Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 23 of 141
Found at i:7116582 original size:16 final size:16
Alignment explanation
Indices: 7116561--7116591 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7116551 ATAATGTACT
7116561 ACTATTATTATATATA
1 ACTATTATTATATATA
7116577 ACTATTATTATATAT
1 ACTATTATTATATAT
7116592 TATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
ACTATTATTATATATA
Found at i:7122203 original size:36 final size:35
Alignment explanation
Indices: 7122163--7122234 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
7122153 TGATGACCAT
* * *
7122163 TGTGAAAGTGAATATGAGGGTATGCTATTCATGCCA
1 TGTGAAAGTAAATAAGAGGATATGCTA-TCATGCCA
* * *
7122199 TGTGATAGTAAATAAGTGGATATGTTATCATGCCA
1 TGTGAAAGTAAATAAGAGGATATGCTATCATGCCA
7122234 T
1 T
7122235 ATGATAGAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
35 9 0.30
36 21 0.70
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAAGTAAATAAGAGGATATGCTATCATGCCA
Found at i:7123597 original size:206 final size:206
Alignment explanation
Indices: 7123243--7123661 Score: 811
Period size: 206 Copynumber: 2.0 Consensus size: 206
7123233 ATTTGGTTTT
7123243 AAGAAAAAAGATATCTTTGTAACTTCAAAAGTGTAGGGAGTCAGAATATAGAATTGGTATCAATA
1 AAGAAAAAAGATATCTTTGTAACTTCAAAAGTGTAGGGAGTCAGAATATAGAATTGGTATCAATA
*
7123308 CCTTATCCCGAGTATCAATACTCAAGGTAAATTTATCGAAACCTTGCGAAAGGTACCGATAGTTT
66 CATTATCCCGAGTATCAATACTCAAGGTAAATTTATCGAAACCTTGCGAAAGGTACCGATAGTTT
7123373 TTTACGTTTGGGAATTTTGGTGAGAAATAGAATGAAAGTTTGGTATCAATTTTTCATATGGTATT
131 TTTACGTTTGGGAATTTTGGTGAGAAATAGAATGAAAGTTTGGTATCAATTTTTCATATGGTATT
7123438 GATACAACTAA
196 GATACAACTAA
*
7123449 AAGAAAAAAGATATCTTTGTAACTTCAAAATTGTAGGGAGTCAGAATATAGAATTGGTATCAATA
1 AAGAAAAAAGATATCTTTGTAACTTCAAAAGTGTAGGGAGTCAGAATATAGAATTGGTATCAATA
7123514 CATTATCCCGAGTATCAATACTCAAGGTAAATTTATCGAAACCTTGCGAAAGGTACCGATAGTTT
66 CATTATCCCGAGTATCAATACTCAAGGTAAATTTATCGAAACCTTGCGAAAGGTACCGATAGTTT
*
7123579 TTTACGTTTGGGAATTTTGGTGAGAAATAGAATGAAAGTTTGGTATCAATTTTTCATGTGGTATT
131 TTTACGTTTGGGAATTTTGGTGAGAAATAGAATGAAAGTTTGGTATCAATTTTTCATATGGTATT
7123644 GATACAACTAA
196 GATACAACTAA
7123655 AAGAAAA
1 AAGAAAA
7123662 TATCGATACC
Statistics
Matches: 210, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
206 210 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.32
Consensus pattern (206 bp):
AAGAAAAAAGATATCTTTGTAACTTCAAAAGTGTAGGGAGTCAGAATATAGAATTGGTATCAATA
CATTATCCCGAGTATCAATACTCAAGGTAAATTTATCGAAACCTTGCGAAAGGTACCGATAGTTT
TTTACGTTTGGGAATTTTGGTGAGAAATAGAATGAAAGTTTGGTATCAATTTTTCATATGGTATT
GATACAACTAA
Found at i:7124997 original size:19 final size:19
Alignment explanation
Indices: 7124975--7125014 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7124965 AATAATTTTG
*
7124975 ATCAAGTAAAATAAAATTA
1 ATCAAATAAAATAAAATTA
* *
7124994 ATCAAATCAACTAAAATTA
1 ATCAAATAAAATAAAATTA
7125013 AT
1 AT
7125015 ATGATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.28
Consensus pattern (19 bp):
ATCAAATAAAATAAAATTA
Found at i:7126863 original size:16 final size:16
Alignment explanation
Indices: 7126842--7126875 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7126832 TACCATAGTG
*
7126842 AAATGACTTTATGATT
1 AAATGACTTTATAATT
*
7126858 AAATGAGTTTATAATT
1 AAATGACTTTATAATT
7126874 AA
1 AA
7126876 TAGTCGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (16 bp):
AAATGACTTTATAATT
Found at i:7127068 original size:14 final size:14
Alignment explanation
Indices: 7127049--7127077 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7127039 AATAATCATG
7127049 GTTTTCTCCAAAAT
1 GTTTTCTCCAAAAT
7127063 GTTTTCTCCAAAAT
1 GTTTTCTCCAAAAT
7127077 G
1 G
7127078 AAAACGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (14 bp):
GTTTTCTCCAAAAT
Found at i:7130172 original size:29 final size:28
Alignment explanation
Indices: 7130140--7130195 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
7130130 TTTTTTAATT
7130140 AATAAAATT-ATAAATCTATAAAATTATTG
1 AATAAAATTAATAAAT-TA-AAAATTATTG
*
7130169 AATATAATTAGATAAATTAAAAATTAT
1 AATAAAATTA-ATAAATTAAAAATTAT
7130196 AAAAATCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 16 0.67
30 2 0.08
31 6 0.25
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (28 bp):
AATAAAATTAATAAATTAAAAATTATTG
Found at i:7130242 original size:17 final size:17
Alignment explanation
Indices: 7130220--7130264 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
7130210 TTTTAATTAA
7130220 ATAAATATGA-TTTATAT
1 ATAAATATGATTTTAT-T
7130237 ATAAATATGATTTTATT
1 ATAAATATGATTTTATT
*
7130254 TTAAATATGAT
1 ATAAATATGAT
7130265 AATAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (17 bp):
ATAAATATGATTTTATT
Found at i:7130613 original size:16 final size:18
Alignment explanation
Indices: 7130594--7130627 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
7130584 TAAGTAAAAT
7130594 AAATAA-TATAA-TATAA
1 AAATAATTATAATTATAA
7130610 AAATAATTATAATTATAA
1 AAATAATTATAATTATAA
7130628 TTATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATAATTATAATTATAA
Found at i:7130712 original size:17 final size:17
Alignment explanation
Indices: 7130680--7130713 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7130670 TGACATTCAT
*
7130680 AATAATTTTTAATATAA
1 AATAATTTTGAATATAA
*
7130697 AATAATTTTGATTATAA
1 AATAATTTTGAATATAA
7130714 TCTTGATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AATAATTTTGAATATAA
Found at i:7139540 original size:26 final size:26
Alignment explanation
Indices: 7139510--7139561 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
7139500 AGGTTCTATT
*
7139510 TTTATAGACTAAGAAACTAAAATTAA
1 TTTATAGAATAAGAAACTAAAATTAA
*
7139536 TTTATAGAATAAGAAACTATAATTAA
1 TTTATAGAATAAGAAACTAAAATTAA
7139562 GGCAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.33
Consensus pattern (26 bp):
TTTATAGAATAAGAAACTAAAATTAA
Found at i:7142307 original size:22 final size:22
Alignment explanation
Indices: 7142279--7142325 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
7142269 AAAGTGCCAC
7142279 ATTCGTTACTCAAGCAACTACG
1 ATTCGTTACTCAAGCAACTACG
*
7142301 ATTCGTTACTCATGCAACTACG
1 ATTCGTTACTCAAGCAACTACG
7142323 ATT
1 ATT
7142326 AAAATATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (22 bp):
ATTCGTTACTCAAGCAACTACG
Found at i:7151820 original size:21 final size:21
Alignment explanation
Indices: 7151791--7151836 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7151781 AATATTAATT
*
7151791 TATA-AATTTATTGTGTATCA
1 TATATAATTTATTGTGTAGCA
* *
7151811 TATATAATTTTTTGTTTAGCA
1 TATATAATTTATTGTGTAGCA
7151832 TATAT
1 TATAT
7151837 TATTCAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (21 bp):
TATATAATTTATTGTGTAGCA
Found at i:7152397 original size:2 final size:2
Alignment explanation
Indices: 7152390--7152418 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7152380 TTACATACAT
7152390 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 T
7152419 GACTGGATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7154094 original size:13 final size:13
Alignment explanation
Indices: 7154076--7154120 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
7154066 TGGGACAGAC
7154076 TCAAGGAAGAGTT
1 TCAAGGAAGAGTT
* * **
7154089 TCAAGGGACAGAC
1 TCAAGGAAGAGTT
7154102 TCAAGGAAGAGTT
1 TCAAGGAAGAGTT
7154115 TCAAGG
1 TCAAGG
7154121 GTCAGATAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.18
Consensus pattern (13 bp):
TCAAGGAAGAGTT
Found at i:7154096 original size:26 final size:26
Alignment explanation
Indices: 7154067--7154126 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
7154057 AAGCAGGTCT
7154067 GGGACAGACTCAAGGAAGAGTTTCAA
1 GGGACAGACTCAAGGAAGAGTTTCAA
7154093 GGGACAGACTCAAGGAAGAGTTTCAA
1 GGGACAGACTCAAGGAAGAGTTTCAA
*
7154119 GGGTCAGA
1 GGGACAGA
7154127 TAAAACCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.33, T:0.15
Consensus pattern (26 bp):
GGGACAGACTCAAGGAAGAGTTTCAA
Found at i:7159864 original size:13 final size:13
Alignment explanation
Indices: 7159846--7159873 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7159836 CAAAAATCAT
7159846 ATGAAGTGTCAAC
1 ATGAAGTGTCAAC
7159859 ATGAAGTGTCAAC
1 ATGAAGTGTCAAC
7159872 AT
1 AT
7159874 TGTACTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (13 bp):
ATGAAGTGTCAAC
Found at i:7163722 original size:221 final size:221
Alignment explanation
Indices: 7163327--7163765 Score: 657
Period size: 221 Copynumber: 2.0 Consensus size: 221
7163317 CTTCCAAGAA
* * * * * *
7163327 GGGTTTCCAATCTCTTTACTCACTCCATTCAGTGAACGTACTTAAAAGCACACATATGGAATTAG
1 GGGTTTCCAATATCTTTACTCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTAG
7163392 CAAACGGTCAGTACTAAGTACTATTCCAAATTTGGAGCAAAATGCATGCAAATAAGAGATCAAAT
66 CAAACGGTCAGTACTAAGTACTATTCCAAATTTGGAGCAAAATGCATGCAAATAAGAGATCAAAT
* * * * * * *
7163457 ACACAATCCCATAGCATAAAAAACCATAACATAAAACAAAAGCAAAGCTTTCAGCTTCATATAAT
131 ACAAAATCCCATAGCATAAAAAACCATAACACAAAACAAAAGCAAAGCTTCCAACTCCATACAAC
7163522 TTGCATTTTTTTAAAAGGTTATAAAG
196 TTGCATTTTTTTAAAAGGTTATAAAG
7163548 GGGTTTCCAATATCTTTGA-TCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTA
1 GGGTTTCCAATATCTTT-ACTCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTA
* * * *
7163612 GCGAACTGTCAGTACTAAGTACTTTTCCAAATTCT-GAGCAAAATGCATGCAGATAAGAGATCAA
65 GCAAACGGTCAGTACTAAGTACTATTCCAAATT-TGGAGCAAAATGCATGCAAATAAGAGATCAA
* * *
7163676 GTACAAAATCCCATAGCATAAAAAACCATAACACAAACCTAAAGCAAAGCTTCCAACTCCATACA
129 ATACAAAATCCCATAGCATAAAAAACCATAACACAAAACAAAAGCAAAGCTTCCAACTCCATACA
*
7163741 ACTTGGATTTTTTTAAAAGGTTATA
194 ACTTGCATTTTTTTAAAAGGTTATA
7163766 TATTGTTTCT
Statistics
Matches: 195, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
221 193 0.99
222 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (221 bp):
GGGTTTCCAATATCTTTACTCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTAG
CAAACGGTCAGTACTAAGTACTATTCCAAATTTGGAGCAAAATGCATGCAAATAAGAGATCAAAT
ACAAAATCCCATAGCATAAAAAACCATAACACAAAACAAAAGCAAAGCTTCCAACTCCATACAAC
