Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 281 of 410
Found at i:86871329 original size:19 final size:19
Alignment explanation
Indices: 86871300--86871342 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
86871290 AAAAAAATAC
*
86871300 CAAATCAAAATT-AAAGTT
1 CAAAACAAAATTAAAAGTT
86871318 CTAAAACAAAATTAAAAGTT
1 C-AAAACAAAATTAAAAGTT
86871338 CAAAA
1 CAAAA
86871343 GTCCGTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 14 0.64
20 7 0.32
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.23
Consensus pattern (19 bp):
CAAAACAAAATTAAAAGTT
Found at i:86874634 original size:41 final size:41
Alignment explanation
Indices: 86874589--86874682 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
86874579 AATTATTCCT
* * *
86874589 TAAATTGCACATATGTGCCCCT-ATTTGTACTTCGGTACCCC
1 TAAATTGCACATACGTGCCCATGA-TTGTACTTCGATACCCC
86874630 TAAATTGCACATACGTGCCCATGATTGTACTTCGATACCCC
1 TAAATTGCACATACGTGCCCATGATTGTACTTCGATACCCC
* *
86874671 TGAATTGAACAT
1 TAAATTGCACAT
86874683 GCATGCCCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 46 0.98
42 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (41 bp):
TAAATTGCACATACGTGCCCATGATTGTACTTCGATACCCC
Found at i:86874677 original size:21 final size:20
Alignment explanation
Indices: 86874613--86874677 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 20
86874603 GTGCCCCTAT
*
86874613 TTGTACTTCGGTACCCCTAAA
1 TTGTACTTC-GTACCCCTGAA
* * * *
86874634 TTGCACATACGTGCCCATG-A
1 TTGTAC-TTCGTACCCCTGAA
86874654 TTGTACTTCGATACCCCTGAA
1 TTGTACTTCG-TACCCCTGAA
86874675 TTG
1 TTG
86874678 AACATGCATG
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
19 3 0.09
20 12 0.38
21 15 0.47
22 2 0.06
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (20 bp):
TTGTACTTCGTACCCCTGAA
Found at i:86874690 original size:41 final size:41
Alignment explanation
Indices: 86874613--86874690 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
86874603 GTGCCCCTAT
* * *
86874613 TTGTACTTCGGTACCCCTAAATTGCACATACGTGCCCATGA
1 TTGTACTTCGATACCCCTAAATTGAACATACATGCCCATGA
* *
86874654 TTGTACTTCGATACCCCTGAATTGAACATGCATGCCC
1 TTGTACTTCGATACCCCTAAATTGAACATACATGCCC
86874691 TGTTTACACT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (41 bp):
TTGTACTTCGATACCCCTAAATTGAACATACATGCCCATGA
Found at i:86877724 original size:40 final size:40
Alignment explanation
Indices: 86877652--86877750 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
86877642 AGACTAAGAT
* * *
86877652 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGCTACCAAATCCGGGCTAAGTC
** *
86877692 CCGAAGGCATTTGTGCGAGCTATTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGCTACCA-AATCCGGGCTAAGTC
* *
86877732 CCGAAGGCTTTTGAGCGAG
1 CCGAAGGCATTTGTGCGAG
86877751 TTGTTATATC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
40 48 0.96
41 2 0.04
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGCTACCAAATCCGGGCTAAGTC
Found at i:86889196 original size:40 final size:40
Alignment explanation
Indices: 86889113--86889265 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
86889103 TCGAATAATG
* *
86889113 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTAACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAACCAAA
* **
86889153 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTAACCAAA
* **
86889193 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAACCA-AA
* * *
86889234 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
86889266 CGTTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACCAAA
Found at i:86904284 original size:13 final size:13
Alignment explanation
Indices: 86904237--86904285 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
86904227 TAGCATTATA
*
86904237 TTTAAAAAATACT
1 TTTAAAAATTACT
*
86904250 TTTAAAAAGTACT
1 TTTAAAAATTACT
*
86904263 TTTTAAAATTACT
1 TTTAAAAATTACT
86904276 TTTAAAAATT
1 TTTAAAAATT
86904286 TTGATTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (13 bp):
TTTAAAAATTACT
Found at i:86912288 original size:11 final size:11
Alignment explanation
Indices: 86912274--86912322 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
86912264 TTATTGTTTT
*
86912274 TTTTTCTACTA
1 TTTTGCTACTA
86912285 TTTTGCTACTA
1 TTTTGCTACTA
* *
86912296 TTTTACTATTA
1 TTTTGCTACTA
* *
86912307 TGTTGCTATTA
1 TTTTGCTACTA
86912318 TTTTG
1 TTTTG
86912323 TTGTTATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.18, C:0.12, G:0.08, T:0.61
Consensus pattern (11 bp):
TTTTGCTACTA
Found at i:86912299 original size:22 final size:22
Alignment explanation
Indices: 86912274--86912321 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
86912264 TTATTGTTTT
* *
86912274 TTTTTCTACTATTTTGCTACTA
1 TTTTACTACTATGTTGCTACTA
* *
86912296 TTTTACTATTATGTTGCTATTA
1 TTTTACTACTATGTTGCTACTA
86912318 TTTT
1 TTTT
86912322 GTTGTTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (22 bp):
TTTTACTACTATGTTGCTACTA
Found at i:86915612 original size:12 final size:12
Alignment explanation
Indices: 86915591--86915621 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
86915581 ACTCGGGGAA
86915591 GAGGCCGTGGTC
1 GAGGCCGTGGTC
*
86915603 GAGGCTGTGGTC
1 GAGGCCGTGGTC
86915615 GAGGCCG
1 GAGGCCG
86915622 AGGTAGTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.23, G:0.52, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:86920505 original size:26 final size:26
Alignment explanation
Indices: 86920476--86920582 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
86920466 TGGTACAAAT
86920476 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
86920502 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
86920528 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
86920554 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
86920579 TGAT
1 TGAT
86920583 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 22 0.29
26 55 0.71
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:86928075 original size:30 final size:28
Alignment explanation
Indices: 86928041--86928096 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
86928031 ACAAAACAAT
*
86928041 TTAAAATAGAGGATATGTATATATATAATA
1 TTAAAATAG-GGA-ATATATATATATAATA
*
86928071 TTAAAATAGGTAATATATATATATAA
1 TTAAAATAGGGAATATATATATATAA
86928097 ATATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 2 0.08
30 9 0.38
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.38
Consensus pattern (28 bp):
TTAAAATAGGGAATATATATATATAATA
Found at i:86928101 original size:14 final size:15
Alignment explanation
Indices: 86928082--86928114 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
86928072 TAAAATAGGT
86928082 AATATATATAT-ATA
1 AATATATATATAATA
86928096 AATATATATATAATA
1 AATATATATATAATA
86928111 AATA
1 AATA
86928115 CTTAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATATATATAATA
Found at i:86928276 original size:26 final size:26
Alignment explanation
Indices: 86928212--86928278 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 26
86928202 TGTAAAAAGA
* *
86928212 AATTTAAAATAAATAATATATAAAAT
1 AATTTAAAATAAATAACATATAAAAC
** * *
86928238 TTTTTTAAGTAAATAACATATAAAAC
1 AATTTAAAATAAATAACATATAAAAC
*
86928264 AATTTAAATTAAATA
1 AATTTAAAATAAATA
86928279 TTATACATGA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (26 bp):
AATTTAAAATAAATAACATATAAAAC
Found at i:86930370 original size:92 final size:91
Alignment explanation
Indices: 86930261--86930619 Score: 293
Period size: 92 Copynumber: 3.9 Consensus size: 91
86930251 AGATTTGTAA
* *
86930261 CTTCAACCTGCTCCACTGCAACTTCAGGGAGACAAGGTTTGTTTTGATTTGTTCTACTGCAACTT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGACAAGGTTTGTTTTGATTTGTTCTACTGCAACTT
86930326 CAGAGAGATAAGATCTGTAATTTATGG
66 CAGAGAGATAAGATCTGTAATTTAT-G
* * * *
86930353 CTTCAATCTGTTCCACTGCAACATCAGAGAGGCAAAGGTTTGTGATCTATAGCTTCGATGTACTC
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGAC-AAGGTTTGT--T-T-T-GATT---TGT--TC
* * * * *
86930418 CACTGCAACTTCAGGGGGGTAAGATTTGT-A---A--
55 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTATG
* * *
86930449 CTTCAA-CATGCTCCGCTACAACTTCAG-GAAGACAAGGTTTGTTTTGATTTGTTCTACTGCAAG
1 CTTCAATC-TGCTCCACTGCAACTTCAGAG-AGACAAGGTTTGTTTTGATTTGTTCTACTGCAAC
86930512 TTCAGAGAGATAAGATCTGTAATTTATG
64 TTCAGAGAGATAAGATCTGTAATTTATG
** * * ** * ** *
86930540 ACTTCAATCTATTCCACTGCAACTTCATAGAGATAAGACTTGTTTTGATCTACTCTACTACAACT
1 -CTTCAATCTGCTCCACTGCAACTTCAGAGAGACAAGGTTTGTTTTGATTTGTTCTACTGCAACT
* *
86930605 TCAGGGAAATAAGAT
65 TCAGAGAGATAAGAT
86930620 TTGCTATCTC
Statistics
Matches: 207, Mismatches: 38, Indels: 44
0.72 0.13 0.15
Matches are distributed among these distances:
85 25 0.12
86 1 0.00
87 3 0.01
89 1 0.00
90 3 0.01
91 1 0.00
92 89 0.43
93 12 0.06
95 12 0.06
96 25 0.12
97 1 0.00
98 3 0.01
99 1 0.00
101 3 0.01
102 1 0.00
103 26 0.13
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (91 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAGAGACAAGGTTTGTTTTGATTTGTTCTACTGCAACTT
CAGAGAGATAAGATCTGTAATTTATG
Found at i:86930442 original size:188 final size:188
Alignment explanation
Indices: 86930166--86930571 Score: 668
Period size: 188 Copynumber: 2.2 Consensus size: 188
86930156 GACTTGTTAT
* * * * * *
86930166 TTCAACCTGTTTCACTGCAGCTTTAGGGAGGCAAAGGTTTGTGATCCATAGCTTCGATTTACTCC
1 TTCAATCTGTTCCACTGCAACTTCAGAGAGGCAAAGGTTTGTGATCCATAGCTTCGATGTACTCC
* * *
86930231 ACTGCAACTTCAGGGGGGTAAGATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGACAA
