Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 43 of 136
Found at i:14132765 original size:50 final size:50
Alignment explanation
Indices: 14132584--14132774 Score: 159
Period size: 50 Copynumber: 3.8 Consensus size: 50
14132574 TTGGCATTAC
* *
14132584 AGTGGAACGGATTGAAGCCACAACGGCGAATCTTGTTTCCCTCGCGGTGT
1 AGTGGAACGGATTGAAGCTACAACGGCGAATCTTGTTTCCCTCGAGGTGT
* * * * ** *
14132634 AGTGGAACTGATTGAAGTTACGACGGCGAATCTTGTTTCCC-CAATACTGC
1 AGTGGAACGGATTGAAGCTACAACGGCGAATCTTGTTTCCCTCGA-GGTGT
* ** *** * * * * ** *
14132684 AATTAAAAATATTAAAGTTGCAACGGTGAATCTTACTTCCCTGGAGGTGT
1 AGTGGAACGGATTGAAGCTACAACGGCGAATCTTGTTTCCCTCGAGGTGT
*
14132734 AGTGGAACGGATTGAAGCTACGACGGCGAATCTTGTTTCCC
1 AGTGGAACGGATTGAAGCTACAACGGCGAATCTTGTTTCCC
14132775 AACATTGCAA
Statistics
Matches: 100, Mismatches: 39, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
49 1 0.01
50 98 0.98
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (50 bp):
AGTGGAACGGATTGAAGCTACAACGGCGAATCTTGTTTCCCTCGAGGTGT
Found at i:14133003 original size:45 final size:45
Alignment explanation
Indices: 14132934--14133096 Score: 168
Period size: 45 Copynumber: 3.6 Consensus size: 45
14132924 GATCACATCT
* * *
14132934 AGTCCTATCTCCCTGAAGTTGCAGTGGAGTAGACCCAAGAAAGCG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCA
* *
14132979 AGTGTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCA
* * * ** *
14133024 AGTCTTATC-CCCTTGAAATTACAGTGGGGCAGACTAAATAAA-CA
1 AGTCTTATCTCCC-TGAAGTTGCAGTGGAGCAGACCCAAGAAAGCA
* * * *
14133068 AATCCTATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
14133097 TGAATTCTAG
Statistics
Matches: 98, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
44 23 0.23
45 75 0.77
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCA
Found at i:14134734 original size:48 final size:48
Alignment explanation
Indices: 14134585--14134737 Score: 181
Period size: 48 Copynumber: 3.2 Consensus size: 48
14134575 TTTTTATATA
*
14134585 TTTTTTAAAAATTAATGAATAATTATTATTATTTATATATGTAATTA-
1 TTTTTTAAAAATTAATGAATAATTATTATTATTTATATATGTACTTAT
* * *
14134632 TTTTTT-ATAATCT-AT-ATATATATATATCTATTTTTTATATATGTAC-AAT
1 TTTTTTAAAAAT-TAATGA-ATA-AT-TAT-TATTATTTATATATGTACTTAT
14134681 ATTTTTTAAAAATTAATGAATAATTATTATTATTTATATATGTACTTAT
1 -TTTTTTAAAAATTAATGAATAATTATTATTATTTATATATGTACTTAT
14134730 TTTTTTAA
1 TTTTTTAA
14134738 CACATATTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 21
0.76 0.06 0.18
Matches are distributed among these distances:
45 1 0.01
46 9 0.10
47 9 0.10
48 29 0.33
49 21 0.24
50 9 0.10
51 9 0.10
52 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (48 bp):
TTTTTTAAAAATTAATGAATAATTATTATTATTTATATATGTACTTAT
Found at i:14135057 original size:13 final size:14
Alignment explanation
Indices: 14135021--14135060 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
14135011 GGTCATTTTT
14135021 TTTATATTAGTTTCG
1 TTTATATTA-TTTCG
14135036 TTTAT-TTATTT-G
1 TTTATATTATTTCG
14135048 TTTATATTATTTC
1 TTTATATTATTTC
14135061 TATGCCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.26
13 9 0.39
14 3 0.13
15 5 0.22
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (14 bp):
TTTATATTATTTCG
Found at i:14135091 original size:15 final size:15
Alignment explanation
Indices: 14135071--14135100 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14135061 TATGCCATTA
14135071 TTGTATTTATTATTG
1 TTGTATTTATTATTG
*
14135086 TTGTATTTGTTATTG
1 TTGTATTTATTATTG
14135101 CTACATTTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (15 bp):
TTGTATTTATTATTG
Found at i:14135672 original size:28 final size:28
Alignment explanation
Indices: 14135636--14135693 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
14135626 TTTTAACTCT
*
14135636 TGACATTAAGGCGCTAATTAATCAACTA
1 TGACATTAAGACGCTAATTAATCAACTA
14135664 TGACATTAAGACGCTAATTAATCAACTA
1 TGACATTAAGACGCTAATTAATCAACTA
14135692 TG
1 TG
14135694 TACCAATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (28 bp):
TGACATTAAGACGCTAATTAATCAACTA
Found at i:14144335 original size:27 final size:27
Alignment explanation
Indices: 14144305--14144402 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
14144295 TCAGAGTTTG
**
14144305 CCACAAAGGCATTTCTTTTTTATTACA
1 CCACAAAGGCATTTCTTTCATATTACA
* ***
14144332 CCACAAAGGCTTTTCTTTCATATTGTG
1 CCACAAAGGCATTTCTTTCATATTACA
* *
14144359 CCACAAAGGCTTTTCTTTCATACTACA
1 CCACAAAGGCATTTCTTTCATATTACA
* *
14144386 TCGCAAAGGCATTTCTT
1 CCACAAAGGCATTTCTT
14144403 CCCTAACGTG
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (27 bp):
CCACAAAGGCATTTCTTTCATATTACA
Found at i:14157116 original size:50 final size:50
Alignment explanation
Indices: 14157012--14157128 Score: 137
Period size: 50 Copynumber: 2.3 Consensus size: 50
14157002 AGGTCCCACG
* * * * **
14157012 TAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATGAGAGGTCCTCTA
1 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAACTCCTCTA
* *
14157062 TAAGACCATGTCTGGGACATGGCATGGGCACCGATACGAGAACT-CTCATC
1 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAACTCCTC-TA
*
14157112 TAAGACCATATCTGGGA
1 TAAGACCATGTCTGGGA
14157129 TATGACATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 3 0.05
50 54 0.95
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAACTCCTCTA
Found at i:14157417 original size:20 final size:20
Alignment explanation
Indices: 14157392--14157430 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
14157382 TGAGTTATTT
14157392 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
14157412 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
14157431 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:14164728 original size:50 final size:50
Alignment explanation
Indices: 14164661--14164790 Score: 152
Period size: 50 Copynumber: 2.6 Consensus size: 50
14164651 TATTGAGGTT
* * * * *
14164661 ATGATAGGTCCCACGTAAGACCATGTTTGGGACATGGCGTTGGTACCAAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAG
* *
14164711 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAG
** * * *
14164761 ATGAGAACTCTCATGTAAGACCATATCTGG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGG
14164791 AATTTGGCAT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAG
Found at i:14167298 original size:30 final size:30
Alignment explanation
Indices: 14167262--14167352 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
14167252 GGTGAAATAA
* * *
14167262 GTTGCTCACACAATCTTACATTATATTAGG
1 GTTGCTCACACAATCTGACATTATATCAAG
* *
14167292 GTTGCTCATACAAGCTGACATTATATCAAG
1 GTTGCTCACACAATCTGACATTATATCAAG
* * *
14167322 GTTGCTTACACAATATGAAATTTATATCAAG
1 GTTGCTCACACAATCTGACA-TTATATCAAG
14167353 TTACCTGTTC
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 40 0.80
31 10 0.20
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (30 bp):
GTTGCTCACACAATCTGACATTATATCAAG
Found at i:14176390 original size:28 final size:28
Alignment explanation
Indices: 14176359--14176427 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
14176349 ATTTTATCAC
*
14176359 ATTATTTTTTATTTGGCAGTTTTACTGT
1 ATTATTTATTATTTGGCAGTTTTACTGT
14176387 ATTATTTATTATTTGGCAGTTTTACTGT
1 ATTATTTATTATTTGGCAGTTTTACTGT
*
14176415 ATTATTTAATATT
1 ATTATTTATTATT
14176428 GATGGTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.59
Consensus pattern (28 bp):
ATTATTTATTATTTGGCAGTTTTACTGT
Found at i:14176789 original size:3 final size:3
Alignment explanation
Indices: 14176776--14176809 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
14176766 TATTTCTAAG
*
14176776 TTA TT- TTA TTA TTA TTA TTA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14176810 TGGTTTTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14197755 original size:24 final size:25
Alignment explanation
Indices: 14197726--14197781 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
14197716 AGAGTTACCC
*
14197726 ATTAAGCTCACATGAGCTTTCTGTT
1 ATTAAGCTCACATGAGCTTCCTGTT
***
14197751 -TTAAGCTTTTATGAGCTTCCTGTT
1 ATTAAGCTCACATGAGCTTCCTGTT
14197775 ATTAAGC
1 ATTAAGC
14197782 ACGGATAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (25 bp):
ATTAAGCTCACATGAGCTTCCTGTT
Found at i:14197814 original size:25 final size:25
Alignment explanation
Indices: 14197786--14197833 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
14197776 TTAAGCACGG
14197786 ATAAGCTT-CTCGTTACATGGCTCAC
1 ATAAGCTTCCT-GTTACATGGCTCAC
*
14197811 ATAAGCTTCCTGTTATATGGCTC
1 ATAAGCTTCCTGTTACATGGCTC
14197834 GAGAGAGTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (25 bp):
ATAAGCTTCCTGTTACATGGCTCAC
Found at i:14205121 original size:16 final size:16
Alignment explanation
Indices: 14205084--14205120 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
