Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007980.1 Hibiscus syriacus cultivar Beakdansim tig00110419_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: 1499237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:816244 original size:15 final size:15
Alignment explanation
Indices: 816202--816252 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
816192 ATTGAGGAAT
816202 TTGAGGTGCAGAAAA
1 TTGAGGTGCAGAAAA
* *
816217 TTG-GTGTGTAGAAAT
1 TTGAG-GTGCAGAAAA
816232 TTGAGGTGCAGAAAA
1 TTGAGGTGCAGAAAA
816247 TTGAGG
1 TTGAGG
816253 AATTTGTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.35, T:0.27
Consensus pattern (15 bp):
TTGAGGTGCAGAAAA
Found at i:818034 original size:20 final size:20
Alignment explanation
Indices: 818009--818061 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
817999 ATAGGCTTCA
818009 GTTATAACAACCTCCAAACG
1 GTTATAACAACCTCCAAACG
818029 GTTATAACAACCTCCAAACG
1 GTTATAACAACCTCCAAACG
818049 GTTATAACAACCT
1 GTTATAACAACCT
818062 TTAACACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (20 bp):
GTTATAACAACCTCCAAACG
Found at i:819259 original size:25 final size:23
Alignment explanation
Indices: 819226--819273 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
819216 CATTTATCTT
819226 TTAAATTTAATAAAAAAAGTATATA
1 TTAAATTT-AT-AAAAAAGTATATA
* *
819251 TTAATTTTATTAAAAAGTATATA
1 TTAAATTTATAAAAAAGTATATA
819274 ATTTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 2 0.10
25 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
TTAAATTTATAAAAAAGTATATA
Found at i:820227 original size:2 final size:2
Alignment explanation
Indices: 820220--820258 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
820210 TAATTATCCC
820220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
820259 TTACATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:820893 original size:30 final size:30
Alignment explanation
Indices: 820843--820904 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
820833 TTCACATTCC
820843 AATGATATTTTGCAATAAATCAAT-ATATA
1 AATGATATTTTGCAATAAATCAATAATATA
**
820872 AATGATATTTTCGTGATAAATCAATAATATA
1 AATGATATTTT-GCAATAAATCAATAATATA
820903 AA
1 AA
820905 GACCAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (30 bp):
AATGATATTTTGCAATAAATCAATAATATA
Found at i:821487 original size:9 final size:9
Alignment explanation
Indices: 821465--821502 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
821455 CTGTAAGGGT
821465 ACTGGTTC-
1 ACTGGTTCA
821473 ACTGGTTCA
1 ACTGGTTCA
821482 ACTGGTTCA
1 ACTGGTTCA
821491 ACTGGGTTCA
1 ACT-GGTTCA
821501 AC
1 AC
821503 CGTAGTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.29
9 12 0.43
10 8 0.29
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (9 bp):
ACTGGTTCA
Found at i:821487 original size:17 final size:19
Alignment explanation
Indices: 821465--821523 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 19
821455 CTGTAAGGGT
821465 ACTGGTTC-ACT-GGTTCA
1 ACTGGTTCAACTGGGTTCA
821482 ACTGGTTCAACTGGGTTCA
1 ACTGGTTCAACTGGGTTCA
* *
821501 ACCGTAGTTCAATTGGGTTCA
1 A-C-TGGTTCAACTGGGTTCA
821522 AC
1 AC
821524 CGTGGTTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 8 0.22
18 3 0.08
19 7 0.19
20 2 0.06
21 16 0.44
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (19 bp):
ACTGGTTCAACTGGGTTCA
Found at i:821500 original size:10 final size:10
Alignment explanation
Indices: 821468--821523 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
821458 TAAGGGTACT
821468 GGTTC-ACT-
1 GGTTCAACTG
821476 GGTTCAACT-
1 GGTTCAACTG
821485 GGTTCAACTG
1 GGTTCAACTG
*
821495 GGTTCAACCG
1 GGTTCAACTG
* *
821505 TAGTTCAATTG
1 -GGTTCAACTG
821516 GGTTCAAC
1 GGTTCAAC
821524 CGTGGTTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 5 0.13
9 12 0.31
10 15 0.38
11 7 0.18
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (10 bp):
GGTTCAACTG
Found at i:821512 original size:21 final size:21
Alignment explanation
Indices: 821486--821526 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
821476 GGTTCAACTG
821486 GTTCAACTGGGTTCAACCGTA
1 GTTCAACTGGGTTCAACCGTA
*
821507 GTTCAATTGGGTTCAACCGT
1 GTTCAACTGGGTTCAACCGT
821527 GGTTGAACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (21 bp):
GTTCAACTGGGTTCAACCGTA
Found at i:821530 original size:11 final size:11
Alignment explanation
Indices: 821475--821536 Score: 51
Period size: 10 Copynumber: 6.0 Consensus size: 11
821465 ACTGGTTCAC
821475 TGGTTCAA-C-
1 TGGTTCAACCG
*
821484 TGGTTCAACTG
1 TGGTTCAACCG
821495 -GGTTCAACCG
1 TGGTTCAACCG
* **
821505 TAGTTCAATTG
1 TGGTTCAACCG
821516 -GGTTCAACCG
1 TGGTTCAACCG
*
821526 TGGTTGAACCG
1 TGGTTCAACCG
821537 GATTTTATAT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
9 8 0.20
10 16 0.40
11 16 0.40
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (11 bp):
TGGTTCAACCG
Found at i:825282 original size:5 final size:5
Alignment explanation
Indices: 825266--825295 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
825256 TTCACTCTAA
825266 ACCCG AACCCG ACCCG ACCCG ACCCG ACCC
1 ACCCG -ACCCG ACCCG ACCCG ACCCG ACCC
825296 AAATATCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.23, C:0.60, G:0.17, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:825638 original size:259 final size:267
Alignment explanation
Indices: 825067--825684 Score: 857
Period size: 281 Copynumber: 2.3 Consensus size: 267
825057 AAGACCAAAC
*
825067 CCGACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCCAAAATAATAAAAAAATT
1 CCGACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAATAATAAAAAAATT
* *
825132 ATTTTTATTCAATAAAAACAGTGATTTAATTGAAAAAATATATATAGAGGGGTATTATTGTAATT
66 ATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAATATATATAGAGGGATATTATTGTAATT
* * * *
825197 ATTCCTAAATATATAAGGTAAAATTATATATTTTTTGGGTCGGGTCGGGTCGGGTATTTTTCACT
131 ATACCTAAATATATAAGGTAAAATTATATATTATTT--GT---GTCGGGTCAGGTATTTTTCACC
825262 CTAAACCCGAACCCGACCCGACCCGACCCGACCCAAATATCACACTTAAAAAAGACCGACCCGAT
191 CT-AA-CC-AACCCGA--C-ACCCGACCCGACCCAAATATCACACTTAAAAAAGACCGACCCGAT
825327 CCGACCAAAATAAAGTTT
250 CCGACCAAAATAAAGTTT
**
825345 CACCCGACCCGACCCGACCCGAATATATGAATTAGAAATTCGACCCGACCCGAAATAATAAAAAA
1 ---CCGACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAATAATAAAAAA
*
825410 ATTATTTTTATTCAATAAAAATAGTGACTTAATTGAAAAAAAATTATATATAGAGGGATATTATT
63 ATTATTTTTATTCAATAAAAACAGTGACTTAATTG--AAAAAA-TATATATAGAGGGATATTATT
825475 GTAATTATACCTAAATATATAAGGTAAAATTATATA-TATTT-T-T-GGGTCAGGTATTTTTCAC
125 GTAATTATACCTAAATATATAAGGTAAAATTATATATTATTTGTGTCGGGTCAGGTATTTTTCAC
* ** *
825536 CCT-A-C-ACCCGA-ACTCGACCCGACCTGAATATTACACTTAAAAAA-ACCGACCCGA-CTCGA
190 CCTAACCAACCCGACACCCGACCCGACCCAAATATCACACTTAAAAAAGACCGACCCGATC-CGA
825595 CCAAAATAAAGTTT
254 CCAAAATAAAGTTT
825609 -C-ACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAATAATAAAAAAA-T
1 CCGACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAATAATAAAAAAATT
825671 ATTTTTATTCAATA
66 ATTTTTATTCAATA
825685 CATGAATAAG
Statistics
Matches: 317, Mismatches: 16, Indels: 31
0.87 0.04 0.09
Matches are distributed among these distances:
258 15 0.05
259 58 0.18
260 1 0.00
263 1 0.00
264 27 0.09
265 29 0.09
269 6 0.02
271 1 0.00
273 1 0.00
275 19 0.06
276 1 0.00
280 1 0.00
281 92 0.29
283 10 0.03
284 55 0.17
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.26
Consensus pattern (267 bp):
CCGACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCCGAAATAATAAAAAAATT
ATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAATATATATAGAGGGATATTATTGTAATT
ATACCTAAATATATAAGGTAAAATTATATATTATTTGTGTCGGGTCAGGTATTTTTCACCCTAAC
CAACCCGACACCCGACCCGACCCAAATATCACACTTAAAAAAGACCGACCCGATCCGACCAAAAT
AAAGTTT
Found at i:826395 original size:17 final size:18
Alignment explanation
Indices: 826373--826412 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
826363 TTTTCAATAA
*
826373 AAAATATATAA-AAATTT
1 AAAATATAAAATAAATTT
826390 AAAATATAAAATAAATTT
1 AAAATATAAAATAAATTT
*
826408 TAAAT
1 AAAAT
826413 TTCATGGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATATAAAATAAATTT
Found at i:827713 original size:21 final size:19
Alignment explanation
Indices: 827680--827724 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
827670 TCGTGGGTAC
*
827680 CGATATTGACCCTTTAGTAT
1 CGATACTGACCC-TTAGTAT
*
827700 CGATACTGAACCCTTGGTAT
1 CGATACTG-ACCCTTAGTAT
827720 CGATA
1 CGATA
827725 TCCATATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (19 bp):
CGATACTGACCCTTAGTAT
Found at i:829229 original size:18 final size:18
Alignment explanation
Indices: 829206--829258 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
829196 AGGGATTATC
829206 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
829224 AGTGGTCCCTCGAGACAT
1 AGTGGTCCTTCGGGACAT
*
829242 AGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
829259 AATACTCAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.25
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:836106 original size:18 final size:18
Alignment explanation
Indices: 836083--836135 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
836073 AGGGATTATC
*
836083 AGTGGTCCTTCGAGACAT
1 AGTGGTCCTTCGGGACAT
836101 AGTGGT-CTCTCGGGACAT
1 AGTGGTCCT-TCGGGACAT