66 ACTGCAACTTCAGGGGGGTAAGATTTGTAACTTCAACATGCTCCACTACAACTTCAGGAAGACAA
*
86930296 GGTTTGTTTTGATTTGTTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGGC
131 GGTTTGTTTTGATTTGTTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGAC
* *
86930354 TTCAATCTGTTCCACTGCAACATCAGAGAGGCAAAGGTTTGTGATCTATAGCTTCGATGTACTCC
1 TTCAATCTGTTCCACTGCAACTTCAGAGAGGCAAAGGTTTGTGATCCATAGCTTCGATGTACTCC
*
86930419 ACTGCAACTTCAGGGGGGTAAGATTTGTAACTTCAACATGCTCCGCTACAACTTCAGGAAGACAA
66 ACTGCAACTTCAGGGGGGTAAGATTTGTAACTTCAACATGCTCCACTACAACTTCAGGAAGACAA
*
86930484 GGTTTGTTTTGATTTGTTCTACTGCAAGTTCAGAGAGATAAGATCTGTAATTTATGAC
131 GGTTTGTTTTGATTTGTTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGAC
* *
86930542 TTCAATCTATTCCACTGCAACTTCATAGAG
1 TTCAATCTGTTCCACTGCAACTTCAGAGAG
86930572 ATAAGACTTG
Statistics
Matches: 201, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
188 201 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (188 bp):
TTCAATCTGTTCCACTGCAACTTCAGAGAGGCAAAGGTTTGTGATCCATAGCTTCGATGTACTCC
ACTGCAACTTCAGGGGGGTAAGATTTGTAACTTCAACATGCTCCACTACAACTTCAGGAAGACAA
GGTTTGTTTTGATTTGTTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATGAC
Found at i:86938873 original size:19 final size:20
Alignment explanation
Indices: 86938851--86938894 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
86938841 GGGTCTTTTC
* *
86938851 ATGAAATTTAATGCATATG-
1 ATGAAATGTAATGCAAATGA
86938870 ATGAAATGTAATGCAAATGA
1 ATGAAATGTAATGCAAATGA
86938890 ATGAA
1 ATGAA
86938895 TGCAAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.30
Consensus pattern (20 bp):
ATGAAATGTAATGCAAATGA
Found at i:86942710 original size:12 final size:13
Alignment explanation
Indices: 86942693--86942721 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
86942683 TAAAATAGGT
86942693 AATATATAT-ATA
1 AATATATATAATA
86942705 AATATATATAATA
1 AATATATATAATA
86942718 AATA
1 AATA
86942722 CTTAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATATATAATA
Found at i:86942801 original size:25 final size:22
Alignment explanation
Indices: 86942787--86942859 Score: 80
Period size: 21 Copynumber: 3.3 Consensus size: 22
86942777 AAATAAGTTG
86942787 TATAAGACAATTTT-AAATAAA
1 TATAAGACAATTTTAAAATAAA
*
86942808 TATAAGACAAGTTTAAAATAATA
1 TATAAGACAATTTTAAAATAA-A
*
86942831 TATAAAGA-GA-TTTAAAATAAA
1 TAT-AAGACAATTTTAAAATAAA
86942852 TATTAAGA
1 TA-TAAGA
86942860 GGCTCAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 20 0.43
22 17 0.37
23 5 0.11
24 4 0.09
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (22 bp):
TATAAGACAATTTTAAAATAAA
Found at i:86942813 original size:21 final size:21
Alignment explanation
Indices: 86942787--86942859 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 21
86942777 AAATAAGTTG
*
86942787 TATAAGACAATTTTAAATAAA
1 TATAAGACAATTTAAAATAAA
86942808 TATAAGACAAGTTTAAAATAATA
1 TATAAGACAA-TTTAAAATAA-A
*
86942831 TATAAAGA-GATTTAAAATAAA
1 TAT-AAGACAATTTAAAATAAA
86942852 TATTAAGA
1 TA-TAAGA
86942860 GGCTCAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 17 0.37
22 20 0.43
23 5 0.11
24 4 0.09
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (21 bp):
TATAAGACAATTTAAAATAAA
Found at i:86949762 original size:3 final size:3
Alignment explanation
Indices: 86949754--86949800 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
86949744 TCTCCATTCT
86949754 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
86949801 AGCCAAACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:86950307 original size:15 final size:16
Alignment explanation
Indices: 86950279--86950308 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
86950269 ATTTTATTTT
86950279 AATAATAGATTTTAAC
1 AATAATAGATTTTAAC
86950295 AATAATA-ATTTTAA
1 AATAATAGATTTTAA
86950309 AATTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (16 bp):
AATAATAGATTTTAAC
Found at i:86950417 original size:15 final size:15
Alignment explanation
Indices: 86950373--86950448 Score: 63
Period size: 14 Copynumber: 5.3 Consensus size: 15
86950363 TAACAAAAAT
*
86950373 ATATTATAATTTATAA
1 ATATT-TAATATATAA
86950389 ATATTTAATA-ATAA
1 ATATTTAATATATAA
*
86950403 ATATTTTATATATAA
1 ATATTTAATATATAA
* *
86950418 A-ATATCA-ATAT-A
1 ATATTTAATATATAA
86950430 AT-TTTAATTATATAA
1 ATATTTAA-TATATAA
86950445 ATAT
1 ATAT
86950449 AAGTGCATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
12 5 0.10
13 4 0.08
14 21 0.44
15 12 0.25
16 6 0.12
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATTTAATATATAA
Found at i:86954804 original size:7 final size:7
Alignment explanation
Indices: 86954792--86954837 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
86954782 GAAACAATTA
86954792 TAGTAGT
1 TAGTAGT
86954799 TAGTAGT
1 TAGTAGT
86954806 TAG-AGCT
1 TAGTAG-T
86954813 TAGTAGT
1 TAGTAGT
86954820 TATGTAGT
1 TA-GTAGT
86954828 TA-TAGT
1 TAGTAGT
86954834 TAGT
1 TAGT
86954838 TAACTGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 8 0.23
7 18 0.51
8 9 0.26
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.43
Consensus pattern (7 bp):
TAGTAGT
Found at i:86954818 original size:21 final size:21
Alignment explanation
Indices: 86954792--86954837 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
86954782 GAAACAATTA
86954792 TAGTAGTTA-GTAGTTAGAGCT
1 TAGTAGTTATGTAGTTAGAG-T
*
86954813 TAGTAGTTATGTAGTTATAGT
1 TAGTAGTTATGTAGTTAGAGT
86954834 TAGT
1 TAGT
86954838 TAACTGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.43
Consensus pattern (21 bp):
TAGTAGTTATGTAGTTAGAGT
Found at i:86960246 original size:3 final size:3
Alignment explanation
Indices: 86960233--86960262 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
86960223 AGTTTTCTTT
86960233 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT
86960263 CTTAACTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:86960603 original size:12 final size:12
Alignment explanation
Indices: 86960586--86960627 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
86960576 TTGTATATAG
86960586 TATTATCAT-TT
1 TATTATCATATT
86960597 CTATTATCATATT
1 -TATTATCATATT
*
86960610 TATTATTATATT
1 TATTATCATATT
86960622 TATTAT
1 TATTAT
86960628 TTTCACTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 26 0.93
13 2 0.07
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATCATATT
Found at i:86960811 original size:12 final size:13
Alignment explanation
Indices: 86960771--86960821 Score: 50
Period size: 15 Copynumber: 3.7 Consensus size: 13
86960761 AACATTCTTA
86960771 TATTATGTATATTAT
1 TATTAT-TATATT-T
86960786 TATTATTAT-TTT
1 TATTATTATATTT
*
86960798 TTTTATTATATTT
1 TATTATTATATTT
86960811 TCATATATTAT
1 T-AT-TATTAT
86960822 GTATATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 9 0.29
13 6 0.19
14 4 0.13
15 12 0.39
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (13 bp):
TATTATTATATTT
Found at i:86962133 original size:21 final size:22
Alignment explanation
Indices: 86962107--86962191 Score: 84
Period size: 21 Copynumber: 3.9 Consensus size: 22
86962097 TGATCAGTAT
*
86962107 ACGACACATAAAGTGCCT-AAA
1 ACGACACACAAAGTGCCTGAAA
* * *
86962128 ACGACACACGAGGTGCCTGATA
1 ACGACACACAAAGTGCCTGAAA
* *
86962150 A-GACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCTGAAA
*
86962171 TACGACACATAAAGTGCCTGA
1 -ACGACACACAAAGTGCCTGA
86962192 TCGATAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 34 0.64
22 4 0.08
23 15 0.28
ACGTcount: A:0.39, C:0.25, G:0.22, T:0.14
Consensus pattern (22 bp):
ACGACACACAAAGTGCCTGAAA
Found at i:86962177 original size:23 final size:23
Alignment explanation
Indices: 86962105--86962179 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
86962095 CCTGATCAGT
** *
86962105 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTGAA
86962127 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
*
86962147 ATAAGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
86962170 ATACGACACA
1 ATACGACACA
86962180 TAAAGTGCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.02
21 33 0.75
22 1 0.02
23 9 0.20
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.13
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:86962587 original size:15 final size:15
Alignment explanation
Indices: 86962562--86962619 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
86962552 TCATGTATAT
86962562 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
86962578 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
86962593 AATAATTTCAATCAA
1 TATAAATTCAATCAA
86962608 TATAAATTCAAT
1 TATAAATTCAAT
86962620 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:86963902 original size:5 final size:5
Alignment explanation
Indices: 86963889--86963920 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
86963879 TTCTTTAGTT
86963889 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
86963921 TAAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:86974187 original size:49 final size:49
Alignment explanation
Indices: 86974131--86974345 Score: 412
Period size: 49 Copynumber: 4.4 Consensus size: 49
86974121 TACATATATG
* *
86974131 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
86974180 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
86974229 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
86974278 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
86974327 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
86974346 TAATGCAAAA
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 164 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:86974496 original size:37 final size:37
