Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007244.1 Hibiscus syriacus cultivar Beakdansim tig00019194_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106743
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Found at i:2550 original size:29 final size:29
Alignment explanation
Indices: 2517--2574 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
2507 TTATATTTAT
* *
2517 TTAACATAACCCAGTTAATTTTAATATCA
1 TTAACACAACACAGTTAATTTTAATATCA
* *
2546 TTAACACAAGACGGTTAATTTTAATATCA
1 TTAACACAACACAGTTAATTTTAATATCA
2575 ACAAGTTAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (29 bp):
TTAACACAACACAGTTAATTTTAATATCA
Found at i:10343 original size:112 final size:113
Alignment explanation
Indices: 10145--10377 Score: 396
Period size: 112 Copynumber: 2.1 Consensus size: 113
10135 ATTGTATGCA
*
10145 AATAAATTAAAAGACTAAATTTATTTATTTATTTCAAAAAATTTGAGGGCCCTATGACCCTTGAG
1 AATAAATTAAAAGACTAAATTTATTTATTTATTTCAAAAAATTTGAGGGCCCTATGACCATTGAG
10210 CCTAAATTTAAGTATGAGCCAAATGCAACTTTGAATGTGGGATTAGAT
66 CCTAAATTTAAGTATGAGCCAAATGCAACTTTGAATGTGGGATTAGAT
* * *
10258 AATAAATTAAAGGACTAAATTTATTTATTTCTTTC-AAAATTTTGAGGGCCCTATGACCATTGAG
1 AATAAATTAAAAGACTAAATTTATTTATTTATTTCAAAAAATTTGAGGGCCCTATGACCATTGAG
* * *
10322 CCTTAATTTAAGTATGAGCCAAATGCAACTTTGAGTGTGGGATTAGTT
66 CCTAAATTTAAGTATGAGCCAAATGCAACTTTGAATGTGGGATTAGAT
10370 AATAAATT
1 AATAAATT
10378 TAATACAACA
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
112 80 0.71
113 33 0.29
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (113 bp):
AATAAATTAAAAGACTAAATTTATTTATTTATTTCAAAAAATTTGAGGGCCCTATGACCATTGAG
CCTAAATTTAAGTATGAGCCAAATGCAACTTTGAATGTGGGATTAGAT
Found at i:16382 original size:18 final size:20
Alignment explanation
Indices: 16359--16397 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16349 GCTAAAATGC
16359 TTGAAAA-AATA-AGGAGTA
1 TTGAAAATAATATAGGAGTA
*
16377 TTGAAAATCATATAGGAGTA
1 TTGAAAATAATATAGGAGTA
16397 T
1 T
16398 CGATACTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.49, C:0.03, G:0.21, T:0.28
Consensus pattern (20 bp):
TTGAAAATAATATAGGAGTA
Found at i:22092 original size:26 final size:26
Alignment explanation
Indices: 22063--22124 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
22053 GCTGAAGTTT
*
22063 TAAACTTTTAGGAAGGGATGAACCTA
1 TAAAATTTTAGGAAGGGATGAACCTA
22089 TAAAATTTTAGGAAGGGATGAACCTA
1 TAAAATTTTAGGAAGGGATGAACCTA
22115 TAAAATTTTA
1 TAAAATTTTA
22125 AGAGTCGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (26 bp):
TAAAATTTTAGGAAGGGATGAACCTA
Found at i:22993 original size:4 final size:4
Alignment explanation
Indices: 22986--26243 Score: 5315
Period size: 4 Copynumber: 817.0 Consensus size: 4
22976 CTTCAATAAA
22986 TATG TATG TATG TATG TATG TA-- TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23032 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23080 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23128 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23176 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23224 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23272 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23320 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23368 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23416 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * ** * *
23464 TATG TATG AAT- TA-G ACATCAA CATG TATG AAT- TCA-A TACCC CACTT
1 TATG TATG TATG TATG -TAT--G TATG TATG TATG T-ATG TA-TG TA-TG
* * * * **
23510 TCAAAG TAT- CAT- TA-G -AT- TCACAT- TCT- TCA-A TAAA TATG TATG
1 T--ATG TATG TATG TATG TATG T---ATG TATG T-ATG TATG TATG TATG
23552 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23600 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23648 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23696 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23744 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23792 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23840 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23888 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23936 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
23984 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24032 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
24080 TATG TATG TATG TATG TATG TATG AAT- TA-G ACATCAA CATG TATG AAT-
1 TATG TATG TATG TATG TATG TATG TATG TATG -TAT--G TATG TATG TATG
* ** * * * * ** * *
24128 TCA-A TACCC CACTT TCAAAG TAT- CAT- TA-G -AT- TCACA T-TC T-TC
1 T-ATG TA-TG TA-TG T--ATG TATG TATG TATG TATG T-ATG TATG TATG
* * *
24170 AATA AATAG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TAT-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24219 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24267 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24315 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24363 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24411 TATG TATG --TG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24457 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24505 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24553 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24601 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24647 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24695 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24743 TATG TATG TATAG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TAT-G TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
24792 TATG TATG TATG TATG TATG AAT- TA-G ACATCAA CATG TATG AAT- TCA-A
1 TATG TATG TATG TATG TATG TATG TATG -TAT--G TATG TATG TATG T-ATG
** * * * * * * **
24840 TACCC CACTT TCAAAG TAT- CAT- TA-G -AT- TCAT- TCT- TCA-A TAAA
1 TA-TG TA-TG T--ATG TATG TATG TATG TATG T-ATG TATG T-ATG TATG