836119 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
836136 AATACTCAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 2 0.06
18 28 0.88
19 2 0.06
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:841641 original size:21 final size:21
Alignment explanation
Indices: 841617--841680 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
841607 GCAAATTCGC
841617 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
841638 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* * * *
841658 TTTCCATTTCGTGTTGCAATA
1 GTTGCATTTCGCGTTGCGATA
841679 GT
1 GT
841681 CTACAGTTGT
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:841717 original size:19 final size:19
Alignment explanation
Indices: 841693--841756 Score: 128
Period size: 19 Copynumber: 3.4 Consensus size: 19
841683 ACAGTTGTCT
841693 TTGCGATTTTCCAAATTCG
1 TTGCGATTTTCCAAATTCG
841712 TTGCGATTTTCCAAATTCG
1 TTGCGATTTTCCAAATTCG
841731 TTGCGATTTTCCAAATTCG
1 TTGCGATTTTCCAAATTCG
841750 TTGCGAT
1 TTGCGAT
841757 AGTCTACAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.42
Consensus pattern (19 bp):
TTGCGATTTTCCAAATTCG
Found at i:841776 original size:22 final size:22
Alignment explanation
Indices: 841747--841799 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
841737 TTTTCCAAAT
*
841747 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTATACAGTTG
*
841769 TTGTTGCGATAGTATACAGTTG
1 TCGTTGCGATAGTATACAGTTG
841791 TCGTTGCGA
1 TCGTTGCGA
841800 AAATTCGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (22 bp):
TCGTTGCGATAGTATACAGTTG
Found at i:842447 original size:6 final size:6
Alignment explanation
Indices: 842436--842460 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
842426 TCGTCTCGTC
842436 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
842461 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:851389 original size:16 final size:17
Alignment explanation
Indices: 851358--851390 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
851348 ATTAATACAT
*
851358 AATTTATAAAACAATTG
1 AATTTATAAAAAAATTG
851375 AATTTA-AAAAAAATTG
1 AATTTATAAAAAAATTG
851391 GGTAAAGGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (17 bp):
AATTTATAAAAAAATTG
Found at i:851973 original size:35 final size:35
Alignment explanation
Indices: 851927--851998 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
851917 CCAACAAAGA
* *
851927 AGAGTTGGATTATGACTCAAATATTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
851962 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
851997 AG
1 AG
851999 GGTTTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:852520 original size:2 final size:2
Alignment explanation
Indices: 852513--852552 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
852503 TATACTTTAT
852513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
852553 CTTTGATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:854483 original size:30 final size:29
Alignment explanation
Indices: 854449--854505 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
854439 CACTGCGAAA
854449 ACATCAGACTAGAGAGGGCATATATCAAAC
1 ACATCAGACTAGAGAGGGCATAT-TCAAAC
* *
854479 ACATCATATTAGAGAGGGCATATTCAA
1 ACATCAGACTAGAGAGGGCATATTCAA
854506 GAACGAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (29 bp):
ACATCAGACTAGAGAGGGCATATTCAAAC
Found at i:861348 original size:120 final size:119
Alignment explanation
Indices: 861184--861402 Score: 293
Period size: 120 Copynumber: 1.8 Consensus size: 119
861174 TCGAGAGTAT
* * *
861184 ATTTCAACTTCACAACGAAGGATATCTAGCTCGAATTCAAACTTCACAATAAAGGGGTCATCCAC
1 ATTTCAACTTCACAACGAAGGATATCAAGCTCGAACTCAAACTTCACAATAAAGGGGCCATCCAC
*
861249 GGTTTCAACTCCACGACGAAGGGA-ATCGTGTCCACCCGCAACATACAATACTTGG
66 GATTTCAACTCCACGACGAA-GGATATCGTG-CCACCCGCAACATACAATACTTGG
* * *
861304 ATTTCAACTTCACGACGAAGGATATTCAAG-TC-AAGGCTC-AACTTCACGATGAAGGGGCCATC
1 ATTTCAACTTCACAACGAAGGATA-TCAAGCTCGAA--CTCAAACTTCACAATAAAGGGGCCATC
*
861366 CACGATTTCAACTCCACGACGGAGGATATCGTGCCAC
63 CACGATTTCAACTCCACGACGAAGGATATCGTGCCAC
861403 TGGAGACAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
119 9 0.10
120 72 0.83
121 6 0.07
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (119 bp):
ATTTCAACTTCACAACGAAGGATATCAAGCTCGAACTCAAACTTCACAATAAAGGGGCCATCCAC
GATTTCAACTCCACGACGAAGGATATCGTGCCACCCGCAACATACAATACTTGG
Found at i:861531 original size:106 final size:106
Alignment explanation
Indices: 861370--861617 Score: 259
Period size: 106 Copynumber: 2.3 Consensus size: 106
861360 GCCATCCACG
* * * ** *
861370 ATTTCAACTCCACGACGGAGGATATCGTGCCACTGGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACGACAGAGGATAT--TG-GACTCAAGACAACACAAGCTCAACTTCACAACGAA
* ** *
861435 -GGGACGGCTGATTGTCAATGAACAATTTCCCAGTTTCAAAGCCA
63 GGGGA-GGCTGACTGTCAACAAACAATTTCCCAGTTCCAAAGCCA
* **
861479 ATTTCAACTTCAC-AGC-GAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACGGCGAAG
1 ATTTCAACTTCACGA-CAG-AGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAACGAAG
* * * * *
861542 GGGAGGTTGGCTGTTAACAAATAATTTCCCAGTTCCAGAGCCA
64 GGGAGGCTGACTGTCAACAAACAATTTCCCAGTTCCAAAGCCA
861585 ATTTCAACTTCACGACAGAGGATATTGGACTCA
1 ATTTCAACTTCACGACAGAGGATATTGGACTCA
861618 GAGCAATACA
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
106 87 0.74
107 8 0.07
108 2 0.02
109 20 0.17
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (106 bp):
ATTTCAACTTCACGACAGAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAACGAAGGG
GAGGCTGACTGTCAACAAACAATTTCCCAGTTCCAAAGCCA
Found at i:861814 original size:106 final size:106
Alignment explanation
Indices: 861681--861876 Score: 279
Period size: 106 Copynumber: 1.8 Consensus size: 106
861671 CAGGCTCAAC
* * **
861681 ACTCAAGACAACATAAGTTCAACTTCACAACGAAGGGAC-AGCTGGTTGTCAACAAACAACTTCC
1 ACTCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGA-CTGACTGTCAACAAACAACTTCC
*
861745 CAATTT-CAGAGTCAATTTCAACTTCATAGCGAAGGATATTAG
65 C-ATTTCCAGAGCCAATTTCAACTTCATAGCGAAGGATATTAG
* * * *
861787 ACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTCCC
1 ACTCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGACTGTCAACAAACAACTTCCC
861852 ATTTCCAGAGCCAATTTCAACTTCA
66 ATTTCCAGAGCCAATTTCAACTTCA
861877 CGACGGAGGA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
105 4 0.05
106 74 0.94
107 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (106 bp):
ACTCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGACTGACTGTCAACAAACAACTTCCC
ATTTCCAGAGCCAATTTCAACTTCATAGCGAAGGATATTAG
Found at i:861912 original size:280 final size:281
Alignment explanation
Indices: 861406--861961 Score: 837
Period size: 280 Copynumber: 2.0 Consensus size: 281
861396 GTGCCACTGG
* ** * *
861406 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAATGAACAATTTCCCAGTTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGATTGTCAACAAACAACTTCCCAATTT
* * *
861471 CAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACG
66 CAAAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACA
** * * *
861536 GCGAAGGGGAGGTTGGCTGTTAACAAATAATTTCCCAGTTCCAGAGCCAATTTCAACTTCACGAC
131 GCGAAGGGGAGACTGACTGTCAACAAACAATTTCCCAGTTCCAGAGCCAATTTCAACTTCACGAC
* *
861601 AGAGGATATTGGACTCAGAGCAATACAACTTAC-TTGGATTTCAACTTCACGATGAAGGATATCC
196 AGAGGATATTGGACTCAGAGCAACACAACTTACATTGGATTTCAACTTCACGACGAAGGATATCC
861665 AATTAC-CAGGCTCAACACTCA
261 AATT-CTCAGGCTCAACACTCA
* *
861686 AGACAACATAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGATTGTCAACAAACAACTTCCCAATTT
* * * *
861751 CAGAGTCAATTTCAACTTCATAGCGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACA
66 CAAAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACA
* *
861816 GCGAAGGGGCGACTGACTGTCAACAAACAATTTCCCATTTCCAGAGCCAATTTCAACTTCACGAC
131 GCGAAGGGGAGACTGACTGTCAACAAACAATTTCCCAGTTCCAGAGCCAATTTCAACTTCACGAC
* * * * *
861881 GGAGGATATTGGACTCGGAGCAACGCAACTTACATTGGATTTCAATTTCATGACGAAGGATATCC
196 AGAGGATATTGGACTCAGAGCAACACAACTTACATTGGATTTCAACTTCACGACGAAGGATATCC
861946 AATTCTCAGGCTCAAC
261 AATTCTCAGGCTCAAC
861962 TTCACGACGA
Statistics
Matches: 246, Mismatches: 28, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
280 204 0.83
281 42 0.17
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (281 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGATTGTCAACAAACAACTTCCCAATTT
CAAAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACA
GCGAAGGGGAGACTGACTGTCAACAAACAATTTCCCAGTTCCAGAGCCAATTTCAACTTCACGAC
AGAGGATATTGGACTCAGAGCAACACAACTTACATTGGATTTCAACTTCACGACGAAGGATATCC
AATTCTCAGGCTCAACACTCA
Found at i:862428 original size:35 final size:35
Alignment explanation
Indices: 862382--862453 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
862372 CCAACAAAGA
862382 AGAGTTGGATTAGGACTCAAAAACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAAAACTAGTCTAAAAT
*
862417 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAAAACTAGTCTAAAAT
862452 AG
1 AG
862454 GGTTTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAAAACTAGTCTAAAAT
Found at i:863039 original size:16 final size:15
Alignment explanation
Indices: 863012--863055 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
863002 ATTCTTTATA
*
863012 ATTTCTTTTATTTCT
1 ATTTTTTTTATTTCT
* *
863027 TTTTTTATTTATTACT
1 ATTTTT-TTTATTTCT
863043 ATTTTTTTTATTT