14205074 TGAAGCTTCC
*
14205084 ATTTTTAGTTTGCAAA
1 ATTTTTAGTGTGCAAA
14205100 ATTTTTAGTGT-CAAA
1 ATTTTTAGTGTGCAAA
14205115 ATTTTT
1 ATTTTT
14205121 TGTTGCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (16 bp):
ATTTTTAGTGTGCAAA
Found at i:14207027 original size:72 final size:72
Alignment explanation
Indices: 14206939--14207082 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
14206929 AAATATTTTA
*
14206939 AAATGAATTTCATGTTTGTATATCTTTCAAATATATAATTATATATTTTATAAGGGTAGGGCTTA
1 AAATGAATTTCATGTTTGTATATCTTTCAAATATATAATTATATATTTTATAACGGTAGGGCTTA
14207004 ATGGTTG
66 ATGGTTG
14207011 AAATGAATTTCATGTTTGTATATCTTTCAAATATATAATTATATATTTTATAACGGTAGGGCTTA
1 AAATGAATTTCATGTTTGTATATCTTTCAAATATATAATTATATATTTTATAACGGTAGGGCTTA
14207076 ATGGTTG
66 ATGGTTG
14207083 TCCAAGGATT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.44
Consensus pattern (72 bp):
AAATGAATTTCATGTTTGTATATCTTTCAAATATATAATTATATATTTTATAACGGTAGGGCTTA
ATGGTTG
Found at i:14209497 original size:14 final size:16
Alignment explanation
Indices: 14209472--14209503 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14209462 CATTTCACTA
14209472 TTATGTCATTTT-TAT
1 TTATGTCATTTTATAT
14209487 TTATGTC-TTTTATAT
1 TTATGTCATTTTATAT
14209502 TT
1 TT
14209504 TGCATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (16 bp):
TTATGTCATTTTATAT
Found at i:14216608 original size:46 final size:46
Alignment explanation
Indices: 14216533--14216620 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
14216523 AAAAGTATAG
*
14216533 TGTGGGCCTAAGCCCATTACAATATCAGAATCAGAAATAGAATACA
1 TGTGGGCCTAAGCCCACTACAATATCAGAATCAGAAATAGAATACA
* * *
14216579 TGTGGGCCTAAGCCTACTACAGTGA-CAGAATCAGTAATAGAA
1 TGTGGGCCTAAGCCCACTACAAT-ATCAGAATCAGAAATAGAA
14216621 ATGCAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 36 0.97
47 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCACTACAATATCAGAATCAGAAATAGAATACA
Found at i:14216899 original size:32 final size:31
Alignment explanation
Indices: 14216844--14216949 Score: 108
Period size: 31 Copynumber: 3.4 Consensus size: 31
14216834 GAATGGATAC
* *
14216844 AAGCCATAAGTACAGTAATATGATTGGCACA
1 AAGCCATCAGTACAGTAATATGATCGGCACA
*
14216875 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTA-CAGTAATATGATCGGCACA
* * *
14216907 CAA--CATCAGTAACGGTAATATGATCGACATA
1 -AAGCCATCAGT-ACAGTAATATGATCGGCACA
*
14216938 AAGCCATTAGTA
1 AAGCCATCAGTA
14216950 ACATCGCAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
30 2 0.03
31 34 0.55
32 24 0.39
33 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (31 bp):
AAGCCATCAGTACAGTAATATGATCGGCACA
Found at i:14217002 original size:26 final size:26
Alignment explanation
Indices: 14216952--14217002 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
14216942 CATTAGTAAC
14216952 ATCGCAGCAAAGCTGCCAGCAATAGT
1 ATCGCAGCAAAGCTGCCAGCAATAGT
*
14216978 ATCGCAGCAAAGCTGCCAGTAATAG
1 ATCGCAGCAAAGCTGCCAGCAATAG
14217003 AATATGTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAATAGT
Found at i:14217162 original size:24 final size:24
Alignment explanation
Indices: 14217128--14217183 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
14217118 CAGAATTAGA
* * *
14217128 CATTTAAATCACAAACAAATCAGT
1 CATTTACATCACAAACAAACCAAT
*
14217152 CATTTACATCACAGACAAACCAAT
1 CATTTACATCACAAACAAACCAAT
14217176 CATTTACA
1 CATTTACA
14217184 CTCGAGGGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (24 bp):
CATTTACATCACAAACAAACCAAT
Found at i:14217257 original size:27 final size:27
Alignment explanation
Indices: 14217220--14217645 Score: 284
Period size: 27 Copynumber: 15.6 Consensus size: 27
14217210 CTCTAGAAGC
* *
14217220 ATTACGATCATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * * *
14217247 ATTTCGGTCATTTAATCCTATAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * ** *
14217274 ATTACAGTTATTTTACCCTACAAAGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
** **
14217301 ATTACAATCATTTTACCCTATGGGGGGT
1 ATTACGGTCATTTTACCCTA-CAGGGGT
* * *
14217329 -TTTCAGTTATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
14217355 ATTACGATCATTTTACCTTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
14217382 ATTACAGTCATTTTACCCTACGGGGGGC
1 ATTACGGTCATTTTACCCTAC-AGGGGT
**
14217410 ATTACGGTCATTTTACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
** * * *
14217437 -TTGTTGGTCATTTTACCTTACAGGCGC
1 ATT-ACGGTCATTTTACCCTACAGGGGT
* *
14217464 ATTACAGTCATTTTACCCTA-TGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
14217490 GAGGGCATTACGCTCACTTTACCCTA-TGGGGT
1 ------ATTACGGTCATTTTACCCTACAGGGGT
* * * * * *
14217522 TTTTCGATTATTTTACCCTATAGGAGT
1 ATTACGGTCATTTTACCCTACAGGGGT
**
14217549 ATTACGGTCATTTTACCCTATGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
14217576 TTTTCGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
14217603 ATTACGGTCATTTTACCTTGCAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
14217630 ATTACGATCATTTTAC
1 ATTACGGTCATTTTAC
14217646 AAATATTGGC
Statistics
Matches: 307, Mismatches: 80, Indels: 24
0.75 0.19 0.06
Matches are distributed among these distances:
26 25 0.08
27 231 0.75
28 28 0.09
32 23 0.07
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:14220898 original size:20 final size:20
Alignment explanation
Indices: 14220855--14220902 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14220845 TTTAGCTTGG
* ** *
14220855 TTCAGCTCACTTAATTTTAT
1 TTCAGCTCACATAAGCTTAA
14220875 TTCAGCTCACATAAGCTTAA
1 TTCAGCTCACATAAGCTTAA
14220895 TTCAGCTC
1 TTCAGCTC
14220903 GTTTGAGCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (20 bp):
TTCAGCTCACATAAGCTTAA
Found at i:14223555 original size:14 final size:15
Alignment explanation
Indices: 14223522--14223559 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
14223512 GAGAGAAGAA
14223522 AAAAAGAAATGAGAG
1 AAAAAGAAATGAGAG
14223537 AAAAAGAAATGAGA-
1 AAAAAGAAATGAGAG
*
14223551 TAAAAGAAA
1 AAAAAGAAA
14223560 AAGAAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (15 bp):
AAAAAGAAATGAGAG
Found at i:14230908 original size:19 final size:19
Alignment explanation
Indices: 14230886--14230925 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
14230876 AATAATTTTG
14230886 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
14230905 ATCAAATCAATTAAAATTA
1 ATCAAATAAATTAAAATTA
14230924 AT
1 AT
14230926 ACAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:14232869 original size:20 final size:20
Alignment explanation
Indices: 14232833--14232928 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
14232823 GAAATGCTAT
* *
14232833 ACAGAGGCACC-ACAGTGCGA
1 ACAGAGACACCGA-AGTGCAA
14232853 ACAGAGACACCGAAGTG-AA
1 ACAGAGACACCGAAGTGCAA
*
14232872 AGCAGAGCCACCGAA-TGCAA
1 A-CAGAGACACCGAAGTGCAA
* * *
14232892 ATAGAGGCACCAAAGTGCAA
1 ACAGAGACACCGAAGTGCAA
* *
14232912 TCAGAGACACTGAAGTG
1 ACAGAGACACCGAAGTG
14232929 TAATACAGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
19 14 0.23
20 46 0.75
21 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.27, T:0.08
Consensus pattern (20 bp):
ACAGAGACACCGAAGTGCAA
Found at i:14235806 original size:22 final size:22
Alignment explanation
Indices: 14235764--14235812 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
14235754 ATTTCTTTAT
*
14235764 TTAATTGATTCATAATGATTAA
1 TTAATTGATTCATAATAATTAA
*
14235786 TTAATTGATT-GTAATAAATTAA
1 TTAATTGATTCATAAT-AATTAA
*
14235808 ATAAT
1 TTAAT
14235813 AATTCAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (22 bp):
TTAATTGATTCATAATAATTAA
Found at i:14241920 original size:27 final size:27
Alignment explanation
Indices: 14241901--14242005 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
14241891 ATACCTCTGG
*
14241901 AGGGTAAAATG-TCTGAAATACCCCCAA
1 AGGGTAAAATGAT-TGAAATACCCCTAA
14241928 AGGGTAAAATGATTGAAATACCCCTAA
1 AGGGTAAAATGATTGAAATACCCCTAA
*
14241955 AGGGTAAAATGATTGAAATACCCCCAA
1 AGGGTAAAATGATTGAAATACCCCTAA
* * *
14241982 AAGTTAAAATGACTGAAATACCCC
1 AGGGTAAAATGATTGAAATACCCC
14242006 ATATGGTAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 71 0.99
28 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (27 bp):
AGGGTAAAATGATTGAAATACCCCTAA
Found at i:14241959 original size:54 final size:54
Alignment explanation
Indices: 14241901--14242005 Score: 167
Period size: 54 Copynumber: 1.9 Consensus size: 54
14241891 ATACCTCTGG
* *
14241901 AGGGTAAAATG-TCTGAAATACCCCCAAAGGGTAAAATGATTGAAATACCCCTAA
1 AGGGTAAAATGAT-TGAAATACCCCCAAAAGGTAAAATGACTGAAATACCCCTAA
*
14241955 AGGGTAAAATGATTGAAATACCCCCAAAAGTTAAAATGACTGAAATACCCC
1 AGGGTAAAATGATTGAAATACCCCCAAAAGGTAAAATGACTGAAATACCCC
