Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008737.1 Hibiscus syriacus cultivar Beakdansim tig00111812_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: 2791265
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 14
Found at i:2400075 original size:19 final size:20
Alignment explanation
Indices: 2400026--2400075 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2400016 TTATGCCAGT
*
2400026 AGTATCGATACTGACCCTTG
1 AGTATCGATACTCACCCTTG
* *
2400046 GGTATCAATACTCACCC-TG
1 AGTATCGATACTCACCCTTG
2400065 AGTATCGATAC
1 AGTATCGATAC
2400076 CAAAAATAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTCACCCTTG
Found at i:2403050 original size:138 final size:136
Alignment explanation
Indices: 2402806--2403067 Score: 418
Period size: 138 Copynumber: 1.9 Consensus size: 136
2402796 ATAATTTGTA
* *
2402806 TATAAAAGTTATCGATCGATTTTGTTTAATATAATAGTGCATTTTCGTATCAGTACTATGTGTAC
1 TATAAAAGTTATCGATCGATTTTGTTTAATATAATAGTGCATTTCCGTATCAGTACTATATGTAC
*
2402871 TTTCGACACTAAATGTGCAATCATGGTATTCATAATGAGTTTGTAAATTACCATTTCGATATATA
66 TTTCGACACTAAATGTGCAATCATGGAATTCATAATGAGTTTGTAAATTACCATTTCGATATATA
2402936 ATTATG
131 ATTATG
*
2402942 TATAAAAGTTATCGATCGATTTTGTTTAATGCATAATGGTGCATTTCCGTATCAGTACTATATGT
1 TATAAAAGTTATCGATCGATTTTGTTTAAT--ATAATAGTGCATTTCCGTATCAGTACTATATGT
** * *
2403007 ACTTTCGACACTATGTGTGC-ATCCATGGAATTCATAATGAGTTTGTGAATTTCCATTTCGA
64 ACTTTCGACACTAAATGTGCAAT-CATGGAATTCATAATGAGTTTGTAAATTACCATTTCGA
2403068 CACTTCTGTG
Statistics
Matches: 115, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
136 30 0.26
137 2 0.02
138 83 0.72
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (136 bp):
TATAAAAGTTATCGATCGATTTTGTTTAATATAATAGTGCATTTCCGTATCAGTACTATATGTAC
TTTCGACACTAAATGTGCAATCATGGAATTCATAATGAGTTTGTAAATTACCATTTCGATATATA
ATTATG
Found at i:2409304 original size:17 final size:18
Alignment explanation
Indices: 2409282--2409321 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
2409272 GGTACCATAG
2409282 TATAGAA-GTATCGATAC
1 TATAGAAGGTATCGATAC
2409299 TATAGAAGGGGTATCGATAC
1 TATAGAA--GGTATCGATAC
2409319 TAT
1 TAT
2409322 TAAGACTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
20 13 0.65
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (18 bp):
TATAGAAGGTATCGATAC
Found at i:2410074 original size:138 final size:138
Alignment explanation
Indices: 2409814--2410067 Score: 447
Period size: 138 Copynumber: 1.8 Consensus size: 138
2409804 ATAATTTGTA
2409814 TATAAAAGTTATTGATTGATTTTGTTTAATGCATAATGGTGCATTTTCGTATCAGTACTATATGT
1 TATAAAAGTTATTGATTGATTTTGTTTAATGCATAATGGTGCATTTTCGTATCAGTACTATATGT
* *
2409879 ACTTTCGACACTAAATGTGAAATCATGGTATTCATAATGCGTTTGTGAATTACCATTTTGATATA
66 ACTTTCGACACTAAATGTGAAATCATGGAATTCATAATGAGTTTGTGAATTACCATTTTGATATA
2409944 CAATTATG
131 CAATTATG
2409952 TATAAAAGTTATTGATTGATTTTGTTTAATGCATAATGGTGCATTTTCGTATCAGTACTATATGT
1 TATAAAAGTTATTGATTGATTTTGTTTAATGCATAATGGTGCATTTTCGTATCAGTACTATATGT
** *
2410017 ACTTTCGACACTATGTGTG-CATCCATGGAATTCATAATGAGTTTGTGAATT
66 ACTTTCGACACTAAATGTGAAAT-CATGGAATTCATAATGAGTTTGTGAATT
2410068 TTCATTTCGG
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
137 2 0.02
138 108 0.98
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (138 bp):
TATAAAAGTTATTGATTGATTTTGTTTAATGCATAATGGTGCATTTTCGTATCAGTACTATATGT
ACTTTCGACACTAAATGTGAAATCATGGAATTCATAATGAGTTTGTGAATTACCATTTTGATATA
CAATTATG
Found at i:2416479 original size:28 final size:30
Alignment explanation
Indices: 2416438--2416500 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
2416428 AAAGAATAAA
2416438 ATAAAATAACTAAAGTCTAGGGACCTAAGT
1 ATAAAATAACTAAAGTCTAGGGACCTAAGT
* *
2416468 GTAAAAT-A-TAAAGTCTAGGGACTTAAGT
1 ATAAAATAACTAAAGTCTAGGGACCTAAGT
2416496 ATAAA
1 ATAAA
2416501 GAATCTAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 23 0.77
29 1 0.03
30 6 0.20
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (30 bp):
ATAAAATAACTAAAGTCTAGGGACCTAAGT
Found at i:2418400 original size:26 final size:24
Alignment explanation
Indices: 2418366--2418445 Score: 85
Period size: 26 Copynumber: 3.3 Consensus size: 24
2418356 TATCCATTTG
2418366 TTATTTATTTTTATTATATTATTA
1 TTATTTATTTTTATTATATTATTA
*
2418390 TTAATATTA-TTTTATTTATACTATTA
1 TT-AT-TTATTTTTA-TTATATTATTA
*
2418416 TT-TTTATTTTTA-TATTATTAATA
1 TTATTTATTTTTATTA-TATTATTA
2418439 TTATTTA
1 TTATTTA
2418446 CATTACAAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
22 2 0.04
23 11 0.23
24 12 0.26
25 7 0.15
26 15 0.32
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (24 bp):
TTATTTATTTTTATTATATTATTA
Found at i:2418405 original size:20 final size:20
Alignment explanation
Indices: 2418376--2418444 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
2418366 TTATTTATTT
*
2418376 TTATTATATTATTATTAATA
1 TTATTTTATTATTATTAATA
* *
2418396 TTATTTTATTTATACTATTATTT
1 TTATTTTA-TTAT--TATTAATA
2418419 TTATTTT-TATATTATTAATA
1 TTATTTTAT-TATTATTAATA
2418439 TTATTT
1 TTATTT
2418445 ACATTACAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
20 19 0.47
21 5 0.12
22 3 0.08
23 13 0.32
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTATTATTATTAATA
Found at i:2418440 original size:17 final size:16
Alignment explanation
Indices: 2418369--2418434 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 16
2418359 CCATTTGTTA
2418369 TTTA-TTTT-TATTAT
1 TTTATTTTTATATTAT
* *
2418383 ATTATTATTAATATTAT
1 TTTATT-TTTATATTAT
*
2418400 TTTATTTATACTATTATT
1 TTTATTTTTA-TATTA-T
2418418 TTTATTTTTATATTAT
1 TTTATTTTTATATTAT
2418434 T
1 T
2418435 AATATTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
14 3 0.07
15 1 0.02
16 6 0.15
17 21 0.51
18 10 0.24
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATTTTTATATTAT
Found at i:2418450 original size:9 final size:9
Alignment explanation
Indices: 2418366--2418450 Score: 63
Period size: 9 Copynumber: 9.9 Consensus size: 9
2418356 TATCCATTTG
2418366 TTAT-TTAT
1 TTATATTAT
*
2418374 TTTTATTAT
1 TTATATTAT
*
2418383 AT-TATTAT
1 TTATATTAT
*
2418391 TAATATTAT
1 TTATATTAT
2418400 TT-TATT-T
1 TTATATTAT
*
2418407 ATACTATTAT
1 TTA-TATTAT
*
2418417 TTTTATT-T
1 TTATATTAT
2418425 TTATATTAT
1 TTATATTAT
*
2418434 TAATATTAT
1 TTATATTAT
*
2418443 TTACATTA
1 TTATATTA
2418451 CAAGCCCAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
7 2 0.03
8 20 0.34
9 35 0.59
10 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
TTATATTAT
Found at i:2419820 original size:22 final size:22
Alignment explanation
Indices: 2419790--2419831 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
2419780 ATTATTTATT
2419790 TATATTTAATT-TTATATGTTTA
1 TATATTTAATTATTAT-TGTTTA
2419812 TATATTTAATTATTATTGTT
1 TATATTTAATTATTATTGTT
2419832 ATTATTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TATATTTAATTATTATTGTTTA
Found at i:2423804 original size:12 final size:12
Alignment explanation
Indices: 2423787--2423811 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2423777 CTGATTTCTA
2423787 TGAAGAAAGAAG
1 TGAAGAAAGAAG
2423799 TGAAGAAAGAAG
1 TGAAGAAAGAAG
2423811 T
1 T
2423812 AGTATGGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.32, T:0.12
Consensus pattern (12 bp):
TGAAGAAAGAAG
Found at i:2428398 original size:21 final size:21
Alignment explanation
Indices: 2428374--2428420 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
2428364 TCCTACAGGC
*
2428374 AGCCAAATACCTAGAATGGGT
1 AGCCAAATACCCAGAATGGGT
2428395 AGCC-AATACCCAGAATGGGT
1 AGCCAAATACCCAGAATGGGT
2428415 AGCCAA
1 AGCCAA
2428421 CATAGTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (21 bp):
AGCCAAATACCCAGAATGGGT
Found at i:2431662 original size:23 final size:22
Alignment explanation
Indices: 2431632--2431679 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 22
2431622 CAAGTTTATC
2431632 TTTTTGAAATTCAATTTATTCAT
1 TTTTTGAAATTCAATTTATTC-T
2431655 TTTTTGAAATTCAATTTATTCT
1 TTTTTGAAATTCAATTTATTCT
2431677 TTT
1 TTT
2431680 ATATAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTGAAATTCAATTTATTCT
Found at i:2431883 original size:20 final size:20
Alignment explanation
Indices: 2431858--2431901 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2431848 AATGTTTTAC
*
2431858 GAACCAGTAATTATGGTGCT
1 GAACCAATAATTATGGTGCT
*
2431878 GAACCAATAATTATGGTGTT
1 GAACCAATAATTATGGTGCT
2431898 GAAC
1 GAAC
2431902 TAATGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (20 bp):
GAACCAATAATTATGGTGCT
Found at i:2432245 original size:22 final size:22
Alignment explanation
Indices: 2432219--2432289 Score: 117
Period size: 22 Copynumber: 3.2 Consensus size: 22
2432209 TACATTCTTT
2432219 AAAGATGATAGATTCTCTTTTC
1 AAAGATGATAGATTCTCTTTTC
2432241 AAAGATGATAGATTCT-TTCTTC
1 AAAGATGATAGATTCTCTT-TTC
*
2432263 AAAGATGATACATTCTCTTTTC
1 AAAGATGATAGATTCTCTTTTC
2432285 AAAGA
1 AAAGA
2432290 AGAAATATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
21 2 0.04
22 42 0.91
23 2 0.04
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (22 bp):
AAAGATGATAGATTCTCTTTTC
Found at i:2432970 original size:111 final size:111
Alignment explanation
Indices: 2432645--2433204 Score: 647
Period size: 111 Copynumber: 4.9 Consensus size: 111
2432635 GCAAAGATTT
* ** *
2432645 GAATCCATCACTCAATGGATCAACATTTCTGGAGAAGTTCATAATGAGAAGAACTTATATGAAGA
1 GAATTCATCACTCAATGGATCAACATTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGA
2432710 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCACTC
66 AGGAAGAAG-AGTTCATAATGAGAAGAACTTGTTCAACCTTTCACTC
* *
2432757 GAATTCATCACTCGATGGATC-ACATTTCCAGAGAAGTTTAT-ATGAGAAGAACTTATCTGAAGA
1 GAATTCATCACTCAATGGATCAACATTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGA
*
2432820 AGGAAGAAGAATTCATAATGAGAAGAACTTGTTCAACCTTTCACTC
66 AGGAAGAAGAGTTCATAATGAGAAGAACTTGTTCAACCTTTCACTC
2432866 GAATTCATCACTCAATGGATCAACATTTCCAGAGAAGTTCATAATGAGAAGAACTTATCT-AAGA
1 GAATTCATCACTCAATGGATCAACATTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAG-
* *
2432930 AAGGAAGAAGAGTTCATAATGAGAAGAACTTGTTGAACCTTTCGCTC
65 AAGGAAGAAGAGTTCATAATGAGAAGAACTTGTTCAACCTTTCACTC
* * * ** *
2432977 GAATTCATCACTCGATGGATCAGCATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCTAAA
1 GAATTCATCACTCAATGGATCAACATTTCCAGAG-A-AGTTCATAATGAGAAGAACTTATCTGAA
* * *
2433041 G-AGGAAGGAAAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGTA-T-
64 GAAGGAA-GAAGAGTTCATAATGAGAAGAACTTGTTCAACC-TTT-CACTC
* * *
2433089 G-ACTCTATCACAGAAGT-AGATAGATCAGCATCAACAGTTCCAGA-AGTGTTCATAATGAGAAG
1 GAATTC-ATCAC-----TCA-AT-G----G-ATCAACATTTCCAGAGA-AGTTCATAATGAGAAG