1 ATTTTTTTTATTT
863056 TAATACTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTTTTATTTCT
Found at i:863110 original size:2 final size:2
Alignment explanation
Indices: 863103--863214 Score: 203
Period size: 2 Copynumber: 57.5 Consensus size: 2
863093 TATAAGTTGT
863103 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
863145 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
863187 TA TA TA TA TA T- TA TA TA T- TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
863215 TATTTGCTAT
Statistics
Matches: 107, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
1 3 0.03
2 104 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:863247 original size:12 final size:13
Alignment explanation
Indices: 863103--863242 Score: 172
Period size: 12 Copynumber: 11.3 Consensus size: 13
863093 TATAAGTTGT
863103 TATATATATA-TA
1 TATATATATATTA
863115 TATATATATA-TA
1 TATATATATATTA
863127 TATATATATA-TA
1 TATATATATATTA
863139 TATATATATA-TA
1 TATATATATATTA
863151 TATATATATA-TA
1 TATATATATATTA
863163 TATATATATA-TA
1 TATATATATATTA
863175 TATATATATA-TA
1 TATATATATATTA
863187 TATATATATATTA
1 TATATATATATTA
863200 TATAT-TATATTA
1 TATATATATATTA
* *
863212 TATTATTTGCTATTA
1 TA-TATAT-ATATTA
*
863227 TATATTTATATT-
1 TATATATATATTA
863239 TATA
1 TATA
863243 ATTATCATTA
Statistics
Matches: 122, Mismatches: 2, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
12 95 0.78
13 14 0.11
14 6 0.05
15 7 0.06
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.54
Consensus pattern (13 bp):
TATATATATATTA
Found at i:863264 original size:12 final size:11
Alignment explanation
Indices: 863109--863264 Score: 54
Period size: 14 Copynumber: 12.6 Consensus size: 11
863099 TTGTTATATA
863109 TATATATATATAT
1 TATAT-TATA-AT
863122 ATATATATATATAT
1 -TATAT-TATA-AT
863136 ATATATATATATAT
1 -TATAT-TATA-AT
863150 ATATATATATATAT
1 -TATAT-TATA-AT
863164 ATATATATATATAT
1 -TATAT-TATA-AT
863178 ATATATATATATAT
1 -TATAT-TATA-AT
863192 ATATATTATATAT
1 -TATATTATA-AT
863205 TATATTAT-AT
1 TATATTATAAT
*
863215 TAT-TTGCT-AT
1 TATATT-ATAAT
863225 TATA-TAT--T
1 TATATTATAAT
863233 TATATTTATAAT
1 TATA-TTATAAT
863245 TATCATTATAAT
1 TAT-ATTATAAT
863257 TGATATTA
1 T-ATATTA
863265 CTATTTTACT
Statistics
Matches: 132, Mismatches: 2, Indels: 18
0.87 0.01 0.12
Matches are distributed among these distances:
8 5 0.04
9 3 0.02
10 15 0.11
12 24 0.18
13 10 0.08
14 75 0.57
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (11 bp):
TATATTATAAT
Found at i:863264 original size:38 final size:35
Alignment explanation
Indices: 863115--863272 Score: 119
Period size: 38 Copynumber: 4.3 Consensus size: 35
863105 TATATATATA
* *
863115 TATATATATATATA-TATATATATATATATAT-ATAT
1 TATATATTTATATATTATAT-TATAT-TATTTGATAT
* *
863150 ATATATATATATATATATATATATATATATATAT-ATAT
1 -TATATATTTATATAT-TATAT-TATAT-TATTTGATAT
*
863188 ATATATATATTATATATTATATTATATTATTTGCTAT
1 -TATATAT-TTATATATTATATTATATTATTTGATAT
863225 TATATATTTATAT-TTATAATTATCATTATAATTGATAT
1 TATATATTTATATATTAT-ATTAT-ATTAT--TTGATAT
863263 TACTAT-TTTA
1 TA-TATATTTA
863273 CTTTTAACTT
Statistics
Matches: 109, Mismatches: 4, Indels: 16
0.84 0.03 0.12
Matches are distributed among these distances:
34 4 0.04
35 11 0.10
36 30 0.28
37 8 0.07
38 46 0.42
39 10 0.09
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (35 bp):
TATATATTTATATATTATATTATATTATTTGATAT
Found at i:863269 original size:44 final size:42
Alignment explanation
Indices: 863105--863269 Score: 154
Period size: 42 Copynumber: 4.0 Consensus size: 42
863095 TAAGTTGTTA
*
863105 TATATATATATATA-TATATA-TATA-TATA-TATATA-TA-
1 TATATATATATATATTATATATTATATTATATTATTTACTAT
*
863141 TATATATATATATA-TATATA-TATATATATATATATATA-TAT
1 TATATATATATATATTATATATTATAT-TATAT-TATTTACTAT
*
863182 ATATATATATATATATTATATATTATATTATATTATTTGCTAT
1 -TATATATATATATATTATATATTATATTATATTATTTACTAT
*
863225 TATATATTTATAT-TTATA-ATTATCATTATAATTGATATTACTAT
1 TATATATATATATATTATATATTAT-ATTAT-ATT-AT-TTACTAT
863269 T
1 T
863270 TTACTTTTAA
Statistics
Matches: 112, Mismatches: 4, Indels: 18
0.84 0.03 0.13
Matches are distributed among these distances:
36 24 0.21
38 4 0.04
40 13 0.12
41 10 0.09
42 33 0.29
43 16 0.14
44 12 0.11
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (42 bp):
TATATATATATATATTATATATTATATTATATTATTTACTAT
Found at i:864891 original size:2 final size:2
Alignment explanation
Indices: 864886--864925 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
864876 TATATTTTAG
864886 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
864926 TGAATATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:865752 original size:37 final size:36
Alignment explanation
Indices: 865693--865812 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
865683 ATCCCATTAT
* *
865693 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
865729 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
865765 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
865800 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
865813 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:865768 original size:21 final size:21
Alignment explanation
Indices: 865744--865804 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
865734 TTCAAAGAAA
865744 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
865765 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
865779 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
865800 CATTT
1 CATTT
865805 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:865821 original size:35 final size:36
Alignment explanation
Indices: 865695--865839 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
865685 CCCATTATCA
*
865695 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
865730 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
865767 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
865803 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
865837 TTT
1 TTT
865840 AATAATTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:870375 original size:37 final size:36
Alignment explanation
Indices: 870316--870435 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
870306 ATCTCATTAT
* *
870316 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
870352 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
870388 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
870423 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
870436 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:870391 original size:21 final size:21
Alignment explanation
Indices: 870367--870427 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
870357 TTCAAAGAAA
870367 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
870388 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
870402 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
870423 CATTT
1 CATTT
870428 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:870444 original size:35 final size:36
Alignment explanation
Indices: 870318--870462 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
870308 CTCATTATCA
*
870318 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
870353 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
870390 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
870426 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
870460 TTT
1 TTT
870463 AATAATTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:871697 original size:3 final size:3
Alignment explanation
Indices: 871689--871750 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
871679 TCTCAAGTTT
871689 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
871737 AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AA
871751 ATACGTGACT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:872164 original size:37 final size:37
Alignment explanation
Indices: 872111--872207 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
872101 CATTTTCGTC
872111 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
872148 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* *
872185 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
872208 GATAAGATCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:872718 original size:62 final size:63
Alignment explanation
Indices: 872638--872778 Score: 162
Period size: 64 Copynumber: 2.2 Consensus size: 63
872628 ATTATATAAA
* * * *
872638 TATATATACGTATGTTTTTTTAAATGATTTTCAATT-G-ATTTTTTTACACTATATATTATTA-T
1 TATATATACATATATTTTTTT-AATGATATTCAATTGGTATTTTTTAACACTATAT-TTATTATT
* * *
872700 TATATATACATATATTTTTTTAATTATATTCATTTGGTTATTTTTTAATACTATATTTATTATT
1 TATATATACATATATTTTTTTAATGATATTCAATTGG-TATTTTTTAACACTATATTTATTATT
*
872764 TATATATATATATAT
1 TATATATACATATAT
872779 ACTTTTTTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
61 11 0.16
62 20 0.30
63 6 0.09
64 30 0.45
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (63 bp):
TATATATACATATATTTTTTTAATGATATTCAATTGGTATTTTTTAACACTATATTTATTATT
Found at i:872765 original size:19 final size:19
Alignment explanation
Indices: 872737--872774 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
872727 ATTCATTTGG
*
872737 TTATTTTTTA-ATACTATAT
1 TTATTATTTATATA-TATAT