14242006 ATATGGTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
54 46 0.98
55 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (54 bp):
AGGGTAAAATGATTGAAATACCCCCAAAAGGTAAAATGACTGAAATACCCCTAA
Found at i:14242015 original size:26 final size:26
Alignment explanation
Indices: 14241901--14242031 Score: 145
Period size: 27 Copynumber: 4.9 Consensus size: 26
14241891 ATACCTCTGG
*
14241901 AGGGTAAAATGTCTGAAATACCCCCAA
1 AGGGTAAAATGACTGAAATA-CCCCAA
*
14241928 AGGGTAAAATGATTGAAATACCCCTAA
1 AGGGTAAAATGACTGAAATACCCC-AA
*
14241955 AGGGTAAAATGATTGAAATACCCCCAA
1 AGGGTAAAATGACTGAAATA-CCCCAA
* * *
14241982 AAGTTAAAATGACTGAAATACCCCAT
1 AGGGTAAAATGACTGAAATACCCCAA
* * **
14242008 ATGGTAAAATAACTGTTATACCCC
1 AGGGTAAAATGACTGAAATACCCC
14242032 TAGGAGATGA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 28 0.31
27 59 0.65
28 4 0.04
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (26 bp):
AGGGTAAAATGACTGAAATACCCCAA
Found at i:14250074 original size:40 final size:40
Alignment explanation
Indices: 14250028--14250134 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 40
14250018 ATAACACATA
*
14250028 AATATTGTGGACAAGCCACCAGTATTGCAAATAAGCTATC
1 AATATTGTGGACAAGCCACCAGTATTGCAAATAAACTATC
* * * * *
14250068 AGTATTGTGGACAAGCCACCAATAATGCAGATAAACTGTC
1 AATATTGTGGACAAGCCACCAGTATTGCAAATAAACTATC
** *
14250108 AATATTGCAGACAAGCTACCAGTATTG
1 AATATTGTGGACAAGCCACCAGTATTG
14250135 TGGACAAGCC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (40 bp):
AATATTGTGGACAAGCCACCAGTATTGCAAATAAACTATC
Found at i:14250083 original size:20 final size:20
Alignment explanation
Indices: 14250037--14250157 Score: 71
Period size: 20 Copynumber: 6.0 Consensus size: 20
14250027 AAATATTGTG
*
14250037 GACAAGCCACCAGTATTGCA
1 GACAAGCTACCAGTATTGCA
* * * **
14250057 AATAAGCTATCAGTATTGTG
1 GACAAGCTACCAGTATTGCA
* * *
14250077 GACAAGCCACCAATAATGCA
1 GACAAGCTACCAGTATTGCA
* * ** *
14250097 GATAAACTGTCAATATTGCA
1 GACAAGCTACCAGTATTGCA
**
14250117 GACAAGCTACCAGTATTGTG
1 GACAAGCTACCAGTATTGCA
* * *
14250137 GACAAGCCAACAGTAATGCA
1 GACAAGCTACCAGTATTGCA
14250157 G
1 G
14250158 GTAAACTGTC
Statistics
Matches: 69, Mismatches: 32, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
GACAAGCTACCAGTATTGCA
Found at i:14250143 original size:60 final size:60
Alignment explanation
Indices: 14250050--14250218 Score: 239
Period size: 60 Copynumber: 2.8 Consensus size: 60
14250040 AAGCCACCAG
* *
14250050 TATTGCAAATAAGCTATCAGTATTGTGGACAAGCCACCAATAATGCAGATAAACTGTCAA
1 TATTGCAAACAAGCTACCAGTATTGTGGACAAGCCACCAATAATGCAGATAAACTGTCAA
* * * *
14250110 TATTGCAGACAAGCTACCAGTATTGTGGACAAGCCAACAGTAATGCAGGTAAACTGTCAA
1 TATTGCAAACAAGCTACCAGTATTGTGGACAAGCCACCAATAATGCAGATAAACTGTCAA
* * * * *
14250170 TATTGTAAACAAGCTACTAATATTATTGACAAGCCACCAATAATGCAGA
1 TATTGCAAACAAGCTACCAGTATTGTGGACAAGCCACCAATAATGCAGA
14250219 CAAGCTACTA
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 94 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (60 bp):
TATTGCAAACAAGCTACCAGTATTGTGGACAAGCCACCAATAATGCAGATAAACTGTCAA
Found at i:14297508 original size:9 final size:9
Alignment explanation
Indices: 14297441--14297510 Score: 54
Period size: 9 Copynumber: 7.3 Consensus size: 9
14297431 TGATAGTTTC
*
14297441 TTCTTCTTA
1 TTCTTCTTT
*
14297450 TTCTTCTTC
1 TTCTTCTTT
14297459 TTCTTCTTTT
1 TTCTTC-TTT
14297469 TTCTT-TTT
1 TTCTTCTTT
14297477 TTCTT-TTT
1 TTCTTCTTT
14297485 GTCATCTTATCTTT
1 -T--TC-T-TCTTT
14297499 TTCTTCTTT
1 TTCTTCTTT
14297508 TTC
1 TTC
14297511 GTTTGATTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
8 11 0.21
9 23 0.44
10 8 0.15
11 4 0.08
12 1 0.02
13 2 0.04
14 3 0.06
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.73
Consensus pattern (9 bp):
TTCTTCTTT
Found at i:14301166 original size:18 final size:18
Alignment explanation
Indices: 14301143--14301180 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
14301133 CGACTAAGAA
14301143 TGACAAGGTGGTCATAGT
1 TGACAAGGTGGTCATAGT
14301161 TGACAAGGTGGTCATAGT
1 TGACAAGGTGGTCATAGT
14301179 TG
1 TG
14301181 GTGAGCGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.34, T:0.29
Consensus pattern (18 bp):
TGACAAGGTGGTCATAGT
Found at i:14305281 original size:30 final size:30
Alignment explanation
Indices: 14305247--14305316 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
14305237 TATAAATTAA
*
14305247 ATAATAAATAATTAAAAATTTAT-AAAATTC
1 ATAATAAATAA-TAAAAACTTATAAAAATTC
*
14305277 ATAATAGAA-AATATAAACTTATAAAAATTC
1 ATAATA-AATAATAAAAACTTATAAAAATTC
*
14305307 A-AAAAAATAA
1 ATAATAAATAA
14305317 AAATCATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 2 0.06
29 14 0.41
30 16 0.47
31 2 0.06
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (30 bp):
ATAATAAATAATAAAAACTTATAAAAATTC
Found at i:14305353 original size:27 final size:27
Alignment explanation
Indices: 14305297--14305373 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 27
14305287 ATATAAACTT
14305297 ATAAAA-ATTC-AAAAAAATAAAAATC
1 ATAAAATATTCAAAAAAAATAAAAATC
*
14305322 ATAAAATATTCAAAAAAAATTCAAAAT-
1 ATAAAATATTCAAAAAAAA-TAAAAATC
*
14305349 GTAAAATA-T-AAAAAAATATAAAAAT
1 ATAAAATATTCAAAAAAA-ATAAAAAT
14305374 TCAAAAACAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
25 19 0.42
26 6 0.13
27 14 0.31
28 6 0.13
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.23
Consensus pattern (27 bp):
ATAAAATATTCAAAAAAAATAAAAATC
Found at i:14306012 original size:24 final size:24
Alignment explanation
Indices: 14305967--14306012 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
14305957 ACATAGGGAG
* * *
14305967 AAAACAACAAGAAAATAACATTCA
1 AAAACAAAAAAAAAAGAACATTCA
*
14305991 AAAACAAAAAAAAAAGAGCATT
1 AAAACAAAAAAAAAAGAACATT
14306013 TTTTTTTTCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.70, C:0.13, G:0.07, T:0.11
Consensus pattern (24 bp):
AAAACAAAAAAAAAAGAACATTCA
Found at i:14312782 original size:24 final size:21
Alignment explanation
Indices: 14312750--14312809 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 21
14312740 AGAGCAGACC
*
14312750 AGTTACATATGCAGAAGCAATTTCT
1 AGTT-CATATGCAGAA-C-ATAT-T
*
14312775 AGTTCATATACAGAACATATT
1 AGTTCATATGCAGAACATATT
14312796 AGATTCATATGCAG
1 AG-TTCATATGCAG
14312810 TTATTCCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 13 0.42
23 1 0.03
24 10 0.32
25 4 0.13
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (21 bp):
AGTTCATATGCAGAACATATT
Found at i:14313384 original size:42 final size:42
Alignment explanation
Indices: 14313311--14313421 Score: 159
Period size: 42 Copynumber: 2.6 Consensus size: 42
14313301 ACGGCTTGGA
* * *
14313311 CACACGCTCATGTCCTTGCCCGTGTGGCTCACATGGCCTAGG
1 CACACGCCCATGTCCTTGCCCATGTGACTCACATGGCCTAGG
* * *
14313353 CACATGCCCATGTCCTTGCTCATGTGACTCACATGGCCTGGG
1 CACACGCCCATGTCCTTGCCCATGTGACTCACATGGCCTAGG
14313395 CACACGCCCATGTCCTCTGCCCATGTG
1 CACACGCCCATGTCCT-TGCCCATGTG
14313422 GTTTCAAAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 51 0.85
43 9 0.15
ACGTcount: A:0.15, C:0.37, G:0.23, T:0.24
Consensus pattern (42 bp):
CACACGCCCATGTCCTTGCCCATGTGACTCACATGGCCTAGG
Found at i:14315874 original size:15 final size:16
Alignment explanation
Indices: 14315846--14315875 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14315836 CGACACTCAA
14315846 TTTAATGAACTCTTGG
1 TTTAATGAACTCTTGG
14315862 TTTAATG-ACTCTTG
1 TTTAATGAACTCTTG
14315876 CAACCGAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (16 bp):
TTTAATGAACTCTTGG
Found at i:14327011 original size:53 final size:53
Alignment explanation
Indices: 14326882--14327090 Score: 250
Period size: 53 Copynumber: 4.0 Consensus size: 53
14326872 GGCACTAAAG
* * *
14326882 AAGACCATATCGTGTAAGACAGTAACTAGTGGGTTATGGTATCATATGG---A
1 AAGACCATATCGTGTAAGACTGTAACTTGTGGGTTATGGCATCATATGGAAAA
* * *
14326932 AAGATCATATCGTGTAAGAAC-ATAACTTGTGAGTTATGGCATCATATGGAAAA
1 AAGACCATATCGTGTAAG-ACTGTAACTTGTGGGTTATGGCATCATATGGAAAA
* * *
14326985 AAGACCATATCGTGTCAGACTGTAACTGGTGGGTTATGGCATCATATGGAAAG
1 AAGACCATATCGTGTAAGACTGTAACTTGTGGGTTATGGCATCATATGGAAAA
* * *
14327038 AAGATCATATCATGTAAGA-TCGTAACTTGTGGGTTATGACATCATAT-GAAAA
1 AAGACCATATCGTGTAAGACT-GTAACTTGTGGGTTATGGCATCATATGGAAAA
14327090 A
1 A
14327091 CATTTAAGGA
Statistics
Matches: 136, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
50 41 0.30
51 2 0.01
52 8 0.06
53 85 0.62
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (53 bp):
AAGACCATATCGTGTAAGACTGTAACTTGTGGGTTATGGCATCATATGGAAAA
Found at i:14347511 original size:21 final size:21
Alignment explanation
Indices: 14347477--14347551 Score: 125
Period size: 21 Copynumber: 3.6 Consensus size: 21
14347467 AGTCTATGGT
*
14347477 CAAGCTAG-GTCTAAGAAAGA