*
2433151 AACTCATCTGAAGAAGG-AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
52 AACTTATCTGAAGAAGGAAGAAG-AGTTCATAATGAGAAGAACTTGTTCAACCTT
2433205 GCCTTAATTC
Statistics
Matches: 391, Mismatches: 32, Indels: 41
0.84 0.07 0.09
Matches are distributed among these distances:
109 56 0.14
110 53 0.14
111 116 0.30
112 78 0.20
113 7 0.02
117 3 0.01
118 1 0.00
121 5 0.01
122 58 0.15
123 14 0.04
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (111 bp):
GAATTCATCACTCAATGGATCAACATTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGA
AGGAAGAAGAGTTCATAATGAGAAGAACTTGTTCAACCTTTCACTC
Found at i:2433573 original size:3 final size:3
Alignment explanation
Indices: 2433549--2433670 Score: 126
Period size: 3 Copynumber: 41.7 Consensus size: 3
2433539 CATTTGTTTT
* * *
2433549 TTA TTT TTA TTT TTA TTA -TA TTA TTA TTA ATA TTA TT- TTA TT- TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * * * *
2433595 CTA TTA TTT TTA TTT TTA TTT TTA TTT TTA -TA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2433642 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2433671 TACATTAGAG
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
2 7 0.07
3 89 0.93
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:2434147 original size:161 final size:161
Alignment explanation
Indices: 2433882--2434203 Score: 644
Period size: 161 Copynumber: 2.0 Consensus size: 161
2433872 CCTAGGGACT
2433882 ACACCAGTCGACGCCACTCCACGTCCCAGCCAACTGTTGCCAAGCCCCGCCGTTTCAACAAGAGA
1 ACACCAGTCGACGCCACTCCACGTCCCAGCCAACTGTTGCCAAGCCCCGCCGTTTCAACAAGAGA
2433947 TTCCAGAAGAGTTAAGGAAGATCGTCCACGTTGTGACCTTAGGGTGAGTCACCACTGTGGGTTTA
66 TTCCAGAAGAGTTAAGGAAGATCGTCCACGTTGTGACCTTAGGGTGAGTCACCACTGTGGGTTTA
2434012 ATGACTCACCGAGGGGTGTTATTTTACCCGG
131 ATGACTCACCGAGGGGTGTTATTTTACCCGG
2434043 ACACCAGTCGACGCCACTCCACGTCCCAGCCAACTGTTGCCAAGCCCCGCCGTTTCAACAAGAGA
1 ACACCAGTCGACGCCACTCCACGTCCCAGCCAACTGTTGCCAAGCCCCGCCGTTTCAACAAGAGA
2434108 TTCCAGAAGAGTTAAGGAAGATCGTCCACGTTGTGACCTTAGGGTGAGTCACCACTGTGGGTTTA
66 TTCCAGAAGAGTTAAGGAAGATCGTCCACGTTGTGACCTTAGGGTGAGTCACCACTGTGGGTTTA
2434173 ATGACTCACCGAGGGGTGTTATTTTACCCGG
131 ATGACTCACCGAGGGGTGTTATTTTACCCGG
2434204 TCCAAGGTAA
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 161 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (161 bp):
ACACCAGTCGACGCCACTCCACGTCCCAGCCAACTGTTGCCAAGCCCCGCCGTTTCAACAAGAGA
TTCCAGAAGAGTTAAGGAAGATCGTCCACGTTGTGACCTTAGGGTGAGTCACCACTGTGGGTTTA
ATGACTCACCGAGGGGTGTTATTTTACCCGG
Found at i:2435214 original size:21 final size:22
Alignment explanation
Indices: 2435168--2435212 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2435158 TCATTGTTTA
2435168 TTTATAT-TTTAATTTTATATG
1 TTTATATATTTAATTTTATATG
2435189 TTTATATATTTAATTATTAT-TG
1 TTTATATATTTAATT-TTATATG
2435211 TT
1 TT
2435213 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATATATTTAATTTTATATG
Found at i:2435427 original size:141 final size:142
Alignment explanation
Indices: 2435273--2435564 Score: 359
Period size: 141 Copynumber: 2.1 Consensus size: 142
2435263 TTTTATATAT
* *
2435273 TAAATAAAAATCCTATTTAT-AAAT-T-TAAT-TTTA-TATAATTACTTTTAAGAAAAATAATCA
1 TAAATAAATATCCTATTTATAAAATATATAATATTTATTATAATTA-TTGT-AGAAAAAT-AT--
2435333 TATT-TTAATATTTATTTATTTTTTTAATA-TAAGAAATGGACTGTCTTAAAGCACCTAGAAGT-
61 T-TTATTAATATTTATTTA-TTTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTC
* *
2435395 TTTTTCTGATA-TTCTTAAA
124 ATTTTCTAATATTTC-TAAA
* * * *
2435414 TAAATAAATATCCTATTTTTAAAATATATATTATTTATTTTAATTATTGTAGAGAAATATTTTAT
1 TAAATAAATATCCTATTTATAAAATATATAATATTTATTATAATTATTGTAGAAAAATATTTTAT
*
2435479 TAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGTCATTTTCT
66 TAATATTTATTTATTTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCATTTTCT
*
2435544 AATATTTCTAAG
131 AATATTTCTAAA
2435556 TAAATAAAT
1 TAAATAAAT
2435565 TATTTATAAA
Statistics
Matches: 132, Mismatches: 10, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
140 12 0.09
141 65 0.49
142 25 0.19
143 6 0.05
144 10 0.08
145 7 0.05
146 7 0.05
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (142 bp):
TAAATAAATATCCTATTTATAAAATATATAATATTTATTATAATTATTGTAGAAAAATATTTTAT
TAATATTTATTTATTTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCATTTTCT
AATATTTCTAAA
Found at i:2435590 original size:2 final size:2
Alignment explanation
Indices: 2435583--2435628 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
2435573 AAAATAAATA
2435583 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2435623 AT AT AT
1 AT AT AT
2435629 TTTCTTAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2436241 original size:79 final size:81
Alignment explanation
Indices: 2436061--2436242 Score: 246
Period size: 79 Copynumber: 2.3 Consensus size: 81
2436051 TTATCGGATG
* * *
2436061 AGTTCTTCTCATTACGAAC--CTTTCACTGGAAATGTTGATCCACCTCCTTCTGTGATGGAATCG
1 AGTTCTTCTCATTACGAACTTCTTTCACTGGAAATATTGATCCACCTCCTTCTGTGATAGAATCA
* *
2436124 AGTGAAATGTTGAACA
66 AGTCAAAGGTTGAACA
* * * *
2436140 AGTTCATCTCATTAGGAACTTCTTT-ATTGGAAATATTGATCCACCTCCTTCTGTGATAGAGTCA
1 AGTTCTTCTCATTACGAACTTCTTTCACTGGAAATATTGATCCACCTCCTTCTGTGATAGAATCA
2436204 AG-CAAAGGTTGAACA
66 AGTCAAAGGTTGAACA
*
2436219 AGTTCTTCTCATTATGAACTTCTT
1 AGTTCTTCTCATTACGAACTTCTT
2436243 CTCCCTCATT
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 50 0.56
80 36 0.40
81 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (81 bp):
AGTTCTTCTCATTACGAACTTCTTTCACTGGAAATATTGATCCACCTCCTTCTGTGATAGAATCA
AGTCAAAGGTTGAACA
Found at i:2436348 original size:118 final size:118
Alignment explanation
Indices: 2436164--2436412 Score: 347
Period size: 118 Copynumber: 2.1 Consensus size: 118
2436154 GGAACTTCTT
* *
2436164 TATTGGAAATATTGATCCACCTCCTTCTGTGATAGAGTCAAGCAAAGGTTGAACAAGTTCTTCTC
1 TATTGGAAATATTAATCCACCTCCTTCTGTGATAGACTCAAGCAAAGGTTGAACAAGTTCTTCTC
* **
2436229 ATTATGAACTTCTTCTCCCTCATTGGATGAGTTCTTCTCATTACAAACACTTC
66 ATTATGAACTTATTCTCCCTCATCAGATGAGTTCTTCTCATTACAAACACTTC
* * * *
2436282 TATTGGAAATGTTAATCCACCTCCTTTTGTGATGGACTCGAA-CCAAGGTTGAACAAGTTCTTCT
1 TATTGGAAATATTAATCCACCTCCTTCTGTGATAGACTC-AAGCAAAGGTTGAACAAGTTCTTCT
* ** *
2436346 CATTATGAACTTATTCTCTCTCATCAGATGAGTTCTTCTCATTATGAACCCTTC
65 CATTATGAACTTATTCTCCCTCATCAGATGAGTTCTTCTCATTACAAACACTTC
* *
2436400 CATTGAAAATATT
1 TATTGGAAATATT
2436413 GGCTGATTTA
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
118 112 0.98
119 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (118 bp):
TATTGGAAATATTAATCCACCTCCTTCTGTGATAGACTCAAGCAAAGGTTGAACAAGTTCTTCTC
ATTATGAACTTATTCTCCCTCATCAGATGAGTTCTTCTCATTACAAACACTTC
Found at i:2437994 original size:54 final size:54
Alignment explanation
Indices: 2437800--2438295 Score: 395
Period size: 54 Copynumber: 9.1 Consensus size: 54
2437790 AAGGACTCAT
* * ** * *
2437800 CATCAAGAAACCTTTGAAAATCAAACTTGGCT-TCCTTAAAAATTCATTT-ACAATTA
1 CATCAAGAAACCCTTGAAAATTAGGCTTAGCTCT-TTTAAAAATTCATTTGA-AA--A
* * * * * * *
2437856 TCATTAAGAAACCCATAAAAATTACGCTTAGTTTTTTTAAAAATTCATTGGAAGTAA
1 -CATCAAGAAACCCTTGAAAATTAGGCTTAGCTCTTTTAAAAATTCATTTGAA--AA
* * ** *
2437913 TCATCAAGAAACCCCTGAAAATCAGGCTTAGCTCTTTTCCAAA-TCTATTTGTAAA
1 -CATCAAGAAACCCTTGAAAATTAGGCTTAGCTCTTTTAAAAATTC-ATTTGAAAA
* * * *
2437968 CATCAAGAAACTCC-TAAAAAGTAGGCTTAACTCCTTTAAAAATTCATTTGAAAA
1 CATCAAGAAAC-CCTTGAAAATTAGGCTTAGCTCTTTTAAAAATTCATTTGAAAA
2438022 CATCAAGAAACCCTTGAAAATTAGGCTTAGCT-TCTTTAAAAATTCATTTGAAAA
1 CATCAAGAAACCCTTGAAAATTAGGCTTAGCTCT-TTTAAAAATTCATTTGAAAA
* *
2438076 CATCAAGAAACCCTTGAAAATTAGGCTTAGCT-TCTTTAAAAATTCATTAGAAGTA
1 CATCAAGAAACCCTTGAAAATTAGGCTTAGCTCT-TTTAAAAATTCATTTGAA-AA
* * * ** *
2438131 -ATCAAGAAACCCCTAAAAACTAGAATT--CTCTTCTTTAAAAATTTAATTTGAAAA
1 CATCAAGAAACCCTTGAAAATTAGGCTTAGCTC-T-TTTAAAAA-TTCATTTGAAAA
* * ** * * *
2438185 CATCAAGAAACCCATGAAAATCAAACTTAGCTCCTTTAAAAATTTATTTGTAAA
1 CATCAAGAAACCCTTGAAAATTAGGCTTAGCTCTTTTAAAAATTCATTTGAAAA
* * *
2438239 CATC-A-AAACCCTTGAAAATCAGGCTTAGCT-TCTTTCAACATTCATTTGAAAA
1 CATCAAGAAACCCTTGAAAATTAGGCTTAGCTCT-TTTAAAAATTCATTTGAAAA
2438291 CATCA
1 CATCA
2438296 TATTGTTTGG
Statistics
Matches: 360, Mismatches: 61, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
52 44 0.12
53 3 0.01
54 184 0.51
55 44 0.12
56 2 0.01
57 80 0.22
58 2 0.01
59 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
CATCAAGAAACCCTTGAAAATTAGGCTTAGCTCTTTTAAAAATTCATTTGAAAA
Found at i:2438071 original size:108 final size:109
Alignment explanation
Indices: 2437800--2438295 Score: 481
Period size: 108 Copynumber: 4.5 Consensus size: 109
2437790 AAGGACTCAT
* ** * * *
2437800 CATCAAGAAACCTTTGAAAATCAAACTTGGCTTCCTTAAAAATTCATTT-ACAATTATCATTAAG
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGA-AA--A-CATCAAG
* * ** *
2437864 AAACCCATAAAAATTACGCTTAGTTTTTTTAAAAATTCATTGGAAGTAA
62 AAACCCATAAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAG-AA
* ** *
2437913 TCATCAAGAAACCCCTGAAAATCAGGCTTAGC-TCTTTTCCAAA-TCTATTTGTAAACATCAAGA
1 -CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTC-TTTAAAAATTC-ATTTGAAAACATCAAGA
* *
2437976 AACTCC-TAAAAAGTAGGCTTAACTCCTTTAAAAATTCATTTGAA-AA
63 AAC-CCATAAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAGAA
*
2438022 CATCAAGAAACCCTTGAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAAAC
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAAAC
* * * * *
2438087 CCTTGAAAATTAGGCTTAGCTTCTTTAAAAATTCATTAGAAGTA
66 CCATAAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAGAA
* * ** ** *
2438131 -ATCAAGAAACCCCT-AAAAACTAGAATTCTCTTCTTTAAAAATTTAATTTGAAAACATCAAGAA
1 CATCAAGAAACCCTTGAAAATC-AGGCTTAGCTTCTTTAAAAA-TTCATTTGAAAACATCAAGAA
* * ** * *
2438194 ACCCATGAAAATCAAACTTAGCTCCTTTAAAAATTTATTTGTA-AA
64 ACCCATAAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAGAA
* *
2438239 CATC-A-AAACCCTTGAAAATCAGGCTTAGCTTCTTTCAACATTCATTTGAAAACATCA
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCA
2438296 TATTGTTTGG
Statistics
Matches: 316, Mismatches: 54, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
106 16 0.05
107 27 0.09
108 123 0.39
109 65 0.21
111 41 0.13
112 3 0.01
113 4 0.01
114 37 0.12
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (109 bp):
CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATCAAGAAAC
CCATAAAAATTAGGCTTAGCTCCTTTAAAAATTCATTTGAAGAA
Found at i:2438107 original size:162 final size:161
Alignment explanation
Indices: 2437835--2438273 Score: 476
Period size: 162 Copynumber: 2.7 Consensus size: 161
2437825 CTTGGCTTCC
* * * * *