872756 TTATTATTTATATATATAT
1 TTATTATTTATATATATAT
872775 ATATACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTATTTATATATATAT
Found at i:873022 original size:12 final size:12
Alignment explanation
Indices: 872984--873032 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
872974 TATTTGTTTA
872984 TATTAT-ATTA-
1 TATTATCATTAT
*
872994 TATTTTCA-TAT
1 TATTATCATTAT
873005 TATTATCATTAT
1 TATTATCATTAT
* *
873017 TGTTATGATTAT
1 TATTATCATTAT
873029 TATT
1 TATT
873033 TTTCTATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 7 0.23
11 8 0.26
12 16 0.52
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (12 bp):
TATTATCATTAT
Found at i:876187 original size:16 final size:16
Alignment explanation
Indices: 876168--876214 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
876158 GGGCAAAAAG
876168 AAAAAA-GAAAAGAAGC
1 AAAAAACGAAAAGAA-C
*
876184 AAAAAAGGAAAA-AAC
1 AAAAAACGAAAAGAAC
876199 AAAAGAACGAAAAGAA
1 AAAA-AACGAAAAGAA
876215 AGAACAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.19
16 15 0.56
17 7 0.26
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAACGAAAAGAAC
Found at i:876211 original size:24 final size:23
Alignment explanation
Indices: 876162--876223 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
876152 CAAAAAGGGC
*
876162 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAACAAAAGAAGCA
876185 AAAAAGGAAAAAACAAAAGAA-C-
1 AAAAA-GAAAAAACAAAAGAAGCA
* *
876207 GAAAAGAAAGAACAAAA
1 AAAAAGAAAAAACAAAA
876224 ATCGAAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.31
22 4 0.11
23 6 0.17
24 14 0.40
ACGTcount: A:0.77, C:0.06, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAACAAAAGAAGCA
Found at i:876237 original size:21 final size:21
Alignment explanation
Indices: 876187--876247 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
876177 AAGAAGCAAA
*
876187 AAAGGAAAA-AACAAAAGAACG
1 AAAGAAAAAGAACAAAA-AACG
* *
876208 AAA-AGAAAGAACAAAAATCG
1 AAAGAAAAAGAACAAAAAACG
*
876228 AAAGAAAAAGGGACAAAAAA
1 AAAGAAAAA-GAACAAAAAA
876248 ACACTTTCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 9 0.29
21 14 0.45
22 8 0.26
ACGTcount: A:0.72, C:0.08, G:0.18, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAGAACAAAAAACG
Found at i:876940 original size:22 final size:22
Alignment explanation
Indices: 876866--876942 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
876856 GCTACCCCAT
* *
876866 CAAACCGTTGAGCATCAAATAC
1 CAAACCTTTGAGCATCAAATGC
*
876888 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
876910 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
876932 CAAACCTTTGA
1 CAAACCTTTGA
876943 CCAAACATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:877877 original size:106 final size:106
Alignment explanation
Indices: 877689--879040 Score: 1875
Period size: 106 Copynumber: 12.9 Consensus size: 106
877679 TCGAGAGTAG
* * *
877689 AGTTCAACTTCACGACGAAGAGATCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
877754 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
877795 AGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
877860 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
877901 GGTTCAACTTCACAACGAAGGGACCGCTGGTTGTC-A-ATA-AA-----CAATTTC----CCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* *
877954 TTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * * * *
877995 AGTTCAACTTCACGATGAATGGACCGTTGGTTGTCAATAAACAACTTCCCAATTTCGGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
878060 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * * * * *
878101 AGTTCAACTTCACAACGAAGGGACCGATGATTGTCAATAAACAATTTCCCAATTTCAGAGCTAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * * *
878166 ATCAACTTCACAGTGTAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
878207 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCAAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
878272 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
878313 AGTTCAACTTCACGACGAAGGGATAGACTGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGC
1 AGTTCAACTTCACGACGAA-GG---GACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGC
*
878378 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
62 CAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
878423 AG-TCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * * * *
878487 TTCAACTTCACAACGAATGATATTGGACTCAAGATAATGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
878528 AGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
878593 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
878634 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* *
878699 TTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
878740 AGTTCAACTTCATGACGAAGGGATCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
* * * *
878805 TTTAACTTCTCAGCGAAGGATCTTGGAC-CCAAGACAACACA
66 TTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCA
* * * * * *
878846 AGCTCAACTTCACGATGAAGGG-GCGACTGATTGTCAAC-AA-AA-TT-TC-A-TTCAGAGTCAA
1 AGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAA
* * *
878904 TTTCAACTTCACAGCAAAGGATATTGGACTCGAGACAACACA
65 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * * ** *
878946 AGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
*
879011 TTCAACTTCAC-GACGGAGGATATTGGACTC
66 TTCAACTTCACAG-CGAAGGATATTGGACTC
879041 AGAACAATGC
Statistics
Matches: 1113, Mismatches: 105, Indels: 56
0.87 0.08 0.04
Matches are distributed among these distances:
94 73 0.07
95 1 0.00
96 2 0.00
97 2 0.00
98 7 0.01
100 75 0.07
101 5 0.00
102 10 0.01
103 6 0.01
104 5 0.00
105 87 0.08
106 739 0.66
107 2 0.00
108 2 0.00
109 15 0.01
110 82 0.07
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
Found at i:878706 original size:533 final size:530
Alignment explanation
Indices: 877689--879041 Score: 2039
Period size: 533 Copynumber: 2.6 Consensus size: 530
877679 TCGAGAGTAG
*
877689 AGTTCAACTTCACGACGAAGAGATCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
*
877754 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAA-GGGA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGGA
877818 CCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
131 -CGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
*
877883 TGGACTCCAGACAACGCAGGTTCAACTTCACAACGAAGGGACCGCTGGTTGT---C-AATAA---
195 TGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAATAATTT
* * *
877941 -ACAATTTC----CCAATTTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCA
260 CCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCA
* * *
878001 ACTTCACGATGAATGGACCGTTGGTTGTCAATAAACAACTTCCCAATTTCGGAGCCAATTTCAAC
325 ACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
878066 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGATGA
390 TTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGATGA
* * * ** *
878131 TTGTCAATAAACAATTTCCCAATTTCAGAGCTAATATCAACTTCACAGTGTAGGATATTGGACTC
455 TTGTCAACAAACAACTTCCCAATTTCAGAGCCAATATCAACTTCACAACGAAGGATATTGGACTC
878196 AAGACAACGCA
520 AAGACAACGCA
* *
878207 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCAAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
878272 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAT
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG--
878337 AGACTGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
129 -GAC-GCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
* *
878402 TATTGGACTCCAGACAACGCAAG-TCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAATAA
192 TATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAATAA
* * *
878466 TTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCAAGATAATGCAAGT
257 TTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGT
878531 TCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
322 TCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTC
* *
878596 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
387 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGA
* * * * *
878661 TGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAACGAATGATATTGGA
452 TGATTGTCAACAAACAACTTCCCAATTTCAGAGCCAATATCAACTTCACAACGAAGGATATTGGA
*
878726 CTCCAGACAACGCA
517 CTCAAGACAACGCA
*
878740 AGTTCAACTTCATGACGAAGGGATCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
* * * * * *
878805 TTTAACTTCTCAGCGAAGGATCTTGGAC-CCAAGACAACACAAGCTCAACTTCACGATGAAGGGG
66 TTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGG
* * * *
878869 -CGACTGATTGTCAAC-AA-AA-TT-TC-A-TTCAGAGTCAATTTCAACTTCACAGCAAAGGATA
130 ACG-CTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
* * * *
878927 TTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATT
194 TTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAATAATT
** * * *
878992 TCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACTCA
259 TCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCA
879042 GAACAATGCT
Statistics
Matches: 760, Mismatches: 55, Indels: 34
0.90 0.06 0.04
Matches are distributed among these distances:
518 121 0.16
519 2 0.00
521 30 0.04
522 84 0.11
523 50 0.07
524 85 0.11
525 7 0.01
526 2 0.00
527 2 0.00
528 3 0.00
529 19 0.03
530 1 0.00
532 2 0.00
533 352 0.46