1 CAAGCTTGAGTCTAAGAAAGA
14347497 CAAGCTTGAGTCTAAGAAAGA
1 CAAGCTTGAGTCTAAGAAAGA
14347518 CAAGCTTGAGTCTAAGAAAGA
1 CAAGCTTGAGTCTAAGAAAGA
*
14347539 CAAACTTGAGTCT
1 CAAGCTTGAGTCT
14347552 TCTGAGTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
20 7 0.13
21 45 0.87
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (21 bp):
CAAGCTTGAGTCTAAGAAAGA
Found at i:14348839 original size:14 final size:15
Alignment explanation
Indices: 14348815--14348843 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14348805 TTTTTCTGTG
14348815 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
14348830 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
14348844 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:14349874 original size:43 final size:42
Alignment explanation
Indices: 14349813--14349940 Score: 150
Period size: 43 Copynumber: 3.0 Consensus size: 42
14349803 ATAGGACTCT
* *
14349813 GATATCTGATTTCGTGTAAGACCACGTTTGGGACGTCGGCATC
1 GATATCTGATTACGTGTAAGACCACGTCTGGGACGT-GGCATC
*
14349856 GATATCTGATTACGTGTAAGACC-CTGTCTGGGATAGTGGCATC
1 GATATCTGATTACGTGTAAGACCAC-GTCTGGGA-CGTGGCATC
* * * *
14349899 AATATGTGATTACATATAAGACCACGTCTGGGACGATGGCAT
1 GATATCTGATTACGTGTAAGACCACGTCTGGGACG-TGGCAT
14349941 TGTACGAGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.03
43 68 0.93
44 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
GATATCTGATTACGTGTAAGACCACGTCTGGGACGTGGCATC
Found at i:14355344 original size:29 final size:28
Alignment explanation
Indices: 14355289--14355344 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
14355279 TTGGCTTATC
* *
14355289 ATTTTTGTCAAAACATTCAAGTCTTAAT
1 ATTTTTGTCAAAACATTCAAATATTAAT
* *
14355317 ATTTTTGTCTAAATCATTTAAATATTAA
1 ATTTTTGTC-AAAACATTCAAATATTAA
14355345 ATAAATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (28 bp):
ATTTTTGTCAAAACATTCAAATATTAAT
Found at i:14360176 original size:17 final size:18
Alignment explanation
Indices: 14360149--14360184 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
14360139 TTTAGTTATA
14360149 TTTAGTTTTCGATATGTT
1 TTTAGTTTTCGATATGTT
14360167 TTTA-TTTTCGATATGTT
1 TTTAGTTTTCGATATGTT
14360184 T
1 T
14360185 CATTTAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (18 bp):
TTTAGTTTTCGATATGTT
Found at i:14361423 original size:17 final size:17
Alignment explanation
Indices: 14361401--14361436 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
14361391 TTTGATTTTG
14361401 TTTTACTATTATTAAAA
1 TTTTACTATTATTAAAA
*
14361418 TTTTACTATTATTGAAA
1 TTTTACTATTATTAAAA
14361435 TT
1 TT
14361437 AGTATTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTACTATTATTAAAA
Found at i:14364716 original size:16 final size:16
Alignment explanation
Indices: 14364672--14364725 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
14364662 GAACTATTGT
*
14364672 TTACAGCTCTATTCCA
1 TTACAGCTCTATTCAA
* * * *
14364688 TTATAACTTTATTTAA
1 TTACAGCTCTATTCAA
*
14364704 TTACAGCTCTATTCCA
1 TTACAGCTCTATTCAA
14364720 TTACAG
1 TTACAG
14364726 TGAACCAAAC
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.43
Consensus pattern (16 bp):
TTACAGCTCTATTCAA
Found at i:14365355 original size:19 final size:20
Alignment explanation
Indices: 14365322--14365361 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14365312 AAATACAATC
* *
14365322 AAAACAAT-ATTTTTTTATA
1 AAAACAATAAATTTTCTATA
14365341 AAAACAATAAATTTTCTATA
1 AAAACAATAAATTTTCTATA
14365361 A
1 A
14365362 CTTGCACAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAACAATAAATTTTCTATA
Found at i:14372272 original size:16 final size:15
Alignment explanation
Indices: 14372237--14372272 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
14372227 CAAAATCAAG
14372237 ATTTTTACAACATTC
1 ATTTTTACAACATTC
*
14372252 ATTTTTACAATATTC
1 ATTTTTACAACATTC
14372267 ATTTTT
1 ATTTTT
14372273 GTTTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:14372579 original size:24 final size:24
Alignment explanation
Indices: 14372552--14372597 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
14372542 ATATATATTG
*
14372552 TTTTTAAATAAATTTGTTAATTCA
1 TTTTTAAATAAATTAGTTAATTCA
*
14372576 TTTTTAATTAAATTAGTTAATT
1 TTTTTAAATAAATTAGTTAATT
14372598 ACCATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTTTAAATAAATTAGTTAATTCA
Found at i:14374107 original size:19 final size:20
Alignment explanation
Indices: 14374083--14374121 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14374073 AATGATTAGC
*
14374083 AAAAAAA-TTCTTTAAAAAT
1 AAAAAAATTTCTATAAAAAT
14374102 AAAAAAATTTCTATAAAAAT
1 AAAAAAATTTCTATAAAAAT
14374122 TTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAAATTTCTATAAAAAT
Found at i:14375493 original size:22 final size:22
Alignment explanation
Indices: 14375468--14375509 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14375458 ATTACATAAC
14375468 TATAATTTTAAAAAATAAATTT
1 TATAATTTTAAAAAATAAATTT
* *
14375490 TATAGTTTTAGAAAATAAAT
1 TATAATTTTAAAAAATAAAT
14375510 AAATTTCTGA
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:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
TATAATTTTAAAAAATAAATTT
Found at i:14375895 original size:5 final size:5
Alignment explanation
Indices: 14375885--14375909 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14375875 CGGAACACTT
14375885 GAGCC GAGCC GAGCC GAGCC GAGCC
1 GAGCC GAGCC GAGCC GAGCC GAGCC
14375910 ATTTCATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.40, T:0.00
Consensus pattern (5 bp):
GAGCC
Found at i:14385290 original size:15 final size:14
Alignment explanation
Indices: 14385249--14385296 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
14385239 TGATTTGTGT
14385249 AAACTTAATTAATC
1 AAACTTAATTAATC
* *
14385263 AAAATTAATTTAATT
1 AAACTTAA-TTAATC
14385278 AAACTTTAATTAATC
1 AAAC-TTAATTAATC
14385293 AAAC
1 AAAC
14385297 CATAATCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 7 0.25
15 17 0.61
16 4 0.14
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (14 bp):
AAACTTAATTAATC
Found at i:14386071 original size:36 final size:36
Alignment explanation
Indices: 14385988--14386076 Score: 97
Period size: 39 Copynumber: 2.4 Consensus size: 36
14385978 TCTATTAAAA
* * * *
14385988 AAACAAAAAACTCATCACATTCAAAGAACAAATAAC
1 AAACAAAGAACCCAGCACATTCAAACAACAAATAAC
* *
14386024 AAACAATAAAGAACCCAGCATATTCAAACAACAAGTAAC
1 AAAC---AAAGAACCCAGCACATTCAAACAACAAATAAC
14386063 AAACAAAGAACCCA
1 AAACAAAGAACCCA
14386077 AAATATTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
36 14 0.32
39 30 0.68
ACGTcount: A:0.60, C:0.24, G:0.06, T:0.11
Consensus pattern (36 bp):
AAACAAAGAACCCAGCACATTCAAACAACAAATAAC
Found at i:14388343 original size:176 final size:178
Alignment explanation
Indices: 14387908--14388378 Score: 411
Period size: 169 Copynumber: 2.7 Consensus size: 178
14387898 ATTTTAATCC
* ** * * *
14387908 AAATTATATCAAAATTAAAGTATAGAGATTAAATCTCAAA-TTTGAGCGAAATATAGGGATCAAA
1 AAATTATGTCAAAAAAAAAGTATAGAAATTAAATCT-AAACTTTAAGAGAAATATAGGGATCAAA
* * * * * * * *
14387972 AATAAAATTTTACCATTATTATATAATC-TTAAAAATGTAGATG-GATTATAATTG-AATTTAGC
65 AATAAAATTTAACCATTCTCATATAATCATGAAATA-GTAGA-GAG-TTAAAACTGAAATTTAGA
* ** *
14388034 CATTATTTTCTCATG-C------CCA-AAA-GAAAAGAATGGATAGGTGTCT
127 CATTATTTTTTCATGTCAAAAGAAAAGAAAGGAAAAGAATGGACAGGTGTCT
** ** * * *
14388077 AAATTATGTCAAAATTAAAGTATAGGGATTTAATCTAAACTTTGAGAGTAATATAGGGATCAAAA
1 AAATTATGTCAAAAAAAAAGTATAGAAATTAAATCTAAACTTTAAGAGAAATATAGGGATCAAAA
* * *
14388142 ATCAAATTTAACCATTCTCATATAATTTCA-GAAA-GGTAGAGA-TTAAAATTGAAATTTAGACA
66 ATAAAATTTAACCATTCTCATATAA--TCATGAAATAGTAGAGAGTTAAAACTGAAATTTAGACA
*
14388204 TTATTTTTTCATGTCAAAAGAAAAGAAAGGAAAAGATTGGACAGGTGTCT
129 TTATTTTTTCATGTCAAAAGAAAAGAAAGGAAAAGAATGGACAGGTGTCT
* * * *
14388254 AAATTATGT-AAAAAAAAAGTTTAGAAATTAAATATTAAA-TTTAAGTGAAATATAGGGATTAAA
1 AAATTATGTCAAAAAAAAAGTATAGAAATTAAAT-CTAAACTTTAAGAGAAATATAGGGATCAAA
* * * *
14388317 ATTAAAATTTAATCATTTTTATATAATCATGAAATAGTAGAGAGGTTAAAACTGAAATTTAG
65 AATAAAATTTAACCATTCTCATATAATCATGAAATAGTAGAGA-GTTAAAACTGAAATTTAG
14388379 CCTCTTTTCC
Statistics
Matches: 246, Mismatches: 36, Indels: 31
0.79 0.12 0.10
Matches are distributed among these distances:
167 8 0.03
168 25 0.10
169 83 0.34
171 5 0.02
174 3 0.01
175 5 0.02
176 69 0.28
177 32 0.13
178 16 0.07
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (178 bp):
AAATTATGTCAAAAAAAAAGTATAGAAATTAAATCTAAACTTTAAGAGAAATATAGGGATCAAAA
ATAAAATTTAACCATTCTCATATAATCATGAAATAGTAGAGAGTTAAAACTGAAATTTAGACATT
ATTTTTTCATGTCAAAAGAAAAGAAAGGAAAAGAATGGACAGGTGTCT
Found at i:14390603 original size:19 final size:20
Alignment explanation
Indices: 14390568--14390624 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