2437835 TTAAAAATTCATTT-ACAATTATCATTAAGAAACCCATAAAAATTACGCTTAGTTTTTTTAAAAA
1 TTAAAAATTCATTTGA-AA--A-CATCAAGAAACCCATGAAAATTAAGCTTAGCTTCTTTAAAAA
* * ** *
2437899 TTCATTGGAAGTAATCATCAAGAAACCCCTGAAAATCAGGCTTAGCTCTTTTCCAAA-TCTATTT
62 TTCATTTGAA--AA-CATCAAGAAACCCTTGAAAATCAGGCTTAGCTCTTTTAAAAATTC-ATTA
* * **
2437963 GTAA-ACATCAAGAAACTCCTAAAAAGTAGGCTTAACTCCT
123 G-AAGA-ATCAAGAAACCCCTAAAAACTAGAATTAACTCCT
* *
2438003 TTAAAAATTCATTTGAAAACATCAAGAAACCCTTGAAAATTAGGCTTAGCTTCTTTAAAAATTCA
1 TTAAAAATTCATTTGAAAACATCAAGAAACCCATGAAAATTAAGCTTAGCTTCTTTAAAAATTCA
*
2438068 TTTGAAAACATCAAGAAACCCTTGAAAATTAGGCTTAGCT-TCTTTAAAAATTCATTAGAAGTAA
66 TTTGAAAACATCAAGAAACCCTTGAAAATCAGGCTTAGCTCT-TTTAAAAATTCATTAGAAG-AA
** *
2438132 TCAAGAAACCCCTAAAAACTAGAATTCTCTTCT
129 TCAAGAAACCCCTAAAAACTAGAATTAACTCCT
* * * * *
2438165 TTAAAAATTTAATTTGAAAACATCAAGAAACCCATGAAAATCAAACTTAGCTCCTTTAAAAATTT
1 TTAAAAA-TTCATTTGAAAACATCAAGAAACCCATGAAAATTAAGCTTAGCTTCTTTAAAAATTC
*
2438230 ATTTGTAAACATC-A-AAACCCTTGAAAATCAGGCTTAGCTTCTTT
65 ATTTGAAAACATCAAGAAACCCTTGAAAATCAGGCTTAGC-TCTTT
2438274 CAACATTCAT
Statistics
Matches: 235, Mismatches: 28, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
161 26 0.11
162 78 0.33
163 68 0.29
165 45 0.19
166 1 0.00
168 16 0.07
169 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (161 bp):
TTAAAAATTCATTTGAAAACATCAAGAAACCCATGAAAATTAAGCTTAGCTTCTTTAAAAATTCA
TTTGAAAACATCAAGAAACCCTTGAAAATCAGGCTTAGCTCTTTTAAAAATTCATTAGAAGAATC
AAGAAACCCCTAAAAACTAGAATTAACTCCT
Found at i:2440906 original size:152 final size:155
Alignment explanation
Indices: 2440620--2440922 Score: 454
Period size: 152 Copynumber: 2.0 Consensus size: 155
2440610 TTTCATCATG
* * *
2440620 ACTTGCCTCTGTTAAAAAATCTGGATTGATGGCTTTCATTCTTGTAAACAGATTTCCTTCACCTT
1 ACTTGCCTCTGTCAAAAAATATGGATTGATGGCTTTCATTCTTGCAAACAGATTTCCTTCACC-T
*
2440685 GCCCCAGGTGTGGAGGTGATCCTTGGTTAGGGTTGAATCAAAAGGAAAATACTATAGGCTCAAGT
65 -CCCCAGGTGTGGAGGTGATCCTTGGTTAGGGTTGAATCAAAAGGAAAATACTATAGGATCAAGT
*
2440750 GGGACAACGAGGGATATATATTTCACC
129 GGGACAAAGAGGGATATATATTTCACC
* * *
2440777 ACTTGCCTCTG-CAATAAAATATGGA-TGATGGTTTTCATTCTTGCAAGCATATTTCCTTCACC-
1 ACTTGCCTCTGTCAA-AAAATATGGATTGATGGCTTTCATTCTTGCAAACAGATTTCCTTCACCT
*
2440839 CCCCAGGTGTGGAGGGTGATCTTTGGTTAGGG-TGAATC-AAAGGAAAATACTATAGGATCAAGT
65 CCCCAGGTGTGGA-GGTGATCCTTGGTTAGGGTTGAATCAAAAGGAAAATACTATAGGATCAAGT
2440902 GGGACAAAGAGGGATATATAT
129 GGGACAAAGAGGGATATATAT
2440923 ATATTTGGTG
Statistics
Matches: 135, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
152 44 0.33
153 19 0.14
154 17 0.13
156 35 0.26
157 20 0.15
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (155 bp):
ACTTGCCTCTGTCAAAAAATATGGATTGATGGCTTTCATTCTTGCAAACAGATTTCCTTCACCTC
CCCAGGTGTGGAGGTGATCCTTGGTTAGGGTTGAATCAAAAGGAAAATACTATAGGATCAAGTGG
GACAAAGAGGGATATATATTTCACC
Found at i:2444165 original size:27 final size:28
Alignment explanation
Indices: 2444126--2444188 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
2444116 ATTCTAATAA
*
2444126 AAAGTTTAAGGA-CTAA-ATAAAAAAACT
1 AAAGTCTAAGGACCTAAGATAAAAAAA-T
* *
2444153 AAAGTCTAGGGACCTAAGTGTAAAAAAAT
1 AAAGTCTAAGGACCTAAG-ATAAAAAAAT
2444182 AAAGTCT
1 AAAGTCT
2444189 TGGAACTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 10 0.33
28 4 0.13
29 8 0.27
30 8 0.27
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (28 bp):
AAAGTCTAAGGACCTAAGATAAAAAAAT
Found at i:2444178 original size:29 final size:29
Alignment explanation
Indices: 2444143--2444205 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
2444133 AAGGACTAAA
*
2444143 TAAAAAAACTAAAGTCTAGGGACCTAAGTG
1 TAAAAAAA-TAAAGTCTAGGAACCTAAGTG
* *
2444173 TAAAAAAATAAAGTCTTGGAACTTAAGTG
1 TAAAAAAATAAAGTCTAGGAACCTAAGTG
2444202 TAAA
1 TAAA
2444206 GAATCTAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (29 bp):
TAAAAAAATAAAGTCTAGGAACCTAAGTG
Found at i:2444760 original size:12 final size:14
Alignment explanation
Indices: 2444734--2444764 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2444724 CTAAATACCC
2444734 TTTTTTCATTCTCT
1 TTTTTTCATTCTCT
2444748 TTTTTTCATTCT-T
1 TTTTTTCATTCTCT
2444761 TTTT
1 TTTT
2444765 AGAGAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTCATTCTCT
Found at i:2445831 original size:46 final size:46
Alignment explanation
Indices: 2445764--2445879 Score: 128
Period size: 46 Copynumber: 2.4 Consensus size: 46
2445754 CAATGCCAAC
*
2445764 AATACATATCCATTGATTGAACC-AAAAGCTTTAATTAAACTAAA-AT
1 AATACATAT-CATTGATTGAACCTAAAA-CTTTAATTAAACTAAACAA
* * *
2445810 AATACATATCATTTGATTGAACCTGAAATTTTAATTAAATTAAACTAA
1 AATACATATCA-TTGATTGAACCTAAAACTTTAATTAAACTAAAC-AA
2445858 ACATACATATCAATTGATTGAA
1 A-ATACATATC-ATTGATTGAA
2445880 ACATTTAGCG
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
45 2 0.03
46 34 0.57
47 3 0.05
48 2 0.03
49 18 0.30
50 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.34
Consensus pattern (46 bp):
AATACATATCATTGATTGAACCTAAAACTTTAATTAAACTAAACAA
Found at i:2446055 original size:17 final size:17
Alignment explanation
Indices: 2446030--2446076 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
2446020 ATTTTGTTTG
* *
2446030 ATATGATATTGATTCGA
1 ATATCATATTGATTCAA
2446047 ATATCATATTGATTCAA
1 ATATCATATTGATTCAA
2446064 ATATCATATTGAT
1 ATATCATATTGAT
2446077 GCAATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (17 bp):
ATATCATATTGATTCAA
Found at i:2446116 original size:49 final size:47
Alignment explanation
Indices: 2446046--2446149 Score: 174
Period size: 49 Copynumber: 2.2 Consensus size: 47
2446036 TATTGATTCG
2446046 AATATCATATTGATTCAAATATCATATTGATGCAATTAAAAGGTAAA
1 AATATCATATTGATTCAAATATCATATTGATGCAATTAAAAGGTAAA
2446093 AATATCATATTGATT-ATTTAATATCATATTGATGCAATTAAAAGGTAAA
1 AATATCATATTGATTCA---AATATCATATTGATGCAATTAAAAGGTAAA
2446142 AATATCAT
1 AATATCAT
2446150 TTTGTTTGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
46 1 0.02
47 15 0.28
49 38 0.70
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.37
Consensus pattern (47 bp):
AATATCATATTGATTCAAATATCATATTGATGCAATTAAAAGGTAAA
Found at i:2446195 original size:79 final size:80
Alignment explanation
Indices: 2446112--2446264 Score: 272
Period size: 80 Copynumber: 1.9 Consensus size: 80
2446102 TTGATTATTT
*
2446112 AATATCATATTGATGCAATTAAAAGGT-AAAAATATCATTTTGTTTGATATACTGAGTCATTTAG
1 AATATCATATTGATGCAATTAAAAGGTAAAAAATATAATTTTGTTTGATATACTGAGTCATTTAG
2446176 AATTTAAATGATTCA
66 AATTTAAATGATTCA
* *
2446191 AATATCATATTGATGCAATTAAAAGGTAAAAAATATAATTTTGTTTGATATGCTGAGTCCTTTAG
1 AATATCATATTGATGCAATTAAAAGGTAAAAAATATAATTTTGTTTGATATACTGAGTCATTTAG
2446256 AATTTAAAT
66 AATTTAAAT
2446265 TTTTATAAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 27 0.39
80 43 0.61
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (80 bp):
AATATCATATTGATGCAATTAAAAGGTAAAAAATATAATTTTGTTTGATATACTGAGTCATTTAG
AATTTAAATGATTCA
Found at i:2450146 original size:21 final size:20
Alignment explanation
Indices: 2450117--2450156 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2450107 ATTTGTGACG
* *
2450117 ATAATTAATTTTGTCACTATA
1 ATAAATAATTGTGTC-CTATA
2450138 ATAAATAATTGTGTCCTAT
1 ATAAATAATTGTGTCCTAT
2450157 TTCTATTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAAATAATTGTGTCCTATA
Found at i:2459392 original size:13 final size:13
Alignment explanation
Indices: 2459374--2459433 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
2459364 GAACGTTTGG
2459374 TTATGTTCGTCGT
1 TTATGTTCGTCGT
2459387 TTATGTTCGTTCAG-
1 TTATGTTCG-TC-GT
2459401 TTATG-T--TCGT
1 TTATGTTCGTCGT
* *
2459411 TTATGTTCGTTGG
1 TTATGTTCGTCGT
2459424 TTATGTTCGT
1 TTATGTTCGT
2459434 TTATGTTCGT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 1 0.03
10 7 0.18
11 1 0.03
13 22 0.56
14 7 0.18
15 1 0.03
ACGTcount: A:0.10, C:0.12, G:0.23, T:0.55
Consensus pattern (13 bp):
TTATGTTCGTCGT
Found at i:2459408 original size:10 final size:10
Alignment explanation
Indices: 2459401--2459464 Score: 65
Period size: 10 Copynumber: 5.7 Consensus size: 10
2459391 GTTCGTTCAG
2459401 TTATGTTCGT
1 TTATGTTCGT
2459411 TTATGTTCGTT
1 TTATGTTCG-T
2459422 GGTTATGTTCGT
1 --TTATGTTCGT
2459434 TTATGTTCGTT
1 TTATGTTCG-T
2459445 AGGTTATGTTCGT
1 ---TTATGTTCGT
2459458 TTATGTT
1 TTATGTT
2459465 GTTATTTATC
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
10 25 0.53
11 2 0.04
12 1 0.02
13 10 0.21
14 9 0.19
ACGTcount: A:0.11, C:0.08, G:0.23, T:0.58
Consensus pattern (10 bp):
TTATGTTCGT
Found at i:2459410 original size:47 final size:46
Alignment explanation
Indices: 2459348--2459457 Score: 109
Period size: 47 Copynumber: 2.3 Consensus size: 46
2459338 GGTCTCGTTT
* *
2459348 GTTCATTTACGTTCGTGAACG-T-TTGGTTATGTTCGTCGTTTATGTTC
1 GTTCAGTTATGTTCGTGAACGTTCTTGGTTATG-T--TCGTTTATGTTC
** *
2459395 GTTCAGTTATGTTCGTTTATGTTCGTTGGTTATGTTCGTTTATGTTC
1 GTTCAGTTATGTTCGTGAACGTTC-TTGGTTATGTTCGTTTATGTTC
2459442 GTT-AGGTTATGTTCGT
1 GTTCA-GTTATGTTCGT
2459458 TTATGTTGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
46 1 0.02
47 42 0.78
48 1 0.02
49 1 0.02
50 9 0.17
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.52
Consensus pattern (46 bp):
GTTCAGTTATGTTCGTGAACGTTCTTGGTTATGTTCGTTTATGTTC
Found at i:2459415 original size:24 final size:23
Alignment explanation
Indices: 2459383--2459473 Score: 139
Period size: 24 Copynumber: 3.9 Consensus size: 23
2459373 GTTATGTTCG
2459383 TCGTTTATGTTCGTTCAGTTATGT
1 TCGTTTATGTTCGTT-AGTTATGT
*
2459407 TCGTTTATGTTCGTTGGTTATGT
1 TCGTTTATGTTCGTTAGTTATGT
2459430 TCGTTTATGTTCGTTAGGTTATGT
1 TCGTTTATGTTCGTTA-GTTATGT
*
2459454 TCGTTTATGTT-GTTATTTAT
1 TCGTTTATGTTCGTTAGTTAT
2459474 CCAATCTTCT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
22 4 0.06
23 26 0.41
24 33 0.52
ACGTcount: A:0.12, C:0.09, G:0.22, T:0.57
Consensus pattern (23 bp):
TCGTTTATGTTCGTTAGTTATGT
Found at i:2460844 original size:25 final size:25
Alignment explanation
Indices: 2460815--2460865 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2460805 ATCGAATAAT
2460815 TTAAAGACTTTTTAATAATAAAACA
1 TTAAAGACTTTTTAATAATAAAACA
2460840 TTAAAGACTTTTTAATAATAAAACA
1 TTAAAGACTTTTTAATAATAAAACA
2460865 T
1 T
2460866 GGTTTGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (25 bp):
TTAAAGACTTTTTAATAATAAAACA
Found at i:2462131 original size:48 final size:46
Alignment explanation
Indices: 2462072--2462163 Score: 116
Period size: 44 Copynumber: 2.0 Consensus size: 46
2462062 TTATATCTAT
* *
2462072 AAAATACAAATACATGTATATATGTATGTATATATATATA-ATAGTATTA
1 AAAATACAAATAAATG-A-A-AT-TATATATATATATATATATAGTATTA
