Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 60 of 117
Found at i:13280699 original size:32 final size:32
Alignment explanation
Indices: 13280592--13280700 Score: 107
Period size: 32 Copynumber: 3.5 Consensus size: 32
13280582 TTTAATTCGA
** * *
13280592 TCACCTTTATTTTCCATTTTAGCTTAGTTCAG
1 TCACCTTTATTTTTTATTTTAGCTCAGTTCTG
* * * *
13280624 TCACC-TTA-TTTTGATCTTAGTTCA-ATCTGG
1 TCACCTTTATTTTTTATTTTAGCTCAGTTCT-G
*
13280654 TCACCTTCATTTTTTATTTTAGCTCAGTTCTG
1 TCACCTTTATTTTTTATTTTAGCTCAGTTCTG
13280686 TCACCTTTATTTTTT
1 TCACCTTTATTTTTT
13280701 GCCTTGGCCT
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
29 2 0.03
30 17 0.28
31 5 0.08
32 33 0.55
33 3 0.05
ACGTcount: A:0.17, C:0.21, G:0.09, T:0.52
Consensus pattern (32 bp):
TCACCTTTATTTTTTATTTTAGCTCAGTTCTG
Found at i:13280884 original size:32 final size:32
Alignment explanation
Indices: 13280848--13280931 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
13280838 TAATCCATTA
* *
13280848 ACCTTCATCTTCAACTTTTG-CTCAATTTAGTT
1 ACCTTTATCTTCAAC-CTTGACTCAATTTAGTT
** * *
13280880 ACCTTTATCTTTGACCTTGACTTAGTTTAGTT
1 ACCTTTATCTTCAACCTTGACTCAATTTAGTT
13280912 ACCTTTATCTTCAACCTTGA
1 ACCTTTATCTTCAACCTTGA
13280932 TTTAATCTAG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 3 0.07
32 40 0.93
ACGTcount: A:0.21, C:0.24, G:0.08, T:0.46
Consensus pattern (32 bp):
ACCTTTATCTTCAACCTTGACTCAATTTAGTT
Found at i:13280948 original size:32 final size:32
Alignment explanation
Indices: 13280848--13280948 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 32
13280838 TAATCCATTA
* * * *
13280848 ACCTTCATCTTCAACTTTTG-CTCAATTTAGTT
1 ACCTTTATCTTCAAC-CTTGACTTAATCTAGTT
** * *
13280880 ACCTTTATCTTTGACCTTGACTTAGTTTAGTT
1 ACCTTTATCTTCAACCTTGACTTAATCTAGTT
* *
13280912 ACCTTTATCTTCAACCTTGATTTAATCTAGTC
1 ACCTTTATCTTCAACCTTGACTTAATCTAGTT
13280944 ACCTT
1 ACCTT
13280949 CACTTTTGAC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 3 0.05
32 53 0.95
ACGTcount: A:0.22, C:0.24, G:0.08, T:0.47
Consensus pattern (32 bp):
ACCTTTATCTTCAACCTTGACTTAATCTAGTT
Found at i:13281021 original size:33 final size:33
Alignment explanation
Indices: 13280977--13281041 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
13280967 TATCTATTCA
* *
13280977 TATTACGTTTTTAGACTTTGATTAAATCCAAGT
1 TATTACATTTTTAGACTTCGATTAAATCCAAGT
* *
13281010 TATTACATTTTTAGACTTCGCTTCAATCCAAG
1 TATTACATTTTTAGACTTCGATTAAATCCAAG
13281042 CCATTTCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (33 bp):
TATTACATTTTTAGACTTCGATTAAATCCAAGT
Found at i:13281417 original size:14 final size:14
Alignment explanation
Indices: 13281393--13281519 Score: 71
Period size: 14 Copynumber: 8.6 Consensus size: 14
13281383 TTACTTTTTA
13281393 ATTTATTTTATCTTT
1 ATTT-TTTTATCTTT
13281408 ATTTTTTTATACTTTT
1 ATTTTTTTAT-C-TTT
*
13281424 ATTTGTCTTTTTTCTTTT
1 A-TT-T-TTTTATC-TTT
13281442 ATTTCTTTTAT-TTT
1 ATTT-TTTTATCTTT
13281456 AATTTTTTTATCTTT
1 -ATTTTTTTATCTTT
* * *
13281471 A-CTATTTCTCTTT
1 ATTTTTTTATCTTT
**
13281484 ATTGATTTATCTTT
1 ATTTTTTTATCTTT
* *
13281498 AGTTTTTGA-CTTAT
1 ATTTTTTTATCTT-T
13281512 ATTTTTTT
1 ATTTTTTT
13281520 TAATAAAAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
13 13 0.15
14 37 0.42
15 12 0.13
16 11 0.12
17 4 0.04
18 7 0.08
19 5 0.06
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.72
Consensus pattern (14 bp):
ATTTTTTTATCTTT
Found at i:13281421 original size:33 final size:30
Alignment explanation
Indices: 13281398--13281471 Score: 78
Period size: 34 Copynumber: 2.4 Consensus size: 30
13281388 TTTTAATTTA
* *
13281398 TTTTATCTTTATTTTTTTATACTTTTATTTGT
1 TTTTATCTTTATTTCTTT-TACTTTTAATT-T
*
13281430 CTTTTTTCTTTTATTTCTTTTA-TTTTAATTT
1 -TTTTATC-TTTATTTCTTTTACTTTTAATTT
13281461 TTTTATCTTTA
1 TTTTATCTTTA
13281472 CTATTTCTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 4 0.11
30 6 0.17
31 1 0.03
32 7 0.19
33 8 0.22
34 10 0.28
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.76
Consensus pattern (30 bp):
TTTTATCTTTATTTCTTTTACTTTTAATTT
Found at i:13281424 original size:27 final size:28
Alignment explanation
Indices: 13281394--13281470 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 28
13281384 TACTTTTTAA
13281394 TTTATTTTATCTTTATTT-TTTTA-TACT
1 TTTATTTTATCTTT-TTTCTTTTATTACT
* *
13281421 TTTA-TTTGTCTTTTTTCTTTTATTTCT
1 TTTATTTTATCTTTTTTCTTTTATTACT
*
13281448 TTTATTTTAATTTTTTTATCTTT
1 TTTATTTT-ATCTTTTT-TCTTT
13281471 ACTATTTCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 3 0.07
26 13 0.32
27 11 0.27
28 3 0.07
29 6 0.15
30 5 0.12
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.77
Consensus pattern (28 bp):
TTTATTTTATCTTTTTTCTTTTATTACT
Found at i:13281441 original size:26 final size:27
Alignment explanation
Indices: 13281394--13281454 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
13281384 TACTTTTTAA
13281394 TTTATTTTATCTTTATTTTTTTA-TACT
1 TTTA-TTTATCTTTATTTTTTTATTACT
* *
13281421 TTTATTTGTCTTT-TTTCTTTTATTTCT
1 TTTATTTATCTTTATTT-TTTTATTACT
13281448 TTTATTT
1 TTTATTT
13281455 TAATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 3 0.10
26 13 0.43
27 14 0.47
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (27 bp):
TTTATTTATCTTTATTTTTTTATTACT
Found at i:13281448 original size:9 final size:9
Alignment explanation
Indices: 13281405--13281454 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
13281395 TTATTTTATC
13281405 TTTATTT-T
1 TTTATTTCT
*
13281413 TTTA-TACT
1 TTTATTTCT
*
13281421 TTTATTTGT
1 TTTATTTCT
13281430 CTTT-TTTCT
1 -TTTATTTCT
13281439 TTTATTTCT
1 TTTATTTCT
13281448 TTTATTT
1 TTTATTT
13281455 TAATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
7 1 0.03
8 12 0.35
9 18 0.53
10 3 0.09
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTATTTCT
Found at i:13281461 original size:49 final size:52
Alignment explanation
Indices: 13281370--13281470 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 52
13281360 TTTTAAGTTG
13281370 TATTTATCTTTGTTTACTTTTTAATTTATTTTATCTTTATTTTTTTATACTTT
1 TATTTATCTTTGTTTACTTTTTAATTTATTTTATCTTTATTTTTTTAT-CTTT
* *
13281423 TATTTGTCTTT-TTT-C-TTTT-ATTTCTTTTAT-TTTAATTTTTTTATCTTT
1 TATTTATCTTTGTTTACTTTTTAATTTATTTTATCTTT-ATTTTTTTATCTTT
13281471 ACTATTTCTC
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
48 7 0.16
49 20 0.44
50 4 0.09
51 1 0.02
52 3 0.07
53 10 0.22
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (52 bp):
TATTTATCTTTGTTTACTTTTTAATTTATTTTATCTTTATTTTTTTATCTTT
Found at i:13282342 original size:64 final size:63
Alignment explanation
Indices: 13282202--13282374 Score: 176
Period size: 64 Copynumber: 2.7 Consensus size: 63
13282192 GTTCTTTAAG
* * **
13282202 AAAAATAA-TTTTTGAAAAAAAAAAAGAAAAACTTTACCAACATATTGGAAGGTTTGCTCATTT
1 AAAAATAATTTTTTGAAAAAAAATAA-AAAAACCTTACCAACATATTGGAAGGTTTGCAAATTT
* * * * *
13282265 TAAAATAATTTTTTTGAAAAAAAATAAAAAAACCTTGCGAATATATTGGAGGGTTTTG-AAATTT
1 AAAAATAA-TTTTTTGAAAAAAAATAAAAAAACCTTACCAACATATTGGAAGG-TTTGCAAATTT
*
13282329 AAAAACTAA-TTTTT-AAAAATAAA-AATAAAACCTTACCAACATATTG
1 AAAAA-TAATTTTTTGAAAAA-AAATAAAAAAACCTTACCAACATATTG
13282375 AAAAACTTAA
Statistics
Matches: 91, Mismatches: 14, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
62 24 0.26
63 15 0.16
64 29 0.32
65 23 0.25
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.32
Consensus pattern (63 bp):
AAAAATAATTTTTTGAAAAAAAATAAAAAAACCTTACCAACATATTGGAAGGTTTGCAAATTT
Found at i:13282399 original size:21 final size:21
Alignment explanation
Indices: 13282375--13282425 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
13282365 CAACATATTG
**
13282375 AAAAACTTAAATTTTTAAAAT
1 AAAAACTTAAATTTGAAAAAT
**
13282396 AAAATTTTGAAATTTGAAAAAT
1 AAAAACTT-AAATTTGAAAAAT
13282418 -AAAACTTA
1 AAAAACTTA
13282426 CAAACATATT
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
20 1 0.04
21 11 0.48
22 11 0.48
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (21 bp):
AAAAACTTAAATTTGAAAAAT
Found at i:13283735 original size:3 final size:3
Alignment explanation
Indices: 13283723--13283789 Score: 116
Period size: 3 Copynumber: 22.3 Consensus size: 3
13283713 GATGATGATG
* *
13283723 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13283771 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
13283790 GTGAAAATTC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13286651 original size:3 final size:3
Alignment explanation
Indices: 13286555--13286640 Score: 111
Period size: 3 Copynumber: 29.0 Consensus size: 3
13286545 AAAAAAAGAA
*
13286555 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
13286602 AAT AAT AGT AAT AGT AAT AGT AAT GAT ACT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13286641 TTACAATAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
2 2 0.03
3 68 0.97
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13287295 original size:118 final size:118
Alignment explanation
Indices: 13286849--13287355 Score: 431
Period size: 117 Copynumber: 4.3 Consensus size: 118
13286839 CGAGAATCTG
* * * *
13286849 AAAAATGATATGGACTGAGCCAAGATCATG-TGATCGAGATGAAACCATAGGTCAGGAAATGAAG
1 AAAAATGATATGGACTGAGCCAAGATC-TGATGACCAAGA-GAAACCACAAGTCA--AAATGAAG
* * * * * ** * *
13286913 TGAAC-AGGACCGAGTCGAGGTCGAAGATAAATGACGGGGATGAAACCA-CAAGTC--A
62 CG-ACTAAGATCGAGTCGAGGTCAAAAATAAATGACTAGGACGAAACCATGAA-TCATA
* * ** ** * * ** *
13286968 AAAAGTGATATGAACTGAGCCAAGAT-AAAGTGACTGAGACAAAATCATGAGTCAAAATAAAGCG