24882 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24930 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
24978 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25026 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25072 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25120 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25168 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25216 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25264 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25312 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25360 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25408 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25456 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25504 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25552 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25600 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25648 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25696 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25744 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25792 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * * * * *
25840 TATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
25888 CATG CATG CATG CATG CATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25936 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
25984 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
26032 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
26080 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
26128 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
26176 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
26224 TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG
26244 ATTTGTAAGT
Statistics
Matches: 3118, Mismatches: 71, Indels: 130
0.94 0.02 0.04
Matches are distributed among these distances:
2 11 0.00
3 24 0.01
4 3052 0.98
5 13 0.00
6 15 0.00
7 3 0.00
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:27713 original size:2 final size:2
Alignment explanation
Indices: 27706--27731 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27696 AGGCAATGAT
27706 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
27732 CTGTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28004 original size:2 final size:2
Alignment explanation
Indices: 27997--28045 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
27987 TAGTTCAAGA
* *
27997 AT AT AT AT GT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28039 AT AT AT A
1 AT AT AT A
28046 ACTTTTATAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:28087 original size:2 final size:2
Alignment explanation
Indices: 28080--28109 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28070 TTGTTCAAGA
28080 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28110 GTATGTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28114 original size:4 final size:4
Alignment explanation
Indices: 28107--28154 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
28097 TATATATATA
28107 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
28155 GGTAGTATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:31399 original size:60 final size:58
Alignment explanation
Indices: 31265--31455 Score: 163
Period size: 60 Copynumber: 3.2 Consensus size: 58
31255 CGCATCATGT
* * * * * *
31265 ATCCTCAAATTATGACCCTCATTTTAAATTAGTTCTTAAACA-TTTAAACATTTTAATTTC
1 ATCCCCAAATTATGACTCTCA-TTCAAATTTG-TCTTAAA-ATTTTGAACATTCTAATTTC
*
31325 A-CCCTCAAACTATGACTCTCATTCAAAGTTTGTCCTTAAAATTTTGAACATTCTAATTTC
1 ATCCC-CAAATTATGACTCTCATTCAAA-TTTGT-CTTAAAATTTTGAACATTCTAATTTC
** * * * *
31385 ATATCCAAATTATGATTCTCATTCTAATTTGGTCTCTAAACTTTTAGATC-TTCTAATTTC
1 ATCCCCAAATTATGACTCTCATTCAAATTT-GTCT-TAAAATTTT-GAACATTCTAATTTC
31445 ATCCCCAAATT
1 ATCCCCAAATT
31456 CATCCAAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
59 14 0.13
60 89 0.83
61 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (58 bp):
ATCCCCAAATTATGACTCTCATTCAAATTTGTCTTAAAATTTTGAACATTCTAATTTC
Found at i:32724 original size:20 final size:20
Alignment explanation
Indices: 32671--32725 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
32661 ATACTACCCT
32671 AAGAGTATCGATACTCTTGA
1 AAGAGTATCGATACTCTTGA
* * *
32691 AAAAGTTTTGATACTCTTGA
1 AAGAGTATCGATACTCTTGA
*
32711 AAGAGTATCAATACT
1 AAGAGTATCGATACT
32726 TTTGCCAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
AAGAGTATCGATACTCTTGA
Found at i:34755 original size:27 final size:24
Alignment explanation
Indices: 34723--34850 Score: 82
Period size: 26 Copynumber: 5.0 Consensus size: 24
34713 GAAAGCAAAG
34723 ATAAAATAGTAAGTAAAAAAATAAATA
1 ATAAAATA-TAA-TAAAAAAATAAA-A
*
34750 ATAAAATATATATAAAAAAAGAAAA
1 ATAAAATATA-ATAAAAAAATAAAA
*
34775 AGAAAATA-AATAAAACAAAT--AA
1 ATAAAATATAATAAAA-AAATAAAA
* * * **
34797 ACAAAATAATAATAACAAAGTACGA
1 ATAAAAT-ATAATAAAAAAATAAAA
34822 ATAATATATATATATAAAATAAATAAAA
1 ATAA-A-ATATA-ATAAAA-AAATAAAA
34850 A
1 A
34851 AGTAAATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
22 8 0.10
23 10 0.13
24 10 0.13
25 12 0.15
26 17 0.22
27 16 0.20
28 6 0.08
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (24 bp):
ATAAAATATAATAAAAAAATAAAA
Found at i:34766 original size:11 final size:12
Alignment explanation
Indices: 34740--34873 Score: 55
Period size: 11 Copynumber: 10.9 Consensus size: 12
34730 AGTAAGTAAA
34740 AAAATAAATAAT
1 AAAATAAATAAT
*
34752 AAAATATATATAAA
1 AAAATA-A-ATAAT
* *
34766 AAAAGAAA-AAG
1 AAAATAAATAAT
*
34777 AAAATAAATAAA
1 AAAATAAATAAT
*
34789 ACAAATAAACAA-
1 A-AAATAAATAAT
*
34801 AATAAT-AATAAC
1 AA-AATAAATAAT
*
34813 AAAGTACGAATAAT
1 AAAATA--AATAAT
* *
34827 -ATATATAT-AT
1 AAAATAAATAAT
34837 AAAATAAATAA-
1 AAAATAAATAAT