2462121 AAAATA-AAATAAATGAAATTATATATATATATATATATAGTAT
1 AAAATACAAATAAATGAAATTATATATATATATATATATAGTAT
2462164 ATTTTATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
44 15 0.38
45 9 0.22
46 1 0.03
47 1 0.03
48 8 0.20
49 6 0.15
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (46 bp):
AAAATACAAATAAATGAAATTATATATATATATATATATAGTATTA
Found at i:2466518 original size:20 final size:22
Alignment explanation
Indices: 2466493--2466545 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
2466483 CGAGGTAAGC
2466493 TTTTTCTTTTTTTC-TC-TCTT
1 TTTTTCTTTTTTTCATCTTCTT
* *
2466513 TTTTTCTATTTTTCATTCTTGTT
1 TTTTTCTTTTTTTCA-TCTTCTT
2466536 TTTTTCTTTT
1 TTTTTCTTTT
2466546 CAAAAACTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 13 0.48
22 2 0.07
23 12 0.44
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTCTTTTTTTCATCTTCTT
Found at i:2467161 original size:17 final size:16
Alignment explanation
Indices: 2467139--2467180 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 16
2467129 ATAAAAAATG
2467139 ATAATAAAATTAATAAT
1 ATAATAAAA-TAATAAT
2467156 ATAATATAAATAATAAT
1 ATAATA-AAATAATAAT
2467173 ATAATAAA
1 ATAATAAA
2467181 TACTAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.08
17 19 0.79
18 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAATAAAATAATAAT
Found at i:2467187 original size:22 final size:22
Alignment explanation
Indices: 2467151--2467195 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2467141 AATAAAATTA
2467151 ATAATATAATATAAATAATAAT
1 ATAATATAATATAAATAATAAT
*
2467173 ATAATA-AATACTAAATATTAAT
1 ATAATATAATA-TAAATAATAAT
2467195 A
1 A
2467196 ACCTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAATATAATATAAATAATAAT
Found at i:2471066 original size:20 final size:20
Alignment explanation
Indices: 2471028--2471066 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2471018 ACATGGCCAT
*
2471028 ATACATCTTTAGTATATAAA
1 ATACATCTTTAGTACATAAA
* *
2471048 ATACATTTTTATTACATAA
1 ATACATCTTTAGTACATAA
2471067 TCTAAGTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (20 bp):
ATACATCTTTAGTACATAAA
Found at i:2471101 original size:2 final size:2
Alignment explanation
Indices: 2471094--2471119 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2471084 ACATATACGA
2471094 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
2471120 GCATAAAAAT
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):
AT
Found at i:2472906 original size:3 final size:3
Alignment explanation
Indices: 2472898--2472951 Score: 56
Period size: 3 Copynumber: 17.3 Consensus size: 3
2472888 TAAACACAAT
* *
2472898 TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA AAA TAAA TAAA TAA GT-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TAA -TAA
2472945 TAA TAA T
1 TAA TAA T
2472952 TTAAGCCCGG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 1 0.02
3 35 0.80
4 8 0.18
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2473401 original size:134 final size:134
Alignment explanation
Indices: 2473167--2473550 Score: 400
Period size: 134 Copynumber: 2.9 Consensus size: 134
2473157 ATGTGATTAG
* * *
2473167 GAAATCTGGTCGGGGGATGACACGGCTTATATGTGATGAAGAGTTCTGGTCATCTTTATGAAGGG
1 GAAATCTGGTCAGGGGATGACACGGCTCATATGTGATGAAGAGTTCTGGTCATCTTTAGGAAGGG
* * ** * * *
2473232 TGATAACTCGGTTCCTAC-GTGATGAAGATGGCTGGTTATCT-AGGGGTGACACGACTCCTACTG
66 TGATAACACGGTTCC-ACTCTGATGGGGACGACTGGTTATCTGA-GGGTGACACGACTCCT-CTC
2473295 GA-T-GAA
128 GACTAG-A
* * * ** *
2473301 GAGATCTGATCAGGGGATGACACGGATCATACATGATGAAGATTTCTGGTCATCTTTAGGAAGGG
1 GAAATCTGGTCAGGGGATGACACGGCTCATATGTGATGAAGAGTTCTGGTCATCTTTAGGAAGGG
* * ** *
2473366 TGATAACACGGTTCCACTCTGTTGGGGACGACTGGTTATCTGAGGTTGACACGGTTCCTCTCTAC
66 TGATAACACGGTTCCACTCTGATGGGGACGACTGGTTATCTGAGGGTGACACGACTCCTCTCGAC
*
2473431 TAGG
131 TAGA
* * * *
2473435 GAAATCTGGT-TGGGGATGACACTGCTCATATGTGATGAAGAGTTCTTGGCCATCTTTAGAAAGG
1 GAAATCTGGTCAGGGGATGACACGGCTCATATGTGATGAAGAGTTC-TGGTCATCTTTAGGAAGG
* * * ** *
2473499 ATGATAACACGGTTCCACTCTGCTGGGGAGGGTTGGTTATCTGAGGTTGACA
65 GTGATAACACGGTTCCACTCTGATGGGGACGACTGGTTATCTGAGGGTGACA
2473551 TGGTTCCACT
Statistics
Matches: 208, Mismatches: 37, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
133 34 0.16
134 172 0.83
135 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (134 bp):
GAAATCTGGTCAGGGGATGACACGGCTCATATGTGATGAAGAGTTCTGGTCATCTTTAGGAAGGG
TGATAACACGGTTCCACTCTGATGGGGACGACTGGTTATCTGAGGGTGACACGACTCCTCTCGAC
TAGA
Found at i:2473556 original size:134 final size:133
Alignment explanation
Indices: 2473166--2473598 Score: 399
Period size: 134 Copynumber: 3.2 Consensus size: 133
2473156 TATGTGATTA
* * ** *
2473166 GGAAATCTGGTCGGGGGATGACACGGCTTATATGTGATGAAGAGTTCTGGTCATCTTTATG-AAG
1 GGAAATCTGGTC-GGGGATGACACTGCTCATACATGATGAAGAGTTCTGGCCATCTTTA-GAAAG
* * * * ** * * * **
2473230 GGTGATAACTCGGTTCCTAC-GTGATGAAGATGGCTGGTTATCT-AGGGGTGACACGACTCCTAC
64 GATGATAACACGGTTCC-ACTCTGCTGGGGACGACTGGTTATCTGA-GGTTGACACGGTTCC-AC
**
2473293 TGGA-T-G
126 TCTACTAG
* * * * * * * *
2473299 AAGAGATCTGATCAGGGGATGACACGGATCATACATGATGAAGATTTCTGGTCATCTTTAGGAAG
1 -GGAAATCTGGTC-GGGGATGACACTGCTCATACATGATGAAGAGTTCTGGCCATCTTTAGAAAG
* * *
2473364 GGTGATAACACGGTTCCACTCTGTTGGGGACGACTGGTTATCTGAGGTTGACACGGTTCCTCTCT
64 GATGATAACACGGTTCCACTCTGCTGGGGACGACTGGTTATCTGAGGTTGACACGGTTCCACTCT
2473429 ACTAG
129 ACTAG
* **
2473434 GGAAATCTGGTTGGGGATGACACTGCTCATATGTGATGAAGAGTTCTTGGCCATCTTTAGAAAGG
1 GGAAATCTGGTCGGGGATGACACTGCTCATACATGATGAAGAGTTC-TGGCCATCTTTAGAAAGG
* ** * *
2473499 ATGATAACACGGTTCCACTCTGCTGGGGAGGGTTGGTTATCTGAGGTTGACATGGTTCCACTCTG
65 ATGATAACACGGTTCCACTCTGCTGGGGACGACTGGTTATCTGAGGTTGACACGGTTCCACTCTA
*
2473564 CTGG
130 CTAG
*
2473568 GGAAATCTGGTCGGGTAATGACACTGCTCAT
1 GGAAATCTGGTCGGG-GATGACACTGCTCAT
2473599 CTGTTCATGA
Statistics
Matches: 248, Mismatches: 44, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
133 35 0.14
134 197 0.79
135 16 0.06
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (133 bp):
GGAAATCTGGTCGGGGATGACACTGCTCATACATGATGAAGAGTTCTGGCCATCTTTAGAAAGGA
TGATAACACGGTTCCACTCTGCTGGGGACGACTGGTTATCTGAGGTTGACACGGTTCCACTCTAC
TAG
Found at i:2473697 original size:41 final size:43
Alignment explanation
Indices: 2473580--2473703 Score: 146
Period size: 44 Copynumber: 2.9 Consensus size: 43
2473570 AAATCTGGTC
2473580 GGGTAATGACACTGCTCATCTGTTCATGAGTCTTGGCCATCTAA
1 GGGT-ATGACACTGCTCATCTGTTCATGAGTCTTGGCCATCTAA
* * * * **
2473624 GGGTGATAACACTGCTCATACT-ATGATAAGTCTTGGTTATCT-A
1 GGGT-ATGACACTGCTCAT-CTGTTCATGAGTCTTGGCCATCTAA
2473667 GGGT-TGACACTGCTCATCTGTTCATGAGTCTTGGCCA
1 GGGTATGACACTGCTCATCTGTTCATGAGTCTTGGCCA
2473704 GGGGATTTTG
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
40 2 0.03
41 24 0.37
43 5 0.08
44 32 0.49
45 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (43 bp):
GGGTATGACACTGCTCATCTGTTCATGAGTCTTGGCCATCTAA
Found at i:2480712 original size:31 final size:32
Alignment explanation
Indices: 2480633--2480720 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 32
2480623 AGGATGAAAC
* *
2480633 ATGACACAATCAAAAGAAAATAAA-TAGGTTA
1 ATGACACAAACAAAAGGAAATAAATTAGGTTA
* * *
2480664 GTGTACATATACAAAAGGAAATAAATTA-GTTA
1 ATG-ACACAAACAAAAGGAAATAAATTAGGTTA
*
2480696 ATGACACAAACAAAAGGAAAGAAAT
1 ATGACACAAACAAAAGGAAATAAAT
2480721 CATTTAATAC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
31 21 0.46
32 23 0.50
33 2 0.04
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.19
Consensus pattern (32 bp):
ATGACACAAACAAAAGGAAATAAATTAGGTTA
Found at i:2484372 original size:3 final size:3
Alignment explanation
Indices: 2484364--2484436 Score: 94
Period size: 3 Copynumber: 24.0 Consensus size: 3
2484354 AAACAAAATG
* *
2484364 AAT AAT AAT AAT AAT AAT AAT AAT TAT AAT AAT AAT ATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
2484412 AAT TAT AAT AAAT AAGT -AT AAT AAT
1 AAT AAT AAT -AAT AA-T AAT AAT AAT
2484437 TTAAGCCGGG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 56 0.92
4 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:2488359 original size:25 final size:25
Alignment explanation
Indices: 2488331--2488379 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2488321 ATAAAAAATG
2488331 ATAATAAAAACT-AATAATAATAATT
1 ATAAT-AAAACTAAATAATAATAATT
* *
2488356 ATAATAATACTAAATATTAATAAT
1 ATAATAAAACTAAATAATAATAAT
2488380 AACCCAGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAATAAAACTAAATAATAATAATT
Found at i:2489203 original size:41 final size:41
Alignment explanation
Indices: 2489064--2489242 Score: 198
Period size: 41 Copynumber: 4.2 Consensus size: 41
2489054 GTTGATTCAC
* * *
2489064 TCCACTGCTCTTCAAGATAGATTGAATTAAGGCAGATTTGT
1 TCCACTGCTCTTCAGGGTAGATTGAATTAAGGCAGATCTGT
* * ** * *
2489105 TCCACTGCTCCTCAGGGAAGATCAAATCTGAAACAAGG-GGATCTAT
1 TCCACTGCTCTTCA-GG--G-T-AGAT-TGAATTAAGGCAGATCTGT
*
2489151 TCCACTACTCTTCAGGGTAGATTGAATTAAGGCAGATCTGT
1 TCCACTGCTCTTCAGGGTAGATTGAATTAAGGCAGATCTGT
*
2489192 TCCACTGCTCTTCAGGGTAGATTGAATTAAGGCAGATTTGT
1 TCCACTGCTCTTCAGGGTAGATTGAATTAAGGCAGATCTGT
2489233 TCCACTGCTC
1 TCCACTGCTC
2489243 CTCAAGATCA
Statistics
Matches: 113, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
40 8 0.07
41 71 0.63
42 2 0.02
43 1 0.01
45 3 0.03
46 20 0.18
47 8 0.07
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (41 bp):
TCCACTGCTCTTCAGGGTAGATTGAATTAAGGCAGATCTGT
Found at i:2489464 original size:130 final size:132
Alignment explanation
Indices: 2488863--2489489 Score: 564
Period size: 130 Copynumber: 4.9 Consensus size: 132
2488853 GAGATTTTTT
* * * *
2488863 AAGATGAAATCT-AAA-AA-GGGATATGCTCCGCTA-CTCTTCATGGTAGATCAGATCTGGAAAC
1 AAGATCAAATCTGAAACAAGGGGATCTACTCC-CTAGCTCTTCAGGGTAGATCAGATCTGGAAAC
* * * * * * * * *
2488924 ATTGATTCACTCCACTGCTCTTTAGGGTAGATTTAATCAAGGTAGATTTTTTCCACTACTTCTTA
65 ATTGATTCATTCCACTGCTCTTCAGGGAAGATTGAATCAAGGCAGATTTGTTCCACTGCTCCTCA
2488989 GGG
130 GGG
* * * * * * ** *
2488992 TAGATCAAATCTG-GA-AAGGGGTTCTGCTCTACT-GCTCTTCAGGGTAGATCATATCTAAAAAT
1 AAGATCAAATCTGAAACAAGGGGATCTACTC-CCTAGCTCTTCAGGGTAGATCAGATCTGGAAAC
* * * *
2489054 GTTGATTCACTCCACTGCTCTTCA-AGATAGATTGAATTAAGGCAGATTTGTTCCACTGCTCCTC
65 ATTGATTCATTCCACTGCTCTTCAGGGA-AGATTGAATCAAGGCAGATTTGTTCCACTGCTCCTC
2489118 AGGG
129 AGGG
* *
2489122 AAGATCAAATCTGAAACAAGGGGATCTATTCCACTA-CTCTTCAGGGTAGAT-TGAAT-T--AAG
1 AAGATCAAATCTGAAACAAGGGGATCTACTCC-CTAGCTCTTCAGGGTAGATCAG-ATCTGGAA-
* * * *
2489182 GCA--GA-TCTGTTCCACTGCTCTTCAGGGTAGATTGAATTAAGGCAGATTTGTTCCACTGCTCC