Alignment explanation
Indices: 86974446--86974567 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
86974436 GGAATATGTT
*
86974446 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
86974483 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
86974520 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
86974557 CCGGGTAAGAC
1 CCGGGTAAGAC
86974568 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:86980808 original size:72 final size:72
Alignment explanation
Indices: 86980721--86981008 Score: 357
Period size: 72 Copynumber: 3.9 Consensus size: 72
86980711 CTCTATTTTT
* *
86980721 TCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTATTCTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATT-TCAATT
86980786 TCTACTTG
65 TCTACTTG
* *
86980794 TC-AAAATCAACTCATATGGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTA-TTTCAATT
*
86980858 TCTACTTT
65 TCTACTTG
* *
86980866 TCGAAAAAATCAAC-CTACATTGCGAGAGGTGAGTT-AGGCCTCAGGACACGCTGAGGTAATTTC
1 TC--AAAAATCAACTC-ATATTGCGAGAGGTGAGTTGA-GCCTCAGGGCACGCTGAGGT-ATTTC
**
86980929 AATTTCTGTTTG
61 AATTTCTACTTG
* ** * *
86980941 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGATATGCTGAGGTATTTTTAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTA-TTTCAATT
86981006 TCT
65 TCT
86981009 GTTTTTTCAA
Statistics
Matches: 188, Mismatches: 17, Indels: 20
0.84 0.08 0.09
Matches are distributed among these distances:
72 65 0.35
73 59 0.31
74 4 0.02
75 59 0.31
76 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (72 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTCAATTT
CTACTTG
Found at i:86980981 original size:73 final size:73
Alignment explanation
Indices: 86980721--86981012 Score: 351
Period size: 73 Copynumber: 4.0 Consensus size: 73
86980711 CTCTATTTTT
* * *
86980721 TCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGT-ATTCTCAAT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAAT
**
86980785 TTCTACTTG
65 TTCTGTTTG
* * * *
86980794 TC-AAAATCAACTCATATGGTGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
*
86980858 TCTACTTT-
66 TCT-GTTTG
*
86980866 TCGAAAAAATCAAC-CTACATTGCGAGAGGTGAGTT-AGGCCTCAGGACACGCTGAGGTAATTTC
1 TC--AAAAATCAACTC-ATATTGCGAGAGGTGAGTTGA-GCCTCAGGACACGCTGAGGTAATTTC
86980929 AATTTCTGTTTG
62 AATTTCTGTTTG
* * * * *
86980941 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGATATGCTGAGGTATTTTTAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
86981006 TCTGTTT
66 TCTGTTT
86981013 TTTCAATTTA
Statistics
Matches: 190, Mismatches: 19, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
72 59 0.31
73 66 0.35
74 7 0.04
75 58 0.31
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (73 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TCTGTTTG
Found at i:86981125 original size:90 final size:89
Alignment explanation
Indices: 86980943--86981160 Score: 239
Period size: 90 Copynumber: 2.4 Consensus size: 89
86980933 TCTGTTTGTC
* ** * * **
86980943 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGATATGCTGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACATGCTGAGGTATTTTCAAAATC
** * *
86981008 TGTTTTTTCAATTTATATTTTCAAA
66 TGACTTTTCAAATTATAGTTTC-AA
*
86981033 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGGGTTCACATG-TCGAGGTATTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGG---ACATGCT-GAGGTATTTTCAA
86981097 AATCT-ACTTTTCAAATTA-AGTTTC-A
62 AATCTGACTTTTCAAATTATAGTTTCAA
*
86981122 AAAACT-AACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
86981161 CTCACGTGCT
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
88 32 0.29
89 6 0.05
90 37 0.34
91 5 0.05
92 11 0.10
93 19 0.17
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACATGCTGAGGTATTTTCAAAATC
TGACTTTTCAAATTATAGTTTCAA
Found at i:86983420 original size:12 final size:12
Alignment explanation
Indices: 86983403--86983444 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
86983393 TTGTATATAG
86983403 TATTATCAT-TT
1 TATTATCATATT
86983414 CTATTATCATATT
1 -TATTATCATATT
*
86983427 TATTATTATATT
1 TATTATCATATT
86983439 TATTAT
1 TATTAT
86983445 TTTCACTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 26 0.93
13 2 0.07
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATCATATT
Found at i:86983571 original size:11 final size:12
Alignment explanation
Indices: 86983557--86983655 Score: 52
Period size: 12 Copynumber: 8.6 Consensus size: 12
86983547 CATTTCTTCA
86983557 TTATT-TTTTAT
1 TTATTATTTTAT
86983568 TTATTATTTTA-
1 TTATTATTTTAT
** * *
86983579 ACATTCTTATA-
1 TTATTATTTTAT
*
86983590 TTATGTATATTA-
1 TTAT-TATTTTAT
86983602 TTATTATTATTA-
1 TTATTATT-TTAT
86983614 TTATTATTATTA-
1 TTATTATT-TTAT
86983626 TTATTATTTTA-
1 TTATTATTTTAT
86983637 TTA-TATTTTCAT
1 TTATTATTTT-AT
*
86983649 ATATTAT
1 TTATTAT
86983656 GTATATATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
10 6 0.08
11 24 0.34
12 38 0.54
13 3 0.04
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (12 bp):
TTATTATTTTAT
Found at i:86983600 original size:9 final size:8
Alignment explanation
Indices: 86983585--86983655 Score: 74
Period size: 9 Copynumber: 8.5 Consensus size: 8
86983575 TTTAACATTC
86983585 TTATATTA
1 TTATATTA
86983593 TGTATATTA
1 T-TATATTA
86983602 TTATTATTA
1 TTA-TATTA
86983611 TTATTATTA
1 TTA-TATTA
86983620 TTATTATTA
1 TTA-TATTA
*
86983629 TTATTTTA
1 TTATATTA
86983637 TTATATT-
1 TTATATTA
86983644 TTCATA-TA
1 TT-ATATTA
86983652 TTAT
1 TTAT
86983656 GTATATATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
7 5 0.09
8 18 0.32
9 34 0.60
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (8 bp):
TTATATTA
Found at i:86983605 original size:3 final size:3
Alignment explanation
Indices: 86983588--86983640 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
86983578 AACATTCTTA
86983588 TAT TAT GTA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
86983633 T-T TAT TAT
1 TAT TAT TAT
86983641 ATTTTCATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:86987934 original size:3 final size:3
Alignment explanation
Indices: 86987926--86987971 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
86987916 AGATATTTAC
86987926 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
86987972 ATTTTATCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:86988176 original size:26 final size:26
Alignment explanation
Indices: 86988140--86988215 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 26
86988130 AGAATAAATA
86988140 AAAGAAAGAAAAACAAGAAAAAGAAAC
1 AAAG-AAGAAAAACAAGAAAAAGAAAC
* *
86988167 AAAGAAG--AAACGAGATAGAAAGAAAG
1 AAAGAAGAAAAACAAGA-A-AAAGAAAC
*
86988193 AAAGAAGAAAAGAAAAGAAAAAG
1 AAAGAAGAAAA-ACAAGAAAAAG
86988216 GAGAAATTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
24 7 0.17
25 1 0.03
26 17 0.43
27 8 0.20
28 3 0.08
29 4 0.10
ACGTcount: A:0.74, C:0.04, G:0.21, T:0.01
Consensus pattern (26 bp):
AAAGAAGAAAAACAAGAAAAAGAAAC
Found at i:86989248 original size:40 final size:37
Alignment explanation
Indices: 86989158--86989248 Score: 85
Period size: 40 Copynumber: 2.4 Consensus size: 37
86989148 CAGATAGATT
86989158 CGATGAGGCGTTGGTCGCCACTTTGCTTCGACTTAGC
1 CGATGAGGCGTTGGTCGCCACTTTGCTTCGACTTAGC
* ** * * *
86989195 CAATGAGAAGTTGGTTGTCACTTATTTGCTTCGAAC-TATC
1 CGATGAGGCGTTGGTCGCCAC---TTTGCTTCG-ACTTAGC
86989235 CGATGAGGCGTTGG
1 CGATGAGGCGTTGG
86989249 CCGCAACTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
37 16 0.39
40 23 0.56
41 2 0.05
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.32
Consensus pattern (37 bp):
CGATGAGGCGTTGGTCGCCACTTTGCTTCGACTTAGC
Found at i:86992286 original size:26 final size:26
Alignment explanation
Indices: 86992256--86992337 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
86992246 TGAAATTCCC
86992256 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
86992282 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
86992308 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
86992334 ATCA
1 ATCA
86992338 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:86994865 original size:23 final size:23
Alignment explanation
Indices: 86994839--86994883 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
86994829 ATTCACTTAT
*
86994839 ATTTCATGTTAATTTT-ATTTTTA
1 ATTTCATG-AAATTTTAATTTTTA
*
86994862 ATTTTATGAAATTTTAATTTTT
1 ATTTCATGAAATTTTAATTTTT
86994884 TTTGAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (23 bp):
ATTTCATGAAATTTTAATTTTTA
Found at i:86994889 original size:18 final size:19
Alignment explanation
Indices: 86994863--86994905 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
86994853 TTATTTTTAA
86994863 TTTTATGAAATTTTAAT-T
1 TTTTATGAAATTTTAATAT
* *
86994881 TTTTTTGAATTTTTAATAT
1 TTTTATGAAATTTTAATAT
86994900 TTTTAT
1 TTTTAT
86994906 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTATGAAATTTTAATAT
Found at i:86994903 original size:17 final size:16
Alignment explanation
Indices: 86994855--86994903 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
86994845 TGTTAATTTT
*
86994855 ATTTTTAATTTTATGA
1 ATTTTTAATTTTTTGA
*
86994871 AATTTTAATTTTTTTTGA
1 ATTTTTAA--TTTTTTGA
86994889 ATTTTTAATATTTTT
1 ATTTTTAAT-TTTTT
86994904 ATTTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 8 0.30
17 5 0.19
18 14 0.52
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (16 bp):
ATTTTTAATTTTTTGA
Found at i:86994903 original size:27 final size:28