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (530 bp):
AGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGGA
CGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAATAATTTC
CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAA
CTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACT
TCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGATGAT
TGTCAACAAACAACTTCCCAATTTCAGAGCCAATATCAACTTCACAACGAAGGATATTGGACTCA
AGACAACGCA
Found at i:879824 original size:37 final size:37
Alignment explanation
Indices: 879771--879875 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
879761 CCTTTTCGTC
879771 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
879808 TTGCTAGGATTCAAACTCCGAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
879845 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
879876 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:880382 original size:21 final size:23
Alignment explanation
Indices: 880346--880440 Score: 69
Period size: 23 Copynumber: 4.3 Consensus size: 23
880336 TTTTTAACAC
880346 TATATATTATTATTATATATACA
1 TATATATTATTATTATATATACA
* *
880369 TATATATTTTTTATT-TATATTCA
1 TATATA-TTATTATTATATATACA
* *
880392 T-T-TGGTTATT-TTTTA-ATAC-
1 TATAT-ATTATTATTATATATACA
*
880411 TATAT-TTATTATTTATATATATA
1 TATATATTATTA-TTATATATACA
880434 TATATAT
1 TATATAT
880441 ACTTTTTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 19
0.68 0.09 0.23
Matches are distributed among these distances:
19 6 0.11
20 6 0.11
21 12 0.22
22 4 0.07
23 19 0.35
24 8 0.15
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (23 bp):
TATATATTATTATTATATATACA
Found at i:880425 original size:19 final size:19
Alignment explanation
Indices: 880346--880434 Score: 60
Period size: 19 Copynumber: 4.6 Consensus size: 19
880336 TTTTTAACAC
880346 TATATAT-TA-TTATTATAT
1 TATATATATATTTATTAT-T
* *
880364 ATACATATATATTTTTTATT
1 -TATATATATATTTATTATT
* *
880384 TATAT-TCATTTGGTTATTTTT
1 TATATAT-ATAT--TTATTATT
880405 TA-ATACTATATTTATTATT
1 TATATA-TATATTTATTATT
880424 TATATATATAT
1 TATATATATAT
880435 ATATATACTT
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
18 1 0.02
19 27 0.50
20 8 0.15
21 17 0.31
22 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (19 bp):
TATATATATATTTATTATT
Found at i:883524 original size:2 final size:2
Alignment explanation
Indices: 883519--883563 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
883509 AAAAATGAAA
883519 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
883561 AT A
1 AT A
883564 ACAATGTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:883958 original size:34 final size:34
Alignment explanation
Indices: 883919--884005 Score: 99
Period size: 33 Copynumber: 2.6 Consensus size: 34
883909 AGGCCTACTT
*
883919 GGACTCAAAATGC-TTCATTTTTAGTGTTTCAATA
1 GGACTCAAAATACGTTCA-TTTTAGTGTTTCAATA
* *
883953 TGACTC-AAATACGTTGATTTTAGTGTTTCAATA
1 GGACTCAAAATACGTTCATTTTAGTGTTTCAATA
* *
883986 GGGCTC-AAATACGTTGATTT
1 GGACTCAAAATACGTTCATTT
884006 ATTTTCTGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
33 39 0.83
34 8 0.17
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (34 bp):
GGACTCAAAATACGTTCATTTTAGTGTTTCAATA
Found at i:883979 original size:33 final size:33
Alignment explanation
Indices: 883937--884005 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
883927 AATGCTTCAT
*
883937 TTTTAGTGTTTCAATATGACTCAAATACGTTGA
1 TTTTAGTGTTTCAATAGGACTCAAATACGTTGA
*
883970 TTTTAGTGTTTCAATAGGGCTCAAATACGTTGA
1 TTTTAGTGTTTCAATAGGACTCAAATACGTTGA
884003 TTT
1 TTT
884006 ATTTTCTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (33 bp):
TTTTAGTGTTTCAATAGGACTCAAATACGTTGA
Found at i:884856 original size:3 final size:3
Alignment explanation
Indices: 884848--884895 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
884838 TTAAACATTG
*
884848 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
884896 TGTATTATGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:886962 original size:18 final size:16
Alignment explanation
Indices: 886941--886981 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
886931 ATATATATAT
886941 ATATATTAATTTGAAATC
1 ATATATT-ATTTGAAA-C
*
886959 ATATATTTTTTGAAAC
1 ATATATTATTTGAAAC
886975 ATATATT
1 ATATATT
886982 TTAAAATCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 7 0.32
18 7 0.32
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (16 bp):
ATATATTATTTGAAAC
Found at i:886977 original size:16 final size:17
Alignment explanation
Indices: 886950--886983 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
886940 TATATATTAA
886950 TTTGAAATCATATATTT
1 TTTGAAATCATATATTT
886967 TTTGAAA-CATATATTT
1 TTTGAAATCATATATTT
886983 T
1 T
886984 AAAATCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTGAAATCATATATTT
Found at i:887051 original size:26 final size:25
Alignment explanation
Indices: 886995--887054 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
886985 AAATCTCTCT
886995 CTATATAGTTTTTAAAAATATAATTA
1 CTATATA-TTTTTAAAAATATAATTA
* *
887021 CTATATATTTTTGAATATATATATATA
1 CTATATATTTTTAAAAATATA-AT-TA
887048 -TATATAT
1 CTATATAT
887055 ATATATAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 12 0.40
26 16 0.53
27 2 0.07
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (25 bp):
CTATATATTTTTAAAAATATAATTA
Found at i:887133 original size:2 final size:2
Alignment explanation
Indices: 887035--887118 Score: 84
Period size: 2 Copynumber: 43.0 Consensus size: 2
887025 ATATTTTTGA
* * *
887035 AT AT AT AT AT AT AT AT AT AT AT AT AT AGT -T TT AG A- AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * *
887076 TT CT A- AG 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
887117 AT
1 AT
887119 TTCAAAACAT
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
1 3 0.04
2 67 0.94
3 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:887147 original size:17 final size:18
Alignment explanation
Indices: 887089--887151 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
887079 TAAGATATAT
* *
887089 ATATATATATATAT-ATAT
1 ATATATATATATTTCA-AA
887107 ATATATATATATTTCAAA
1 ATATATATATATTTCAAA
* **
887125 ACATATATA-ATTTTGAA
1 ATATATATATATTTCAAA
887142 ATATATATAT
1 ATATATATAT
887152 TATATATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
17 14 0.38
18 22 0.59
19 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (18 bp):
ATATATATATATTTCAAA
Found at i:887166 original size:23 final size:24
Alignment explanation
Indices: 887128--887172 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
887118 TTTCAAAACA
*
887128 TATATAATTTTGAAATATATATAT
1 TATATAATTTTAAAATATATATAT
887152 TATAT-ATTTTAAAATATATAT
1 TATATAATTTTAAAATATATAT
887173 GGTTTATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TATATAATTTTAAAATATATATAT
Found at i:891840 original size:34 final size:33
Alignment explanation
Indices: 891802--891869 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
891792 GTGGTTGCTA
* *
891802 TTGTAATTGAAGTATTAATGTGTATGAAGATTTG
1 TTGTAATTGAAGTATGAATGT-AATGAAGATTTG
*
891836 TTGTAATTGAAGTATGAATGTAATGATGATTTG
1 TTGTAATTGAAGTATGAATGTAATGAAGATTTG
891869 T
1 T
891870 GTTTATATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 11 0.35
34 20 0.65
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (33 bp):
TTGTAATTGAAGTATGAATGTAATGAAGATTTG
Found at i:893019 original size:43 final size:43
Alignment explanation
Indices: 892969--893050 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
892959 TCTGTGAAAT
892969 AATGTTGATTTGAAGGACCACACGAAACCTGAAATGTTGACAC
1 AATGTTGATTTGAAGGACCACACGAAACCTGAAATGTTGACAC
* *
893012 AATGTTGATTTGAAGGACCACATGAAACCTGGAATGTTG
1 AATGTTGATTTGAAGGACCACACGAAACCTGAAATGTTG
893051 GTTCACCAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (43 bp):
AATGTTGATTTGAAGGACCACACGAAACCTGAAATGTTGACAC
Found at i:915057 original size:20 final size:21
Alignment explanation
Indices: 915014--915054 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
915004 AATTGCTTTA
915014 TTTTTCAGTTTCTCATTCACC
1 TTTTTCAGTTTCTCATTCACC
915035 TTTTTCAGTTATCT-ATTCAC
1 TTTTTCAGTT-TCTCATTCAC
915055 TTTATTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.17, C:0.24, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTTTCAGTTTCTCATTCACC
Found at i:915065 original size:24 final size:23
Alignment explanation
Indices: 915009--915084 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
914999 TTTCTAATTG
915009 CTTTATTTTTCAGTTTCTCATTCA
1 CTTTATTTTTCAGTTTCT-ATTCA
*
915033 C---CTTTTTCAGTTATCTATTCA
1 CTTTATTTTTCAGTT-TCTATTCA
915054 CTTTATTTTTCA-TTTCTATTTTCA
1 CTTTATTTTTCAGTTTCTA--TTCA
915078 CTTTATT
1 CTTTATT
915085 CTAACCATTG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
21 16 0.36
22 7 0.16
23 2 0.05
24 19 0.43
ACGTcount: A:0.17, C:0.20, G:0.03, T:0.61
Consensus pattern (23 bp):
CTTTATTTTTCAGTTTCTATTCA
Found at i:916700 original size:20 final size:20
Alignment explanation
Indices: 916675--916740 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
916665 TCAATTTGAA
* *
916675 TCAACCTTTAGATTTTTAGG
1 TCAACCTTTAAATTTTCAGG
*
916695 TCAACCTTTACATTTTCAGG
1 TCAACCTTTAAATTTTCAGG
*
916715 ACAACCTTTAAATTTTCAGG
1 TCAACCTTTAAATTTTCAGG
916735 TCAACC
1 TCAACC