63 ACATTGATTC-ATTCCACTGCTCTTCAGGGAAGATTGAATCAAGGCAGATTTGTTCCACTGCTCC
2489244 TC----
127 TCAGGG
* * * *
2489246 AAGATCAAAGT-TGAAACAAGGGGATCTACTCCACT-GCTCTACAGGGTGGATCAAATCTGGAAG
1 AAGATCAAA-TCTGAAACAAGGGGATCTACTCC-CTAGCTCTTCAGGGTAGATCAGATCTGGAAA
* * * *
2489309 CATTGATTCATTCCACTGCTATTCAGGGAAGATTGAGTAAAGGCAGATTTGTTCCACTGCTCATC
64 CATTGATTCATTCCACTGCTCTTCAGGGAAGATTGAATCAAGGCAGATTTGTTCCACTGCTCCTC
2489374 AGGG
129 AGGG
* * *
2489378 AACATCAAATCTGAAACAA-GGG-TCTACTCCGTAGCTCTTCACGGTAGATCAGATCTGGAAACA
1 AAGATCAAATCTGAAACAAGGGGATCTACTCCCTAGCTCTTCAGGGTAGATCAGATCTGGAAACA
* ** * * *
2489441 TTGATTCATTCTACTATTTTTCAGAGAAGATTGAATCAAGGTAGATTTG
66 TTGATTCATTCCACTGCTCTTCAGGGAAGATTGAATCAAGGCAGATTTG
2489490 ATTCTCTTGT
Statistics
Matches: 407, Mismatches: 63, Indels: 55
0.78 0.12 0.10
Matches are distributed among these distances:
124 47 0.12
125 2 0.00
126 3 0.01
127 4 0.01
128 104 0.26
129 20 0.05
130 175 0.43
131 6 0.01
132 46 0.11
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (132 bp):
AAGATCAAATCTGAAACAAGGGGATCTACTCCCTAGCTCTTCAGGGTAGATCAGATCTGGAAACA
TTGATTCATTCCACTGCTCTTCAGGGAAGATTGAATCAAGGCAGATTTGTTCCACTGCTCCTCAG
GG
Found at i:2490820 original size:37 final size:37
Alignment explanation
Indices: 2490779--2490849 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
2490769 TTGAACACTC
* *
2490779 ATTTTATT-TATTTTCTTTTTCTTTTTCTTTTTTTATT
1 ATTTTATTATATTTTCATTTTCTTTCT-TTTTTTTATT
*
2490816 ATTTTATTATTTTTTCATTTTCTTTCTTTTTTTT
1 ATTTTATTATATTTTCATTTTCTTTCTTTTTTTT
2490850 CTTTCTTCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 15 0.50
38 15 0.50
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.80
Consensus pattern (37 bp):
ATTTTATTATATTTTCATTTTCTTTCTTTTTTTTATT
Found at i:2502880 original size:17 final size:18
Alignment explanation
Indices: 2502858--2502896 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
2502848 ACCACGCAAA
*
2502858 ATTTAAAAATAT-TATAT
1 ATTTAAAAAAATGTATAT
2502875 ATTTAAAAAAATGTATAT
1 ATTTAAAAAAATGTATAT
2502893 ATTT
1 ATTT
2502897 TCTATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
ATTTAAAAAAATGTATAT
Found at i:2507873 original size:4 final size:4
Alignment explanation
Indices: 2507864--2507897 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
2507854 AAAAGAATAT
* *
2507864 ATAC ATAC ATAC ATAA ATAC ATAC ATGC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
2507898 CAGTCCATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:2508685 original size:13 final size:13
Alignment explanation
Indices: 2508667--2508691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2508657 GGAGAGGGAA
2508667 AAAAATCAAAGAT
1 AAAAATCAAAGAT
2508680 AAAAATCAAAGA
1 AAAAATCAAAGA
2508692 AAACATGGAG
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:0.72, C:0.08, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAAATCAAAGAT
Found at i:2513134 original size:55 final size:55
Alignment explanation
Indices: 2513048--2513338 Score: 429
Period size: 55 Copynumber: 5.3 Consensus size: 55
2513038 CTAAGTGTAC
* *
2513048 TACAGGCGCTCTGTGTGCAAATCCACAGAATTTATCATGAGTTGATGAATAACCG
1 TACAGGCACTCTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* *
2513103 TACAGGCACTCTGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAATCG
1 TACAGGCACTCTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* ** *
2513158 TACAGGCACTCTGTGTGCAAATCCACATAATTCATCAAAAGTTGATGAATAATCG
1 TACAGGCACTCTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* * * *
2513213 TACAAGCACTCTATGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACAG
1 TACAGGCACTCTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* * *
2513268 TACAGGCACTCTGTGTTCAAATCCACAGAATTCATCATAAGTTGATGAATAAACG
1 TACAGGCACTCTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
* *
2513323 TACATGCACTATGTGT
1 TACAGGCACTCTGTGT
2513339 AACACCCATC
Statistics
Matches: 211, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 211 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (55 bp):
TACAGGCACTCTGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCG
Found at i:2513949 original size:19 final size:19
Alignment explanation
Indices: 2513925--2513963 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2513915 TCGAATGCAT
2513925 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
2513944 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
2513963 T
1 T
2513964 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2513980 original size:65 final size:64
Alignment explanation
Indices: 2513862--2514070 Score: 212
Period size: 65 Copynumber: 3.2 Consensus size: 64
2513852 TATTCAAAGG
* *
2513862 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGC
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGC
*
2513923 ATTC
61 ATTT
2513927 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * **
2513992 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
*
2514056 CATGCATCGATGCAC
1 CATGCACCGATGCAC
2514071 ACTTGGTGCA
Statistics
Matches: 126, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
63 7 0.06
64 52 0.41
65 65 0.52
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:2514088 original size:64 final size:65
Alignment explanation
Indices: 2513911--2514073 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
2513901 GAATTAATTG
* * * *
2513911 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
2513976 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
2514039 A
65 A
2514040 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
2514074 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:2515558 original size:19 final size:21
Alignment explanation
Indices: 2515529--2515568 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2515519 CTTCTTCTAG
*
2515529 AAACTAAAATG-GATTTTGAA
1 AAACTAAAATGAAATTTTGAA
2515549 AAAC-AAAATGAAATTTTGAA
1 AAACTAAAATGAAATTTTGAA
2515569 GTAGAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (21 bp):
AAACTAAAATGAAATTTTGAA
Found at i:2516191 original size:20 final size:21
Alignment explanation
Indices: 2516158--2516197 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2516148 TTTTTACATA
2516158 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
2516178 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
2516198 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:2516205 original size:22 final size:20
Alignment explanation
Indices: 2516157--2516201 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2516147 ATTTTTACAT
2516157 AATTGATATTCATTTTAAAC
1 AATTGATATTCATTTTAAAC
*
2516177 CATTGATA-TCAATTTTCAAAC
1 AATTGATATTC-ATTTT-AAAC
2516198 AATT
1 AATT
2516202 TGATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTGATATTCATTTTAAAC
Found at i:2521060 original size:19 final size:19
Alignment explanation
Indices: 2521036--2521074 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2521026 TCGAATGCAT
2521036 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
2521055 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
2521074 T
1 T
2521075 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2521179 original size:64 final size:65
Alignment explanation
Indices: 2521024--2521182 Score: 196
Period size: 65 Copynumber: 2.5 Consensus size: 65
2521014 ATTAATTGAG
* * *** *
2521024 CATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAA
1 CATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAAAA
* **
2521089 CATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-AA
1 CATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCAAA
2521152 A
65 A
* *
2521153 CATCAAATGTATTTCATGCATCGATGCACA
1 CATCGAATGCATTTCATGCATCGATGCACA
2521183 CTTGGTGCAC
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
64 34 0.42
65 47 0.58
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (65 bp):
CATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAAAA
Found at i:2522668 original size:54 final size:54
Alignment explanation
Indices: 2522167--2522647 Score: 638
Period size: 54 Copynumber: 8.9 Consensus size: 54
2522157 AATTATGGGA
* * * * * * *
2522167 AAATACACACTTAGTGTCAAAACAGTTATTTATCTATATAGGATGAATTCCGTG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
* * *
2522221 AAATGCACTCTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGTA
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
*
2522275 AAATGTACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
* ** * * * *
2522329 AAATGCACACTTAATGTTGAAACGGTTATTCTTCCGCATATGATGAATTCTGTG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
* *
2522383 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCGCATAGGATAAATTCCGTG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
* * *
2522437 AAATACACACTTAGTGCCGAAACGGTTATTCATCCGCATAGGACGAATTCCGTG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
* ** * **
2522491 AAATGCACACTTACTGTTGAAATGGTTATTCATTAACATAGGATGAATTCCGTG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
* * * * *
2522545 AAGTACACACTTAGTACCGAAACGATTATCCATCCACATAGGATGAATTCCGTG
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
**
2522599 AAAAACACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATT
1 AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATT
2522648 TTGTACTTTG
Statistics
Matches: 370, Mismatches: 57, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 370 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (54 bp):
AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTG
Found at i:2522740 original size:12 final size:12
Alignment explanation
Indices: 2522725--2522749 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2522715 GACTAGTATA
2522725 ACATATAGTTAC
1 ACATATAGTTAC
2522737 ACATATAGTTAC
1 ACATATAGTTAC
2522749 A
1 A
2522750 TATTTGACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ACATATAGTTAC
Found at i:2526737 original size:19 final size:19
Alignment explanation
Indices: 2526713--2526765 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
2526703 ATAAGACTTA
*
2526713 GTGTATCGATACACTTGGG
1 GTGTATCGGTACACTTGGG
2526732 GTGTATCGGTACACTTGGG
1 GTGTATCGGTACACTTGGG
2526751 GTGTATCGGTACACT
1 GTGTATCGGTACACT
2526766 AATTGCATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (19 bp):
GTGTATCGGTACACTTGGG
Found at i:2526897 original size:64 final size:64
Alignment explanation
Indices: 2526755--2526909 Score: 152
Period size: 64 Copynumber: 2.4 Consensus size: 64
2526745 CTTGGGGTGT