Alignment explanation
Indices: 86994847--86994909 Score: 78
Period size: 26 Copynumber: 2.3 Consensus size: 28
86994837 ATATTTCATG
*
86994847 TTAATTTTATTTTTAATTTTATGAAATT
1 TTAATTTTATTTTGAATTTTATGAAATT
86994875 TTAATTTT-TTTTGAATTTT-T-AATATT
1 TTAATTTTATTTTGAATTTTATGAA-ATT
*
86994901 TTTATTTTA
1 TTAATTTTA
86994910 AAAAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 2 0.06
26 11 0.35
27 10 0.32
28 8 0.26
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (28 bp):
TTAATTTTATTTTGAATTTTATGAAATT
Found at i:86995290 original size:29 final size:30
Alignment explanation
Indices: 86995248--86995310 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
86995238 TTTAATGTGC
*
86995248 AATTGTATACATG-AATTTTGATTTTATAT
1 AATTGTATACATGAAATTTTGATTTGATAT
* * *
86995277 AATTTTATATATGAAATTTTGATTTGATTT
1 AATTGTATACATGAAATTTTGATTTGATAT
86995307 AATT
1 AATT
86995311 ATTGTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.54
Consensus pattern (30 bp):
AATTGTATACATGAAATTTTGATTTGATAT
Found at i:86998031 original size:26 final size:26
Alignment explanation
Indices: 86997997--86998065 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
86997987 GGGGATACTC
*
86997997 CACAACTCGTGTGAGC-AGACCCATTT
1 CACAGCTCGTGTGAGCAAG-CCCATTT
**
86998023 CGTAGCTCGTGTGAGCAAGCCCATTT
1 CACAGCTCGTGTGAGCAAGCCCATTT
86998049 CACAGCTCGTGTGAGCA
1 CACAGCTCGTGTGAGCA
86998066 TATATGTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 35 0.95
27 2 0.05
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAAGCCCATTT
Found at i:86998351 original size:20 final size:20
Alignment explanation
Indices: 86998328--86998368 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
86998318 CAAATTTATA
86998328 TGAATCATGTCTAAATGAAC
1 TGAATCATGTCTAAATGAAC
86998348 TGAATCATGTCTAAATGAAC
1 TGAATCATGTCTAAATGAAC
86998368 T
1 T
86998369 AACATGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (20 bp):
TGAATCATGTCTAAATGAAC
Found at i:87001313 original size:31 final size:31
Alignment explanation
Indices: 87001275--87001336 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
87001265 TTAAGAGAAG
*
87001275 GGAAAGACGAGAGACAAAAATTTAGTTTGTA
1 GGAAAGACGAGAGACAAAAATTCAGTTTGTA
87001306 GGAAAGACGAGAGACAAAAATTCAGTTTGTA
1 GGAAAGACGAGAGACAAAAATTCAGTTTGTA
87001337 CTTTTATGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.45, C:0.08, G:0.26, T:0.21
Consensus pattern (31 bp):
GGAAAGACGAGAGACAAAAATTCAGTTTGTA
Found at i:87002176 original size:26 final size:26
Alignment explanation
Indices: 87002147--87002254 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
87002137 TGGTACAAAT
*
87002147 TGATAATGGGTTAGGTAAATGTTACA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87002173 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87002199 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87002225 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87002251 TGAT
1 TGAT
87002255 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87006407 original size:23 final size:22
Alignment explanation
Indices: 87006381--87006423 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
87006371 CAATCAAGTT
* *
87006381 TTTTTAATTTATGTTTTTATTCG
1 TTTTT-ATTTAAGATTTTATTCG
87006404 TTTTTATTTAAGATTTTATT
1 TTTTTATTTAAGATTTTATT
87006424 ATTTGTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (22 bp):
TTTTTATTTAAGATTTTATTCG
Found at i:87006568 original size:31 final size:31
Alignment explanation
Indices: 87006528--87006631 Score: 122
Period size: 31 Copynumber: 3.3 Consensus size: 31
87006518 ATTATTTAAA
* *
87006528 ATTTCTATTTTAAAATTT-TCTTTATACATGT
1 ATTTTTATTTTAAAATTTATCATTATACAT-T
87006559 ATTTTTATTTTCAAAATTTATACATTATACATT
1 ATTTTTATTTT-AAAATTTAT-CATTATACATT
*
87006592 ATATATTATTTTAAAATTTAT-ATTATACATT
1 AT-TTTTATTTTAAAATTTATCATTATACATT
87006623 ATTATTTAT
1 ATT-TTTAT
87006632 ATATTGTTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
30 1 0.02
31 26 0.41
32 7 0.11
33 13 0.20
34 17 0.27
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.57
Consensus pattern (31 bp):
ATTTTTATTTTAAAATTTATCATTATACATT
Found at i:87006624 original size:38 final size:35
Alignment explanation
Indices: 87006576--87006652 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 35
87006566 TTTTCAAAAT
87006576 TTATACATTATACATTATATATTATT-TTAAAATTTATA
1 TTATACATTAT-CATT-TATA-TATTGTT-AAATTTATA
* *
87006614 TTATACATTATTATTTATATATTGTTAATTTTATA
1 TTATACATTATCATTTATATATTGTTAAATTTATA
87006649 TTAT
1 TTAT
87006653 TTTATGTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
35 16 0.44
36 6 0.17
37 3 0.08
38 11 0.31
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (35 bp):
TTATACATTATCATTTATATATTGTTAAATTTATA
Found at i:87009807 original size:69 final size:69
Alignment explanation
Indices: 87009686--87009822 Score: 193
Period size: 69 Copynumber: 2.0 Consensus size: 69
87009676 AGAAGGGCTA
* * * * *
87009686 ATAGGGTGTGATTCCTCTCATATGTATTATGATGAGGATTCGGGTCTCTCATTGTATTGGGCACA
1 ATAGAGTGTGATTCCCCTCATATGTATTATGATGAAGATTCGGGCCTCTCATTGTATTAGGCACA
87009751 ATTG
66 ATTG
* * * *
87009755 ATAGAGTGTGCTTCCCCTTATATGTATTATGATGAAGATTTGGGCCTTTCATTGTATTAGGCACA
1 ATAGAGTGTGATTCCCCTCATATGTATTATGATGAAGATTCGGGCCTCTCATTGTATTAGGCACA
87009820 ATT
66 ATT
87009823 ATATGTGCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (69 bp):
ATAGAGTGTGATTCCCCTCATATGTATTATGATGAAGATTCGGGCCTCTCATTGTATTAGGCACA
ATTG
Found at i:87010180 original size:7 final size:7
Alignment explanation
Indices: 87010133--87010178 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
87010123 TGCAAATAGA
87010133 TCATTTC
1 TCATTTC
87010140 TCATTTC
1 TCATTTC
87010147 TCATTTC
1 TCATTTC
87010154 TCATTTC
1 TCATTTC
87010161 TCATTT-
1 TCATTTC
87010167 TCATTT-
1 TCATTTC
87010173 TCATTT
1 TCATTT
87010179 TTTTGAAACC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
6 12 0.31
7 27 0.69
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (7 bp):
TCATTTC
Found at i:87013758 original size:46 final size:46
Alignment explanation
Indices: 87013704--87014280 Score: 809
Period size: 46 Copynumber: 12.6 Consensus size: 46
87013694 GCTTTCTGAA
*
87013704 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
87013750 AAGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
87013796 ATGAAATGTGTAAGACCATGGTTG-AAGACACCATGACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
87013841 ATGAAATGTGTAAGACCATGATTGAAAGACACCATGGAAAAATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
87013887 ATGAAATGTGCAAGAACATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
87013933 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
87013979 ATCAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
87014025 ATCAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
87014071 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
87014117 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** ** * *
87014162 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
87014208 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
87014254 A-GAAAATGAGTAAGACCATAGTTGAAA
1 ATG-AAATGTGTAAGACCATGGTTGAAA
87014281 AACACTATGG
Statistics
Matches: 480, Mismatches: 48, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
45 80 0.17
46 400 0.83
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:87014198 original size:275 final size:275
Alignment explanation
Indices: 87013707--87014280 Score: 812
Period size: 275 Copynumber: 2.1 Consensus size: 275
87013697 TTCTGAAATG
*
87013707 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATAAGAAATGTGTAAGACCATGGT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATAACAAATGTGTAAGACCATGGT
*
87013772 TGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAGACACCATGACAACA
66 TGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATAGTTGAAGACACCATGACAACA
* * * **
87013837 TGATATGAAATGTGTAAGACCATGATTGAAAGACACCATGGAAAAATGATATGAAATGTGCAAGA
131 GGATATAAAATGTGTAAGACCATGATTGAAAGACACCATGGAAAAATGATAGGAAATGAACAAGA
* * ***
87013902 ACATGGTTGAAAGATACCATGGCAACAG-GATATAAAATGTGTAAGACCATGGTTGAAAGATACC
196 ACATGGTTGAAAGATACCATGGCAA-AGTAACATAAAATGAACAAGACCATGGTTGAAAGATACC
* **
87013966 ATGGCAACATGATATC
260 ATGGCAACATGACAGA
*
87013982 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAG-GATATCAAATGTGTAAGACCATGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-GTGATAACAAATGTGTAAGACCATGG
* * *
87014046 TTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAA
65 TTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATAGTTG-AAGACACCATGACAA
* * * * * * *
87014111 CAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-CGGGAATGAATAA
129 CAGGATATAAAATGTGTAAGACCATGATTGAAAGACACCATGGAAAAATGATAGGAAATGAACAA
* * *
87014175 GACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATAC
194 GAACATGGTTGAAAGATACCATGGCAAAGTAACATAAAATGAACAAGACCATGGTTGAAAGATAC
*
87014240 CATGGCAACCTGACAGA
259 CATGGCAACATGACAGA
* *
87014257 AAATGAGTAAGACCATAGTTGAAA
1 AAATGTGTAAGACCATGGTTGAAA
87014281 AACACTATGG
Statistics
Matches: 264, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
274 1 0.00
275 204 0.77
276 59 0.22
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (275 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATAACAAATGTGTAAGACCATGGT
TGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATAGTTGAAGACACCATGACAACA
GGATATAAAATGTGTAAGACCATGATTGAAAGACACCATGGAAAAATGATAGGAAATGAACAAGA
ACATGGTTGAAAGATACCATGGCAAAGTAACATAAAATGAACAAGACCATGGTTGAAAGATACCA