34848 AAAAGTAAATATAT
1 AAAA-TAAATA-AT
*
34862 ATAAATTAATAA
1 A-AAATAAATAA
34874 ATTAAATGAT
Statistics
Matches: 92, Mismatches: 15, Indels: 29
0.68 0.11 0.21
Matches are distributed among these distances:
10 2 0.02
11 28 0.30
12 23 0.25
13 16 0.17
14 20 0.22
15 3 0.03
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (12 bp):
AAAATAAATAAT
Found at i:35070 original size:12 final size:12
Alignment explanation
Indices: 35053--35078 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35043 TTGACAGGAA
35053 GAAAAAAATGAT
1 GAAAAAAATGAT
35065 GAAAAAAATGAT
1 GAAAAAAATGAT
35077 GA
1 GA
35079 GGGATGGGGA
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:0.65, C:0.00, G:0.19, T:0.15
Consensus pattern (12 bp):
GAAAAAAATGAT
Found at i:35192 original size:2 final size:2
Alignment explanation
Indices: 35121--35173 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
35111 CTTGTGTAGA
35121 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35163 AT AT AT AT AT A
1 AT AT AT AT AT A
35174 ATAGTAAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35429 original size:2 final size:2
Alignment explanation
Indices: 35369--35413 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
35359 GAACATACGC
35369 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35411 AT A
1 AT A
35414 ACAAAATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35562 original size:12 final size:12
Alignment explanation
Indices: 35540--35584 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
35530 GAATAAAAGG
35540 AAAATATAATAGT
1 AAAA-ATAATAGT
*
35553 AAAAATAATAAT
1 AAAAATAATAGT
*
35565 AAATATAATAGT
1 AAAAATAATAGT
*
35577 AATAATAA
1 AAAAATAA
35585 AAATGCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:36196 original size:37 final size:37
Alignment explanation
Indices: 36155--36259 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
36145 GTGCTTGTGG
* * *
36155 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
36192 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
36229 ATCCTATTTTTATGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
36260 GACGAAAAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:37115 original size:105 final size:106
Alignment explanation
Indices: 36881--37328 Score: 656
Period size: 105 Copynumber: 4.4 Consensus size: 106
36871 TGTGCACGAT
*
36881 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
1 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
*
36946 TTGGCTCTGAAATT-GAGAAGTTGTTTGTTGACAACCAGCGG
66 TTGGCTCTGAAATTGGA-AAGTTGTTTATTGACAACCAGCGG
36987 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG-AA
1 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
*
37051 TTGGCTCTGAAATTGGAAAGTTGTTTATTGACAACCAGTGG
66 TTGGCTCTGAAATTGGAAAGTTGTTTATTGACAACCAGCGG
* *
37092 TCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
1 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
*
37157 -----T-TG-----GGAAA-TTGTTTATTGACAACCAACGG
66 TTGGCTCTGAAATTGGAAAGTTGTTTATTGACAACCAGCGG
37186 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
1 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
* * * * *
37251 TTGGCTCCGAAATTGGAAAATTG-TTGTTGTCAACCAGCTG
66 TTGGCTCTGAAATTGGAAAGTTGTTTATTGACAACCAGCGG
* * *
37291 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGT
1 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
37329 GGCACGATAT
Statistics
Matches: 311, Mismatches: 17, Indels: 29
0.87 0.05 0.08
Matches are distributed among these distances:
94 82 0.26
95 5 0.02
99 1 0.00
100 3 0.01
101 1 0.00
105 151 0.49
106 68 0.22
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
TTGGCTCTGAAATTGGAAAGTTGTTTATTGACAACCAGCGG
Found at i:37155 original size:43 final size:43
Alignment explanation
Indices: 37094--37249 Score: 113
Period size: 43 Copynumber: 3.4 Consensus size: 43
37084 ACCAGTGGTC
37094 CCTTCGTCGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATAT
* ** **
37137 CCTTCG-CTGTGAAGTTGAAATTGGGAAATTGTTTAT-T-GACAACCAACGGT
1 CCTTCGTC-GTGAAGTTGAACTT--G----TG-TTATCTGGA-GTCCAA-TAT
* *
37187 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATAT
37231 CCTTCG-CTGTGAAGTTGAA
1 CCTTCGTC-GTGAAGTTGAA
37250 ATTGGCTCCG
Statistics
Matches: 86, Mismatches: 12, Indels: 30
0.67 0.09 0.23
Matches are distributed among these distances:
42 2 0.02
43 36 0.42
44 4 0.05
45 7 0.08
46 2 0.02
48 2 0.02
49 8 0.09
50 5 0.06
51 19 0.22
52 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATAT
Found at i:37193 original size:199 final size:199
Alignment explanation
Indices: 36953--37328 Score: 621
Period size: 199 Copynumber: 1.9 Consensus size: 199
36943 AAATTGGCTC
* * *
36953 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
37018 CTGGAGTCCAATATCCTTCGCTGTGAAGTTG-AATTGGCTCTGAAATTGGAAAGTTGTTTATTGA
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATTG-TTATTGA
37082 CAACCAG-TGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATATCCTTCGCTG
130 CAACCAGCT-GTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATATCCTTCGCTG
37146 TGAAGT
194 TGAAGT
*
37152 TGAAATTGGGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
37217 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATTGTTGTTGTC
66 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATTGTTATTGAC
* * *
37282 AACCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGT
131 AACCAGCTGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTGGAGT
37329 GGCACGATAT
Statistics
Matches: 164, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
199 140 0.85
200 24 0.15
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (199 bp):
TGAAATTGAGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATTGTTATTGAC
AACCAGCTGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTGGAGTCCAATATCCTTCGCTGTG
AAGT
Found at i:37220 original size:94 final size:94