TTGCATTTTTTTAAAAGGTTATAAAG
Found at i:7167074 original size:226 final size:226
Alignment explanation
Indices: 7166680--7167131 Score: 895
Period size: 226 Copynumber: 2.0 Consensus size: 226
7166670 TTCTTGGGAG
7166680 GAATCAAATTTAATTTCTCTATCGACTTAAGGTAATCCTAAATTTTATATCACAATTTATTTTAT
1 GAATCAAATTTAATTTCTCTATCGACTTAAGGTAATCCTAAATTTTATATCACAATTTATTTTAT
7166745 ATTATTTCTTATTTTTTTTCTTAAATACATTATTATAATTACATTTGACAAATAATATGATTACT
66 ATTATTTCTTATTTTTTTTCTTAAATACATTATTATAATTACATTTGACAAATAATATGATTACT
7166810 ACTATTTTACTAATATTTTTTTTAGTTTTTTTAGTGATTATAATGTCAAATCTTGCCAAACTAGA
131 ACTATTTTACTAATATTTTTTTTAGTTTTTTTAGTGATTATAATGTCAAATCTTGCCAAACTAGA
7166875 ATTTGCTGCCCTAGACATCTCAGGCAAAAAA
196 ATTTGCTGCCCTAGACATCTCAGGCAAAAAA
7166906 GAATCAAATTTAATTTCTCTATCGACTTAAGGTAATCCTAAATTTTATATCACAATTTATTTTAT
1 GAATCAAATTTAATTTCTCTATCGACTTAAGGTAATCCTAAATTTTATATCACAATTTATTTTAT
7166971 ATTATTTCTTATTTTTTTTCTTAAATACATTATTATAATTACATTTGACAAATAATATGATTACT
66 ATTATTTCTTATTTTTTTTCTTAAATACATTATTATAATTACATTTGACAAATAATATGATTACT
*
7167036 ACTATTTTACTAATATTTTTTTTAGTTTTTTTAGTGATTATAATGTCAGATCTTGCCAAACTAGA
131 ACTATTTTACTAATATTTTTTTTAGTTTTTTTAGTGATTATAATGTCAAATCTTGCCAAACTAGA
7167101 ATTTGCTGCCCTAGACATCTCAGGCAAAAAA
196 ATTTGCTGCCCTAGACATCTCAGGCAAAAAA
7167132 TATTTGTCAT
Statistics
Matches: 225, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
226 225 1.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (226 bp):
GAATCAAATTTAATTTCTCTATCGACTTAAGGTAATCCTAAATTTTATATCACAATTTATTTTAT
ATTATTTCTTATTTTTTTTCTTAAATACATTATTATAATTACATTTGACAAATAATATGATTACT
ACTATTTTACTAATATTTTTTTTAGTTTTTTTAGTGATTATAATGTCAAATCTTGCCAAACTAGA
ATTTGCTGCCCTAGACATCTCAGGCAAAAAA
Found at i:7176598 original size:13 final size:13
Alignment explanation
Indices: 7176580--7176604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7176570 TTTTTTTTCT
7176580 AAATGAAAATGAA
1 AAATGAAAATGAA
7176593 AAATGAAAATGA
1 AAATGAAAATGA
7176605 CTTGGAAATG
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAATGAAAATGAA
Found at i:7181465 original size:10 final size:10
Alignment explanation
Indices: 7181450--7181483 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
7181440 AATTTAGATT
7181450 TTTAGTTTTC
1 TTTAGTTTTC
*
7181460 TTTAGTGTTTT
1 TTTAGT-TTTC
7181471 TTTAGTTTTC
1 TTTAGTTTTC
7181481 TTT
1 TTT
7181484 TATGTTTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.09, C:0.06, G:0.12, T:0.74
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:7181476 original size:11 final size:10
Alignment explanation
Indices: 7181448--7181490 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
7181438 TTAATTTAGA
7181448 TTTTTAGTTT
1 TTTTTAGTTT
*
7181458 TCTTTAGTGTT
1 TTTTTAGT-TT
7181469 TTTTTAGTTT
1 TTTTTAGTTT
7181479 TCTTTTATGTTT
1 T-TTTTA-GTTT
7181491 GCTTAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 10 0.36
11 14 0.50
12 4 0.14
ACGTcount: A:0.09, C:0.05, G:0.12, T:0.74
Consensus pattern (10 bp):
TTTTTAGTTT
Found at i:7204538 original size:22 final size:23
Alignment explanation
Indices: 7204493--7204538 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7204483 GTGCATCTCA
* *
7204493 CTTAACCCCTTAAGGTCACAACC
1 CTTAACCCCCTAAGATCACAACC
*
7204516 CTTAACCCCCTAA-ATCACCACC
1 CTTAACCCCCTAAGATCACAACC
7204538 C
1 C
7204539 CGAACACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.30, C:0.46, G:0.04, T:0.20
Consensus pattern (23 bp):
CTTAACCCCCTAAGATCACAACC
Found at i:7205031 original size:24 final size:24
Alignment explanation
Indices: 7204985--7205031 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
7204975 TTATTTTACT
**
7204985 TTTTAAGATATTTTAAGTTTTTAG
1 TTTTAAGATATTTTAAGAATTTAG
* *
7205009 TTTTAAGATCTTTTAGGAATTTA
1 TTTTAAGATATTTTAAGAATTTA
7205032 TTTCTTGCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (24 bp):
TTTTAAGATATTTTAAGAATTTAG
Found at i:7211406 original size:16 final size:18
Alignment explanation
Indices: 7211385--7211418 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
7211375 ATTGGAATTT
7211385 TTACTTA-TT-ATTTTTA
1 TTACTTAGTTAATTTTTA
7211401 TTACTTAGTTAATTTTTA
1 TTACTTAGTTAATTTTTA
7211419 ATTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (18 bp):
TTACTTAGTTAATTTTTA
Found at i:7219383 original size:41 final size:41
Alignment explanation
Indices: 7219351--7219432 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
7219341 ATATTTTATT
7219351 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
*
7219392 TTATGTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
7219433 CAATTAGGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
Found at i:7222606 original size:24 final size:24
Alignment explanation
Indices: 7222574--7222624 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
7222564 TTCTGAGATA
7222574 CTTGAAGAGTTCACCTAGAAAGGG
1 CTTGAAGAGTTCACCTAGAAAGGG
* *
7222598 CTTGAAGAGTTCACCTGGAAATGG
1 CTTGAAGAGTTCACCTAGAAAGGG
7222622 CTT
1 CTT
7222625 ATTCTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (24 bp):
CTTGAAGAGTTCACCTAGAAAGGG
Found at i:7223203 original size:19 final size:19
Alignment explanation
Indices: 7223179--7223216 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7223169 GAGATATGTT
7223179 TTTAGGTAGATAAATCTTA
1 TTTAGGTAGATAAATCTTA
*
7223198 TTTAGGTAGATAAGTCTTA
1 TTTAGGTAGATAAATCTTA
7223217 GAATAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.42
Consensus pattern (19 bp):
TTTAGGTAGATAAATCTTA
Found at i:7223312 original size:41 final size:41
Alignment explanation
Indices: 7223254--7223336 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
7223244 ATATTTTATT
**
7223254 TTATCTTTTAGTTGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTTGTTTATTAGAATAAAAGAATTATTTTCC
*
7223295 TTATGTTTTA-TTAGTTTATTAGAATAAAAGAATTATTTTCC
1 TTATCTTTTAGTT-GTTTATTAGAATAAAAGAATTATTTTCC
7223336 T
1 T
7223337 AATTAGGTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.05
41 36 0.95
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (41 bp):
TTATCTTTTAGTTGTTTATTAGAATAAAAGAATTATTTTCC
Found at i:7237141 original size:20 final size:19
Alignment explanation
Indices: 7237118--7237156 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
7237108 GTGGAATTAT
7237118 TAAAAAAATAATTAAAACTA
1 TAAAAAAAT-ATTAAAACTA
*
7237138 TAAAAAAATTTTAAAACTA
1 TAAAAAAATATTAAAACTA
7237157 AAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAAAATATTAAAACTA
Found at i:7237151 original size:19 final size:19
Alignment explanation
Indices: 7237118--7237171 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
7237108 GTGGAATTAT
*
7237118 TAAAAAAATAATTAAAACTA
1 TAAAAAAAT-TTTAAAACTA
7237138 TAAAAAAATTTTAAAACTA
1 TAAAAAAATTTTAAAACTA
* *
7237157 -AAATAAATTGTAAAA
1 TAAAAAAATTTTAAAA
7237172 AAAATTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 13 0.42
19 9 0.29
20 9 0.29
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAAAAAATTTTAAAACTA
Found at i:7237172 original size:19 final size:19
Alignment explanation
Indices: 7237118--7237172 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
7237108 GTGGAATTAT
7237118 TAAAAAAATAATT-AAAACTA
1 TAAAAAAAT--TTAAAAACTA
*
7237138 TAAAAAAATTTTAAAACTA
1 TAAAAAAATTTAAAAACTA
*
7237157 -AAATAAATTGTAAAAA
1 TAAAAAAATT-TAAAAA
7237173 AAATTAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 10 0.32
19 12 0.39
20 9 0.29
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
TAAAAAAATTTAAAAACTA
Found at i:7237197 original size:8 final size:8
Alignment explanation
Indices: 7237171--7237228 Score: 64
Period size: 8 Copynumber: 7.1 Consensus size: 8
7237161 AAATTGTAAA
7237171 AAAAAT-T
1 AAAAATAT
*
7237178 AAACATTAT
1 AAA-AATAT
7237187 AAAAATAT
1 AAAAATAT
7237195 AAAAATAT
1 AAAAATAT
*
7237203 TAAAATAT
1 AAAAATAT
*
7237211 TAAAATATT
1 AAAAATA-T
7237220 AAAAATAT
1 AAAAATAT
7237228 A
1 A
7237229 TATAGAAGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
7 3 0.07
8 30 0.68
9 11 0.25
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (8 bp):
AAAAATAT
Found at i:7237875 original size:43 final size:42
Alignment explanation
Indices: 7237813--7238012 Score: 175
Period size: 43 Copynumber: 4.6 Consensus size: 42
7237803 AAAAATGCCG
* *
7237813 CTATAGCTCGAGACTTTTAGCGACGCTTTTCCCACAAGCACCA
1 CTATAGCTCAAGAC-TTTAGCGACGCTTTTCCCACAAACACCA
* *
7237856 CTATAGCTCAAGACATTTAGCGACGCTTTTCCCACAAACGCCG
1 CTATAGCTCAAGAC-TTTAGCGACGCTTTTCCCACAAACACCA
* * * *
7237899 CTATAGCTCAAGAGCTTTAGCGGCGCTTTTACCACAAACGCCG
1 CTATAGCTCAAGA-CTTTAGCGACGCTTTTCCCACAAACACCA
* ** * * ** * *
7237942 CTATAGATCGTGACCTTTAACGACGTTTTTTTCACAAACGCCG
1 CTATAGCTCAAGA-CTTTAGCGACGCTTTTCCCACAAACACCA
* * *
7237985 CTATAACTCAATACCTTTAGCGGCGCTT
1 CTATAGCTCAAGA-CTTTAGCGACGCTT
7238013 CTCACAAAAA
Statistics
Matches: 132, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 131 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (42 bp):
CTATAGCTCAAGACTTTAGCGACGCTTTTCCCACAAACACCA
Found at i:7237926 original size:86 final size:85
Alignment explanation
Indices: 7237786--7238012 Score: 240
Period size: 86 Copynumber: 2.6 Consensus size: 85
7237776 AACATTGACC
* * * * * *
7237786 TTTAGCGGCGC-TTTACCAAAAATGCCGCTATAGCTCGAGACTTTTAGCGACGCTTTTCCCACAA
1 TTTAGCGACGCTTTTACCACAAACGCCGCTATAGCTCAAGAC-TTTAGCGGCGCTTTTACCACAA
* *
7237850 GCACCACTATAGCTCAAGACA
65 ACACCACTATAGATCAAGACA
*
7237871 TTTAGCGACGCTTTTCCCACAAACGCCGCTATAGCTCAAGAGCTTTAGCGGCGCTTTTACCACAA
1 TTTAGCGACGCTTTTACCACAAACGCCGCTATAGCTCAAGA-CTTTAGCGGCGCTTTTACCACAA
* * ** *
7237936 ACGCCGCTATAGATCGTGACC
65 ACACCACTATAGATCAAGACA
* * ** * *
7237957 TTTAACGACGTTTTTTTCACAAACGCCGCTATAACTCAATACCTTTAGCGGCGCTT
1 TTTAGCGACGCTTTTACCACAAACGCCGCTATAGCTCAAGA-CTTTAGCGGCGCTT
7238013 CTCACAAAAA
Statistics
Matches: 119, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
85 10 0.08
86 108 0.91
87 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (85 bp):
TTTAGCGACGCTTTTACCACAAACGCCGCTATAGCTCAAGACTTTAGCGGCGCTTTTACCACAAA
CACCACTATAGATCAAGACA