14390558 ATTTCTTTTA
* *
14390568 TATATTATAAAAGTATTATT
1 TATATTCTAAAATTATTATT
14390588 TA-ATTCTAAAATTATTATT
1 TATATTCTAAAATTATTATT
*
14390607 TATTCTTCTAAAATTATT
1 TA-TATTCTAAAATTATT
14390625 CACTATCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.53
20 2 0.06
21 13 0.41
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (20 bp):
TATATTCTAAAATTATTATT
Found at i:14396016 original size:39 final size:39
Alignment explanation
Indices: 14395948--14396111 Score: 220
Period size: 39 Copynumber: 4.2 Consensus size: 39
14395938 AGGAGTACCA
* * *
14395948 AAGTACAACAGGGGCACATATATACGAACAAGGGTACTG
1 AAGTACAACAGGGGCACGTATGTGCGAACAAGGGTACTG
* * *
14395987 AAGTACAACAGGAGCACGTATGTGTGAACAGGGGTACTG
1 AAGTACAACAGGGGCACGTATGTGCGAACAAGGGTACTG
* * **
14396026 AAGTACAACAAGGGCATGTATGTGCGAACAAGTATACTG
1 AAGTACAACAGGGGCACGTATGTGCGAACAAGGGTACTG
* *
14396065 AAGTACAACAGGGGCACGTATGTGCGAACAGGGGTACCG
1 AAGTACAACAGGGGCACGTATGTGCGAACAAGGGTACTG
14396104 AAGTACAA
1 AAGTACAA
14396112 TAGTTATCTA
Statistics
Matches: 106, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.16
Consensus pattern (39 bp):
AAGTACAACAGGGGCACGTATGTGCGAACAAGGGTACTG
Found at i:14400942 original size:26 final size:26
Alignment explanation
Indices: 14400913--14400966 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
14400903 TTAGAAACTC
14400913 ATTTGAAATGAATTAATTGCATATAT
1 ATTTGAAATGAATTAATTGCATATAT
14400939 ATTTGAAATGAATTAATTGCATATAT
1 ATTTGAAATGAATTAATTGCATATAT
14400965 AT
1 AT
14400967 GCTGAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (26 bp):
ATTTGAAATGAATTAATTGCATATAT
Found at i:14404594 original size:19 final size:19
Alignment explanation
Indices: 14404570--14404607 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14404560 AGAAGATAAG
14404570 TTGAACTGAGTAAATCGTA
1 TTGAACTGAGTAAATCGTA
14404589 TTGAACTGAGTAAATCGTA
1 TTGAACTGAGTAAATCGTA
14404608 ATTTATCCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
TTGAACTGAGTAAATCGTA
Found at i:14412398 original size:32 final size:32
Alignment explanation
Indices: 14412357--14412422 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
14412347 TTTGCTATTA
14412357 AGTACTTGGTGACTAAGAAAGACGCCAAATCC
1 AGTACTTGGTGACTAAGAAAGACGCCAAATCC
*
14412389 AGTACTTGGTGACTAAGAAAGACGCTAAATCC
1 AGTACTTGGTGACTAAGAAAGACGCCAAATCC
14412421 AG
1 AG
14412423 ATTAGTTCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
AGTACTTGGTGACTAAGAAAGACGCCAAATCC
Found at i:14420556 original size:118 final size:118
Alignment explanation
Indices: 14420348--14420580 Score: 376
Period size: 118 Copynumber: 2.0 Consensus size: 118
14420338 AACCAAGGCT
* *
14420348 CAAAATTGAATGATATGGTTATTTCGATATCAACGACTAAATTGAATAAAATGTAAAAATTTAGA
1 CAAAATTGAAAGATATGATTATTTCGATATCAACGACTAAATTGAATAAAATGTAAAAATTTAGA
* * *
14420413 GGTATCAAAAAATAAGATTTTTTAGGTTCATTCATGTCATGGTATAATGTGTA
66 GGTATCAAAAAATAAGATTATTTAGGTTCATCCATGTCATGGCATAATGTGTA
* * * * *
14420466 CAAAATTGAAAGATATGATTATTTCGATTTTAATGACTAAATTGAATAAAATGTAAAACTTTAGG
1 CAAAATTGAAAGATATGATTATTTCGATATCAACGACTAAATTGAATAAAATGTAAAAATTTAGA
14420531 GGTATCAAAAAATAAGATTATTTAGGTTCATCCATGTCATGGCATAATGT
66 GGTATCAAAAAATAAGATTATTTAGGTTCATCCATGTCATGGCATAATGT
14420581 ATAAATGTTT
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (118 bp):
CAAAATTGAAAGATATGATTATTTCGATATCAACGACTAAATTGAATAAAATGTAAAAATTTAGA
GGTATCAAAAAATAAGATTATTTAGGTTCATCCATGTCATGGCATAATGTGTA
Found at i:14423076 original size:5 final size:5
Alignment explanation
Indices: 14423063--14423101 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
14423053 ACCCTCTCTT
* * *
14423063 TTCTC TTCTG TTCTC TTCTT TTCTC TTTTC TTCTC TTCT
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCT
14423102 TCTCCTCCTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.67
Consensus pattern (5 bp):
TTCTC
Found at i:14423084 original size:20 final size:20
Alignment explanation
Indices: 14423059--14423102 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
14423049 CCGAACCCTC
*
14423059 TCTTTTCTCTTCTGTTCTCT
1 TCTTTTCTCTTCTCTTCTCT
*
14423079 TCTTTTCTCTTTTCTTCTCT
1 TCTTTTCTCTTCTCTTCTCT
14423099 TCTT
1 TCTT
14423103 CTCCTCCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (20 bp):
TCTTTTCTCTTCTCTTCTCT
Found at i:14423894 original size:28 final size:28
Alignment explanation
Indices: 14423862--14423968 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
14423852 ACTGTACTGG
14423862 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
**
14423890 TTACTGTATTGGGCTAAGGCCTTCACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * * *
14423918 TTATTGTATTAGGCTAAGGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * *
14423946 TTATTGTTTTGGGGTAAGGCCCA
1 TTACTGTATTGGGCTAAGGCCCA
14423969 TATTGTACTG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:14425311 original size:27 final size:27
Alignment explanation
Indices: 14425280--14425340 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
14425270 TGCAAGGTTC
14425280 GCCACAGAGGCTATCCCTTCATCATT-T
1 GCCACAGAGGCTATCCCTTCA-CATTAT
* * * *
14425307 TCCACAAAGGCTTTCCTTTCACATTAT
1 GCCACAGAGGCTATCCCTTCACATTAT
14425334 GCCACAG
1 GCCACAG
14425341 GGTGTTCCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.30
Consensus pattern (27 bp):
GCCACAGAGGCTATCCCTTCACATTAT
Found at i:14444917 original size:20 final size:20
Alignment explanation
Indices: 14444872--14444917 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
14444862 AGAGATAAAG
14444872 AATAAAAATCAGAAAATCAA
1 AATAAAAATCAGAAAATCAA
*
14444892 ATTAAAAAT-AGCAAAAAT-AA
1 AATAAAAATCAG--AAAATCAA
14444912 AATAAA
1 AATAAA
14444918 GCAAAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 15 0.68
21 5 0.23
ACGTcount: A:0.72, C:0.07, G:0.04, T:0.17
Consensus pattern (20 bp):
AATAAAAATCAGAAAATCAA
Found at i:14446868 original size:25 final size:22
Alignment explanation
Indices: 14446814--14446868 Score: 56
Period size: 26 Copynumber: 2.3 Consensus size: 22
14446804 AATTTCAATT
14446814 AAAAATTTATTTAATAATTAAA
1 AAAAATTTATTTAATAATTAAA
*
14446836 AATTAAATTTATTATAAATATTTAAA
1 AA--AAATTTATT-T-AATAATTAAA
14446862 ACAAAAT
1 A-AAAAT
14446869 ATTAATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 2 0.07
24 9 0.33
25 5 0.19
26 10 0.37
27 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATTTATTTAATAATTAAA
Found at i:14452599 original size:18 final size:17
Alignment explanation
Indices: 14452576--14452609 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
14452566 ACCCGACCCA
14452576 TTTTTAAATTAAAATTAT
1 TTTTTAAA-TAAAATTAT
14452594 TTTTTAAATAAAATTA
1 TTTTTAAATAAAATTA
14452610 AAACTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTTAAATAAAATTAT
Found at i:14452643 original size:16 final size:16
Alignment explanation
Indices: 14452608--14452646 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
14452598 TAAATAAAAT
* * *
14452608 TAAAACTAATTGTTAT
1 TAAAATTAATTGGTAG
14452624 TAAAATTAATTGGTAG
1 TAAAATTAATTGGTAG
14452640 TAAAATT
1 TAAAATT
14452647 TTGAAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (16 bp):
TAAAATTAATTGGTAG
Found at i:14452732 original size:9 final size:9
Alignment explanation
Indices: 14452720--14452762 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
14452710 TTTATCAAAT
14452720 TATTAATTG
1 TATTAATTG
14452729 TATTAATTG
1 TATTAATTG
14452738 --TTAATTG
1 TATTAATTG
14452745 TATTAATTG
1 TATTAATTG
14452754 TATTAATTG
1 TATTAATTG
14452763 CTAATTTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.22
9 25 0.78
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (9 bp):
TATTAATTG
Found at i:14452736 original size:16 final size:16
Alignment explanation
Indices: 14452717--14452762 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
14452707 AAATTTATCA
14452717 AATTATTAATTGTATT
1 AATTATTAATTGTATT
*
14452733 AATTGTTAATTGTATT
1 AATTATTAATTGTATT
14452749 AATTGTATTAATTG
1 AA-T-TATTAATTG
14452763 CTAATTTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 17 0.65
17 1 0.04
18 8 0.31
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (16 bp):
AATTATTAATTGTATT
Found at i:14452748 original size:25 final size:25
Alignment explanation
Indices: 14452720--14452768 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
14452710 TTTATCAAAT
*
14452720 TATTAATTGTATTAATTGTTAATTG
1 TATTAATTGTATTAATTGCTAATTG
14452745 TATTAATTGTATTAATTGCTAATT
1 TATTAATTGTATTAATTGCTAATT
14452769 TGCTATAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (25 bp):
TATTAATTGTATTAATTGCTAATTG
Found at i:14452768 original size:16 final size:16
Alignment explanation
