGAG-AAAATTATG
6015242 AAAATAC
1 AAAATAC
6015249 CCTTATGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 7 0.24
27 15 0.52
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.31
Consensus pattern (26 bp):
AAAATACTTGGATTGAGAAAATTATG
Found at i:6015262 original size:27 final size:27
Alignment explanation
Indices: 6015207--6015280 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
6015197 CTTGGATGAG
*
6015207 AAATTATGAAAATA-CTTTGATTGGGTA
1 AAATTATGAAAATACCCTT-ATTGGGTA
6015234 AAATTATGAAAATACCCTTA-TGGGATA
1 AAATTATGAAAATACCCTTATTGGG-TA
**
6015261 AAATTACAAAAATACCCTTA
1 AAATTATGAAAATACCCTTA
6015281 AGTTGTAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 4 0.10
27 35 0.83
28 3 0.07
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATTATGAAAATACCCTTATTGGGTA
Found at i:6018573 original size:19 final size:21
Alignment explanation
Indices: 6018526--6018571 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
6018516 AATAAAAACT
6018526 AAATATTATATATGATTTTAG
1 AAATATTATATATGATTTTAG
6018547 AAATATTATATATGATTTTAG
1 AAATATTATATATGATTTTAG
6018568 AAAT
1 AAAT
6018572 TAAGAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (21 bp):
AAATATTATATATGATTTTAG
Found at i:6019486 original size:41 final size:41
Alignment explanation
Indices: 6019450--6019538 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
6019440 ATTTTATGGT
*
6019450 TTTTAATTTATATATGTTATGACTTGTGATATTTTTATACC
1 TTTTAATTTATATATGTTATGAATTGTGATATTTTTATACC
6019491 TTTTAATTTATATATGTTATGAATTGTGATATTTTTATACC
1 TTTTAATTTATATATGTTATGAATTGTGATATTTTTATACC
6019532 TTTTAAT
1 TTTTAAT
6019539 ATTGTAAACT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (41 bp):
TTTTAATTTATATATGTTATGAATTGTGATATTTTTATACC
Found at i:6025076 original size:22 final size:22
Alignment explanation
Indices: 6025048--6025099 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
6025038 TTGGGTCTTG
*
6025048 CAACCAACATGTCATCCATATA
1 CAACCAACATGTCATCCACATA
6025070 CAACCAACATGTCATCCACATA
1 CAACCAACATGTCATCCACATA
6025092 CAA-CAACA
1 CAACCAACA
6025100 ATATAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.44, C:0.35, G:0.04, T:0.17
Consensus pattern (22 bp):
CAACCAACATGTCATCCACATA
Found at i:6030104 original size:35 final size:35
Alignment explanation
Indices: 6030033--6030119 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
6030023 ATTCATTTTT
*
6030033 AACAATCTCAAGTGAGACGAAATTTGTTTTAGAAA
1 AACAATCTCAAGTGAGACGAAATTTGTTTAAGAAA
*
6030068 AATAATCTCAAGTGAGAC-AAGATTT-TTTAAGAAAA
1 AACAATCTCAAGTGAGACGAA-ATTTGTTTAAG-AAA
* *
6030103 AACACTCTCAAGGGAGA
1 AACAATCTCAAGTGAGA
6030120 TAAAATCTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
34 7 0.16
35 38 0.84
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (35 bp):
AACAATCTCAAGTGAGACGAAATTTGTTTAAGAAA
Found at i:6030417 original size:43 final size:43
Alignment explanation
Indices: 6030356--6030575 Score: 182
Period size: 43 Copynumber: 5.0 Consensus size: 43
6030346 ATAAAAGAGT
* * *
6030356 AATGCTGATCCAACTCCTTCTATGATAGAATTGAACAAAAACA
1 AATGTTGATCCATCTCCTTCTATGATGGAATTGAACAAAAACA
* * *
6030399 AATGTTGATCCATCTCCTTCTATAATGGAATCT-AATAAAAAAA
1 AATGTTGATCCATCTCCTTCTATGATGGAAT-TGAACAAAAACA
* *
6030442 GTAATGTTGATCCATCTCCTT-TAGTGATGGAATCGAGA-AAAAAGA
1 --AATGTTGATCCATCTCCTTCTA-TGATGGAATTGA-ACAAAAACA
* * * *
6030487 AACGTTGATCCATCTTCTTTTTTGATGGAATCTG-ACAAAAGA-A
1 AATGTTGATCCATCTCCTTCTATGATGGAAT-TGAACAAAA-ACA
* * *
6030530 TAATGCTGATCCAACTCCTTCTGTGATGGAATT-AAGCAAAAACA
1 -AATGTTGATCCATCTCCTTCTATGATGGAATTGAA-CAAAAACA
6030574 AA
1 AA
6030576 GATGCTCGCC
Statistics
Matches: 144, Mismatches: 19, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
42 1 0.01
43 71 0.49
44 37 0.26
45 34 0.24
46 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (43 bp):
AATGTTGATCCATCTCCTTCTATGATGGAATTGAACAAAAACA
Found at i:6030528 original size:42 final size:43
Alignment explanation
Indices: 6030282--6030561 Score: 151
Period size: 43 Copynumber: 6.4 Consensus size: 43
6030272 GTTTATCTAA
* * *
6030282 CTCCTTTTGTGATGGAATCGAGTAAAAAGAAACGTTGATCCTT
1 CTCCTTTAGTGATGGAATCGAGAAAAAAGAAACGTTGATCCAT
** ** * * * * *
6030325 CTTATTCTA-TGACAGAATCTA-ATAAAAGAGTAATGCTGATCCAA
1 CTCCTT-TAGTGATGGAATCGAGA-AAAA-AGAAACGTTGATCCAT
* * * *
6030369 CTCCTTCTA-TGATAGAATTGA-ACAAAAACAAATGTTGATCCAT
1 CTCCTT-TAGTGATGGAATCGAGA-AAAAAGAAACGTTGATCCAT
* * * * *
6030412 CTCCTTCTA-TAATGGAATCTAATAAAAAAAGTAATGTTGATCCAT
1 CTCCTT-TAGTGATGGAATC-GA-GAAAAAAGAAACGTTGATCCAT
6030457 CTCCTTTAGTGATGGAATCGAGAAAAAAGAAACGTTGATCCAT
1 CTCCTTTAGTGATGGAATCGAGAAAAAAGAAACGTTGATCCAT
* ** * * * * *
6030500 CTTCTTTTTTGATGGAATCTGACAAAAGAA-TAATGCTGATCCAA
1 CTCCTTTAGTGATGGAATC-GAGAAAA-AAGAAACGTTGATCCAT
6030544 CTCCTTCT-GTGATGGAAT
1 CTCCTT-TAGTGATGGAAT
6030562 TAAGCAAAAA
Statistics
Matches: 184, Mismatches: 43, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
43 80 0.43
44 67 0.36
45 36 0.20
46 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (43 bp):
CTCCTTTAGTGATGGAATCGAGAAAAAAGAAACGTTGATCCAT
Found at i:6030571 original size:87 final size:87
Alignment explanation
Indices: 6030183--6030571 Score: 363
Period size: 87 Copynumber: 4.5 Consensus size: 87
6030173 AAGCGAGATG
* * * *
6030183 ATGCTGATCCAATTCC-TCATGTGA-GGAAATCGAGCAAAAA-ACAACATTGATCTATATCCTTC
1 ATGCTGATCCAACTCCTTC-TGTGATGG-AATCGAGCAAAAAGA-AACGTTGATCCATCTCCTTC
* * * *
6030245 TTTGATGGAATCAAACAAATGAGTA
63 TATGATGGAATCTAACAAAAGAATA
* * * * * * **
6030270 ATGTTTATCTAACTCCTTTTGTGATGGAATCGAGTAAAAAGAAACGTTGATCCTTCTTATTCTAT
1 ATGCTGATCCAACTCCTTCTGTGATGGAATCGAGCAAAAAGAAACGTTGATCCATCTCCTTCTAT
** * *
6030335 GACAGAATCTAATAAAAGAGTA
66 GATGGAATCTAACAAAAGAATA
* * * * * *
6030357 ATGCTGATCCAACTCCTTCTATGATAGAATTGAACAAAAACAAATGTTGATCCATCTCCTTCTAT
1 ATGCTGATCCAACTCCTTCTGTGATGGAATCGAGCAAAAAGAAACGTTGATCCATCTCCTTCTAT
* * *
6030422 AATGGAATCTAATAAAAAAAGTA
66 GATGGAATCTAACAAAAGAA-TA
* * * * * *
6030445 ATGTTGATCCATCTCCTT-TAGTGATGGAATCGAGAAAAAAGAAACGTTGATCCATCTTCTTTTT
1 ATGCTGATCCAACTCCTTCT-GTGATGGAATCGAGCAAAAAGAAACGTTGATCCATCTCCTTCTA
*
6030509 TGATGGAATCTGACAAAAGAATA
65 TGATGGAATCTAACAAAAGAATA
**
6030532 ATGCTGATCCAACTCCTTCTGTGATGGAATTAAGCAAAAA
1 ATGCTGATCCAACTCCTTCTGTGATGGAATCGAGCAAAAA
6030572 CAAAGATGCT
Statistics
Matches: 238, Mismatches: 58, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
87 164 0.69
88 74 0.31
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (87 bp):
ATGCTGATCCAACTCCTTCTGTGATGGAATCGAGCAAAAAGAAACGTTGATCCATCTCCTTCTAT
GATGGAATCTAACAAAAGAATA
Found at i:6034902 original size:437 final size:438
Alignment explanation
Indices: 6034076--6034903 Score: 1203
Period size: 438 Copynumber: 1.9 Consensus size: 438