1 AAAAATGATATGGACTGAGCCAAGATCTGA-TGACCAAGA-GAAACCACAAGTCAAAATGAAGCG
* * *
13287032 ACTAGGATCGAGTCGAGGTCAAAAATAAATGA-TCGAGACAAAACCATG-ATCATA
64 ACTAAGATCGAGTCGAGGTCAAAAATAAATGACTAG-GACGAAACCATGAATCATA
* * * *
13287086 AAAAATGATATGGACTGAGCCAAGATC-AAGTGACCAGGAGAAACCACGAGTCAAAATGAAGTGA
1 AAAAATGATATGGACTGAGCCAAGATCTGA-TGACCAAGAGAAACCACAAGTCAAAATGAAGCGA
* *
13287150 CTAAGATCGAGTCGAGGTAAAAAATAAATGACTAGGACGAAA-CACGAATCATA
65 CTAAGATCGAGTCGAGGTCAAAAATAAATGACTAGGACGAAACCATGAATCATA
** * *
13287203 AGGAATGATTTAGACTGAGCCAAGATCTGATGACCAAGATGAAACCACAAGTCAAAATGAAGCGA
1 AAAAATGATATGGACTGAGCCAAGATCTGATGACCAAGA-GAAACCACAAGTCAAAATGAAGCGA
* * * * *
13287268 CCAAGATCGAGTCGAGGTCAAAAATAAATAACCAAGATGAAACCATGAATCATA
65 CTAAGATCGAGTCGAGGTCAAAAATAAATGACTAGGACGAAACCATGAATCATA
* * * *
13287322 AAAAATGATCTGGACTAAGCTAAGATTTGATGAC
1 AAAAATGATATGGACTGAGCCAAGATCTGATGAC
13287356 TGGAACGAAA
Statistics
Matches: 317, Mismatches: 58, Indels: 26
0.79 0.14 0.06
Matches are distributed among these distances:
116 8 0.03
117 135 0.43
118 96 0.30
119 78 0.25
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.17
Consensus pattern (118 bp):
AAAAATGATATGGACTGAGCCAAGATCTGATGACCAAGAGAAACCACAAGTCAAAATGAAGCGAC
TAAGATCGAGTCGAGGTCAAAAATAAATGACTAGGACGAAACCATGAATCATA
Found at i:13288250 original size:45 final size:45
Alignment explanation
Indices: 13288120--13288251 Score: 140
Period size: 45 Copynumber: 2.9 Consensus size: 45
13288110 TCACTCAATT
* ** * **
13288120 CAAGCTG-CCTTTCAAGGTTTTCAACTCGAACTTTTTCTTTGGGTC
1 CAAGCTGCCCTTT-AGGGTTTTCAACTTAAACTTTTTTTTTTTGTC
** * * *
13288165 CAAGCCACCATTTCGGGTTTTCAACTTAAACTCTTTTTTTTTGTC
1 CAAGCTGCCCTTTAGGGTTTTCAACTTAAACTTTTTTTTTTTGTC
*
13288210 CAAGCTGCCCTTTAGGGTTTTCAACTTAAATTTTTTTTTTTT
1 CAAGCTGCCCTTTAGGGTTTTCAACTTAAACTTTTTTTTTTT
13288252 TAGGTCAAGC
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
45 65 0.94
46 4 0.06
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (45 bp):
CAAGCTGCCCTTTAGGGTTTTCAACTTAAACTTTTTTTTTTTGTC
Found at i:13295176 original size:64 final size:64
Alignment explanation
Indices: 13295075--13295198 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 64
13295065 TAGCTTTTGG
*
13295075 TGAGGTATCTTCTTCCATTCTTTTCTTCTGTTTGCTTTTTTCAAGGCTTCTAGAATCTTATCGA
1 TGAGGTATCTTCTTCCATTCCTTTCTTCTGTTTGCTTTTTTCAAGGCTTCTAGAATCTTATCGA
* *
13295139 TGAGGTATCTTCTTCCATTCCTTTCTTTTGTTTGCTTTTTTCAAGGCTTTTAGAATCTTA
1 TGAGGTATCTTCTTCCATTCCTTTCTTCTGTTTGCTTTTTTCAAGGCTTCTAGAATCTTA
13295199 CTCAACTTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.15, C:0.19, G:0.14, T:0.52
Consensus pattern (64 bp):
TGAGGTATCTTCTTCCATTCCTTTCTTCTGTTTGCTTTTTTCAAGGCTTCTAGAATCTTATCGA
Found at i:13296129 original size:18 final size:20
Alignment explanation
Indices: 13296091--13296129 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
13296081 AGCTTTAGAA
*
13296091 TTTCTTATTTCATTTCTCTT
1 TTTCTTATTTCATTACTCTT
13296111 TTTC-TATTTCA-TACTCTT
1 TTTCTTATTTCATTACTCTT
13296129 T
1 T
13296130 CTTTATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCTTATTTCATTACTCTT
Found at i:13297579 original size:18 final size:18
Alignment explanation
Indices: 13297556--13297591 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
13297546 GTACAAAAAG
13297556 AAAAGAAGGA-AAAGAAAT
1 AAAAGAA-GATAAAGAAAT
13297574 AAAAGAAGATAAAGAAAT
1 AAAAGAAGATAAAGAAAT
13297592 TAGTTAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
AAAAGAAGATAAAGAAAT
Found at i:13299853 original size:17 final size:18
Alignment explanation
Indices: 13299820--13299853 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13299810 GATTGGAGCC
*
13299820 AAAAAGAAAGAAGAAAAG
1 AAAAAGAAAGAAAAAAAG
13299838 AAAAA-AAAGAAAAAAA
1 AAAAAGAAAGAAAAAAA
13299854 ATAATTTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAGAAAAAAAG
Found at i:13300572 original size:21 final size:22
Alignment explanation
Indices: 13300546--13300591 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
13300536 TACTATTAAT
13300546 TTTAATCTCACCATTATCA-TA
1 TTTAATCTCACCATTATCATTA
**
13300567 TTTAATCTCACTTTTATCATTA
1 TTTAATCTCACCATTATCATTA
13300589 TTT
1 TTT
13300592 TTAAGTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAATCTCACCATTATCATTA
Found at i:13301079 original size:13 final size:13
Alignment explanation
Indices: 13301061--13301085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13301051 TTATTATTTG
13301061 TAATAAAAATATA
1 TAATAAAAATATA
13301074 TAATAAAAATAT
1 TAATAAAAATAT
13301086 CCATCAAACA
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:0.00, T:0.32
Consensus pattern (13 bp):
TAATAAAAATATA
Found at i:13303309 original size:21 final size:20
Alignment explanation
Indices: 13303255--13303310 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
13303245 AAAATAATTA
13303255 AAATAT-AAAAT-TTTGATT
1 AAATATAAAAATATTTGATT
* *
13303273 AAATTTATAAATTATTTGATTT
1 AAATATA-AAAATATTTGA-TT
*
13303295 GAATATAAAAATATTT
1 AAATATAAAAATATTT
13303311 TAAATTTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.17
20 4 0.14
21 13 0.45
22 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
AAATATAAAAATATTTGATT
Found at i:13311489 original size:202 final size:204
Alignment explanation
Indices: 13310967--13311703 Score: 604
Period size: 204 Copynumber: 3.6 Consensus size: 204
13310957 CTACCAGGAT
* * * * * * * * *
13310967 AATAAAATAAAATATCACCTTATCTTTT-TTTTTTGTGACGTTAATTTTTGTTAGCTATTTATG-
1 AATAAAATCAAATGTCACATTATATTTTAATTTTTGTGACGTTAGTTTTTATCAACTATTTATGA
* * * ** * * * * *
13311030 AAAAAAAATATCATT-AGAGACTATAATCGTCAC--AATAAATGATAAAATCTAATTTATTAGTG
66 AAAAAAAACATCATTAAAAG-TTATAATTATCACAAAATAAATAATAAAATTTGATATATTAATG
* ** * * ** * * * *
13311092 ACAAAAGATAAATCATCACAGTATT-GTGGCACAATTAAT-GTCACCAATGATTGTAAGAAAATA
130 ACAAAAGGTAAATCGCCATAATATTAGTAACACAATT-ATCATCACCAATGATTATAAGATAATG
** * * *
13311155 TCTATCATGAT
194 TAAAACGTGAA
* *
13311166 AATAAAATCAAATGTTACCTTATATTTTAATTTTTGTGACGTTAGTTTTTATCAACTATTTATGA
1 AATAAAATCAAATGTCACATTATATTTTAATTTTTGTGACGTTAGTTTTTATCAACTATTTATG-
* * *
13311231 AAAAAAAAACATTATTAAAAGTTATAATTATCACAAAATAAATAATAAATTTTGATATCTT-ATG
65 AAAAAAAAACATCATTAAAAGTTATAATTATCACAAAATAAATAATAAAATTTGATATATTAATG
*
13311295 ACGAAAA-GTAAATCGCCATAATATTAGTAACATAATTATCATCA-CAATGATTATAAGATAATG
130 AC-AAAAGGTAAATCGCCATAATATTAGTAACACAATTATCATCACCAATGATTATAAGATAATG
13311358 TAAAACGTGAA
194 TAAAACGTGAA
* ** *
13311369 AATAAAATCAAATGTCACATTATTTTTTTTTTTTTTGTGACGTTGGTTTTTATCAACTATTTATG
1 AATAAAATCAAATGTCACATTA-TATTTTAATTTTTGTGACGTTAGTTTTTATCAACTATTTATG
* * * *
13311434 -AAGAAAAACATCGTTGAAAGTTATAATTATCACAAAATAAATGATAAAATTTGATATATTAATG
65 AAAAAAAAACATCATTAAAAGTTATAATTATCACAAAATAAATAATAAAATTTGATATATTAATG
* * * * * * *
13311498 ACAAAAGGTAAATTGTCTTAGTATTAGTGACACAATTATTATCACCAATGATTGTAAGATAATGT
130 ACAAAAGGTAAATCGCCATAATATTAGTAACACAATTATCATCACCAATGATTATAAGATAATGT
** **
13311563 CTATTGT-AA
195 AAAACGTGAA
* * ** *
13311572 CAATAAAATCAAACGTCATC-TTATGCTTTTAATTTTTGTGATTTTAGTTTTTGT-AAGCTATTT
1 -AATAAAATCAAATGTCA-CATTAT-ATTTTAATTTTTGTGACGTTAGTTTTTATCAA-CTATTT
* * * * * *
13311635 ATGAAAAAAAAAAAAAGGTCATTAAAGGCTATAATCATTACAAAATAAATGATAAAATCTT-ATA
62 ATG--AAAAAAAAACA--TCATTAAAAGTTATAATTATCACAAAATAAATAATAAAAT-TTGATA
13311699 TATTA
122 TATTA
13311704 GTAACGAATG
Statistics
Matches: 435, Mismatches: 80, Indels: 36
0.79 0.15 0.07
Matches are distributed among these distances:
199 24 0.06
200 30 0.07
202 80 0.18
203 104 0.24
204 144 0.33
205 1 0.00
207 8 0.02
209 42 0.10
210 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (204 bp):
AATAAAATCAAATGTCACATTATATTTTAATTTTTGTGACGTTAGTTTTTATCAACTATTTATGA
AAAAAAAACATCATTAAAAGTTATAATTATCACAAAATAAATAATAAAATTTGATATATTAATGA
CAAAAGGTAAATCGCCATAATATTAGTAACACAATTATCATCACCAATGATTATAAGATAATGTA
AAACGTGAA
Found at i:13311827 original size:22 final size:22
Alignment explanation
Indices: 13311799--13311846 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
13311789 TTTGTAGTAT
*
13311799 AATCTAAATTAGTGTTCTTGCA
1 AATCTAAATTAATGTTCTTGCA
13311821 AATCTAAATTAATGTTCTTGCA
1 AATCTAAATTAATGTTCTTGCA
13311843 AATC
1 AATC
13311847 CACCAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (22 bp):
AATCTAAATTAATGTTCTTGCA
Found at i:13315445 original size:24 final size:25
Alignment explanation
Indices: 13315407--13315478 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 25
13315397 AAAATTACTC
*
13315407 AAATAAAATA-AAAAATATAAATG-
1 AAATAAAAAATAAAAATATAAATGA
* * *
13315430 AAATAAAAACTTAAAAGATAAATGA
1 AAATAAAAAATAAAAATATAAATGA
13315455 TAAATAAAAAATAAAAATAATAAA
1 -AAATAAAAAATAAAAAT-ATAAA
13315479 AAAAACAACC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 8 0.21
24 11 0.29
26 14 0.37
27 5 0.13
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (25 bp):
AAATAAAAAATAAAAATATAAATGA
Found at i:13317409 original size:35 final size:35
Alignment explanation
Indices: 13317370--13317456 Score: 129
Period size: 35 Copynumber: 2.5 Consensus size: 35
13317360 TCCAGGATTG
**
13317370 AATCACCGAGAATTATTTCAATAAATTCAGGACTA
1 AATCACCGAGAATTATTTCAATAAATTCAAAACTA
* * *
13317405 AATCATCAAAAATTATTTCAATAAATTCAAAACTA
1 AATCACCGAGAATTATTTCAATAAATTCAAAACTA
13317440 AATCACCGAGAATTATT
1 AATCACCGAGAATTATT
13317457 CCACAACAGT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (35 bp):
AATCACCGAGAATTATTTCAATAAATTCAAAACTA
Found at i:13317945 original size:65 final size:65
Alignment explanation