Alignment explanation
Indices: 36953--37254 Score: 433
Period size: 94 Copynumber: 3.1 Consensus size: 94
36943 AAATTGGCTC
* * *
36953 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
37018 CTGGAGTCCAATATCCTTCGCTGTGAAGT
66 CTGGAGTCCAATATCCTTCGCTGTGAAGT
* *
37047 TGAATTGGCTCTGAAATTGGAAAGTTGTTTATTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGA
1 TGAA----AT-TG-----GGAAA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
* *
37112 ACTTGTGTTATCTGGAGTCCAATATCCTTCGCTGTGAAGT
55 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
*
37152 TGAAATTGGGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
37217 CTGGAGTCCAATATCCTTCGCTGTGAAGT
66 CTGGAGTCCAATATCCTTCGCTGTGAAGT
37246 TGAAATTGG
1 TGAAATTGG
37255 CTCCGAAATT
Statistics
Matches: 185, Mismatches: 12, Indels: 22
0.84 0.05 0.10
Matches are distributed among these distances:
94 90 0.49
95 5 0.03
98 1 0.01
99 2 0.01
100 2 0.01
101 1 0.01
104 3 0.02
105 81 0.44
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (94 bp):
TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGCTGTGAAGT
Found at i:38830 original size:16 final size:16
Alignment explanation
Indices: 38811--38853 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
38801 TTTTTGTTCT
38811 TTTTTTTGTTTTCTTC
1 TTTTTTTGTTTTCTTC
*
38827 -TTTTTTG-TTTCTTT
1 TTTTTTTGTTTTCTTC
38841 TCTTTTTTGTTTT
1 T-TTTTTTGTTTT
38854 TGCCCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 6 0.26
15 7 0.30
16 7 0.30
17 3 0.13
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (16 bp):
TTTTTTTGTTTTCTTC
Found at i:38841 original size:19 final size:17
Alignment explanation
Indices: 38810--38854 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
38800 ATTTTTGTTC
*
38810 TTTTTTTTGTTTTCTTCT
1 TTTTTTTTCTTTTCTT-T
38828 TTTTTGTTTCTTTTCTTT
1 TTTTT-TTTCTTTTCTTT
38846 TTTGTTTTT
1 TTT-TTTTT
38855 GCCCTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (17 bp):
TTTTTTTTCTTTTCTTT
Found at i:42141 original size:19 final size:19
Alignment explanation
Indices: 42108--42144 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
42098 TGCAGATGAT
42108 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
42127 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
42145 TCAGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:43348 original size:12 final size:12
Alignment explanation
Indices: 43318--43358 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
43308 TAAAATATAT
43318 ATAAAAAAGAAA
1 ATAAAAAAGAAA
43330 A-AGAAAAAGAAA
1 ATA-AAAAAGAAA
43342 ATAAAAAA-ACAA
1 ATAAAAAAGA-AA
43354 ATAAA
1 ATAAA
43359 CAAAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 23 0.88
13 1 0.04
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.07
Consensus pattern (12 bp):
ATAAAAAAGAAA
Found at i:43368 original size:24 final size:23
Alignment explanation
Indices: 43294--43369 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 23
43284 ATAGTAAGTA
43294 AAAAAAACAAATAATAAAATATATAT
1 AAAAAAACAAATAA-AAAA-ATA-AT
* *
43320 AAAAAAGAAAAAGAAAAAGAA-AAT
1 AAAAAA-ACAAATAAAAA-AATAAT
43344 AAAAAAACAAATAAACAAAATAAT
1 AAAAAAACAAATAAA-AAAATAAT
43368 AA
1 AA
43370 TAACAAAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
23 9 0.21
24 15 0.36
25 1 0.02
26 10 0.24
27 7 0.17
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (23 bp):
AAAAAAACAAATAAAAAAATAAT
Found at i:43393 original size:2 final size:2
Alignment explanation
Indices: 43386--43412 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43376 AGTACGAATA
43386 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
43413 AAATAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43882 original size:2 final size:2
Alignment explanation
Indices: 43875--43928 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
43865 AGAACATACG
43875 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43917 TA TA TA TA TA TA
1 TA TA TA TA TA TA
43929 ACAAAATAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43965 original size:12 final size:11
Alignment explanation
Indices: 43937--43977 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
43927 TAACAAAATA
* *
43937 AATAATATAAA
1 AATAATACAAG
43948 AATAATACAAG
1 AATAATACAAG
43959 TAATAATACAAG
1 -AATAATACAAG
43971 AATAATA
1 AATAATA
43978 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (11 bp):
AATAATACAAG
Found at i:44024 original size:27 final size:28
Alignment explanation
Indices: 43995--44046 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
43985 AGAGAAAGTA
43995 AAAAAATATA-ATA-ATAATA-AAATAT
1 AAAAAATATACATATATAATATAAATAT
44020 AAAAAATATACATATATAATATAAATA
1 AAAAAATATACATATATAATATAAATA
44047 AGTAGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 10 0.42
26 3 0.12
27 6 0.25
28 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAAAATATACATATATAATATAAATAT
Found at i:44083 original size:12 final size:12
Alignment explanation
Indices: 44061--44105 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
44051 GAATAAAAGG
44061 AAAATATAATAGT
1 AAAA-ATAATAGT
*
44074 AAAAATAATAAT
1 AAAAATAATAGT
*
44086 AAATATAATAGT
1 AAAAATAATAGT
*
44098 AATAATAA
1 AAAAATAA
44106 AAATGCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:44679 original size:37 final size:37
Alignment explanation
Indices: 44604--44704 Score: 121
Period size: 37 Copynumber: 2.7 Consensus size: 37
44594 GTACTTGCGG
* * * ** *
44604 ATCCTATCTTTAGGAGTTTAAATCATAGTATAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAACAAAACTCT
*
44641 ATCCTATTTTTAGGAGTTTGAATCCTAACAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAACAAAACTCT
* *
44678 ATCATATTTTTATGAGTTTGAATCCTA
1 ATCCTATTTTTAGGAGTTTGAATCCTA
44705 GTAGGACGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAACAAAACTCT
Found at i:54522 original size:20 final size:21