6034066 AGAAAAAACA
* * * * *
6034076 AAACATGCAAACTATGTGGAAGTATTCAAATTTAAAACATACATCACACAACACGTGACATCCGA
1 AAACATGCAAACTATGGGGAAATATTCAAATTTAAAACACACATCACACAAAACGTGACAACCGA
** * * * * *
6034141 TAAACACTAACAATAGTACATCATTAAAACAATTGATGCATTGCAATATATACATTATTAACTAT
66 TAAACACTAACAATAACACATCATTAAAACAATCGATGCATTACAAGATATACATTATTAACCAA
* *
6034206 GTAGAGGTAAATCAATAATTTCACATCATCCAAAAGAAATACTTAGAACACTAATTTAAGTTTAC
131 GTAGAGGCAAATCAATAATTTCACAGCATCCAAAAGAAATACTTAGAACACTAATTTAAGTTTAC
* * * * *
6034271 CAATATTCATTATTAATTCTAAATTAGTGTCATGCAAAAATTCAGATTAATCGGACACCAAATAA
196 CAATAATCATTATTAATTCTAAATTAGTGCCATGCAAAAATTCAGATCAATCGAACACCAAACAA
* * * *
6034336 GGACCTAATTGAACATGCTTTTCTATGGACTAAAATGTAAACAATTCAAAAGTCACATAAGAACA
261 GAACCTAATTGAACATGCTTTTATAGGGACTAAAACGTAAACAATTCAAAAGTCACATAAGAACA
* *
6034401 GCAAACATACAATTGACACCTTAGTTATTAAATTAAGTATATTTAAGAGTGACAAAACAAGTCTC
326 ACAAACATACAATTGACACCTTAGTTATGAAATTAAGTATATTTAAGAGTGACAAAACAAGTCTC
6034466 ATAAAACACACATAATAATATGAACTTGTTGGATATAATAAAAAGCCT
391 ATAAAACACACATAATAATATGAACTTGTTGGATATAATAAAAAGCCT
* * * *
6034514 AAACATGCATACTATGGGGAAATATTCAAATTTAAAACACACATCATACAAAATGT-AGCAACGG
1 AAACATGCAAACTATGGGGAAATATTCAAATTTAAAACACACATCACACAAAACGTGA-CAACCG
* * **
6034578 ATAAACACTAACAATAACACATCATTAAAGCAATCGATGCATTATAAGATATATGTTATTAACCA
65 ATAAACACTAACAATAACACATCATTAAAACAATCGATGCATTACAAGATATACATTATTAACCA
* * * * *
6034643 AGTAGAGGCAAATCGATAATTTTACAGCATCCAAAAGAAGTACTTATAATACTAATTTAAGTTTA
130 AGTAGAGGCAAATCAATAATTTCACAGCATCCAAAAGAAATACTTAGAACACTAATTTAAGTTTA
* * *
6034708 TCAATAATCATTATTAATTCT-TATTAGTGCCATGC-AAAATATCATATCAATCGAACACCAAAC
195 CCAATAATCATTATTAATTCTAAATTAGTGCCATGCAAAAAT-TCAGATCAATCGAACACCAAAC
* *
6034771 AAGAACCTAATTGAACATGTTTTTATAGGGACTAAAACGTAAACAATTCAAAAGTCACATAAGGA
259 AAGAACCTAATTGAACATGCTTTTATAGGGACTAAAACGTAAACAATTCAAAAGTCACATAAGAA
* * *
6034836 CAACAAACATACAATTGCCACTTTAGTTATGAAATTAAGTATATTTAAGAGTGACAAAATAAGTC
324 CAACAAACATACAATTGACACCTTAGTTATGAAATTAAGTATATTTAAGAGTGACAAAACAAGTC
6034901 TCA
389 TCA
6034904 CCAAATTCCA
Statistics
Matches: 342, Mismatches: 46, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
436 5 0.01
437 153 0.45
438 184 0.54
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (438 bp):
AAACATGCAAACTATGGGGAAATATTCAAATTTAAAACACACATCACACAAAACGTGACAACCGA
TAAACACTAACAATAACACATCATTAAAACAATCGATGCATTACAAGATATACATTATTAACCAA
GTAGAGGCAAATCAATAATTTCACAGCATCCAAAAGAAATACTTAGAACACTAATTTAAGTTTAC
CAATAATCATTATTAATTCTAAATTAGTGCCATGCAAAAATTCAGATCAATCGAACACCAAACAA
GAACCTAATTGAACATGCTTTTATAGGGACTAAAACGTAAACAATTCAAAAGTCACATAAGAACA
ACAAACATACAATTGACACCTTAGTTATGAAATTAAGTATATTTAAGAGTGACAAAACAAGTCTC
ATAAAACACACATAATAATATGAACTTGTTGGATATAATAAAAAGCCT
Found at i:6042875 original size:22 final size:22
Alignment explanation
Indices: 6042815--6042883 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
6042805 TGACCTATTA
* * *
6042815 ACCGGTCTAATCGTTAACTTTG
1 ACCGGTCTGACCGTTGACTTTG
**
6042837 ATCC-GTCTGACTTTTGACTTTG
1 A-CCGGTCTGACCGTTGACTTTG
6042859 ACCGGTCTGACCGTTGACTGTTG
1 ACCGGTCTGACCGTTGACT-TTG
6042882 AC
1 AC
6042884 TTTGATAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.05
22 28 0.76
23 7 0.19
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (22 bp):
ACCGGTCTGACCGTTGACTTTG
Found at i:6045496 original size:19 final size:20
Alignment explanation
Indices: 6045472--6045526 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 20
6045462 AATGCAAAAT
6045472 GGTATCGATACCATAATA-G
1 GGTATCGATACCATAATATG
*
6045491 GGTATCGATACCATAGTATG
1 GGTATCGATACCATAATATG
6045511 GTAGTATCGATACCAT
1 G--GTATCGATACCAT
6045527 GGCAGGGGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 17 0.53
20 2 0.06
22 13 0.41
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCATAATATG
Found at i:6045942 original size:58 final size:58
Alignment explanation
Indices: 6045874--6046210 Score: 550
Period size: 58 Copynumber: 5.8 Consensus size: 58
6045864 ATGGCACTAG
* *
6045874 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTATATGAATTTCCGTATTGTGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * *
6045932 ATGTGTAAAAAGTTAAGAAATTCGTACTAAGTGTTTGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
6045990 GTGTGCAAAAAGTTAAGAAATTCGTACTAAGTGTATGAATTTCCGTATTGGACACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
6046048 GTGTGCAAAAAGTTAA-AAATTCGTACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
*
6046105 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
6046163 GTGAGAAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTTCCGTAT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
6046211 GGGAAATATG
Statistics
Matches: 261, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
57 56 0.21
58 205 0.79
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (58 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:6046164 original size:173 final size:174
Alignment explanation
Indices: 6045874--6046210 Score: 559
Period size: 173 Copynumber: 1.9 Consensus size: 174
6045864 ATGGCACTAG
* *
6045874 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTATATGAATTTCCGTATTGTGCACTTTATGTGTA
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTATATGAATTTCCGTATTGGGCACTTTATGTGCA
* * * *
6045939 AAAAGTTAAGAAATTCGTACTAAGTGTTTGAATTTCCGTATTGGGCACTTTGTGTGCAAAAAGTT
66 AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGAGAAAAAAGTT
*
6046004 AAGAAATTCGTACTAAGTGTATGAATTTCCGTATTGGACACTTT
131 AAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGACACTTT
* * *
6046048 GTGTGCAAAAAGTTAA-AAATTCGTACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCA
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTATATGAATTTCCGTATTGGGCACTTTATGTGCA
*
6046112 AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGAGAAAAAAGTT
66 AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGAGAAAAAAGTT
*
6046177 AAGAGATTCATACTAAGTGTATGAATTTCCGTAT
131 AAGAAATTCATACTAAGTGTATGAATTTCCGTAT
6046211 GGGAAATATG
Statistics
Matches: 151, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
173 135 0.89
174 16 0.11
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (174 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTATATGAATTTCCGTATTGGGCACTTTATGTGCA
AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGAGAAAAAAGTT
AAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGACACTTT
Found at i:6046223 original size:115 final size:116
Alignment explanation
Indices: 6045874--6046210 Score: 559
Period size: 115 Copynumber: 2.9 Consensus size: 116
6045864 ATGGCACTAG
* * * *
6045874 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTATATGAATTTCCGTATTGTGCACTTTATGTGTA