Indices: 13317842--13318003 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
13317832 GATCAGGAGC
* * * *
13317842 GAACCACATGTCTGAAAAT-AAAATGATCTAGACTGAGTCGAGATCAAAAT-AAGTGATTGGGAT
1 GAACCACAAGTTTGAAAATAAAAATGATCTGGACTGAGTCGAGATCAAAATGAA-TGACTGGGAT
13317905 T
65 T
** * * *
13317906 GAATTACAAGTTTGAAAGTAAAAATGATTTGGACTGAGTCGAGATTAAAATGAATGACTGGGATT
1 GAACCACAAGTTTGAAAATAAAAATGATCTGGACTGAGTCGAGATCAAAATGAATGACTGGGATT
*
13317971 GAACCGCAAGTTTGAAAATAAAAATGATCTGGA
1 GAACCACAAGTTTGAAAATAAAAATGATCTGGA
13318004 TTAAACCAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 14 0.17
65 66 0.80
66 2 0.02
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (65 bp):
GAACCACAAGTTTGAAAATAAAAATGATCTGGACTGAGTCGAGATCAAAATGAATGACTGGGATT
Found at i:13318321 original size:86 final size:85
Alignment explanation
Indices: 13318229--13318517 Score: 355
Period size: 86 Copynumber: 3.4 Consensus size: 85
13318219 TGGATTCGTA
* *
13318229 AGAATGAAAGATTCGTAAGATTTCAAGTTTCACAAAGGTTCTAGATTTGCAAAGATTTTAAGTTC
1 AGAATGAAAGATTCGCAAGATTTCAAGTTTCGCAAAGGTTCTAGATTTGCAAAGATTTTAAGTTC
*
13318294 ACAAAGACTTTCCAATTTGC
66 ACAAAGACTTTCAAATTTGC
* * * *
13318314 AGTAATGAAAGATTCACAAGATTTTAAGTTTCGCAAAGGTTCTAGATTTGTAAAGATTTTAGGTT
1 AG-AATGAAAGATTCGCAAGATTTCAAGTTTCGCAAAGGTTCTAGATTTGCAAAGATTTTAAGTT
* * *
13318379 CACAAAGACTTTTAGATTTAGA
65 CACAAAGACTTTCAAATTT-GC
* * * *
13318401 AGAATAAAAGATTCGCAAGATTTTCAAGTTTCGTAAAGGTTCTAGATTCGCAAAGATTTCATA-T
1 AGAATGAAAGATTCGCAAGA-TTTCAAGTTTCGCAAAGGTTCTAGATTTGCAAAGATTTTA-AGT
* * **
13318465 TCGCAAGGACTTTCAAATTCCC
64 TCACAAAGACTTTCAAATTTGC
*
13318487 AAGAATGAAAGATTTGCAAGATTTCAAGTTT
1 -AGAATGAAAGATTCGCAAGATTTCAAGTTT
13318518 TTAGAGGTAA
Statistics
Matches: 172, Mismatches: 27, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
85 2 0.01
86 98 0.57
87 72 0.42
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (85 bp):
AGAATGAAAGATTCGCAAGATTTCAAGTTTCGCAAAGGTTCTAGATTTGCAAAGATTTTAAGTTC
ACAAAGACTTTCAAATTTGC
Found at i:13318466 original size:17 final size:18
Alignment explanation
Indices: 13318446--13318484 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
13318436 AAGGTTCTAG
*
13318446 ATTCGCAAAGA-TTTCAT
1 ATTCGCAAAGACTTTCAA
*
13318463 ATTCGCAAGGACTTTCAA
1 ATTCGCAAAGACTTTCAA
13318481 ATTC
1 ATTC
13318485 CCAAGAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (18 bp):
ATTCGCAAAGACTTTCAA
Found at i:13318484 original size:18 final size:17
Alignment explanation
Indices: 13318446--13318489 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
13318436 AAGGTTCTAG
* *
13318446 ATTCGCAAAGATTTCAT
1 ATTCGCAAGGATTTCAA
13318463 ATTCGCAAGGACTTTCAA
1 ATTCGCAAGGA-TTTCAA
*
13318481 ATTCCCAAG
1 ATTCGCAAG
13318490 AATGAAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (17 bp):
ATTCGCAAGGATTTCAA
Found at i:13318654 original size:13 final size:13
Alignment explanation
Indices: 13318620--13318646 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13318610 ACCAAGTAAA
13318620 GTCGAAGATGAAT
1 GTCGAAGATGAAT
13318633 GTCGAAGATGAAT
1 GTCGAAGATGAAT
13318646 G
1 G
13318647 ATGAAGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.22
Consensus pattern (13 bp):
GTCGAAGATGAAT
Found at i:13327365 original size:27 final size:27
Alignment explanation
Indices: 13327327--13327409 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
13327317 CCAAGCCAGA
* *
13327327 TTGGACCCATTTTGGATCAGGCCCAAT
1 TTGGGCCCATTTTCGATCAGGCCCAAT
* *
13327354 TTGGGCCCATTTTTGTTC-GGACCCAAT
1 TTGGGCCCATTTTCGATCAGG-CCCAAT
** *
13327381 TT-GGCTTA-TTTCGATCAGGCCCATT
1 TTGGGCCCATTTTCGATCAGGCCCAAT
13327406 TTGG
1 TTGG
13327410 TCAAGACTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
25 13 0.29
26 9 0.20
27 23 0.51
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TTGGGCCCATTTTCGATCAGGCCCAAT
Found at i:13327467 original size:3 final size:3
Alignment explanation
Indices: 13327452--13327507 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
13327442 AGATGCTTTC
*
13327452 ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13327500 ATT ATT AT
1 ATT ATT AT
13327508 CTTTTCCTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13328401 original size:5 final size:5
Alignment explanation
Indices: 13328391--13328448 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
13328381 CTTTTTTCAT
*
13328391 TTTTA TTTTA TTTTA --TTA TTTTA TTTTA TTTCTAA CCTATT- TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-T-A --TTTTA TTTTA
13328437 TTTTA TTTTA TT
1 TTTTA TTTTA TT
13328449 ATTAGATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
3 3 0.07
4 3 0.07
5 33 0.75
6 1 0.02
7 1 0.02
8 1 0.02
9 2 0.05
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:13328409 original size:13 final size:13
Alignment explanation
Indices: 13328393--13328451 Score: 59
Period size: 13 Copynumber: 4.4 Consensus size: 13
13328383 TTTTTCATTT
13328393 TTATTTTATTTTA
1 TTATTTTATTTTA
13328406 TTATTTTATTTTA
1 TTATTTTATTTTA
*
13328419 TT-TCTAACCTATTTT-
1 TTAT-T---TTATTTTA
13328434 TTATTTTATTTTA
1 TTATTTTATTTTA
13328447 TTATT
1 TTATT
13328452 AGATAAAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
12 7 0.18
13 21 0.55
15 3 0.08
16 7 0.18
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:13333663 original size:3 final size:3
Alignment explanation
Indices: 13333642--13333821 Score: 83
Period size: 3 Copynumber: 58.3 Consensus size: 3
13333632 TCTTCTTTTG
13333642 TAT T-T TAT GTAT T-T TAT TAT TAT TAT TAT TAT GTAT ATATT TATT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TA-T TA-T
* * *
13333687 TAT T-T TTT TAT TA- GAT TA- GAT T-T ATAT GTAT ATAGT TAT ATATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TA-T TAT -TA-T
* *
13333731 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TTT GTAA TAT ATACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TA-T
** *
13333778 TGGG T-T TA- TCT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13333821 T
1 T
13333822 TTTAATTATC
Statistics
Matches: 140, Mismatches: 16, Indels: 42
0.71 0.08 0.21
Matches are distributed among these distances:
2 15 0.11
3 90 0.64
4 31 0.22
5 4 0.03
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:13333909 original size:42 final size:44
Alignment explanation
Indices: 13333804--13333912 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 44
13333794 TATTATTATT
* *
13333804 ATTATTATTATTATTATTTTTAATTATCTGTTCTGATTTTTCCTG
1 ATTATTATTATTATT-TTTTTAAATATCTGTTCTGATTTATCCTG
* * *
13333849 ATTATCAGATATTTTTTTTTTAAATATCT-TT-TGATTTAT-CTG
1 ATTATTA-TTATTATTTTTTTAAATATCTGTTCTGATTTATCCTG
*
13333891 ATTATTATCTAGTATTTTTTTA
1 ATTATTAT-TATTATTTTTTTA
13333913 TTTTTGATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
42 20 0.38
43 7 0.13
44 2 0.04
45 18 0.34
46 6 0.11
ACGTcount: A:0.25, C:0.07, G:0.06, T:0.61
Consensus pattern (44 bp):
ATTATTATTATTATTTTTTTAAATATCTGTTCTGATTTATCCTG
Found at i:13334276 original size:31 final size:32
Alignment explanation
Indices: 13334241--13334310 Score: 101
Period size: 31 Copynumber: 2.2 Consensus size: 32
13334231 ATTTCCAGAA
*
13334241 TCCGGCGAA-AATTCCGGCGAA-ATTTGAATTT
1 TCCGGCGAACAATTCCGGCGAACA-TTGAAGTT
13334272 TCCGGC-AACAATTCCGGCGAACATTGAAGTT
1 TCCGGCGAACAATTCCGGCGAACATTGAAGTT
13334303 TCCGGCGA
1 TCCGGCGA
13334311 CCTACCCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
30 2 0.06
31 31 0.89
32 2 0.06
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (32 bp):
TCCGGCGAACAATTCCGGCGAACATTGAAGTT
Found at i:13334408 original size:20 final size:19
Alignment explanation
Indices: 13334364--13334408 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
13334354 CCGGCCAACT
*
13334364 TCCGGCGAAATTTCCAGAT
1 TCCGGCGAAATTTCCAGAA
*
13334383 TTCGGCGAAAATTTCCAGAA
1 TCCGGCG-AAATTTCCAGAA
13334403 TCCGGC
1 TCCGGC
13334409 ACCGGTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (19 bp):
TCCGGCGAAATTTCCAGAA
Found at i:13334763 original size:17 final size:16
Alignment explanation
Indices: 13334733--13334791 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 16
13334723 CTCCAGGTTT
* *
13334733 TTTTTTTTTTTTTTGAG
1 TTTTTATTTATTTT-AG
*
13334750 TTTTTATTTATTTTAT
1 TTTTTATTTATTTTAG
13334766 TTGTTTATTTA--TTA-
1 TT-TTTATTTATTTTAG
13334780 TTTTTATTTATT
1 TTTTTATTTATT
13334792 AGATTAGGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 8 0.22
14 2 0.06
15 3 0.08
16 3 0.08
17 20 0.56
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (16 bp):
TTTTTATTTATTTTAG
Found at i:13334763 original size:21 final size:20
Alignment explanation
Indices: 13334728--13334784 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
13334718 AGTCGCTCCA
*
13334728 GGTTTTT-TTTTTTTTTTTT
1 GGTTTTTATTTATTTTTTTT
*
13334747 GAGTTTTTATTTATTTTATTT
1 G-GTTTTTATTTATTTTTTTT
*
13334768 GTTTATTTA-TTATTTTT
1 GGTT-TTTATTTATTTTT
13334785 ATTTATTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 1 0.03
20 15 0.48
21 15 0.48
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (20 bp):
GGTTTTTATTTATTTTTTTT
Found at i:13334786 original size:30 final size:30
Alignment explanation
Indices: 13334750--13334828 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
13334740 TTTTTTTGAG
*
13334750 TTTTTATTTATTTTATTTGTTTATTTATTA
1 TTTTTATTTATTTTATTTGTTTATTTAATA
** *
13334780 TTTTTATTTATTAGATTAGGTTTATTTAATA
1 TTTTTATTTATTTTATT-TGTTTATTTAATA
*
13334811 TTCTT-TTTATCTTTATTT
1 TTTTTATTTAT-TTTATTT