Indices: 14452717--14452754 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
14452707 AAATTTATCA
*
14452717 AATTATTAATTGTATT
1 AATTGTTAATTGTATT
14452733 AATTGTTAATTGTATT
1 AATTGTTAATTGTATT
14452749 AATTGT
1 AATTGT
14452755 ATTAATTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (16 bp):
AATTGTTAATTGTATT
Found at i:14453454 original size:64 final size:64
Alignment explanation
Indices: 14453353--14453484 Score: 237
Period size: 64 Copynumber: 2.1 Consensus size: 64
14453343 TCAATCGGAA
14453353 ATGTCGCATCTTAATTTCGAATATATTTATATGAAAAATTAATTTATTGGAAATACCAATCAAC
1 ATGTCGCATCTTAATTTCGAATATATTTATATGAAAAATTAATTTATTGGAAATACCAATCAAC
* * *
14453417 ATGTCGTATCTTAATTTTGAATATATTTATATGAAAAATTAATTTATTGGAAATAGCAATCAAC
1 ATGTCGCATCTTAATTTCGAATATATTTATATGAAAAATTAATTTATTGGAAATACCAATCAAC
14453481 ATGT
1 ATGT
14453485 TTGTTAGGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (64 bp):
ATGTCGCATCTTAATTTCGAATATATTTATATGAAAAATTAATTTATTGGAAATACCAATCAAC
Found at i:14453555 original size:11 final size:12
Alignment explanation
Indices: 14453526--14453559 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14453516 TTGAATGAAG
*
14453526 AAATAAATAAAT
1 AAATAATTAAAT
14453538 AAATAATTAAAT
1 AAATAATTAAAT
14453550 -AATAATTAAA
1 AAATAATTAAA
14453560 AGAGATCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATAATTAAAT
Found at i:14454744 original size:17 final size:17
Alignment explanation
Indices: 14454713--14454745 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14454703 ATAAAAATTC
14454713 CCCAACAACATTAGAAG
1 CCCAACAACATTAGAAG
14454730 CCCAA-AACATATAGAA
1 CCCAACAACAT-TAGAA
14454746 CATACTACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.27, G:0.09, T:0.12
Consensus pattern (17 bp):
CCCAACAACATTAGAAG
Found at i:14467011 original size:23 final size:23
Alignment explanation
Indices: 14466985--14467035 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
14466975 TCTAAAGCAA
* *
14466985 TTGTGGCATTTTCTGTAAAGCCT
1 TTGTGGCATGTTCTATAAAGCCT
* **
14467008 TTGTAGTGTGTTCTATAAAGCCT
1 TTGTGGCATGTTCTATAAAGCCT
14467031 TTGTG
1 TTGTG
14467036 ACGTATTTTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.24, T:0.45
Consensus pattern (23 bp):
TTGTGGCATGTTCTATAAAGCCT
Found at i:14467065 original size:23 final size:23
Alignment explanation
Indices: 14467039--14467090 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
14467029 CTTTGTGACG
* *
14467039 TATTTTGTGATGCTTGTGTGGCA
1 TATTTTGTAATGCCTGTGTGGCA
14467062 TATTTTGTAATGCCTGTGTGGCA
1 TATTTTGTAATGCCTGTGTGGCA
14467085 TATTTT
1 TATTTT
14467091 ATAGCGCCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.15, C:0.10, G:0.25, T:0.50
Consensus pattern (23 bp):
TATTTTGTAATGCCTGTGTGGCA
Found at i:14476263 original size:35 final size:35
Alignment explanation
Indices: 14476196--14476271 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
14476186 GTTATCGGCT
* * *
14476196 AGTCCTTCAAGGTGACACCGTGATGACAGTATATA
1 AGTCCTTCAAGGTGACACCATGATAACAGTATACA
* *
14476231 AGTCCTTCGAGGTGACACCATG-TAAACGGTATACA
1 AGTCCTTCAAGGTGACACCATGAT-AACAGTATACA
14476266 AGTCCT
1 AGTCCT
14476272 ATGAGGAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (35 bp):
AGTCCTTCAAGGTGACACCATGATAACAGTATACA
Found at i:14487961 original size:16 final size:16
Alignment explanation
Indices: 14487940--14487982 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
14487930 TTATAATTTA
14487940 TTAAATAAAA-ACTAT
1 TTAAATAAAATACTAT
*
14487955 CTTAAATAAAATATTAT
1 -TTAAATAAAATACTAT
14487972 TTAAATAAAAT
1 TTAAATAAAAT
14487983 GTTTAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAATAAAATACTAT
Found at i:14503649 original size:49 final size:48
Alignment explanation
Indices: 14503596--14503712 Score: 110
Period size: 49 Copynumber: 2.4 Consensus size: 48
14503586 TCATTATTTA
* * *
14503596 GCTCTTATGAGCTTCACGTTTA-TGGCTCGTATAAGCTTTCTGATTAATG
1 GCTCTTATGAGCTTC-CGTTTATTGGCTCGCATAAGCTTCCCGATT-ATG
** * *** *
14503645 GCTCTTCGGAGCTACCCAATATTGGCTCGCATGAGCTTCCCGATTATG
1 GCTCTTATGAGCTTCCGTTTATTGGCTCGCATAAGCTTCCCGATTATG
14503693 GCTCTTATGAGCTTCTCGTT
1 GCTCTTATGAGCTTC-CGTT
14503713 ACATGGTTCA
Statistics
Matches: 50, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
48 18 0.36
49 32 0.64
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (48 bp):
GCTCTTATGAGCTTCCGTTTATTGGCTCGCATAAGCTTCCCGATTATG
Found at i:14503785 original size:25 final size:26
Alignment explanation
Indices: 14503674--14503785 Score: 78
Period size: 25 Copynumber: 4.5 Consensus size: 26
14503664 TATTGGCTCG
* *
14503674 CATGAGCTTCCCGAT-TATGGCTCTT-
1 CATGAGCTTCCTGTTATATGGCT-TTA
* *
14503699 -ATGAGCTT-CTCGTTACATGG-TTCA
1 CATGAGCTTCCT-GTTATATGGCTTTA
*
14503723 CATGAGCTTCTTGTTATATGGCTTTA
1 CATGAGCTTCCTGTTATATGGCTTTA
* *
14503749 -AAGAGCTACCTGTTATAT-GC-TTA
1 CATGAGCTTCCTGTTATATGGCTTTA
14503772 CATGAGCATTCCTG
1 CATGAGC-TTCCTG
14503786 AATATGAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 16
0.71 0.13 0.17
Matches are distributed among these distances:
23 5 0.07
24 18 0.27
25 40 0.60
26 4 0.06
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (26 bp):
CATGAGCTTCCTGTTATATGGCTTTA
Found at i:14505952 original size:12 final size:12
Alignment explanation
Indices: 14505935--14505960 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14505925 AGGATATGCA
14505935 ATCTTAGATATG
1 ATCTTAGATATG
14505947 ATCTTAGATATG
1 ATCTTAGATATG
14505959 AT
1 AT
14505961 ATGCAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:14506009 original size:21 final size:23
Alignment explanation
Indices: 14505965--14506009 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
14505955 TATGATATGC
*
14505965 AATCTTAGAAGATATTATTTTGT
1 AATCTTAGAAGATATTAATTTGT
14505988 AATCTTAG-AGAT-TTAATTTGT
1 AATCTTAGAAGATATTAATTTGT
14506009 A
1 A
14506010 GATACCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 4 0.19
23 8 0.38
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (23 bp):
AATCTTAGAAGATATTAATTTGT
Found at i:14506317 original size:3 final size:3
Alignment explanation
Indices: 14506309--14506347 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
14506299 TGTTATTAAG
* *
14506309 TTA TTA TTA TTA TTT TTA TTA TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14506348 CTATATATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14510023 original size:6 final size:6
Alignment explanation
Indices: 14509998--14510079 Score: 60
Period size: 6 Copynumber: 13.2 Consensus size: 6
14509988 TTTCTCTTGA
* *
14509998 TTTTTC TTCTTT- TCTTTC TTTTTC TTTTTC ATTTTT- ATTTTC TTTTTC
1 TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC
* * *
14510046 CTTTTC TTTTGTC TCTTTAC TCATTTC TTTTTC T
1 TTTTTC TTTT-TC T-TTTTC T-TTTTC TTTTTC T
14510080 CTCAATTGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 7 0.12
6 32 0.53
7 18 0.30
8 3 0.05
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTTC
Found at i:14510038 original size:13 final size:12
Alignment explanation
Indices: 14509987--14510055 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
14509977 ACTCAATTTC
* *
14509987 TTTTCTCTTGAT
1 TTTTCTTTTTAT
14509999 TTTTCTTCTTT-T
1 TTTTCTT-TTTAT
* *
14510011 CTTTCTTTTTCT
1 TTTTCTTTTTAT
14510023 TTTTCATTTTTA-
1 TTTTC-TTTTTAT
**
14510035 TTTTCTTTTTCC
1 TTTTCTTTTTAT
14510047 TTTTCTTTT
1 TTTTCTTTT
14510056 GTCTCTTTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
11 8 0.17
12 32 0.68
13 7 0.15
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.77
Consensus pattern (12 bp):
TTTTCTTTTTAT
Found at i:14510418 original size:23 final size:23
Alignment explanation
Indices: 14510380--14510430 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
14510370 GTAGGGAGTT
* *
14510380 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
14510403 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
14510426 AGTAA
1 TGTAA
14510431 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:14512753 original size:50 final size:50
Alignment explanation
Indices: 14512699--14512979 Score: 287
Period size: 50 Copynumber: 5.6 Consensus size: 50
14512689 TGTGAGCCAG
*
14512699 TGTAAGACCATGCCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* *
14512749 TGTAAGACCATGTCTCGGACATGGTGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* *
14512799 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
** * * * * * **
14512849 CATAAGACGATGTCTAGGACATGGC-ATGAGCACCAATATGAGAACTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTG-GCACCGAGATGAGAGGTCCCA
* * * * * * * * * * ** *
14512899 TGTAAGACCATATCTAGGATATGACATTGACAGC-ACAGGAAACATCCAA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
*