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGAA
*
6045939 AAAAGTTAAGAAATTCGTACTAAGTGTTTGAATTTCCGTATTGGGCACTTT
66 AAAAGTTAAGAAATTCGTACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
6045990 GTGTGCAAAAAGTTAAGAAATTCGTACTAAGTGTATGAATTTCCGTATTGGACACTTTGTGTGCA
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGAA
6046055 AAAAGTTAA-AAATTCGTACTAAGTGTATGAATTTCCGTATTGGGCACTTT
66 AAAAGTTAAGAAATTCGTACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
6046105 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGAGAA
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGAA
* *
6046170 AAAAGTTAAGAGATTCATACTAAGTGTATGAATTTCCGTAT
66 AAAAGTTAAGAAATTCGTACTAAGTGTATGAATTTCCGTAT
6046211 GGGAAATATG
Statistics
Matches: 206, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
115 109 0.53
116 97 0.47
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (116 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGAA
AAAAGTTAAGAAATTCGTACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:6057104 original size:132 final size:131
Alignment explanation
Indices: 6056851--6057204 Score: 468
Period size: 132 Copynumber: 2.7 Consensus size: 131
6056841 TAGAATGTGT
** * * *
6056851 TGGATTTGAGTGAAATGAAAATGTCGATCCATCTCCTTCTGTGATGGAATCGAACGAGATGTC--
1 TGGATTTGAGCAAAATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGT
* * *
6056914 GATG--CTACCTCCATCTGTGATAGAATCGAGTAAAAAGTTGATGTTAATCCAACTCCTTATGCG
66 GATGATCTACCTCCTTCTGTGATAGAATCAAGTAAAAAGTTGATGTTAATCCAACACCTTATGCG
6056977 A
131 A
*
6056978 TGGATTTGAGCAAAAT-AAAATGTCGATCCACCTCATTCTGTGATAGAATCGAACGAGATGTCGG
1 TGGATTTGAGCAAAATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTC-G
* * * *
6057042 TGTTTGATCTACCTCCTTCTGTGACAGAATCAAGTAAAAAGTTTATGTTGATCCAACACCTTATG
65 TG-ATGATCTACCTCCTTCTGTGATAGAATCAAGTAAAAAGTTGATGTTAATCCAACACCTTATG
*
6057107 TGA
129 CGA
* *
6057110 TGGATTTGAGCAAAATAAAAATATCGATCCACCTTCA-TCTGTGATGGTATCGAACGAGATGTCA
1 TGGATTTGAGCAAAATAAAAATGTCGATCCACC-TCATTCTGTGATGGAATCGAACGAGATGTC-
* *
6057174 GTGCTGATCTACCTCCTTCTATGATAGAATC
64 GTGATGATCTACCTCCTTCTGTGATAGAATC
6057205 GATCCAAAGT
Statistics
Matches: 199, Mismatches: 20, Indels: 11
0.87 0.09 0.05
Matches are distributed among these distances:
126 43 0.22
127 14 0.07
129 1 0.01
130 2 0.01
132 94 0.47
133 42 0.21
134 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (131 bp):
TGGATTTGAGCAAAATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTCGT
GATGATCTACCTCCTTCTGTGATAGAATCAAGTAAAAAGTTGATGTTAATCCAACACCTTATGCG
A
Found at i:6057559 original size:91 final size:91
Alignment explanation
Indices: 6057449--6057620 Score: 263
Period size: 91 Copynumber: 1.9 Consensus size: 91
6057439 TGATAGGTCG
* * *
6057449 AACAAGCTCTTCTCATTATGAACTTCTTATCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCT
1 AACAAGCTCTTCTCATTATGAACTTCTTATCCCTTATCGGATGAGTTATTCTCATTATGAACTCT
* *
6057514 ATGCTGGAAATGTTGAGTCAATGTTA
66 ATACTGGAAATATTGAGTCAATGTTA
* * *
6057540 AACAAGTTCTTCTCATTATGAACTTTTTCTCCCTTATCGGATGAGTTATTCTCATTATGAACTCT
1 AACAAGCTCTTCTCATTATGAACTTCTTATCCCTTATCGGATGAGTTATTCTCATTATGAACTCT
*
6057605 CTACTGGAAATATTGA
66 ATACTGGAAATATTGA
6057621 TTCCTCGAGT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (91 bp):
AACAAGCTCTTCTCATTATGAACTTCTTATCCCTTATCGGATGAGTTATTCTCATTATGAACTCT
ATACTGGAAATATTGAGTCAATGTTA
Found at i:6057599 original size:226 final size:228
Alignment explanation
Indices: 6057321--6057740 Score: 607
Period size: 226 Copynumber: 1.9 Consensus size: 228
6057311 CGAACAAACA
* * *
6057321 CTTCTCATTATAAGCTTCTTCTCCCTCTGTCAGATGAGTTATTCTCATTATGAACTCTCCATTTG
1 CTTCTCATTATAAGCTTCTTCTCCCTCTATCAGATGAGTTATTCTCATTATGAACTCTCCACTGG
* *
6057386 AAATATCAATCCCTCAAGCGAGGCGTAACT-ATTTCGAAATG-TCATGAATCGAGTGATAGGTCG
66 AAATATCAATCCCTCAAGCGAGGCGTAACTGA-TTCGAAATGTTCA-GAATAGAGCGATAGGTCG
6057449 AACAAGCTCTTCTCATTATGAACTTCTTATCCC-TTGTTGGATGAGTTCTTCTCATTATGAACTC
129 AACAAGCTCTTCTCATTATGAACTTCTTATCCCTTTGTTGGATGAGTTCTTCTCATTATGAACTC
6057513 TATGCTGGAAATGTTGAGTCAATGTTAAACAAGTT
194 TATGCTGGAAATGTTGAGTCAATGTTAAACAAGTT
* * *
6057548 CTTCTCATTATGAA-CTTTTTCTCCCT-TATCGGATGAGTTATTCTCATTATGAACTCTCTACTG
1 CTTCTCATTAT-AAGCTTCTTCTCCCTCTATCAGATGAGTTATTCTCATTATGAACTCTCCACTG
** * * * * ** *
6057611 GAAATATTGATTCCTCGAGTGAGGTGTTGCTGATTCGAAATGTTGAGAATAGAGCGATAGGTCGA
65 GAAATATCAATCCCTCAAGCGAGGCGTAACTGATTCGAAATGTTCAGAATAGAGCGATAGGTCGA
* *
6057676 ACAAGCTCTTCTTATTATGAACTTCTTCTCCCTTTGTTGGATGAGTTCTTCTCATTATGAACTCT
130 ACAAGCTCTTCTCATTATGAACTTCTTATCCCTTTGTTGGATGAGTTCTTCTCATTATGAACTCT
6057741 CCATTTGAAT
Statistics
Matches: 170, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
226 111 0.65
227 57 0.34
228 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (228 bp):
CTTCTCATTATAAGCTTCTTCTCCCTCTATCAGATGAGTTATTCTCATTATGAACTCTCCACTGG
AAATATCAATCCCTCAAGCGAGGCGTAACTGATTCGAAATGTTCAGAATAGAGCGATAGGTCGAA
CAAGCTCTTCTCATTATGAACTTCTTATCCCTTTGTTGGATGAGTTCTTCTCATTATGAACTCTA
TGCTGGAAATGTTGAGTCAATGTTAAACAAGTT
Found at i:6057707 original size:135 final size:134
Alignment explanation
Indices: 6057539--6057872 Score: 409
Period size: 135 Copynumber: 2.5 Consensus size: 134
6057529 AGTCAATGTT
* * * * *
6057539 AAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTTATCGGATGAGTTATTCTCATTATGAACTC
1 AAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTC
* ** * * * ** *
6057604 TCTACTGGAAATATTGATTCCTCGAGT-GAGGTGTTGCTGATTCGAAATGTTGAGAATAGAGCGA
66 TCCACTGGAAATATCAATCCCTC-AATCGAGGCGTCACTGA-TCGAAATGTCGAGAATAGAGCGA
6057668 TAGGTC
129 TAGGTC
* *
6057674 GAACAAGCTCTTCTTATTATGAACTTCTTCTCCCTTTGTTGGATGAGTTCTTCTCATTATGAACT
1 AAACAAGCTCTTCTCATTATGAACTTCTTCTCCC-TTGTTGGATGAGTTCTTCTCATTATGAACT
* * * * * * *
6057739 CTCCATTTGAATTGTCAATCCCTCAATCGAGGCGTCACTGATCGAAATGTCGTGAATCGAGTGAT
65 CTCCACTGGAAATATCAATCCCTCAATCGAGGCGTCACTGATCGAAATGTCGAGAATAGAGCGAT
6057804 AGGTC
130 AGGTC
* *
6057809 AAATAAACTCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACT
1 AAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACT
6057873 TCTTCTCCCT
Statistics
Matches: 170, Mismatches: 27, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
134 30 0.18
135 87 0.51
136 53 0.31
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (134 bp):
AAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTC
TCCACTGGAAATATCAATCCCTCAATCGAGGCGTCACTGATCGAAATGTCGAGAATAGAGCGATA
GGTC
Found at i:6057839 original size:17 final size:17
Alignment explanation
Indices: 6057817--6057879 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
6057807 TCAAATAAAC
6057817 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
* * *
6057834 TCTTCTCCCTTGTTGGATGAGT
