Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 87 of 356
Found at i:27301852 original size:21 final size:21
Alignment explanation
Indices: 27301828--27301869 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27301818 GGAGTAATCG
27301828 AACAAATCTGGGTTTGTATTA
1 AACAAATCTGGGTTTGTATTA
27301849 AACAAATCTGGGTTTGTATTA
1 AACAAATCTGGGTTTGTATTA
27301870 CTATAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (21 bp):
AACAAATCTGGGTTTGTATTA
Found at i:27302236 original size:15 final size:14
Alignment explanation
Indices: 27302200--27302239 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
27302190 ATTTGATTGG
27302200 AAAATGAATT-AAA
1 AAAATGAATTAAAA
*
27302213 AATATGAATTAAATA
1 AAAATGAATTAAA-A
27302228 AAAATGAATTAA
1 AAAATGAATTAA
27302240 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 9 0.39
14 2 0.09
15 12 0.52
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAA
Found at i:27302536 original size:186 final size:186
Alignment explanation
Indices: 27302342--27302716 Score: 723
Period size: 186 Copynumber: 2.0 Consensus size: 186
27302332 GTATTGGTAT
27302342 TGAATTGTTTATTGATTAGAAAGTGGAAAAGTGAATTTGAATTGAATGAGAATTGAATTGAATGG
1 TGAATTGTTTATTGATTAGAAAGTGGAAAAGTGAATTTGAATTGAATGAGAATTGAATTGAATGG
27302407 TGAATGTGTATGTATAATTGAACTGTATATTGATTTGAATGTGAAATTGTAATTGAAAAGTGATC
66 TGAATGTGTATGTATAATTGAACTGTATATTGATTTGAATGTGAAATTGTAATTGAAAAGTGATC
*
27302472 TTGAATTGGAAATAAAAGTGAATTGAGAATTAAAGTACCGTATTAACTAGTCGGGC
131 TTGAATTGGAAATAAAAGTGAATTGAGAATTAAAGTACCCTATTAACTAGTCGGGC
*
27302528 TGAATTGTTTATTGATTAGAAAGTTGAAAAGTGAATTTGAATTGAATGAGAATTGAATTGAATGG
1 TGAATTGTTTATTGATTAGAAAGTGGAAAAGTGAATTTGAATTGAATGAGAATTGAATTGAATGG
27302593 TGAATGTGTATGTATAATTGAACTGTATATTGATTTGAATGTGAAATTGTAATTGAAAAGTGATC
66 TGAATGTGTATGTATAATTGAACTGTATATTGATTTGAATGTGAAATTGTAATTGAAAAGTGATC
*
27302658 TTGAATTGGAAATGAAAGTGAATTGAGAATTAAAGTACCCTATTAACTAGTCGGGC
131 TTGAATTGGAAATAAAAGTGAATTGAGAATTAAAGTACCCTATTAACTAGTCGGGC
27302714 TGA
1 TGA
27302717 GTCGGATATA
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 186 1.00
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.35
Consensus pattern (186 bp):
TGAATTGTTTATTGATTAGAAAGTGGAAAAGTGAATTTGAATTGAATGAGAATTGAATTGAATGG
TGAATGTGTATGTATAATTGAACTGTATATTGATTTGAATGTGAAATTGTAATTGAAAAGTGATC
TTGAATTGGAAATAAAAGTGAATTGAGAATTAAAGTACCCTATTAACTAGTCGGGC
Found at i:27304232 original size:29 final size:30
Alignment explanation
Indices: 27304172--27304233 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
27304162 AATTATTTTA
*
27304172 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
27304202 TTGTTAA-TTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
27304231 TTG
1 TTG
27304234 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:27304710 original size:20 final size:19
Alignment explanation
Indices: 27304666--27304703 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
27304656 GTTGTGTGTT
27304666 TAATTAAGCTTTAATTAAG
1 TAATTAAGCTTTAATTAAG
*
27304685 TGAATTTAGC-TTAATTAAG
1 T-AATTAAGCTTTAATTAAG
27304704 AATAATTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (19 bp):
TAATTAAGCTTTAATTAAG
Found at i:27305190 original size:8 final size:8
Alignment explanation
Indices: 27305173--27305210 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
27305163 TAAAGTAAAT
27305173 AAAG-ATA
1 AAAGAATA
27305180 AAAGAATA
1 AAAGAATA
*
27305188 AAAAAACTA
1 AAAGAA-TA
27305197 AAAGAATA
1 AAAGAATA
27305205 AAAGAA
1 AAAGAA
27305211 AGAAATGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 4 0.15
8 16 0.59
9 7 0.26
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAGAATA
Found at i:27305549 original size:36 final size:35
Alignment explanation
Indices: 27305509--27305601 Score: 100
Period size: 36 Copynumber: 2.5 Consensus size: 35
27305499 TATATGTGTG
*
27305509 GAATTGAATTGAATAT-TGACTTGAAAA-TGGAAAAGT
1 GAATTGAATTGAAT-TGTGA-TT-AAAAGTGAAAAAGT
27305545 GAATTTTGAATTGAATTGTGATTAAAAGTGAAAAAGT
1 GAA--TTGAATTGAATTGTGATTAAAAGTGAAAAAGT
*
27305582 GAAATTGAATTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
27305602 ATTTGGAGAC
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
36 22 0.44
37 12 0.24
38 16 0.32
ACGTcount: A:0.44, C:0.01, G:0.23, T:0.32
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTAAAAGTGAAAAAGT
Found at i:27306491 original size:12 final size:12
Alignment explanation
Indices: 27306450--27306491 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
27306440 TTAAATAGAA
27306450 ATGAATGAAATT
1 ATGAATGAAATT
*
27306462 ATCAAT-AAATT
1 ATGAATGAAATT
* *
27306473 TTGAATGATATT
1 ATGAATGAAATT
27306485 ATGAATG
1 ATGAATG
27306492 TTTATTTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.38
Consensus pattern (12 bp):
ATGAATGAAATT
Found at i:27306600 original size:22 final size:22
Alignment explanation
Indices: 27306550--27306600 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
27306540 TATTCAAATG
27306550 TGAA-TTGGATTGGTTGTGATT
1 TGAATTTGGATTGGTTGTGATT
***
27306571 TTTGTTTGGATTGGTCT-TGATT
1 TGAATTTGGATTGGT-TGTGATT
27306593 TGAATTTG
1 TGAATTTG
27306601 TAGGGAATGT
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
21 1 0.05
22 20 0.91
23 1 0.05
ACGTcount: A:0.16, C:0.02, G:0.29, T:0.53
Consensus pattern (22 bp):
TGAATTTGGATTGGTTGTGATT
Found at i:27306946 original size:16 final size:16
Alignment explanation
Indices: 27306925--27306955 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27306915 TTCCATCCCG
27306925 ATTTTGATTAAATTTT
1 ATTTTGATTAAATTTT
27306941 ATTTTGATTAAATTT
1 ATTTTGATTAAATTT
27306956 ATAATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
ATTTTGATTAAATTTT
Found at i:27307141 original size:19 final size:21
Alignment explanation
Indices: 27307100--27307141 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
27307090 AAAATTATTG
**
27307100 ATTTTTAAAAATATTTATGAA
1 ATTTTTAAAAATATTTACCAA
27307121 ATTTTT-AAAAT-TTTACCAA
1 ATTTTTAAAAATATTTACCAA
27307140 AT
1 AT
27307142 AATATCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 8 0.42
20 5 0.26
21 6 0.32
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTTTAAAAATATTTACCAA
Found at i:27310212 original size:56 final size:57
Alignment explanation
Indices: 27310064--27310220 Score: 183
Period size: 56 Copynumber: 2.8 Consensus size: 57
27310054 CTAATTGAGC
* * * * ***
27310064 CTTT-GAGCATATGTTAAAGTCTGGATTTAGCCTAGACTGGTAATCCAGATTGAGCT
1 CTTTAGAGCATATGTTACAGACAGGATTTAGCCTGGACTGGTAATCCAGACAAAGCT
* * * * *
27310120 CTTTAGAGTATTTGTCACAGAAAGGATTTAGCCTGGACTGGTAATCCTGACAAAGCT
1 CTTTAGAGCATATGTTACAGACAGGATTTAGCCTGGACTGGTAATCCAGACAAAGCT
*
27310177 C-TTAGAGCATATGTTACAGACAGGATTTAGACTGGACTGGTAAT
1 CTTTAGAGCATATGTTACAGACAGGATTTAGCCTGGACTGGTAAT
27310221 GCTGCTGTAT
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
56 42 0.51
57 41 0.49
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (57 bp):
CTTTAGAGCATATGTTACAGACAGGATTTAGCCTGGACTGGTAATCCAGACAAAGCT
Found at i:27322567 original size:15 final size:15
Alignment explanation
Indices: 27322547--27322576 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27322537 GTAAGTTTTC
27322547 TTTCTATTACACGAA
1 TTTCTATTACACGAA
*
27322562 TTTCTATTACGCGAA
1 TTTCTATTACACGAA
27322577 CTTACTAAGC
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:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (15 bp):
TTTCTATTACACGAA
Found at i:27327197 original size:21 final size:21
Alignment explanation
Indices: 27327171--27327212 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27327161 TCACGCCAAG
27327171 TAGTAAATGCATTTGTATAGT
1 TAGTAAATGCATTTGTATAGT
27327192 TAGTAAATGCATTTGTATAGT
1 TAGTAAATGCATTTGTATAGT
27327213 AAACTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (21 bp):
TAGTAAATGCATTTGTATAGT
Found at i:27330704 original size:35 final size:34
Alignment explanation
Indices: 27330614--27330802 Score: 107
Period size: 33 Copynumber: 5.6 Consensus size: 34
27330604 AATTGACGGA
* * * * * *
27330614 TAAGACCATAACTGGGTTATGGCACTATGA-ACG
1 TAAGACCATAGCTGGGCTATGGCAGTTTTATATG
* * * *
27330647 TAAGACCATGGTTGGACCATGGCAGTGTTTATATG
1 TAAGACCATAGCTGGGCTATGGCAGT-TTTATATG
* *
27330682 TAAGATCATAGCTGGGCTATGGCA-TTTT-GATG
1 TAAGACCATAGCTGGGCTATGGCAGTTTTATATG
* * * * * *
27330714 ATATGACCATAACTGGGTTATGGCACTATGA-ATG
1 -TAAGACCATAGCTGGGCTATGGCAGTTTTATATG
* * * *
27330748 TAAGACCATGGTTGGACCATGGCAGTGTTTATATG
1 TAAGACCATAGCTGGGCTATGGCAGT-TTTATATG
* *
27330783 TAAGACCAGAGTTGGGCTAT
1 TAAGACCATAGCTGGGCTAT
27330803 TGCATTCTGA
Statistics
Matches: 113, Mismatches: 36, Indels: 12
0.70 0.22 0.07
Matches are distributed among these distances:
32 3 0.03
33 60 0.53
34 10 0.09
35 40 0.35
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (34 bp):
TAAGACCATAGCTGGGCTATGGCAGTTTTATATG
Found at i:27330755 original size:33 final size:33
Alignment explanation
Indices: 27330614--27330756 Score: 108
Period size: 33 Copynumber: 4.3 Consensus size: 33
27330604 AATTGACGGA
* *
27330614 TAAGACCATAACTGGGTTATGGCACTATGAACG
1 TAAGACCATAACTGGGCTATGGCACTATGAATG
*** * * * * *
27330647 TAAGACCATGGTTGGACCATGGCAGTGTTTATATG
1 TAAGACCATAACTGGGCTATGGCACT-ATGA-ATG
* * * *
27330682 TAAGATCATAGCTGGGCTATGGCATTTTG-ATG
1 TAAGACCATAACTGGGCTATGGCACTATGAATG
* *
27330714 ATATGACCATAACTGGGTTATGGCACTATGAATG
1 -TAAGACCATAACTGGGCTATGGCACTATGAATG
27330748 TAAGACCAT
1 TAAGACCAT
27330757 GGTTGGACCA
Statistics
Matches: 82, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
32 3 0.04
33 50 0.61
34 7 0.09
35 22 0.27
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (33 bp):
TAAGACCATAACTGGGCTATGGCACTATGAATG