13334829 TATTTTTAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
30 20 0.51
31 19 0.49
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTTTATTTATTTTATTTGTTTATTTAATA
Found at i:13334858 original size:24 final size:25
Alignment explanation
Indices: 13334828--13334884 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
13334818 TATCTTTATT
13334828 TTATTTTTAGTTTTGTTTTACTTTTC
1 TTATTTTTA-TTTTGTTTTACTTTTC
* *
13334854 TT-TTTTTATTTTTTTTTATTTTTC
1 TTATTTTTATTTTGTTTTACTTTTC
13334878 -TATTTTT
1 TTATTTTT
13334885 CTTTAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 19 0.68
25 6 0.21
26 2 0.07
ACGTcount: A:0.11, C:0.05, G:0.04, T:0.81
Consensus pattern (25 bp):
TTATTTTTATTTTGTTTTACTTTTC
Found at i:13334870 original size:18 final size:18
Alignment explanation
Indices: 13334849--13334889 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
13334839 TTTGTTTTAC
* *
13334849 TTTTCTTTTTTTATTTTT
1 TTTTATTTTTCTATTTTT
13334867 TTTTATTTTTCTATTTTT
1 TTTTATTTTTCTATTTTT
*
13334885 CTTTA
1 TTTTA
13334890 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTATTTTTCTATTTTT
Found at i:13335014 original size:77 final size:79
Alignment explanation
Indices: 13334896--13335047 Score: 272
Period size: 77 Copynumber: 1.9 Consensus size: 79
13334886 TTTAAATAAA
13334896 AAAAATCAAAAGTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
1 AAAAATCAAAAGTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
13334961 AAATAAATTTCCTT
66 AAATAAATTTCCTT
* *
13334975 AAAAATCAAAA-TTTC-AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
1 AAAAATCAAAAGTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
13335038 AAATAAATTT
66 AAATAAATTT
13335048 TCAAAAAAAG
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
77 57 0.80
78 3 0.04
79 11 0.15
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.32
Consensus pattern (79 bp):
AAAAATCAAAAGTTCCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
AAATAAATTTCCTT
Found at i:13335064 original size:59 final size:61
Alignment explanation
Indices: 13334968--13335090 Score: 178
Period size: 59 Copynumber: 2.0 Consensus size: 61
13334958 TAGAAATAAA
* *
13334968 TTTCCTTAAAAATCAAAATTTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAAT
1 TTTCCTTAAAAATCAAAATTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * * *
13335029 TTTCCTTAGAAAT-AAATTTTC-AAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTCCTTAAAAATCAAAATTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAAT
13335088 TTT
1 TTT
13335091 TCCTACAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 37 0.66
60 7 0.12
61 12 0.21
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (61 bp):
TTTCCTTAAAAATCAAAATTTCAAAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:13340790 original size:15 final size:14
Alignment explanation
Indices: 13340768--13340805 Score: 67
Period size: 15 Copynumber: 2.6 Consensus size: 14
13340758 TTTAAACCAC
13340768 AAAAAAAAAAACAA
1 AAAAAAAAAAACAA
13340782 AAAATAAAAAAACAA
1 AAAA-AAAAAAACAA
13340797 AAAAAAAAA
1 AAAAAAAAA
13340806 GTTCAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.92, C:0.05, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:13341309 original size:18 final size:17
Alignment explanation
Indices: 13341278--13341311 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13341268 AATATGAACT
*
13341278 AAAAAAAAATAAAAAAC
1 AAAAAAAAAGAAAAAAC
13341295 AAAAAAAAGAGAAAAAA
1 AAAAAAAA-AGAAAAAA
13341312 AATAGGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAC
Found at i:13341939 original size:118 final size:118
Alignment explanation
Indices: 13341649--13341947 Score: 298
Period size: 118 Copynumber: 2.5 Consensus size: 118
13341639 ATCTCACTCA
** *** * *
13341649 CTTGATCTCGACTCAGTTCAA-ATTATTTCTTATGATTCGTGGGTCCATCCCGATCATTTATTTT
1 CTTGATCTTAACTCAG-TCAAGATTATTTCTTATGATTCGTGGGTTTGTCCTGATCATTTATTTC
* *
13341713 TGACTTCGACTCGATCCTAGTCACCTCATTTGAATCGTGTTTTCGTCTCGATCG
65 TGACTTCGACTCGATCCTAGTCACCTCATTTGAATCGTGGTTTCGTCCCGATCG
* * * **
13341767 CTTGATCTTAACTCAGTCCATATCATTTCTTATGATTCGT-GGTTTCGTTTTGATCATTTATTTC
1 CTTGATCTTAACTCAGTCAAGATTATTTCTTATGATTCGTGGGTTT-GTCCTGATCATTTATTTC
* * * * * * *
13341831 TGACTTCGACTTGGTCTTGGTTATCTCATTT-AACTCGTGGTTTCGTCCCGATTG
65 TGACTTCGACTCGATCCTAGTCACCTCATTTGAA-TCGTGGTTTCGTCCCGATCG
** * * * * *
13341885 CTTGATCTTGGCTTAGTTAAGATTATTTCTTATAATTCATGGGTTTGTCCTGATCATTCATTT
1 CTTGATCTTAACTCAGTCAAGATTATTTCTTATGATTCGTGGGTTTGTCCTGATCATTTATTT
13341948 TCGACCTCAA
Statistics
Matches: 145, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
117 8 0.06
118 132 0.91
119 5 0.03
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (118 bp):
CTTGATCTTAACTCAGTCAAGATTATTTCTTATGATTCGTGGGTTTGTCCTGATCATTTATTTCT
GACTTCGACTCGATCCTAGTCACCTCATTTGAATCGTGGTTTCGTCCCGATCG
Found at i:13342064 original size:20 final size:20
Alignment explanation
Indices: 13342039--13342078 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13342029 TTTCTTATGA
13342039 TTCGTGGTTTCATCCCGATC
1 TTCGTGGTTTCATCCCGATC
13342059 TTCGTGGTTTCATCCCGATC
1 TTCGTGGTTTCATCCCGATC
13342079 ATTCATTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.30, G:0.20, T:0.40
Consensus pattern (20 bp):
TTCGTGGTTTCATCCCGATC
Found at i:13342111 original size:138 final size:139
Alignment explanation
Indices: 13341936--13342185 Score: 342
Period size: 138 Copynumber: 1.8 Consensus size: 139
13341926 GGTTTGTCCT
* * * * ** *
13341936 GATCATTCATTTTCGACCTCAATTCTGTCCTGATCACTTTATTTTGACTTGTGGTTTCGTTTTGG
1 GATCATTCATTTTCGACCTCAACTCTGACCTGATCACTTTATTTTGACTCGTGGTTTCATCCTGA
* * * *
13342001 TCACTTGATCTTAGCTTAGTCCAGATCATTTCTTATGATTCGTGGTTTCATCCCGATCTTCGTGG
66 TCACTTGATATTAGCTCAGCCCAGATCATTTCTTATGATTCATGGTTTCATCCCGATCTTCGTGG
13342066 TTTCATCCC
131 TTTCATCCC
*
13342075 GATCATTCA-TTTCGACCTCGACT-TGAACCTGATCACTTTATTTTGACTCGTGGTTTCATCCTG
1 GATCATTCATTTTCGACCTCAACTCTG-ACCTGATCACTTTATTTTGACTCGTGGTTTCATCCTG
* * *
13342138 ATCATTTGATATTGGCTCAGCCCAGATCATTTTTTATGATTCATGGTT
65 ATCACTTGATATTAGCTCAGCCCAGATCATTTCTTATGATTCATGGTT
13342186 CCGTCTTGAT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
137 2 0.02
138 84 0.88
139 9 0.09
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (139 bp):
GATCATTCATTTTCGACCTCAACTCTGACCTGATCACTTTATTTTGACTCGTGGTTTCATCCTGA
TCACTTGATATTAGCTCAGCCCAGATCATTTCTTATGATTCATGGTTTCATCCCGATCTTCGTGG
TTTCATCCC
Found at i:13342419 original size:3 final size:3
Alignment explanation
Indices: 13342411--13342492 Score: 107
Period size: 3 Copynumber: 28.0 Consensus size: 3
13342401 AGATGCTTTC
13342411 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
13342459 GTT ATT ATCT -TT ATT TTT ATT -TT -TT ATT TTT ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
13342493 TTTTTTCCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
2 5 0.07
3 64 0.91
4 1 0.01
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (3 bp):
ATT
Found at i:13342496 original size:15 final size:15
Alignment explanation
Indices: 13342415--13342512 Score: 85
Period size: 15 Copynumber: 6.7 Consensus size: 15
13342405 GCTTTCATTA
* *
13342415 TTATTATTATTATTA
1 TTATTATTTTTATTT
* *
13342430 TTATTATTATTATTA
1 TTATTATTTTTATTT
* *
13342445 TTATTATTATTATTG
1 TTATTATTTTTATTT
*
13342460 TTATTATCTTTATTT
1 TTATTATTTTTATTT
13342475 TTA-T-TTTTTATTT
1 TTATTATTTTTATTT
* **
13342488 TTATTTTTTTTCCTT
1 TTATTATTTTTATTT
13342503 TTATT-TTTTT
1 TTATTATTTTT
13342513 CTACTTTCTT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
13 11 0.15
14 7 0.09
15 56 0.76
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.74
Consensus pattern (15 bp):
TTATTATTTTTATTT
Found at i:13342519 original size:16 final size:15
Alignment explanation
Indices: 13342478--13342519 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
13342468 TTTATTTTTA
*
13342478 TTTTTTATTTTTATT
1 TTTTTTACTTTTATT
*
13342493 TTTTTTCCTTTTATT
1 TTTTTTACTTTTATT
13342508 TTTTTCTACTTT
1 TTTTT-TACTTT
13342520 CTTTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTACTTTTATT
Found at i:13342945 original size:21 final size:21
Alignment explanation
Indices: 13342914--13342970 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
13342904 TAGGATGATC
13342914 TAGGAATTTTTTTTGAAT-TTT
1 TAGG-ATTTTTTTTGAATGTTT
13342935 TATGGATTTTTTTT-AATGGTTT
1 TA-GGATTTTTTTTGAAT-GTTT
*
13342957 TAGGTTTTTTTTTG
1 TAGGATTTTTTTTG
13342971 GGTTTTCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.10
21 21 0.68
22 7 0.23
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (21 bp):
TAGGATTTTTTTTGAATGTTT
Found at i:13343312 original size:5 final size:5
Alignment explanation
Indices: 13343304--13343367 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 5
13343294 CTTTTTTCAT
* ****
13343304 TTTTA TTTTA -TTT- TTTGA TTTTA TTTTA TTTCTA ACCCA TTTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA -TTTTA TTTTA
13343354 TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTT
13343368 CAAAAAAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
4 5 0.11
5 37 0.82
6 3 0.07
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:13343325 original size:18 final size:19
Alignment explanation
Indices: 13343290--13343357 Score: 66
Period size: 18 Copynumber: 3.5 Consensus size: 19
13343280 GATCGCAAGT
*
13343290 TTTTCTTTTTTCATTTTTA
1 TTTTATTTTTTCATTTTTA
*
13343309 TTTTATTTTTTGA-TTTTA
1 TTTTATTTTTTCATTTTTA