Alignment explanation
Indices: 54472--54525 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
54462 AAAAAAGGGA
*
54472 AGTATTGATACTCATATAGTG
1 AGTATTGATACTCAGATAGTG
* *
54493 AGTATGGATACTCAGATATTG
1 AGTATTGATACTCAGATAGTG
54514 -GTATTGATACTC
1 AGTATTGATACTC
54526 TCTAGAGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (21 bp):
AGTATTGATACTCAGATAGTG
Found at i:57130 original size:2 final size:2
Alignment explanation
Indices: 57123--57178 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
57113 CTTTAAATTA
57123 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57165 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
57179 GTGTGTGTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57183 original size:2 final size:2
Alignment explanation
Indices: 57178--57213 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
57168 TATATATATA
57178 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
57214 AGAGAGAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:59091 original size:15 final size:15
Alignment explanation
Indices: 59071--59100 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59061 GAAGACTAAC
59071 TTTATTTTAAGTTAA
1 TTTATTTTAAGTTAA
*
59086 TTTATTTTAATTTAA
1 TTTATTTTAAGTTAA
59101 CAAAGCAAAG
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:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TTTATTTTAAGTTAA
Found at i:61465 original size:59 final size:59
Alignment explanation
Indices: 61369--61645 Score: 387
Period size: 59 Copynumber: 4.7 Consensus size: 59
61359 TTTATAAACC
* * ** **
61369 ATTCATACACTTAGTATGAGTTGCTTAACATTTTAGCACACGAAGTGCCCTATACAGAA
1 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
* ** * *
61428 ATAT-ATACACTTAATATGAATTTTTTATCATTTTAGCACACGAAGTACCCTATATGGAA
1 AT-TCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
* *
61487 ATTCATACACTTAGTATAAATTCCTTGTCATTTTAGCACAC-ATAGTGCCCTATATGAAA
1 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGA-AGTGCCCTATATGGAA
*
61546 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTTCCCTATATGGAA
1 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
*
61605 ATTCATACACTTAGTATGAATTCCTTGTCGTTTTAGCACAC
1 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACAC
61646 TTAGTGCCAT
Statistics
Matches: 195, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
58 2 0.01
59 191 0.98
60 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (59 bp):
ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
Found at i:62123 original size:95 final size:94
Alignment explanation
Indices: 61982--62156 Score: 242
Period size: 95 Copynumber: 1.9 Consensus size: 94
61972 TTCAGTATCG
* * * * * *
61982 ATACCCTTACCATTGTATCGATACTACCCTACTATGGTATCAATACCCTCTTCCGGTATCGATAC
1 ATACCCTCACCATGGTATCAATACTACCATACTATAGTATCAATACCCCCTT-CGGTATCGATAC
62047 CAAAATTAGCTTCGATGTGGTTTACTATAC
65 CAAAATTAGCTTCGATGTGGTTTACTATAC
* ** *
62077 ATACCCTCACCATGGTATCAATACTACTATACTATAGTATTGATACCCCCTTTGGTATCGATACC
1 ATACCCTCACCATGGTATCAATACTACCATACTATAGTATCAATACCCCCTTCGGTATCGATACC
*
62142 AAAATTAGGTTCGAT
66 AAAATTAGCTTCGAT
62157 ATTACTTGGT
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 26 0.38
95 43 0.62
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (94 bp):
ATACCCTCACCATGGTATCAATACTACCATACTATAGTATCAATACCCCCTTCGGTATCGATACC
AAAATTAGCTTCGATGTGGTTTACTATAC
Found at i:62183 original size:94 final size:95
Alignment explanation
Indices: 61975--62198 Score: 245
Period size: 94 Copynumber: 2.4 Consensus size: 95
61965 CTGGCTCTTC
* * * * *
61975 AGTATCGATACCCTTACCATTGTATCGATACTACCCTACTATGGTATCAATACCCTCTTCCGGTA
1 AGTATCAATACCCTTACCATAGTATCGATACTACCATACTATAGTATCAATACCCCCTTCCGGTA
* **
62040 TCGATACCAAAATTAGCTTCGATGTGGTTT
66 TCGATACCAAAATTAGCTTCGATATGACTT
* * * * * ** *
62070 ACTAT-ACATACCCTCACCATGGTATCAATACTACTATACTATAGTATTGATACCCCCTT-TGGT
1 AGTATCA-ATACCCTTACCATAGTATCGATACTACCATACTATAGTATCAATACCCCCTTCCGGT
* *
62133 ATCGATACCAAAATTAGGTTCGATATTACTT
65 ATCGATACCAAAATTAGCTTCGATATGACTT
* *
62164 GGTATCAATACCCTTACCATAGTATTGATACTACC
1 AGTATCAATACCCTTACCATAGTATCGATACTACC
62199 TCATTGGTAC
Statistics
Matches: 103, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
94 55 0.53
95 48 0.47
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (95 bp):
AGTATCAATACCCTTACCATAGTATCGATACTACCATACTATAGTATCAATACCCCCTTCCGGTA
TCGATACCAAAATTAGCTTCGATATGACTT
Found at i:66393 original size:24 final size:24
Alignment explanation
Indices: 66360--66407 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
66350 ATGTAGAATG
* * *
66360 TACCTGTTATGATTTTTGGATCAT
1 TACCTATTATGATCTTCGGATCAT
66384 TACCTATTATGATCTTCGGATCAT
1 TACCTATTATGATCTTCGGATCAT
66408 CCCGATCATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.46
Consensus pattern (24 bp):
TACCTATTATGATCTTCGGATCAT
Found at i:68767 original size:59 final size:59
Alignment explanation
Indices: 68306--68756 Score: 654
Period size: 59 Copynumber: 7.6 Consensus size: 59
68296 TTTATCAACC
* * ** *
68306 ATTCATACACTTAGTATGAGTTGCTTAACATTTTAGCACACGAAGTGCCCTATA--AAA
1 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
* * * *
68363 ATATCCATACATTTAATATGAATTTCTTATCATTTTAGCACACGAAGTGCCCTATATGGAA
1 AT-T-CATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
* * * *
68424 ATTCATACACTTAGTGTGAATTCCTTGTCATTTTAGCACACGATGTACCCAATATGGAA
1 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
* * *
68483 ATTCATACATTTTGTATGAATTCCTTGTCATTTTAGCACATGAAGTGCCCTATATGGAA
1 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
* * *
68542 ATTCATACACTTAGCATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTAAATGAAA
1 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
*
68601 ATTCATACACTTAGTATGAATTCCTTGTAATTTTAGCACACGAAGTGCCCTATATGGAA
1 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
* *