* * * * * * * *
2526755 ATCGGTACACTAATTGCATTCGATGTTTTAATAAAGCCAGAATGCATCGATGCATAGGATGTGT
1 ATCGATACACAAAATGCATTCGATGTTTCAATAAAACAAGAATGCATCAATGCATAGGATGTGC
* * * * *
2526819 ATCGGTACACAAAATGCATTCGATGTTTCAATAAAAATAAGAGTGTATCAATGCAT-GGTTGTGC
1 ATCGATACACAAAATGCATTCGATGTTTCAAT-AAAACAAGAATGCATCAATGCATAGGATGTGC
*
2526883 ATCGATACATAAAATAGC-TTCGATGTT
1 ATCGATACACAAAAT-GCATTCGATGTT
2526910 GGGTGTGCAT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 57 0.75
65 19 0.25
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (64 bp):
ATCGATACACAAAATGCATTCGATGTTTCAATAAAACAAGAATGCATCAATGCATAGGATGTGC
Found at i:2527547 original size:2 final size:2
Alignment explanation
Indices: 2527540--2527588 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2527530 TTCAAAACCA
2527540 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
2527582 AT AT AT A
1 AT AT AT A
2527589 AGCATTCAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2528740 original size:64 final size:64
Alignment explanation
Indices: 2528623--2528742 Score: 143
Period size: 64 Copynumber: 1.9 Consensus size: 64
2528613 ACTCTTATTT
* * * * *
2528623 TTATTAAAACATCAAATGCATTTTGTGTACCAATACACATCCTATGCATCGATACATTCTGGCG
1 TTATTAAAACATCAAATGCAATTAGTGTACCAATACACACCCAATGCACCGATACATTCTGGCG
* * * *
2528687 TTATTAAAACATCGAATGCAATTAGTGTAGCGATACAC-CCCAAGTGTACCGATACA
1 TTATTAAAACATCAAATGCAATTAGTGTACCAATACACACCCAA-TGCACCGATACA
2528743 CTAAGTCTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
63 3 0.07
64 43 0.93
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (64 bp):
TTATTAAAACATCAAATGCAATTAGTGTACCAATACACACCCAATGCACCGATACATTCTGGCG
Found at i:2531239 original size:21 final size:21
Alignment explanation
Indices: 2531196--2531274 Score: 110
Period size: 21 Copynumber: 3.9 Consensus size: 21
2531186 CAACAATTGG
*
2531196 TAACAATTGGTAT-C-TTT-T
1 TAACAATTGATATCCTTTTGT
2531214 TAACAATTGATATCCTTTTGT
1 TAACAATTGATATCCTTTTGT
*
2531235 TAACAATTGGTATCCTTTTGT
1 TAACAATTGATATCCTTTTGT
*
2531256 TAACAATTGATATCTTTTT
1 TAACAATTGATATCCTTTT
2531275 CATTAAATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
18 12 0.22
19 1 0.02
20 3 0.06
21 38 0.70
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (21 bp):
TAACAATTGATATCCTTTTGT
Found at i:2531268 original size:42 final size:39
Alignment explanation
Indices: 2531196--2531274 Score: 122
Period size: 42 Copynumber: 1.9 Consensus size: 39
2531186 CAACAATTGG
2531196 TAACAATTGGTATCTTTTTAACAATTGATATCCTTTTGT
1 TAACAATTGGTATCTTTTTAACAATTGATATCCTTTTGT
*
2531235 TAACAATTGGTATCCTTTTGTTAACAATTGATATCTTTTT
1 TAACAATTGGTAT-C-TTT-TTAACAATTGATATCCTTTT
2531275 CATTAAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
39 13 0.36
40 1 0.03
41 3 0.08
42 19 0.53
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (39 bp):
TAACAATTGGTATCTTTTTAACAATTGATATCCTTTTGT
Found at i:2531543 original size:20 final size:20
Alignment explanation
Indices: 2531490--2531545 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
2531480 TGTTTTTATG
* *
2531490 AATAGTATTG-TACTGTATG
1 AATAGTATCGATACTGTATA
* *
2531509 AACAGTA-CCAGTACTGTATA
1 AATAGTATCGA-TACTGTATA
2531529 AATAGTATCGATACTGT
1 AATAGTATCGATACTGT
2531546 GTGAACAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
19 6 0.21
20 20 0.71
21 2 0.07
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (20 bp):
AATAGTATCGATACTGTATA
Found at i:2531617 original size:21 final size:20
Alignment explanation
Indices: 2531596--2531634 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
2531586 ATGTAAAATG
2531596 TGTATCGATAC-TGCTACAA
1 TGTATCGATACATGCTACAA
2531615 TGTATCGATACAATGCTACA
1 TGTATCGATAC-ATGCTACA
2531635 GTAATTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.61
21 7 0.39
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGCTACAA
Found at i:2534582 original size:54 final size:54
Alignment explanation
Indices: 2534492--2535022 Score: 668
Period size: 54 Copynumber: 9.8 Consensus size: 54
2534482 GGGAAAATAT
* * * * *
2534492 ACACTTAGTGTCGAAACGATTATTCATCAACCTAGGATGAATTCCGTGAAATGC
1 ACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGC
*
2534546 ACACTTAGTGCCGAAATGTTTATTCATCCACATAGGATGAATTCCGTGAAATGC
1 ACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGC
* *
2534600 ACACTTAGTGCCGAAAAT-GTTATTCATCCACATAGGGTGAATTCTGTGAAATGC
1 ACACTTAGTGCCG-AAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGC
* * * * *
2534654 ACACTTAATACCAAAATGGTTATTCATCTACATATGATGAATTCCGTGAAATGC
1 ACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGC
* * **
2534708 ACAATTAGTGCCAAAATGGTTATTCATCTGCATAGGATGAATTCCGTGAAATGC
1 ACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGC
** * * *
2534762 ACACTTAGTGCCGAAATGACTATTCATCCATATAAGATGAATTCTGTGAAATGC
1 ACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGC
* * * * * *
2534816 ACAGTTAATGCCGAAAAGGTTATTCATCCACATAGGATGAATTCTGTAAAATAC
1 ACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGC
* * * *** *
2534870 ACACTTAGTGTCGAAACGGTTATTAATCTGTATAAGATGAATTCCGTGAAATGC
1 ACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGC
* * * *
2534924 ACACTTAGTGCCGAAACGGTTATTCATTCGCATAGGATGAATTTCGTGAAATGC
1 ACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGC
* * *
2534978 ACACTTAATGTCGAAACGGTTATTCATCCACATAGGATGAATTCC
1 ACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAATTCC
2535023 TTACTTTTCA
Statistics
Matches: 413, Mismatches: 62, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
53 4 0.01
54 405 0.98
55 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (54 bp):
ACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGC
Found at i:2536371 original size:55 final size:55
Alignment explanation
Indices: 2536307--2536639 Score: 377
Period size: 55 Copynumber: 6.1 Consensus size: 55
2536297 TGGGGTATTA
* * *
2536307 CACTATGTGTGTAAATCCACAGAACTCATCATGAGTTGATGAATAACTGTACAGG
1 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGG
* * ** *
2536362 CACTCTGTGTTCAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTACAGA
1 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGG
* *
2536417 CACTCTGTGTGCAAATCCA-TGAAATTCATCATGAGTTGATGAATAACCGTACAGG
1 CACTATGTGTGCAAATCCACAG-AATTCATCATGAGTTGATGAATAACCGTACAGG
* * * *
2536472 CACTATGTGTGCAAATCCACGGATTTCATCATGAGTTGATGAATAACAGTACAGA
1 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGG
* * * * *
2536527 CACTCTATGTGCAAATCGAC-GAAATTCATCATGAGTTGATGAATAACCATACAAG
1 CACTATGTGTGCAAATCCACAG-AATTCATCATGAGTTGATGAATAACCGTACAGG
* * * * * * *
2536582 CGCGATATGTG-TAACCCACAAAATTCATCATGAGTTGATGAACT-ACCGTATAGG
1 CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAA-TAACCGTACAGG
2536636 CACT
1 CACT
2536640 GCATGTGCAT
Statistics
Matches: 237, Mismatches: 36, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
54 37 0.16
55 199 0.84
56 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (55 bp):
CACTATGTGTGCAAATCCACAGAATTCATCATGAGTTGATGAATAACCGTACAGG
Found at i:2536433 original size:110 final size:110
Alignment explanation
Indices: 2536306--2536623 Score: 424
Period size: 110 Copynumber: 2.9 Consensus size: 110
2536296 TTGGGGTATT
* * * * *
2536306 ACACTATGTGTGTAAATCCAC-AGAACTCATCATGAGTTGATGAATAACTGTACAGGCACTCTGT
1 ACACTCTGTGTGCAAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGT
* * *
2536370 GTTCAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTACAG
65 GTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACAGTACAG
*
2536416 ACACTCTGTGTGCAAATCCATGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
1 ACACTCTGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
*
2536481 TGCAAATCCACGGATTTCATCATGAGTTGATGAATAACAGTACAG
66 TGCAAATCCACGGAATTCATCATGAGTTGATGAATAACAGTACAG
* * * * * * *
2536526 ACACTCTATGTGCAAATCGACGAAATTCATCATGAGTTGATGAATAACCATACAAGCGCGATATG
1 ACACTCTGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
* * **
2536591 TG-TAACCCACAAAATTCATCATGAGTTGATGAA
66 TGCAAATCCACGGAATTCATCATGAGTTGATGAA
2536624 CTACCGTATA
Statistics
Matches: 184, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
109 26 0.14
110 157 0.85
111 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (110 bp):
ACACTCTGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATGTG
TGCAAATCCACGGAATTCATCATGAGTTGATGAATAACAGTACAG
Found at i:2539905 original size:13 final size:14
Alignment explanation
Indices: 2539887--2539916 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2539877 AGTTGGACAA
2539887 TCTTCATATGCA-G
1 TCTTCATATGCACG
2539900 TCTTCATATGCACG
1 TCTTCATATGCACG
2539914 TCT
1 TCT
2539917 GTAATGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (14 bp):
TCTTCATATGCACG
Found at i:2546699 original size:3 final size:3
Alignment explanation
Indices: 2546684--2546814 Score: 60
Period size: 3 Copynumber: 44.0 Consensus size: 3
2546674 GTTTAGCTAG
* * * *
2546684 TAT TAT TAA TAT TAT TAT TAAT TA- TAGT TAT TGT CAT TAT TATT TAC
1 TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT TAT TA-T TAT
* * * *
2546731 TAT GGTAT CAT TAT TAT TAT GT-T TAT T-T TAT TA- TAA TCT TAA TA-
1 TAT --TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
2546775 TAA TAT TAT TA- TAT TAT CA- TAA TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2546815 AAATGTTTTG
Statistics
Matches: 97, Mismatches: 18, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
2 12 0.12
3 73 0.75
4 9 0.09
5 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:2546783 original size:19 final size:19
Alignment explanation
Indices: 2546759--2546816 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
2546749 ATGTTTATTT
*
2546759 TATTATAATCTTAAT-ATAA
1 TATTATAATATT-ATCATAA
*
2546778 TATTATTATATTATCATAA
1 TATTATAATATTATCATAA
* *
2546797 TATTATTATTATTATTATAA
1 TATTA-TAATATTATCATAA
2546817 ATGTTTTGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 2 0.06
19 19 0.59
20 11 0.34
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTATAATATTATCATAA
Found at i:2546787 original size:11 final size:11
Alignment explanation
Indices: 2546758--2546816 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 11
2546748 TATGTTTATT
*
2546758 TTATTATAATC
1 TTATTATAATA
*
2546769 TTAATATAATA
1 TTATTATAATA
2546780 TTA-T-T-ATA
1 TTATTATAATA
*
2546788 TTATCATAATA
1 TTATTATAATA
2546799 TTATTAT--TA
1 TTATTATAATA
2546808 TTATTATAA
1 TTATTATAA
2546817 ATGTTTTGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
8 6 0.15
9 10 0.26
10 2 0.05
11 21 0.54