**
13343327 TTTTATTTCTAACCCATTTTTA
1 TTTTATTT-T--TTCATTTTTA
13343349 TTTTATTTT
1 TTTTATTTT
13343358 ATTTTATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 13 0.32
19 12 0.30
21 2 0.05
22 13 0.32
ACGTcount: A:0.16, C:0.09, G:0.01, T:0.74
Consensus pattern (19 bp):
TTTTATTTTTTCATTTTTA
Found at i:13346177 original size:233 final size:236
Alignment explanation
Indices: 13345597--13346767 Score: 862
Period size: 233 Copynumber: 5.0 Consensus size: 236
13345587 CAACATTATT
* ** * ** *
13345597 TAAAAGTTTGTGACATTTATGTTATTGTCATATAACACT-TTACATTGACGTAATGAAAAAGCAA
1 TAAAAGTTTATGACATTTATGTTATCATCATATAACA-TAATACATTGACGTAATGAAATTGTAA
*
13345661 TGTCATTAATAGTTAACTAAATTGTTCAATTTGTGACAAAAATTAATAATGTCACCTAAAATTTA
65 TGTCATTAATAGTTAACTAAATTGTTCAATTTGTGACAAAAATTAATAATGTCACCTAAAATCTA
* * ** *
13345726 TTGGAAAAAAATT-GTCACAGATAAAATTTTAAATTGATGACAAAATTATAATGTCATCAAAAAT
130 TTAG-AAAAAATTCGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACATCACCAAAAAT
* * *
13345790 AAAAAAAAATTAAAAAAAATTTTCCACCAAATGAATTTAGCAG
194 AAAAAAAAAGTAAAAAAAATTTCCCACCAAATAAATTTAGCAG
* * * * * * * * * **
13345833 TAAAAATTTTTAACAGTTATGTTATCATCATAAAACATAATAAATAGATGTGACAAAATTGTAAT
1 TAAAAGTTTATGACATTTATGTTATCATCATATAACATAATACATTGACGTAATGAAATTGTAAT
* * **
13345898 GTCATTAATAGTTTACTAAATTGTTCAATTTGTGGCAAAAATTAATAATGTCATATAAAATCTAT
66 GTCATTAATAGTTAACTAAATTGTTCAATTTGTGACAAAAATTAATAATGTCACCTAAAATCTAT
* *
13345963 TAGAAAAAATTCGTCACAGATAAAATTTTAAATTGGTGACAAGATTATAACATCACCAAAAAT-T
131 TAGAAAAAATTCGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACATCACCAAAAATAA
* **
13346027 AAAAAAAGT-CAAAAAA-TTCCCACCAAATAAATTTAGTGG
196 AAAAAAAGTAAAAAAAATTTCCCACCAAATAAATTTAGCAG
* *
13346066 TAAAAGTTTATGACATTTATGTTATCATCATATAACATAACACATTGACATAATGAAATTGTAAT
1 TAAAAGTTTATGACATTTATGTTATCATCATATAACATAATACATTGACGTAATGAAATTGTAAT
* * * *
13346131 GTCATTAATAGTTAACTAAAGTGCTCAATTTGTGACAAACATTAATAATGTAACCTAAAATCTAT
66 GTCATTAATAGTTAACTAAATTGTTCAATTTGTGACAAAAATTAATAATGTCACCTAAAATCTAT
* * * **
13346196 TAGAATAATTTCGTCACAGATAAAATTTTAAATTAGTGACAAAATTATAATGTCA-C-AAAA-AA
131 TAGAAAAAATTCGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACATCACCAAAAATAA
******** ** ** *** *
13346258 ATTTCCCCCAAAATGAATTTGGC-GGTAA-AAATCTATGGCA-
196 AAAAAAAGTAAAAAAAATTTCCCACCAAATAAAT-T-TAGCAG
** * * * * * * *
13346298 TTTATG-TTATCGTCA--TA---TAACAT-A-AT-ACAT--TGAC-GTGATGAAATTG-T-----
1 TAAAAGTTTAT-GACATTTATGTTATCATCATATAACATAAT-ACATTGACGTAA-TGAAATTGT
* * *
13346345 AATCTCATTAATAGTTAACTAAAATGTTCAATTTGTGACAAAAGTTAATAACT-TCACCTAAAAT
63 AATGTCATTAATAGTTAACTAAATTGTTCAATTTGTGACAAAAATTAATAA-TGTCACCTAAAAT
* * * **
13346409 CTATCA-AAAAAATTCATCACA-ACTAAAATTTTAAATTGATGACAAAATTATAACATCACTTAA
127 CTATTAGAAAAAATTCGTCACAGA-TAAAATTTTAAATTGGTGACAAAATTATAACATCACCAAA
* * * * * * * **
13346472 AATAAAAAAAATGTCACAAACAAATTTCCTACCATATGAATATGGTGG
191 AATAAAAAAAAAGT-A-AAAAAAATTTCCCACCAAATAAATTTAGCAG
* * * * * * * ** * *
13346520 TAAAATTTTGTAACATTTATATTACCGTCATATAACA-ACATACATTAATTTGATGAAATTGCAA
1 TAAAAGTTTATGACATTTATGTTATCATCATATAACATA-ATACATTGACGTAATGAAATTGTAA
* * * * * *
13346584 TGTTATTAATAGTTAACAAAAGTT-TTCAATTTGGGACAAAAATTAATAACGTCACTTAGAATCT
65 TGTCATTAATAGTTAACTAAA-TTGTTCAATTTGTGACAAAAATTAATAATGTCACCTAAAATCT
* * * * * * * * * *
13346648 ATCATAAAAAATTTGTCACAGCTAAAACTTTAAATTAGTAACAAAATTATAACGTTATCTAAAAT
129 ATTAGAAAAAATTCGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACATCA-CCAAAA-
* *
13346713 TTAAAAAAAAAAACGTTACAAAAAAATTTCCCACCAAATAAATTTGGCAG
192 --ATAAAAAAAAA-G-TA-AAAAAAATTTCCCACCAAATAAATTTAGCAG
13346763 TAAAA
1 TAAAA
13346768 TTTGGCGACA
Statistics
Matches: 714, Mismatches: 172, Indels: 91
0.73 0.18 0.09
Matches are distributed among these distances:
215 1 0.00
216 43 0.06
217 61 0.09
218 5 0.01
219 3 0.00
220 1 0.00
221 11 0.02
222 10 0.01
223 10 0.01
224 6 0.01
225 2 0.00
226 1 0.00
227 9 0.01
228 1 0.00
229 2 0.00
230 5 0.01
231 17 0.02
232 19 0.03
233 182 0.25
234 6 0.01
235 17 0.02
236 154 0.22
237 58 0.08
238 43 0.06
239 5 0.01
242 9 0.01
243 32 0.04
244 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.33
Consensus pattern (236 bp):
TAAAAGTTTATGACATTTATGTTATCATCATATAACATAATACATTGACGTAATGAAATTGTAAT
GTCATTAATAGTTAACTAAATTGTTCAATTTGTGACAAAAATTAATAATGTCACCTAAAATCTAT
TAGAAAAAATTCGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACATCACCAAAAATAA
AAAAAAAGTAAAAAAAATTTCCCACCAAATAAATTTAGCAG
Found at i:13353204 original size:15 final size:15
Alignment explanation
Indices: 13353181--13353217 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
13353171 AAATACACAT
13353181 AAAAAAT-AAATACA
1 AAAAAATAAAATACA
13353195 AAATAAATAAAATACA
1 AAA-AAATAAAATACA
13353211 AAAAAAT
1 AAAAAAT
13353218 GAAACGACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 8 0.38
16 10 0.48
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAAATAAAATACA
Found at i:13353967 original size:312 final size:311
Alignment explanation
Indices: 13353402--13354029 Score: 1184
Period size: 312 Copynumber: 2.0 Consensus size: 311
13353392 TCTTAACGCC
*
13353402 AAAATGATATCATTTTGAAATGATATAAAAGGCTAATTTTGGTCTTTTTTCACCATATCTCCCTT
1 AAAATGATATCATTTTAAAATGATATAAAAGGCTAATTTTGGTCTTTTTTCACCATATCTCCCTT
*
13353467 ATTCCCTCTCTCTTTTCTCCCATTTTCTCTCCTTTTCTTTCTATAACCCCTAAGAACACCAATTG
66 ATTCCCTCTCTCTTTTCTCCCATTTTCTCTCCTTTTCTTTCTAGAACCCCTAAGAACACCAATTG
*
13353532 AATTTCATTCAATTCTAAAAAATCTGATTGAAATCTGGGTTATTCACCAGAAGTTCATCGAAAAG
131 AATTTCATTCAATTCTAAAAAATCTGATTGAAATCTAGGTTATTCACCAGAAGTTCATCGAAAAG
13353597 TTCATCGATTTTTAAAAAATAGATGTCAAAAACTGCAAGCTTAGCCGAAATCTGGGGAGGTCATT
196 TTCATCGATTTTTAAAAAATAGATGTCAAAAACTGCAAGCTTAGCCGAAATCTGGGGAGGTCATT
*
13353662 GAAAAGTCATTGAAAAATTCAATCTTCACTGGAAAATTTTACCAGAATCTA
261 GAAAAGTCATTGAAAAATTCAATCTTCACTGGAAAATTTTACCAAAATCTA
13353713 AAAATGATATCATTTTAAAATGATATAAAAGGCTAATTTTGGTCTTTTTTCACCATATCTCCCTT
1 AAAATGATATCATTTTAAAATGATATAAAAGGCTAATTTTGGTCTTTTTTCACCATATCTCCCTT
*
13353778 ATTCCCTCTCTCTTTTCTCCCATTTTCTCTCCCTTTTCTTTCTAGAACCCCTAAGAACACCAGTT
66 ATTCCCTCTCTCTTTTCTCCCATTTTCTCT-CCTTTTCTTTCTAGAACCCCTAAGAACACCAATT
*
13353843 GAATTTCATTCAATTCTAAAAAATCTGATTGGAATCTAGGTTATTCACCAGAAGTTCATCGAAAA
130 GAATTTCATTCAATTCTAAAAAATCTGATTGAAATCTAGGTTATTCACCAGAAGTTCATCGAAAA
*
13353908 GTTCATCGATTTTTAAAAAATAGATGTCAAAAACTGCAAGCTTAGCCGAAATTTGGGGAGGTCAT
195 GTTCATCGATTTTTAAAAAATAGATGTCAAAAACTGCAAGCTTAGCCGAAATCTGGGGAGGTCAT
13353973 TGAAAAGTCATTGAAAAATTCAATCTTCACTGGAAAATTTTACCAAAATCTA
260 TGAAAAGTCATTGAAAAATTCAATCTTCACTGGAAAATTTTACCAAAATCTA
13354025 AAAAT
1 AAAAT
13354030 TTTTCAAAAA
Statistics
Matches: 309, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
311 94 0.30
312 215 0.70
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (311 bp):
AAAATGATATCATTTTAAAATGATATAAAAGGCTAATTTTGGTCTTTTTTCACCATATCTCCCTT
ATTCCCTCTCTCTTTTCTCCCATTTTCTCTCCTTTTCTTTCTAGAACCCCTAAGAACACCAATTG
AATTTCATTCAATTCTAAAAAATCTGATTGAAATCTAGGTTATTCACCAGAAGTTCATCGAAAAG
TTCATCGATTTTTAAAAAATAGATGTCAAAAACTGCAAGCTTAGCCGAAATCTGGGGAGGTCATT
GAAAAGTCATTGAAAAATTCAATCTTCACTGGAAAATTTTACCAAAATCTA
Found at i:13354234 original size:20 final size:20
Alignment explanation
Indices: 13354209--13354248 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13354199 TTTGAACTTT
*
13354209 TAATCTTAT-TCAACCTCTTC
1 TAATC-TATCTCAAACTCTTC
13354229 TAATCTATCTCAAACTCTTC
1 TAATCTATCTCAAACTCTTC
13354249 AAGTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATCTATCTCAAACTCTTC
Found at i:13364110 original size:20 final size:21
Alignment explanation
Indices: 13364078--13364116 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13364068 CCATCTTTAA
*
13364078 TTGTTGTTTTAAGTTAATTAG
1 TTGTTGTTTTAAGATAATTAG
13364099 TTGTTG-TTTAAGATAATT
1 TTGTTGTTTTAAGATAATT
13364117 TTCTGTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (21 bp):
TTGTTGTTTTAAGATAATTAG
Found at i:13368830 original size:30 final size:31
Alignment explanation
Indices: 13368778--13368844 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
13368768 TGTTTAATTC
*
13368778 AAAATTAAATATTTTAATTTAT-ATAA-ATA
1 AAAATTAAATATTTCAATTTATAATAATATA
* *
13368807 AAAATTAAATATTATCGATTTATAATAATTTA
1 AAAATTAAATATT-TCAATTTATAATAATATA
13368839 AAAATT
1 AAAATT
13368845 TTTAACCTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.41
30 7 0.22
31 4 0.12
32 8 0.25
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (31 bp):
AAAATTAAATATTTCAATTTATAATAATATA
Found at i:13373761 original size:29 final size:29
Alignment explanation
Indices: 13373696--13373785 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 29
13373686 TTTAAATACA
** * * *
13373696 ATACAAATAAATGCAACTAACACAAATAT
1 ATACAAATAAACACGACTAATACAGATAT
* * * *
13373725 AAATAAATAGACATGACTAATACAGATAT
1 ATACAAATAAACACGACTAATACAGATAT
* *
13373754 ATACAAATAAATACGATTAATACAGATAT
1 ATACAAATAAACACGACTAATACAGATAT
13373783 ATA
1 ATA
13373786 TAAAAATATG
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.24
Consensus pattern (29 bp):
ATACAAATAAACACGACTAATACAGATAT
Found at i:13375079 original size:24 final size:23
Alignment explanation
Indices: 13375035--13375091 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
13375025 ACGCTTGCAG
*
13375035 TAAAAAATAGTAAAAATAAAAAA
1 TAAAAAATAGTAAAAACAAAAAA
* * *
13375058 TAAAAAGTCAGTAAAACCAAAAATC
1 TAAAAAAT-AGTAAAAACAAAAA-A
13375083 TAAAAAATA
1 TAAAAAATA
13375092 CTTTCCATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 7 0.26
