Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 91 of 120
Found at i:12023067 original size:11 final size:12
Alignment explanation
Indices: 12023050--12023091 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
12023040 ATCTCATAAA
12023050 AGATTTGTTTAG
1 AGATTTGTTTAG
12023062 -GATTTG-TTAG
1 AGATTTGTTTAG
*
12023072 AAATTTGTTT-G
1 AGATTTGTTTAG
12023083 AGATTTGTT
1 AGATTTGTT
12023092 AGATATTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 4 0.15
11 20 0.77
12 2 0.08
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (12 bp):
AGATTTGTTTAG
Found at i:12023080 original size:22 final size:22
Alignment explanation
Indices: 12023052--12023094 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12023042 CTCATAAAAG
12023052 ATTTGTTT-AGGATTTGTTAGAA
1 ATTTGTTTGA-GATTTGTTAGAA
12023074 ATTTGTTTGAGATTTGTTAGA
1 ATTTGTTTGAGATTTGTTAGA
12023095 TATTGCTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (22 bp):
ATTTGTTTGAGATTTGTTAGAA
Found at i:12023172 original size:52 final size:52
Alignment explanation
Indices: 12023115--12023271 Score: 163
Period size: 52 Copynumber: 3.0 Consensus size: 52
12023105 TGGACAAGAA
* * *
12023115 GACTTGCAAAAGAAAAATT-TTAAGAGAAAGAAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAAAATTCTAAAAAGAAAG-AGATTCTTAATAGGCAAGTTT
* *
12023167 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAAAGAAAAATTCTAAAAAGAAAGAGATTCTTAATAGGCAAGTTT
* ** * * * ** * *
12023219 GACTTACAGGAGAAGAATTCTAAGAGGTGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAAAGAAAAATTCTAAAAAGAAAGAGATTCTTAATAGGCAAGTTT
12023271 G
1 G
12023272 TATAGTTATA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 82 0.90
53 9 0.10
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (52 bp):
GACTTGCAAAAGAAAAATTCTAAAAAGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:12026537 original size:41 final size:42
Alignment explanation
Indices: 12026487--12026566 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
12026477 TTTAAATTTA
12026487 AAAAAATATA-TTAAATTATTAGAAAATTAATTTTAAAAGAT
1 AAAAAATATATTTAAATTATTAGAAAATTAATTTTAAAAGAT
* * **
12026528 AAAATATATATTTAAATTATTATAAAATTCTTTTTAAAA
1 AAAAAATATATTTAAATTATTAGAAAATTAATTTTAAAA
12026567 AATATATCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 9 0.26
42 25 0.74
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (42 bp):
AAAAAATATATTTAAATTATTAGAAAATTAATTTTAAAAGAT
Found at i:12027435 original size:2 final size:2
Alignment explanation
Indices: 12027430--12027458 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12027420 ATATTTTGTA
12027430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12027459 GACGCACACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12031929 original size:16 final size:15
Alignment explanation
Indices: 12031909--12031952 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
12031899 TTAATTATGA
12031909 AAAAATAAAAAGTAG
1 AAAAATAAAAAGTAG
*
12031924 ATAAAATTAAAAATTAG
1 A-AAAA-TAAAAAGTAG
12031941 AAAAATGAAAAA
1 AAAAAT-AAAAA
12031953 AAAGAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 13 0.52
17 10 0.40
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAAATAAAAAGTAG
Found at i:12031929 original size:17 final size:16
Alignment explanation
Indices: 12031907--12031945 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
12031897 TTTTAATTAT
12031907 GAAAAAATAAAAAGTA
1 GAAAAAATAAAAAGTA
* *
12031923 GATAAAATTAAAAATTA
1 GA-AAAAATAAAAAGTA
12031940 GAAAAA
1 GAAAAA