Found at i:7241984 original size:24 final size:24
Alignment explanation
Indices: 7241951--7242001 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
7241941 TTCATATAAA
*
7241951 TTTTATATAAAGAATTATTAAAAT
1 TTTTACATAAAGAATTATTAAAAT
7241975 TTTTACATAAAGAATTATTAAAAT
1 TTTTACATAAAGAATTATTAAAAT
7241999 TTT
1 TTT
7242002 AAGTAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
TTTTACATAAAGAATTATTAAAAT
Found at i:7242219 original size:18 final size:18
Alignment explanation
Indices: 7242198--7242232 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7242188 TATTATTTAA
7242198 TAAATCTCAAATAAACCT
1 TAAATCTCAAATAAACCT
* *
7242216 TAAATCTTAAATTAACC
1 TAAATCTCAAATAAACC
7242233 ATTCAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATCTCAAATAAACCT
Found at i:7242438 original size:7 final size:7
Alignment explanation
Indices: 7242426--7242456 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
7242416 CCCTAAATCT
7242426 TAACCCC
1 TAACCCC
7242433 TAACCCC
1 TAACCCC
*
7242440 TAACTCC
1 TAACCCC
7242447 TAACCCC
1 TAACCCC
7242454 TAA
1 TAA
7242457 ACCTTAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.19
Consensus pattern (7 bp):
TAACCCC
Found at i:7242440 original size:21 final size:21
Alignment explanation
Indices: 7242408--7242480 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
7242398 ACCCTTGAAA
*
7242408 CCCTAAATCCCTAAATCTTAAC
1 CCCTAAA-CCCTAAATCCTAAC
* *
7242430 CCCTAACCCCTAACTCCTAAC
1 CCCTAAACCCTAAATCCTAAC
* *
7242451 CCCTAAACCTTAAATCCCAAC
1 CCCTAAACCCTAAATCCTAAC
*
7242472 CCTTAAACC
1 CCCTAAACC
7242481 ATAATCCCTA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 37 0.86
22 6 0.14
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAAACCCTAAATCCTAAC
Found at i:7242490 original size:35 final size:33
Alignment explanation
Indices: 7242383--7242492 Score: 105
Period size: 35 Copynumber: 3.2 Consensus size: 33
7242373 AATCTAAACT
*
7242383 CTAAACCTTAACCCGACCCTTGAAACCCTAAATCC
1 CTAAACCTTAACCCAACCCTT-AAACCCT-AATCC
* * *
7242418 CTAAATCTTAACCCCTAACCCCT-AACTCCTAACCC
1 CTAAACCTTAA-CCC-AACCCTTAAAC-CCTAATCC
*
7242453 CTAAACCTTAAATCCCAACCCTTAAACCATAATCC
1 CTAAACCTT-AA-CCCAACCCTTAAACCCTAATCC
7242488 CTAAA
1 CTAAA
7242493 TCCATATATA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
35 42 0.69
36 14 0.23
37 5 0.08
ACGTcount: A:0.36, C:0.40, G:0.02, T:0.22
Consensus pattern (33 bp):
CTAAACCTTAACCCAACCCTTAAACCCTAATCC
Found at i:7242781 original size:22 final size:22
Alignment explanation
Indices: 7242747--7242794 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
7242737 TCCCTAAACT
7242747 CTAAATCCTTAA-CTCTTAACCC
1 CTAAATCCTTAACCTC-TAACCC
7242769 CTAAA-CCTCTAACCTCTAACCC
1 CTAAATCCT-TAACCTCTAACCC
7242791 CTAA
1 CTAA
7242795 CCCTTAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (22 bp):
CTAAATCCTTAACCTCTAACCC
Found at i:7242814 original size:21 final size:21
Alignment explanation
Indices: 7242790--7242854 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
7242780 ACCTCTAACC
*
7242790 CCTAACCCTTAAACCTTAAAT
1 CCTAACCCTTAAACCATAAAT
*
7242811 CCTAACCCTTACACCAT-AAT
1 CCTAACCCTTAAACCATAAAT
* * *
7242831 CCCTAATCCATAATCCATAAAT
1 -CCTAACCCTTAAACCATAAAT
7242853 CC
1 CC
7242855 ATACTCCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 3 0.08
21 30 0.83
22 3 0.08
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (21 bp):
CCTAACCCTTAAACCATAAAT
Found at i:7242839 original size:7 final size:7
Alignment explanation
Indices: 7242824--7242857 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
7242814 AACCCTTACA
7242824 CCATAAT
1 CCATAAT
*
7242831 CCCTAAT
1 CCATAAT
7242838 CCATAAT
1 CCATAAT
7242845 CCATAAAT
1 CCAT-AAT
7242853 CCATA
1 CCATA
7242858 CTCCCTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (7 bp):
CCATAAT
Found at i:7242866 original size:15 final size:15
Alignment explanation
Indices: 7242824--7242866 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
7242814 AACCCTTACA
7242824 CCATAATCCCT-AAT
1 CCATAATCCCTAAAT
*
7242838 CCATAATCCATAAAT
1 CCATAATCCCTAAAT
*
7242853 CCATACTCCCTAAA
1 CCATAATCCCTAAA
7242867 CCTTAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.26
Consensus pattern (15 bp):
CCATAATCCCTAAAT
Found at i:7243104 original size:23 final size:25
Alignment explanation
Indices: 7243077--7243131 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
7243067 TAAATAATAG
*
7243077 TATTTTAATT-TTTCCATGTGTT-T
1 TATTTTAATTATTTCCACGTGTTAT
* *
7243100 TATTTCAAATTATTTCTACGTGTTAT
1 TATTT-TAATTATTTCCACGTGTTAT
7243126 TATTTT
1 TATTTT
7243132 TTTTGAAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.20
24 4 0.16
25 10 0.40
26 6 0.24
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.62
Consensus pattern (25 bp):
TATTTTAATTATTTCCACGTGTTAT
Found at i:7243485 original size:41 final size:41
Alignment explanation
Indices: 7243215--7243488 Score: 261
Period size: 41 Copynumber: 6.8 Consensus size: 41
7243205 TAAAATGGTT
* * ** **
7243215 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCACAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAATCCCTGAGCA
* * * * * **
7243256 TTAGCAGCGCTTTTT-AAGAAACGTCGCTAAAACCCCGAAAA
1 TTAGCGGCGCTTTTTCAA-AAACGCCACTAAATCCCTGAGCA
* * * *
7243297 TTAGCGGTGGTTTTTCAAAAACGCCGCTAAAT-CCTAGAGAA
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAATCCCT-GAGCA
* *
7243338 TTAGCGGCGCTTTTTCAAAAATGCCACTAAATCCCAGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAATCCCTGAGCA
* *
7243379 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAATCCCTGAGCA
* *
7243420 TTAGC--AG-TTTTTCAAAAACACCACTAAATCCCTGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAATCCCTGAGCA
** *
7243458 TTAGCGGCGCTTTTTTTAAGACGCCACTAAA
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAA
7243489 GACCATAAAG
Statistics
Matches: 192, Mismatches: 34, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 5 0.03
41 149 0.78
42 4 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCACTAAATCCCTGAGCA
Found at i:7243602 original size:39 final size:40
Alignment explanation
Indices: 7243558--7243662 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
7243548 AAATCTCAGC
*
7243558 TAATGCTC-ATTTTTAGCGTC-ACTTTTCGAAAAACGCCGCG
1 TAATGCTCGATTTTTAGCGGCGA-TTTTCGAAAAACGCCG-G
* * * *
7243598 -AATGCTCGATCTTTAGTGGCGATTTTCGTAAAGCGCCGG
1 TAATGCTCGATTTTTAGCGGCGATTTTCGAAAAACGCCGG
7243637 TAATGCTCGATTTTTAGCGGC-ATTTT
1 TAATGCTCGATTTTTAGCGGCGATTTT
7243663 TATTCAAACG
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 13 0.24
40 41 0.75
41 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (40 bp):
TAATGCTCGATTTTTAGCGGCGATTTTCGAAAAACGCCGG
Found at i:7243675 original size:40 final size:39
Alignment explanation
Indices: 7243588--7243676 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 39
7243578 ACTTTTCGAA
* *
7243588 AAACGCCGCGAATGCTCGATCTTTAGTGGCGATTTTCGT
1 AAACGCCGCGAATGCTCGATCTTTAGCGGCGATTTTAGT
* *
7243627 AAAGCGCCG-GTAATGCTCGATTTTTAGCGGC-ATTTTTATT
1 AAA-CGCCGCG-AATGCTCGATCTTTAGCGGCGA-TTTTAGT
7243667 CAAACGCCGC
1 -AAACGCCGC
7243677 TAAAAGTGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
39 5 0.12
40 33 0.80
41 3 0.07
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (39 bp):
AAACGCCGCGAATGCTCGATCTTTAGCGGCGATTTTAGT
Found at i:7248464 original size:50 final size:50
Alignment explanation
Indices: 7248389--7248880 Score: 408
Period size: 50 Copynumber: 9.8 Consensus size: 50
7248379 TTTCTTGTAC
* * * * **
7248389 TGCCAATGCCATATACTAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** * *
7248439 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCGCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
** * *
7248489 TGCCAACACTATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * * *
7248539 TGCCAACGCCATGTCCCAGACATGGTATT-C-TGTTTGA---AT-ATAAC-A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG--GGACCTCTCATATCGG
* * * * * ** * * *
7248584 TGCCAAAGCTATGTCACAAACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
7248633 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
7248683 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** * *
7248733 TGCCAACGCTATGTCCCAGACATATTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
7248783 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
7248839 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7248881 TTACCCAAAT
Statistics
Matches: 352, Mismatches: 73, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
45 25 0.07
46 4 0.01
47 3 0.01
48 4 0.01
49 37 0.11
50 236 0.67
53 2 0.01
56 41 0.12
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:7248751 original size:244 final size:244
Alignment explanation
Indices: 7248322--7248808 Score: 884
Period size: 244 Copynumber: 2.0 Consensus size: 244
7248312 TACTCGGGTC
* * *
7248322 TTCTGTTTGAATATAACATGCCAAAGCTATGTCCCAGACATATTCTTACATGGGATGTTTCTTGT
1 TTCTGTTTGAATATAACATGCCAAAGCTATGTCACAAACATAGTCTTACATGGGATGTTTCTTGT
*
7248387 ACTGCCAATGCCATATACTAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
66 ACTGCCAATGCCATATACCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
*
7248452 TCCCAGACATGGTCTTACGGGGGACCGCTCATCTCGGTGCCAACACTATGTCCCAGACATGGTCT
131 TCCCAGACATGGTCTTACGGGGGACCGCTCATCTCGGTGCCAACACTATGTCCCAGACATAGTCT
7248517 TACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTA
196 TACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTA
7248566 TTCTGTTTGAATATAACATGCCAAAGCTATGTCACAAACATAGTCTTACATGGGATGTTTCTTGT
1 TTCTGTTTGAATATAACATGCCAAAGCTATGTCACAAACATAGTCTTACATGGGATGTTTCTTGT
*
7248631 ACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
66 ACTGCCAATGCCATATACCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
* * *
7248696 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCTATGTCCCAGACATATTCT
131 TCCCAGACATGGTCTTACGGGGGACCGCTCATCTCGGTGCCAACACTATGTCCCAGACATAGTCT
*
7248761 TATATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGT
196 TACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGT
7248809 CTTACATGGG
Statistics
Matches: 233, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
244 233 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (244 bp):
TTCTGTTTGAATATAACATGCCAAAGCTATGTCACAAACATAGTCTTACATGGGATGTTTCTTGT
ACTGCCAATGCCATATACCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
TCCCAGACATGGTCTTACGGGGGACCGCTCATCTCGGTGCCAACACTATGTCCCAGACATAGTCT
TACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTA
Found at i:7253461 original size:6 final size:6
Alignment explanation
Indices: 7253450--7253505 Score: 62
Period size: 6 Copynumber: 9.3 Consensus size: 6
7253440 ATTGAGTTTA
* *
7253450 TTTATT TTTATT TTTATT TTTA-T ATTATG TTTATT TTTAGTT CTTT-TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT -TTTATT
7253498 TTTATT TT
1 TTTATT TT
7253506 CTTAGACTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 7 0.17
6 30 0.71
7 2 0.05
8 3 0.07
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:7253482 original size:17 final size:16
Alignment explanation
Indices: 7253445--7253488 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
7253435 GGACCATTGA
7253445 GTTTATTTATT-TTTAT
1 GTTTATTT-TTATTTAT
*
7253461 TTTTATTTTTATATTAT
1 GTTTATTTTTAT-TTAT
7253478 GTTTATTTTTA
1 GTTTATTTTTA
7253489 GTTCTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 8 0.33
17 14 0.58
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (16 bp):
GTTTATTTTTATTTAT
Found at i:7253482 original size:23 final size:22
Alignment explanation
Indices: 7253446--7253488 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
7253436 GACCATTGAG
*
7253446 TTTATTTATTTTTATTTTTATT
1 TTTATTTATGTTTATTTTTATT
7253468 TTTATATTATGTTTATTTTTA
1 TTTAT-TTATGTTTATTTTTA
7253489 GTTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTATTTATGTTTATTTTTATT
Found at i:7267217 original size:14 final size:14
Alignment explanation
Indices: 7267200--7267232 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7267190 AATAATAAAT
*
7267200 GAAAATCAAAGGAA
1 GAAAATAAAAGGAA
7267214 GAAAATAAAAGGAA
1 GAAAATAAAAGGAA
7267228 GAAAA
1 GAAAA
7267233 AGGAAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.21, T:0.06
Consensus pattern (14 bp):
GAAAATAAAAGGAA
Found at i:7274374 original size:17 final size:17
Alignment explanation
Indices: 7274352--7274397 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
7274342 TGAGTGAGAT
7274352 AAAGTGAAAAAGGTCA-A
1 AAAGTGAAAAA-GTCAGA
*
7274369 AAAGTGACAAAGTCAGA
1 AAAGTGAAAAAGTCAGA
7274386 AAAGTAGAAAAA
1 AAAGT-GAAAAA
7274398 ATCATTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.16
17 16 0.64
18 5 0.20
ACGTcount: A:0.61, C:0.07, G:0.22, T:0.11
Consensus pattern (17 bp):
AAAGTGAAAAAGTCAGA
Found at i:7281217 original size:50 final size:50
Alignment explanation
Indices: 7281117--7281223 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
7281107 ACATAGGAGT
* * * * *
7281117 TCTCATATCGGTGCCCATGTCATGTCCCAAACATGGTCTTACGGGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAAACATGGCCTTACGGGAGACC
* * ** *
7281167 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGCCTTTTGTGAGACC
1 TCTCATATCGGTGCCAACGCCATGTCCCAAACATGGCCTTACGGGAGACC
7281217 TCTCATA
1 TCTCATA
7281224 ACCTCAATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTCCCAAACATGGCCTTACGGGAGACC
Found at i:7282196 original size:41 final size:41
Alignment explanation
Indices: 7282138--7282328 Score: 301
Period size: 41 Copynumber: 4.6 Consensus size: 41
7282128 CTTAATTTAA
* *
7282138 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
7282180 CAGATCACCAGCACTTAGCCTGCTAGGTTTGTAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
7282221 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* * * *
7282262 CAGATCACCAGCACTTAGCGTACTAAGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
7282303 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
7282329 CCGTATAGTC
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 131 0.97
42 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:7289829 original size:41 final size:41
Alignment explanation
Indices: 7289771--7289961 Score: 310
Period size: 41 Copynumber: 4.6 Consensus size: 41
7289761 CTTAATTTAA
* *
7289771 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
7289813 CAGATCATCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
7289854 TAGATTACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
7289895 CAGATCACCGGCAATTAGCCTACTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
7289936 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
7289962 ACGTATAGTC
Statistics
Matches: 137, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 133 0.97
42 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:7296296 original size:24 final size:24
Alignment explanation
Indices: 7296261--7296318 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
7296251 CAAGGATGAT
*
7296261 ATGAATTAATAAATGATAAATGCC
1 ATGAATTGATAAATGATAAATGCC
* **
7296285 ATGAATTGATAAATGATATATGGT
1 ATGAATTGATAAATGATAAATGCC
7296309 ATGAATTGAT
1 ATGAATTGAT
7296319 GATGAAATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.34
Consensus pattern (24 bp):
ATGAATTGATAAATGATAAATGCC
Found at i:7298598 original size:9 final size:9
Alignment explanation
Indices: 7298566--7298613 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
7298556 TCACATGGTG
7298566 TTAAACACAT
1 TTAAA-ACAT
*
7298576 TTAACACAT
1 TTAAAACAT
7298585 TTAAAACAT
1 TTAAAACAT
7298594 TTAAAAACCAT
1 TT-AAAA-CAT
7298605 ATTAAAACA
1 -TTAAAACA
7298614 CACAAGCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 14 0.42
10 10 0.30
11 7 0.21
12 2 0.06
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (9 bp):
TTAAAACAT
Found at i:7309741 original size:16 final size:15
Alignment explanation
Indices: 7309703--7309757 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
7309693 TAAACATACC
*
7309703 TATTAAATATAA-TT
1 TATTAAAAATAATTT
7309717 TATTAAAAAATAATTT
1 TATT-AAAAATAATTT
*
7309733 TAATTAAAATATTATTT
1 T-ATTAAAA-ATAATTT
7309750 TATTAAAA
1 TATTAAAA
7309758 TGTTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 4 0.11
15 7 0.20
16 14 0.40
17 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAAAAATAATTT
Found at i:7309758 original size:16 final size:16
Alignment explanation
Indices: 7309703--7309758 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 16
7309693 TAAACATACC
*
7309703 TATT-AAATA-TAATT
1 TATTAAAATATTATTT
* *
7309717 TATTAAAAAATAATTT
1 TATTAAAATATTATTT
7309733 TAATTAAAATATTATTT
1 T-ATTAAAATATTATTT
7309750 TATTAAAAT
1 TATTAAAAT
7309759 GTTTAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.12
15 4 0.12
16 12 0.35
17 14 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTAAAATATTATTT
Found at i:7310635 original size:22 final size:22
Alignment explanation
Indices: 7310609--7310650 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
7310599 AATTTTTTTA
7310609 TATTCAAATGATATTATAAATT
1 TATTCAAATGATATTATAAATT
*
7310631 TATTCAAATTATATTATAAA
1 TATTCAAATGATATTATAAA
7310651 AGTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
TATTCAAATGATATTATAAATT
Found at i:7318510 original size:162 final size:162
Alignment explanation
Indices: 7318243--7318571 Score: 622
Period size: 162 Copynumber: 2.0 Consensus size: 162
7318233 TTTGAGGGAC
7318243 GAATTTGTACTATCCCATATATTTGAGAGATAGCGAATACCGAATTGCAAAGTATTTAGTGTGGG
1 GAATTTGTACTATCCCATATATTTGAGAGATAGCGAATACCGAATTGCAAAGTATTTAGTGTGGG
*
7318308 TTCATATCTCATGATTACTTTGTCGGAGTGGTAACCGGGTTAAGGCTAAAAAGGATTTAGTTAAT
66 TTCATATCTCATGATTACTTTGTCGGAGTGATAACCGGGTTAAGGCTAAAAAGGATTTAGTTAAT
7318373 CATGAAAAGAATCATAATAAATAGTTTAAATG
131 CATGAAAAGAATCATAATAAATAGTTTAAATG
*
7318405 GAATTTGTACTATCCCATATATTTGAGATATAGCGAATACCGAATTGCAAAGTATTTAGTGTGGG
1 GAATTTGTACTATCCCATATATTTGAGAGATAGCGAATACCGAATTGCAAAGTATTTAGTGTGGG
*
7318470 TTCATATCTCATGATTACTTTTTCGGAGTGATAACCGGGTTAAGGCTAAAAAGGATTTAGTTAAT
66 TTCATATCTCATGATTACTTTGTCGGAGTGATAACCGGGTTAAGGCTAAAAAGGATTTAGTTAAT
*
7318535 CATGAAAAGAATCATAATAAATGGTTTAAATG
131 CATGAAAAGAATCATAATAAATAGTTTAAATG
7318567 GAATT
1 GAATT
7318572 ATGGAAAGTG
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 163 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (162 bp):
GAATTTGTACTATCCCATATATTTGAGAGATAGCGAATACCGAATTGCAAAGTATTTAGTGTGGG
TTCATATCTCATGATTACTTTGTCGGAGTGATAACCGGGTTAAGGCTAAAAAGGATTTAGTTAAT
CATGAAAAGAATCATAATAAATAGTTTAAATG
Found at i:7318823 original size:23 final size:23
Alignment explanation
Indices: 7318793--7318842 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
7318783 GATTTTTCCT
7318793 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATTCA
*
7318816 AAATATTATTACTAAATAATTCA
1 AAATATTATCACTAAATAATTCA
7318839 AAAT
1 AAAT
7318843 TTAAAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATATTATCACTAAATAATTCA
Found at i:7321886 original size:36 final size:36
Alignment explanation
Indices: 7321839--7321908 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
7321829 ATTAAGTTTC
7321839 GATATGAAACTTAAAAAAGTATAAATTTACCTTTTT
1 GATATGAAACTTAAAAAAGTATAAATTTACCTTTTT
*
7321875 GATATGAAACTTAAAAAAGTATAAATTTGCCTTT
1 GATATGAAACTTAAAAAAGTATAAATTTACCTTT
7321909 ATTTTAGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (36 bp):
GATATGAAACTTAAAAAAGTATAAATTTACCTTTTT
Found at i:7322865 original size:14 final size:14
Alignment explanation
Indices: 7322846--7322872 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7322836 ATTATGAAAT
7322846 AAAATCATATTACA
1 AAAATCATATTACA
7322860 AAAATCATATTAC
1 AAAATCATATTAC
7322873 GATAAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATCATATTACA
Found at i:7328894 original size:17 final size:18
Alignment explanation
Indices: 7328874--7328910 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
7328864 TAAGGTTTTT
7328874 ATAATAATAAA-AA-TAAA
1 ATAAT-ATAAAGAACTAAA