1 TCTTCT-CATT-AT-GA--ACT
6057856 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
6057873 TCTTCTC
1 TCTTCTC
6057880 CCTTGTTGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 15 0.43
18 3 0.09
19 3 0.09
20 3 0.09
21 3 0.09
22 8 0.23
ACGTcount: A:0.16, C:0.25, G:0.11, T:0.48
Consensus pattern (17 bp):
TCTTCTCATTATGAACT
Found at i:6057858 original size:22 final size:22
Alignment explanation
Indices: 6057833--6057901 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
6057823 CATTATGAAC
6057833 TTCTTCTCCCTTGTTGGATGAG
1 TTCTTCTCCCTTGTTGGATGAG
* * *
6057855 TTCTTCT-CATT-AT-GA--AC
1 TTCTTCTCCCTTGTTGGATGAG
6057872 TTCTTCTCCCTTGTTGGATGAG
1 TTCTTCTCCCTTGTTGGATGAG
6057894 TTCTTCTC
1 TTCTTCTC
6057902 ATTATGAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 8 0.22
18 3 0.08
19 3 0.08
20 3 0.08
21 3 0.08
22 16 0.44
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.48
Consensus pattern (22 bp):
TTCTTCTCCCTTGTTGGATGAG
Found at i:6057871 original size:39 final size:39
Alignment explanation
Indices: 6057817--6057911 Score: 190
Period size: 39 Copynumber: 2.4 Consensus size: 39
6057807 TCAAATAAAC
6057817 TCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGT
1 TCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGT
6057856 TCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGT
1 TCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGT
6057895 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
6057912 CTCTGCTGGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (39 bp):
TCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGT
Found at i:6058502 original size:31 final size:30
Alignment explanation
Indices: 6058452--6058569 Score: 76
Period size: 31 Copynumber: 3.6 Consensus size: 30
6058442 GGGAGACCAA
* *
6058452 ATTTTTGTTTAAAGGGAAACATATTCAAAG
1 ATTTTTGTTTCAAGAGAAACATATTCAAAG
* *
6058482 ATTTTGTGTTTCAAGAGAAAC-TGTCTCGAGGGAG
1 ATTTT-TGTTTCAAGAGAAACATAT-TC-A--AAG
* * *
6058516 ACTAAATTTTGTTTCAACATAAACATATTCAAAA
1 A-T---TTTTGTTTCAAGAGAAACATATTCAAAG
6058550 ATTTTGTGTTTCAAGAGAAA
1 ATTTT-TGTTTCAAGAGAAA
6058570 GTGTCTCAAG
Statistics
Matches: 66, Mismatches: 11, Indels: 21
0.67 0.11 0.21
Matches are distributed among these distances:
30 10 0.15
31 27 0.41
32 1 0.02
33 1 0.02
34 5 0.08
35 1 0.02
36 1 0.02
37 15 0.23
38 5 0.08
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (30 bp):
ATTTTTGTTTCAAGAGAAACATATTCAAAG
Found at i:6058563 original size:68 final size:68
Alignment explanation
Indices: 6058315--6058607 Score: 354
Period size: 68 Copynumber: 4.2 Consensus size: 68
6058305 ATAAAATTTA
* * * *
6058315 TTGTTTAAAGGGAAAACATGTTCAAAGATTTTGTGTTTCAAGAGAAATTGTCTCATGGGAGACAA
1 TTGTTTCAAGGG-AAACATATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
6058380 AATT
65 AATT
* *
6058384 TTGTTTCAAGGGAAACA-ATTTCAAAGCTTTTTTTGTGTTTCAAGAGAAACTATCTCAAGGGAGA
1 TTGTTTCAAGGGAAACATA-TTCAAAG---ATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGA
*
6058448 CCAAATTT
62 -CAAAATT
* * *
6058456 TTGTTTAAAGGGAAACATATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCGAGGGAGACTAA
1 TTGTTTCAAGGGAAACATATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
6058521 ATT
66 ATT
*** * * *
6058524 TTGTTTCAACATAAACATATTCAAAAATTTTGTGTTTCAAGAGAAAGTGTCTCAAGAGAGACAAA
1 TTGTTTCAAGGGAAACATATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
**
6058589 ACA
66 ATT
*
6058592 TTGTTTCAAGAGAAAC
1 TTGTTTCAAGGGAAAC
6058608 TTTCTCAAGG
Statistics
Matches: 192, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
68 88 0.46
69 43 0.22
71 31 0.16
72 29 0.15
73 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (68 bp):
TTGTTTCAAGGGAAACATATTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
ATT
Found at i:6058639 original size:36 final size:37
Alignment explanation
Indices: 6058556--6058643 Score: 142
Period size: 37 Copynumber: 2.4 Consensus size: 37
6058546 AAAAATTTTG
*
6058556 TGTTTCAAGAGAAAGTGTCTCAAGAGAGACAAAACAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACAT
* *
6058593 TGTTTCAAGAGAAACTTTCTCAAGGGAGACAAAAC-T
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACAT
6058629 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
6058644 AATCTCAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 16 0.33
37 32 0.67
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACAT
Found at i:6061154 original size:21 final size:21
Alignment explanation
Indices: 6061129--6061168 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6061119 TTGAGATGCA
6061129 ATGTATATCATGC-AATGCACG
1 ATGTATAT-ATGCTAATGCACG
6061150 ATGTATATATGCTAATGCA
1 ATGTATATATGCTAATGCA
6061169 AAAAGGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
ATGTATATATGCTAATGCACG
Found at i:6063737 original size:25 final size:23
Alignment explanation
Indices: 6063690--6063752 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 23
6063680 CTATGAAACA
*
6063690 AAATAATTAAAAATAAACTTAATT
1 AAATAATTAAAAATAAACATAA-T
*
6063714 GAAATAATT-AAAATAAAAGATAAT
1 -AAATAATTAAAAAT-AAACATAAT
*
6063738 AAAAAATTAAAAATA
1 AAATAATTAAAAATA
6063753 TAAAATAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 8 0.24
24 11 0.33
25 14 0.42
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (23 bp):
AAATAATTAAAAATAAACATAAT
Found at i:6065168 original size:44 final size:44
Alignment explanation
Indices: 6065120--6065304 Score: 108
Period size: 44 Copynumber: 4.2 Consensus size: 44
6065110 ATCTACCTCT
6065120 TTATGTGATAGAATCGAGCAAAACGTTGATGCTGATCCAACTCC
1 TTATGTGATAGAATCGAGCAAAACGTTGATGCTGATCCAACTCC
* * * * * ** * *
6065164 TTATGCGATGGATTTGAG-AAAA-ATAAAATGTTGATCCACCTCC
1 TTATGTGATAGAATCGAGCAAAACGT-TGATGCTGATCCAACTCC
* * * * * * * * *
6065207 TTCTCTGATAGAATCGAACGAGATATCGGTG-T-TTGAACTACCTCC
1 TTATGTGATAGAATCGAGC-A-A-AACGTTGATGCTGATCCAACTCC
* * * *
6065252 TTCTGTGATAGAATCAAGAAAAAAGTTGATGCTGATCCAACTCC
1 TTATGTGATAGAATCGAGCAAAACGTTGATGCTGATCCAACTCC
6065296 TTATGTGAT
1 TTATGTGAT
6065305 GGATTTGAGC
Statistics
Matches: 98, Mismatches: 35, Indels: 16
0.66 0.23 0.11
Matches are distributed among these distances:
42 5 0.05
43 31 0.32
44 32 0.33
45 27 0.28
46 2 0.02
47 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (44 bp):
TTATGTGATAGAATCGAGCAAAACGTTGATGCTGATCCAACTCC
Found at i:6065280 original size:132 final size:132
Alignment explanation
Indices: 6065052--6065398 Score: 437
Period size: 132 Copynumber: 2.6 Consensus size: 132
6065042 GATTTAAGTG
* * * * * *
6065052 AAATGAAATTGTCGATCCATCTCGTTCTGTGATGGAATCGAACGAGATATCGATACT-AATCTAC
1 AAATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATATCGGTGCTGAA-CTAC
* * * *