12031946 TGAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (16 bp):
GAAAAAATAAAAAGTA
Found at i:12032428 original size:17 final size:16
Alignment explanation
Indices: 12032388--12032437 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
12032378 TATCCATATA
*
12032388 TTATTTTATTTATCATTT
1 TTATTTTATTT-T-ATTC
12032406 TTATTTTATTTTATTAC
1 TTATTTTATTTTATT-C
*
12032423 TTATTTTATCTTATT
1 TTATTTTATTTTATT
12032438 TATTTGTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 3 0.10
17 15 0.52
18 11 0.38
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTTTATTTTATTC
Found at i:12032428 original size:23 final size:22
Alignment explanation
Indices: 12032388--12032442 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
12032378 TATCCATATA
*
12032388 TTATTTTATTTATCATTTTTATT
1 TTATTTTATTTATCA-TTTTATC
*
12032411 TTATTTTA-TTACTTATTTTATC
1 TTATTTTATTTA-TCATTTTATC
12032433 TTA-TTTATTT
1 TTATTTTATTT
12032443 GTTGTTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 4 0.14
22 14 0.50
23 10 0.36
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (22 bp):
TTATTTTATTTATCATTTTATC
Found at i:12042292 original size:119 final size:119
Alignment explanation
Indices: 12042081--12042320 Score: 480
Period size: 119 Copynumber: 2.0 Consensus size: 119
12042071 AGTTTCTGGC
12042081 AAAGCAACTTGTTCCTTCCGGGGAACGTATCAATTATAATTTTTTTTATTATAATATTATATTAT
1 AAAGCAACTTGTTCCTTCCGGGGAACGTATCAATTATAATTTTTTTTATTATAATATTATATTAT
12042146 TTAATTATAATAAAATATTATATAAGAATCCATTATTATATTGTAATTTTATAT
66 TTAATTATAATAAAATATTATATAAGAATCCATTATTATATTGTAATTTTATAT
12042200 AAAGCAACTTGTTCCTTCCGGGGAACGTATCAATTATAATTTTTTTTATTATAATATTATATTAT
1 AAAGCAACTTGTTCCTTCCGGGGAACGTATCAATTATAATTTTTTTTATTATAATATTATATTAT
12042265 TTAATTATAATAAAATATTATATAAGAATCCATTATTATATTGTAATTTTATAT
66 TTAATTATAATAAAATATTATATAAGAATCCATTATTATATTGTAATTTTATAT
12042319 AA
1 AA
12042321 TTCTCATATA
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 121 1.00
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.46
Consensus pattern (119 bp):
AAAGCAACTTGTTCCTTCCGGGGAACGTATCAATTATAATTTTTTTTATTATAATATTATATTAT
TTAATTATAATAAAATATTATATAAGAATCCATTATTATATTGTAATTTTATAT
Found at i:12042356 original size:19 final size:18
Alignment explanation
Indices: 12042334--12042369 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
12042324 TCATATAATT
*
12042334 TTATATTGTAATTAATTAA
1 TTATATTATAA-TAATTAA
12042353 TTATATTATAATAATTA
1 TTATATTATAATAATTA
12042370 TAAAACGAAA
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:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTATATTATAATAATTAA
Found at i:12042363 original size:32 final size:34
Alignment explanation
Indices: 12042300--12042364 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 34
12042290 GAATCCATTA
* *
12042300 TTATATTGTAATTTTATATAATTCTCATATAATT
1 TTATATTGTAATTTAATATAATTATCATATAATT
12042334 TTATATTGTAA-TTAAT-TAATTAT-ATTATAAT
1 TTATATTGTAATTTAATATAATTATCA-TATAAT
12042365 AATTATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 1 0.04
32 12 0.43
33 4 0.14
34 11 0.39
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (34 bp):
TTATATTGTAATTTAATATAATTATCATATAATT
Found at i:12053439 original size:25 final size:25
Alignment explanation
Indices: 12053405--12053453 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
12053395 AGACTGTAGA
12053405 AATCTAATTCTCCTATATTAGTGCC
1 AATCTAATTCTCCTATATTAGTGCC
*
12053430 AATCTGATTCTCCTATATTAGTGC
1 AATCTAATTCTCCTATATTAGTGC