7328891 ATAATATAAAGAACTAAA
1 ATAATATAAAGAACTAAA
7328909 AT
1 AT
7328911 TAGAGACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (18 bp):
ATAATATAAAGAACTAAA
Found at i:7343099 original size:23 final size:24
Alignment explanation
Indices: 7343046--7343107 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 24
7343036 GTTAAAACCA
*
7343046 CCAATAACAATATGCAAAAAATTCTG
1 CCAATAA-AA-ATGCAAAAAAGTCTG
*
7343072 CCAATAAAAATGCAAACAAGT-TG
1 CCAATAAAAATGCAAAAAAGTCTG
7343095 CCAATAAAAATGC
1 CCAATAAAAATGC
7343108 GATAAATTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 15 0.44
24 10 0.29
25 2 0.06
26 7 0.21
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (24 bp):
CCAATAAAAATGCAAAAAAGTCTG
Found at i:7345061 original size:322 final size:321
Alignment explanation
Indices: 7344468--7345109 Score: 1086
Period size: 322 Copynumber: 2.0 Consensus size: 321
7344458 AAGATTAATC
* *
7344468 AAGAAATTGAAGAGAAAAGAGATCTTACCCAAGCTAGTTGAAAGAACCGACAATGACACTTTCTT
1 AAGAAATTAAAGAGAAAAGAGATCTTACCCAAGCTAGTTGAAAGAAACGACAATGACACTTTCTT
* *
7344533 GGCAATGTTTGGGATCGATCTTGGGGTTCAAGATTTCATGTTTGGGGCTGATTTAGATAAGAATA
66 GGCAATGTTCGGGATCGATCTTGGGGTTCAAGATTTCATATTTGGGGCTGATTTAGATAAGAATA
* *
7344598 AATGAAAAAAATAGAGTAAAAGATATGGTGCACAATCTTGATGCAAAAATAAGAAGAAAGATATG
131 AATGAAAAAAATAGACTAAAAGAGATGGTGCACAATCTTGATGCAAAAATAAGAAGAAAGATATG
* * *
7344663 TTAAAATGGGAGGTGTAGGCGACAACAACAATAAGAGAAAGAAAGAAAATTGCAGAGAAAGGAGG
196 TTAAAATGGGAGGTGTAGGCAACAACAACAATAAGAGAAAGAAAGAAAATTGAAGAGAAAAGAGG
* *
7344728 AGAGGAAGAGGGTGAACAGCTAGGGTAGGTAAAAATTAAATTAGAGGATAAAAGATACAAA
261 AGAGGAAGAGGGTGAACAACTAGGGTAGGTAAAAATTAAATTAGAGGATAAAAAATACAAA
7344789 AAGAAATTAAAGAGAAAAGAGATCTTACCCAAGCTAGTTGAAAGAAACGACAATGACACTTTCTT
1 AAGAAATTAAAGAGAAAAGAGATCTTACCCAAGCTAGTTGAAAGAAACGACAATGACACTTTCTT
* * *
7344854 GGCAATGTTCGGGATTGATCTTGGGGTTCAAGATTTCATATTTGGGGCTGATTTAGATGAGGATA
66 GGCAATGTTCGGGATCGATCTTGGGGTTCAAGATTTCATATTTGGGGCTGATTTAGATAAGAATA
7344919 AATGGAAAAAAATAGACTAAAAGAGATGGTGCACAATCTTGATGCAAAAATAAGAAGAAAGATAT
131 AAT-GAAAAAAATAGACTAAAAGAGATGGTGCACAATCTTGATGCAAAAATAAGAAGAAAGATAT
* * * *
7344984 GTTATAATGGGAGGTGTAGGCAACGACAATAATAGGAGAAAGAAAGAAAATTGAAGAGAAAAGAG
195 GTTAAAATGGGAGGTGTAGGCAACAACAACAATAAGAGAAAGAAAGAAAATTGAAGAGAAAAGAG
* * *
7345049 GAGAGGAAGAGGGTGAACAATTAGGGTAGGTAAAAATTGAATTAGAGGGTAAAAAATACAA
260 GAGAGGAAGAGGGTGAACAACTAGGGTAGGTAAAAATTAAATTAGAGGATAAAAAATACAA
7345110 TAAAAAGTTG
Statistics
Matches: 299, Mismatches: 21, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
321 126 0.42
322 173 0.58
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (321 bp):
AAGAAATTAAAGAGAAAAGAGATCTTACCCAAGCTAGTTGAAAGAAACGACAATGACACTTTCTT
GGCAATGTTCGGGATCGATCTTGGGGTTCAAGATTTCATATTTGGGGCTGATTTAGATAAGAATA
AATGAAAAAAATAGACTAAAAGAGATGGTGCACAATCTTGATGCAAAAATAAGAAGAAAGATATG
TTAAAATGGGAGGTGTAGGCAACAACAACAATAAGAGAAAGAAAGAAAATTGAAGAGAAAAGAGG
AGAGGAAGAGGGTGAACAACTAGGGTAGGTAAAAATTAAATTAGAGGATAAAAAATACAAA
Found at i:7345589 original size:24 final size:25
Alignment explanation
Indices: 7345557--7345603 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
7345547 AAAAACTTGT
*
7345557 ATTATTCATGAATT-GATTAATAAA
1 ATTATTCATGAATTAAATTAATAAA
7345581 ATTATTCATGAATTAAATTAATA
1 ATTATTCATGAATTAAATTAATA
7345604 TATTTTGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (25 bp):
ATTATTCATGAATTAAATTAATAAA
Found at i:7348502 original size:24 final size:21
Alignment explanation
Indices: 7348458--7348505 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
7348448 CCTTTTCAGT
7348458 AACTTCTTCTTCTGCAGCAAC
1 AACTTCTTCTTCTGCAGCAAC
** *
7348479 AACTTCTTCTTCTATAGCATC
1 AACTTCTTCTTCTGCAGCAAC
7348500 AACTTC
1 AACTTC
7348506 CTTCACAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (21 bp):
AACTTCTTCTTCTGCAGCAAC
Found at i:7366352 original size:25 final size:25
Alignment explanation
Indices: 7366324--7366377 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
7366314 AGCCTAAAGT
7366324 TGATGTAGTTTTATGAACAAAATAA
1 TGATGTAGTTTTATGAACAAAATAA
7366349 TGATGTAGTTTTATGAACAAAATAA
1 TGATGTAGTTTTATGAACAAAATAA
7366374 TGAT
1 TGAT
7366378 CAAACTCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.37
Consensus pattern (25 bp):
TGATGTAGTTTTATGAACAAAATAA
Found at i:7374964 original size:15 final size:15
Alignment explanation
Indices: 7374944--7374974 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7374934 GTTAAGTAAG
7374944 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
7374959 TGAAAGGTTAAGAGT
1 TGAAAGGTCAAGAGT
7374974 T
1 T
7374975 ATGTTGTTTT
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:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:7375069 original size:17 final size:17
Alignment explanation
Indices: 7375036--7375074 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
7375026 TAAGCTTTTG
7375036 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
7375053 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
7375070 ATTTT
1 ATTTT
7375075 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:7375523 original size:79 final size:79
Alignment explanation
Indices: 7375428--7375583 Score: 285
Period size: 79 Copynumber: 2.0 Consensus size: 79
7375418 CGCCTTCAAA
* *
7375428 CTCTTCGTGGCAAGCTGGAAGGCATGAAGATGAAGGAATCGGAAGGTGTCTCCGACTATATCACG
1 CTCTTCGTGGCAAGCTGGAAGGCATGAAGATGAAGGAATCAGAAGGTGTCTCCGACTACATCACG
7375493 CGTGTTCAAACCAT
66 CGTGTTCAAACCAT
*
7375507 CTCTTCGTGGCGAGCTGGAAGGCATGAAGATGAAGGAATCAGAAGGTGTCTCCGACTACATCACG
1 CTCTTCGTGGCAAGCTGGAAGGCATGAAGATGAAGGAATCAGAAGGTGTCTCCGACTACATCACG
7375572 CGTGTTCAAACC
66 CGTGTTCAAACC
7375584 GTGGTGAACC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (79 bp):
CTCTTCGTGGCAAGCTGGAAGGCATGAAGATGAAGGAATCAGAAGGTGTCTCCGACTACATCACG
CGTGTTCAAACCAT
Found at i:7379294 original size:15 final size:15
Alignment explanation
Indices: 7379274--7379304 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7379264 GTTATGTAAG
7379274 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
7379289 TGAAAGGTTAAGAGT
1 TGAAAGGTCAAGAGT
7379304 T
1 T
7379305 ATGTTGTTTT
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:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:7381053 original size:57 final size:57
Alignment explanation
Indices: 7380978--7381110 Score: 194
Period size: 57 Copynumber: 2.3 Consensus size: 57
7380968 TTATTTCTAC
** **
7380978 ATTTATGTTGTCTTAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGTGCAT
1 ATTTATGTTGTCAAAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGCACAT
* * * *
7381035 ATTTATGTTGTCCAAATGTAATTTATAGTTGTTGTCATAATGTCTCTTGATGCACAT
1 ATTTATGTTGTCAAAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGCACAT
7381092 ATTTATGTTGTCAAAATGT
1 ATTTATGTTGTCAAAATGT
7381111 GAATAATGGC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 68 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.47
Consensus pattern (57 bp):
ATTTATGTTGTCAAAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGCACAT
Found at i:7381135 original size:57 final size:57
Alignment explanation
Indices: 7380978--7381126 Score: 165
Period size: 57 Copynumber: 2.6 Consensus size: 57
7380968 TTATTTCTAC
** * * * * **
7380978 ATTTATGTTGTCTTAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGTGCAT
1 ATTTATGTTGTCAAAATGTAATTAATAGCTGTTGTCATAATGTCTCTTAATGCACAT
* * * *
7381035 ATTTATGTTGTCCAAATGTAATTTATAGTTGTTGTCATAATGTCTCTTGATGCACAT
1 ATTTATGTTGTCAAAATGTAATTAATAGCTGTTGTCATAATGTCTCTTAATGCACAT
*
7381092 ATTTATGTTGTCAAAATGTGAA-TAATGGCTGTTGT
1 ATTTATGTTGTCAAAATGT-AATTAATAGCTGTTGT
7381127 TTCGATGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 78 0.98
58 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (57 bp):
ATTTATGTTGTCAAAATGTAATTAATAGCTGTTGTCATAATGTCTCTTAATGCACAT
Found at i:7383100 original size:20 final size:20
Alignment explanation
Indices: 7383042--7383163 Score: 95
Period size: 20 Copynumber: 6.1 Consensus size: 20
7383032 ATAAATTTAT
* * *
7383042 AACAAGAGCACCGAAGTGCG
1 AACAAGGGCACCAAAGTGCA
* *
7383062 GACAGGGGCA-CAAATGTGCA
1 AACAAGGGCACCAAA-GTGCA
* *
7383082 AACAAGGGCACCATAGTGCG
1 AACAAGGGCACCAAAGTGCA
*
7383102 AAC-AGGGACACCAAAGTGTA
1 AACAAGGG-CACCAAAGTGCA
* *
7383122 TACAGGGGCACCAAAGTGCA
1 AACAAGGGCACCAAAGTGCA
* * *
7383142 AACAAAGGCATCGAAGTGCA
1 AACAAGGGCACCAAAGTGCA
7383162 AA
1 AA
7383164 TCCCGTACAA
Statistics
Matches: 78, Mismatches: 20, Indels: 8
0.74 0.19 0.08
Matches are distributed among these distances:
19 7 0.09
20 65 0.83
21 6 0.08
ACGTcount: A:0.40, C:0.22, G:0.29, T:0.09
Consensus pattern (20 bp):
AACAAGGGCACCAAAGTGCA
Found at i:7397037 original size:17 final size:17
Alignment explanation
Indices: 7397017--7397089 Score: 65
Period size: 17 Copynumber: 4.3 Consensus size: 17
7397007 TTGGCAGATA
7397017 AGTATCACCTGGCGGAC
1 AGTATCACCTGGCGGAC
* * *
7397034 AGTATCGCCCGGCAGAC
1 AGTATCACCTGGCGGAC
* * * *
7397051 AGCATCACCAGGAGAAC
1 AGTATCACCTGGCGGAC
* *
7397068 AGTATCGCCTGACGGAC
1 AGTATCACCTGGCGGAC
7397085 AGTAT
1 AGTAT
7397090 TACGTACCAG
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (17 bp):
AGTATCACCTGGCGGAC
Found at i:7408089 original size:3 final size:3
Alignment explanation
Indices: 7408081--7408133 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
7408071 CATTCTCTAT
* *
7408081 TTC TTC TTC TTT TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
7408129 TTC TT
1 TTC TT
7408134 TCAGATCAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:7414355 original size:19 final size:19
Alignment explanation
Indices: 7414333--7414393 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
7414323 AAAATGTATA
*
7414333 CTGGCACACAAACTGCATC
1 CTGGAACACAAACTGCATC
* *
7414352 CTGGGACACGAAGC-GCATC
1 CTGGAACAC-AAACTGCATC
* * *
7414371 CTAGAACACGAAGTGCATC
1 CTGGAACACAAACTGCATC
7414390 CTGG
1 CTGG
7414394 TGCATAAGTG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 1 0.03
19 28 0.88
20 3 0.09
ACGTcount: A:0.30, C:0.31, G:0.25, T:0.15