Found at i:27330799 original size:101 final size:101
Alignment explanation
Indices: 27330612--27330851 Score: 381
Period size: 101 Copynumber: 2.4 Consensus size: 101
27330602 TGAATTGACG
*
27330612 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCATGGCAGTGTTT
* * *
27330677 ATATGTAAGATCATAGCTGGGCTATGGCATTTTGAT
66 ATATGTAAGACCAGAGCTGGGCTATGGCATTCTGAT
*
27330713 GATATGACCATAACTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCATGGCAGTGTTT
* *
27330778 ATATGTAAGACCAGAGTTGGGCTATTGCATTCTGAT
66 ATATGTAAGACCAGAGCTGGGCTATGGCATTCTGAT
* * * *
27330814 GATAAAACCATAACTAGGTTATAGCACTACGAATGTAA
1 GATAAGACCATAACTGGGTTATGGCACTATGAATGTAA
27330852 AGGATGAATT
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 127 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCATGGCAGTGTTT
ATATGTAAGACCAGAGCTGGGCTATGGCATTCTGAT
Found at i:27334714 original size:23 final size:23
Alignment explanation
Indices: 27334670--27334714 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
27334660 CCACTTATTT
*
27334670 TGGCTTGTTTTGAATGTTTAATTA
1 TGGCTTG-TTTGAATGTGTAATTA
27334694 TGGCTTG-TTGATATGTGTAAT
1 TGGCTTGTTTGA-ATGTGTAAT
27334715 GTTGATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 8 0.42
24 7 0.37
ACGTcount: A:0.20, C:0.04, G:0.24, T:0.51
Consensus pattern (23 bp):
TGGCTTGTTTGAATGTGTAATTA
Found at i:27338066 original size:21 final size:21
Alignment explanation
Indices: 27338023--27338068 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
27338013 CTCTTTAATC
**
27338023 TCTTCACTTTCTCTTCAACTT
1 TCTTCACTTTCAATTCAACTT
27338044 TCTTCACTTTCAATTCCAA-TT
1 TCTTCACTTTCAATT-CAACTT
27338065 TCTT
1 TCTT
27338069 GTTTCCAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.52
Consensus pattern (21 bp):
TCTTCACTTTCAATTCAACTT
Found at i:27338294 original size:13 final size:11
Alignment explanation
Indices: 27338267--27338313 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
27338257 TTTTCATAGT
27338267 TAAAATATTAA
1 TAAAATATTAA
27338278 TAAAATATCTAAA
1 TAAAATAT-T-AA
*
27338291 TAAAATATTAT
1 TAAAATATTAA
*
27338302 TAAAATAATAA
1 TAAAATATTAA
27338313 T
1 T
27338314 TAACTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 19 0.61
12 2 0.06
13 10 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAAATATTAA
Found at i:27341723 original size:28 final size:28
Alignment explanation
Indices: 27341681--27341736 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
27341671 ACCAAGGCTG
*
27341681 GCTAAAAAAATTAAAATTTAACTGTCAA
1 GCTAAAAAAAGTAAAATTTAACTGTCAA
*
27341709 GCTAAACAAAGTAAAATTTAACTGTCAA
1 GCTAAAAAAAGTAAAATTTAACTGTCAA
27341737 AGCCTTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (28 bp):
GCTAAAAAAAGTAAAATTTAACTGTCAA
Found at i:27344350 original size:21 final size:21
Alignment explanation
Indices: 27344325--27344383 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
27344315 TGGGTTTGAG
27344325 TTTGGGTGCGAATTTGGAAGA
1 TTTGGGTGCGAATTTGGAAGA
27344346 TTTGGGTGCGAATTTGGAAGA
1 TTTGGGTGCGAATTTGGAAGA
*
27344367 TTTGGGCGCGAATTTGG
1 TTTGGGTGCGAATTTGG
27344384 TGGTTCGAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.20, C:0.07, G:0.39, T:0.34
Consensus pattern (21 bp):
TTTGGGTGCGAATTTGGAAGA
Found at i:27345164 original size:3 final size:3
Alignment explanation
Indices: 27345156--27345201 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
27345146 TCATTAGTGT
27345156 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27345202 ACATATATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27348111 original size:12 final size:11
Alignment explanation
Indices: 27348074--27348121 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
27348064 AAGTCTAAGG
*
27348074 AAATAAAAAAA
1 AAATAAAAGAA
*
27348085 ACAACTAAAACAA
1 A-AA-TAAAAGAA
27348098 AAATAAAATGAA
1 AAATAAAA-GAA
27348110 AAATAAAAGAA
1 AAATAAAAGAA
27348121 A
1 A
27348122 TAAACTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 10 0.31
12 14 0.44
13 8 0.25
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.10
Consensus pattern (11 bp):
AAATAAAAGAA
Found at i:27348167 original size:12 final size:12
Alignment explanation
Indices: 27348152--27348192 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
27348142 AAATTAAAGG
27348152 TAATAGTAAAAA
1 TAATAGTAAAAA
27348164 TAATAGTAAAAA
1 TAATAGTAAAAA
* *
27348176 -ATTACTAAAAA
1 TAATAGTAAAAA
27348187 TAATAG
1 TAATAG
27348193 AAATAGCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (12 bp):
TAATAGTAAAAA
Found at i:27348277 original size:23 final size:24
Alignment explanation
Indices: 27348238--27348292 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
27348228 TAAGCATAAG
*
27348238 AAAAATAAAACAAATAAGAAAA-A
1 AAAAATAAAACAAATAAAAAAATA
* * *
27348261 AATAATAAAGCAGATAAAAAAATA
1 AAAAATAAAACAAATAAAAAAATA
27348285 AAAAATAA
1 AAAAATAA
27348293 TATAACAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.78, C:0.04, G:0.05, T:0.13
Consensus pattern (24 bp):
AAAAATAAAACAAATAAAAAAATA
Found at i:27348332 original size:11 final size:11
Alignment explanation
Indices: 27348312--27348349 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
27348302 TAATAATGAG
27348312 AAAA-AAAATC
1 AAAATAAAATC
27348322 AAAATAAAATC
1 AAAATAAAATC
27348333 AAAATAAAA--
1 AAAATAAAATC
27348342 AAAATAAA
1 AAAATAAA
27348350 GTAAAAGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 8 0.30
10 4 0.15
11 15 0.56
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAATAAAATC
Found at i:27349204 original size:19 final size:19
Alignment explanation
Indices: 27349177--27349213 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27349167 ATTTTCAGAA
*
27349177 TCCATACGGCCTGGGCATT
1 TCCACACGGCCTGGGCATT
*
27349196 TCCACACGGGCTGGGCAT
1 TCCACACGGCCTGGGCAT
27349214 ACACCTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.32, G:0.30, T:0.22
Consensus pattern (19 bp):
TCCACACGGCCTGGGCATT
Found at i:27355284 original size:42 final size:42
Alignment explanation
Indices: 27355165--27355284 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
27355155 AGAAGCACAT
* * * *
27355165 AAGAGCTAAACAGAAACCC-GTAAGGGTTGAACGGAAGCTCGT
1 AAGAGCTAAACTGAAACCCAG-AAGGGTTAAACTGAAGCTCGG
* * * *
27355207 AAGAGTTGAA-TAGAAACCCATAAGGGTTAATCTGAAGCTCGG
1 AAGAGCTAAACT-GAAACCCAGAAGGGTTAAACTGAAGCTCGG
27355249 AAGAGCTAAACTGAAACCCAGAAGGGTTAAACTGAA
1 AAGAGCTAAACTGAAACCCAGAAGGGTTAAACTGAA
27355285 ACTCATATGA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 62 0.98
43 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.17
Consensus pattern (42 bp):
AAGAGCTAAACTGAAACCCAGAAGGGTTAAACTGAAGCTCGG
Found at i:27355297 original size:42 final size:42
Alignment explanation
Indices: 27355156--27355297 Score: 135
Period size: 42 Copynumber: 3.4 Consensus size: 42
27355146 AGGCTGTACA
* * * *
27355156 GAAGCACATAAGAGCTAAACAGAAACCC-GTAAGGGTTGAACG
1 GAAGCTCATAAGAGCTAAACTGAAACCCAG-AAGGGTTAAACT
* * * * *
27355198 GAAGCTCGTAAGAGTTGAA-TAGAAACCCATAAGGGTTAATCT
1 GAAGCTCATAAGAGCTAAACT-GAAACCCAGAAGGGTTAAACT
**
27355240 GAAGCTCGGAAGAGCTAAACTGAAACCCAGAAGGGTTAAACT
1 GAAGCTCATAAGAGCTAAACTGAAACCCAGAAGGGTTAAACT
* *
27355282 GAAACTCATATGAGCT
1 GAAGCTCATAAGAGCT
27355298 GACTGAAGCT
Statistics
Matches: 79, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
42 78 0.99
43 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.18
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACTGAAACCCAGAAGGGTTAAACT
Found at i:27361521 original size:44 final size:45
Alignment explanation
Indices: 27361466--27361570 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
27361456 TGGTATAGTG
27361466 CCATAGTATCTTTCAACTAGGGT-ATTTCCTGTTCCGATT-TAATA
1 CCATAGTATCTTTCAACTAGGGTCATTTCCT-TTCCGATTATAATA
* * * * *
27361510 CCATAGTATCTTTCAATTATGGTCTTTTCCTTTTCGATTATAATG
1 CCATAGTATCTTTCAACTAGGGTCATTTCCTTTCCGATTATAATA
* *
27361555 TCATAATATCTTTCAA
1 CCATAGTATCTTTCAA
27361571 TCATGGTGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 28 0.54
45 24 0.46
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (45 bp):
CCATAGTATCTTTCAACTAGGGTCATTTCCTTTCCGATTATAATA
Found at i:27361566 original size:45 final size:45
Alignment explanation
Indices: 27361417--27361589 Score: 156
Period size: 45 Copynumber: 3.8 Consensus size: 45
27361407 TCCCGACATG
* * * *
27361417 ATGCCATAATATCTTTTAACTATGGTCTTGATCATTTTCTG-GTATA
1 ATGCCATAATATCTTTCAACTATGGTCTT-TTCCTTTTC-GATTATA
* * * * *
27361463 GTGCCATAGTATCTTTCAACTAGGGT-ATTTCCTGTTCCGATT-TA
1 ATGCCATAATATCTTTCAACTATGGTCTTTTCCT-TTTCGATTATA
* * *
27361507 ATACCATAGTATCTTTCAATTATGGTCTTTTCCTTTTCGATTATA
1 ATGCCATAATATCTTTCAACTATGGTCTTTTCCTTTTCGATTATA
* *
27361552 ATGTCATAATATCTTTCAA-TCATGGTGTTTTCCTTTTC
1 ATGCCATAATATCTTTCAACT-ATGGTCTTTTCCTTTTC
27361590 TAAAATCAAT
Statistics
Matches: 103, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
44 36 0.35
45 45 0.44
46 22 0.21
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (45 bp):
ATGCCATAATATCTTTCAACTATGGTCTTTTCCTTTTCGATTATA
Found at i:27367723 original size:28 final size:28
Alignment explanation
Indices: 27367692--27367809 Score: 148
Period size: 28 Copynumber: 4.2 Consensus size: 28
27367682 TTAGTGTGGG
**
27367692 AGACATTGATTATGTAACTTAGTGTATA
1 AGACATTGATTATGGCACTTAGTGTATA
* * *
27367720 AGACATCGATTATGGCACTTAGTGTGTG
1 AGACATTGATTATGGCACTTAGTGTATA
*
27367748 AGACATTGATTATGGCACTTAGTGT-TCG
1 AGACATTGATTATGGCACTTAGTGTAT-A
* *
27367776 AGACATTGATTGTGGCACTTAGTGTACA
1 AGACATTGATTATGGCACTTAGTGTATA
27367804 AGACAT
1 AGACAT
27367810 CGAGTATGCG
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.01
28 78 0.99