TGGCAACATGACAGA
Found at i:87014597 original size:16 final size:17
Alignment explanation
Indices: 87014576--87014608 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
87014566 ATGATGGAGC
87014576 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
87014592 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
87014609 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:87016503 original size:46 final size:46
Alignment explanation
Indices: 87016450--87016625 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
87016440 TATTTGGGCA
*
87016450 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
87016496 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
87016543 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
87016589 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87016626 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:87016605 original size:93 final size:93
Alignment explanation
Indices: 87016446--87016618 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
87016436 AGGATATTTG
* * *
87016446 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
87016511 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
87016539 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
*
87016604 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
87016619 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:87020911 original size:78 final size:78
Alignment explanation
Indices: 87020782--87020938 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
87020772 CTGATTCGTA
87020782 GGCATCCACCATTGGATCATTGAAAGCCTGAAATATTTTGTTCTATTCAACCCCTTCTCTACTTT
1 GGCATCCACCATTGGATCATTGAAAGCCTGAAATATTTTGTTCTATTCAACCCCTTCTCTACTTT
87020847 CACCATTTAGATT
66 CACCATTTAGATT
87020860 GGCATCCACCATTGGATCATTGAAAGCCTGAAATATTTTGTTCTATTCAACCCCTTCTCTACTTT
1 GGCATCCACCATTGGATCATTGAAAGCCTGAAATATTTTGTTCTATTCAACCCCTTCTCTACTTT
87020925 CACCATTTAGATT
66 CACCATTTAGATT
87020938 G
1 G
87020939 TTGAACAGAG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (78 bp):
GGCATCCACCATTGGATCATTGAAAGCCTGAAATATTTTGTTCTATTCAACCCCTTCTCTACTTT
CACCATTTAGATT
Found at i:87021528 original size:38 final size:38
Alignment explanation
Indices: 87021463--87021561 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 38
87021453 CTTTGAGATT
* * **
87021463 TAGTGGCATTAGCAGCG-TTTTTCAAAAAGCGCCGCTAA
1 TAGTGGCATTAGCGGCGCTTTGTCAAAAAAAGCCGC-AA
87021501 TAGTGGCATTAGCGGCGCTTTGT-AAAAAAAGCCGCAA
1 TAGTGGCATTAGCGGCGCTTTGTCAAAAAAAGCCGCAA
*
87021538 TAGATTGAGTATTAGCGGCGCTTT
1 TAG--TG-GCATTAGCGGCGCTTT
87021562 TTGATAAACG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
37 5 0.10
38 26 0.50
39 6 0.12
40 15 0.29
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (38 bp):
TAGTGGCATTAGCGGCGCTTTGTCAAAAAAAGCCGCAA
Found at i:87021645 original size:21 final size:20
Alignment explanation
Indices: 87021599--87021650 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
87021589 CTATTTTAAG
*
87021599 TTTTAGGGATTAATGGTTTTG
1 TTTTA-GGATTAATGGTTTTA
* *
87021620 GTTTAGGATTGATGGTTTATA
1 TTTTAGGATTAATGGTTT-TA
*
87021641 TTTTATGATT
1 TTTTAGGATT
87021651 TAGGGTTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (20 bp):
TTTTAGGATTAATGGTTTTA
Found at i:87022268 original size:22 final size:22
Alignment explanation
Indices: 87022231--87022284 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
87022221 CTTAAATCTC
87022231 AAAC-CTTAAACTATAAACCCT
1 AAACTCTTAAACTATAAACCCT
87022252 AAACTCTTAAA-TCATAAACCCT
1 AAACTCTTAAACT-ATAAACCCT
*
87022274 AAAATCTTAAA
1 AAACTCTTAAA
87022285 AATAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
AAACTCTTAAACTATAAACCCT
Found at i:87022772 original size:14 final size:14
Alignment explanation
Indices: 87022755--87022868 Score: 70
Period size: 14 Copynumber: 8.1 Consensus size: 14
87022745 TAGTTTATAA
87022755 GGTTTAGGGTATTG
1 GGTTTAGGGTATTG
* *
87022769 GGTTTAGGGTCTAG
1 GGTTTAGGGTATTG
*** *
87022783 GGTTTAATCTATAG
1 GGTTTAGGGTATTG
*
87022797 GGTTTAAGGTATTG
1 GGTTTAGGGTATTG
**
87022811 GGTATT-TTGT-TTAG
1 GGT-TTAGGGTATT-G
** *
87022825 GGTTTAGTCTATAG
1 GGTTTAGGGTATTG
87022839 GGTTTAGGGTATTGG
1 GGTTTAGGGTATT-G
*
87022854 GGTTTAGTGTATTG
1 GGTTTAGGGTATTG
87022868 G
1 G
87022869 TTTTGGGCTT
Statistics
Matches: 77, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
13 4 0.05
14 57 0.74
15 16 0.21
ACGTcount: A:0.18, C:0.03, G:0.36, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGTATTG
Found at i:87022858 original size:15 final size:15
Alignment explanation
Indices: 87022838--87022868 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
87022828 TTAGTCTATA
87022838 GGGTTTAGGGTATTG
1 GGGTTTAGGGTATTG
*
87022853 GGGTTTAGTGTATTG
1 GGGTTTAGGGTATTG
87022868 G
1 G
87022869 TTTTGGGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (15 bp):
GGGTTTAGGGTATTG
Found at i:87022871 original size:42 final size:42
Alignment explanation
Indices: 87022743--87022871 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 42
87022733 GCGTTTAGAA
* * * *
87022743 TTTAGTTTATAAGGTTTAGGGTATT-GGGTTTAGGGTCTAGGG
1 TTTAGTCTATAGGGTTTAGGGTATTGGGGTTTAGTGTAT-GGG
* * * * *
87022785 TTTAATCTATAGGGTTTAAGGTATTGGGTATTTTGTTTA-GGG
1 TTTAGTCTATAGGGTTTAGGGTATTGGG-GTTTAGTGTATGGG
*
87022827 TTTAGTCTATAGGGTTTAGGGTATTGGGGTTTAGTGTATTGG
1 TTTAGTCTATAGGGTTTAGGGTATTGGGGTTTAGTGTATGGG
87022869 TTT
1 TTT
87022872 TGGGCTTAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
41 7 0.10
42 55 0.80
43 2 0.03
44 5 0.07
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.47
Consensus pattern (42 bp):
TTTAGTCTATAGGGTTTAGGGTATTGGGGTTTAGTGTATGGG
Found at i:87023259 original size:83 final size:84
Alignment explanation
Indices: 87023116--87023380 Score: 263
Period size: 84 Copynumber: 3.2 Consensus size: 84
87023106 GACAGTGGAG
* * * * * *
87023116 TTAGTGGCGCTA-GGTCATAAATGCCGCTAAAAGTATGAGAAATTGTATTG-AAACGT-CGTCGT
1 TTAGTGGCGCTATCGT-ATAAACGCCACTAAAAATATGAGAAATCG-AATGAAAAC-TACGTCGT
* *
87023178 TTTAT-TC-CGC-GGGTAGTAGAT
63 TTTATGTCGCGCAGTGTAG--GAA
* *
87023199 TTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGAAAACTACGTCGTTTT
1 TTAGTGGCGCTATCGTATAAACGCCACTAAAAATATGAGAAATCGAATGAAAACTACGTCGTTTT
* *
87023264 ATGTGGCGCAGTTTAGGAA
66 ATGTCGCGCAGTGTAGGAA
* * * *
87023283 TTAGTGGCGCTATCGTATAAACACCACTAAGAATATGAGAAACCGGATGAAAACTACGTCGTTTT
1 TTAGTGGCGCTATCGTATAAACGCCACTAAAAATATGAGAAATCGAATGAAAACTACGTCGTTTT
* * * *
87023348 ATATGGCTCAGTTTAGGAA
66 ATGTCGCGCAGTGTAGGAA
87023367 TTAGTGGCGCTATC
1 TTAGTGGCGCTATC
87023381 CTAGAAAAGT
Statistics
Matches: 156, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
82 4 0.03
83 51 0.33
84 94 0.60
85 3 0.02
86 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (84 bp):
TTAGTGGCGCTATCGTATAAACGCCACTAAAAATATGAGAAATCGAATGAAAACTACGTCGTTTT
ATGTCGCGCAGTGTAGGAA
Found at i:87023312 original size:84 final size:84
Alignment explanation
Indices: 87023199--87023380 Score: 292
Period size: 84 Copynumber: 2.2 Consensus size: 84
87023189 GGTAGTAGAT
* * * *
87023199 TTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGAAAACTACGTCGTTTT
1 TTAGTGGCGCTATCGTATAAACACCACTAAAAATATGAGAAACCGAATGAAAACTACGTCGTTTT
*
87023264 ATGTGGCGCAGTTTAGGAA
66 ATATGGCGCAGTTTAGGAA
* *
87023283 TTAGTGGCGCTATCGTATAAACACCACTAAGAATATGAGAAACCGGATGAAAACTACGTCGTTTT
1 TTAGTGGCGCTATCGTATAAACACCACTAAAAATATGAGAAACCGAATGAAAACTACGTCGTTTT
*
87023348 ATATGGCTCAGTTTAGGAA
66 ATATGGCGCAGTTTAGGAA
87023367 TTAGTGGCGCTATC
1 TTAGTGGCGCTATC
87023381 CTAGAAAAGT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (84 bp):
TTAGTGGCGCTATCGTATAAACACCACTAAAAATATGAGAAACCGAATGAAAACTACGTCGTTTT
ATATGGCGCAGTTTAGGAA
Found at i:87025763 original size:50 final size:51
Alignment explanation
Indices: 87025702--87025808 Score: 155
Period size: 50 Copynumber: 2.1 Consensus size: 51
87025692 AGATCTTAAG
* *
87025702 TTTATATATTCTATCAATTT-GATCTTGATTTAACAAA-TTAAATCGTAATA
1 TTTATATATTCTATCAATTTAG-TCATAATTTAACAAATTTAAATCGTAATA
**
87025752 TTTATATATTCTATCAATTTAGTCATAATTTAACAAATTTAGCTCGTAATA
1 TTTATATATTCTATCAATTTAGTCATAATTTAACAAATTTAAATCGTAATA
87025803 TTTATA
1 TTTATA
87025809 CGTTATGTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
50 33 0.65
51 18 0.35
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (51 bp):
TTTATATATTCTATCAATTTAGTCATAATTTAACAAATTTAAATCGTAATA
Found at i:87026188 original size:3 final size:3
Alignment explanation
Indices: 87026180--87026210 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
87026170 AATTCTGAAC
87026180 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
87026211 GTTTGTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:87026661 original size:13 final size:13
Alignment explanation
Indices: 87026643--87026672 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
87026633 CCACATAATA
87026643 CATAAATATATAT
1 CATAAATATATAT
*
87026656 CATAAATATGTAT
1 CATAAATATATAT
87026669 CATA
1 CATA
87026673 TCATAAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:87026686 original size:9 final size:9
Alignment explanation
Indices: 87026674--87026755 Score: 69
Period size: 9 Copynumber: 9.1 Consensus size: 9
87026664 TGTATCATAT
*
87026674 CATAAGTTA
1 CATAACTTA
87026683 CATAACTTA
1 CATAACTTA
*
87026692 CATACCTTA
1 CATAACTTA
*
87026701 CATAAATGTA
1 CATAACT-TA
* * *
87026711 TATCA-TAA
1 CATAACTTA
87026719 CATAACTTA
1 CATAACTTA
87026728 CATAACTTA
1 CATAACTTA
87026737 CA-AAGCTTA
1 CATAA-CTTA