916741 GTTCTCGATC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (20 bp):
TCAACCTTTAAATTTTCAGG
Found at i:917513 original size:41 final size:41
Alignment explanation
Indices: 917444--917572 Score: 129
Period size: 41 Copynumber: 3.1 Consensus size: 41
917434 TTTGTAAATA
*
917444 AAAAACGCCACTAATGT-AT-GCGTATTTAGCAACGTTT-TACT
1 AAAAACGCCACTAAAGTAATAG-GT-TTTAGCAACGTTTGT-CT
* * * **
917485 TAAACCGCCACTAAAGTACTAGGTTTTAGCGGCGTTTGTCT
1 AAAAACGCCACTAAAGTAATAGGTTTTAGCAACGTTTGTCT
* * *
917526 AAAAATGCCACTAAAGTAATAGGTTTTAGCAGCATTTGTCT
1 AAAAACGCCACTAAAGTAATAGGTTTTAGCAACGTTTGTCT
917567 AAAAAC
1 AAAAAC
917573 ACCATGATAT
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 67 0.93
42 4 0.06
43 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTAATAGGTTTTAGCAACGTTTGTCT
Found at i:917687 original size:41 final size:40
Alignment explanation
Indices: 917594--917740 Score: 118
Period size: 41 Copynumber: 3.6 Consensus size: 40
917584 TGTACCCTAT
917594 TGCGGCGTTTGTTTAAAAACGCCACTAAAGAACGATTCTA
1 TGCGGCGTTTGTTTAAAAACGCCACTAAAGAACGATTCTA
* ** * * *
917634 TGTCGGCATTTGTTTCCAAACGCCACTAAAGTAC-TTATCTT
1 TG-CGGCGTTTGTTTAAAAACGCCACTAAAGAACGAT-TCTA
** * * *
917675 TAGCGGCGTTTGTCAAATAAACACCACTAAAGTACGAGTTTTA
1 T-GCGGCGTTTGTTTAA-AAACGCCACTAAAGAACGA-TTCTA
* *
917718 -GCAGCGTTTGTTGAAAAACGCCA
1 TGCGGCGTTTGTTTAAAAACGCCA
917741 TTCATGTTAC
Statistics
Matches: 82, Mismatches: 19, Indels: 12
0.73 0.17 0.11
Matches are distributed among these distances:
40 10 0.12
41 52 0.63
42 17 0.21
43 2 0.02
44 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (40 bp):
TGCGGCGTTTGTTTAAAAACGCCACTAAAGAACGATTCTA
Found at i:918464 original size:33 final size:34
Alignment explanation
Indices: 918427--918497 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 34
918417 TCATTTGGGA
918427 TTATTTTAGAAATAAAT-GTTTAAATTATATT-TG
1 TTATTTTA-AAATAAATAGTTTAAATTATATTATG
* * *
918460 TTA-TTTAAATTAAATATTTTAAATTTTATTATG
1 TTATTTTAAAATAAATAGTTTAAATTATATTATG
918493 TTATT
1 TTATT
918498 ATTTTAAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
31 7 0.22
32 16 0.50
33 8 0.25
34 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (34 bp):
TTATTTTAAAATAAATAGTTTAAATTATATTATG
Found at i:927949 original size:10 final size:10
Alignment explanation
Indices: 927934--927959 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
927924 GAACCAAATA
927934 TTTTTTTTCT
1 TTTTTTTTCT
927944 TTTTTTTTCT
1 TTTTTTTTCT
927954 TTTTTT
1 TTTTTT
927960 GAACTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:934445 original size:20 final size:21
Alignment explanation
Indices: 934383--934452 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
934373 ATATCTAGAG
**
934383 TTAATTAAATATATGTTTTAA
1 TTAATTAAATATATAATTTAA
* *
934404 -TAATCCCAAATATTTAATTTTAA
1 TTAAT--TAAATATATAA-TTTAA
934427 TTAATTAAATATAT-ATTTAA
1 TTAATTAAATATATAATTTAA
934447 TTAATT
1 TTAATT
934453 TGAAATAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 15 0.38
21 1 0.03
22 14 0.36
23 5 0.13
24 4 0.10
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.50
Consensus pattern (21 bp):
TTAATTAAATATATAATTTAA
Found at i:941188 original size:20 final size:20
Alignment explanation
Indices: 941155--941192 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
941145 AATCCTGAAT
941155 ATTTAATTTCAATTAATTAA
1 ATTTAATTTCAATTAATTAA
941175 ATTTAGATTT-AATTAATT
1 ATTTA-ATTTCAATTAATT
941193 TGAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTAATTTCAATTAATTAA
Found at i:941275 original size:90 final size:89
Alignment explanation
Indices: 941154--941326 Score: 283
Period size: 90 Copynumber: 1.9 Consensus size: 89
941144 TAATCCTGAA
* * *
941154 TATTTAATTTCAATTAATTAAATTTAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
941219 TAGGGTAACTTGGATATAAGAGGAT
65 TAGGGTAACTTGGATATAAGAGGAT
*
941244 TATTAAATTCCAATTAATTAAATATATATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
* *
941309 AGGGTAATTTGGCTATAA
66 AGGGTAACTTGGATATAA
941327 AAGAGTGTGT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 29 0.38
90 48 0.62
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.40
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAGAGGAT
Found at i:945034 original size:32 final size:32
Alignment explanation
Indices: 944998--945064 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
944988 AGGCAAGAAA
944998 GTAAATGTAGTATAAAATTCAAAAACTAACTT
1 GTAAATGTAGTATAAAATTCAAAAACTAACTT
* *
945030 GTAAATGTAGTATAAATTTTAAAAACTAACTT
1 GTAAATGTAGTATAAAATTCAAAAACTAACTT
945062 GTA
1 GTA
945065 TTATGTACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (32 bp):
GTAAATGTAGTATAAAATTCAAAAACTAACTT
Found at i:948372 original size:27 final size:26
Alignment explanation
Indices: 948342--948398 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
948332 TGAAATCAAG
*
948342 AATCAAGAATAAA-AATTAAAAATTAAA
1 AATCAA-AATAAACAA-GAAAAATTAAA
*
948369 AATCGAAATAAACTAAGAAAAATTAAA
1 AATCAAAATAAAC-AAGAAAAATTAAA
948396 AAT
1 AAT
948399 GGGTTACCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 6 0.23
27 18 0.69
28 2 0.08
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (26 bp):
AATCAAAATAAACAAGAAAAATTAAA
Found at i:948372 original size:34 final size:34
Alignment explanation
Indices: 948334--948398 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
948324 TAAAAACATG
* *
948334 AAATCAAGAATCAA-GAATAAAAATTAAAAATTAA
1 AAATCAA-AATAAACGAAGAAAAATTAAAAATTAA
* *
948368 AAATCGAAATAAACTAAGAAAAATTAAAAAT
1 AAATCAAAATAAACGAAGAAAAATTAAAAAT
948399 GGGTTACCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 5 0.19
34 21 0.81
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.20
Consensus pattern (34 bp):
AAATCAAAATAAACGAAGAAAAATTAAAAATTAA
Found at i:950458 original size:25 final size:25
Alignment explanation
Indices: 950385--950458 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
950375 TATTTTTACC
*
950385 ATTTATCCCATAAGCTCGTAAGCTT
1 ATTTATCCCATATGCTCGTAAGCTT
* * *
950410 ATTT-TACCAATATACT--T-A-C-C
1 ATTTAT-CCCATATGCTCGTAAGCTT
950430 ATTTATCCCATATGCTCGTAAGCTT
1 ATTTATCCCATATGCTCGTAAGCTT
950455 ATTT
1 ATTT
950459 CCATAGTTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
20 12 0.34
21 2 0.06
22 2 0.06
23 2 0.06
24 2 0.06
25 15 0.43
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (25 bp):
ATTTATCCCATATGCTCGTAAGCTT
Found at i:951514 original size:31 final size:30
Alignment explanation
Indices: 951479--951550 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 30
951469 CAAACATTCA
951479 TAACTTTTCTAAAATTACCAAATTGGTCCCC
1 TAACTTTTCTAAAATTACCAAA-TGGTCCCC
*
951510 TAACTTTTCAAAAATTACCAAATGGTCCCC
1 TAACTTTTCTAAAATTACCAAATGGTCCCC
*
951540 -AAATTTTCTAA
1 TAACTTTTCTAA
951551 GGCCTGTAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 9 0.24
30 8 0.21
31 21 0.55
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (30 bp):
TAACTTTTCTAAAATTACCAAATGGTCCCC
Found at i:952536 original size:30 final size:30
Alignment explanation
Indices: 952500--952572 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
952490 AAAATTACAT
* *
952500 TTTGGTCCCTAAACTTT-TCAAAGTTTATAC
1 TTTGGTCCCTAAACTTTACCAAA-TTTATAA
952530 TTTGGTCACC-AAACTTTACCAAATTTATAA
1 TTTGGTC-CCTAAACTTTACCAAATTTATAA
*
952560 TTTGGTCACTAAA
1 TTTGGTCCCTAAA
952573 TAAATCCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 1 0.03
30 30 0.81
31 6 0.16
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.40
Consensus pattern (30 bp):
TTTGGTCCCTAAACTTTACCAAATTTATAA
Found at i:955710 original size:23 final size:23
Alignment explanation
Indices: 955680--955733 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
955670 TTCTTGTAGC
955680 ATCGGGCAACAATTCGTCATGTG
1 ATCGGGCAACAATTCGTCATGTG
*
955703 ATCGGGCAACAATTCGTCGTGTG
1 ATCGGGCAACAATTCGTCATGTG
955726 ATCGGGCA
1 ATCGGGCA
955734 TTATGCATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (23 bp):
ATCGGGCAACAATTCGTCATGTG
Found at i:959739 original size:15 final size:15
Alignment explanation
Indices: 959719--959748 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
959709 TTGTAAAATT
*
959719 GTAAAATTATTACAA
1 GTAAAATTACTACAA
959734 GTAAAATTACTACAA
1 GTAAAATTACTACAA
959749 TTATTTGTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (15 bp):
GTAAAATTACTACAA
Found at i:963066 original size:24 final size:23
Alignment explanation
Indices: 963033--963141 Score: 86
Period size: 21 Copynumber: 4.8 Consensus size: 23
963023 CTTAAAACGG
*
963033 TTTTTAAAAACATATAATATATAA
1 TTTTTGAAAACATAT-ATATATAA
*
963057 TTTTTG-AAA-ATATATAGTATAG
1 TTTTTGAAAACATATATA-TATAA
* *
963079 TTTTTAAAAACATATTGTTATATAA
1 TTTTTGAAAACATA-T-ATATATAA
*
963104 -TTTTGAAAACATAT-TATATGA
1 TTTTTGAAAACATATATATATAA
*
963125 -TTTTGAAAATATA-ATAT
1 TTTTTGAAAACATATATAT
963142 TTTATATAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 15
0.76 0.09 0.16
Matches are distributed among these distances:
21 24 0.34
22 13 0.18
23 7 0.10
24 20 0.28
25 5 0.07
26 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (23 bp):
TTTTTGAAAACATATATATATAA
Found at i:963136 original size:19 final size:21
Alignment explanation
Indices: 963034--963133 Score: 76
Period size: 24 Copynumber: 4.4 Consensus size: 21
963024 TTAAAACGGT