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.34
Consensus pattern (28 bp):
AGACATTGATTATGGCACTTAGTGTATA
Found at i:27367768 original size:56 final size:56
Alignment explanation
Indices: 27367679--27367800 Score: 174
Period size: 56 Copynumber: 2.2 Consensus size: 56
27367669 CTATGTACGA
*
27367679 CACTTAGTGTGGGAGACATTGATTATGTAACTTAGTGTAT-AAGACATCGATTATGG
1 CACTTAGTGTGGGAGACATTGATTATGGAACTTAGTGT-TCAAGACATCGATTATGG
* * * * *
27367735 CACTTAGTGTGTGAGACATTGATTATGGCACTTAGTGTTCGAGACATTGATTGTGG
1 CACTTAGTGTGGGAGACATTGATTATGGAACTTAGTGTTCAAGACATCGATTATGG
27367791 CACTTAGTGT
1 CACTTAGTGT
27367801 ACAAGACATC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.02
56 58 0.98
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (56 bp):
CACTTAGTGTGGGAGACATTGATTATGGAACTTAGTGTTCAAGACATCGATTATGG
Found at i:27380063 original size:40 final size:40
Alignment explanation
Indices: 27379989--27380071 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
27379979 GACATATCGA
* *
27379989 CTAAATGTGGCACTTAGTGTGCGGTTCAATATAGCTTCGG
1 CTAAATGTGGCACTTAGTGTGCGATTCAAGATAGCTTCGG
* ** *
27380029 CTAAATTTGGCACTTAGTGTGCGATTTGAGATAGCTTTGG
1 CTAAATGTGGCACTTAGTGTGCGATTCAAGATAGCTTCGG
27380069 CTA
1 CTA
27380072 TGTACGACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (40 bp):
CTAAATGTGGCACTTAGTGTGCGATTCAAGATAGCTTCGG
Found at i:27380123 original size:28 final size:28
Alignment explanation
Indices: 27380079--27380181 Score: 161
Period size: 28 Copynumber: 3.7 Consensus size: 28
27380069 CTATGTACGA
* *
27380079 CACTTAGGGTGTGAGACATTGATTATGG
1 CACTTAGTGTGCGAGACATTGATTATGG
*
27380107 CACTTAGTGTGCTAGACATTGATTATGG
1 CACTTAGTGTGCGAGACATTGATTATGG
*
27380135 CACTTAGTGTGCGAGACATTGATTGTGG
1 CACTTAGTGTGCGAGACATTGATTATGG
*
27380163 CACTTAGTTTGCGAGACAT
1 CACTTAGTGTGCGAGACAT
27380182 CAAGTATGCG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (28 bp):
CACTTAGTGTGCGAGACATTGATTATGG
Found at i:27387740 original size:5 final size:5
Alignment explanation
Indices: 27387730--27387756 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
27387720 TCTAACATTA
27387730 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
27387757 TTGTGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:27392938 original size:16 final size:17
Alignment explanation
Indices: 27392893--27392944 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
27392883 GTATTAATAA
*
27392893 TTATGTTATTATATAAGAT
1 TTAT-TTATTATATAA-AC
*
27392912 TTATTTTTTATATAAAC
1 TTATTTATTATATAAAC
27392929 TT-TTTATTATGATAAA
1 TTATTTATTAT-ATAAA
27392945 TATATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 7 0.24
17 8 0.28
18 10 0.34
19 4 0.14
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (17 bp):
TTATTTATTATATAAAC
Found at i:27393055 original size:16 final size:17
Alignment explanation
Indices: 27393026--27393059 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
27393016 AATATGATTT
*
27393026 TATTTTTTTAAAATGAA
1 TATTTTATTAAAATGAA
27393043 TATTTTATT-AAATGAA
1 TATTTTATTAAAATGAA
27393059 T
1 T
27393060 TTATAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TATTTTATTAAAATGAA
Found at i:27405226 original size:30 final size:30
Alignment explanation
Indices: 27405161--27405229 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
27405151 ACCCCAGGGG
* *
27405161 ACACACGGCCATGTAACATAGCCGTGTGTC
1 ACACACGGCCAAGTAACATAGCCGTATGTC
*
27405191 ACACACGGCCAAGTAACATAG-TGCTATGTC
1 ACACACGGCCAAGTAACATAGCCG-TATGTC
*
27405221 GCACACGGC
1 ACACACGGC
27405230 TGAGACACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.17
Consensus pattern (30 bp):
ACACACGGCCAAGTAACATAGCCGTATGTC
Found at i:27406314 original size:40 final size:40
Alignment explanation
Indices: 27406213--27406315 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 40
27406203 ATCTCAGTAT
* * * *
27406213 CGCACACTTAGTGCCACATAAAGCTCAAGCTATTCCAATT
1 CGCACACTAAGTGCCAAATATAGCTCAAGCTATTCCAATA
*** * *
27406253 CGCACACTAAGTGCTGTATATAGCTGAAGCTATCTCGAA-A
1 CGCACACTAAGTGCCAAATATAGCTCAAGCTAT-TCCAATA
*
27406293 CGTACACTAAGTGCCAAATATAG
1 CGCACACTAAGTGCCAAATATAG
27406316 TAGATTTGTC
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
CGCACACTAAGTGCCAAATATAGCTCAAGCTATTCCAATA
Found at i:27406752 original size:29 final size:29
Alignment explanation
Indices: 27406719--27406777 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
27406709 TATTTCACAC
*
27406719 ATTTAACCCCTCAATTTACACTTTT-CTCA
1 ATTTAACCCCT-AATATACACTTTTACTCA
* *
27406748 ATTTAATCCCTAATATACATTTTTACTCA
1 ATTTAACCCCTAATATACACTTTTACTCA
27406777 A
1 A
27406778 AATCACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.42
Consensus pattern (29 bp):
ATTTAACCCCTAATATACACTTTTACTCA
Found at i:27408293 original size:20 final size:20
Alignment explanation
Indices: 27408268--27408308 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
27408258 CCGAGTTTAT
27408268 GAGAGCAATTGTCATTAAAA
1 GAGAGCAATTGTCATTAAAA
27408288 GAGAGCAATTGTCATTAAAA
1 GAGAGCAATTGTCATTAAAA
27408308 G
1 G
27408309 GGATTTAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (20 bp):
GAGAGCAATTGTCATTAAAA
Found at i:27410803 original size:13 final size:13
Alignment explanation
Indices: 27410785--27410809 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27410775 AAGTAATCGC
27410785 ACACGGGCGTGTT
1 ACACGGGCGTGTT
27410798 ACACGGGCGTGT
1 ACACGGGCGTGT
27410810 CCCTGCCGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:27410868 original size:13 final size:13
Alignment explanation
Indices: 27410850--27410875 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27410840 GAAAAGGTTA
27410850 ATTTTGAGGGCTC
1 ATTTTGAGGGCTC
27410863 ATTTTGAGGGCTC
1 ATTTTGAGGGCTC
27410876 TTAGGCATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.38
Consensus pattern (13 bp):
ATTTTGAGGGCTC
Found at i:27428628 original size:16 final size:17
Alignment explanation
Indices: 27428596--27428628 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
27428586 GTTACACGAA
27428596 CTTACTTAGCATTTTATG
1 CTTACTTAG-ATTTTATG
27428614 CTTACTTAG-TTTTAT
1 CTTACTTAGATTTTAT
27428629 TTCCCTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.55
Consensus pattern (17 bp):
CTTACTTAGATTTTATG
Found at i:27434840 original size:40 final size:40
Alignment explanation
Indices: 27434770--27434946 Score: 187
Period size: 40 Copynumber: 4.5 Consensus size: 40
27434760 ACCCAAGTAT
* *
27434770 CTTCGGGAT-TTAG-CCGGATATAACAGCTCGCACCAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
*
27434809 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* * * *
27434849 CTTCGGGTCTTAGCCCGAATATAACCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* * * * * * *
27434889 CTTCGGGACATAGCTCGGATATAGCAACTTGCACGAATTC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
27434929 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
27434947 TTATCATACG
Statistics
Matches: 113, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
38 1 0.01
39 11 0.10
40 101 0.89
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:27439473 original size:43 final size:43
Alignment explanation
Indices: 27439426--27439533 Score: 123
Period size: 43 Copynumber: 2.5 Consensus size: 43
27439416 TAGCCCAGCT
*
27439426 ATGGTCTTACACGA-AATTA-ATTAACGATGCCAATGT-CTCAAAC
1 ATGGTCTTACAC-ATAATCACA-TAACGATGCCAATGTCCT-AAAC
* * *
27439469 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCTAGAT
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCTAAAC
*
27439512 ATGGTCTTACACATAATTACAT
1 ATGGTCTTACACATAATCACAT
27439534 CTCGATAATC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.02
43 53 0.93
44 3 0.05
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCTAAAC
Found at i:27440061 original size:28 final size:27
Alignment explanation
Indices: 27440016--27440073 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
27440006 CTTTCATTTA
* *
27440016 TTTCACATTTCAACCCCTCAATTT-ACAT
1 TTTCACAATTAAACCCCT--ATTTGACAT
*
27440044 TTTCACAATTAAATCCCTATTTGACAT
1 TTTCACAATTAAACCCCTATTTGACAT
27440071 TTT
1 TTT
27440074 TGTCAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 4 0.15
27 7 0.27
28 15 0.58
ACGTcount: A:0.29, C:0.26, G:0.02, T:0.43
Consensus pattern (27 bp):
TTTCACAATTAAACCCCTATTTGACAT
Found at i:27441402 original size:6 final size:6
Alignment explanation
Indices: 27441372--27441502 Score: 74
Period size: 6 Copynumber: 21.3 Consensus size: 6
27441362 AAGAAACATT
* * *
27441372 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
27441421 ATCAAA ATCAGA ATCAGA ATCAGA ATTAGGTGA A--AGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA---GA ATCAGA ATCAGA ATCAGA
* * *
27441470 ATCAGT ATCAGGTA A-CAGA ATCAAA ATAAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
27441503 GTGAATGCAA
Statistics
Matches: 97, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
4 3 0.03
5 4 0.04
6 77 0.79
7 8 0.08
8 2 0.02
9 3 0.03
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:27441427 original size:37 final size:36
Alignment explanation
Indices: 27441381--27441502 Score: 146
Period size: 37 Copynumber: 3.4 Consensus size: 36
27441371 TATCAGAACT
27441381 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAAT-AGAATCAGAATCAGAATCAGGTGAC
* *
27441418 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAA
1 AGAATCAAAAT-AGAATCAGAATCAGAATCAGGTGAC
* *
27441455 AGAAT-----TAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATAGAATCAGAATCAGAATCAGGTGAC
27441486 AGAATCAAAATAAGAAT
1 AGAATCAAAAT-AGAAT
27441503 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
31 26 0.36
32 1 0.01
36 1 0.01