6065116 CTCTTTATGTGATAGAATCGAGCAAAACGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGA
65 CTCTTTCTGTGATAGAATCAAGAAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGA
6065181 GAA
130 GAA
* * * * *
6065184 AAAT-AAAATGTTGATCCACCTCCTTCTCTGATAGAATCGAACGAGATATCGGTGTTTGAACTAC
1 AAATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATATCGGTG-CTGAACTAC
* *
6065248 CTCCTTCTGTGATAGAATCAAGAAAAAAGTTGATGCTGATCCAACTCCTTATGTGATGGATTTGA
65 CTCTTTCTGTGATAGAATCAAGAAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGA
**
6065313 GCG
130 GAA
* * * * *
6065316 AAATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCAAATGAGATGTCAGTGCTGATCTACC
1 AAATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATATCGGTGCTGAACTACC
*
6065381 TCTTTCTGTGAAAGAATC
66 TCTTTCTGTGATAGAATC
6065399 GAACCAAGGT
Statistics
Matches: 183, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
131 42 0.23
132 97 0.53
133 44 0.24
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (132 bp):
AAATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATATCGGTGCTGAACTACC
TCTTTCTGTGATAGAATCAAGAAAAAAGTTGATGCTGATCCAACTCCTTATGCGATGGATTTGAG
AA
Found at i:6065654 original size:136 final size:135
Alignment explanation
Indices: 6065411--6065759 Score: 410
Period size: 136 Copynumber: 2.6 Consensus size: 135
6065401 ACCAAGGTTA
* * * * *
6065411 AACAAGTTCTTCTCAATATGAACTTCTTATCCCTTATCGGATGAGTTCTACTCATTATGAACTCT
1 AACAAGCTCTTCTCATTATGAACTTCTTCTCCTTTATCGGATGAGTTCTTCTCATTATGAACTCT
* *** * ** * ** * *
6065476 TCACTGGAAATGTTGTTCCCTCGAGTGAGGTGTTGCTGATTCGAAATGCCGTGAATCGAGCGATA
66 CCACTGGAAATGTCAATCCCTCAAGCAAGGCGTCACTGATTCGAAATGCAGTGAATCAAGCGATA
6065541 GGTCG
131 GGTCG
* * *
6065546 AACAAGCTCTTCTCATTATGAGCTTCTTCTCCTTCTATCAGATGAGTTATTCTCATTATGAACTC
1 AACAAGCTCTTCTCATTATGAACTTCTTCTCCTT-TATCGGATGAGTTCTTCTCATTATGAACTC
* * * * *
6065611 TCCATTTGAAATGTCAATCCCTCAAGCAAGGCGTCACTGATTCGAAATGTAGTGAATTAAGTGAT
65 TCCACTGGAAATGTCAATCCCTCAAGCAAGGCGTCACTGATTCGAAATGCAGTGAATCAAGCGAT
6065676 AGGTCG
130 AGGTCG
* * * *
6065682 AACAAGCTCTTTTCATTATGAACTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCT
1 AACAAGCTCTTCTCATTATGAACTTCTTCTCCTTTATCGGATGAGTTCTTCTCATTATGAACTCT
**
6065747 CTGCTGGAAATGT
66 CCACTGGAAATGT
6065760 TTAGTCAAGG
Statistics
Matches: 177, Mismatches: 36, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
135 65 0.37
136 112 0.63
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (135 bp):
AACAAGCTCTTCTCATTATGAACTTCTTCTCCTTTATCGGATGAGTTCTTCTCATTATGAACTCT
CCACTGGAAATGTCAATCCCTCAAGCAAGGCGTCACTGATTCGAAATGCAGTGAATCAAGCGATA
GGTCG
Found at i:6065974 original size:136 final size:135
Alignment explanation
Indices: 6065780--6066106 Score: 449
Period size: 136 Copynumber: 2.4 Consensus size: 135
6065770 TTGAAGAAGT
* * * *
6065780 TCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTCATTATAAACTCTCCACTGG
1 TCTTCTTATTATGAACTTCTTCTCCCTTATTGGATGAGTTCTTCTCATTATGAACTCTCCACTGA
* * * ** ** *
6065845 AAATGTT-GATCCCTCGAGTGAGGTATTGCTGATTTGAAATGCCGTGAATCGAGCGATAGGTCGA
66 AAAT-TTCAATCCCTCAAGCGAGGTATCACAAATTCGAAATGCCGTGAATCGAGCGATAGGTCGA
6065909 ACAAGC
130 ACAAGC
* * *
6065915 TCTTCTTATTATGAACTTCTTCTCCCTCTATTGGATGAGTTTTTCTCATTATGAACTCTCCATTT
1 TCTTCTTATTATGAACTTCTTCTCCCT-TATTGGATGAGTTCTTCTCATTATGAACTCTCCACTG
* * *
6065980 AAAATTTCAATCCCTCAAGCGAGGTGTCACAAATTCGAAATGTCGTGAATCGAGTGATAGGTCGA
65 AAAATTTCAATCCCTCAAGCGAGGTATCACAAATTCGAAATGCCGTGAATCGAGCGATAGGTCGA
6066045 ACAAGC
130 ACAAGC
* *
6066051 TCTTCTTATTATGAACTTGTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACT
1 TCTTCTTATTATGAACTTCTTCTCCCTTATTGGATGAGTTCTTCTCATTATGAACT
6066107 TCTTCTCCCT
Statistics
Matches: 169, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
135 55 0.33
136 114 0.67
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (135 bp):
TCTTCTTATTATGAACTTCTTCTCCCTTATTGGATGAGTTCTTCTCATTATGAACTCTCCACTGA
AAATTTCAATCCCTCAAGCGAGGTATCACAAATTCGAAATGCCGTGAATCGAGCGATAGGTCGAA
CAAGC
Found at i:6066068 original size:362 final size:362
Alignment explanation
Indices: 6065403--6066106 Score: 1158
Period size: 362 Copynumber: 1.9 Consensus size: 362
6065393 AGAATCGAAC
6065403 CAAGGTTAAACAAGTTCTTCTCAATATGAACTTCTTATCCCTTATCGGATGAGTTCTACTCATTA
1 CAAGGTTAAACAAGTTCTTCTCAATATGAACTTCTTATCCCTTATCGGATGAGTTCTACTCATTA
* * * *
6065468 TGAACTCTTCACTGGAAATGTTGTTCCCTCGAGTGAGGTGTTGCTGATTCGAAATGCCGTGAATC
66 TAAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTATTGCTGATTCGAAATGCCGTGAATC
* *
6065533 GAGCGATAGGTCGAACAAGCTCTTCTCATTATGAGCTTCTTCTCCTTCTATCAGATGAGTTATTC
131 GAGCGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTATTC
* **
6065598 TCATTATGAACTCTCCATTTGAAATGTCAATCCCTCAAGCAAGGCGTCACTGATTCGAAATGTAG
196 TCATTATGAACTCTCCATTTAAAATGTCAATCCCTCAAGCAAGGCGTCACAAATTCGAAATGTAG
*
6065663 TGAATTAAGTGATAGGTCGAACAAGCTCTTTTCATTATGAACTTCTTCTCCCTTGTTGGATGAGT
261 TGAATCAAGTGATAGGTCGAACAAGCTCTTTTCATTATGAACTTCTTCTCCCTTGTTGGATGAGT
6065728 TCTTCTCATTATGAACTCTCTGCTGGAAATGTTTAGT
326 TCTTCTCATTATGAACTCTCTGCTGGAAATGTTTAGT
* * * * *
6065765 CAAGGTTGAAGAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTCATTA
1 CAAGGTTAAACAAGTTCTTCTCAATATGAACTTCTTATCCCTTATCGGATGAGTTCTACTCATTA
*
6065830 TAAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTATTGCTGATTTGAAATGCCGTGAATC
66 TAAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTATTGCTGATTCGAAATGCCGTGAATC
* ** *
6065895 GAGCGATAGGTCGAACAAGCTCTTCTTATTATGAACTTCTTCTCCCTCTATTGGATGAGTTTTTC
131 GAGCGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTATTC
* * * *
6065960 TCATTATGAACTCTCCATTTAAAATTTCAATCCCTCAAGCGAGGTGTCACAAATTCGAAATGTCG
196 TCATTATGAACTCTCCATTTAAAATGTCAATCCCTCAAGCAAGGCGTCACAAATTCGAAATGTAG
* *
6066025 TGAATCGAGTGATAGGTCGAACAAGCTCTTCTT-ATTATGAACTTGTTCTCCCTTGTTGGATGAG
261 TGAATCAAGTGATAGGTCGAACAAGCTCTT-TTCATTATGAACTTCTTCTCCCTTGTTGGATGAG
6066089 TTCTTCTCATTATGAACT
325 TTCTTCTCATTATGAACT
6066107 TCTTCTCCCT
Statistics
Matches: 315, Mismatches: 26, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
362 313 0.99
363 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (362 bp):
CAAGGTTAAACAAGTTCTTCTCAATATGAACTTCTTATCCCTTATCGGATGAGTTCTACTCATTA
TAAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTATTGCTGATTCGAAATGCCGTGAATC
GAGCGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTATTC
TCATTATGAACTCTCCATTTAAAATGTCAATCCCTCAAGCAAGGCGTCACAAATTCGAAATGTAG
TGAATCAAGTGATAGGTCGAACAAGCTCTTTTCATTATGAACTTCTTCTCCCTTGTTGGATGAGT
TCTTCTCATTATGAACTCTCTGCTGGAAATGTTTAGT
Found at i:6066104 original size:39 final size:39
Alignment explanation
Indices: 6066051--6066126 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
6066041 TCGAACAAGC
* *