14512948 TGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCA
14512980 TGTTATTATC
Statistics
Matches: 191, Mismatches: 38, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
49 37 0.19
50 152 0.80
51 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
Found at i:14514495 original size:23 final size:23
Alignment explanation
Indices: 14514468--14514518 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
14514458 GGGGGAGAAA
*
14514468 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
14514491 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
14514514 AGTAA
1 TGTAA
14514519 GAAAATATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:14519604 original size:20 final size:20
Alignment explanation
Indices: 14519576--14519616 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14519566 AGGTAATTTA
* *
14519576 AATTGAGCTTAAATGAGCTG
1 AATTAAGCTCAAATGAGCTG
*
14519596 AATTAAGCTCAAGTGAGCTG
1 AATTAAGCTCAAATGAGCTG
14519616 A
1 A
14519617 TCGGAGCTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (20 bp):
AATTAAGCTCAAATGAGCTG
Found at i:14521638 original size:18 final size:19
Alignment explanation
Indices: 14521598--14521640 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14521588 GACCTCGATG
*
14521598 ACTGAAAAAGGGTCGTGTC
1 ACTGAAAAAGGGTCGTGTA
*
14521617 ACTGAAAAAGGGTTGT-TA
1 ACTGAAAAAGGGTCGTGTA
14521635 ACTGAA
1 ACTGAA
14521641 CTACCTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (19 bp):
ACTGAAAAAGGGTCGTGTA
Found at i:14523755 original size:17 final size:17
Alignment explanation
Indices: 14523735--14523787 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
14523725 AATGACAATG
14523735 TGTGAGCTGTGCTTATA
1 TGTGAGCTGTGCTTATA
* * *
14523752 TGTGTGTTGCGCTTATA
1 TGTGAGCTGTGCTTATA
** *
14523769 TACGAGCTGTGTTTATA
1 TGTGAGCTGTGCTTATA
14523786 TG
1 TG
14523788 CTAGCTTTGT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.17, C:0.11, G:0.28, T:0.43
Consensus pattern (17 bp):
TGTGAGCTGTGCTTATA
Found at i:14523793 original size:17 final size:17
Alignment explanation
Indices: 14523773--14523856 Score: 78
Period size: 17 Copynumber: 4.9 Consensus size: 17
14523763 CTTATATACG
14523773 AGCTGTGTTTATATGCT
1 AGCTGTGTTTATATGCT
* *
14523790 AGCTTTGTTTATATGCA
1 AGCTGTGTTTATATGCT
* * **
14523807 AGTTGTGTTTATAAGAG
1 AGCTGTGTTTATATGCT
*
14523824 AGCTGTGTTTCTATGCT
1 AGCTGTGTTTATATGCT
* * *
14523841 AACTATGTTCATATGC
1 AGCTGTGTTTATATGC
14523857 AAACTGTTTC
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 51 1.00
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (17 bp):
AGCTGTGTTTATATGCT
Found at i:14523890 original size:34 final size:34
Alignment explanation
Indices: 14523851--14523974 Score: 115
Period size: 34 Copynumber: 3.6 Consensus size: 34
14523841 AACTATGTTC
**
14523851 ATATGCAAACTGTTTCAATGTGTGGATTGTGTAA
1 ATATGCAAACTGTGACAATGTGTGGATTGTGTAA
* * * * **
14523885 ATATGCTACCTATGACAATGTGCGTG-TTGTGTTT
1 ATATGCAAACTGTGACAATGTGTG-GATTGTGTAA
* * **
14523919 ATATGTAAACTGTGTCAATGTGTGGAACGTGTAA
1 ATATGCAAACTGTGACAATGTGTGGATTGTGTAA
*
14523953 ATATGCAAGCTGTGACAATGTG
1 ATATGCAAACTGTGACAATGTG
14523975 CGTGTTATGT
Statistics
Matches: 67, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
33 1 0.01
34 65 0.97
35 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.35
Consensus pattern (34 bp):
ATATGCAAACTGTGACAATGTGTGGATTGTGTAA
Found at i:14523937 original size:68 final size:68
Alignment explanation
Indices: 14523844--14523997 Score: 227
Period size: 68 Copynumber: 2.3 Consensus size: 68
14523834 CTATGCTAAC
* * ** *
14523844 TATGTTCATATGCAAACTGTTTCAATGTGTGGATTGTGTAAATATGCTACCTATGACAATGTGCG
1 TATGTTTATATGCAAACTGTGTCAATGTGTGGAACGTGTAAATATGCAACCTATGACAATGTGCG
14523909 TGT
66 TGT
* * * *
14523912 TGTGTTTATATGTAAACTGTGTCAATGTGTGGAACGTGTAAATATGCAAGCTGTGACAATGTGCG
1 TATGTTTATATGCAAACTGTGTCAATGTGTGGAACGTGTAAATATGCAACCTATGACAATGTGCG
14523977 TGT
66 TGT
14523980 TATGTTTATATGCAAACT
1 TATGTTTATATGCAAACT
14523998 CTCACTGTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 75 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (68 bp):
TATGTTTATATGCAAACTGTGTCAATGTGTGGAACGTGTAAATATGCAACCTATGACAATGTGCG
TGT
Found at i:14523991 original size:34 final size:34
Alignment explanation
Indices: 14523844--14523997 Score: 98
Period size: 34 Copynumber: 4.5 Consensus size: 34
14523834 CTATGCTAAC
* ** *
14523844 TATGTTCATATGCAAACTGTTTCAATGTGTG-GAT
1 TATGTTTATATGCAAACTGTGACAATGTGCGTG-T
* ** * * *
14523878 TGTGTAAATATGCTACCTATGACAATGTGCGTGT
1 TATGTTTATATGCAAACTGTGACAATGTGCGTGT
* * * *
14523912 TGTGTTTATATGTAAACTGTGTCAATGT--GTGG
1 TATGTTTATATGCAAACTGTGACAATGTGCGTGT
* ** *
14523944 AACGTGTAAATATGCAAGCTGTGACAATGTGCGTGT
1 TA--TGTTTATATGCAAACTGTGACAATGTGCGTGT
14523980 TATGTTTATATGCAAACT
1 TATGTTTATATGCAAACT
14523998 CTCACTGTAA
Statistics
Matches: 86, Mismatches: 29, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
32 3 0.03
34 78 0.91
35 1 0.01
36 4 0.05
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (34 bp):
TATGTTTATATGCAAACTGTGACAATGTGCGTGT
Found at i:14524199 original size:26 final size:26
Alignment explanation
Indices: 14524147--14524199 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14524137 TGTTTATGTA
* *
14524147 CGAGCTTTTTGTAAAGTAATTACGTG
1 CGAGCTCTTTGTAAAGTAATTAAGTG
14524173 CGAGCTCTTTGTAAAGT-ATCTAAGTG
1 CGAGCTCTTTGTAAAGTAAT-TAAGTG
14524199 C
1 C
14524200 TGGTCTGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (26 bp):
CGAGCTCTTTGTAAAGTAATTAAGTG
Found at i:14524420 original size:27 final size:27
Alignment explanation
Indices: 14524390--14524466 Score: 145
Period size: 27 Copynumber: 2.9 Consensus size: 27
14524380 CAAGATGTAG
14524390 AATGGATTCAAGCCATGCAAGATACAA
1 AATGGATTCAAGCCATGCAAGATACAA
14524417 AATGGATTCAAGCCATGCAAGATACAA
1 AATGGATTCAAGCCATGCAAGATACAA
*
14524444 AATGGATTCAAGACATGCAAGAT
1 AATGGATTCAAGCCATGCAAGAT
14524467 GAGCTCTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (27 bp):
AATGGATTCAAGCCATGCAAGATACAA
Found at i:14527526 original size:14 final size:14
Alignment explanation
Indices: 14527507--14527535 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14527497 AATGGCCTAT
14527507 AGTTTACGCGGGAA
1 AGTTTACGCGGGAA
14527521 AGTTTACGCGGGAA
1 AGTTTACGCGGGAA
14527535 A
1 A
14527536 TATAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (14 bp):
AGTTTACGCGGGAA
Found at i:14528463 original size:12 final size:12
Alignment explanation
Indices: 14528446--14528470 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14528436 TGTAAATGAA
14528446 TCATTTCCATTT
1 TCATTTCCATTT
14528458 TCATTTCCATTT
1 TCATTTCCATTT
14528470 T
1 T
14528471 GGAAATCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:14530510 original size:136 final size:136
Alignment explanation
Indices: 14530266--14530538 Score: 501
Period size: 136 Copynumber: 2.0 Consensus size: 136
14530256 ATAGAGGAGG
14530266 TAGTGCCCACTACCATTGTCCTTTCAAAGCCTCAAGGGAGCCAACTAGTGGACAAGAAGGAAAGT
1 TAGTGCCCACTACCATTGTCCTTTCAAAGCCTCAAGGGAGCCAACTAGTGGACAAGAAGGAAAGT
* *
14530331 GTAGATATCTCTATTCAAGAAGCCTTAGTAGAGATCGATAAGCTAATTGCTTATCCTTCAATTCT
66 GTAGATATCTCTATTCAAGAAGCCTTAGCAGAGATCGATAAGCTAATTGCTTATCCTCCAATTCT
14530396 AGAACA
131 AGAACA
* * *
14530402 TAGTGTCCACTACCATTGTCCTTTCAAAGCCTCAAGGGAGCCAACTAGTGGACAAGGAGGAAGGT
1 TAGTGCCCACTACCATTGTCCTTTCAAAGCCTCAAGGGAGCCAACTAGTGGACAAGAAGGAAAGT
14530467 GTAGATATCTCTATTCAAGAAGCCTTAGCAGAGATCGATAAGCTAATTGCTTATCCTCCAATTCT
66 GTAGATATCTCTATTCAAGAAGCCTTAGCAGAGATCGATAAGCTAATTGCTTATCCTCCAATTCT
14530532 AGAACA
131 AGAACA
14530538 T
1 T
14530539 CAATGACCAC
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 132 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (136 bp):
TAGTGCCCACTACCATTGTCCTTTCAAAGCCTCAAGGGAGCCAACTAGTGGACAAGAAGGAAAGT
GTAGATATCTCTATTCAAGAAGCCTTAGCAGAGATCGATAAGCTAATTGCTTATCCTCCAATTCT
AGAACA
Found at i:14534919 original size:54 final size:54
Alignment explanation
Indices: 14534861--14534994 Score: 171
Period size: 54 Copynumber: 2.5 Consensus size: 54
14534851 CTAGCGGACC
* * * *
14534861 CTAGCTTGCTAAACAGACTGGTGAAC-TTCTAGTTCGCAACTCAACTAGTAAACA
1 CTAGCTTGCCAAACAGACTGGTGAACTTTC-AATTCGCAACCCAACTAGAAAACA
* * * *
14534915 CTAGCTCGCCAAACAGACTAGTGAACTTTCAATTTGCAACCCAACTGGAAAACA
1 CTAGCTTGCCAAACAGACTGGTGAACTTTCAATTCGCAACCCAACTAGAAAACA
*
14534969 CTAGCTTGCCAAACAGACTGGCGAAC
1 CTAGCTTGCCAAACAGACTGGTGAAC
14534995 CCACTTGCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 65 0.96
55 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (54 bp):
CTAGCTTGCCAAACAGACTGGTGAACTTTCAATTCGCAACCCAACTAGAAAACA
Found at i:14536943 original size:18 final size:18