37 44 0.61
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (36 bp):
AGAATCAAAATAGAATCAGAATCAGAATCAGGTGAC
Found at i:27441432 original size:31 final size:31
Alignment explanation
Indices: 27441395--27441502 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 31
27441385 TCAAAATGAG
27441395 AATCAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGGTGACAGAATCAA
* * *
27441426 AATCAGAATCAGAATCAGAATTAGGTGAAAGAATTAG
1 AATCAGAATCAGAATC------AGGTGACAGAATCAA
* *
27441463 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGGTGACAGAATCAA
*
27441494 AATAAGAAT
1 AATCAGAAT
27441503 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
31 35 0.56
37 27 0.44
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTGACAGAATCAA
Found at i:27441669 original size:27 final size:26
Alignment explanation
Indices: 27441621--27441680 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
27441611 GCGAGGCTGC
*
27441621 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
27441648 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
27441674 CAAATAT
1 CAGATAT
27441681 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:27441767 original size:27 final size:26
Alignment explanation
Indices: 27441719--27441770 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
27441709 GCGAGGCTGC
*
27441719 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
27441745 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
27441771 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:27442055 original size:27 final size:27
Alignment explanation
Indices: 27442006--27442253 Score: 316
Period size: 27 Copynumber: 9.2 Consensus size: 27
27441996 AACACCTTAG
* * * *
27442006 GGGTAAAACAGTAATTTTATAAATTGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
27442033 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
27442060 GGATAAAACGGTAATTCTGTAAATCAA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * ** *
27442087 TGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
27442114 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
27442141 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * *
27442168 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
27442195 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
27442222 GGGTAAAACGGTAATTTTGTAAATTGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
27442249 GGGTA
1 GGGTA
27442254 CTTTGATAAT
Statistics
Matches: 193, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 193 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTGTAAATCGA
Found at i:27442251 original size:81 final size:81
Alignment explanation
Indices: 27442006--27442253 Score: 370
Period size: 81 Copynumber: 3.1 Consensus size: 81
27441996 AACACCTTAG
* * * *
27442006 GGGTAAAACAGTAATTTTATAAATTGAGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAACGG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGG
*
27442071 TAATTCTGTAAATCAA
66 TAATTCTGTAAATCGA
* * * * *
27442087 TGATAAAATAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACAG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGG
27442152 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* *
27442168 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGG
* *
27442233 TAATTTTGTAAATTGA
66 TAATTCTGTAAATCGA
27442249 GGGTA
1 GGGTA
27442254 CTTTGATAAT
Statistics
Matches: 148, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 148 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (81 bp):
GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGG
TAATTCTGTAAATCGA
Found at i:27442304 original size:27 final size:27
Alignment explanation
Indices: 27442232--27442398 Score: 130
Period size: 27 Copynumber: 6.3 Consensus size: 27
27442222 GGGTAAAACG
** * *
27442232 GTAATTTTGTAAATTGAGGGTACTTTGA
1 GTAATTTTACAAACTGAGGGTA-TTTCA
*
27442260 -TAA-TTTACAAGTCT-AGGGTATTTCA
1 GTAATTTTACAA-ACTGAGGGTATTTCA
*
27442285 GTAATTTTACAAACTGAGGGTATTTCG
1 GTAATTTTACAAACTGAGGGTATTTCA
* * **
27442312 GTAATTCTACAAA-TCGAGGATATTTGG
1 GTAATTTTACAAACT-GAGGGTATTTCA
* * *
27442339 GTAATTTTATAAACTGGGGGTACTTT-G
1 GTAATTTTACAAACTGAGGGTA-TTTCA
*
27442366 GTAATTTTAC-AACTGGGGGTATTTCA
1 GTAATTTTACAAACTGAGGGTATTTCA
27442392 GTAATTT
1 GTAATTT
27442399 GGTAAACTAA
Statistics
Matches: 115, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
25 7 0.06
26 35 0.30
27 69 0.60
28 4 0.03
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTGAGGGTATTTCA
Found at i:27442345 original size:54 final size:53
Alignment explanation
Indices: 27442177--27442377 Score: 172
Period size: 54 Copynumber: 3.7 Consensus size: 53
27442167 AGGGTAAAAT
*** ** * ***
27442177 GGTAATTTTATAAA-TCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAACT-GAGGGTACTTTGGTAATT-TACAAATCGAGGATATTTC
* * * * * *
27442231 GGTAATTTTGTAAATTGAGGGTACTTTGATAATTTACAAGTCTAGGGTATTTC
1 GGTAATTTTATAAACTGAGGGTACTTTGGTAATTTACAAATCGAGGATATTTC
* * *
27442284 AGTAATTTTACAAACTGAGGGTA-TTTCGGTAATTCTACAAATCGAGGATATTTG
1 GGTAATTTTATAAACTGAGGGTACTTT-GGTAATT-TACAAATCGAGGATATTTC
*
27442338 GGTAATTTTATAAACTGGGGGTACTTTGGTAATTTTACAA
1 GGTAATTTTATAAACTGAGGGTACTTTGGTAA-TTTACAA
27442378 CTGGGGGTAT
Statistics
Matches: 118, Mismatches: 24, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
52 3 0.03
53 37 0.31
54 72 0.61
55 6 0.05
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.36
Consensus pattern (53 bp):
GGTAATTTTATAAACTGAGGGTACTTTGGTAATTTACAAATCGAGGATATTTC
Found at i:27442406 original size:27 final size:25
Alignment explanation
Indices: 27442339--27442398 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
27442329 GGATATTTGG
*
27442339 GTAATTTTATAAACTGGGGGTACTTTG
1 GTAA-TTT-TAAACTGGGGGTACTTTA
27442366 GTAATTTTACAACTGGGGGTA-TTTCA
1 GTAATTTTA-AACTGGGGGTACTTT-A
27442392 GTAATTT
1 GTAATTT
27442399 GGTAAACTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.17
26 21 0.70
27 4 0.13
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (25 bp):
GTAATTTTAAACTGGGGGTACTTTA
Found at i:27448047 original size:20 final size:20
Alignment explanation
Indices: 27448016--27448067 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
27448006 TAAAAATCAT
*
27448016 TTAAAATGATTTTAACTTCA
1 TTAAAATCATTTTAACTTCA
* * **
27448036 TTGAAATCATTTTGACTTGG
1 TTAAAATCATTTTAACTTCA
27448056 TTAAAATCATTT
1 TTAAAATCATTT
27448068 GCACTTGATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTCA
Found at i:27457208 original size:14 final size:14
Alignment explanation
Indices: 27457189--27457216 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27457179 GCACAGCCGA
27457189 AGGGAGAGGGAGAG
1 AGGGAGAGGGAGAG
27457203 AGGGAGAGGGAGAG
1 AGGGAGAGGGAGAG
27457217 GCAGCGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (14 bp):
AGGGAGAGGGAGAG
Found at i:27461429 original size:24 final size:24
Alignment explanation
Indices: 27461397--27461683 Score: 87
Period size: 27 Copynumber: 11.0 Consensus size: 24
27461387 CTCTTCCTCT
27461397 TCTCTCCTTC-GAGCATCCTCTTCC
1 TCTCTCCTTCTG-GCATCCTCTTCC
*
27461421 TCTCTCCTTCTGGCCTCCTCTTCC
1 TCTCTCCTTCTGGCATCCTCTTCC
* * * *
27461445 TCT-TCCGTACTAGCTTCTTCTTCCTCC
1 TCTCTCC-TTCTGGCATC--C-TCTTCC
* *
27461472 TCTCTCCTCCTGGCCTCTTCTTCCTCCTCC
1 TCTCTCCTTCTGGCATC--C-T-CT--TCC
* * *
27461502 TCTCTCCTTCTGGCCTCCTTTTCT
1 TCTCTCCTTCTGGCATCCTCTTCC
* *
27461526 TCTCTTCTCTTAGCT-TCTTCCTCTTCC
1 TCTC-TC-CTT--CTGGCATCCTCTTCC
* *
27461553 TCTCTCCTCCTCTTAGCTTCCTCTTCC
1 TCTCTCCT--TC-TGGCATCCTCTTCC
* *
27461580 TCTCTCCTTCTCTTAGCTTCTTCCTCTTCC
1 TCTCTCC-T-TC-T-G--GCATCCTCTTCC
* * **
27461610 TCTCTCCTTCTGGCCTCCTTTTTT
1 TCTCTCCTTCTGGCATCCTCTTCC
* *
27461634 TCTCTTCTCTTAGCT-TCTTCCTCTTCC
1 TCTC-TC-CTT--CTGGCATCCTCTTCC
*
27461661 TCTCTCCTTCTGGCTTCCTCTTC
1 TCTCTCCTTCTGGCATCCTCTTC
27461684 TTCTTCCCTT
Statistics
Matches: 207, Mismatches: 30, Indels: 52
0.72 0.10 0.18
Matches are distributed among these distances:
23 5 0.02
24 58 0.28
25 11 0.05
26 14 0.07
27 69 0.33
28 12 0.06
29 1 0.00
30 37 0.18
ACGTcount: A:0.03, C:0.44, G:0.06, T:0.47
Consensus pattern (24 bp):
TCTCTCCTTCTGGCATCCTCTTCC
Found at i:27461490 original size:27 final size:27
Alignment explanation
Indices: 27461418--27461509 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 27
27461408 AGCATCCTCT
* *
27461418 TCCTCTCTCCTTCTGGCCTCCTCTTCC
1 TCCTCTCTCCTCCTGGCCTCTTCTTCC
* * * *
27461445 T-CT-TC-CGTACTAGCTTCTTCTTCC
1 TCCTCTCTCCTCCTGGCCTCTTCTTCC
27461469 TCCTCTCTCCTCCTGGCCTCTTCTTCC
1 TCCTCTCTCCTCCTGGCCTCTTCTTCC
27461496 TCCTC-CTCTCTCCT
1 TCCTCTCTC-CTCCT
27461510 TCTGGCCTCC
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
24 15 0.29
25 4 0.08
26 7 0.13
27 26 0.50
ACGTcount: A:0.02, C:0.49, G:0.07, T:0.42
Consensus pattern (27 bp):
TCCTCTCTCCTCCTGGCCTCTTCTTCC
Found at i:27461498 original size:17 final size:15
Alignment explanation
Indices: 27461470--27461518 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
27461460 TCTTCTTCCT
27461470 CCTCTCTCCTCCTGG
1 CCTCTCTCCTCCTGG
27461485 CCTCTTCTTCCTCCT--
1 CCTC-TC-TCCTCCTGG
*
27461500 CCTCTCTCCTTCTGG
1 CCTCTCTCCTCCTGG
27461515 CCTC
1 CCTC
27461519 CTTTTCTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
13 6 0.21
14 2 0.07
15 12 0.41
16 2 0.07
17 7 0.24
ACGTcount: A:0.00, C:0.53, G:0.08, T:0.39
Consensus pattern (15 bp):
CCTCTCTCCTCCTGG
Found at i:27461527 original size:108 final size:105
Alignment explanation
Indices: 27461391--27461668 Score: 273
Period size: 108 Copynumber: 2.6 Consensus size: 105
27461381 AGCTCCCTCT
* * * *
27461391 TCCTCTTCTCTCCTTC-GAGCATCCTCTTCCTCTC-TC-CTT-CTGGCCTCCTCTTCCTCT-TCC