6066051 TCTTCTTATTATGAACTTGTTCTCCCTTGTTGGATGAGT
1 TCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGT
*
6066090 TCTTCTCATTATGAACTTCTTCTCCCTTTTTGGATGA
1 TCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGA
6066127 AAATGAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.16, C:0.21, G:0.14, T:0.49
Consensus pattern (39 bp):
TCTTCTCATTATGAACTTCTTCTCCCTTGTTGGATGAGT
Found at i:6066305 original size:71 final size:68
Alignment explanation
Indices: 6066184--6066363 Score: 238
Period size: 71 Copynumber: 2.6 Consensus size: 68
6066174 AAATTTCTTG
* *
6066184 TTTCAAGGGAAAC-ATGTTCAAAGATTTTGTGTTTCAAAAGAAACTGTCTCAAGGCAGACAAAAT
1 TTTCAAGGGAAACAAT-TTCAAAGATTTTGTGTTTCAAGAGAAACTATCTCAAGGCAGACAAAAT
6066248 TTTA
65 TTTA
* * *
6066252 TTTCAAGGGAAACAATTTCAAAGGTTTTTTTGTGTTTCAAGAGAAACTATCTCAAGGGAGACCAA
1 TTTCAAGGGAAACAATTTCAAA-G--ATTTTGTGTTTCAAGAGAAACTATCTCAAGGCAGACAAA
*
6066317 ATTTTG
63 ATTTTA
*
6066323 TTTCAAGAGAAACAGA-TTCAAAGATTTTGTGTTTCAAGAGA
1 TTTCAAGGGAAACA-ATTTCAAAGATTTTGTGTTTCAAGAGA
6066364 TACCAAATTT
Statistics
Matches: 99, Mismatches: 8, Indels: 10
0.85 0.07 0.09
Matches are distributed among these distances:
68 36 0.36
69 3 0.03
70 1 0.01
71 58 0.59
72 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (68 bp):
TTTCAAGGGAAACAATTTCAAAGATTTTGTGTTTCAAGAGAAACTATCTCAAGGCAGACAAAATT
TTA
Found at i:6066358 original size:31 final size:30
Alignment explanation
Indices: 6066321--6066419 Score: 106
Period size: 31 Copynumber: 3.5 Consensus size: 30
6066311 GACCAAATTT
6066321 TGTTTCAAGAGAAACAGATTCAAAGATTTTG
1 TGTTTCAAGAGAAACA-ATTCAAAGATTTTG
*
6066352 TGTTTCAAGAGATAC----C-AA-A-TTT-
1 TGTTTCAAGAGAAACAATTCAAAGATTTTG
*
6066374 TGTTTCAAGGGAAACAAATTCAAAGATTTTG
1 TGTTTCAAGAGAAAC-AATTCAAAGATTTTG
6066405 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
6066420 TGTCTCAAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
22 13 0.24
23 3 0.05
24 1 0.02
25 2 0.04
26 1 0.02
27 1 0.02
28 2 0.04
29 1 0.02
30 3 0.05
31 28 0.51
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.32
Consensus pattern (30 bp):
TGTTTCAAGAGAAACAATTCAAAGATTTTG
Found at i:6066369 original size:53 final size:53
Alignment explanation
Indices: 6066303--6066416 Score: 192
Period size: 53 Copynumber: 2.2 Consensus size: 53
6066293 AGAAACTATC
* *
6066303 TCAAGGGAGACCAAATTTTGTTTCAAGAGAAACAGATTCAAAGATTTTGTGTT
1 TCAAGAGAGACCAAATTTTGTTTCAAGAGAAACAAATTCAAAGATTTTGTGTT
* *
6066356 TCAAGAGATACCAAATTTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTGTT
1 TCAAGAGAGACCAAATTTTGTTTCAAGAGAAACAAATTCAAAGATTTTGTGTT
6066409 TCAAGAGA
1 TCAAGAGA
6066417 AACTGTCTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (53 bp):
TCAAGAGAGACCAAATTTTGTTTCAAGAGAAACAAATTCAAAGATTTTGTGTT
Found at i:6066393 original size:21 final size:22
Alignment explanation
Indices: 6066352--6066393 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6066342 AAAGATTTTG
*
6066352 TGTTTCAAGAGATACCAAATTT
1 TGTTTCAAGAGATAACAAATTT
*
6066374 TGTTTCAAGGGA-AACAAATT
1 TGTTTCAAGAGATAACAAATT
6066394 CAAAGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (22 bp):
TGTTTCAAGAGATAACAAATTT
Found at i:6066520 original size:36 final size:36
Alignment explanation
Indices: 6066405--6066634 Score: 286
Period size: 36 Copynumber: 6.4 Consensus size: 36
6066395 AAAGATTTTG
*
6066405 TGTTTCAAGAGAAACTGTCTCAAGAAAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
*
6066442 TGTTTCAAGAGAAACTGTCTCAAAAGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
6066476 TGTTTCAAGGGAATCTGTCTCATGAGA-AGCAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGA-CAAAATT
* *
6066512 CGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
6066548 TGTTTAAAGATAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * **
6066584 CATTTCAAGAGAAACTGTCTCAAGGGAGACAAAACG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
6066620 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
6066635 AATCTCAAAG
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
33 1 0.01
34 26 0.16
35 2 0.01
36 109 0.65
37 29 0.17
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:6066759 original size:36 final size:37
Alignment explanation
Indices: 6066679--6066761 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 37
6066669 ACAATTTCAT
*
6066679 AATTTGTATTTTAAAGAAAAATATCTCCAATGAGATGA
1 AATTTGT-TTTGAAAGAAAAATATCTCCAATGAGATGA
*
6066717 AA-TTGTTTTGAAAGAAACA-ATCT-CAACTGAGAT-A
1 AATTTGTTTTGAAAGAAAAATATCTCCAA-TGAGATGA
6066751 AACTTTGTTTT
1 AA-TTTGTTTT
6066762 AAGTGAAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
34 6 0.15
35 10 0.25
36 18 0.45
37 4 0.10
38 2 0.05
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (37 bp):
AATTTGTTTTGAAAGAAAAATATCTCCAATGAGATGA
Found at i:6069237 original size:28 final size:28
Alignment explanation
Indices: 6069172--6069243 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
6069162 TATATATGCT
* * *
6069172 AATGCAAAAAGGCAAAAATGTGGATGCA
1 AATGCAAAGATGCAAAAATGTGGATGAA
6069200 AATGCAAAGATGCAAAAATG-GGAGTGTAA
1 AATGCAAAGATGCAAAAATGTGGA-TG-AA
6069229 AATGC-AAGATGCAAA
1 AATGCAAAGATGCAAA
6069244 TGCAGCAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 3 0.08
28 30 0.77
29 6 0.15
ACGTcount: A:0.50, C:0.10, G:0.25, T:0.15
Consensus pattern (28 bp):
AATGCAAAGATGCAAAAATGTGGATGAA
Found at i:6073007 original size:14 final size:14
Alignment explanation
Indices: 6072988--6073017 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6072978 TTGATCTTTT
6072988 AAGTTTTATTAAGA
1 AAGTTTTATTAAGA
*
6073002 AAGTTTTATTGAGA
1 AAGTTTTATTAAGA
6073016 AA
1 AA
6073018 CTCAATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (14 bp):
AAGTTTTATTAAGA
Found at i:6073632 original size:32 final size:32
Alignment explanation
Indices: 6073574--6073655 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
6073564 TCGGTTTGCT
* * * *
6073574 TTCAGTTTGGGTTACTTTCGGTTCGGATTAAT
1 TTCAGTTTAGGTTGCTTTCGGTTCGGAATAAA
6073606 TTCTA-TTTAGGTTGCTTTCGAG-TCGGAATAAA
1 TTC-AGTTTAGGTTGCTTTCG-GTTCGGAATAAA
6073638 TTCAGTTTAGGTTGCTTT
1 TTCAGTTTAGGTTGCTTT
6073656 TGAATCGGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
31 1 0.02
32 40 0.93
33 2 0.05
ACGTcount: A:0.18, C:0.12, G:0.23, T:0.46
Consensus pattern (32 bp):
TTCAGTTTAGGTTGCTTTCGGTTCGGAATAAA
Found at i:6073741 original size:16 final size:16
Alignment explanation
Indices: 6073704--6073759 Score: 78
Period size: 16 Copynumber: 3.4 Consensus size: 16
6073694 CAAGTTAAAA
6073704 TTCGGTTCGGGTTGTTT
1 TTCGGTTCGGGTTG-TT
6073721 TTCGGTTCGGGTTAG-T
1 TTCGGTTCGGGTT-GTT
*
6073737 TTCGGTTCGGGTTGCT
1 TTCGGTTCGGGTTGTT
6073753 TTCGGTT
1 TTCGGTT