*
963034 TTTTAAAAACATATAATATATAA
1 TTTTGAAAACATAT--TATATAA
* *
963057 TTTTTGAAAATATA-TAGTATAGT
1 -TTTTGAAAACATATTA-TATA-A
*
963080 TTTTAAAAACATATTGTTATATAA
1 TTTTGAAAACATA---TTATATAA
*
963104 TTTTGAAAACATATTATATGA
1 TTTTGAAAACATATTATATAA
963125 TTTTGAAAA
1 TTTTGAAAA
963134 TATAATATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
21 18 0.29
22 15 0.24
24 23 0.37
25 4 0.06
26 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (21 bp):
TTTTGAAAACATATTATATAA
Found at i:965564 original size:31 final size:31
Alignment explanation
Indices: 965528--965610 Score: 166
Period size: 31 Copynumber: 2.7 Consensus size: 31
965518 TATATATTCT
965528 TCTTTTATCCCTACACTATATAGTCCATTTG
1 TCTTTTATCCCTACACTATATAGTCCATTTG
965559 TCTTTTATCCCTACACTATATAGTCCATTTG
1 TCTTTTATCCCTACACTATATAGTCCATTTG
965590 TCTTTTATCCCTACACTATAT
1 TCTTTTATCCCTACACTATAT
965611 TCAACTATCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.23, C:0.27, G:0.05, T:0.46
Consensus pattern (31 bp):
TCTTTTATCCCTACACTATATAGTCCATTTG
Found at i:966516 original size:176 final size:175
Alignment explanation
Indices: 966222--966570 Score: 662
Period size: 176 Copynumber: 2.0 Consensus size: 175
966212 AATATTAATA
*
966222 AATATTAACGGTAAAATCTTATTTAAAATATTACTTTTTATCGAAAATATTAATTTTACTATTTA
1 AATATTAACGGTAAAATCTTATTTAAAATATTACTTTTTATAGAAAATATTAATTTTACTATTTA
*
966287 ATTTTTAGTAAAATATAATATTTTAAATAATACTCAATATTAATAATTCCAATAAAAAAATATTT
66 ATTTTTAGTAAAATATAATATTTTAAATAATACCCAATATTAATAATTCCAAT-AAAAAATATTT
966352 AAAATAACAATTTACTAAAAATTTTAAAAAATATTAATATTTTTTT
130 AAAATAACAATTTACTAAAAATTTTAAAAAATATTAATATTTTTTT
966398 AATATTAACGGTAAAATCTTATTTAAAATATTACTTTTTATAGAAAATATTAATTTTACTATTTA
1 AATATTAACGGTAAAATCTTATTTAAAATATTACTTTTTATAGAAAATATTAATTTTACTATTTA
*
966463 ATTTTTAGTAAAATATAATATTTTAAATAATACCCAATATTAATAATTCCAATAAAAAATATTTT
66 ATTTTTAGTAAAATATAATATTTTAAATAATACCCAATATTAATAATTCCAATAAAAAATATTTA
966528 AAATAACAATTTACTAAAAATTTTAAAAAATATTAATATTTTT
131 AAATAACAATTTACTAAAAATTTTAAAAAATATTAATATTTTT
966571 GATAACAAAT
Statistics
Matches: 170, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
175 54 0.32
176 116 0.68
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (175 bp):
AATATTAACGGTAAAATCTTATTTAAAATATTACTTTTTATAGAAAATATTAATTTTACTATTTA
ATTTTTAGTAAAATATAATATTTTAAATAATACCCAATATTAATAATTCCAATAAAAAATATTTA
AAATAACAATTTACTAAAAATTTTAAAAAATATTAATATTTTTTT
Found at i:966844 original size:29 final size:29
Alignment explanation
Indices: 966799--966855 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
966789 AGTGTTGGTC
* *
966799 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCACCATACACTCCGGGCGACCTT
966828 GTAGGTCACCATACACTCCGGGCGACCT
1 GTAGGTCACCATACACTCCGGGCGACCT
966856 ACCATTGATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.35, G:0.28, T:0.19
Consensus pattern (29 bp):
GTAGGTCACCATACACTCCGGGCGACCTT
Found at i:966890 original size:12 final size:12
Alignment explanation
Indices: 966873--966897 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
966863 ATCAAACAGA
966873 GAGAATGAACGT
1 GAGAATGAACGT
966885 GAGAATGAACGT
1 GAGAATGAACGT
966897 G
1 G
966898 TTGCATGGCA
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:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (12 bp):
GAGAATGAACGT
Found at i:966959 original size:29 final size:29
Alignment explanation
Indices: 966926--966981 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
966916 TCCCAACACA
*
966926 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
966955 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
966982 ACCCTCGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.12, C:0.38, G:0.30, T:0.20
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:967041 original size:10 final size:10
Alignment explanation
Indices: 966997--967143 Score: 60
Period size: 10 Copynumber: 13.3 Consensus size: 10
966987 CGTTCGGCTT
*
966997 CCCTCGGATT
1 CCCTCGGATG
*
967007 CCCTCGCATAG
1 CCCTCGGAT-G
*
967018 CTCGCTCGGTTG
1 C-C-CTCGGATG
967030 CCCTCGGATG
1 CCCTCGGATG
*
967040 CCCTCGCATAG
1 CCCTCGGAT-G
* *
967051 CTCGTTCAGATGG
1 C-C-CTCGGAT-G
967064 CCTCGGTCGGATG
1 CC-C--TCGGATG
*
967077 GCCTCGGATG
1 CCCTCGGATG
* *
967087 CTCTTGGATG
1 CCCTCGGATG
*
967097 ACCTCGGATG
1 CCCTCGGATG
*
967107 CTCTCGGATGG
1 CCCTCGGAT-G
967118 CCTCGGTCGGATG
1 CC-C--TCGGATG
*
967131 GCCTCGGATG
1 CCCTCGGATG
967141 CCC
1 CCC
967144 AGCGTGTTGG
Statistics
Matches: 100, Mismatches: 25, Indels: 24
0.67 0.17 0.16
Matches are distributed among these distances:
10 60 0.60
11 6 0.06
12 8 0.08
13 15 0.15
14 11 0.11
ACGTcount: A:0.11, C:0.34, G:0.31, T:0.24
Consensus pattern (10 bp):
CCCTCGGATG
Found at i:967101 original size:20 final size:20
Alignment explanation
Indices: 967070--967123 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
967060 ATGGCCTCGG
967070 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
* *
967090 TTGGATGACCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
967110 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
967124 TCGGATGGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.11, C:0.28, G:0.35, T:0.26
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:967129 original size:14 final size:14
Alignment explanation
Indices: 967110--967137 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
967100 TCGGATGCTC
967110 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
967124 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
967138 ATGCCCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:967223 original size:29 final size:29
Alignment explanation
Indices: 967180--967237 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
967170 ACAATCTCTT
* *
967180 GTAGTTCGCCGGGAAAATATGGCGACCTA
1 GTAGGTCGCCGGGAAAACATGGCGACCTA
* **
967209 GTAGGTCGCCTGGAAGGCATGGCGACCTA
1 GTAGGTCGCCGGGAAAACATGGCGACCTA
967238 CTGCCAACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.34, T:0.19
Consensus pattern (29 bp):
GTAGGTCGCCGGGAAAACATGGCGACCTA
Found at i:970069 original size:6 final size:6
Alignment explanation
Indices: 970058--970135 Score: 60
Period size: 6 Copynumber: 14.0 Consensus size: 6
970048 GTTTGCTGCT
* *
970058 GTGATG GTGATG GTGATG TTCAT- G-G-TG GTGATG GTGATG GTGATG
1 GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG
* * * *
970103 TTCAT- G-G-TG GTGATG GTGATG GAGGTG GTGATG
1 GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG
970136 ATTGTCCCCA
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 2 0.04
6 48 0.89
ACGTcount: A:0.15, C:0.03, G:0.47, T:0.35
Consensus pattern (6 bp):
GTGATG
Found at i:970088 original size:15 final size:15
Alignment explanation
Indices: 970068--970117 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
970058 GTGATGGTGA
970068 TGGTGATGTTCATGG
1 TGGTGATGTTCATGG
* *
970083 TGGTGATG---GTGA
1 TGGTGATGTTCATGG
970095 TGGTGATGTTCATGG
1 TGGTGATGTTCATGG
970110 TGGTGATG
1 TGGTGATG
970118 GTGATGGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 10 0.36
15 18 0.64
ACGTcount: A:0.14, C:0.04, G:0.44, T:0.38
Consensus pattern (15 bp):
TGGTGATGTTCATGG
Found at i:970096 original size:27 final size:27
Alignment explanation
Indices: 970058--970124 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
970048 GTTTGCTGCT
970058 GTGATGGTGATGGTGATGTTCATGGTG
1 GTGATGGTGATGGTGATGTTCATGGTG
970085 GTGATGGTGATGGTGATGTTCATGGTG
1 GTGATGGTGATGGTGATGTTCATGGTG
970112 GTGATGGTGATGG
1 GTGATGGTGATGG
970125 AGGTGGTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.15, C:0.03, G:0.46, T:0.36
Consensus pattern (27 bp):
GTGATGGTGATGGTGATGTTCATGGTG
Found at i:970124 original size:15 final size:15
Alignment explanation
Indices: 970068--970129 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
970058 GTGATGGTGA
*
970068 TGGTGATGTTCATGG
1 TGGTGATGGTCATGG
*
970083 TGGTGATGG---TGA
1 TGGTGATGGTCATGG
*
970095 TGGTGATGTTCATGG
1 TGGTGATGGTCATGG
*
970110 TGGTGATGGTGATGG
1 TGGTGATGGTCATGG
*
970125 AGGTG
1 TGGTG
970130 GTGATGATTG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
12 10 0.27
15 27 0.73
ACGTcount: A:0.15, C:0.03, G:0.47, T:0.35
Consensus pattern (15 bp):
TGGTGATGGTCATGG
Found at i:970132 original size:21 final size:21
Alignment explanation
Indices: 970062--970129 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
970052 GCTGCTGTGA
* *
970062 TGGTGATGGTGATGTTCATGG
1 TGGTGATGGTGATGGTGATGG
*
970083 TGGTGATGGTGATGGTGATGT
1 TGGTGATGGTGATGGTGATGG
** *
970104 TCATGGTGGTGATGGTGATGG
1 TGGTGATGGTGATGGTGATGG
*
970125 AGGTG
1 TGGTG
970130 GTGATGATTG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.15, C:0.03, G:0.47, T:0.35
Consensus pattern (21 bp):
TGGTGATGGTGATGGTGATGG
Found at i:972350 original size:24 final size:23
Alignment explanation
Indices: 972317--972425 Score: 86
Period size: 21 Copynumber: 4.8 Consensus size: 23
972307 CTTAAAACGG
*
972317 TTTTTAAAAACATATAATATATAA
1 TTTTTGAAAACATAT-ATATATAA
*
972341 TTTTTG-AAA-ATATATAGTATAG
1 TTTTTGAAAACATATATA-TATAA
* *
972363 TTTTTAAAAACATATTGTTATATAA
1 TTTTTGAAAACATA-T-ATATATAA
*
972388 -TTTTGAAAACATAT-TATATGA
1 TTTTTGAAAACATATATATATAA
*
972409 -TTTTGAAAATATA-ATAT
1 TTTTTGAAAACATATATAT