24 13 0.48
25 7 0.26
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.18
Consensus pattern (23 bp):
TAAAAAATAGTAAAAACAAAAAA
Found at i:13375497 original size:16 final size:16
Alignment explanation
Indices: 13375468--13375504 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
13375458 GAAATTAATG
13375468 TAAATAATATTAAATA
1 TAAATAATATTAAATA
13375484 TAAA-AATATATAAATA
1 TAAATAATAT-TAAATA
13375500 TAAAT
1 TAAAT
13375505 TAACTGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAATAATATTAAATA
Found at i:13376038 original size:17 final size:17
Alignment explanation
Indices: 13376016--13376051 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
13376006 CTTAATCCAC
13376016 ATATAATATAAAT-ATAA
1 ATATAA-ATAAATCATAA
13376033 ATATAAATAAATCATAA
1 ATATAAATAAATCATAA
13376050 AT
1 AT
13376052 TAAGCCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAATAAATCATAA
Found at i:13382491 original size:34 final size:34
Alignment explanation
Indices: 13382446--13382513 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
13382436 CCATGAACAA
*
13382446 GAACACATGACATAAGACTGACTTGATAGAAGTG
1 GAACACATGACATAAGACTGACCTGATAGAAGTG
* * *
13382480 GAACACGTGACATAAGATTGACCTGATATAAGTG
1 GAACACATGACATAAGACTGACCTGATAGAAGTG
13382514 TACTCTTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (34 bp):
GAACACATGACATAAGACTGACCTGATAGAAGTG
Found at i:13389280 original size:12 final size:12
Alignment explanation
Indices: 13389263--13389288 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13389253 TAATATATAA
13389263 AAAATTTAAAAT
1 AAAATTTAAAAT
13389275 AAAATTTAAAAT
1 AAAATTTAAAAT
13389287 AA
1 AA
13389289 TATAATGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTTAAAAT
Found at i:13389822 original size:27 final size:27
Alignment explanation
Indices: 13389782--13389833 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13389772 AATAAAAATT
* *
13389782 TAAATTATTTAAATTTTATAAAATTAA
1 TAAATAATTGAAATTTTATAAAATTAA
*
13389809 TAAATAATTGAAATTTTATTAAATT
1 TAAATAATTGAAATTTTATAAAATT
13389834 GTTTTATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
TAAATAATTGAAATTTTATAAAATTAA
Found at i:13389879 original size:7 final size:7
Alignment explanation
Indices: 13389869--13389894 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13389859 TGTTAATAAT
13389869 TAATTAA
1 TAATTAA
13389876 TAATTAA
1 TAATTAA
13389883 TAATTAA
1 TAATTAA
13389890 TAATT
1 TAATT
13389895 TGATCTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TAATTAA
Found at i:13391677 original size:2 final size:2
Alignment explanation
Indices: 13391670--13391696 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13391660 TCTGCGTATC
13391670 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 T
13391697 TTCAGTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13391745 original size:2 final size:2
Alignment explanation
Indices: 13391738--13391774 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13391728 TACGTGACAC
13391738 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13391775 TCATGGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13393611 original size:83 final size:83
Alignment explanation
Indices: 13393464--13393624 Score: 225
Period size: 83 Copynumber: 1.9 Consensus size: 83
13393454 ATTGTCTTCC
* ** * *
13393464 TGAAAATAATTCTCAGTGTAATATTTAATTTGAATAACTAACGAGGAGACGTTCTACATCTTATT
1 TGAAAATAATTATCAGTGTAATATTTAATTTGAATAACTAAAAAGGACACATTCTACATCTTATT
13393529 GATGCATTCGGAGTCAGT
66 GATGCATTCGGAGTCAGT
* * *
13393547 TGAATATAATTATCAGTTTAATATTTAATTTGAATAGA-TAAAAAGGACACATTCTACATGTTAT
1 TGAAAATAATTATCAGTGTAATATTTAATTTGAATA-ACTAAAAAGGACACATTCTACATCTTAT
*
13393611 TGGTGCATTCGGAG
65 TGATGCATTCGGAG
13393625 CAGCTGCAGT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 67 0.99
84 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.36
Consensus pattern (83 bp):
TGAAAATAATTATCAGTGTAATATTTAATTTGAATAACTAAAAAGGACACATTCTACATCTTATT
GATGCATTCGGAGTCAGT
Found at i:13394785 original size:20 final size:20
Alignment explanation
Indices: 13394745--13394786 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
13394735 TTTTTCCAAC
**
13394745 TTTTTTGTTCCTTTTTCTTT
1 TTTTTTGTTCCTTTTGATTT
*
13394765 TTTTTTTTTCCTTTTGATTT
1 TTTTTTGTTCCTTTTGATTT
13394785 TT
1 TT
13394787 GGTTTGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.81
Consensus pattern (20 bp):
TTTTTTGTTCCTTTTGATTT
Found at i:13401547 original size:22 final size:21
Alignment explanation
Indices: 13401519--13401593 Score: 84
Period size: 23 Copynumber: 3.6 Consensus size: 21
13401509 AATTTTACTT
13401519 ATAAATAATATTATATTAATTA
1 ATAAATAATATTATA-TAATTA
13401541 ATAAATAATA-T-TAT-ATTA
1 ATAAATAATATTATATAATTA
* *
13401559 ACAAATAATATTACAATATATTA
1 ATAAATAATATTA-TATA-ATTA
13401582 ATAAATAATATT
1 ATAAATAATATT
13401594 TTAATACATA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 13 0.29
19 2 0.04
20 2 0.04
21 3 0.07
22 10 0.22
23 15 0.33
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAATAATATTATATAATTA
Found at i:13401569 original size:13 final size:13
Alignment explanation
Indices: 13401553--13401593 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
13401543 AAATAATATT
13401553 ATATTAACAAATA
1 ATATTAACAAATA
13401566 ATATT-AC-AAT-
1 ATATTAACAAATA
*
13401576 ATATTAATAAATA
1 ATATTAACAAATA
13401589 ATATT
1 ATATT
13401594 TTAATACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
10 5 0.21
11 4 0.17
12 5 0.21
13 10 0.42
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATTAACAAATA
Found at i:13401724 original size:23 final size:22
Alignment explanation
Indices: 13401678--13401727 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
13401668 ACATAATAAA
13401678 AAATATTATTAATTTAATTAAT
1 AAATATTATTAATTTAATTAAT
13401700 AAATATTATAATAATTT-ATTAAT
1 AAATATTAT--TAATTTAATTAAT
13401723 AAATA
1 AAATA
13401728 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 9 0.35
23 11 0.42
24 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATATTATTAATTTAATTAAT
Found at i:13401830 original size:25 final size:24
Alignment explanation
Indices: 13401802--13401872 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 24
13401792 AATTATTTTT
*
13401802 TAATATTAATAATTTTATTAATAAA
1 TAAT-TTAATAATTTTAATAATAAA
13401827 TAATTTCAATATATTTTAATAATAAA
1 TAATTT-AATA-ATTTTAATAATAAA
13401853 TAATTTTTAAT-ATTTTAATA
1 TAA--TTTAATAATTTTAATA
13401873 GTTATATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
24 2 0.05
25 17 0.41
26 16 0.39
27 3 0.07
28 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATTTAATAATTTTAATAATAAA
Found at i:13401830 original size:36 final size:37
Alignment explanation
Indices: 13401762--13401831 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 37
13401752 TAAGATAATA
13401762 TTTTAATATTAAATATTATTATTAAAATATAATTATT
1 TTTTAATATTAAATATTATTATTAAAATATAATTATT
13401799 TTTTAATATT-AATAATT-TTATTAATAA-ATAATT
1 TTTTAATATTAAAT-ATTATTATTAA-AATATAATT
13401832 TCAATATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
36 16 0.52
37 15 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (37 bp):
TTTTAATATTAAATATTATTATTAAAATATAATTATT
Found at i:13401849 original size:26 final size:26
Alignment explanation
Indices: 13401809--13401872 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
13401799 TTTTAATATT
*
13401809 AATA-ATTTTATTAATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
*
13401834 AATATATTTTAATAATAAATAATTTT
1 AATATATTTTAATAATAAATAATTTC
*
13401860 TA-ATATTTTAATA
1 AATATATTTTAATA
13401873 GTTATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:13402019 original size:13 final size:14
Alignment explanation
Indices: 13401994--13402028 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
13401984 AAAATGTAAA
13401994 CATTTTCTAG-AAAT
1 CATTTT-TAGAAAAT
13402008 CATTTTTAGAAAAT
1 CATTTTTAGAAAAT
13402022 CATTTTT
1 CATTTTT
13402029 TACGAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 3 0.15
14 17 0.85
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (14 bp):
CATTTTTAGAAAAT
Found at i:13402028 original size:15 final size:15
Alignment explanation
Indices: 13401994--13402035 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
13401984 AAAATGTAAA
*
13401994 CATTTTCTAG-AAAT
1 CATTTTTTAGAAAAT
13402008 CA-TTTTTAGAAAAT
1 CATTTTTTAGAAAAT
13402022 CATTTTTTACGAAA
1 CATTTTTTA-GAAA
13402036 CAAACAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.25
14 8 0.33
15 6 0.25
16 4 0.17
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (15 bp):
CATTTTTTAGAAAAT
Found at i:13402259 original size:2 final size:2
Alignment explanation
Indices: 13402252--13402285 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13402242 TTAAGACAAC
13402252 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13402286 TAATAATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13403126 original size:19 final size:18
Alignment explanation
Indices: 13403102--13403137 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
13403092 TATCTCCTAA
*
13403102 GAGTCTAATAATAAAAAAG
1 GAGTCTAACAA-AAAAAAG
13403121 GAGTCTAACAAAAAAAA
1 GAGTCTAACAAAAAAAA
13403138 TTATTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.17
Consensus pattern (18 bp):
GAGTCTAACAAAAAAAAG
Found at i:13404916 original size:127 final size:124
Alignment explanation
Indices: 13404751--13405128 Score: 337