*
87026746 CTTAACTTA
1 CATAACTTA
87026755 C
1 C
87026756 GTAATACATA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
8 6 0.10
9 45 0.78
10 7 0.12
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:87026746 original size:45 final size:45
Alignment explanation
Indices: 87026656--87026746 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
87026646 AAATATATAT
* * * *
87026656 CATAAATATGTATCATATCATAAGTTACATAACTTACATACCTTA
1 CATAAATATATATCATAACATAACTTACATAACTTACAAACCTTA
* *
87026701 CATAAATGTATATCATAACATAACTTACATAACTTACAAAGCTTA
1 CATAAATATATATCATAACATAACTTACATAACTTACAAACCTTA
87026746 C
1 C
87026747 TTAACTTACG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (45 bp):
CATAAATATATATCATAACATAACTTACATAACTTACAAACCTTA
Found at i:87032344 original size:21 final size:21
Alignment explanation
Indices: 87032314--87032357 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
87032304 CTTAGAGCGG
* *
87032314 AGCGAGGGAGGCAGTGGCAGC
1 AGCGAAGGAGGCAGAGGCAGC
87032335 AGCGAAGGAGGCAGAGGCAGC
1 AGCGAAGGAGGCAGAGGCAGC
87032356 AG
1 AG
87032358 TGATGGCAGC
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:0.30, C:0.18, G:0.50, T:0.02
Consensus pattern (21 bp):
AGCGAAGGAGGCAGAGGCAGC
Found at i:87032642 original size:33 final size:33
Alignment explanation
Indices: 87032592--87032673 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
87032582 TTAGAATTAA
*
87032592 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGCATTTTTTATGCTAAATTTGC
* * *
87032625 TGTTTTTGGCTGCA--TTTTATGCTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATGCTAAATTTGC
* *
87032656 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
87032674 AATGTAGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.13, C:0.06, G:0.21, T:0.60
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATGCTAAATTTGC
Found at i:87033457 original size:6 final size:6
Alignment explanation
Indices: 87033446--87033492 Score: 76
Period size: 6 Copynumber: 7.7 Consensus size: 6
87033436 TAATTACACG
*
87033446 AAAATT AAAATT AAAATT AAAATC AAAATT AAAATT AAAATTT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAA-TT AAAA
87033493 GCAAAATGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 32 0.84
7 6 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:87039252 original size:21 final size:22
Alignment explanation
Indices: 87039208--87039252 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
87039198 AATAGGAAAC
* *
87039208 AAAATTAACGTAATTCTCTACA
1 AAAATCAACGTAATTATCTACA
*
87039230 AAAATCAACGTCATTATCT-CA
1 AAAATCAACGTAATTATCTACA
87039251 AA
1 AA
87039253 GGAAGCATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (22 bp):
AAAATCAACGTAATTATCTACA
Found at i:87060392 original size:29 final size:29
Alignment explanation
Indices: 87060359--87060490 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
87060349 GTGACGAGAT
*
87060359 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
87060388 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
87060417 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
87060446 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
87060475 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
87060491 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:87068208 original size:29 final size:29
Alignment explanation
Indices: 87068175--87068306 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
87068165 GTGACGAGAT
*
87068175 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
87068204 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
87068233 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
87068262 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
87068291 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
87068307 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:87070790 original size:40 final size:40
Alignment explanation
Indices: 87070598--87070783 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
87070588 TCGAATGATG
* * * *
87070598 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
87070638 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
87070678 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
87070718 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
87070759 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
87070784 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:87070790 original size:80 final size:79
Alignment explanation
Indices: 87070651--87070806 Score: 201
Period size: 80 Copynumber: 2.0 Consensus size: 79
87070641 GGACTAAGAT
**
87070651 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
87070715 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
87070731 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGC
1 CCGAAGGCATTCGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
87070794 TATATCCGGTTAA
64 TAAATCCGGTTAA
87070807 ACTCCGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
79 9 0.13
80 56 0.84
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:87078659 original size:40 final size:40
Alignment explanation
Indices: 87078601--87078699 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
87078591 TCGAATGATG
* * *
87078601 TCCGGGCTAAG-TCTCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGATC-CGAAGGCATTCGTGC-AAGTGACTAAA
* *
87078641 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTCGTGCAAGTGACTAAA
87078681 TCCGGACTAAGATCCGAAG
1 TCCGGACTAAGATCCGAAG
87078700 TTTAAAAGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 44 0.85
41 8 0.15
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTCGTGCAAGTGACTAAA
Found at i:87078957 original size:40 final size:40
Alignment explanation
Indices: 87078902--87078988 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 40
87078892 ATCTCTTCAT
* *
87078902 CATTTCGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGG
1 CATTT-GTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGC
*
87078943 CATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGC
1 CATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGC
87078983 CATTTG
1 CATTTG
87078989 AATGAGTAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 35 0.83
41 7 0.17
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (40 bp):
CATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGC
Found at i:87082144 original size:38 final size:37
Alignment explanation
Indices: 87082083--87082194 Score: 116
Period size: 38 Copynumber: 2.9 Consensus size: 37
87082073 TGTAATAGAA
*
87082083 CAATTCAACACTAGCAGTGAACATGCTTAACATGTATT
1 CAATTCAACATTAGCAGT-AACATGCTTAACATGTATT
* * * * *
87082121 CAATTCAACATTGGCAATCAACATGTTTAACGTGGATT
1 CAATTCAACATTAGCAGT-AACATGCTTAACATGTATT
* * *
87082159 CACTTTAACATTAGCAGTAGATATGCTTAACATGTA
1 CAATTCAACATTAGCAGTA-ACATGCTTAACATGTA
87082195 CCTGGAAAGG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
37 1 0.02
38 57 0.98
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (37 bp):
CAATTCAACATTAGCAGTAACATGCTTAACATGTATT
Found at i:87083163 original size:21 final size:21
Alignment explanation
Indices: 87083141--87083190 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
87083131 AAATAGCTTA
*
87083141 TATATTAATTAAA-A-TTTAC
1 TATATTTATTAAATATTTTAC
87083160 TATATTTATTAAATATTTTAC
1 TATATTTATTAAATATTTTAC
87083181 TAT-TTTATTA
1 TATATTTATTA
87083191 GAGTAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.43
20 8 0.29
21 8 0.29
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATTTATTAAATATTTTAC
Found at i:87083481 original size:16 final size:16
Alignment explanation
Indices: 87083460--87083508 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
87083450 TATTGATGAT
*
87083460 AACTCTATTCTGTTAC
1 AACTCTATTCTATTAC
87083476 AACTCTATTAC-ATTAC
1 AACTCTATT-CTATTAC
*
87083492 AGCTCTATTCTATTAC
1 AACTCTATTCTATTAC
87083508 A
1 A
87083509 GTGAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (16 bp):
AACTCTATTCTATTAC
Found at i:87087413 original size:13 final size:13
Alignment explanation
Indices: 87087395--87087419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87087385 GCAGACCCAT
87087395 TTATATATATATA
1 TTATATATATATA
87087408 TTATATATATAT
1 TTATATATATAT
87087420 TTAAAAATAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATATATATA
Found at i:87094594 original size:18 final size:18
Alignment explanation
Indices: 87094571--87094608 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
87094561 ATATATAAAT
87094571 ATATATTATTACCTTTTA
1 ATATATTATTACCTTTTA
*
87094589 ATATATTATTATCTTTTA
1 ATATATTATTACCTTTTA
87094607 AT
1 AT
87094609 TTGATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
ATATATTATTACCTTTTA
Found at i:87099602 original size:47 final size:47
Alignment explanation
Indices: 87099532--87099969 Score: 646
Period size: 47 Copynumber: 9.3 Consensus size: 47
87099522 ATGATATACA
87099532 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
87099579 TATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
87099626 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
87099673 TATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
87099720 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
87099767 TATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
87099814 TATATGTGTGGTAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
87099861 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