6073760 TTGCTAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.03
16 22 0.59
17 13 0.35
18 1 0.03
ACGTcount: A:0.02, C:0.14, G:0.36, T:0.48
Consensus pattern (16 bp):
TTCGGTTCGGGTTGTT
Found at i:6078769 original size:22 final size:22
Alignment explanation
Indices: 6078743--6078784 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6078733 TCTATTTTAA
6078743 TATAAATCTTAAAATCTAAAAC
1 TATAAATCTTAAAATCTAAAAC
**
6078765 TATAAATCTTTGAATCTAAA
1 TATAAATCTTAAAATCTAAA
6078785 TTATAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (22 bp):
TATAAATCTTAAAATCTAAAAC
Found at i:6078796 original size:14 final size:14
Alignment explanation
Indices: 6078779--6078819 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
6078769 AATCTTTGAA
6078779 TCTAAATTATAAAC
1 TCTAAATTATAAAC
*
6078793 TCTAAATCATAAAC
1 TCTAAATTATAAAC
* *
6078807 CCTAAAATATAAA
1 TCTAAATTATAAA
6078820 ATTCTAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (14 bp):
TCTAAATTATAAAC
Found at i:6083623 original size:22 final size:22
Alignment explanation
Indices: 6083598--6083639 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6083588 TATTTTAACC
* *
6083598 CAAATTTAAAATATTTTTTCCT
1 CAAATATAAAATATCTTTTCCT
*
6083620 CAAATATAACATATCTTTTC
1 CAAATATAAAATATCTTTTC
6083640 AAAATTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (22 bp):
CAAATATAAAATATCTTTTCCT
Found at i:6084503 original size:11 final size:11
Alignment explanation
Indices: 6084487--6084549 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
6084477 AAAATTACAT
6084487 TATTAAAAATA
1 TATTAAAAATA
6084498 TATTAAAAATA
1 TATTAAAAATA
* * ***
6084509 CACTATTGATA
1 TATTAAAAATA
6084520 -ATTATAAAAT-
1 TATTA-AAAATA
6084530 T-TTAAAAATA
1 TATTAAAAATA
6084540 TATTAAAAAT
1 TATTAAAAAT
6084550 TCTATAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:6084608 original size:7 final size:7
Alignment explanation
Indices: 6084596--6084653 Score: 55
Period size: 7 Copynumber: 8.3 Consensus size: 7
6084586 ACTTACAATG
6084596 AACCCTA
1 AACCCTA
6084603 AACCCT-
1 AACCCTA
6084609 AACCCATA
1 AACCC-TA
*
6084617 AATCCTA
1 AACCCTA
* *
6084624 AATCATA
1 AACCCTA
6084631 AACCCTA
1 AACCCTA
*
6084638 AACCATA
1 AACCCTA
*
6084645 AATCCTA
1 AACCCTA
6084652 AA
1 AA
6084654 TTGTACTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
6 5 0.12
7 33 0.79
8 4 0.10
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:6084623 original size:14 final size:14
Alignment explanation
Indices: 6084596--6084653 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
6084586 ACTTACAATG
*
6084596 AACCCTAAACCCTA
1 AACCATAAACCCTA
* *
6084610 ACCCATAAATCCTA
1 AACCATAAACCCTA
*
6084624 AATCATAAACCCTA
1 AACCATAAACCCTA
*
6084638 AACCATAAATCCTA
1 AACCATAAACCCTA
6084652 AA
1 AA
6084654 TTGTACTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCATAAACCCTA
Found at i:6084643 original size:28 final size:28
Alignment explanation
Indices: 6084601--6084654 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
6084591 CAATGAACCC
*
6084601 TAAACCCTAACCCATAAATCCTAAATCA
1 TAAACCCTAAACCATAAATCCTAAATCA
6084629 TAAACCCTAAACCATAAATCCTAAAT
1 TAAACCCTAAACCATAAATCCTAAAT
6084655 TGTACTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (28 bp):
TAAACCCTAAACCATAAATCCTAAATCA
Found at i:6084744 original size:21 final size:21
Alignment explanation
Indices: 6084705--6084744 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6084695 TGTCTTTGCA
* * *
6084705 ATAAATCCTAAATCTTAAACC
1 ATAAACCCTAAAACCTAAACC
6084726 ATAAACCCTAAAACCTAAA
1 ATAAACCCTAAAACCTAAA
6084745 TCTAATTATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAAACCCTAAAACCTAAACC
Found at i:6086331 original size:12 final size:12
Alignment explanation
Indices: 6086314--6086413 Score: 89
Period size: 12 Copynumber: 8.6 Consensus size: 12
6086304 TTCGAGCTTG
* *
6086314 AATCGAGTTTAA
1 AATCGAGCTCAA
6086326 AATCGAGCTCAA
1 AATCGAGCTCAA
**
6086338 AATCGAGCT-TG
1 AATCGAGCTCAA
6086349 AATCGAGCTCAA
1 AATCGAGCTCAA
**
6086361 AATCGAGCT-TG
1 AATCGAGCTCAA
*
6086372 ATTCGAGCTCAA
1 AATCGAGCTCAA
* **
6086384 AAGCGAGCT-TG
1 AATCGAGCTCAA
6086395 AATCGAGCTCAA
1 AATCGAGCTCAA
6086407 AATCGAG
1 AATCGAG
6086414 TTTCAATTGA
Statistics
Matches: 67, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
11 25 0.37
12 42 0.63
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (12 bp):
AATCGAGCTCAA
Found at i:6086426 original size:23 final size:23
Alignment explanation
Indices: 6086326--6086413 Score: 158
Period size: 23 Copynumber: 3.8 Consensus size: 23
6086316 TCGAGTTTAA
6086326 AATCGAGCTCAAAATCGAGCTTG
1 AATCGAGCTCAAAATCGAGCTTG
6086349 AATCGAGCTCAAAATCGAGCTTG
1 AATCGAGCTCAAAATCGAGCTTG
* *
6086372 ATTCGAGCTCAAAAGCGAGCTTG
1 AATCGAGCTCAAAATCGAGCTTG
6086395 AATCGAGCTCAAAATCGAG
1 AATCGAGCTCAAAATCGAG
6086414 TTTCAATTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (23 bp):
AATCGAGCTCAAAATCGAGCTTG
Found at i:6086426 original size:46 final size:45
Alignment explanation
Indices: 6086314--6086426 Score: 154
Period size: 46 Copynumber: 2.4 Consensus size: 45
6086304 TTCGAGCTTG
* *
6086314 AATCGAGTTTAAAATCGAGCTCAAAATCGAGCTTGAATCGAGCTCAA
1 AATCGAGTTT--AATTGAGCTCAAAAGCGAGCTTGAATCGAGCTCAA
* *
6086361 AATCGAGCTTGATTCGAGCTCAAAAGCGAGCTTGAATCGAGCTCAA
1 AATCGAGTTTAATT-GAGCTCAAAAGCGAGCTTGAATCGAGCTCAA
6086407 AATCGAGTTTCAATTGAGCT
1 AATCGAGTTT-AATTGAGCT
6086427 TGAGTCTTGA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 2 0.03
46 44 0.76
47 12 0.21
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (45 bp):
AATCGAGTTTAATTGAGCTCAAAAGCGAGCTTGAATCGAGCTCAA
Found at i:6088536 original size:2 final size:2
Alignment explanation
Indices: 6088527--6088564 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
6088517 GTAATTTTTT
6088527 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6088565 TACACAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6092032 original size:54 final size:54
Alignment explanation
Indices: 6091968--6092398 Score: 594
Period size: 54 Copynumber: 8.0 Consensus size: 54
6091958 CCTAGCACCA
* *
6091968 AAACGGTTATTCATCCTCATAAGG-TGAATTCCGTGAAATGCACACTTAGTGTCG
1 AAACGGTTATTCATCCACAT-AGGATGAATTCCGTGAAATGCACACTTAGTGCCG
* * * * *
6092022 AAATGATTATTCATCCACCTAGGATGAATTTCGTGGAATGCACACTTAGTGCCG
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
* *
6092076 AAACGGTTATTCATCCACATAGGATGAATTCCATGAAATACACACTTAGTGCCG
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
** *
6092130 AAACAATTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCA
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
6092184 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
* * * **