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (11 bp):
TTATTATAATA
Found at i:2547617 original size:15 final size:15
Alignment explanation
Indices: 2547588--2547616 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2547578 ATGAAAACCA
2547588 TGGGGGGGAGGGGGG
1 TGGGGGGGAGGGGGG
2547603 TGGGGGGG-GGGGGG
1 TGGGGGGGAGGGGGG
2547617 GGGTTTTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.03, C:0.00, G:0.90, T:0.07
Consensus pattern (15 bp):
TGGGGGGGAGGGGGG
Found at i:2548412 original size:29 final size:28
Alignment explanation
Indices: 2548360--2548414 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
2548350 TACTATAATT
2548360 AATTTATATATTTTATTTAAAAAATTTA
1 AATTTATATATTTTATTTAAAAAATTTA
* *
2548388 AATTTATATAATTTTTTTTATAAAATT
1 AATTTATAT-ATTTTATTTAAAAAATT
2548415 GAAAAGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTTATATATTTTATTTAAAAAATTTA
Found at i:2556349 original size:7 final size:7
Alignment explanation
Indices: 2556337--2556369 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
2556327 AAAACCCAAG
2556337 CAAATTA
1 CAAATTA
2556344 CAAATT-
1 CAAATTA
2556350 CAAAATTA
1 C-AAATTA
2556358 CAAATTA
1 CAAATTA
2556365 CAAAT
1 CAAAT
2556370 AGAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 22 0.92
8 1 0.04
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
CAAATTA
Found at i:2556685 original size:20 final size:20
Alignment explanation
Indices: 2556660--2556741 Score: 128
Period size: 20 Copynumber: 4.1 Consensus size: 20
2556650 ATAACACGTG
2556660 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
2556680 ATCGCAACGTGATTCGGACT
1 ATCGCAACGCGATTCTGACT
2556700 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
2556720 ATCGCAACGAGGTTCTGACT
1 ATCGCAACGCGATTCTGACT
2556740 AT
1 AT
2556742 TGCGTTGCGA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:2556939 original size:22 final size:21
Alignment explanation
Indices: 2556914--2556972 Score: 84
Period size: 20 Copynumber: 2.8 Consensus size: 21
2556904 CTACGGCGAC
2556914 ATCCGTCCCCATCTCCGAAAAA
1 ATCCGTCCCCATCTCCG-AAAA
* *
2556936 ATCCATCCCCAT-TTCGAAAA
1 ATCCGTCCCCATCTCCGAAAA
2556956 ATCCGTCCCCATCTCCG
1 ATCCGTCCCCATCTCCG
2556973 GCGAAATCCG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 15 0.47
21 6 0.19
22 11 0.34
ACGTcount: A:0.27, C:0.42, G:0.08, T:0.22
Consensus pattern (21 bp):
ATCCGTCCCCATCTCCGAAAA
Found at i:2556982 original size:22 final size:22
Alignment explanation
Indices: 2556914--2556984 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
2556904 CTACGGCGAC
*
2556914 ATCCGTCCCCATCTCCGAAAAA
1 ATCCGTCCCCATCTCCGGAAAA
* *
2556936 ATCCATCCCCAT-TTC-GAAAA
1 ATCCGTCCCCATCTCCGGAAAA
**
2556956 ATCCGTCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGGAAAA
2556978 ATCCGTC
1 ATCCGTC
2556985 TATCTCCATC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 15 0.38
21 4 0.10
22 21 0.52
ACGTcount: A:0.27, C:0.41, G:0.11, T:0.21
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGGAAAA
Found at i:2557408 original size:20 final size:20
Alignment explanation
Indices: 2557383--2557425 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2557373 GTCAAATTCA
*
2557383 TTGCGATAATCATTTTTGTG
1 TTGCGATAATCATTTTCGTG
**
2557403 TTGCGATTTTCATTTTCGTG
1 TTGCGATAATCATTTTCGTG
2557423 TTG
1 TTG
2557426 TGATTTTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.12, G:0.21, T:0.53
Consensus pattern (20 bp):
TTGCGATAATCATTTTCGTG
Found at i:2557430 original size:20 final size:20
Alignment explanation
Indices: 2557392--2557432 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2557382 ATTGCGATAA
*
2557392 TCATTTTTGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
*
2557412 TCATTTTCGTGTTGTGATTT
1 TCATTTTCGTGTTGCGATTT
2557432 T
1 T
2557433 AAGTTTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.61
Consensus pattern (20 bp):
TCATTTTCGTGTTGCGATTT
Found at i:2559509 original size:20 final size:20
Alignment explanation
Indices: 2559484--2559590 Score: 118
Period size: 20 Copynumber: 5.7 Consensus size: 20
2559474 CGACAGGATA
*
2559484 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
2559504 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
**
2559524 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
2559544 ATCGCAACG-G--GAT-A--
1 ATCGCAACGCGAAAATGACT
*
2559558 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
2559578 ATCGCAACGCGAA
1 ATCGCAACGCGAA
2559591 TTTAGTTTCG
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
14 8 0.11
15 1 0.01
16 1 0.01
17 3 0.04
18 1 0.01
19 1 0.01
20 56 0.79
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:2559557 original size:74 final size:74
Alignment explanation
Indices: 2559442--2559588 Score: 267
Period size: 74 Copynumber: 2.0 Consensus size: 74
2559432 CGCAACATGA
* *
2559442 AAATGATTATCGCAACGCGAATTTGACTATCGCGACAGGATAATCGCAATGCGAAAATGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCGCAACAGGATAATCGCAATGCGAAAATGACTATC
2559507 GCAACGCGG
66 GCAACGCGG
*
2559516 AAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAATGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCGCAACAGGATAATCGCAATGCGAAAATGACTATC
2559581 GCAACGCG
66 GCAACGCG
2559589 AATTTAGTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (74 bp):
AAATGACTATCGCAACGCGAATTTGACTATCGCAACAGGATAATCGCAATGCGAAAATGACTATC
GCAACGCGG
Found at i:2559608 original size:19 final size:19
Alignment explanation
Indices: 2559586--2559627 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2559576 CTATCGCAAC
*
2559586 GCGAATTTAGTTTCGCGTT
1 GCGAATTTAGTTTCGCATT
* *
2559605 GCGATTTTGGTTTCGCATT
1 GCGAATTTAGTTTCGCATT
2559624 GCGA
1 GCGA
2559628 TTTTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.17, G:0.29, T:0.40
Consensus pattern (19 bp):
GCGAATTTAGTTTCGCATT
Found at i:2559628 original size:19 final size:19
Alignment explanation
Indices: 2559595--2559631 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2559585 CGCGAATTTA
*
2559595 GTTTCGCGTTGCGATTTTG
1 GTTTCGCATTGCGATTTTG
2559614 GTTTCGCATTGCGATTTT
1 GTTTCGCATTGCGATTTT
2559632 CTCGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
GTTTCGCATTGCGATTTTG
Found at i:2559660 original size:34 final size:34
Alignment explanation
Indices: 2559615--2559696 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
2559605 GCGATTTTGG
* * * *
2559615 TTTCGCATTGCGATTTTCTCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATTATCTCGTTGCAATAGTCAA
2559649 TTTCGCGTTGCGATTATCTCGTTGCAATAGTCAA
1 TTTCGCGTTGCGATTATCTCGTTGCAATAGTCAA
* *
2559683 ATTCGTGTTGCGAT
1 TTTCGCGTTGCGAT
2559697 AATCATTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (34 bp):
TTTCGCGTTGCGATTATCTCGTTGCAATAGTCAA
Found at i:2559707 original size:20 final size:20
Alignment explanation
Indices: 2559684--2559746 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
2559674 AATAGTCAAA
* *
2559684 TTCGTGTTGCGATAATCATT
1 TTCGTGTTGCGATAATAAGT
**
2559704 TTCGTGTTGCGATTTTAAGT
1 TTCGTGTTGCGATAATAAGT
**
2559724 TTCGTGTTGCGATTTTAAGT
1 TTCGTGTTGCGATAATAAGT
2559744 TTC
1 TTC
2559747 AGAAACTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.16, C:0.13, G:0.22, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATAATAAGT
Found at i:2560323 original size:21 final size:21
Alignment explanation
Indices: 2560227--2560330 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 21
2560217 GACTCACCTG
* *
2560227 TCATCGTTCAAGAGGCCTCT-
1 TCATCATTCAAGAGGCCCCTA
* *
2560247 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCATTCAAGAGGCCCCTA
** * *
2560269 TCATCCCTCAAGAGTCCCCTC
1 TCATCATTCAAGAGGCCCCTA
* *
2560290 TCACCGTTCAAGAGGCCCCTA
1 TCATCATTCAAGAGGCCCCTA
* *
2560311 TCATCATTGAAGAGGTCCCT
1 TCATCATTCAAGAGGCCCCT
2560331 CCCAACATTC
Statistics
Matches: 66, Mismatches: 16, Indels: 3
0.78 0.19 0.04
Matches are distributed among these distances:
20 1 0.02
21 64 0.97
22 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (21 bp):
TCATCATTCAAGAGGCCCCTA
Found at i:2561785 original size:36 final size:30
Alignment explanation
Indices: 2561705--2561768 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
2561695 ATAAGAGTTG
*
2561705 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
2561735 ATTTGTTTAATTGATGTGTAAATAATTATT
1 ATTTGTTTAATTGATGTGTAAATAATTATT
2561765 ATTT
1 ATTT
2561769 TTGCTTGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTATT
Found at i:2561947 original size:20 final size:20
Alignment explanation
Indices: 2561922--2562177 Score: 163
Period size: 20 Copynumber: 13.8 Consensus size: 20
2561912 GATTTTCTCA
*
2561922 TTGCGATAGTCAAATTCCCG
1 TTGCGATAGTCAAATTCGCG
*
2561942 TTGCGATAATCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* *
2561962 TTGTGATAGTC-ATTTCGCG
1 TTGCGATAGTCAAATTCGCG
* *
2561981 TTGC-A-A-T--TA-TCTCG
1 TTGCGATAGTCAAATTCGCG
*
2561995 TTGCGATAGTCAAATTCGTG
1 TTGCGATAGTCAAATTCGCG
* *
2562015 TTGCGATAGTTAAATTCGTG
1 TTGCGATAGTCAAATTCGCG
** *
2562035 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCG
*
2562055 TTGCGAT--T---A-TCCCG
1 TTGCGATAGTCAAATTCGCG
*
2562069 TTGCGATAGTCAAATTCGTG
1 TTGCGATAGTCAAATTCGCG
** *
2562089 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCG
* *
2562109 TTGCGAT--T---A-TCCCT
1 TTGCGATAGTCAAATTCGCG
* * *
2562123 TTGAGATATTCAAATTCACG
1 TTGCGATAGTCAAATTCGCG
*
2562143 TTGCGATAGTCATATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
2562163 TTGTGATAGTCAAAT
1 TTGCGATAGTCAAAT
2562178 GAATGTGTAA
Statistics
Matches: 179, Mismatches: 39, Indels: 36
0.70 0.15 0.14
Matches are distributed among these distances:
14 27 0.15
15 1 0.01
16 4 0.02
17 2 0.01
18 3 0.02
19 13 0.07
20 129 0.72
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:2562072 original size:54 final size:54
Alignment explanation
Indices: 2562014--2562161 Score: 226
Period size: 54 Copynumber: 2.7 Consensus size: 54
2562004 TCAAATTCGT
2562014 GTTGCGATAGTTAAATTCGTGTTGCGATAGTCATTTTCGCATTGCGATTATCCC
1 GTTGCGATAGTTAAATTCGTGTTGCGATAGTCATTTTCGCATTGCGATTATCCC
*
2562068 GTTGCGATAGTCAAATTCGTGTTGCGATAGTCATTTTCGCATTGCGATTATCCC
1 GTTGCGATAGTTAAATTCGTGTTGCGATAGTCATTTTCGCATTGCGATTATCCC
* * ** *
2562122 TTTGAGATA-TTCAAATTCACGTTGCGATAGTCATATTCGC
1 GTTGCGATAGTT-AAATTCGTGTTGCGATAGTCATTTTCGC
2562162 GTTGTGATAG
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 1 0.01
54 85 0.99
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (54 bp):
GTTGCGATAGTTAAATTCGTGTTGCGATAGTCATTTTCGCATTGCGATTATCCC