Period size: 127 Copynumber: 3.0 Consensus size: 124
13404741 TAAATACAGG
* * *
13404751 AATTGATTGTTTTAAAAGAACTACAATG-ATTAATTACTGCATTATAAAACAAAGCAACACATGT
1 AATTGATTGTTTTAAAACAATTACATTGTATT-ATTACTGCATTATAAAACAAAGCAACA-ATG-
**
13404815 ATTTGATAATTTGAAAAAAATCAGAATTATCAATTATTGCATTTCAAAGCCTATAAATGCAAC
63 AAATGATAATTTGAAAAAAAT-AGAATTATCAATTATTGCATTTCAAAGCCTATAAATGCAAC
* * *** *
13404878 AATTGATTGTTTCAAAACAATTACTTTGTATTATTACTGCGCCATAAAACAAAGCAATGCAATAA
1 AATTGATTGTTTTAAAACAATTACATTGTATTATTACTGCATTATAAAACAAAGCAA--CAATGA
* * ** * * ** * * * *
13404943 AATAATCATTTGAAAAATTTGGAATTATCAATTACTGTGTTTTAAAGCCAATAAACGCAAT
64 AATGATAATTTGAAAAAAATAGAATTATCAATTATTGCATTTCAAAGCCTATAAATGCAAC
* * * * * * * * *
13405004 AATTGATGGTTTTAAAACAATTGCATTGTTTTATTTATTACGTTTAGAAAACAAAGGAAC-GTAG
1 AATTGATTGTTTTAAAACAATTACATTGTATTA-TTACTGC-ATTATAAAACAAAGCAACAAT-G
* * *
13405068 AAATGATTATTTTTAAAAAAATAGAATTATCAATTATTGCATTTCAAATCCTATAAATGCA
63 AAATGA-TAATTTGAAAAAAATAGAATTATCAATTATTGCATTTCAAAGCCTATAAATGCA
13405129 GTAATTTATT
Statistics
Matches: 193, Mismatches: 51, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
125 1 0.01
126 67 0.35
127 106 0.55
128 17 0.09
129 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (124 bp):
AATTGATTGTTTTAAAACAATTACATTGTATTATTACTGCATTATAAAACAAAGCAACAATGAAA
TGATAATTTGAAAAAAATAGAATTATCAATTATTGCATTTCAAAGCCTATAAATGCAAC
Found at i:13405224 original size:62 final size:63
Alignment explanation
Indices: 13405158--13405312 Score: 152
Period size: 63 Copynumber: 2.5 Consensus size: 63
13405148 TATTATGCAA
* * * *
13405158 ATCAATTACTGCATTATAAAAGAAAGAAACACAGTAATTGAT-TATTGTAAAA-ATTTACAATT
1 ATCAATTATTGCATTATAAAAAAAAGAAACACAGTAATTGATAT-TTGTAAAAGAATTACAATG
* * * ** * *
13405220 ATCAATTATTTCATTTTAAAACAAAAGCAATGCAGTATTTGATATTTGTAAAAGAATTATAATG
1 ATCAATTATTGCATTATAAAA-AAAAGAAACACAGTAATTGATATTTGTAAAAGAATTACAATG
* * *
13405284 ATCATTTATTGCGTTATAAAATAAAGAAA
1 ATCAATTATTGCATTATAAAAAAAAGAAA
13405313 TGTAGTAGTT
Statistics
Matches: 73, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
62 18 0.25
63 30 0.41
64 25 0.34
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.35
Consensus pattern (63 bp):
ATCAATTATTGCATTATAAAAAAAAGAAACACAGTAATTGATATTTGTAAAAGAATTACAATG
Found at i:13405523 original size:17 final size:17
Alignment explanation
Indices: 13405501--13405537 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
13405491 TTGCCATCGA
13405501 ATTCAAGTAAAAATATG
1 ATTCAAGTAAAAATATG
13405518 ATTCAAGTAAAAATATG
1 ATTCAAGTAAAAATATG
13405535 ATT
1 ATT
13405538 GTTTTTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.32
Consensus pattern (17 bp):
ATTCAAGTAAAAATATG
Found at i:13406563 original size:2 final size:2
Alignment explanation
Indices: 13406556--13406581 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13406546 AACAGACTTT
13406556 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
13406582 AAAGCTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13413571 original size:13 final size:13
Alignment explanation
Indices: 13413553--13413577 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13413543 TTTTAAGATT
13413553 ATTTTATTATATG
1 ATTTTATTATATG
13413566 ATTTTATTATAT
1 ATTTTATTATAT
13413578 TTCTATTAGG
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTTTATTATATG
Found at i:13413947 original size:77 final size:78
Alignment explanation
Indices: 13413853--13414032 Score: 215
Period size: 77 Copynumber: 2.3 Consensus size: 78
13413843 TCATAAGAAC
* * *
13413853 TTTTATTTTAAATATTTCTAAAAT-GGTTAAAACTTTTATAAAAAAACTTTCA-TTAACCATTTC
1 TTTTATTTTAAATATTTC-AAAATCAGTGAAAACTTTTATAAAAAAA-TTTCATTTAAACATTTC
13413916 C-AAAATAGTGGAAA
64 CAAAAATAGTGGAAA
* * * *
13413930 TTTTATTTTTAAA-ATTTCCAAATCAGTGGAAACTTTTATACAAAAATTTTATTTTAAACATTTC
1 TTTTA-TTTTAAATATTTCAAAATCAGTGAAAACTTTTATAAAAAAATTTCA-TTTAAACATTTC
*
13413994 CAAAAATGGTGGAAA
64 CAAAAATAGTGGAAA
13414009 TTTTATTTTAAATATTTTCAAAAT
1 TTTTATTTTAAATA-TTTCAAAAT
13414033 AATAGAAAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
76 8 0.09
77 28 0.32
78 25 0.29
79 18 0.21
80 8 0.09
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (78 bp):
TTTTATTTTAAATATTTCAAAATCAGTGAAAACTTTTATAAAAAAATTTCATTTAAACATTTCCA
AAAATAGTGGAAA
Found at i:13416942 original size:10 final size:10
Alignment explanation
Indices: 13416927--13416969 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
13416917 ATTTAAATTG
13416927 TTTCTTTTTT
1 TTTCTTTTTT
13416937 TTTC-TTTTT
1 TTTCTTTTTT
*
13416946 TTACTTTTTT
1 TTTCTTTTTT
*
13416956 TCTCTTTTATT
1 TTTCTTTT-TT
13416967 TTT
1 TTT
13416970 TTTAAGCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.30
10 15 0.56
11 4 0.15
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:13416955 original size:17 final size:15
Alignment explanation
Indices: 13416933--13416971 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
13416923 ATTGTTTCTT
*
13416933 TTTTTTTCTTTTTTTA
1 TTTTTTTC-TCTTTTA
13416949 CTTTTTTTCTCTTTTA
1 -TTTTTTTCTCTTTTA
13416965 TTTTTTT
1 TTTTTTT
13416972 TAAGCAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 6 0.29
17 8 0.38
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTTTCTCTTTTA
Found at i:13430294 original size:139 final size:143
Alignment explanation
Indices: 13430069--13430340 Score: 367
Period size: 140 Copynumber: 1.9 Consensus size: 143
13430059 TCAAGTTCAA
* * * *
13430069 GAAGGTTAAATTATGAAAATACCCCTTAGGGGTATTTTGGCAATTTCACATCTCTCAGGGTACTA
1 GAAGGCTAAATTATGAAAATACCCCTTAGGGATATTTTGACAATTTCACAGCTCTCAGGGTACTA
* *
13430134 CTGAGATTTCAAATGCACC-AAAATCATGAAATATT-TGAAATTGAGATATGAAAAG-TTCATGA
66 CTGAGATTTCAAATGCACCAAAAAGCATGAAATATTATGAAATTAAGATATGAAAAGTTTCATGA
13430196 AAATCCAAGCTAG
131 AAATCCAAGCTAG
* ** *
13430209 GAAGGCTAAATTATGAAAATA-CCCTTAAGGGATATTTTGATAATTTCACAGCT-TTGGGGTATT
1 GAAGGCTAAATTATGAAAATACCCCTT-AGGGATATTTTGACAATTTCACAGCTCTCAGGGTACT
* * *
13430272 GCT-ATGATTTCAAATGCACCAAAAAGCATGAAGTATTATGAAATTAAGATTTGAAAAGTTTCAT
65 ACTGA-GATTTCAAATGCACCAAAAAGCATGAAATATTATGAAATTAAGATATGAAAAGTTTCAT
13430336 GAAAA
129 GAAAA
13430341 AAAAGACTCA
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
138 1 0.01
139 29 0.25
140 56 0.49
141 18 0.16
142 10 0.09
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (143 bp):
GAAGGCTAAATTATGAAAATACCCCTTAGGGATATTTTGACAATTTCACAGCTCTCAGGGTACTA
CTGAGATTTCAAATGCACCAAAAAGCATGAAATATTATGAAATTAAGATATGAAAAGTTTCATGA
AAATCCAAGCTAG
Found at i:13430730 original size:21 final size:23
Alignment explanation
Indices: 13430689--13430731 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
13430679 CGAGCTCTTA
13430689 AAATGGGCTTTCTTATAGGCTTC
1 AAATGGGCTTTCTTATAGGCTTC
*
13430712 AAATGGG-TTTGTT-TAGGCTT
1 AAATGGGCTTTCTTATAGGCTT
13430732 GTAATTGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 7 0.37
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.42
Consensus pattern (23 bp):
AAATGGGCTTTCTTATAGGCTTC
Found at i:13436132 original size:24 final size:23
Alignment explanation
Indices: 13436104--13436151 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
13436094 TATAAAATAC
*
13436104 AAAAAAAATGATAAATACATTTAT
1 AAAAAAAATGA-AAATAAATTTAT
*
13436128 AAAAAAAATGAAATTAAATTTAT
1 AAAAAAAATGAAAATAAATTTAT
13436151 A
1 A
13436152 GATTAGACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (23 bp):
AAAAAAAATGAAAATAAATTTAT
Found at i:13442601 original size:2 final size:2
Alignment explanation
Indices: 13442594--13442644 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
13442584 TAAAATGAAT
* * *
13442594 TA TA TA TA TA TG TA TG TA TA TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13442636 TA TA TA TA T
1 TA TA TA TA T
13442645 CTGCGTAGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13442615 original size:14 final size:14
Alignment explanation
Indices: 13442594--13442644 Score: 84
Period size: 14 Copynumber: 3.6 Consensus size: 14
13442584 TAAAATGAAT
13442594 TATATATATATGTA
1 TATATATATATGTA
*
13442608 TGTATATATATGTA
1 TATATATATATGTA
*
13442622 TATATATATATATA
1 TATATATATATGTA
13442636 TATATATAT
1 TATATATAT
13442645 CTGCGTAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (14 bp):
TATATATATATGTA
Found at i:13445876 original size:52 final size:52
Alignment explanation
Indices: 13445809--13445907 Score: 198
Period size: 52 Copynumber: 1.9 Consensus size: 52
13445799 AATTTTCACG
13445809 AATATTCAACCATTTGTGTATATTAATTTTATTTATTATATATTTTCGACAA
1 AATATTCAACCATTTGTGTATATTAATTTTATTTATTATATATTTTCGACAA
13445861 AATATTCAACCATTTGTGTATATTAATTTTATTTATTATATATTTTC
1 AATATTCAACCATTTGTGTATATTAATTTTATTTATTATATATTTTC
13445908 CTAATTCTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (52 bp):
AATATTCAACCATTTGTGTATATTAATTTTATTTATTATATATTTTCGACAA
Found at i:13449331 original size:15 final size:15
Alignment explanation
Indices: 13449305--13449349 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
13449295 ATTTTGTATT
13449305 TTTATT-TTATTTTA
1 TTTATTATTATTTTA
13449319 TTTATTATTA-TTTA
1 TTTATTATTATTTTA
*
13449333 TTAATATATT-TTTTA
1 TTTAT-TATTATTTTA
13449348 TT
1 TT
13449350 ATTTATCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTATTATTTTA
Found at i:13449350 original size:15 final size:15
Alignment explanation
Indices: 13449314--13449379 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
13449304 TTTTATTTTA
*
13449314 TTTTATTTAT-TATT
1 TTTTATTAATATATT
*