1 TCCTCCTCTCTCCTTCTG-GCCTCCTTTTCTTCTCTTCTCTTACT-GCCTCCTCTTCCTCTCTCC
*
27461451 GTACTAGCTT-CTTCTTCCTCCTCTCTCCTCCTGGCCT-CTTCTTCC
64 -TACT--CTTACTTCCTCCTCCTCTCTCCTCCT--CCTACTTCTTCC
* *
27461496 TCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAGCTTCTTCCTCTTCCTCTCTCCT
1 TCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTA-CTGCCTCCTCTTCCTCTCTCCT
* * * *
27461561 CCTCTTAGCTTCCTCTTCCTCTCTCCTTCTCTTAGCTTCTTCC
65 ACTCTTA-CTTCCTCCTCCTCTCTCCTCCTCCTA-CTTCTTCC
* * * *
27461604 TCTTCCTCTCTCCTTCTGGCCTCCTTTTTTTCTCTTCTCTTAGCTTCTTCCTCTTCCTCTCTCCT
1 TCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTA-CTGCCTCCTCTTCCTCTCTCCT
27461669 TCTGGCTTCC
Statistics
Matches: 150, Mismatches: 13, Indels: 17
0.83 0.07 0.09
Matches are distributed among these distances:
105 28 0.19
106 8 0.05
107 3 0.02
108 106 0.71
109 5 0.03
ACGTcount: A:0.03, C:0.45, G:0.06, T:0.47
Consensus pattern (105 bp):
TCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTACTGCCTCCTCTTCCTCTCTCCTA
CTCTTACTTCCTCCTCCTCTCTCCTCCTCCTACTTCTTCC
Found at i:27461540 original size:81 final size:80
Alignment explanation
Indices: 27461412--27461563 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 80
27461402 CCTTCGAGCA
* *
27461412 TCCTCTTCCTCTCTCCTTCTGGCCTCCTCTTCCTCTTCCGTACTAGCTTCTTCTTCCTCCTCTCT
1 TCCTCCTCCTCTCTCCTTCTGGCCTCCTCTTCCTCTTCCGTA-TAGCTTCTTCCTCCTCCTCTCT
27461477 CCTCCTGGCCTCTTCT
65 CCTCCTGGCCTCTTCT
* *
27461493 TCCTCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTC-T-TAGCTTCTTCCTCTTCCTCT
1 TCCTCCTCCTCTCTCCTTCTGGCCTCCTCTTC--CTCTTC-CGTATAGCTTCTTCCTCCTCCTCT
27461556 CTCCTCCT
63 CTCCTCCT
27461564 CTTAGCTTCC
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
81 56 0.88
83 7 0.11
84 1 0.02
ACGTcount: A:0.02, C:0.47, G:0.06, T:0.45
Consensus pattern (80 bp):
TCCTCCTCCTCTCTCCTTCTGGCCTCCTCTTCCTCTTCCGTATAGCTTCTTCCTCCTCCTCTCTC
CTCCTGGCCTCTTCT
Found at i:27461543 original size:51 final size:51
Alignment explanation
Indices: 27461488--27461687 Score: 283
Period size: 51 Copynumber: 3.8 Consensus size: 51
27461478 CTCCTGGCCT
*
27461488 CTTCTTCCTCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAG
1 CTTCTTCCTCTTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAG
* * *
27461539 CTTCTTCCTCTTCCTCTCTCCTCCTCTTAGCTTCCTCTTCCTCTCTCCTTCTCTTAG
1 CTTCTTCCTCTTCCTCTCTCCT--TC-TGGCCTCCT-TTTCT-TCT-CTTCTCTTAG
*
27461596 CTTCTTCCTCTTCCTCTCTCCTTCTGGCCTCCTTTTTTTCTCTTCTCTTAG
1 CTTCTTCCTCTTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAG
* *
27461647 CTTCTTCCTCTTCCTCTCTCCTTCTGGCTTCCTCTTCTTCT
1 CTTCTTCCTCTTCCTCTCTCCTTCTGGCCTCCTTTTCTTCT
27461688 TCCCTTCTCT
Statistics
Matches: 132, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
51 69 0.52
52 3 0.02
53 5 0.04
54 14 0.11
55 6 0.05
56 3 0.02
57 32 0.24
ACGTcount: A:0.02, C:0.43, G:0.05, T:0.50
Consensus pattern (51 bp):
CTTCTTCCTCTTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAG
Found at i:27461547 original size:27 final size:27
Alignment explanation
Indices: 27461517--27461665 Score: 103
Period size: 27 Copynumber: 5.5 Consensus size: 27
27461507 CCTTCTGGCC
27461517 TCCTTTTCTTCTCTTCTCTTAGCTTCT
1 TCCTTTTCTTCTCTTCTCTTAGCTTCT
* * *
27461544 TCCTCTTCCTCTCTCCTCCTCTTAGCTTCC
1 TCCT-TTTCT-TCT-CTTCTCTTAGCTTCT
*
27461574 T-C-TTCCTCTCTCCTTCTCTTAGCTTCT
1 TCCTTTTCT-TCT-CTTCTCTTAGCTTCT
* * * *
27461601 TCCTCTTCCTCTC-TC-CTT--CTGGCC
1 TCCTTTTCTTCTCTTCTCTTAGCT-TCT
*
27461625 TCCTTTTTTTCTCTTCTCTTAGCTTCT
1 TCCTTTTCTTCTCTTCTCTTAGCTTCT
* *
27461652 TCCTCTTCCTCTCT
1 TCCTTTTCTTCTCT
27461666 CCTTCTGGCT
Statistics
Matches: 94, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
23 2 0.02
24 11 0.12
25 5 0.05
26 5 0.05
27 41 0.44
28 10 0.11
29 6 0.06
30 14 0.15
ACGTcount: A:0.03, C:0.42, G:0.04, T:0.52
Consensus pattern (27 bp):
TCCTTTTCTTCTCTTCTCTTAGCTTCT
Found at i:27461683 original size:81 final size:81
Alignment explanation
Indices: 27461412--27461767 Score: 208
Period size: 81 Copynumber: 4.4 Consensus size: 81
27461402 CCTTCGAGCA
* * * *
27461412 TCCTCTTCCTCTCTCCTTCTGGCCTCCTCTTCCTCTTCCGTACTAGCTTCT-----TCTTCCTCC
1 TCCTCTTCCTCTCTCCTTCTGGCTTCCTCTTCCTCTTCCCTTCT--CTTCTGGGCCTCTTCTTCC
* * * *
27461472 TCTCTCCTCCTGGCCTCTTCT
64 GCTTTCCTCTTAG---CTTCT
* * * * ** * *
27461493 TCCTCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAGCTTCT--TCCTCTTCCT-C
1 TCCTCTTCCTCTCTCCTTCTGGCTTCCTCTTC--CTCTTCCCTTCTCTTCTGGGCCTCTTCTTCC
* *
27461555 TCTCCTCCTCTTAG---CT
64 GCT-TTCCTCTTAGCTTCT
*
27461571 TCCTCTTCCTCTCTCCTTCT--CTTAGCTTCTTCCTCTT-CCTCTCTCCTTCT-GGCCTCCTT-T
1 TCCTCTTCCTCTCTCCTTCTGGCTT--CCTCTTCCTCTTCCCT-TCT-CTTCTGGGCCT-CTTCT
***
27461631 TTTTCTCTT-CTCTTAGCTTCT
61 TCCGCT-TTCCTCTTAGCTTCT
* *
27461652 TCCTCTTCCTCTCTCCTTCTGGCTTCCTCTTCTTCTTCCCTTCTCTTTTGGGCCTCTTCTTCCGC
1 TCCTCTTCCTCTCTCCTTCTGGCTTCCTCTTCCTCTTCCCTTCTCTTCTGGGCCTCTTCTTCCGC
27461717 TTTCCTCTTAGCTTCT
66 TTTCCTCTTAGCTTCT
* * *
27461733 TCCTCCT-CTCTTCTCTTTCTGGCCTCCTCTTCCTC
1 TCCTCTTCCTC-TCTCCTTCTGGCTTCCTCTTCCTC
27461768 CTCTTTCCTC
Statistics
Matches: 222, Mismatches: 30, Indels: 46
0.74 0.10 0.15
Matches are distributed among these distances:
75 2 0.01
76 8 0.04
77 5 0.02
78 37 0.17
79 8 0.04
80 12 0.05
81 118 0.53
82 3 0.01
83 14 0.06
84 15 0.07
ACGTcount: A:0.02, C:0.44, G:0.06, T:0.48
Consensus pattern (81 bp):
TCCTCTTCCTCTCTCCTTCTGGCTTCCTCTTCCTCTTCCCTTCTCTTCTGGGCCTCTTCTTCCGC
TTTCCTCTTAGCTTCT
Found at i:27461686 original size:108 final size:106
Alignment explanation
Indices: 27461436--27461698 Score: 333
Period size: 108 Copynumber: 2.5 Consensus size: 106
27461426 CCTTCTGGCC
* * * * *
27461436 TCCTCTTCCTCT-TCCGTACTAGCTTCTTCTTCCTCCTCTCTCCTCCTGGCCTCTTCTTCCTCCT
1 TCCTCTTCCTCTCTCC-TTCTAGCTTCCTCTTCTTCCTCTCTCCTTCT--CTTCTTCTTCCTCCT
27461500 CCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAGCTTCT
63 CCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAGCTTCT
27461544 TCCTCTTCCTCTCTCCTCCTCTTAGCTT-C-C-TCTTCCTCTCTCCTTCTCTTAGCTTCTTCCTC
1 TCCTCTTCCTCTCTCCT--TC-TAGCTTCCTCTTCTTCCTCTCTCCTTCTCTT--CTTCTTCCTC
* *
27461606 TTCCTCTCTCCTTCTGGCCTCCTTTTTTTCTCTTCTCTTAGCTTCT
61 CTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAGCTTCT
*
27461652 TCCTCTTCCTCTCTCCTTCTGGCTTCCTCTTCTT-CT-TC-CCTTCTCTT
1 TCCTCTTCCTCTCTCCTTCTAGCTTCCTCTTCTTCCTCTCTCCTTCTCTT
27461699 TTGGGCCTCT
Statistics
Matches: 138, Mismatches: 8, Indels: 21
0.83 0.05 0.13
Matches are distributed among these distances:
105 14 0.10
106 7 0.05
107 3 0.02
108 103 0.75
109 4 0.03
110 1 0.01
111 6 0.04
ACGTcount: A:0.02, C:0.44, G:0.05, T:0.49
Consensus pattern (106 bp):
TCCTCTTCCTCTCTCCTTCTAGCTTCCTCTTCTTCCTCTCTCCTTCTCTTCTTCTTCCTCCTCCT
CTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAGCTTCT
Found at i:27461695 original size:24 final size:24
Alignment explanation
Indices: 27461599--27461683 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 24
27461589 CTCTTAGCTT
27461599 CTTCCTCTTCCTCTCTCCTTCTGG
1 CTTCCTCTTCCTCTCTCCTTCTGG
* * ** *
27461623 CCTCCTTTTTTTCTCTTCTCTTAGCT-T
1 CTTCCTCTTCCTCTC-TC-CTT--CTGG
27461650 CTTCCTCTTCCTCTCTCCTTCTGG
1 CTTCCTCTTCCTCTCTCCTTCTGG
27461674 CTTCCTCTTC
1 CTTCCTCTTC
27461684 TTCTTCCCTT
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
23 2 0.04
24 21 0.46
25 5 0.11
26 5 0.11
27 11 0.24
28 2 0.04
ACGTcount: A:0.01, C:0.42, G:0.06, T:0.51
Consensus pattern (24 bp):
CTTCCTCTTCCTCTCTCCTTCTGG
Found at i:27461708 original size:51 final size:49
Alignment explanation
Indices: 27461494--27461710 Score: 148
Period size: 51 Copynumber: 4.1 Consensus size: 49
27461484 GCCTCTTCTT
* * * **
27461494 CCTCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAGCTTCTT
1 CCTCTTCCTCTCTCCTTCTGGCCTCCTTTTTTTCCCTTCTCTTA--TTCGG
* * * * **
27461545 CCTCTTCCTCTCTCCTCCTCTTAGCTTCCTCTTCCTCTCTCCTTCTCTTAGCTTCTT
1 CCTCTTCCTCTCTCCT--TC-TGGCCTCCT-TT-TTTTC-CCTTCTCTTA--TTCGG
* **
27461602 CCTCTTCCTCTCTCCTTCTGGCCTCCTTTTTTTCTCTTCTCTTAGCTTCTT
1 CCTCTTCCTCTCTCCTTCTGGCCTCCTTTTTTTCCCTTCTCTTA--TTCGG
* *
27461653 CCTCTTCCTCTCTCCTTCTGGCTTCCTCTTCTTCTTCCCTTCTCTT-TTGGG
1 CCTCTTCCTCTCTCCTTCTGGCCTCCT-TT-TT-TTCCCTTCTCTTATTCGG
27461704 CCTCTTC
1 CCTCTTC
27461711 TTCCGCTTTC
Statistics
Matches: 140, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
51 66 0.47
52 5 0.04
53 6 0.04
54 25 0.18
55 4 0.03
56 2 0.01
57 32 0.23
ACGTcount: A:0.02, C:0.43, G:0.06, T:0.49
Consensus pattern (49 bp):
CCTCTTCCTCTCTCCTTCTGGCCTCCTTTTTTTCCCTTCTCTTATTCGG
Found at i:27461710 original size:108 final size:107
Alignment explanation
Indices: 27461490--27461698 Score: 334
Period size: 108 Copynumber: 2.0 Consensus size: 107
27461480 CCTGGCCTCT
27461490 TCTTCCTCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAGCTTCTTCCTCTTCCTC
1 TCTTCCTCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAGCTTCTTCCTCTTCCTC
*
27461555 TCTCCTCCTCTTAGCTTCCTCTTCCTCTCTCCTTCTCTTAGCT
66 TCTCCT-CTCTTAGCTTCCTCTTCCTCTCTCCTTCTCTTAGCC
* *
27461598 TCTTCCTCTTCCTCTCTCCTTCTGGCCTCCTTTTTTTCTCTTCTCTTAGCTTCTTCCTCTTCCTC
1 TCTTCCTCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAGCTTCTTCCTCTTCCTC
* *
27461663 TCTCCT-TC-TGGCTTCCTCTTCTTCT-TCCCTTCTCTT
66 TCTCCTCTCTTAGCTTCCTCTTCCTCTCT-CCTTCTCTT
27461699 TTGGGCCTCT
Statistics
Matches: 96, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
104 1 0.01
105 24 0.25
106 2 0.02
108 69 0.72
ACGTcount: A:0.02, C:0.43, G:0.05, T:0.50
Consensus pattern (107 bp):
TCTTCCTCCTCCTCTCTCCTTCTGGCCTCCTTTTCTTCTCTTCTCTTAGCTTCTTCCTCTTCCTC
TCTCCTCTCTTAGCTTCCTCTTCCTCTCTCCTTCTCTTAGCC
Found at i:27461746 original size:51 final size:53
Alignment explanation
Indices: 27461691--27461803 Score: 135