68660 ATTCATACACTTGGTATGAATTCCTTGTCATTTTAGCACACAAAGTGCCCTATATGGAA
1 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
* *
68719 ATTCATACACTTAGTATAAATTCCTTGTCGTTTTAGCA
1 ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCA
68757 TACTTAGTGC
Statistics
Matches: 353, Mismatches: 37, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
57 2 0.01
58 1 0.00
59 345 0.98
60 1 0.00
61 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (59 bp):
ATTCATACACTTAGTATGAATTCCTTGTCATTTTAGCACACGAAGTGCCCTATATGGAA
Found at i:69135 original size:22 final size:20
Alignment explanation
Indices: 69089--69143 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
69079 CTAGCTCTTC
69089 AGTATCGATACCCCTACCAT
1 AGTATCGATACCCCTACCAT
* *
69109 GGTATCGATACTACCCTACTAT
1 AGTATCGATAC--CCCTACCAT
69131 AGTATCGATACCC
1 AGTATCGATACCC
69144 TCTTCCGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.40
22 18 0.60
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (20 bp):
AGTATCGATACCCCTACCAT
Found at i:69296 original size:93 final size:95
Alignment explanation
Indices: 69090--69311 Score: 270
Period size: 93 Copynumber: 2.4 Consensus size: 95
69080 TAGCTCTTCA
* *
69090 GTATCGATACCCCTACCATGGTATCGATACTACCCTACTATAGTATCGATACCCTCTTCCGATAT
1 GTATCGATACCCTTACCATGGTATCGATACTACCATACTATAGTATCGATACCCTCTTCCGATAT
* * ***
69155 CGATACCAAAATTAGCTTCGATGTGGTTTG
66 CAATACCAAAATTAGCTTCGATATGACCTG
* * * *
69185 GTATCGATACCCTCACCATGGTATCGATACTACTATACTATGGTA-CTGATACCC-C-TCCGGTA
1 GTATCGATACCCTTACCATGGTATCGATACTACCATACTATAGTATC-GATACCCTCTTCCGATA
* *
69247 TCAATACCAAAATTAGGTTCGATATTACCTG
65 TCAATACCAAAATTAGCTTCGATATGACCTG
** *
69278 GTATCGATACCCTTACCATATTATTGATACTACC
1 GTATCGATACCCTTACCATGGTATCGATACTACC
69312 TCATCGGTAC
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
93 59 0.55
94 2 0.02
95 47 0.44
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (95 bp):
GTATCGATACCCTTACCATGGTATCGATACTACCATACTATAGTATCGATACCCTCTTCCGATAT
CAATACCAAAATTAGCTTCGATATGACCTG
Found at i:71987 original size:3 final size:3
Alignment explanation
Indices: 71979--72020 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
71969 CTATACACCA
*
71979 TTC TTC TTC TTC TTA TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
72021 ATGCTCATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:72715 original size:31 final size:31
Alignment explanation
Indices: 72677--72832 Score: 269
Period size: 31 Copynumber: 5.0 Consensus size: 31
72667 CCCGAAGGAC
* * *
72677 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
72708 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
72739 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
72770 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
72801 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
72832 C
1 C
72833 CCTCGACCCT
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 120 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:73044 original size:19 final size:20
Alignment explanation
Indices: 73007--73044 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
72997 AATCACATGT
73007 TCATATAGTTTATTATCATA
1 TCATATAGTTTATTATCATA
*
73027 TCATATGGTTTA-TATCAT
1 TCATATAGTTTATTATCAT
73045 CATAACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (20 bp):
TCATATAGTTTATTATCATA
Found at i:73053 original size:22 final size:20
Alignment explanation
Indices: 73008--73054 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
72998 ATCACATGTT
*
73008 CATATAGTTTATTATCATAT
1 CATATAGTTTATTATCATAA
*
73028 CATATGGTTTATATCATCATAA
1 CATATAGTTTAT-T-ATCATAA
73050 CATAT
1 CATAT
73055 CACACATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 1 0.04
22 11 0.48
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (20 bp):
CATATAGTTTATTATCATAA
Found at i:73506 original size:21 final size:21
Alignment explanation
Indices: 73482--73526 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
73472 TTTTGTTCGT
* *
73482 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
73503 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
73524 TTG
1 TTG
73527 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:76893 original size:31 final size:31
Alignment explanation
Indices: 76855--77010 Score: 269
Period size: 31 Copynumber: 5.0 Consensus size: 31
76845 CCCGAAGGAC
* * *
76855 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
76886 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
76917 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
76948 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
76979 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
77010 C
1 C
77011 CCTCGACCCT
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 120 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:77222 original size:19 final size:20
Alignment explanation
Indices: 77185--77222 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
77175 AATCACATGT
77185 TCATATAGTTTATTATCATA
1 TCATATAGTTTATTATCATA
*
77205 TCATATGGTTTA-TATCAT
1 TCATATAGTTTATTATCAT
77223 CATAACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (20 bp):
TCATATAGTTTATTATCATA
Found at i:77231 original size:22 final size:20
Alignment explanation
Indices: 77186--77232 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
77176 ATCACATGTT
*
77186 CATATAGTTTATTATCATAT
1 CATATAGTTTATTATCATAA
*
77206 CATATGGTTTATATCATCATAA
1 CATATAGTTTAT-T-ATCATAA
77228 CATAT
1 CATAT
77233 CACACATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 1 0.04
22 11 0.48
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (20 bp):
CATATAGTTTATTATCATAA
Found at i:77684 original size:21 final size:21
Alignment explanation
Indices: 77660--77704 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
77650 TTTTGTTCGT
* *
77660 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