Consensus pattern (19 bp):
CTGGAACACAAACTGCATC
Found at i:7417867 original size:5 final size:5
Alignment explanation
Indices: 7417857--7417883 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7417847 TACTTCTATT
7417857 ATTCA ATTCA ATTCA ATTCA ATTCA AT
1 ATTCA ATTCA ATTCA ATTCA ATTCA AT
7417884 CCATAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTCA
Found at i:7420736 original size:61 final size:59
Alignment explanation
Indices: 7420619--7420808 Score: 168
Period size: 60 Copynumber: 3.2 Consensus size: 59
7420609 GTTCGCCACG
* * * *
7420619 AAGGCTTACATTTCCAGAGTTTTGCCACAAAGAC-AT-CTCTTACATCCAATACTCGCCATA
1 AAGGCTTTCATGTCCAGAG-TTTGCCA-AAAGACTATCCT-TTACATTCAGTACTCGCCATA
* * *
7420679 AAGGATTTCATGTCCAGAGTTGTGCCAGAAAGGCTATCCTTTACATTCAGTACTCGCCACA
1 AAGGCTTTCATGTCCAGAGTT-TGCCA-AAAGACTATCCTTTACATTCAGTACTCGCCATA
* * * * * * * * *
7420740 AAGGCTTTCTTGTCTAAAGATTTTCCACAAGTCTGTCATTTACATTCAGTACTTGCCATA
1 AAGGCTTTCATGTCCAGAG-TTTGCCAAAAGACTATCCTTTACATTCAGTACTCGCCATA
7420800 AAGGCTTTC
1 AAGGCTTTC
7420809 CTTTGACCAA
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
59 2 0.02
60 62 0.58
61 39 0.36
62 4 0.04
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (59 bp):
AAGGCTTTCATGTCCAGAGTTTGCCAAAAGACTATCCTTTACATTCAGTACTCGCCATA
Found at i:7425368 original size:15 final size:16
Alignment explanation
Indices: 7425338--7425370 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7425328 TAACAAATGT
7425338 TAAAAAAATTCAATATA
1 TAAAAAAATT-AATATA
7425355 TAAAAAAATT-ATATA
1 TAAAAAAATTAATATA
7425370 T
1 T
7425371 TGAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAAAATTAATATA
Found at i:7445587 original size:50 final size:50
Alignment explanation
Indices: 7445520--7445709 Score: 227
Period size: 50 Copynumber: 3.7 Consensus size: 50
7445510 TTTCATGTAC
* * **
7445520 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** * *
7445570 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
7445620 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GG
*
7445675 ATGCCAATGACATGTCCCAGACATGGTCTTACATG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATG
7445710 AGATCTCTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 82 0.70
53 1 0.01
55 2 0.02
56 32 0.27
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:7445650 original size:100 final size:104
Alignment explanation
Indices: 7445520--7445706 Score: 265
Period size: 100 Copynumber: 1.8 Consensus size: 104
7445510 TTTCATGTAC
* * ** * *
7445520 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT-A-TC-GG-TGCCCATGCCA
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATGACTCAGGATGCCAATGACA
7445581 TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
66 TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
*
7445620 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAATGA
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATGA-CTC-AGGATGCCAATGA
7445685 CATGTCCCAGACATGGTCTTAC
64 CATGTCCCAGACATGGTCTTAC
7445707 ATGAGATCTC
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 40 0.54
101 1 0.01
103 2 0.03
105 2 0.03
106 29 0.39
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (104 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATGACTCAGGATGCCAATGACA
TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
Found at i:7445681 original size:56 final size:50
Alignment explanation
Indices: 7445478--7445709 Score: 205
Period size: 50 Copynumber: 4.5 Consensus size: 50
7445468 ACATGTCAAA
* * * ** * * * *
7445478 GCCATATCCCATACATGGACTTACATGGGATGTTTCATGTA-CTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCCAAC
* * ** * * * *
7445527 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCCAAC
** *
7445577 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCCAAC
*
7445627 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--AGG-TGCCAAC
*
7445683 GACATGTCCCAGACATGGTCTTACATG
1 GCCATGTCCCAGACATGGTCTTACATG
7445710 AGATCTCTTT
Statistics
Matches: 151, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
49 33 0.22
50 80 0.53
53 4 0.03
55 2 0.01
56 32 0.21
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCCAAC
Found at i:7453140 original size:50 final size:50
Alignment explanation
Indices: 7453023--7453261 Score: 241
Period size: 50 Copynumber: 4.7 Consensus size: 50
7453013 GATAATAACA
* ** * *
7453023 TGCCAAAT-CCATGTCCCATACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * **
7453072 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
7453122 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
7453172 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GG
7453227 ATGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATG
7453262 AGATCTCTTT
Statistics
Matches: 156, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
48 4 0.03
49 35 0.22
50 81 0.52
53 2 0.01
55 2 0.01
56 32 0.21
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:7454815 original size:726 final size:726
Alignment explanation
Indices: 7453468--7454921 Score: 2908
Period size: 726 Copynumber: 2.0 Consensus size: 726
7453458 TCGGTAAAAA
7453468 ATATAGCCAAATCTATCACTTAGTCTTCAATCTTATTCTTTCCTCGATCTAACCTTGAATTCCTT
1 ATATAGCCAAATCTATCACTTAGTCTTCAATCTTATTCTTTCCTCGATCTAACCTTGAATTCCTT
7453533 TCTTCTTGATCTATAATAGAAAATTTAACTTATTTAATACTCACATTCATTAAAACTGCCCTCGA
66 TCTTCTTGATCTATAATAGAAAATTTAACTTATTTAATACTCACATTCATTAAAACTGCCCTCGA
7453598 CTCTAACTTTGGCAAAATTACAATTTTGCCCCTAGACTTTTACATAATTACACTTTTTCCCCAAA
131 CTCTAACTTTGGCAAAATTACAATTTTGCCCCTAGACTTTTACATAATTACACTTTTTCCCCAAA
7453663 GCTCAGAAATTAAACTTCATGTCTTATTCTTATGTTTTACAACATGCTGAACATTTTTATCTTCT
196 GCTCAGAAATTAAACTTCATGTCTTATTCTTATGTTTTACAACATGCTGAACATTTTTATCTTCT
7453728 ATGACAACATCAAATTCTCACTCTAACATCTACTTATGAACATTAGGTATTTTACCGATTATGGA
261 ATGACAACATCAAATTCTCACTCTAACATCTACTTATGAACATTAGGTATTTTACCGATTATGGA
7453793 GTTTTACTAGTTTTCGCTTAAAATCGACTACCAAAAGTTGTTTAACATAATTTCTAGCCTCATAT
326 GTTTTACTAGTTTTCGCTTAAAATCGACTACCAAAAGTTGTTTAACATAATTTCTAGCCTCATAT
7453858 TATACCTTAAAACATCAAAATAAACACTTTTCACCTGTGGGTATTTTTCCAAATATAAACCCGAG
391 TATACCTTAAAACATCAAAATAAACACTTTTCACCTGTGGGTATTTTTCCAAATATAAACCCGAG
7453923 GTTAAATTATTACTAGAATAAGCTAAATTAAGCTACTGCGATCTCAAAAATGTAAAGAACATTAA
456 GTTAAATTATTACTAGAATAAGCTAAATTAAGCTACTGCGATCTCAAAAATGTAAAGAACATTAA
7453988 AAAGGGGGCTTGGAATCACCTACTATGAGCTTGAGAAAGTGTGAAAACCCTAGCTATGGTGTCCT
521 AAAGGGGGCTTGGAATCACCTACTATGAGCTTGAGAAAGTGTGAAAACCCTAGCTATGGTGTCCT
7454053 TCAAATTTTGGCAACAAGCTTTTTTGAGAAGATGATATTTTTGCCATATTTTTCCCTTTTTATTC
586 TCAAATTTTGGCAACAAGCTTTTTTGAGAAGATGATATTTTTGCCATATTTTTCCCTTTTTATTC
7454118 TTTTTATTATTCAATGACTAAAATACCCTTCATTAAAACTTTAATTATTTTTATCTTTGCATGCC
651 TTTTTATTATTCAATGACTAAAATACCCTTCATTAAAACTTTAATTATTTTTATCTTTGCATGCC
7454183 TATTTTTGTCG
716 TATTTTTGTCG
7454194 ATATAGCCAAATCTATCACTTAGTCTTCAATCTTATTCTTTCCTCGATCTAACCTTGAATTCCTT
1 ATATAGCCAAATCTATCACTTAGTCTTCAATCTTATTCTTTCCTCGATCTAACCTTGAATTCCTT
7454259 TCTTCTTGATCTATAATAGAAAATTTAACTTATTTAATACTCACATTCATTAAAACTGCCCTCGA
66 TCTTCTTGATCTATAATAGAAAATTTAACTTATTTAATACTCACATTCATTAAAACTGCCCTCGA
7454324 CTCTAACTTTGGCAAAATTACAATTTTGCCCCTAGACTTTTACATAATTACACTTTTTCCCCAAA
131 CTCTAACTTTGGCAAAATTACAATTTTGCCCCTAGACTTTTACATAATTACACTTTTTCCCCAAA
7454389 GCTCAGAAATTAAACTTCATGTCTTATTCTTATGTTTTACAACATGCTGAACATTTTTATCTTCT
196 GCTCAGAAATTAAACTTCATGTCTTATTCTTATGTTTTACAACATGCTGAACATTTTTATCTTCT
7454454 ATGACAACATCAAATTCTCACTCTAACATCTACTTATGAACATTAGGTATTTTACCGATTATGGA
261 ATGACAACATCAAATTCTCACTCTAACATCTACTTATGAACATTAGGTATTTTACCGATTATGGA
7454519 GTTTTACTAGTTTTCGCTTAAAATCGACTACCAAAAGTTGTTTAACATAATTTCTAGCCTCATAT
326 GTTTTACTAGTTTTCGCTTAAAATCGACTACCAAAAGTTGTTTAACATAATTTCTAGCCTCATAT
7454584 TATACCTTAAAACATCAAAATAAACACTTTTCACCTGTGGGTATTTTTCCAAATATAAACCCGAG
391 TATACCTTAAAACATCAAAATAAACACTTTTCACCTGTGGGTATTTTTCCAAATATAAACCCGAG
7454649 GTTAAATTATTACTAGAATAAGCTAAATTAAGCTACTGCGATCTCAAAAATGTAAAGAACATTAA
456 GTTAAATTATTACTAGAATAAGCTAAATTAAGCTACTGCGATCTCAAAAATGTAAAGAACATTAA
7454714 AAAGGGGGCTTGGAATCACCTACTATGAGCTTGAGAAAGTGTGAAAACCCTAGCTATGGTGTCCT
521 AAAGGGGGCTTGGAATCACCTACTATGAGCTTGAGAAAGTGTGAAAACCCTAGCTATGGTGTCCT
7454779 TCAAATTTTGGCAACAAGCTTTTTTGAGAAGATGATATTTTTGCCATATTTTTCCCTTTTTATTC
586 TCAAATTTTGGCAACAAGCTTTTTTGAGAAGATGATATTTTTGCCATATTTTTCCCTTTTTATTC
7454844 TTTTTATTATTCAATGACTAAAATACCCTTCATTAAAACTTTAATTATTTTTATCTTTGCATGCC
651 TTTTTATTATTCAATGACTAAAATACCCTTCATTAAAACTTTAATTATTTTTATCTTTGCATGCC
7454909 TATTTTTGTCG
716 TATTTTTGTCG
7454920 AT
1 AT
7454922 GGAAATTTTA
Statistics
Matches: 728, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
726 728 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (726 bp):
ATATAGCCAAATCTATCACTTAGTCTTCAATCTTATTCTTTCCTCGATCTAACCTTGAATTCCTT
TCTTCTTGATCTATAATAGAAAATTTAACTTATTTAATACTCACATTCATTAAAACTGCCCTCGA
CTCTAACTTTGGCAAAATTACAATTTTGCCCCTAGACTTTTACATAATTACACTTTTTCCCCAAA
GCTCAGAAATTAAACTTCATGTCTTATTCTTATGTTTTACAACATGCTGAACATTTTTATCTTCT
ATGACAACATCAAATTCTCACTCTAACATCTACTTATGAACATTAGGTATTTTACCGATTATGGA
GTTTTACTAGTTTTCGCTTAAAATCGACTACCAAAAGTTGTTTAACATAATTTCTAGCCTCATAT
TATACCTTAAAACATCAAAATAAACACTTTTCACCTGTGGGTATTTTTCCAAATATAAACCCGAG
GTTAAATTATTACTAGAATAAGCTAAATTAAGCTACTGCGATCTCAAAAATGTAAAGAACATTAA
AAAGGGGGCTTGGAATCACCTACTATGAGCTTGAGAAAGTGTGAAAACCCTAGCTATGGTGTCCT
TCAAATTTTGGCAACAAGCTTTTTTGAGAAGATGATATTTTTGCCATATTTTTCCCTTTTTATTC
TTTTTATTATTCAATGACTAAAATACCCTTCATTAAAACTTTAATTATTTTTATCTTTGCATGCC
TATTTTTGTCG
Found at i:7456429 original size:19 final size:20
Alignment explanation
Indices: 7456407--7456456 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
7456397 AAAGCAAAAA
7456407 CCAAAAACCAAAACACAG-C
1 CCAAAAACCAAAACACAGTC
* *
7456426 CCAAAAA-CAAAATACAGTT
1 CCAAAAACCAAAACACAGTC
7456445 CCAAAAATCCAA
1 CCAAAAA-CCAA
7456457 GAATAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 9 0.35
19 14 0.54
21 3 0.12
ACGTcount: A:0.58, C:0.30, G:0.04, T:0.08
Consensus pattern (20 bp):
CCAAAAACCAAAACACAGTC