Period size: 54 Copynumber: 2.2 Consensus size: 53
27461681 TTCTTCTTCC
* *
27461691 CTTCTCTTT-TGG-GCCTCTTCTTCCGCTTTCCTCTTAGCTTCTTCCTCCTCT
1 CTTCTCTTTCTGGCGCCTCTTCCTCCGCTTTCCTCCTAGCTTCTTCCTCCTCT
* * * *
27461742 CTTCTCTTTCTGGCCTCCTCTTCCTCCTCTTTCCTCCTGGCTTCTTCCTCTTC-
1 CTTCTCTTTCTGG-CGCCTCTTCCTCCGCTTTCCTCCTAGCTTCTTCCTCCTCT
27461795 CTTC-CTTTC
1 CTTCTCTTTC
27461804 CCTTTCAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
51 9 0.17
52 8 0.15
53 4 0.08
54 32 0.60
ACGTcount: A:0.01, C:0.42, G:0.08, T:0.49
Consensus pattern (53 bp):
CTTCTCTTTCTGGCGCCTCTTCCTCCGCTTTCCTCCTAGCTTCTTCCTCCTCT
Found at i:27471497 original size:114 final size:114
Alignment explanation
Indices: 27471294--27471700 Score: 627
Period size: 114 Copynumber: 3.6 Consensus size: 114
27471284 AACTATGCAA
* * *
27471294 TTCCACTGCAGTTCACATACACGTGGCACTAATAACATCTAAATGTAATTAGAATCGATCGCAAA
1 TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGATCGCAAA
*
27471359 GTGATTTGG-TGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
66 TTGA-TTGGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
*
27471408 TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCCAAATGTAATTAGAATCGATCGCAAA
1 TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGATCGCAAA
* *
27471473 TTGATTGGATGATGAGTCCCTTAACCGTCAACTATGCTATTACCAAAGG
66 TTGATTGGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
* *
27471522 TTCCACTGCAGTCCACATACACGTGGCGCTAACATCATCTAAATGTAATTAGAATCTATCGCAAA
1 TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGATCGCAAA
* * * *
27471587 TCGATTGGATGATGAGTCCTTTAACCGTCAATTATGCTATGAACAAAGA
66 TTGATTGGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
* * * * * *
27471636 TTCAACTGCAGTCCACATACATGCGGCGCTAACAACATCTAAATGTAGTTACAATCGATCTCAAA
1 TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGATCGCAAA
27471701 ATCTTTTAAT
Statistics
Matches: 268, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
113 4 0.01
114 264 0.99
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (114 bp):
TTCCACTGCAGTCCACATACACGTGGCGCTAACAACATCTAAATGTAATTAGAATCGATCGCAAA
TTGATTGGATGATGAGTCCTTTAACCGTCAACTATGCTATTAACAAAGG
Found at i:27475934 original size:16 final size:17
Alignment explanation
Indices: 27475901--27475934 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27475891 TGAGGGTGAT
27475901 AGGAATAATGGTGAAGA
1 AGGAATAATGGTGAAGA
*
27475918 AGGAATAGTGG-GAAGA
1 AGGAATAATGGTGAAGA
27475934 A
1 A
27475935 AAGGAAAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.38, T:0.15
Consensus pattern (17 bp):
AGGAATAATGGTGAAGA
Found at i:27476374 original size:7 final size:7
Alignment explanation
Indices: 27476362--27476386 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27476352 TATTTCAATT
27476362 AATAATA
1 AATAATA
27476369 AATAATA
1 AATAATA
27476376 AATAATA
1 AATAATA
27476383 AATA
1 AATA
27476387 TAATAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:27477234 original size:18 final size:17
Alignment explanation
Indices: 27477207--27477245 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
27477197 TAAATTTATT
27477207 ATTTATTATTATATTTA
1 ATTTATTATTATATTTA
*
27477224 ATTTAATTATTCTATTTA
1 ATTT-ATTATTATATTTA
27477242 ATTT
1 ATTT
27477246 TAAAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTATTATTATATTTA
Found at i:27478465 original size:24 final size:22
Alignment explanation
Indices: 27478438--27478481 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
27478428 ATAATTTTAA
*
27478438 TTTACTATAATTGTATATTAAATG
1 TTTACTAAAATT-T-TATTAAATG
*
27478462 TTTATTAAAATTTTATTAAA
1 TTTACTAAAATTTTATTAAA
27478482 AATAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 1 0.06
24 10 0.56
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTACTAAAATTTTATTAAATG
Found at i:27482787 original size:3 final size:3
Alignment explanation
Indices: 27482779--27482807 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27482769 TCTATTTTTG
27482779 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
27482808 CCATACTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:27486149 original size:10 final size:10
Alignment explanation
Indices: 27486117--27486166 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
27486107 CCTAAACTAA
27486117 AAATGAAAAG
1 AAATGAAAAG
*
27486127 AAAAAGAAAAAG
1 -AAATG-AAAAG
27486139 AGAA-GAAAAG
1 A-AATGAAAAG
27486149 AAATGAAAAG
1 AAATGAAAAG
27486159 AAAT-AAAA
1 AAATGAAAA
27486167 CCCTAACCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
9 6 0.17
10 16 0.46
11 6 0.17
12 7 0.20
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (10 bp):
AAATGAAAAG
Found at i:27494302 original size:13 final size:13
Alignment explanation
Indices: 27494284--27494310 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27494274 GCTCGGCAGG
27494284 GACACGCCCGTGT
1 GACACGCCCGTGT
27494297 GACACGCCCGTGT
1 GACACGCCCGTGT
27494310 G
1 G
27494311 CGATTACTCC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:27508689 original size:48 final size:48
Alignment explanation
Indices: 27508565--27508923 Score: 454
Period size: 48 Copynumber: 7.5 Consensus size: 48
27508555 AATACCAATA
* * * *
27508565 CCATGTCCGAAACATGGTCTTACA-TGAGTC-CACATATCATCGCCAATG
1 CCATGTCCCAGACATGGTCTTACACTG-G-CACATATATCATCGCCGATG
* * * *
27508613 CCA-CTCCCTGACATGGTCTTACAATGGCACATATATCATCGCCAATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
* * *
27508660 CCATGTCCCAGACATAGTCTTACACTGGCACATATATCATTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
* * * * *
27508708 CCATATCCCAGACATGGTCTTAAACTGGCACATACATTATCGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
* * *
27508756 CCATGTCCCAAACATGGTCTTACACTGGCACATACATTATCGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
* * * *
27508804 CCATGTCCCAGATATGGTTTTACACAGGCACATATATCATTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
*
27508852 CCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
*
27508900 CCATGTCCCATACATGGTCTTACA
1 CCATGTCCCAGACATGGTCTTACA
27508924 TTGAATCTCA
Statistics
Matches: 275, Mismatches: 33, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
46 1 0.00
47 37 0.13
48 237 0.86
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCGATG
Found at i:27519306 original size:113 final size:114
Alignment explanation
Indices: 27519172--27519387 Score: 310
Period size: 114 Copynumber: 1.9 Consensus size: 114
27519162 TGAATATTAA
* * * * *
27519172 TTTTTTGTTTTTTATTTACTTAACGAATGGTCCTATTGT-CAT-TTTTTTTGAGATTTTGGTATT
1 TTTTTTGTTTTTTATTTACTTAACAAATAGTCCCATTGTGCATATTTTTTTGAGAATTT-ATATT
*
27519235 GTAGAAAGGGTGTTAGGAAGAAAGGAAGCAAGTATGTTTTCTTTTATTTT
65 GTAGAAAGAGTGTTAGGAAGAAAGGAAGCAAGTATGTTTTCTTTTATTTT
** *
27519285 TTTTTTGTTTTTTATTTACTTAACAAATAGTCCCATTGTGTTTATTTTTTTGAGAATTTATTTTG
1 TTTTTTGTTTTTTATTTACTTAACAAATAGTCCCATTGTGCATATTTTTTTGAGAATTTATATTG
* *
27519350 TAGGAAGAGTGTTTGGAAGAAAGGAAGCAAGTATGTTT
66 TAGAAAGAGTGTTAGGAAGAAAGGAAGCAAGTATGTTT
27519388 GTGTTTTTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
113 36 0.40
114 40 0.44
115 14 0.16
ACGTcount: A:0.25, C:0.06, G:0.20, T:0.49
Consensus pattern (114 bp):
TTTTTTGTTTTTTATTTACTTAACAAATAGTCCCATTGTGCATATTTTTTTGAGAATTTATATTG
TAGAAAGAGTGTTAGGAAGAAAGGAAGCAAGTATGTTTTCTTTTATTTT
Found at i:27519410 original size:114 final size:113
Alignment explanation
Indices: 27519179--27519411 Score: 272
Period size: 114 Copynumber: 2.1 Consensus size: 113
27519169 TAATTTTTTG
* * * * * *
27519179 TTTTTTATTTACTTAACGAATGGTCCTATTGTCATTTTTTTTGAGATTTTGGTATTGTAGAAAGG
1 TTTTTTATTTACTTAACAAATAGTCCCATTGTCATTTTTTTTGAGAATTTGATATTGTAGAAAGA
**** *
27519244 GTGTTAGGAAGAAAGGAAGCAAGTATGTTTTCTTTTATTTTTTTTTTG
66 GTGTTAGGAAGAAAGGAAGCAAGTATGTTTTCTTTTATTTTAACATTA
** * *
27519292 TTTTTTATTTACTTAACAAATAGTCCCATTGTGTTTATTTTTTTGAGAATTT-ATTTTGTAGGAA
1 TTTTTTATTTACTTAACAAATAGTCCCATTGT-CAT-TTTTTTTGAGAATTTGATATTGTAGAAA
* *
27519356 GAGTGTTTGGAAGAAAGGAAGCAAGTATGTTTGTGTTTT-TTTTAACATTA
64 GAGTGTTAGGAAGAAAGGAAGCAAGTATGTTT-TCTTTTATTTTAACATTA
27519406 TTTTTT
1 TTTTTT
27519412 TGTTTTTTTA
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
113 29 0.29
114 52 0.52
115 19 0.19
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (113 bp):
TTTTTTATTTACTTAACAAATAGTCCCATTGTCATTTTTTTTGAGAATTTGATATTGTAGAAAGA
GTGTTAGGAAGAAAGGAAGCAAGTATGTTTTCTTTTATTTTAACATTA
Found at i:27519427 original size:123 final size:114
Alignment explanation
Indices: 27519166--27519472 Score: 330
Period size: 123 Copynumber: 2.6 Consensus size: 114
27519156 GGGTTTTGAA
* * * **
27519166 TATTAATTTTTTGTTTTTTATTTACTTAACGAATGGTCCTATTGT-CAT-TTTTTTTGAGATTTT
1 TATTATTTTTTTGTTTTTTATTTACTTAACAAATGGTCCCATTGTGTTTATTTTTTTGAGATTTT
* * *
27519229 GGTATTGTAGAAAGGGTGTTAGGAAGAAAGGAAGCAAGTATGTTTTCTTT
66 -ATTTTGTAGAAAGAGTGTTAGGAAGAAAGGAAGCAAGTATGTTTTCTTT
* * *
27519279 TATTTTTTTTTTGTTTTTTATTTACTTAACAAATAGTCCCATTGTGTTTATTTTTTTGAGAATTT
1 TATTATTTTTTTGTTTTTTATTTACTTAACAAATGGTCCCATTGTGTTTATTTTTTTGAGATTTT
* * *
27519344 ATTTTGTAGGAAGAGTGTTTGGAAGAAAGGAAGCAAGTATGTTTGTGTTTTTTT
66 ATTTTGTAGAAAGAGTGTTAGGAAGAAAGGAAGCAAGTA----TGT-TTTCTTT
* * * * *
27519398 TAACATTATTTTTTTGTTTTTTTATTTACTTAATAGATGGTCCCATTGTGTTGAATTTGTTGAGA
1 T---ATTATTTTTTTG-TTTTTTATTTACTTAACAAATGGTCCCATTGTGTTTATTTTTTTGAGA
27519463 GTTTTATTTT
62 -TTTTATTTT
27519473 CTATTTTCGT
Statistics
Matches: 160, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
113 40 0.25
114 35 0.22
115 14 0.09
118 3 0.02
119 7 0.04
122 11 0.07
123 42 0.26
124 8 0.05
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (114 bp):
TATTATTTTTTTGTTTTTTATTTACTTAACAAATGGTCCCATTGTGTTTATTTTTTTGAGATTTT