Found at i:2562113 original size:74 final size:73
Alignment explanation
Indices: 2561881--2562115 Score: 290
Period size: 74 Copynumber: 3.2 Consensus size: 73
2561871 TCTGCATCAT
* * * * * * **
2561881 ATTCGCGTTGCGATAGTCTAATACACTTTGCGATTTTCTCATTGCGATAGTCAAATTCCCGTTGC
1 ATTCGCGTTGCGATAGTC-ATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGTGTTGC
*
2561946 GATAATCAA
65 GATAGTCAA
* * *
2561955 ATTCGCGTTGTGATAGTCATTTCGCGTTGCAATTATCTCGTTGCGATAGTCAAATTCGTGTTGCG
1 ATTCGCGTTGCGATAGTCATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGTGTTGCG
*
2562020 ATAGTTAA
66 ATAGTCAA
* *
2562028 ATTCGTGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGTGTTGC
1 ATTCGCGTTGCGATAGTCA-TTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGTGTTGC
*
2562093 GATAGTCAT
65 GATAGTCAA
* *
2562102 TTTCGCATTGCGAT
1 ATTCGCGTTGCGAT
2562116 TATCCCTTTG
Statistics
Matches: 138, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
73 61 0.44
74 77 0.56
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (73 bp):
ATTCGCGTTGCGATAGTCATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGTGTTGCG
ATAGTCAA
Found at i:2564352 original size:14 final size:14
Alignment explanation
Indices: 2564333--2564369 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2564323 TCCCGTGGCA
2564333 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
2564347 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
2564361 TTCTTCTTC
1 TT-TTCTTC
2564370 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:2564889 original size:20 final size:20
Alignment explanation
Indices: 2564866--2564964 Score: 121
Period size: 20 Copynumber: 4.9 Consensus size: 20
2564856 GATGCGTTAG
2564866 TCAGAATCGCGTTGCGATAA
1 TCAGAATCGCGTTGCGATAA
* *
2564886 TCAGAATCTCGTTGCGATAG
1 TCAGAATCGCGTTGCGATAA
*
2564906 TCAGAATCGCGTTGCGATCA
1 TCAGAATCGCGTTGCGATAA
*
2564926 -C-GTATTATCGCGTTGCGATAG
1 TCAG-A--ATCGCGTTGCGATAA
2564947 TCAGAATCGCGTTGCGAT
1 TCAGAATCGCGTTGCGAT
2564965 CACGTGTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.01
19 2 0.03
20 48 0.72
21 13 0.19
22 2 0.03
23 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
TCAGAATCGCGTTGCGATAA
Found at i:2564937 original size:21 final size:21
Alignment explanation
Indices: 2564911--2564985 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
2564901 GATAGTCAGA
2564911 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
**
2564932 ATCGCGTTGCGAT-A-GTCAGA
1 ATCGCGTTGCGATCACGT-ATT
*
2564952 ATCGCGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACGTATT
2564973 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
2564986 TTACATATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
19 2 0.04
20 15 0.33
21 27 0.59
22 2 0.04
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.31
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:2565002 original size:20 final size:20
Alignment explanation
Indices: 2564974--2565026 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
2564964 TCACGTGTTA
*
2564974 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
2564994 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
2565014 TCGCATTGCGATT
1 TCGCATTGCGATT
2565027 ATCTAAAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:2565005 original size:41 final size:41
Alignment explanation
Indices: 2564858--2564985 Score: 181
Period size: 41 Copynumber: 3.1 Consensus size: 41
2564848 AATTCAGTGA
* * *
2564858 TGCGTTAGTCAGAATCGCGTTGCGATAATCAG-A--ATCTCGT
1 TGCGATAGTCAGAATCGCGTTGCGATCA-C-GTATTATCGCGT
2564898 TGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
*
2564939 TGCGATAGTCAGAATCGCGTTGCGATCACGTGTTATCGCGT
1 TGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
2564980 TGCGAT
1 TGCGAT
2564986 TTACATATTC
Statistics
Matches: 81, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
38 1 0.01
39 2 0.02
40 26 0.32
41 52 0.64
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (41 bp):
TGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGT
Found at i:2565136 original size:19 final size:19
Alignment explanation
Indices: 2565112--2565148 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2565102 TGTGATAATG
*
2565112 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
2565131 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
2565149 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:2565769 original size:16 final size:16
Alignment explanation
Indices: 2565750--2565789 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2565740 CCAAAAATAA
2565750 GAAATCTTAATTTACT
1 GAAATCTTAATTTACT
2565766 GAAATCTTAATTTACT
1 GAAATCTTAATTTACT
*
2565782 AAAATCTT
1 GAAATCTT
2565790 TATATATCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (16 bp):
GAAATCTTAATTTACT
Found at i:2565878 original size:21 final size:20
Alignment explanation
Indices: 2565854--2565921 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
2565844 TCTCTTTTCT
*
2565854 AAAAGAATAAATAAGATTTA
1 AAAAAAATAAATAAGATTTA
* * *
2565874 AAAAAATTAAATGAGCAATTA
1 AAAAAAATAAATAAG-ATTTA
* *
2565895 CAAAAAATAAAGAA-ATTATA
1 AAAAAAATAAATAAGATT-TA
2565915 AAAAAAA
1 AAAAAAA
2565922 ACAAATAAAG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 2 0.06
20 20 0.56
21 14 0.39
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (20 bp):
AAAAAAATAAATAAGATTTA
Found at i:2565884 original size:20 final size:19
Alignment explanation
Indices: 2565853--2565920 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
2565843 ATCTCTTTTC
*
2565853 TAAAAGAATAAATAAGATT
1 TAAAAAAATAAATAAGATT
* *
2565872 TAAAAAAATTAAATGAGCAAT
1 TAAAAAAA-TAAATAAG-ATT
*
2565893 TACAAAAAATAAAGAA-ATT
1 TA-AAAAAATAAATAAGATT
2565912 ATAAAAAAA
1 -TAAAAAAA
2565921 AACAAATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 15 0.38
20 9 0.23
21 9 0.23
22 6 0.15
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.22
Consensus pattern (19 bp):
TAAAAAAATAAATAAGATT
Found at i:2565927 original size:17 final size:18
Alignment explanation
Indices: 2565890--2565927 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2565880 TTAAATGAGC
*
2565890 AATTACAAAAAATAAAGA
1 AATTACAAAAAATAAACA
*
2565908 AATTATAAAAAA-AAACA
1 AATTACAAAAAATAAACA
2565925 AAT
1 AAT
2565928 AAAGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (18 bp):
AATTACAAAAAATAAACA
Found at i:2581520 original size:24 final size:23
Alignment explanation
Indices: 2581420--2581519 Score: 80
Period size: 23 Copynumber: 4.2 Consensus size: 23
2581410 TAAATATGAA
* *
2581420 AAAAAGAAAACATATTAATATAAT
1 AAAAAGAAAA-ATAATAAAATAAT
* * *
2581444 AATAA-TAAAATAAATAAAATTTAGT
1 AAAAAGAAAAAT-AATAAAA--TAAT
2581469 AAAAAGAAAAATAATAAAATAAT
1 AAAAAGAAAAATAATAAAATAAT
2581492 AAAAACGAAATAA-AATAAAA-AAT
1 AAAAA-GAAA-AATAATAAAATAAT
2581515 AAAAA
1 AAAAA
2581520 AGGTCAAATT
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
22 2 0.03
23 24 0.39
24 15 0.24
25 16 0.26
26 5 0.08
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (23 bp):
AAAAAGAAAAATAATAAAATAAT
Found at i:2582809 original size:18 final size:18
Alignment explanation
Indices: 2582786--2582838 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
2582776 CCTGGACCAC
*
2582786 AATAAAATAAAATAAATT
1 AATAAAATAAAATAAATA
2582804 AATAAAAT-AAATAAAATA
1 AATAAAATAAAAT-AAATA
2582822 AATAATAATAATAATAA
1 AATAA-AATAA-AATAA
2582839 TAATCAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 17 0.57
19 3 0.10
20 3 0.10
21 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAAAATAAAATAAATA
Found at i:2582817 original size:22 final size:22
Alignment explanation
Indices: 2582790--2582835 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
2582780 GACCACAATA
2582790 AAATAAAATAAATTAATAA-AAT
1 AAATAAAATAAA-TAATAATAAT
2582812 AAATAAAATAAATAATAATAAT
1 AAATAAAATAAATAATAATAAT
2582834 AA
1 AA
2582836 TAATAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATAAAATAAATAATAATAAT
Found at i:2582824 original size:13 final size:14
Alignment explanation
Indices: 2582786--2582841 Score: 64
Period size: 13 Copynumber: 4.1 Consensus size: 14
2582776 CCTGGACCAC
2582786 AATAAAATAAAATA
1 AATAAAATAAAATA
*
2582800 AAT-TAATAAAATA
1 AATAAAATAAAATA
2582813 AATAAAAT-AAAT-
1 AATAAAATAAAATA
2582825 AATAATAATAATAATA
1 AATAA-AATAA-AATA
2582841 A
1 A
2582842 TCAAAAAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 5 0.14
13 19 0.54
14 7 0.20
15 3 0.09
16 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:2582836 original size:9 final size:8
Alignment explanation
Indices: 2582786--2582847 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 8
2582776 CCTGGACCAC
2582786 AATAAAAT
1 AATAAAAT
*
2582794 AAAATAAATT
1 --AATAAAAT
2582804 AATAAAAT
1 AATAAAAT
2582812 AAATAAAAT
1 -AATAAAAT
2582821 AAATAATAAT
1 -AATAA-AAT
2582831 AATAATAAT
1 AATAA-AAT
2582840 AATCAAAA
1 AAT-AAAA
2582848 AGTAAAACTA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
8 7 0.15
9 28 0.60
10 12 0.26
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAAAAT
Found at i:2582932 original size:36 final size:37
Alignment explanation
Indices: 2582851--2583175 Score: 249
Period size: 38 Copynumber: 8.6 Consensus size: 37
2582841 ATCAAAAAGT
* * * * *
2582851 AAAACTATCTATTATCTAAAATTTT-AAAAAG-TTTTC
1 AAAACTATATATTATAT-ATATTTTCAAAATGTTTTTA
*
2582887 AAAACTATATATTATATA-GTTTTCAAAATGTTTTTGAAA
1 AAAACTATATATTATATATATTTTCAAAATGTTTTT---A
*
2582926 ATTATATAATATATATATATATATATATATTCAAAA--TTTTTA
1 A--A-A-ACTATATAT-TATATATAT-T-TTCAAAATGTTTTTA
2582968 AAAACTATATATTATATA-AGTTTTCAAAATG-TTTTA
1 AAAACTATATATTATATATA-TTTTCAAAATGTTTTTA
2583004 AAAACTATATATTATATATATTTTCAAAATGTTTTTAA
1 AAAACTATATATTATATATATTTTCAAAATGTTTTT-A
* * *
2583042 AAAACCATATATTATATA-AGTTTTCAAAATGATTTTC
1 AAAACTATATATTATATATA-TTTTCAAAATGTTTTTA
* * *
2583079 AAAACTATATAATATATACATTTTCAAAAAT-TGTTTTC
1 AAAACTATATATTATATATATTTTC-AAAATGT-TTTTA
* **
2583117 AAAACTATATATTATATATAAATTTTAAAAAT-CATTTA
1 AAAACTATATATTATATAT--ATTTTCAAAATGTTTTTA
*
2583155 CAAA-TATATATATATATATAT
1 AAAACTATATAT-TATATATAT
2583176 ATATATAAAA
Statistics
Matches: 242, Mismatches: 21, Indels: 52
0.77 0.07 0.17
Matches are distributed among these distances:
34 4 0.02
35 13 0.05
36 57 0.24
37 41 0.17
38 82 0.34
39 7 0.03
40 6 0.02
41 1 0.00
42 3 0.01
43 8 0.03
44 6 0.02
45 6 0.02
46 1 0.00
47 7 0.03
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (37 bp):
AAAACTATATATTATATATATTTTCAAAATGTTTTTA
Done.