Found at i:7456762 original size:5 final size:5
Alignment explanation
Indices: 7456718--7456791 Score: 87
Period size: 5 Copynumber: 14.8 Consensus size: 5
7456708 TATATTAGAA
* * * * *
7456718 CATAT CTTAT CATAC CAGAG CATGT CATAT CGAT-T CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT C-ATAT CATAT CATAT CATAT
7456768 CATAT CATAT CATAT CATAT CATA
1 CATAT CATAT CATAT CATAT CATA
7456792 CAAAGTCCTA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
4 2 0.03
5 54 0.93
6 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.36
Consensus pattern (5 bp):
CATAT
Found at i:7459358 original size:254 final size:254
Alignment explanation
Indices: 7458909--7459419 Score: 1013
Period size: 254 Copynumber: 2.0 Consensus size: 254
7458899 TTGGAAGCTC
7458909 GTTGGAGACCTATCACACTATCCAGCAACCATTTTAATAGTTTTTAAGTAACTTGGCCAAGCTTA
1 GTTGGAGACCTATCACACTATCCAGCAACCATTTTAATAGTTTTTAAGTAACTTGGCCAAGCTTA
7458974 TATATGTCATGTATATGATTTTTGTAATGGTATTTCTTGGATGTGTAATAGATGTTTTGGTATGT
66 TATATGTCATGTATATGATTTTTGTAATGGTATTTCTTGGATGTGTAATAGATGTTTTGGTATGT
7459039 TTATGCTTTTGAAGTTATGTTCGGTTTGATGAACTTTAATGCCTTACCAGGTTGTGTAATTTTGG
131 TTATGCTTTTGAAGTTATGTTCGGTTTGATGAACTTTAATGCCTTACCAGGTTGTGTAATTTTGG
*
7459104 TCACTTTTAAGTTCTTGTATATAAGACTCTTTTGGTATGTTTGTGATGGTTTGGAAATG
196 TCACTTTTAAGTTCTTGTATATAAGACTCTTTTGGTATGTTTGTGATGGCTTGGAAATG
7459163 GTTGGAGACCTATCACACTATCCAGCAACCATTTTAATAGTTTTTAAGTAACTTGGCCAAGCTTA
1 GTTGGAGACCTATCACACTATCCAGCAACCATTTTAATAGTTTTTAAGTAACTTGGCCAAGCTTA
7459228 TATATGTCATGTATATGATTTTTGTAATGGTATTTCTTGGATGTGTAATAGATGTTTTGGTATGT
66 TATATGTCATGTATATGATTTTTGTAATGGTATTTCTTGGATGTGTAATAGATGTTTTGGTATGT
7459293 TTATGCTTTTGAAGTTATGTTCGGTTTGATGAACTTTAATGCCTTACCAGGTTGTGTAATTTTGG
131 TTATGCTTTTGAAGTTATGTTCGGTTTGATGAACTTTAATGCCTTACCAGGTTGTGTAATTTTGG
7459358 TCACTTTTAAGTTCTTGTATATAAGACTCTTTTGGTATGTTTGTGATGGCTTGGAAATG
196 TCACTTTTAAGTTCTTGTATATAAGACTCTTTTGGTATGTTTGTGATGGCTTGGAAATG
7459417 GTT
1 GTT
7459420 ATTTGTGATA
Statistics
Matches: 256, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
254 256 1.00
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.44
Consensus pattern (254 bp):
GTTGGAGACCTATCACACTATCCAGCAACCATTTTAATAGTTTTTAAGTAACTTGGCCAAGCTTA
TATATGTCATGTATATGATTTTTGTAATGGTATTTCTTGGATGTGTAATAGATGTTTTGGTATGT
TTATGCTTTTGAAGTTATGTTCGGTTTGATGAACTTTAATGCCTTACCAGGTTGTGTAATTTTGG
TCACTTTTAAGTTCTTGTATATAAGACTCTTTTGGTATGTTTGTGATGGCTTGGAAATG
Found at i:7468416 original size:21 final size:21
Alignment explanation
Indices: 7468362--7468419 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
7468352 TGGAAAATAA
* *
7468362 TAAAATAAATAAATAATATAT
1 TAAATTAAAAAAATAATATAT
*
7468383 TAAATTAAAAAAATAA-ATCT
1 TAAATTAAAAAAATAATATAT
*
7468403 TAATTTAAAGAAAATAA
1 TAAATTAAA-AAAATAA
7468420 GCGTAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAATTAAAAAAATAATATAT
Found at i:7470039 original size:165 final size:165
Alignment explanation
Indices: 7469767--7470097 Score: 662
Period size: 165 Copynumber: 2.0 Consensus size: 165
7469757 ATTTCAATTT
7469767 AGAGAATATAAAACATATTAATTACATGCTTTACTAGATACTAGAACTACGACTAGTAGTTGCAG
1 AGAGAATATAAAACATATTAATTACATGCTTTACTAGATACTAGAACTACGACTAGTAGTTGCAG
7469832 AAAAAATGTTATTCCTTTAGAAAAGTGAGAACCTATGAAGCATCTAATAAGAGCTATAGGAATAG
66 AAAAAATGTTATTCCTTTAGAAAAGTGAGAACCTATGAAGCATCTAATAAGAGCTATAGGAATAG
7469897 ATGGTAATAAAACCATTATTCAATATAAAGCTAGA
131 ATGGTAATAAAACCATTATTCAATATAAAGCTAGA
7469932 AGAGAATATAAAACATATTAATTACATGCTTTACTAGATACTAGAACTACGACTAGTAGTTGCAG
1 AGAGAATATAAAACATATTAATTACATGCTTTACTAGATACTAGAACTACGACTAGTAGTTGCAG
7469997 AAAAAATGTTATTCCTTTAGAAAAGTGAGAACCTATGAAGCATCTAATAAGAGCTATAGGAATAG
66 AAAAAATGTTATTCCTTTAGAAAAGTGAGAACCTATGAAGCATCTAATAAGAGCTATAGGAATAG
7470062 ATGGTAATAAAACCATTATTCAATATAAAGCTAGA
131 ATGGTAATAAAACCATTATTCAATATAAAGCTAGA
7470097 A
1 A
7470098 ACGTACCAAT
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
165 166 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (165 bp):
AGAGAATATAAAACATATTAATTACATGCTTTACTAGATACTAGAACTACGACTAGTAGTTGCAG
AAAAAATGTTATTCCTTTAGAAAAGTGAGAACCTATGAAGCATCTAATAAGAGCTATAGGAATAG
ATGGTAATAAAACCATTATTCAATATAAAGCTAGA
Found at i:7475780 original size:24 final size:22
Alignment explanation
Indices: 7475744--7475792 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
7475734 ACAACTGGAC
7475744 AAAAGATGCCATCCTTATTCAAAG
1 AAAAGATGCCATCCTTA-TC-AAG
* * *
7475768 AAAATATGTCATCTTTATCAAG
1 AAAAGATGCCATCCTTATCAAG
7475790 AAA
1 AAA
7475793 CTGTGCGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 6 0.27
23 2 0.09
24 14 0.64
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (22 bp):
AAAAGATGCCATCCTTATCAAG
Found at i:7482347 original size:75 final size:75
Alignment explanation
Indices: 7482261--7482425 Score: 298
Period size: 75 Copynumber: 2.2 Consensus size: 75
7482251 AGCCACCATT
7482261 GAATTGACCCCACAAAAAAATGTAAAAAAAAATATTACTTATAGATTTTTTTAAAAAAAATTATA
1 GAATTGACCCCACAAAAAAATGTAAAAAAAAATATTACTTATAGATTTTTTTAAAAAAAATTATA
7482326 TAATTGGTGC
66 TAATTGGTGC
*
7482336 GAATTGACCCCACAAAAAAATGTAAAAAAAAATATTACTTATAGATTTTTTTTAAAAAAATTATA
1 GAATTGACCCCACAAAAAAATGTAAAAAAAAATATTACTTATAGATTTTTTTAAAAAAAATTATA
7482401 TAATTGGTGC
66 TAATTGGTGC
*
7482411 --ATTGACCCCATAAAA
1 GAATTGACCCCACAAAA
7482426 TATTTGAAAA
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
73 14 0.16
75 74 0.84
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (75 bp):
GAATTGACCCCACAAAAAAATGTAAAAAAAAATATTACTTATAGATTTTTTTAAAAAAAATTATA
TAATTGGTGC
Found at i:7482509 original size:17 final size:18
Alignment explanation
Indices: 7482483--7482533 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
7482473 AATCCGCAAA
*
7482483 ATTTTTTAAAAAT-AATT
1 ATTTTATAAAAATAAATT
7482500 ATTTTAT-AAAATAAATT
1 ATTTTATAAAAATAAATT
7482517 ATTTTATATAAAA-AAAT
1 ATTTTATA-AAAATAAAT
7482534 AAATTTCTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.17
17 17 0.57
18 4 0.13
19 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTATAAAAATAAATT
Found at i:7482510 original size:16 final size:17
Alignment explanation
Indices: 7482481--7482524 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
7482471 AAAATCCGCA
7482481 AAATT-TTTTA-AAAAT
1 AAATTATTTTATAAAAT
7482496 -AATTATTTTATAAAAT
1 AAATTATTTTATAAAAT
7482512 AAATTATTTTATA
1 AAATTATTTTATA
7482525 TAAAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.15
15 5 0.19
16 5 0.19
17 12 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTATTTTATAAAAT
Found at i:7482809 original size:29 final size:27
Alignment explanation
Indices: 7482744--7482847 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 27
7482734 AAAATAAAAG
7482744 TTTACCAAAATATTATAACTTTTTTTTA
1 TTTACCAAAATATTA-AACTTTTTTTTA
7482772 TTTACCAAAATATTACAACTTTTTATTTA
1 TTTACCAAAATATTA-AACTTTTT-TTTA
*
7482801 TTTATCAAAATATATAAACTTTTTTATTA
1 TTTACCAAAATAT-TAAACTTTTTT-TTA
7482830 TTTACCAAAATATATAAA
1 TTTACCAAAATAT-TAAA
7482848 AAAAACAAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
28 24 0.34
29 44 0.63
30 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTACCAAAATATTAAACTTTTTTTTA
Found at i:7482943 original size:27 final size:27
Alignment explanation
Indices: 7482913--7483006 Score: 143
Period size: 27 Copynumber: 3.5 Consensus size: 27
7482903 CGCCAATGGT
* * *
7482913 ATTGGCGGCACCAAAGGTGCCAAAATC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
7482940 ATTGGTGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
7482967 ATTGGCGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAATGGTGCCAATACC
7482994 ATTGGCGGCACCA
1 ATTGGCGGCACCA
7483007 CTCGTATTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATACC
Found at i:7483068 original size:24 final size:25
Alignment explanation
Indices: 7483036--7483084 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
7483026 CTCTACCCAG
7483036 CTGAAGAGAGAAAAAT-AAAAAAAA
1 CTGAAGAGAGAAAAATCAAAAAAAA
*
7483060 CTGAAGAGAGAAAATTCAAAAAAAA
1 CTGAAGAGAGAAAAATCAAAAAAAA
7483085 AAAGAAGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.67, C:0.06, G:0.16, T:0.10
Consensus pattern (25 bp):
CTGAAGAGAGAAAAATCAAAAAAAA
Found at i:7483091 original size:26 final size:24
Alignment explanation
Indices: 7483038--7483093 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
7483028 CTACCCAGCT
**
7483038 GAAGAGAGAAAAATAAAAAAAACT
1 GAAGAGAGAAAAATAAAAAAAAAA
*
7483062 GAAGAGAGAAAATTCAAAAAAAAAAA
1 GAAGAGAGAAAAAT--AAAAAAAAAA
7483088 GAAGAG
1 GAAGAG
7483094 TTGGCGCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 13 0.48
26 14 0.52
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (24 bp):
GAAGAGAGAAAAATAAAAAAAAAA
Found at i:7483183 original size:19 final size:21
Alignment explanation
Indices: 7483145--7483183 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
7483135 AATAATTGAT
*
7483145 TATATTATTGTTATTATTTTG
1 TATATTATTGTTAATATTTTG
7483166 TATATT-TTG-TAATATTTT
1 TATATTATTGTTAATATTTT
7483184 TTGTTGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (21 bp):
TATATTATTGTTAATATTTTG
Found at i:7483265 original size:3 final size:3
Alignment explanation
Indices: 7483259--7483296 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
7483249 ATTATTATTA
7483259 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
7483297 AGTATTAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:7485495 original size:13 final size:13
Alignment explanation
Indices: 7485477--7485506 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
7485467 GGTACCATTC
7485477 TGACTACAAATAA
1 TGACTACAAATAA
7485490 TGACTACAAATAA
1 TGACTACAAATAA
7485503 TGAC
1 TGAC
7485507 AATTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.23
Consensus pattern (13 bp):
TGACTACAAATAA
Found at i:7487665 original size:19 final size:19
Alignment explanation
Indices: 7487630--7487667 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7487620 TTTAAACACA
7487630 CAAATATTACAAAAAAATT
1 CAAATATTACAAAAAAATT