77681 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
77702 TTG
1 TTG
77705 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:78917 original size:20 final size:19
Alignment explanation
Indices: 78894--78938 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
78884 TTAAACTTAA
78894 AGGGGATGAACTAAAATTCC
1 AGGGGA-GAACTAAAATTCC
*
78914 AGGGAGAGAACTAAAATTCT
1 AGGG-GAGAACTAAAATTCC
78934 AGGGG
1 AGGGG
78939 GGTGAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.87
21 2 0.09
ACGTcount: A:0.40, C:0.11, G:0.31, T:0.18
Consensus pattern (19 bp):
AGGGGAGAACTAAAATTCC
Found at i:79635 original size:40 final size:39
Alignment explanation
Indices: 79591--79671 Score: 117
Period size: 40 Copynumber: 2.1 Consensus size: 39
79581 ATAACTTGAA
* *
79591 TTCTTAATTATTGAAATAGGTTTAATTATCAATTTCATTT
1 TTCTTAATTATTGAAACAGGTTTAACTATCAATTT-ATTT
* *
79631 TTCTTGATTATTGAAACAGGTTTAACTATGAATTTATTT
1 TTCTTAATTATTGAAACAGGTTTAACTATCAATTTATTT
79670 TT
1 TT
79672 GTAAAAAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 6 0.16
40 31 0.84
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (39 bp):
TTCTTAATTATTGAAACAGGTTTAACTATCAATTTATTT
Found at i:84642 original size:21 final size:20
Alignment explanation
Indices: 84597--84645 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
84587 ATCAAAATTG
*
84597 ATAGTTTAGATACTAAATGT
1 ATAGTTTAGATACTAAATGC
* *
84617 GTAGTTTAGGTACTAAAATGC
1 ATAGTTTAGATACT-AAATGC
84638 ATAGTTTA
1 ATAGTTTA
84646 CCCTATTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (20 bp):
ATAGTTTAGATACTAAATGC
Found at i:85969 original size:25 final size:25
Alignment explanation
Indices: 85913--85969 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
85903 ATTACAGACT
*
85913 AAATAAATTTAGTAGTAACAATCGT
1 AAATAAATTTAGTAGTAACAATCGA
*
85938 AACTAAATTTAGTAGTAACAATCGA
1 AAATAAATTTAGTAGTAACAATCGA
85963 AAATAAA
1 AAATAAA
85970 ATATAACAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.28
Consensus pattern (25 bp):
AAATAAATTTAGTAGTAACAATCGA
Found at i:87072 original size:23 final size:23
Alignment explanation
Indices: 87046--87092 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
87036 AAAGATGCGT
*
87046 CCCATGCACTACACCTTGTGAAA
1 CCCATGCACCACACCTTGTGAAA
*
87069 CCCATGCACCGCACCTTGTGAAA
1 CCCATGCACCACACCTTGTGAAA
87092 C
1 C
87093 ATGTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.38, G:0.15, T:0.19
Consensus pattern (23 bp):
CCCATGCACCACACCTTGTGAAA
Found at i:87396 original size:21 final size:20
Alignment explanation
Indices: 87344--87395 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
87334 TTATTTTTTT
87344 AATTAATAAAATACAATAAA
1 AATTAATAAAATACAATAAA
** *
87364 AAAGAATTAAAATTCAATAAA
1 AATTAA-TAAAATACAATAAA
*
87385 ATTTAATAAAA
1 AATTAATAAAA
87396 AAAAGAATGT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
AATTAATAAAATACAATAAA
Found at i:87598 original size:8 final size:8
Alignment explanation
Indices: 87585--87616 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
87575 ATTAAAAGTT
87585 TATTTTTA
1 TATTTTTA
87593 TATTTTTA
1 TATTTTTA
87601 TATTTTTA
1 TATTTTTA
87609 TATTTTTA
1 TATTTTTA
87617 AACAATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTTTTA
Found at i:87890 original size:350 final size:341
Alignment explanation
Indices: 87489--88474 Score: 1524
Period size: 341 Copynumber: 2.9 Consensus size: 341
87479 TATTAACTTC
* * * * *
87489 TAATTTTATTAAAAACGAGTAAACATTATTAATTGTTATTAAAAAAATAATTAATGAATAATAAT
1 TAATTTTATTAAAAATGAATAAACATTATTAACTGTTGTTAAAATAATAATTAATGAATAATAAT
* * **
87554 TTATTTGATCCTTCAATTAAAATTAAAAGTTTATTTTTATATTTTTATATTTTTATATTTTTAAA
66 TCATTTGATCCCTCAATTGTAATTAAAAGTTTA-TTTTA-A----TAT-TTTTTATATTTTTAAA
87619 CAATTAATTTTAAAAGTCAATAAATATTTCAAAAATATATAAAATTTATAATTTTTTAAATTATA
124 CAATTAATTTTAAAAGTCAATAAATATTTCAAAAATATATAAAATTTATAATTTTTTAAATTATA
87684 AAATATTTATTATTATCATCATCATCATCATCATTTTGTAAAAGAAATAATGGTTATAAAACTTT
189 AAATATTTATTATTATCATCATCATCATCAT--TTTTGTAAAAGAAATAATGGTTATAAAACTTT
* *
87749 TATAAAATTATTCATATTTTAAATTACTTACCCTCAAAGTTTTACTATACTAGATTATACGTATT
252 TATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTAGATTATACGTATT
87814 GTGTAATTTCATGCAAAAATCAAAA
317 GTGTAATTTCATGCAAAAATCAAAA
*
87839 TAATTTTATTAAAAATGAATAAACATTATTAACAGTTGTTAAAATAATAATTAATGAATAATAAT
1 TAATTTTATTAAAAATGAATAAACATTATTAACTGTTGTTAAAATAATAATTAATGAATAATAAT
87904 TCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTTATATTTTTAAACAATTAA
66 TCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTTATATTTTTAAACAATTAA
* *
87969 TTTTAAAAGTCAATAAATTTTTCAAAAATATATGAAATTTATAATTTTTTAAATTATAAAATATT
131 TTTTAAAAGTCAATAAATATTTCAAAAATATATAAAATTTATAATTTTTTAAATTATAAAATATT
* * *
88034 TATTATTATTATTATCATCATCATTTTTGTAAAAGAAATAATGTTTATAAAACTTTTATAAAATT
196 TATTATTATCATCATCATCATCATTTTTGTAAAAGAAATAATGGTTATAAAACTTTTATAAAATT
* * * *
88099 ATTCATATTTTAAAATATTTATCCTCAAAGTTTTCCTATATTAGATTATATGTATTGTGTAATTT
261 ATTCATATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTAGATTATACGTATTGTGTAATTT
*
88164 CATGCAAAAATTAAAA
326 CATGCAAAAATCAAAA
*
88180 TAATTTTATTAAAAATGAATAAACATTATAAACTGTTGTTAAAAATAATAATTAATGAATAAT-A
1 TAATTTTATTAAAAATGAATAAACATTATTAACTGTTGTT-AAAATAATAATTAATGAATAATAA
*
88244 TTCATTTGATCCCTCAATTGTAATTATAAG-TTATTTTAATATTTTTTATATTTTTAAACAATTA
65 TTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTTATATTTTTAAACAATTA
* *
88308 ATTTTAAAAGTCAATAAATGTTTCAAAAATATA-AGAAAATTATAATTTTTTAAATTAT-AAATA
130 ATTTTAAAAGTCAATAAATATTTCAAAAATATATA-AAATTTATAATTTTTTAAATTATAAAATA
* * *
88371 --T-TTATTATCATCATCATCAT--TTTTTTTAAAAGAAATACTAGTTATAAAACTTTTATAAAA
194 TTTATTATTATCATCATCATCATCATTTTTGTAAAAGAAATAATGGTTATAAAACTTTTATAAAA
* *
88431 TTATTCATATTTTAAAACAC-TACTCTCAAAGTTTTCCTATACTA
259 TTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTA
88475 AATGAAAGAG
Statistics