12053454 AGCTTGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (25 bp):
AATCTAATTCTCCTATATTAGTGCC
Found at i:12066338 original size:26 final size:26
Alignment explanation
Indices: 12066301--12066353 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
12066291 GCATAAGCTC
*
12066301 TAAAAAAAATTAATTCATAATTTTTT
1 TAAAAAAAATTAATTCATAATATTTT
* *
12066327 TAAAAAATATTAGTTCATAATATTTT
1 TAAAAAAAATTAATTCATAATATTTT
12066353 T
1 T
12066354 CTCTAACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAAAAATTAATTCATAATATTTT
Found at i:12066386 original size:17 final size:17
Alignment explanation
Indices: 12066372--12066405 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12066362 AAAATTTTTG
12066372 AAAACTATAATTTTTAA
1 AAAACTATAATTTTTAA
*
12066389 AAAACTATAATTATTAA
1 AAAACTATAATTTTTAA
12066406 TAAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAACTATAATTTTTAA
Found at i:12066478 original size:12 final size:12
Alignment explanation
Indices: 12066463--12066520 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
12066453 AATAAAATTT
12066463 TTAAATATTATA
1 TTAAATATTATA
12066475 TT--A-ATTA-A
1 TTAAATATTATA
12066483 -TAAAT-TTATAA
1 TTAAATATTAT-A
12066494 TTAAATATTATA
1 TTAAATATTATA
12066506 TTAAATATTAT-
1 TTAAATATTATA
12066517 TTAA
1 TTAA
12066521 TTTTAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 8 0.21
10 1 0.03
11 5 0.13
12 19 0.49
13 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAAATATTATA
Found at i:12066510 original size:73 final size:72
Alignment explanation
Indices: 12066400--12066550 Score: 168
Period size: 73 Copynumber: 2.1 Consensus size: 72
12066390 AAACTATAAT
* *
12066400 TATTAATAAATAAAATTTATAACTTAATTAATTTTAAATGA-TAATAAATTTTAAATAAAATTTT
1 TATTAATAAATAAAATTTATAACTTAATTAATATTAAAT-ATTAATAAATTTTAAATAAAA-TAT
12066464 TAAATATTA
64 TAAATATTA
* * * * *
12066473 TATTAATTAAT-AAATTTATAA-TTAAATATTATATTAAATATTATTTAATTTTAAATAATATAT
1 TATTAATAAATAAAATTTATAACTT-AAT-TAATATTAAATATTAATAAATTTTAAATAAAATAT
12066536 TAAATATT-
64 TAAATATTA
12066544 TA-TAATA
1 TATTAATA
12066551 TTATCACCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
70 4 0.06
71 4 0.06
72 24 0.36
73 35 0.52
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.48
Consensus pattern (72 bp):
TATTAATAAATAAAATTTATAACTTAATTAATATTAAATATTAATAAATTTTAAATAAAATATTA
AATATTA
Found at i:12066528 original size:29 final size:28
Alignment explanation
Indices: 12066461--12066543 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 28
12066451 TAAATAAAAT
* *
12066461 TTTTAAATATTATATTAATTAATAAATTTA
1 TTTTAAATATTATATTAAAT-AT-TATTTA
*
12066491 TAATTAAATATTATATTAAATATTATTTAA
1 T-TTTAAATATTATATTAAATATTATTT-A
*
12066521 TTTTAAATAATATATTAAATATT
1 TTTTAAATATTATATTAAATATT
12066544 TATAATATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 24 0.52
30 5 0.11
31 17 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTTTAAATATTATATTAAATATTATTTA
Found at i:12076648 original size:15 final size:15
Alignment explanation
Indices: 12076628--12076657 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12076618 GATATTCAAT
12076628 GATGTTTGTTTTATC
1 GATGTTTGTTTTATC
12076643 GATGTTTGTTTTATC
1 GATGTTTGTTTTATC
12076658 AAACTTGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.20, T:0.60
Consensus pattern (15 bp):
GATGTTTGTTTTATC
Found at i:12077055 original size:48 final size:49
Alignment explanation
Indices: 12076988--12077091 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 49
12076978 AAAAAAATTT