*
7487649 CAAAT-TTATAAATAAAATT
1 CAAATATTACAAA-AAAATT
7487668 ACCTTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
CAAATATTACAAAAAAATT
Found at i:7487727 original size:37 final size:37
Alignment explanation
Indices: 7487686--7487805 Score: 111
Period size: 35 Copynumber: 3.1 Consensus size: 37
7487676 TCCCTTTTTT
*
7487686 TCCTTTCTTCCCTCTTCTTTTTCTTTTTTTTCTCTTC
1 TCCTTTCTTCCTTCTTCTTTTTCTTTTTTTTCTCTTC
*
7487723 TCCTTTCCCTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTC
1 TCCTTT--C-TTCCTT-CTTC-TT-TTTCTTTTTT-TTCTCTTC
* *
7487767 TCCTTTTCTT-CTTCTT-TCTTTC-CTTTTTTCTCTTC
1 TCC-TTTCTTCCTTCTTCTTTTTCTTTTTTTTCTCTTC
7487802 TCCT
1 TCCT
7487806 CTCCTTTCTT
Statistics
Matches: 70, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
34 1 0.01
35 11 0.16
36 4 0.06
37 10 0.14
38 1 0.01
39 1 0.01
40 7 0.10
41 6 0.09
42 4 0.06
43 11 0.16
44 11 0.16
45 3 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (37 bp):
TCCTTTCTTCCTTCTTCTTTTTCTTTTTTTTCTCTTC
Found at i:7487728 original size:23 final size:23
Alignment explanation
Indices: 7487702--7487794 Score: 74
Period size: 21 Copynumber: 4.3 Consensus size: 23
7487692 CTTCCCTCTT
7487702 CTTTTTCTTTTTTTTCTCTTCTC
1 CTTTTTCTTTTTTTTCTCTTCTC
* * *
7487725 C-TTTCCCTTTCTTTC-CTTCT-
1 CTTTTTCTTTTTTTTCTCTTCTC
7487745 -TTCTTTCTTTTTTCTTCTCTTCTC
1 CTT-TTTCTTTTTT-TTCTCTTCTC
* *
7487769 C-TTTTCTTCTTCTT-TCTT-TC
1 CTTTTTCTTTTTTTTCTCTTCTC
7487789 CTTTTT
1 CTTTTT
7487795 TCTCTTCTCC
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
20 4 0.07
21 20 0.36
22 16 0.29
23 14 0.25
24 1 0.02
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
CTTTTTCTTTTTTTTCTCTTCTC
Found at i:7487736 original size:43 final size:44
Alignment explanation
Indices: 7487687--7487862 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 44
7487677 CCCTTTTTTT
*
7487687 CCTTTC-TTCCCTCTTCTTTTTCTTTTTT-TTCTCTTCTCCTTTC
1 CCTTTCTTTCCCTCTT-TCTTTCTTTTTTCTTCTCTTCTCCTTTC
*
7487730 CCTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTT-
1 CCTTTCTTTCCCTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTC
* ** * * *
7487773 TC-TTC-TTCTTTCTTTCCTT-TTTTCTCTTCTCCTCTCCTTT-
1 CCTTTCTTTCCCTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTC
* *
7487813 -CTTTCTTT-CCTC-TCCTTTCTTTCTTTCTT-TCCTCTCCTTT-
1 CCTTTCTTTCCCTCTTTCTTTCTTT-TTTCTTCTCTTCTCCTTTC
7487853 -CTTTCTTTCC
1 CCTTTCTTTCC
7487863 TTTTTTTCTC
Statistics
Matches: 114, Mismatches: 12, Indels: 16
0.80 0.08 0.11
Matches are distributed among these distances:
39 5 0.04
40 46 0.40
41 20 0.18
42 3 0.03
43 18 0.16
44 22 0.19
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (44 bp):
CCTTTCTTTCCCTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTC
Found at i:7487750 original size:22 final size:20
Alignment explanation
Indices: 7487731--7487864 Score: 104
Period size: 18 Copynumber: 6.6 Consensus size: 20
7487721 TCTCCTTTCC
7487731 CTTTCTTTCCTTCTTTCTTT
1 CTTTCTTTCCTTCTTTCTTT
*
7487751 CTTT-TTT-CTTCTCTTC-TC
1 CTTTCTTTCCTTCT-TTCTTT
7487769 CTTT-TCTT-CTTCTTTCTTT
1 CTTTCT-TTCCTTCTTTCTTT
7487788 CCTTT-TTTCTCTTCTCCTCTCCTTT
1 -CTTTCTTTC-CTTCT--T-T-CTTT
7487813 CTTTCTTTCCTCTCCTTTCTTT
1 CTTTCTTTCCT-T-CTTTCTTT
*
7487835 CTTTCTTTCC-TC-TCCTTT
1 CTTTCTTTCCTTCTTTCTTT
7487853 CTTTCTTTCCTT
1 CTTTCTTTCCTT
7487865 TTTTTCTCTT
Statistics
Matches: 97, Mismatches: 3, Indels: 29
0.75 0.02 0.22
Matches are distributed among these distances:
18 29 0.30
19 18 0.19
20 10 0.10
21 5 0.05
22 14 0.14
23 2 0.02
24 8 0.08
25 9 0.09
26 2 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
CTTTCTTTCCTTCTTTCTTT
Found at i:7487756 original size:40 final size:39
Alignment explanation
Indices: 7487705--7487864 Score: 152
Period size: 39 Copynumber: 4.0 Consensus size: 39
7487695 CCCTCTTCTT
7487705 TTTCTTT-TTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTC
1 TTTCTTTCTTTTT-TCTTCTCCTTTCCCTTTCTTTCCTTC
*
7487744 TTTCTTTCTTTTTTCTTCT-CTTCTCCTTTTC-TT-CTTC
1 TTTCTTTCTTTTTTCTTCTCCTT-TCCCTTTCTTTCCTTC
*
7487781 TTTCTTTCCTTTTTTCTCTTCTCCTCTCCTTTCTTTCTTTCCTCTCC
1 TTTCTTT-C-TTTTT-TCTTCTCCTTTCC---CTTTCTTTCCT-T-C
*
7487828 TTTCTTTCTTTCTTTCCTCTCCTTT--CTTTCTTTCCTT
1 TTTCTTTCTTT-TTTCTTCTCCTTTCCCTTTCTTTCCTT
7487865 TTTTTCTCTT
Statistics
Matches: 102, Mismatches: 5, Indels: 28
0.76 0.04 0.21
Matches are distributed among these distances:
37 11 0.11
38 6 0.06
39 26 0.25
40 25 0.25
41 2 0.02
43 4 0.04
44 2 0.02
45 14 0.14
46 4 0.04
47 8 0.08
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (39 bp):
TTTCTTTCTTTTTTCTTCTCCTTTCCCTTTCTTTCCTTC
Found at i:7487870 original size:9 final size:9
Alignment explanation
Indices: 7487669--7487870 Score: 94
Period size: 9 Copynumber: 21.1 Consensus size: 9
7487659 AATAAAATTA
7487669 CCTTT-TTT
1 CCTTTCTTT
*
7487677 CCCTTTTTTT
1 -CCTTTCTTT
*
7487687 CCTTTCTTC
1 CCTTTCTTT
7487696 CCTCTTCTTTTT
1 CCT-TTC--TTT
* *
7487708 CTTTTTTTT
1 CCTTTCTTT
7487717 CTCTTCTCCTTT
1 C-CTT-T-CTTT
7487729 CCCTTTCTTT
1 -CCTTTCTTT
7487739 CC-TTCTTT
1 CCTTTCTTT
7487747 -CTTTCTTTTT
1 CCTTTC--TTT
*
7487757 TCTTCTCTTCT
1 CCTT-TCTT-T
7487768 CCTTTTCTTCT
1 CC-TTTCTT-T
*
7487779 TCTTTCTTT
1 CCTTTCTTT
7487788 CCTTT-TTT
1 CCTTTCTTT
*
7487796 CTCTTCTCCTCT
1 C-CTT-T-CTTT
7487808 CCTTTCTTT
1 CCTTTCTTT
*
7487817 -CTTTCCTCT
1 CCTTT-CTTT
7487826 CCTTTCTTT
1 CCTTTCTTT
7487835 -CTTTCTTT
1 CCTTTCTTT
*
7487843 CCTCTCCTTT
1 CCT-TTCTTT
7487853 -CTTTCTTT
1 CCTTTCTTT
*
7487861 CCTTTTTTT
1 CCTTTCTTT
7487870 C
1 C
7487871 TCTTCTGCCC
Statistics
Matches: 152, Mismatches: 17, Indels: 48
0.70 0.08 0.22
Matches are distributed among these distances:
7 1 0.01
8 30 0.20
9 50 0.33
10 34 0.22
11 19 0.12
12 17 0.11
13 1 0.01
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (9 bp):
CCTTTCTTT
Found at i:7487876 original size:22 final size:22
Alignment explanation
Indices: 7487700--7487866 Score: 89
Period size: 22 Copynumber: 7.3 Consensus size: 22
7487690 TTCTTCCCTC
7487700 TTCTTTT-TCTT-TTT-TTTCT
1 TTCTTTTCTCTTCTTTCTTTCT
* *
7487719 CTTCTCCTTTCCCTTTCTTTCCTTCT
1 -TTCT--TTTCTC-TTCTTTCTTTCT
7487745 TTC-TTTCT-TT-TTTCTTCTCT
1 TTCTTTTCTCTTCTTTCTT-TCT
*
7487765 TCTCCTTT-TCTTC-TTCTTTCT
1 T-TCTTTTCTCTTCTTTCTTTCT
7487786 TTCCTTTTTTCTCTTCTCCTCTCCTTTCT
1 TT-C--TTTTCTCTTCT--T-T-CTTTCT
* *
7487815 TTCTTTCCTCTCCTTTCTTTCT
1 TTCTTTTCTCTTCTTTCTTTCT
* *
7487837 TTCTTTCCTCTCCTTTCTTTCT
1 TTCTTTTCTCTTCTTTCTTTCT
7487859 TTCCTTTT
1 TT-CTTTT
7487867 TTTCTCTTCT
Statistics
Matches: 118, Mismatches: 8, Indels: 39
0.72 0.05 0.24
Matches are distributed among these distances:
19 5 0.04
20 11 0.09
21 8 0.07
22 47 0.40
23 9 0.08
24 8 0.07
25 6 0.05
26 13 0.11
27 1 0.01
28 2 0.02
29 8 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (22 bp):
TTCTTTTCTCTTCTTTCTTTCT
Found at i:7488086 original size:28 final size:29
Alignment explanation
Indices: 7488021--7488096 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
7488011 TTTGTGTTTT
7488021 TTTATATATTTTGGTAAATAATAAAAAAG
1 TTTATATATTTTGGTAAATAATAAAAAAG
7488050 TTTATATATTTTGGTAAATAA-AAAAAA-
1 TTTATATATTTTGGTAAATAATAAAAAAG
*
7488077 TTTGTAATATTTTGGTAAAT
1 TTTAT-ATATTTTGGTAAAT
7488097 TTTTATTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
27 4 0.09
28 20 0.44
29 21 0.47
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (29 bp):
TTTATATATTTTGGTAAATAATAAAAAAG
Found at i:7491632 original size:60 final size:60
Alignment explanation
Indices: 7491559--7491706 Score: 196
Period size: 49 Copynumber: 2.7 Consensus size: 60
7491549 GTGTGTATAC
*
7491559 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGAATGGCCGATGTGATGAAT
7491619 GTGAAAGTGTATATATATGCGAT---G----A-GGCC--T-AATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGAATGGCCGATGTGATGAAT
7491668 GTGAAAGTGTAT--ATATGCGATAAGGCCTAATGGCCGATG
1 GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATG
7491707 TGATGAATGT
Statistics
Matches: 76, Mismatches: 1, Indels: 24
0.75 0.01 0.24
Matches are distributed among these distances:
47 9 0.12
49 31 0.41
50 2 0.03
52 4 0.05
53 1 0.01
54 1 0.01
55 4 0.05
57 2 0.03
60 22 0.29
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (60 bp):
GTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGAATGGCCGATGTGATGAAT
Found at i:7491699 original size:47 final size:47
Alignment explanation
Indices: 7491600--7491785 Score: 255
Period size: 47 Copynumber: 3.9 Consensus size: 47
7491590 ATGGCCGATG
*
7491600 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGCGATGAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTG--TATATATGCGATAAGGCCT
7491649 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCT
* * * *
7491696 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCG
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCT
* * * * * *
7491743 AGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAG
7491786 TCCCGAAGGG
Statistics
Matches: 125, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 97 0.78
49 28 0.22
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
AATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGCCT
Found at i:7491960 original size:37 final size:37
Alignment explanation
Indices: 7491904--7491982 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
7491894 CCGAGCTCTA
* * *
7491904 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
7491941 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
7491978 AAGAC
1 AAGAC
7491983 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:7495025 original size:19 final size:20
Alignment explanation
Indices: 7495000--7495046 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7494990 AGAGAATTAG
*
7495000 AAATAAATTAAAATCAAAT-
1 AAATAAATTAAAATAAAATA
*
7495019 GAATAAA-TAAAATAAAATA
1 AAATAAATTAAAATAAAATA
7495038 AAATAAATT
1 AAATAAATT
7495047 TGTATCTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 10 0.43
19 12 0.52
20 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAATAAATTAAAATAAAATA
Done.