87099908 CATATGTGTGATAAGTCCCGAA-GG-CATATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAG-GCCGAATGGCCA-ATGTGATGAATGTGAAAGTG
*
87099955 CATATGTGTGATAAG
1 TATATGTGTGATAAG
87099970 TCCCGAAGGG
Statistics
Matches: 349, Mismatches: 40, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
46 1 0.00
47 344 0.99
48 4 0.01
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:87099693 original size:94 final size:94
Alignment explanation
Indices: 87099532--87099969 Score: 763
Period size: 94 Copynumber: 4.7 Consensus size: 94
87099522 ATGATATACA
* *
87099532 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCC
87099597 TAATGGCCCATGTGATGAATGTGAAAGTG
66 TAATGGCCCATGTGATGAATGTGAAAGTG
87099626 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCC
87099691 TAATGGCCCATGTGATGAATGTGAAAGTG
66 TAATGGCCCATGTGATGAATGTGAAAGTG
87099720 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCC
87099785 TAATGGCCCATGTGATGAATGTGAAAGTG
66 TAATGGCCCATGTGATGAATGTGAAAGTG
*
87099814 TATATGTGTGGTAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCC
*
87099879 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCCATGTGATGAATGTGAAAGTG
* * * * *
87099908 CATATGTGTGATAAGTCCCGAA-GG-CATATGTGATGAATGTGAAAGTGCATATGTGTGATAAG
1 TATATGTGTGATAAG-GCCGAACGGCCA-ATGTGATGGATGTGAAAGTGTATATATGTGATAAG
87099970 TCCCGAAGGG
Statistics
Matches: 332, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
93 2 0.01
94 325 0.98
95 5 0.02
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (94 bp):
TATATGTGTGATAAGGCCGAACGGCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCCATGTGATGAATGTGAAAGTG
Found at i:87099961 original size:23 final size:23
Alignment explanation
Indices: 87099888--87099962 Score: 84
Period size: 23 Copynumber: 3.2 Consensus size: 23
87099878 CTAATGGCCG
87099888 ATGTGATGAATGTGAAAGTGCAT
1 ATGTGATGAATGTGAAAGTGCAT
*
87099911 ATGTG-TGATAAGTCCCG-AAG-GCAT
1 ATGTGATGA-ATGT---GAAAGTGCAT
87099935 ATGTGATGAATGTGAAAGTGCAT
1 ATGTGATGAATGTGAAAGTGCAT
87099958 ATGTG
1 ATGTG
87099963 TGATAAGTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
21 1 0.02
22 6 0.14
23 17 0.40
24 12 0.28
25 6 0.14
26 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGCAT
Found at i:87099982 original size:25 final size:25
Alignment explanation
Indices: 87099907--87099988 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
87099897 ATGTGAAAGT
87099907 GCATATGTGTGATAAGTCCCGAA-G
1 GCATATGTGTGATAAGTCCCGAAGG
* *
87099931 GCATATGTGATGA-ATGT---GAAAGT
1 GCATATGTG-TGATAAGTCCCG-AAGG
87099954 GCATATGTGTGATAAGTCCCGAAGG
1 GCATATGTGTGATAAGTCCCGAAGG
*
87099979 GCATTTGTGT
1 GCATATGTGT
87099989 CAGTACTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
21 1 0.02
22 5 0.11
23 12 0.26
24 12 0.26
25 15 0.33
26 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.29
Consensus pattern (25 bp):
GCATATGTGTGATAAGTCCCGAAGG
Found at i:87103845 original size:2 final size:2
Alignment explanation
Indices: 87103838--87103867 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
87103828 GATTAAATTA
*
87103838 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87103868 GTTTGTATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:87110676 original size:29 final size:29
Alignment explanation
Indices: 87110570--87110732 Score: 143
Period size: 29 Copynumber: 5.6 Consensus size: 29
87110560 GTGACGAGAT
*
87110570 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
87110599 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
87110628 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* ** ***
87110657 CGGCACTGGGTGTGCGAGCTTCGG-AGGGTA
1 TGGCACTAAGTGTGCGAGC-T-GGAAATATA
** *
87110687 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
87110714 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
87110733 AATCGAGTGT
Statistics
Matches: 110, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.02
28 1 0.01
29 84 0.76
30 21 0.19
31 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:87118550 original size:29 final size:29
Alignment explanation
Indices: 87118517--87118619 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
87118507 GTGACGAGAT
87118517 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
87118546 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
87118575 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
87118604 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
87118620 AGTTCGGAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:87122816 original size:40 final size:40
Alignment explanation
Indices: 87122744--87122916 Score: 249
Period size: 40 Copynumber: 4.3 Consensus size: 40
87122734 TCTTCAGGAT
* * * *
87122744 TTAG-CCGGATATAACACACACACCCAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACA-ACTCGCACAAATGCCTTCGGGTC
* * *
87122784 TTAACCCGGACATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
87122824 TTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
87122864 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
87122904 TTAGCCCGAATAT
1 TTAGCCCGGATAT
87122917 CATTCAAATG
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 109 0.92
41 10 0.08
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:87125795 original size:23 final size:22
Alignment explanation
Indices: 87125754--87125866 Score: 100
Period size: 23 Copynumber: 4.8 Consensus size: 22
87125744 GAGTTGATGG
*
87125754 ACAGTAAGCTCTATTGAGCTAAA
1 ACAGTAAGCTCTA-CGAGCTAAA
* *
87125777 ACGGTAAGCTCTGACGAGCTGAA
1 ACAGTAAGCTCT-ACGAGCTAAA
*
87125800 TCAGTAAGCTCATACGAGCTAAGA
1 ACAGTAAGCTC-TACGAGCTAA-A
*
87125824 ACAGTAAAGCTCCAACGAGCTAAAA
1 ACAGT-AAGCT-CTACGAGCT-AAA
*
87125849 ATAGTAAGCTCTTACGAG
1 ACAGTAAGCTC-TACGAG
87125867 TTGATATATC
Statistics
Matches: 73, Mismatches: 10, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
23 36 0.49
24 17 0.23
25 17 0.23
26 3 0.04
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (22 bp):
ACAGTAAGCTCTACGAGCTAAA
Found at i:87125819 original size:46 final size:48
Alignment explanation
Indices: 87125755--87125866 Score: 115
Period size: 46 Copynumber: 2.3 Consensus size: 48
87125745 AGTTGATGGA
* * ** *
87125755 CAGTAAGCTCTATTGAGCTAA-AACGGT-AAGCTCTGACGAGCT-GAAT
1 CAGTAAGCTCTA-CGAGCTAAGAACAGTAAAGCTCCAACGAGCTAAAAT
87125801 CAGTAAGCTCATACGAGCTAAGAACAGTAAAGCTCCAACGAGCTAAAAAT
1 CAGTAAGCTC-TACGAGCTAAGAACAGTAAAGCTCCAACGAGCT-AAAAT
87125851 -AGTAAGCTCTTACGAG
1 CAGTAAGCTC-TACGAG
87125867 TTGATATATC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
46 17 0.31
47 7 0.13
48 13 0.24
49 15 0.27
50 3 0.05
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (48 bp):
CAGTAAGCTCTACGAGCTAAGAACAGTAAAGCTCCAACGAGCTAAAAT
Found at i:87129772 original size:40 final size:40
Alignment explanation
Indices: 87129728--87129948 Score: 335
Period size: 40 Copynumber: 5.6 Consensus size: 40
87129718 GCTACTTGCT
* *
87129728 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGT-AGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCA-CTAGCA
* *
87129768 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTATCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCA
*
87129808 CAAATGCCTT-GGGACTTAGCCCGTAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
87129847 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
87129887 C-AATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
87129926 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
87129949 CGTTATCATC
Statistics
Matches: 170, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
39 72 0.42
40 97 0.57
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
Found at i:87129826 original size:79 final size:80
Alignment explanation
Indices: 87129728--87129948 Score: 335
Period size: 79 Copynumber: 2.8 Consensus size: 80
87129718 GCTACTTGCT
* *
87129728 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGT-AGTTCGCACAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCA-CTAGCACAAATGCCTTCGGGACTTAGCCC
*
87129791 GG-ATATAGTAACTATCA
64 GGAAT-TAGTAACTAGCA
*
87129808 CAAATGCCTT-GGGACTTAGCCCGTAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
87129872 AATTAGTCACTAGCA
66 AATTAGTAACTAGCA
87129887 C-AATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC
87129949 CGTTATCATC
Statistics
Matches: 131, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
78 8 0.06
79 108 0.82
80 15 0.11
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTAGCA
Found at i:87135366 original size:48 final size:47
Alignment explanation
Indices: 87135214--87135386 Score: 168
Period size: 48 Copynumber: 3.6 Consensus size: 47
87135204 TATGTGTGCT
** * *
87135214 AGTGTAAGACCATGTCTGGGACATGGCATCTACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCA-CATGAGAGCC
* * * * * * *
87135262 AGTGTAAGACCATGTTTGGGGCATAGCATCGGCATTA-AGGCGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCACA--TGAGAGCC
* * *
87135310 AGGGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC-ACATGAGAGCC
*
87135358 AGTATAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
87135387 TGACAATTTA
Statistics
Matches: 100, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 1 0.01
48 97 0.97
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCACATGAGAGCC
Found at i:87143107 original size:48 final size:48
Alignment explanation
Indices: 87142934--87143108 Score: 172
Period size: 48 Copynumber: 3.6 Consensus size: 48
87142924 TGTGTGCTAT
* * * * *