ATTTTGTAGAAAGAGTGTTAGGAAGAAAGGAAGCAAGTATGTTTTCTTT
Found at i:27531661 original size:20 final size:20
Alignment explanation
Indices: 27531636--27531673 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27531626 AGTAATTTAA
*
27531636 AAAATAAAATTAAAAGAAAT
1 AAAATAAAATAAAAAGAAAT
27531656 AAAATAAAATAAAAAGAA
1 AAAATAAAATAAAAAGAA
27531674 CTGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAATAAAATAAAAAGAAAT
Found at i:27539570 original size:24 final size:24
Alignment explanation
Indices: 27539542--27539588 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
27539532 CAATTAAAAC
27539542 GTGATTGATAATTAATCATTAATG
1 GTGATTGATAATTAATCATTAATG
* *
27539566 GTGATTGGTTATTAATCATTAAT
1 GTGATTGATAATTAATCATTAAT
27539589 TTTTTTATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (24 bp):
GTGATTGATAATTAATCATTAATG
Found at i:27539966 original size:13 final size:13
Alignment explanation
Indices: 27539942--27539975 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
27539932 TTTTAGTTAT
27539942 TATATAATTGTGTG
1 TATAT-ATTGTGTG
27539956 TATATATTGTGTG
1 TATATATTGTGTG
27539969 TATATAT
1 TATATAT
27539976 ATTATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (13 bp):
TATATATTGTGTG
Found at i:27541927 original size:26 final size:26
Alignment explanation
Indices: 27541898--27541979 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
27541888 TGGTACAAAT
27541898 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27541924 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27541950 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27541976 TGAT
1 TGAT
27541980 GGGAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27543079 original size:51 final size:51
Alignment explanation
Indices: 27543003--27543104 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
27542993 GGTGTGGTTG
27543003 GCCGAATATTGTAAGGGGTTAATACGTAGTTTGTATTTGAATAGTTAGATT
1 GCCGAATATTGTAAGGGGTTAATACGTAGTTTGTATTTGAATAGTTAGATT
27543054 GCCGAATATTGTAAGGGGTTAATACGTAGTTTGTATTTGAATAGTTAGATT
1 GCCGAATATTGTAAGGGGTTAATACGTAGTTTGTATTTGAATAGTTAGATT
27543105 AACGTGTTAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.39
Consensus pattern (51 bp):
GCCGAATATTGTAAGGGGTTAATACGTAGTTTGTATTTGAATAGTTAGATT
Found at i:27543689 original size:54 final size:54
Alignment explanation
Indices: 27543590--27543734 Score: 238
Period size: 54 Copynumber: 2.7 Consensus size: 54
27543580 TGGAGGAAGC
*
27543590 GTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCT
27543645 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
27543699 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
27543735 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
53 6 0.07
54 59 0.69
55 21 0.24
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:27543731 original size:27 final size:27
Alignment explanation
Indices: 27543593--27543752 Score: 177
Period size: 27 Copynumber: 5.9 Consensus size: 27
27543583 AGGAAGCGTC
* *
27543593 CTGGTGGCTATGCCACAATTTATCT-AAT
1 CTGGTGGCTCTGCCACAA--TATCTGTAT
*
27543621 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
27543648 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
27543675 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
27543702 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
27543729 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
27543753 GCAGCCTCGC
Statistics
Matches: 116, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 88 0.76
28 17 0.15
29 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:27543746 original size:81 final size:81
Alignment explanation
Indices: 27543593--27543752 Score: 209
Period size: 81 Copynumber: 2.0 Consensus size: 81
27543583 AGGAAGCGTC
* *
27543593 CTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTA
1 CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTA
27543658 TGCCACAATTATCTGAT
66 TGCCACAA-TATCTGAT
* ** *
27543675 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
27543738 -TCGTCACAATATCTG
65 AT-GCCACAATATCTG
27543753 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 15 0.22
81 39 0.57
82 15 0.22
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTA
TGCCACAATATCTGAT
Found at i:27547371 original size:11 final size:11
Alignment explanation
Indices: 27547355--27547388 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27547345 CGCATCTAGT
27547355 TTTGTTCTTGA
1 TTTGTTCTTGA
*
27547366 TTTGTTCTTGC
1 TTTGTTCTTGA
*
27547377 TTTATTCTTGA
1 TTTGTTCTTGA
27547388 T
1 T
27547389 GATTTGACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.12, G:0.15, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTGA
Found at i:27555779 original size:37 final size:37
Alignment explanation
Indices: 27555718--27555796 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
27555708 TTATTACGAA
* * *
27555718 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
27555755 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
27555792 GTCTT
1 GTCTT
27555797 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:27555993 original size:47 final size:47
Alignment explanation
Indices: 27555915--27556137 Score: 322
Period size: 47 Copynumber: 4.7 Consensus size: 47
27555905 CCCTTTGGGA
* * * * * *
27555915 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27555962 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27556009 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27556056 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27556103 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
27556138 AGAATCCTAA
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 159 0.99
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27560639 original size:18 final size:18
Alignment explanation
Indices: 27560602--27560643 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
27560592 AAAATCCCAA
*
27560602 AAGGATTTAAAACCCTTG
1 AAGGATTTAAAAACCTTG
27560620 AAGGATTTAAAATACC-TG
1 AAGGATTTAAAA-ACCTTG
27560638 AAGGAT
1 AAGGAT
27560644 ATAGAGTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (18 bp):
AAGGATTTAAAAACCTTG
Found at i:27563266 original size:108 final size:100
Alignment explanation
Indices: 27563259--27563437 Score: 215
Period size: 99 Copynumber: 1.8 Consensus size: 100
27563249 GATTAGGTTA
* * *
27563259 TATAAATTGTTAGTGTTTAATGGTTTAGTGTATTATGATTTTTTAGAAATGTATTTTTTTTAAAA
1 TATAAATTGTTAGTGTTT-ATGGTTTAGTGTATTGTGATTTTTTAGTAATGTAATTTTTTTAAAA
*
27563324 A-AA-ATTATAGTTATTTTGTGTTAGTAATTTATAAT
65 ATAATTTTATAGTTA-TTTGTGTTAGTAATTTATAAT
* * * *
27563359 TATAAATTGTTAGTGTTTATAGTTTAGTGTTTTGTGATTTTTT--TAATGTAATTTTTATATAAT
1 TATAAATTGTTAGTGTTTATGGTTTAGTGTATTGTGATTTTTTAGTAATGTAATTTTTTTA-AAA
*
27563422 GTAATTTTATA-TTATT
65 ATAATTTTATAGTTATT
27563438 ATTTATTTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
97 13 0.19
98 4 0.06
99 27 0.40
100 23 0.34
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (100 bp):
TATAAATTGTTAGTGTTTATGGTTTAGTGTATTGTGATTTTTTAGTAATGTAATTTTTTTAAAAA
TAATTTTATAGTTATTTGTGTTAGTAATTTATAAT
Found at i:27563429 original size:15 final size:16
Alignment explanation
Indices: 27563402--27563433 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
27563392 GTGATTTTTT
27563402 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
27563418 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
27563433 T
1 T
27563434 TATTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:27565492 original size:33 final size:33
Alignment explanation
Indices: 27565455--27565542 Score: 83
Period size: 33 Copynumber: 2.6 Consensus size: 33
27565445 CAATACTCTG
27565455 CTCCTTCCGGCCAGTATCCACCT-CTGTACTCCA
1 CTCCTTCCGGCCA-TATCCACCTGCTGTACTCCA
* **
27565488 CTCC-TCTAGAGCCATATCCA-CTGCTGTACTTTA
1 CTCCTTC-CG-GCCATATCCACCTGCTGTACTCCA
*
27565521 CTCCTCCCGGCCTATATCCACC
1 CTCCTTCCGGCC-ATATCCACC
27565543 GCCATTTTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
32 7 0.16
33 31 0.70
34 6 0.14
ACGTcount: A:0.17, C:0.43, G:0.11, T:0.28
Consensus pattern (33 bp):
CTCCTTCCGGCCATATCCACCTGCTGTACTCCA
Found at i:27565556 original size:33 final size:33
Alignment explanation
Indices: 27565519--27565597 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
27565509 TGCTGTACTT
* *
27565519 TACTCCTCCCGGCCTATATCCACCGCCATTTTC
1 TACTCCTCCCGGCCTATATCCACCACCATATTC
*** * * *
27565552 TACTCCTCCTATCCTGTATCTACCACCGTATTC
1 TACTCCTCCCGGCCTATATCCACCACCATATTC
27565585 TACTCCTCCCGGC
1 TACTCCTCCCGGC
27565598 TCAAGTTCAT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.15, C:0.44, G:0.09, T:0.32
Consensus pattern (33 bp):
TACTCCTCCCGGCCTATATCCACCACCATATTC
Found at i:27569786 original size:17 final size:19
Alignment explanation
Indices: 27569757--27569792 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
27569747 GCCTTGCTCG
27569757 TGTGGGCTCACAC-GCCCA
1 TGTGGGCTCACACGGCCCA
27569775 TGTGGG-TCACACGGCCCA
1 TGTGGGCTCACACGGCCCA
27569793 AATTGGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.17
Consensus pattern (19 bp):
TGTGGGCTCACACGGCCCA
Found at i:27571456 original size:26 final size:27
Alignment explanation
Indices: 27571395--27571450 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
27571385 CCTACCAAGA
* * *
27571395 AGGCTCAACTAGTTGCACCTGTCAGGT
1 AGGCTCAACTAGTCGCACCTATCAGAT
27571422 AGGCTCAACTAGTCGC-CCTATCAGAT
1 AGGCTCAACTAGTCGCACCTATCAGAT
27571448 AGG
1 AGG
27571451 TGCAACCTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (27 bp):
AGGCTCAACTAGTCGCACCTATCAGAT
Found at i:27584159 original size:17 final size:17
Alignment explanation
Indices: 27584137--27584198 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