6092238 AAACGGTTATTCATCTACATAGGATGAATTCCATGAAATACACACTTAGTGTTG
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
* * * * *
6092292 AAATGGTTATTCATCCACATAGGATGAATTCCATGAAATGTACACTTACTACCG
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
* * * * * *
6092346 AAACGATTATTCGTCCACATAAGATTAATTTCGTGAAATGCACATTTAGTGCC
1 AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
6092399 TATTGCATAA
Statistics
Matches: 330, Mismatches: 46, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 3 0.01
54 327 0.99
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (54 bp):
AAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCG
Found at i:6092756 original size:22 final size:20
Alignment explanation
Indices: 6092721--6092777 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 20
6092711 TTGCCATTTA
6092721 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
*
6092741 GTATCGATACTACCCTACTATG
1 GTATCGATAC--CCCTACCATG
6092763 GTATCGATATCCCCT
1 GTATCGATA-CCCCT
6092778 TCCTATATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
20 10 0.30
21 4 0.12
22 18 0.55
23 1 0.03
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.30
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:6092861 original size:95 final size:94
Alignment explanation
Indices: 6092721--6092958 Score: 259
Period size: 94 Copynumber: 2.5 Consensus size: 94
6092711 TTGCCATTTA
* *
6092721 GTATCGATACCC-CTACCATGGTATCGATACTACCCTACTATGGTATCGATATCCCCTTCCTATA
1 GTATCGATACCCTC-ACCATGGTATCGATACTACCATACTATGGTATCGATA-CCCCTTCCGATA
* * *
6092785 TCGATACCAAAATTAGCTTCAATGTGGCTTG
64 TCAATACCAAAATTAGCTTCAATGTGACCTG
* * ** * *
6092816 GTATCGATACCCTCACCATGGTATCAATACTACTATGTTATGGTATTGATACCCCTTCCGGTATC
1 GTATCGATACCCTCACCATGGTATCGATACTACCATACTATGGTATCGATACCCCTTCCGATATC
* * *
6092881 AATACCAAAATTAGTTTCGATGTTACCTG
66 AATACCAAAATTAGCTTCAATGTGACCTG
* ** *
6092910 TTATATATACCCTTACCATGGTATCGATACTACC-T-C-ATGAGTATCGATA
1 GTATCGATACCCTCACCATGGTATCGATACTACCATACTATG-GTATCGATA
6092959 TTGATTGAAT
Statistics
Matches: 119, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
91 3 0.03
92 8 0.07
93 1 0.01
94 63 0.53
95 43 0.36
96 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (94 bp):
GTATCGATACCCTCACCATGGTATCGATACTACCATACTATGGTATCGATACCCCTTCCGATATC
AATACCAAAATTAGCTTCAATGTGACCTG
Found at i:6099068 original size:54 final size:54
Alignment explanation
Indices: 6099010--6099417 Score: 446
Period size: 54 Copynumber: 7.6 Consensus size: 54
6099000 TAAACAAATT
*** * * * *
6099010 ATGAATTTCGTGTTTTGCACACCTAGTGCCGAAATGGTTATTCATCCTCATAAG
1 ATGAATTTCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * * *
6099064 ATGAATTAT-GTGAAATACACACTTAGTGCTGAAATGGTTATTTATCCACCTAGG
1 ATGAATT-TCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * * *
6099118 ATGAATTTCATGGAATGCACACTTAGTGTCGAAATGGTTATTCATCCACATATG
1 ATGAATTTCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
*
6099172 ATGAA-TTCTGTGAAATGCACACTTAGTGCCAAAACGGTTATTCATCCACATAGG
1 ATGAATTTC-GTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
** * *
6099226 ATGAA-TTCTGTGAAATGCACACTTAGTGTTGAAACGATTATTCATCCATATAGG
1 ATGAATTTC-GTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * ** *
6099280 ATGAATTCCGTGAAATTCACACTTCGTGTTGAAACAGTTATTCATCCACATAGG
1 ATGAATTTCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * *
6099334 ATGAATTCCGTGAAATACACACTTAGTGCCGAAACGGTTATTCATCCACACAGG
1 ATGAATTTCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * *
6099388 ATGAA-TTCTATGAAATTCATACTTAGTGCC
1 ATGAATTTC-GTGAAATGCACACTTAGTGCC
6099418 TATTGGGTAA
Statistics
Matches: 304, Mismatches: 45, Indels: 10
0.85 0.13 0.03
Matches are distributed among these distances:
53 6 0.02
54 295 0.97
55 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (54 bp):
ATGAATTTCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
Found at i:6099178 original size:162 final size:162
Alignment explanation
Indices: 6099010--6099416 Score: 519
Period size: 162 Copynumber: 2.5 Consensus size: 162
6099000 TAAACAAATT
*** * * * * *
6099010 ATGAATTTCGTGTTTTGCACACCTAGTGCCGAAATGGTTATTCATCCTCATAAGATGAATTATGT
1 ATGAATTTCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGT
* * * * * *
6099075 GAAATACACACTTAGTGCTGAAATGGTTATTTATCCACCTAGGATGAATTTCATGGAATGCACAC
66 GAAATACACACTTAGTGCTGAAACGATTATTCATCCACATAGGATGAATTCCATGAAATGCACAC
** *
6099140 TTAGTGTCGAAATGGTTATTCATCCACATATG
131 TTAGTGTCGAAACAGTTATTCATCCACATAGG
*
6099172 ATGAA-TTCTGTGAAATGCACACTTAGTGCCAAAACGGTTATTCATCCACATAGGATGAATTCTG
1 ATGAATTTC-GTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTG
* * * * *
6099236 TGAAATGCACACTTAGTGTTGAAACGATTATTCATCCATATAGGATGAATTCCGTGAAATTCACA
65 TGAAATACACACTTAGTGCTGAAACGATTATTCATCCACATAGGATGAATTCCATGAAATGCACA
* *
6099301 CTTCGTGTTGAAACAGTTATTCATCCACATAGG
130 CTTAGTGTCGAAACAGTTATTCATCCACATAGG
* * * *
6099334 ATGAATTCCGTGAAATACACACTTAGTGCCGAAACGGTTATTCATCCACACAGGATGAATTCTAT
1 ATGAATTTCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGT
* *
6099399 GAAATTCATACTTAGTGC
66 GAAATACACACTTAGTGC
6099417 CTATTGGGTA
Statistics
Matches: 210, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
161 3 0.01
162 205 0.98
163 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (162 bp):
ATGAATTTCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGT
GAAATACACACTTAGTGCTGAAACGATTATTCATCCACATAGGATGAATTCCATGAAATGCACAC
TTAGTGTCGAAACAGTTATTCATCCACATAGG
Found at i:6099911 original size:95 final size:95
Alignment explanation
Indices: 6099787--6099961 Score: 260
Period size: 95 Copynumber: 1.8 Consensus size: 95
6099777 CTATGGTATT
* * * * * *
6099787 GATACCCCCTTCCGGTATCGATACTAAAATTAGCTTTGATGTGGCTTGGTATTGATACCCTCACC
1 GATACCCCCCTCCGGTATCGATACCAAAATTAGCTTCGATGTGACCTGGTATCGATACCCTCACC
*
6099852 ATGGTATCGTTACTATTATGCTATAGTACG
66 ATGGTATCGATACTATTATGCTATAGTACG
* * *
6099882 GATACCCCCCTCCGGTATCGATACCAAAATTAGGTTCGATGTTACCTGGTATCGATACCCTTACC
1 GATACCCCCCTCCGGTATCGATACCAAAATTAGCTTCGATGTGACCTGGTATCGATACCCTCACC
6099947 ATGGTATCGATACTA
66 ATGGTATCGATACTA
6099962 CCTCATAAGT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 70 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (95 bp):
GATACCCCCCTCCGGTATCGATACCAAAATTAGCTTCGATGTGACCTGGTATCGATACCCTCACC
ATGGTATCGATACTATTATGCTATAGTACG
Found at i:6114010 original size:21 final size:21
Alignment explanation
Indices: 6113969--6114011 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6113959 GCTTCACTGT
* *
6113969 AATATTTTATGGCCTTGACAA
1 AATATTTCATGGCCTTAACAA
6113990 AATATTTCATGG-CTTCAACAA
1 AATATTTCATGGCCTT-AACAA
6114011 A
1 A
6114012 GGCTCTGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (21 bp):
AATATTTCATGGCCTTAACAA
Done.