972426 TTTATATAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 15
0.76 0.09 0.16
Matches are distributed among these distances:
21 24 0.34
22 13 0.18
23 7 0.10
24 20 0.28
25 5 0.07
26 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (23 bp):
TTTTTGAAAACATATATATATAA
Found at i:972420 original size:19 final size:21
Alignment explanation
Indices: 972318--972417 Score: 76
Period size: 24 Copynumber: 4.4 Consensus size: 21
972308 TTAAAACGGT
*
972318 TTTTAAAAACATATAATATATAA
1 TTTTGAAAACATAT--TATATAA
* *
972341 TTTTTGAAAATATA-TAGTATAGT
1 -TTTTGAAAACATATTA-TATA-A
*
972364 TTTTAAAAACATATTGTTATATAA
1 TTTTGAAAACATA---TTATATAA
*
972388 TTTTGAAAACATATTATATGA
1 TTTTGAAAACATATTATATAA
972409 TTTTGAAAA
1 TTTTGAAAA
972418 TATAATATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
21 18 0.29
22 15 0.24
24 23 0.37
25 4 0.06
26 2 0.03
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (21 bp):
TTTTGAAAACATATTATATAA
Found at i:972438 original size:26 final size:25
Alignment explanation
Indices: 972342--972451 Score: 60
Period size: 21 Copynumber: 4.7 Consensus size: 25
972332 AATATATAAT
*
972342 TTTTGAAAATATATA--GTATA-G-
1 TTTTGAAAATATATATTTTATATGA
* * *
972363 TTTTTAAAA-ACATATTGTTATATAA
1 TTTTGAAAATATATATT-TTATATGA
*
972388 TTTTG-AAA-ACATA--TTATATGA
1 TTTTGAAAATATATATTTTATATGA
972409 TTTTGAAAATATAATATTTTATAT-A
1 TTTTGAAAATAT-ATATTTTATATGA
**
972434 GTTTTTTAAATATATATT
1 -TTTTGAAAATATATATT
972452 AAGTTTATTA
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.06
21 20 0.29
22 3 0.04
23 5 0.07
24 11 0.16
25 10 0.14
26 16 0.23
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (25 bp):
TTTTGAAAATATATATTTTATATGA
Found at i:974839 original size:31 final size:31
Alignment explanation
Indices: 974803--974885 Score: 166
Period size: 31 Copynumber: 2.7 Consensus size: 31
974793 TATATATTCT
974803 TCTTTTATCCCTACACTATATAGTCCATTTG
1 TCTTTTATCCCTACACTATATAGTCCATTTG
974834 TCTTTTATCCCTACACTATATAGTCCATTTG
1 TCTTTTATCCCTACACTATATAGTCCATTTG
974865 TCTTTTATCCCTACACTATAT
1 TCTTTTATCCCTACACTATAT
974886 TCAACTATCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.23, C:0.27, G:0.05, T:0.46
Consensus pattern (31 bp):
TCTTTTATCCCTACACTATATAGTCCATTTG
Found at i:975956 original size:29 final size:29
Alignment explanation
Indices: 975911--975967 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
975901 AGTGTTGGTC
* *
975911 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCACCATACACTCCGGGCGACCTT
975940 GTAGGTCACCATACACTCCGGGCGACCT
1 GTAGGTCACCATACACTCCGGGCGACCT
975968 ACCCTTGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.35, G:0.28, T:0.19
Consensus pattern (29 bp):
GTAGGTCACCATACACTCCGGGCGACCTT
Found at i:976002 original size:12 final size:12
Alignment explanation
Indices: 975985--976009 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
975975 CTCAAACAGA
975985 GAGAATGAACGT
1 GAGAATGAACGT
975997 GAGAATGAACGT
1 GAGAATGAACGT
976009 G
1 G
976010 TTGCATGGCA
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:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (12 bp):
GAGAATGAACGT
Found at i:976071 original size:29 final size:29
Alignment explanation
Indices: 976038--976122 Score: 161
Period size: 29 Copynumber: 2.9 Consensus size: 29
976028 TCCCAACACA
976038 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
976067 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
*
976096 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCCCTCCGGGCGACCT
976123 ACCCTCGCTC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.12, C:0.38, G:0.31, T:0.20
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGGGCGACCTTG
Found at i:976167 original size:33 final size:33
Alignment explanation
Indices: 976126--976195 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
976116 GCGACCTACC
* *
976126 CTCGCTCGGCTT-CCCTCGGATTCTCTCGCATAG
1 CTCGCTCGG-TTGCCCTCGGATGCCCTCGCATAG
976159 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
976192 CTCG
1 CTCG
976196 TTCAGATGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.09, C:0.40, G:0.24, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:976209 original size:33 final size:33
Alignment explanation
Indices: 976138--976210 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
976128 CGCTCGGCTT
* * * *
976138 CCCTCGGATTCTCTCGCATAGCTCGCTCGGTTG
1 CCCTCGGATGCCCTCGCATAGCTCGCTCAGATG
*
976171 CCCTCGGATGCCCTCGCATAGCTCGTTCAGATG
1 CCCTCGGATGCCCTCGCATAGCTCGCTCAGATG
*
976204 GCCTCGG
1 CCCTCGG
976211 TCGGATGGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.37, G:0.26, T:0.26
Consensus pattern (33 bp):
CCCTCGGATGCCCTCGCATAGCTCGCTCAGATG
Found at i:976236 original size:20 final size:20
Alignment explanation
Indices: 976211--976264 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
976201 ATGGCCTCGG
*
976211 TCGGATGGCCTCGGATGTTC
1 TCGGATGGCCTCGGATGCTC
* *
976231 TCGGATGACCTCAGATGCTC
1 TCGGATGGCCTCGGATGCTC
976251 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
976265 TCGGATGGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.13, C:0.28, G:0.33, T:0.26
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:976270 original size:14 final size:14
Alignment explanation
Indices: 976251--976278 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
976241 TCAGATGCTC
976251 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
976265 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
976279 ATGCCCAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:976281 original size:10 final size:10
Alignment explanation
Indices: 976211--976264 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
976201 ATGGCCTCGG
976211 TCGGATGGCC
1 TCGGATGGCC
**
976221 TCGGATGTTC
1 TCGGATGGCC
*
976231 TCGGATGACC
1 TCGGATGGCC
*
976241 TCAGAT-GCTC
1 TCGGATGGC-C
976251 TCGGATGGCC
1 TCGGATGGCC
976261 TCGG
1 TCGG
976265 TCGGATGGCC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
9 1 0.03
10 32 0.91
11 2 0.06
ACGTcount: A:0.13, C:0.28, G:0.33, T:0.26
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:976364 original size:29 final size:29
Alignment explanation
Indices: 976321--976378 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
976311 ACAATCTCTT
* *
976321 GTAGTTCGCCGGGAAAACATGGCGACCTA
1 GTAGGTCGCCCGGAAAACATGGCGACCTA
**
976350 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGGTCGCCCGGAAAACATGGCGACCTA
976379 CTGCCAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.24, C:0.26, G:0.34, T:0.16
Consensus pattern (29 bp):
GTAGGTCGCCCGGAAAACATGGCGACCTA
Found at i:979209 original size:6 final size:6
Alignment explanation
Indices: 979198--979281 Score: 72
Period size: 6 Copynumber: 15.0 Consensus size: 6
979188 GTTTGCTGCT
* *
979198 GTGATG GTGATG GTGATG TTCAT- G-G-TG GTGATG GTGATG GTGATG
1 GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG
* * * *
979243 GTGATG TTCAT- G-G-TG GTGATG GTGATG GAGGTG GTGATG
1 GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG GTGATG
979282 ATTGTCCCCA
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 2 0.03
6 54 0.90
ACGTcount: A:0.15, C:0.02, G:0.48, T:0.35
Consensus pattern (6 bp):
GTGATG
Found at i:979228 original size:21 final size:21
Alignment explanation
Indices: 979202--979245 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
979192 GCTGCTGTGA
*
979202 TGGTGATGGTGATGTTCATGG
1 TGGTGATGGTGATGGTCATGG
*
979223 TGGTGATGGTGATGGTGATGG
1 TGGTGATGGTGATGGTCATGG
979244 TG
1 TG
979246 ATGTTCATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.02, G:0.48, T:0.36
Consensus pattern (21 bp):
TGGTGATGGTGATGGTCATGG
Found at i:979240 original size:33 final size:33
Alignment explanation
Indices: 979198--979281 Score: 150
Period size: 33 Copynumber: 2.5 Consensus size: 33
979188 GTTTGCTGCT
979198 GTGATGGTGATGGTGATGTTCATGGTGGTGATG
1 GTGATGGTGATGGTGATGTTCATGGTGGTGATG
979231 GTGATGGTGATGGTGATGTTCATGGTGGTGATG
1 GTGATGGTGATGGTGATGTTCATGGTGGTGATG
* *
979264 GTGATGGAGGTGGTGATG
1 GTGATGGTGATGGTGATG
979282 ATTGTCCCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.15, C:0.02, G:0.48, T:0.35
Consensus pattern (33 bp):
GTGATGGTGATGGTGATGTTCATGGTGGTGATG
Found at i:979270 original size:15 final size:15
Alignment explanation
Indices: 979208--979275 Score: 64
Period size: 15 Copynumber: 4.3 Consensus size: 15
979198 GTGATGGTGA
*
979208 TGGTGATGTTCATGG
1 TGGTGATGGTCATGG
*
979223 TGGTGATGGTGATGGTG
1 TGGTGATGGTCAT-G-G
*
979240 ATGGTGATGTTCATGG
1 -TGGTGATGGTCATGG
*
979256 TGGTGATGGTGATGG
1 TGGTGATGGTCATGG
*
979271 AGGTG
1 TGGTG
979276 GTGATGATTG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 28 0.65
16 2 0.05
17 2 0.05
18 11 0.26
ACGTcount: A:0.15, C:0.03, G:0.47, T:0.35
Consensus pattern (15 bp):
TGGTGATGGTCATGG
Found at i:979277 original size:21 final size:21
Alignment explanation
Indices: 979230--979283 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
979220 TGGTGGTGAT
* **
979230 GGTGATGGTGATGGTGATGTT
1 GGTGGTGGTGATGGTGATGGA
**
979251 CATGGTGGTGATGGTGATGGA
1 GGTGGTGGTGATGGTGATGGA
*
979272 GGTGGTGATGAT
1 GGTGGTGGTGAT
979284 TGTCCCCAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.02, G:0.48, T:0.33
Consensus pattern (21 bp):
GGTGGTGGTGATGGTGATGGA
Done.