** *
12076988 AAAAA-TACAAATCTATACTGATAGATGTTAAGCATTGGTATAGGTAA-
1 AAAAATTACAAATCTATACTGATAGACATTAAGCATTGGTATAGATAAG
* * * * *
12077035 AAAAATTACAAGTTTATACTGATGGGCATTAATCATTGGTATAGATAAG
1 AAAAATTACAAATCTATACTGATAGACATTAAGCATTGGTATAGATAAG
12077084 AAAAATTA
1 AAAAATTA
12077092 AAACATATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 5 0.11
48 34 0.72
49 8 0.17
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (49 bp):
AAAAATTACAAATCTATACTGATAGACATTAAGCATTGGTATAGATAAG
Found at i:12077124 original size:56 final size:55
Alignment explanation
Indices: 12077041--12077171 Score: 154
Period size: 56 Copynumber: 2.4 Consensus size: 55
12077031 GTAAAAAAAT
** * * * *
12077041 TACAAGTTTATACTGATGGGCATTAATCATTGGTATAGATAAGAAAAATTAAAACA
1 TACAAGTTTATACTGACAGGCACTAATCATCGATATAGATAAG-AAAATCAAAACA
* *
12077097 TATAAGTTTATACTGACAGGCACTAATCATCGATATAGGTAAGAAAATCAAAACA
1 TACAAGTTTATACTGACAGGCACTAATCATCGATATAGATAAGAAAATCAAAACA
* * *
12077152 TACAAATATATACTGGCAGG
1 TACAAGTTTATACTGACAGG
12077172 TTTTAAGCAT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
55 27 0.43
56 36 0.57
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.27
Consensus pattern (55 bp):
TACAAGTTTATACTGACAGGCACTAATCATCGATATAGATAAGAAAATCAAAACA
Found at i:12078151 original size:18 final size:18
Alignment explanation
Indices: 12078130--12078166 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
12078120 AGAAGAGTTA
12078130 AAAGGGAAGAAGAATGAG
1 AAAGGGAAGAAGAATGAG
12078148 AAAGGGAAGAAGAATGAG
1 AAAGGGAAGAAGAATGAG
12078166 A
1 A
12078167 GGGTCTAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
AAAGGGAAGAAGAATGAG
Found at i:12080388 original size:16 final size:16
Alignment explanation
Indices: 12080367--12080405 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12080357 TCCAAAATAA
12080367 ATGAATCCAACTATTC
1 ATGAATCCAACTATTC
** *
12080383 ATGAATTTAATTATTC
1 ATGAATCCAACTATTC
12080399 ATGAATC
1 ATGAATC
12080406 TATGACATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (16 bp):
ATGAATCCAACTATTC
Found at i:12081440 original size:72 final size:71
Alignment explanation
Indices: 12081348--12081503 Score: 168
Period size: 71 Copynumber: 2.2 Consensus size: 71
12081338 GTGATGTTTC
* * * * * *
12081348 TAAGATAAAAACACAGTTTTTATTGAAAATATGAAAAATATATTTTTTAAAATTTAATAAAAACA
1 TAAGATAAAAATACAATTTTTATTAAAAATAT-AAAAAAACATTTTTTAAAATTTAACAAAAACA
12081413 ACATTTT
65 ACATTTT
* * ** * *
12081420 TAAGATAAAAATATAATTTTTGTTAAAAATATAAAAAAACATTTTTTTTAATTTAACAAATATAA
1 TAAGATAAAAATACAATTTTTATTAAAAATATAAAAAAACATTTTTTAAAATTTAACAAAAACAA
*
12081485 CGTTTT
66 CATTTT
*
12081491 TAAAATAGAAAAT
1 TAAGATA-AAAAT
12081504 GCAGTCATTA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
71 37 0.54
72 32 0.46
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.38
Consensus pattern (71 bp):
TAAGATAAAAATACAATTTTTATTAAAAATATAAAAAAACATTTTTTAAAATTTAACAAAAACAA
CATTTT
Found at i:12084199 original size:3 final size:3
Alignment explanation
Indices: 12084191--12084222 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
12084181 ATTTTCAACA
*
12084191 AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12084223 ACGATTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12087229 original size:33 final size:36
Alignment explanation
Indices: 12087166--12087238 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 36
12087156 GCCATCCTTA
* *
12087166 ATTTTTTTGTCTTCTGTTTTTTTTTATATTTTTTG-
1 ATTTTTTTGTCTTCTGTTTTTGTATATATTTTTTGT