13449328 ATTTATTAATATATT
1 TTTTATTAATATATT
*
13449343 TTTTATT-ATTTATCT
1 TTTTATTAATATAT-T
13449358 ATTAATTATTAATATATT
1 -TT--TTATTAATATATT
13449376 TTTT
1 TTTT
13449380 TATTTTATCT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
14 13 0.32
15 13 0.32
16 2 0.05
17 2 0.05
18 6 0.15
19 5 0.12
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTATTAATATATT
Found at i:13449351 original size:18 final size:18
Alignment explanation
Indices: 13449330--13449379 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 18
13449320 TTATTATTAT
13449330 TTATTAATATATTTTTTA
1 TTATTAATATATTTTTTA
* * *
13449348 TTATT--TAT-CTATTAA
1 TTATTAATATATTTTTTA
13449363 TTATTAATATATTTTTT
1 TTATTAATATATTTTTT
13449380 TATTTTATCT
Statistics
Matches: 23, Mismatches: 6, Indels: 6
0.66 0.17 0.17
Matches are distributed among these distances:
15 9 0.39
16 3 0.13
17 3 0.13
18 8 0.35
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTAATATATTTTTTA
Found at i:13449367 original size:33 final size:31
Alignment explanation
Indices: 13449307--13449384 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 31
13449297 TTTGTATTTT
*
13449307 TATTTTATTTTATTTATTATTATTTATTAATA
1 TATTTT-TTTTATTTATTATTAATTATTAATA
13449339 TATTTTTTATTATTTATCTATTAATTATTAATA
1 TATTTTTT-TTATTTAT-TATTAATTATTAATA
13449372 TA-TTTTTTTATTT
1 TATTTTTTTTATTT
13449385 TATCTTGATT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
31 8 0.19
32 19 0.44
33 16 0.37
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (31 bp):
TATTTTTTTTATTTATTATTAATTATTAATA
Found at i:13450124 original size:3 final size:3
Alignment explanation
Indices: 13450118--13450195 Score: 129
Period size: 3 Copynumber: 25.0 Consensus size: 3
13450108 TTTTTCTTAT
13450118 TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13450164 TTA TTA TTA TTA TTA TTA TTA CTTA TTGA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA
13450196 GATTATAATA
Statistics
Matches: 72, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
3 63 0.88
4 9 0.12
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:13450227 original size:5 final size:5
Alignment explanation
Indices: 13450217--13450251 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
13450207 TTTGGTATTC
13450217 TTTAT TTTATT TTTAT TTATAT TTTAT TTTAT TTT
1 TTTAT TTTA-T TTTAT TT-TAT TTTAT TTTAT TTT
13450252 TTTAAATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:13450239 original size:12 final size:11
Alignment explanation
Indices: 13450212--13450252 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
13450202 AATAATTTGG
13450212 TATTCTTTATTT
1 TATT-TTTATTT
13450224 TATTTTTA-TT
1 TATTTTTATTT
13450234 TATATTTTATTT
1 TAT-TTTTATTT
13450246 TATTTTT
1 TATTTTT
13450253 TTAAATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 5 0.19
11 13 0.48
12 9 0.33
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:13450241 original size:17 final size:16
Alignment explanation
Indices: 13450219--13450250 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
13450209 TGGTATTCTT
13450219 TATTTTATTTTTATTTA
1 TATTTTA-TTTTATTTA
13450236 TATTTTATTTTATTT
1 TATTTTATTTTATTT
13450251 TTTTAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTTTATTTTATTTA
Found at i:13450253 original size:12 final size:12
Alignment explanation
Indices: 13450212--13450253 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
13450202 AATAATTTGG
*
13450212 TATTCTTTATTT
1 TATTTTTTATTT
13450224 TA-TTTTTA-TT
1 TATTTTTTATTT
*
13450234 TATATTTTATTT
1 TATTTTTTATTT
13450246 TATTTTTT
1 TATTTTTT
13450254 TAAATGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 4 0.16
11 10 0.40
12 11 0.44
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:13450368 original size:56 final size:56
Alignment explanation
Indices: 13450260--13450442 Score: 176
Period size: 57 Copynumber: 3.2 Consensus size: 56
13450250 TTTTTAAATG
* * *
13450260 ATTTT-CTT-AAAATAAAATTCTAAAAAAATATTTTTGAGAAAAAGTTAAAAGTATTA
1 ATTTTCCTTGAAAATAAATTTCT-AAAAAATA-TTTTGAGGAAAAGTTAAAAGTATCA
* *
13450316 ATTTTCCTTGAAAATAATTTTCTAAAAAATATGTTTGAGGAAAA-TTGAAAGTATCA
1 ATTTTCCTTGAAAATAAATTTCTAAAAAATAT-TTTGAGGAAAAGTTAAAAGTATCA
* * * * * *
13450372 ATTTTCCTCGAAATTAAAGTTTCAAAAAAATATTTT-AGGAAAAAATTAGAAGTACCA
1 ATTTTCCTTGAAAATAAA-TTTCTAAAAAATATTTTGAGG-AAAAGTTAAAAGTATCA
* *
13450429 ATTTTTCTTAAAAA
1 ATTTTCCTTGAAAA
13450443 AAAACATTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
55 3 0.03
56 38 0.36
57 53 0.50
58 11 0.10
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (56 bp):
ATTTTCCTTGAAAATAAATTTCTAAAAAATATTTTGAGGAAAAGTTAAAAGTATCA
Found at i:13450459 original size:44 final size:46
Alignment explanation
Indices: 13450395--13450483 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 46
13450385 TTAAAGTTTC
* *
13450395 AAAAAAATATTTTAGGAAAAAA-TT-AGAAGTACCAATTTTTCTTAA
1 AAAAAAACATTTTAGAAAAAAAGTTGA-AAGTACCAATTTTTCTTAA
*
13450440 AAAAAAACATTTTA-AAAAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAAAAACATTTTAGAAAAAAAGTTGAAAGTACCAATTTTTCTTA
13450484 TACAAAAGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 6 0.15
45 32 0.82
46 1 0.03
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.34
Consensus pattern (46 bp):
AAAAAAACATTTTAGAAAAAAAGTTGAAAGTACCAATTTTTCTTAA
Found at i:13450557 original size:11 final size:11
Alignment explanation
Indices: 13450541--13450574 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
13450531 TAAATCATTA
13450541 TTCTTTTTTTT
1 TTCTTTTTTTT
13450552 TTCTTTTTTTT
1 TTCTTTTTTTT
13450563 TTCATTTTTTTT
1 TTC-TTTTTTTT
13450575 AATGTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:13451579 original size:17 final size:18
Alignment explanation
Indices: 13451554--13451600 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
13451544 ATAATAAAAA
13451554 ATATATTTTATTATTT-T
1 ATATATTTTATTATTTAT
*
13451571 ATTTATTTTA-TATTTAT
1 ATATATTTTATTATTTAT
*
13451588 ATATATTATATTA
1 ATATATTTTATTA
13451601 ATAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 5 0.20
17 18 0.72
18 2 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATATATTTTATTATTTAT
Found at i:13451596 original size:15 final size:15
Alignment explanation
Indices: 13451562--13451629 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
13451552 AAATATATTT
*
13451562 TATTAT-TTTATTTA
1 TATTATATTTATATA
*
13451576 TTTTATATTTATATA
1 TATTATATTTATATA
*
13451591 TATTATATTAATA-A
1 TATTATATTTATATA
* *
13451605 AATTATTATTCA-ATA
1 TATTA-TATTTATATA
13451620 TATTA-ATTTA
1 TATTATATTTA
13451630 AGAGATTAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
13 4 0.09
14 11 0.26
15 28 0.65
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTATATTTATATA
Found at i:13451598 original size:9 final size:9
Alignment explanation
Indices: 13451554--13451594 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
13451544 ATAATAAAAA
13451554 ATATATTTT
1 ATATATTTT
13451563 AT-TATTTT
1 ATATATTTT
*
13451571 ATTTATTTT
1 ATATATTTT
*
13451580 ATAT-TTAT
1 ATATATTTT
13451588 ATATATT
1 ATATATT
13451595 ATATTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATATATTTT
Found at i:13453920 original size:2 final size:2
Alignment explanation
Indices: 13453908--13453942 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
13453898 TGAGCAAGCA
13453908 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13453943 ATGTGCATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:13458832 original size:5 final size:6
Alignment explanation
Indices: 13458815--13458839 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13458805 ATATATAAAA
13458815 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
13458840 TGGACAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:13460860 original size:30 final size:29
Alignment explanation
Indices: 13460814--13460893 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
13460804 ATAATAATGT
13460814 AATTTTT-TAATTTTATAAATGATATTAAA
1 AATTTTTATAATTTTATAAAT-ATATTAAA
* * * *
13460843 AATTTTTATATTTTTATATATATTTTTAA
1 AATTTTTATAATTTTATAAATATATTAAA
*
13460872 AATTTTTAAAATATATTATAAA
1 AATTTTTATAAT-T-TTATAAA
13460894 ATTCGTATCT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 23 0.56
30 12 0.29
31 6 0.15
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (29 bp):
AATTTTTATAATTTTATAAATATATTAAA
Found at i:13460885 original size:20 final size:20
Alignment explanation
Indices: 13460838--13460896 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
13460828 ATAAATGATA
*
13460838 TTAAAA-ATTTTT-ATATTT
1 TTAAAATATTTTTAAAATTT
*
13460856 TTATATATATTTTTAAAATTT
1 TTA-AAATATTTTTAAAATTT
*
13460877 TTAAAATATATTATAAAATT
1 TTAAAATAT-TTTTAAAATT
13460897 CGTATCTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 11 0.33
21 17 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAAAATATTTTTAAAATTT
Found at i:13463163 original size:27 final size:28
Alignment explanation
Indices: 13463099--13463164 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 28
13463089 AATTCTTAAA
13463099 ATTTAATAATTATTAATAAAATAAAATG
1 ATTTAATAATTATTAATAAAATAAAATG
* * *
13463127 ATTTCA-AATTA-TAA-ATAATAAAATT
1 ATTTAATAATTATTAATAAAATAAAATG
13463152 ATTTTAATAATTA
1 A-TTTAATAATTA
13463165 CATTACCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 10 0.31
26 7 0.22
27 10 0.31
28 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
ATTTAATAATTATTAATAAAATAAAATG
Done.