27584127 ACAATAATAT
27584137 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
*
27584154 AAAATATATATATGTAT
1 AAAATATATATATGTAC
* *
27584171 ATAATATAGT-TA--TAA
1 AAAATATA-TATATGTAC
27584186 AAAATATATATAT
1 AAAATATATATAT
27584199 TAAATTCGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
14 1 0.03
15 11 0.30
17 22 0.59
18 3 0.08
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:27584423 original size:17 final size:16
Alignment explanation
Indices: 27584402--27584436 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
27584392 TGTTTTTTTT
27584402 ATTTTT-TTTAAGACCA
1 ATTTTTGTTT-AGACCA
27584418 ATTTTTGTTTAGACCA
1 ATTTTTGTTTAGACCA
27584434 ATT
1 ATT
27584437 ACAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (16 bp):
ATTTTTGTTTAGACCA
Found at i:27584991 original size:15 final size:15
Alignment explanation
Indices: 27584971--27585009 Score: 69
Period size: 15 Copynumber: 2.5 Consensus size: 15
27584961 TTTTTTTGGT
27584971 TTTTTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
27584986 TTTTTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
27585001 TTTTGTTTT
1 TTTT-TTTT
27585010 TTGTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.10, C:0.05, G:0.18, T:0.67
Consensus pattern (15 bp):
TTTTTTTTGCTGGAA
Found at i:27585324 original size:31 final size:30
Alignment explanation
Indices: 27585224--27585324 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 30
27585214 CTTTTGGGCT
* * *
27585224 AAATGTAATTTTTAGAAAA-TTT-TGGGTTA
1 AAATGTAA-TTTAAGAAAAGTTTAAGGGTCA
*
27585253 AAATGTAATTTAAGAAAAGTTTAAGGGTCT
1 AAATGTAATTTAAGAAAAGTTTAAGGGTCA
* * *
27585283 AAGTGAAATTTAAAGAAAAGTTTAGGGGTCA
1 AAATGTAATTT-AAGAAAAGTTTAAGGGTCA
27585314 AAATGTAATTT
1 AAATGTAATTT
27585325 TTTTATTTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 9 0.15
29 11 0.19
30 13 0.22
31 26 0.44
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.36
Consensus pattern (30 bp):
AAATGTAATTTAAGAAAAGTTTAAGGGTCA
Found at i:27586443 original size:41 final size:40
Alignment explanation
Indices: 27586382--27586467 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 40
27586372 TATAATCACT
27586382 TTTTATTATATTTTCAATTTGTGTATTGTTTTAAGAATTG
1 TTTTATTATATTTTCAATTTGTGTATTGTTTTAAGAATTG
** * * * *
27586422 TTTTATTATCATTTTTTATTTGTTTCTTGTTTTAATATTTG
1 TTTTATTAT-ATTTTCAATTTGTGTATTGTTTTAAGAATTG
27586463 TTTTA
1 TTTTA
27586468 AATGTATTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 9 0.23
41 30 0.77
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.66
Consensus pattern (40 bp):
TTTTATTATATTTTCAATTTGTGTATTGTTTTAAGAATTG
Found at i:27586848 original size:12 final size:12
Alignment explanation
Indices: 27586833--27586862 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27586823 ATTAATACCT
27586833 CACTAAACCAAC
1 CACTAAACCAAC
*
27586845 CACTAAACCAAT
1 CACTAAACCAAC
27586857 CACTAA
1 CACTAA
27586863 CTCCATCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (12 bp):
CACTAAACCAAC
Found at i:27587336 original size:18 final size:18
Alignment explanation
Indices: 27587313--27587359 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
27587303 GAAGGGAATA
* *
27587313 TTATTATTATTATTATTT
1 TTATTATTATTACTACTT
27587331 TTATTATTATTACTACTT
1 TTATTATTATTACTACTT
*
27587349 TTACTATTATT
1 TTATTATTATT
27587360 CTATATACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTATTATTACTACTT
Found at i:27587359 original size:3 final size:3
Alignment explanation
Indices: 27587311--27587342 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
27587301 TAGAAGGGAA
*
27587311 TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
27587343 CTACTTTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:27587458 original size:3 final size:3
Alignment explanation
Indices: 27587443--27587748 Score: 79
Period size: 3 Copynumber: 102.3 Consensus size: 3
27587433 TTTCACCTTT
* * * * * *
27587443 TTA TTA CTA TTA TTA TTAA CCTA CTA TTA TTA TTT TTA TCA ATA -TA
1 TTA TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
27587489 GTA TTA TT- TTC TT- TTT TTA ATA TTA TTA TTA TTA TTAA TGTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA
* * * *
27587534 TTG TTA TTT TCTA TT- TTA TTA TTA CTT- TTA TTA CTA TTG TT- TCTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA
* *
27587579 TTA TTA TTA TT- TTCA TTA CTTCCG TTA TTA TTA TCA TTA TT- TTA -TA
1 TTA TTA TTA TTA TT-A TTA -TT--A TTA TTA TTA TTA TTA TTA TTA TTA
* * *
27587625 TTA TCA TTA ATA TGTCG TT- TGT- TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA T-T-A TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
** * * **
27587670 TTA ACA CTA TTA TTA TTA -TA TTTA CTT- TT- TTA ATA TTA TTA CCA
1 TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA
** * *
27587714 TTA TT- TT- TTA AAA TTA TTA TTA CTA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27587749 GATCTGTCCT
Statistics
Matches: 223, Mismatches: 51, Indels: 58
0.67 0.15 0.17
Matches are distributed among these distances:
2 31 0.14
3 166 0.74
4 21 0.09
5 5 0.02
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:27587706 original size:23 final size:21
Alignment explanation
Indices: 27587680--27587733 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
27587670 TTAACACTAT
27587680 TATTATTATATTTACTTTTTTAA
1 TATTATTATA-TTA-TTTTTTAA
*
27587703 TATTATTACCATTATTTTTTAA
1 TATTATTA-TATTATTTTTTAA
*
27587725 AATTATTAT
1 TATTATTAT
27587734 TACTATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 15 0.56
23 11 0.41
24 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTATTATATTATTTTTTAA
Found at i:27587709 original size:29 final size:29
Alignment explanation
Indices: 27587647--27587710 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
27587637 TGTCGTTTGT
27587647 TTATTATTATTATTATTATTATTTTAACA
1 TTATTATTATTATTATTATTATTTTAACA
* *
27587676 CTATTATTATTA-TATTTACTT-TTTTAATA
1 TTATTATTATTATTA-TTA-TTATTTTAACA
27587705 TTATTA
1 TTATTA
27587711 CCATTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 2 0.07
29 26 0.87
30 2 0.07
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (29 bp):
TTATTATTATTATTATTATTATTTTAACA
Found at i:27587723 original size:22 final size:24
Alignment explanation
Indices: 27587678--27587746 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
27587668 TTTTAACACT
*
27587678 ATTATTATTA-TATTTACTTTTTT-A
1 ATTATTATTACCA-TTA-TTTTTTAA
27587702 A-TATTATTACCATTATTTTTTAAA
1 ATTATTATTACCATTATTTTTT-AA
*
27587726 ATTATTATTACTATTATTTTT
1 ATTATTATTACCATTATTTTT
27587747 ATGATCTGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 4 0.10
25 18 0.46
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTATTATTACCATTATTTTTTAA
Found at i:27594067 original size:38 final size:38
Alignment explanation
Indices: 27594016--27594199 Score: 220
Period size: 38 Copynumber: 5.0 Consensus size: 38
27594006 AGCACTCGAT
*
27594016 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
*
27594054 ATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGG--
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
*
27594090 -----TCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
27594123 ATATATCCGGGTTAAATCCCGCAAGCTTAGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* * **
27594161 TTATATCCGAGCTTAAAGTCCCGCAGGCTTTATGCTGGT
1 ATATATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
27594200 GACTGGATTC
Statistics
Matches: 126, Mismatches: 11, Indels: 16
0.82 0.07 0.10
Matches are distributed among these distances:
31 29 0.23
38 73 0.58
39 6 0.05
40 18 0.14
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (38 bp):
ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:27594101 original size:31 final size:31
Alignment explanation
Indices: 27594063--27594121 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
27594053 AATATATCCA
27594063 GGTTAAATCCCGCAGGCTTCGTGCTGGTCCG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTCCG
*
27594094 GGTTAAATCCCGCAGGCTTTGTGCTGGT
1 GGTTAAATCCCGCAGGCTTCGTGCTGGT
27594122 AATATATCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.29
Consensus pattern (31 bp):
GGTTAAATCCCGCAGGCTTCGTGCTGGTCCG
Found at i:27594136 original size:69 final size:69
Alignment explanation
Indices: 27594021--27594159 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 69
27594011 TCGATATATA
* * *
27594021 TCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTG
1 TCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAAGCTTAGTG
27594086 CTGG
66 CTGG
* *
27594090 TCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATATATCCGGGTTAAATCCCGCAAGCTTAGTG
1 TCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAAGCTTAGTG
27594155 CTGG
66 CTGG
27594159 T
1 T
27594160 ATTATATCCG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (69 bp):
TCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAAGCTTAGTG
CTGG
Found at i:27596785 original size:21 final size:21
Alignment explanation
Indices: 27596760--27596828 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
27596750 TAGCCTCCGG
*
27596760 GCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTTAGCACTTATGT
* *
27596781 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCAGTTTAGCACTTATGT
* *
27596799 GCTGCCGTTTAGCACTTATGT
1 GCTTCAGTTTAGCACTTATGT
27596820 GCTTCAGTT
1 GCTTCAGTT
27596829 AGATTTCGGG
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
18 6 0.17
19 8 0.22
20 8 0.22
21 14 0.39
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.41
Consensus pattern (21 bp):
GCTTCAGTTTAGCACTTATGT
Done.