Matches: 595, Mismatches: 39, Indels: 21
0.91 0.06 0.03
Matches are distributed among these distances:
333 21 0.04
334 54 0.09
336 17 0.03
337 1 0.00
339 5 0.01
340 88 0.15
341 182 0.31
342 22 0.04
343 108 0.18
344 3 0.01
348 1 0.00
349 5 0.01
350 88 0.15
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (341 bp):
TAATTTTATTAAAAATGAATAAACATTATTAACTGTTGTTAAAATAATAATTAATGAATAATAAT
TCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAATATTTTTTATATTTTTAAACAATTAA
TTTTAAAAGTCAATAAATATTTCAAAAATATATAAAATTTATAATTTTTTAAATTATAAAATATT
TATTATTATCATCATCATCATCATTTTTGTAAAAGAAATAATGGTTATAAAACTTTTATAAAATT
ATTCATATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTAGATTATACGTATTGTGTAATTT
CATGCAAAAATCAAAA
Found at i:88944 original size:17 final size:16
Alignment explanation
Indices: 88911--88950 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
88901 TTTTTTATTA
*
88911 TTTTATTAATTAATTT
1 TTTTATTAATAAATTT
88927 TTTTATTCAATAAA-TT
1 TTTTATT-AATAAATTT
88943 TTTTATTA
1 TTTTATTA
88951 TTTTTGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.73
17 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTATTAATAAATTT
Found at i:89248 original size:16 final size:15
Alignment explanation
Indices: 89217--89270 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
89207 AACTGCAAAT
89217 AATAAATATAAATTA
1 AATAAATATAAATTA
*
89232 AATAAATTTACAATTA
1 AATAAATATA-AATTA
* *
89248 AAT-AATAAAAAATA
1 AATAAATATAAATTA
*
89262 AAAAAATAT
1 AATAAATAT
89271 TGAATATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 6 0.19
15 17 0.55
16 8 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
AATAAATATAAATTA
Found at i:89290 original size:42 final size:41
Alignment explanation
Indices: 89243--89347 Score: 128
Period size: 41 Copynumber: 2.6 Consensus size: 41
89233 ATAAATTTAC
*
89243 AATTAAATAATAAAAAATAAAAAAAT-ATTGAATATAAAAAA-T
1 AATTAAATAA-AAATAATAAAAAAATAATT-AA-ATAAAAAATT
* *
89285 AATTAAACAAAAATAATAAAAAATTAATTAAATAAAAAATT
1 AATTAAATAAAAATAATAAAAAAATAATTAAATAAAAAATT
89326 AATT-AAT-AAAATAATAAAAAAA
1 AATTAAATAAAAATAATAAAAAAA
89348 ATGGGGAAGG
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
39 14 0.25
40 10 0.18
41 20 0.36
42 12 0.21
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.26
Consensus pattern (41 bp):
AATTAAATAAAAATAATAAAAAAATAATTAAATAAAAAATT
Found at i:89296 original size:14 final size:13
Alignment explanation
Indices: 89278--89349 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 13
89268 TATTGAATAT
89278 AAAAAATAATTAA
1 AAAAAATAATTAA
89291 ACAAAAATAA-T-A
1 A-AAAAATAATTAA
*
89303 AAAAATTAATTAAA
1 AAAAAATAATT-AA
89317 TAAAAAATTAATT-A
1 -AAAAAA-TAATTAA
*
89331 ATAAAATAA-TAA
1 AAAAAATAATTAA
89343 AAAAAAT
1 AAAAAAT
89350 GGGGAAGGCA
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
11 8 0.17
12 13 0.27
13 7 0.15
14 10 0.21
15 5 0.10
16 5 0.10
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAAAATAATTAA
Found at i:89303 original size:24 final size:23
Alignment explanation
Indices: 89247--89349 Score: 79
Period size: 24 Copynumber: 4.2 Consensus size: 23
89237 ATTTACAATT
89247 AAATAATAAAAAATAA--AAAAA
1 AAATAATAAAAAATAATTAAAAA
89268 TATTGAAT-ATAAAAAATAATTAAACAA
1 -A---AATAATAAAAAATAATTAAA-AA
89295 AAATAATAAAAAATTAATTAAATAAA
1 AAATAATAAAAAA-TAATT-AA-AAA
89321 AAATTAATTAATAAAATAA-TAAAAA
1 AAA-TAA-TAA-AAAATAATTAAAAA
89346 AAAT
1 AAAT
89350 GGGGAAGGCA
Statistics
Matches: 68, Mismatches: 0, Indels: 24
0.74 0.00 0.26
Matches are distributed among these distances:
22 1 0.01
23 3 0.04
24 20 0.29
25 14 0.21
26 13 0.19
27 7 0.10
28 6 0.09
29 4 0.06
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.25
Consensus pattern (23 bp):
AAATAATAAAAAATAATTAAAAA
Found at i:89320 original size:16 final size:15
Alignment explanation
Indices: 89298--89336 Score: 69
Period size: 16 Copynumber: 2.5 Consensus size: 15
89288 TAAACAAAAA
89298 TAATAAAAAATTAAT
1 TAATAAAAAATTAAT
89313 TAAATAAAAAATTAAT
1 T-AATAAAAAATTAAT
89329 TAATAAAA
1 TAATAAAA
89337 TAATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAATAAAAAATTAAT
Found at i:89331 original size:20 final size:21
Alignment explanation
Indices: 89294--89344 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
89284 TAATTAAACA
89294 AAAATAATAAAA--AATTAAT
1 AAAATAATAAAATTAATTAAT
*
89313 TAAATAA-AAAATTAATTAAT
1 AAAATAATAAAATTAATTAAT
89333 AAAATAATAAAA
1 AAAATAATAAAA
89345 AAAATGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.15
19 6 0.22
20 13 0.48
21 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATAATAAAATTAATTAAT
Found at i:91815 original size:16 final size:16
Alignment explanation
Indices: 91794--91824 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91784 AAAATATTAT
*
91794 TTATTTTATTTTAAAC
1 TTATTTTATATTAAAC
91810 TTATTTTATATTAAA
1 TTATTTTATATTAAA
91825 AAAGAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTTTATATTAAAC
Found at i:97568 original size:22 final size:23
Alignment explanation
Indices: 97542--97584 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
97532 TAATTCCTTT
* *
97542 ATCTTTTG-TTTATCTTGTTTTA
1 ATCTTGTGTTTTACCTTGTTTTA
97564 ATCTTGTGTTTTACCTTGTTT
1 ATCTTGTGTTTTACCTTGTTT
97585 CTAGCACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (23 bp):
ATCTTGTGTTTTACCTTGTTTTA
Found at i:106518 original size:20 final size:19
Alignment explanation
Indices: 106490--106555 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 19
106480 GAGGTTGTAA
*
106490 AACAATATCGGTACTAGATG
1 AACAATATCGATACT-GATG
*
106510 AACAGTATCGATACTGACTAAG
1 AACAATATCGATACTGA-T--G
106532 AACAATATCGATACTGGATG
1 AACAATATCGATACT-GATG
106552 AACA
1 AACA
106556 GTACCATACT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.05
20 19 0.49
22 16 0.41
23 2 0.05
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (19 bp):
AACAATATCGATACTGATG
Done.