87142934 TGTAAAACCATGTCTCGGACATGGCATTGGCCAC-ATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGAGAGCCAG
* * * * * * * *
87142982 CGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAACTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGAGAGCCAG
* * *
87143030 TGTAAGACCAAGTCTTGGACATGGCATCGGCCTCGACATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGAGAGCCAG
* *
87143078 TATAAGACCATGTTTGGGACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
87143109 AATTTAACCT
Statistics
Matches: 99, Mismatches: 27, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
48 98 0.99
49 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGAGAGCCAG
Found at i:87144709 original size:54 final size:54
Alignment explanation
Indices: 87144645--87144752 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
87144635 TTTAAAGAAA
*
87144645 GCTCCATTCACTAATCTATATTCACCATAATGTCGCTTATTGCAGTGTTTACAT
1 GCTCCATTCACTAATCTATATTCACCATAATGTCGCTTATTGCAGTATTTACAT
* *
87144699 GCTCCTTTCACTAATCTATATTCACCATAATGTTGCTTATTGCAGTATTTACAT
1 GCTCCATTCACTAATCTATATTCACCATAATGTCGCTTATTGCAGTATTTACAT
87144753 TCGGGCCTAG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (54 bp):
GCTCCATTCACTAATCTATATTCACCATAATGTCGCTTATTGCAGTATTTACAT
Found at i:87146820 original size:13 final size:13
Alignment explanation
Indices: 87146799--87146851 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 13
87146789 TTTAAACCAA
87146799 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
87146812 A-TTTCTCAAAAGC
1 ACTTT-TCAAAAGC
*
87146825 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
87146838 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
87146851 A
1 A
87146852 TTGCCAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 8 0.24
13 21 0.62
14 2 0.06
15 3 0.09
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:87148620 original size:43 final size:43
Alignment explanation
Indices: 87148514--87148683 Score: 130
Period size: 43 Copynumber: 4.0 Consensus size: 43
87148504 ATATAGCTTG
* * * **
87148514 TACAATG-CAATATCCCAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAA
* ** * * * *
87148555 TATCGACACCACTGTCTCAGACAGGGTCTTACACGAAATCA-AT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAA
* * ** *
87148598 TAACGATGCCAATGTCCTAGACATCATCTTACACGTAATCACAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAA
* *
87148642 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
87148684 TCTCAGTAAC
Statistics
Matches: 97, Mismatches: 27, Indels: 8
0.73 0.20 0.06
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 90 0.93
44 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAA
Found at i:87151355 original size:26 final size:24
Alignment explanation
Indices: 87151314--87151430 Score: 84
Period size: 23 Copynumber: 4.9 Consensus size: 24
87151304 TCCGTTCTTT
*
87151314 TGAGCTATGAACAGTAAGCTCCTCC
1 TGAGCTATGAACAGTAAGCT-CTAC
*
87151339 TGAGCTGATGGACAGTAAGCTCTAC
1 TGAGCT-ATGAACAGTAAGCTCTAC
* **
87151364 TGAGCTA-AAAGGGTAAGCTCTGAC
1 TGAGCTATGAACAGTAAGCTCT-AC
87151388 -GAGC--TGAATCAGTAAGCTCATAC
1 TGAGCTATGAA-CAGTAAGCTC-TAC
*
87151411 -GAGCTGA-GAATAGTAAGCTC
1 TGAGCT-ATGAACAGTAAGCTC
87151431 CAACGACCTA
Statistics
Matches: 74, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
22 2 0.03
23 28 0.38
24 13 0.18
25 18 0.24
26 13 0.18
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.22
Consensus pattern (24 bp):
TGAGCTATGAACAGTAAGCTCTAC
Found at i:87151366 original size:25 final size:25
Alignment explanation
Indices: 87151314--87151463 Score: 86
Period size: 24 Copynumber: 6.2 Consensus size: 25
87151304 TCCGTTCTTT
*
87151314 TGAGCTATGAACAGTAAGCTCCTCC
1 TGAGCTATGAACAGTAAGCTCCTAC
*
87151339 TGAGCTGATGGACAGTAAGCT-CTAC
1 TGAGCT-ATGAACAGTAAGCTCCTAC
* **
87151364 TGAGCTA-AAAGGGTAAGCT-CTGAC
1 TGAGCTATGAACAGTAAGCTCCT-AC
*
87151388 -GAGC--TGAATCAGTAAGCTCATAC
1 TGAGCTATGAA-CAGTAAGCTCCTAC
* *
87151411 -GAGCTGA-GAATAGTAAGCTCCAAC
1 TGAGCT-ATGAACAGTAAGCTCCTAC
* ** *
87151435 -GACCTAAAAACAGTAAGCTCTTAC
1 TGAGCTATGAACAGTAAGCTCCTAC
87151459 -GAGCT
1 TGAGCT
87151464 GATATATCGG
Statistics
Matches: 97, Mismatches: 19, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
22 2 0.02
23 28 0.29
24 36 0.37
25 18 0.19
26 13 0.13
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (25 bp):
TGAGCTATGAACAGTAAGCTCCTAC
Found at i:87154222 original size:7 final size:7
Alignment explanation
Indices: 87154210--87154234 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
87154200 AAAATATAAA
87154210 TGTTAAT
1 TGTTAAT
87154217 TGTTAAT
1 TGTTAAT
87154224 TGTTAAT
1 TGTTAAT
87154231 TGTT
1 TGTT
87154235 TCCATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (7 bp):
TGTTAAT
Found at i:87163701 original size:46 final size:46
Alignment explanation
Indices: 87163651--87163820 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
87163641 TGGTTGAGCA
*
87163651 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
87163697 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGGAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG-ATGCAA--A--CG
*
87163744 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
87163790 -CCAGAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCAC
87163821 ATAGGGGCGG
Statistics
Matches: 105, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 5 0.05
43 5 0.05
45 4 0.04
46 54 0.51
47 26 0.25
48 2 0.02
50 4 0.04
51 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:87163807 original size:93 final size:93
Alignment explanation
Indices: 87163648--87163817 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
87163638 GGATGGTTGA
*
87163648 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
87163713 TGAGTCCGAGTTTGTGGAATGTAACTAG
66 TGAGTCCGAGTTTGTGGAATGTAACTAG
* *
87163741 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCAGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
87163805 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
87163818 CACATAGGGG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGGAATGTAACTAG
Found at i:87170336 original size:29 final size:29
Alignment explanation
Indices: 87170246--87170405 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
87170236 ACTCGATTTC
* * **
87170246 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
87170275 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
87170303 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
87170333 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
87170362 GCACACTTAGTGTCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
87170391 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
87170406 ATCTCGTCAC
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
28 2 0.02
29 106 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:87174072 original size:46 final size:46
Alignment explanation
Indices: 87174022--87174192 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
87174012 TGGTTGAGCA
* *
87174022 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* * * *
87174068 TCCGAACTCGTTGA--TGAGTCTGAG-T---TTGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATG-GATGCAA--A--CG
* * *
87174113 TCCGAACTCGTTGAGTTGAATCTGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* *
87174159 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTA
87174193 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
40 4 0.04
41 5 0.05
43 2 0.02
44 9 0.09
45 14 0.14
46 47 0.47
47 9 0.09
48 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
Found at i:87179540 original size:53 final size:53
Alignment explanation
Indices: 87179477--87179581 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
87179467 AAATTTGTTA
*
87179477 TTTCCAAATTCAACTTCTTATAAATTAAAATAGACCTGAAATCACTTATATAT
1 TTTCCAAATTCAACTTATTATAAATTAAAATAGACCTGAAATCACTTATATAT
* *
87179530 TTTCCAAATTCAACTTATTGTAAGTTAAAATAGACCTGAAATCACTTATATA
1 TTTCCAAATTCAACTTATTATAAATTAAAATAGACCTGAAATCACTTATATA
87179582 CATTCTTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (53 bp):
TTTCCAAATTCAACTTATTATAAATTAAAATAGACCTGAAATCACTTATATAT
Found at i:87185485 original size:24 final size:23
Alignment explanation
Indices: 87185450--87185544 Score: 75
Period size: 23 Copynumber: 3.9 Consensus size: 23
87185440 CTAATATATT
87185450 AGCTCGTAAGAGCTTACTGTTTTC
1 AGCTCGT-AGAGCTTACTGTTTTC
*
87185474 AGCTCGTCAGAGCTTACCG-TTTC
1 AGCTCGT-AGAGCTTACTGTTTTC
* * **
87185497 ATCTCAATAGAGCTTACTGTCCATC
1 AGCTC-GTAGAGCTTACTGT-TTTC
*
87185522 AGCTCAGGAGGAGCTTACTGTTT
1 AGCTC-GTA-GAGCTTACTGTTT
87185545 ATAGCTTAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
23 18 0.33
24 18 0.33
25 8 0.15
26 11 0.20
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (23 bp):
AGCTCGTAGAGCTTACTGTTTTC
Found at i:87187084 original size:59 final size:59
Alignment explanation
Indices: 87186996--87187120 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 59
87186986 ACAATGGTTT
* * * * * *
87186996 TCTAAAAAATTAAAATGAAAATGGAGAAATTGAGTCATT-TGAAAATAAATGTGGTTTTC
1 TCTAAAAAATGAAAATGAAAATAGAGAAATGGAATCATTCAG-AAATAAATGTGATTTTC
* *
87187055 TCTAAAAAATGAAAATGAAAATAGTGAAATGGAATCATTCAGAAATGAATGTGATTTTC
1 TCTAAAAAATGAAAATGAAAATAGAGAAATGGAATCATTCAGAAATAAATGTGATTTTC
*
87187114 TCCAAAA
1 TCTAAAA
87187121 TGATAATGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 55 0.98
60 1 0.02
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (59 bp):
TCTAAAAAATGAAAATGAAAATAGAGAAATGGAATCATTCAGAAATAAATGTGATTTTC
Done.