Alignment explanation
Indices: 14536922--14536957 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14536912 AGATTTGCCA
*
14536922 ATCATGTTATTATTGATT
1 ATCAAGTTATTATTGATT
14536940 ATCAAGTTATTATTGATT
1 ATCAAGTTATTATTGATT
14536958 CCATTTGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (18 bp):
ATCAAGTTATTATTGATT
Found at i:14551310 original size:56 final size:56
Alignment explanation
Indices: 14551250--14551361 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
14551240 TATATTGCCT
14551250 CCTGCTTAGACTGATAAATCCAAAAGAAATTGTTATATCCTCTATTCAACGGGGAG
1 CCTGCTTAGACTGATAAATCCAAAAGAAATTGTTATATCCTCTATTCAACGGGGAG
14551306 CCTGCTTAGACTGATAAATCCAAAAGAAATTGTTATATCCTCTATTCAACGGGGAG
1 CCTGCTTAGACTGATAAATCCAAAAGAAATTGTTATATCCTCTATTCAACGGGGAG
14551362 AAATGAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (56 bp):
CCTGCTTAGACTGATAAATCCAAAAGAAATTGTTATATCCTCTATTCAACGGGGAG
Found at i:14564328 original size:7 final size:6
Alignment explanation
Indices: 14564307--14564347 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
14564297 TTACAACATA
* *
14564307 TTTTGT TTTTGT TTTTGT TTTTGGT TTTGGT TTTGGT TTTT
1 TTTTGT TTTTGT TTTTGT TTTT-GT TTTTGT TTTTGT TTTT
14564348 CTTTACCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (6 bp):
TTTTGT
Found at i:14564339 original size:19 final size:18
Alignment explanation
Indices: 14564307--14564347 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
14564297 TTACAACATA
* *
14564307 TTTTGTTTTTGTTTTTGT
1 TTTTGGTTTTGTTTTGGT
14564325 TTTTGGTTTTGGTTTTGGT
1 TTTTGGTTTT-GTTTTGGT
14564344 TTTT
1 TTTT
14564348 CTTTACCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (18 bp):
TTTTGGTTTTGTTTTGGT
Found at i:14576919 original size:363 final size:362
Alignment explanation
Indices: 14576290--14577018 Score: 1206
Period size: 363 Copynumber: 2.0 Consensus size: 362
14576280 ATAGCACCAC
*
14576290 TATTAGGATACCATGCCTAATCGATAACCGTTCGACAAGTAGCAACCATCGCAACAATGTTTCCG
1 TATTAGGATACCATGCCTAATCGATAACCGTTCGACAAGTAGCAACCATCGCAACAATGTTTCCA
* *
14576355 TGAGAGTAAGAACCATTGTAATCTGCATATGGCACTCTAGAAACAAAACTAGATACAGACCCTAA
66 TGAGAATAAGAACCATTGTAATCTGCATATAGCACTCTAGAAACAAAACTAGATACAGACCCTAA
* * * *
14576420 AGAGTTGAGCGGTGGAGATGAAGAGACATTAGGGGGAGATGAGGAGACACAAGAAAATGACCCAC
131 AGAGTTGAACGGTGGAGATGAAGAGACATTAAGAGGAGATGAGGAGACACAAGAAAATGAACCAC
14576485 CAAAAAATGGTAGAAGAAAAGGCACGAGCAGACGGTAAGAAAGAAACACGAGCAGACCCAAACCC
196 CAAAAAATGGTAGAAGAAAAGGCACGAGCAGACGGTAAGAAAGAAACACGAGCAGACCCAAACCC
** * * **
14576550 TAATGAATTATGTGGATCACGCTCAGTGTAACAATATTGGGGCAAAATGGGCTAAGAAGAACGAG
261 TAATGAATTATGTGGATCACGCTCAGCATAAAAATATTGGGCCAAAACAGGCTAAGAAGAACGAG
* *
14576615 CTTGGAAATTACTACCTAAATTGGGCTCAACATAACAA
326 CCT-GAAATTACTACCTAAATTGAGCTCAACATAACAA
* * *
14576653 TATTAGGATACCATGCCTGATCGATAACCGTTCGACAAGTAGCAACCGTCGTAACAATGTTTCCA
1 TATTAGGATACCATGCCTAATCGATAACCGTTCGACAAGTAGCAACCATCGCAACAATGTTTCCA
**
14576718 TGAGAATAAGAACCATTGTAATCTGCATATAGCACTCTAGAAACAAAACTAGATATGGACCCTAA
66 TGAGAATAAGAACCATTGTAATCTGCATATAGCACTCTAGAAACAAAACTAGATACAGACCCTAA
**
14576783 AGAGTTGAACGGTGGAGATGAAGAGACATTAAGAGGAGATGAGGAGACACGGGAAAATGAACCAC
131 AGAGTTGAACGGTGGAGATGAAGAGACATTAAGAGGAGATGAGGAGACACAAGAAAATGAACCAC
* *
14576848 CAAAAAATGGTAGAAGAAAAGGCACGAGCAGACGGTAAGAAAGAAACATGAGCAGACCCAAACCT
196 CAAAAAATGGTAGAAGAAAAGGCACGAGCAGACGGTAAGAAAGAAACACGAGCAGACCCAAACCC
* * *
14576913 TAATGAATTATGTGGATCACGCTCAGCATAAAAATATTGGGCCGAAACAGGCTGAGAAGAACGGG
261 TAATGAATTATGTGGATCACGCTCAGCATAAAAATATTGGGCCAAAACAGGCTAAGAAGAACGAG
14576978 CCTGAAATTACTACCTAAATTGAGCTCAACATAACAA
326 CCTGAAATTACTACCTAAATTGAGCTCAACATAACAA
14577015 TATT
1 TATT
14577019 GAGCCAATGT
Statistics
Matches: 339, Mismatches: 27, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
362 37 0.11
363 302 0.89
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (362 bp):
TATTAGGATACCATGCCTAATCGATAACCGTTCGACAAGTAGCAACCATCGCAACAATGTTTCCA
TGAGAATAAGAACCATTGTAATCTGCATATAGCACTCTAGAAACAAAACTAGATACAGACCCTAA
AGAGTTGAACGGTGGAGATGAAGAGACATTAAGAGGAGATGAGGAGACACAAGAAAATGAACCAC
CAAAAAATGGTAGAAGAAAAGGCACGAGCAGACGGTAAGAAAGAAACACGAGCAGACCCAAACCC
TAATGAATTATGTGGATCACGCTCAGCATAAAAATATTGGGCCAAAACAGGCTAAGAAGAACGAG
CCTGAAATTACTACCTAAATTGAGCTCAACATAACAA
Found at i:14579015 original size:26 final size:26
Alignment explanation
Indices: 14578979--14579031 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
14578969 TTGAATAAAA
14578979 AGGGGTCGCTAAGTG-TAGATTCCCCG
1 AGGGGTCGCTAAGTGCT-GATTCCCCG
*
14579005 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTCGCTAAGTGCTGATTCCCCG
14579031 A
1 A
14579032 ATTATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.25
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCTGATTCCCCG
Found at i:14579064 original size:42 final size:43
Alignment explanation
Indices: 14579008--14579159 Score: 152
Period size: 42 Copynumber: 3.6 Consensus size: 43
14578998 TTCCCCGAGG
*
14579008 GGTTGCTAAGTGCTGATTCC-CCGAATTATTAACTTTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTAACTTTAAAGGT
* * * * *
14579050 TGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTAACT-TTAAAGGT
* * *
14579093 GGTTGATATGTGCTGATTCC-CCGTAATCACTGAA-TTT-AAGGT
1 GGTTGCTAAGTGCTGATTCCACCG-AATCA-TTAACTTTAAAGGT
*
14579135 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
14579160 GTTACGGATA
Statistics
Matches: 87, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 4 0.05
42 41 0.47
43 34 0.39
44 8 0.09
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGAATCATTAACTTTAAAGGT
Found at i:14582603 original size:33 final size:34
Alignment explanation
Indices: 14582566--14582632 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
14582556 GGATTTTTGA
* * *
14582566 CACTG-TACTGAGATGGGCTAATGCCCAA-ACTGT
1 CACTGATACTGAAAAGGGCT-AGGCCCAAGACTGT
14582599 CACTGATACTGAAAAGGGCTAGGCCCAAGACTGT
1 CACTGATACTGAAAAGGGCTAGGCCCAAGACTGT
14582633 TCAACTGTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (34 bp):
CACTGATACTGAAAAGGGCTAGGCCCAAGACTGT
Found at i:14585405 original size:20 final size:20
Alignment explanation
Indices: 14585329--14585416 Score: 81
Period size: 20 Copynumber: 4.3 Consensus size: 20
14585319 TTTTTTATAA
*
14585329 AATTTTTAAAATATAATTTTTGG
1 AATTTTTAAAA-ATTA-TTTT-G
* *
14585352 AATTTCTATAAA-TATTTTG
1 AATTTTTAAAAATTATTTTG
*
14585371 TA-TTTTAAAAATTATTTTG
1 AATTTTTAAAAATTATTTTG
* *
14585390 AATTTTTGAAATTTATTTTG
1 AATTTTTAAAAATTATTTTG
14585410 AATTTTT
1 AATTTTT
14585417 TTGTAACTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
18 7 0.13
19 10 0.19
20 26 0.48
21 1 0.02
22 1 0.02
23 9 0.17
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTG
Found at i:14592580 original size:16 final size:17
Alignment explanation
Indices: 14592546--14592581 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14592536 ATGTGCACTC
14592546 TCTTTGCTCTTTCATTA
1 TCTTTGCTCTTTCATTA
*
14592563 TCTTTGTTCTTT-ATTA
1 TCTTTGCTCTTTCATTA
14592579 TCT
1 TCT
14592582 ATCTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.11, C:0.19, G:0.06, T:0.64
Consensus pattern (17 bp):
TCTTTGCTCTTTCATTA
Found at i:14595266 original size:34 final size:34
Alignment explanation
Indices: 14595228--14595308 Score: 144
Period size: 34 Copynumber: 2.4 Consensus size: 34
14595218 CATCAGCTTA
*
14595228 GGCCTTAGCCCATTTCAGTAACAGTAAGTATTAG
1 GGCCTTAGCCCATTTCAGTAACAGTAAGCATTAG
*
14595262 GGCCTTAGCCCATTTCAGTAATAGTAAGCATTAG
1 GGCCTTAGCCCATTTCAGTAACAGTAAGCATTAG
14595296 GGCCTTAGCCCAT
1 GGCCTTAGCCCAT
14595309 CATAGTACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (34 bp):
GGCCTTAGCCCATTTCAGTAACAGTAAGCATTAG
Found at i:14595314 original size:28 final size:30
Alignment explanation
Indices: 14595250--14595315 Score: 73
Period size: 34 Copynumber: 2.1 Consensus size: 30
14595240 TTTCAGTAAC
*
14595250 AGTAAGTATTAGGGCCTTAGCCCATTTCAGTAAT
1 AGTAAGCATTAGGGCCTTAGCCCA-TTC---AAT
14595284 AGTAAGCATTAGGGCCTTAGCCCA-TC-AT
1 AGTAAGCATTAGGGCCTTAGCCCATTCAAT
14595312 AGTA
1 AGTA
14595316 CAGTAACAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
28 6 0.19
32 2 0.06
34 23 0.74
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (30 bp):
AGTAAGCATTAGGGCCTTAGCCCATTCAAT
Found at i:14595813 original size:18 final size:17
Alignment explanation
Indices: 14595790--14595825 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14595780 TGTGTTGAAT
14595790 GCCCATATGGGCCCACAC
1 GCCCATAT-GGCCCACAC
*
14595808 GCCCATGTGGCCCACAC
1 GCCCATATGGCCCACAC
14595825 G
1 G
14595826 GCTCAAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.19, C:0.44, G:0.25, T:0.11
Consensus pattern (17 bp):
GCCCATATGGCCCACAC
Done.