12087201 ATTTTTTTGT-TT-TGTATTTTGTAT-TATTTTTTGT
1 ATTTTTTTGTCTTCTGT-TTTTGTATATATTTTTTGT
12087235 ATTT
1 ATTT
12087239 CGTATTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 12 0.35
34 12 0.35
35 10 0.29
ACGTcount: A:0.11, C:0.03, G:0.10, T:0.77
Consensus pattern (36 bp):
ATTTTTTTGTCTTCTGTTTTTGTATATATTTTTTGT
Found at i:12087231 original size:26 final size:26
Alignment explanation
Indices: 12087203--12087254 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
12087193 ATTTTTTGAT
*
12087203 TTTTTTGT-TTT-GTATTTTGTATTA
1 TTTTTTGTATTTCGTATTTTGTAATA
12087227 TTTTTTGTATTTCGTATTTTGTAATA
1 TTTTTTGTATTTCGTATTTTGTAATA
12087253 TT
1 TT
12087255 ATTGTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.32
25 3 0.12
26 14 0.56
ACGTcount: A:0.15, C:0.02, G:0.12, T:0.71
Consensus pattern (26 bp):
TTTTTTGTATTTCGTATTTTGTAATA
Found at i:12087791 original size:35 final size:35
Alignment explanation
Indices: 12087672--12088598 Score: 466
Period size: 35 Copynumber: 25.7 Consensus size: 35
12087662 ATAAGAAGAT
* *
12087672 TGGGATTAAACCACGAA-TCAAATATTAACAATGAC
1 TGGGATTAAACCAC-AAGTCAAAGATTAAAAATGAC
* ** * *
12087707 TGGGATTGAACCGTAAATCGAGGAA-ATTAATGAAAT-AA
1 TGGGATTAAACCACAAGTC-A--AAGATTAA--AAATGAC
*
12087745 TCGGGATTAAACCACGAGTCAAAGATTAAAAATGAC
1 T-GGGATTAAACCACAAGTCAAAGATTAAAAATGAC
* * *
12087781 TGGGACTAAACCGCAAGTTAGGAA-ATTAATGAAATGA-
1 TGGGATTAAACCACAAGTCA--AAGATTAA--AAATGAC
* *
12087818 TCGGGATTAAACCACAAGTCAAAGAATTAAAGATTAC
1 T-GGGATTAAACCACAAGTCAAAG-ATTAAAAATGAC
* * * *
12087855 TGGAATTGAACCGCAAGTCAGAGAATTAATGAAATGAC
1 TGGGATTAAACCACAAGTCAAAG-ATTAA--AAATGAC
* * *
12087893 CGGGATTAAATCACGAGTCAAAGATTAAAAATGAC
1 TGGGATTAAACCACAAGTCAAAGATTAAAAATGAC
* * *
12087928 TGAGATTGAA-CAGCAAGTCAGAGAATTAAGGAAATGAC
1 TGGGATTAAACCA-CAAGTCAAAG-ATTAA--AAATGAC
* * * * * *
12087966 CGGGATTAATCCACGAGTCAAAGACTATAGATGAC
1 TGGGATTAAACCACAAGTCAAAGATTAAAAATGAC
* * ** * * *
12088001 TAGGATTGAACTGCAAGTTAAAGAAT-GAAATGA-
1 TGGGATTAAACCACAAGTCAAAGATTAAAAATGAC
* * * *
12088034 TCGGGATTAAATCACGAGTTAAAGATTAAAGATGAC
1 T-GGGATTAAACCACAAGTCAAAGATTAAAAATGAC
* * * * *
12088070 -GGGATTGAACCGCAAGTCAGAGAAT-GAAATGAC
1 TGGGATTAAACCACAAGTCAAAGATTAAAAATGAC
* * * *
12088103 TGAGATTAAACCACGAGTCAACGATTAAAGATGAC
1 TGGGATTAAACCACAAGTCAAAGATTAAAAATGAC
* * ** *
12088138 TGAGATTGAACCGTAAATCGAGGAA-ATTAATGAAATGA-
1 TGGGATTAAACCACAAGTC-A--AAGATTAA--AAATGAC
*
12088176 TCGAGGATTAAACCACGAGTCAAAGATTAAAAATGAC
1 T-G-GGATTAAACCACAAGTCAAAGATTAAAAATGAC
* *
12088213 TGGGACTAAACCACAAGTTAGGAA-ATTAATGAAATGA-
1 TGGGATTAAACCACAAGTCA--AAGATTAA--AAATGAC
* *
12088250 TCGGGATTAAACCACGAGTCAAAGATTAAAGATGAC
1 T-GGGATTAAACCACAAGTCAAAGATTAAAAATGAC
* ** *
12088286 TGGGACTAAACTGCAAGTCAGAAAATTAATGAAATGA-
1 TGGGATTAAACCACAAGTCA-AAGATTAA--AAATGAC
* *
12088323 TCGAGATTAAACCACAAGTCAAAGATTAAATATGAC
1 T-GGGATTAAACCACAAGTCAAAGATTAAAAATGAC
* * *
12088359 TGGGATTAAATCGCAAGTCAAAGATTAAAGATGAC
1 TGGGATTAAACCACAAGTCAAAGATTAAAAATGAC
* * * *
12088394 TGGGACTAAATCGCAAGTCAAAGATTAAAGATGAC
1 TGGGATTAAACCACAAGTCAAAGATTAAAAATGAC
* * * * *
12088429 TGGGACTAAATCGCGAGTCAAGAAATTAATGAAATGAC
1 TGGGATTAAACCACAAGTCAA-AGATTAA--AAATGAC
* * *
12088467 CGGGATTAAACCACGAGTCAAATG-TTAAAGATGAC
1 TGGGATTAAACCACAAGTCAAA-GATTAAAAATGAC
* * * * * * * *
12088502 TGGAACTGAATCGCAAGTCAGAGGAATAATGAAATAAC
1 TGGGATTAAACCACAAGTCA-AAGATTAA--AAATGAC
* * * * * **
12088540 CGAGATTAAATCGCGAGTCAAAGATTAAAGGTGAC
1 TGGGATTAAACCACAAGTCAAAGATTAAAAATGAC
*
12088575 TGGGATTGAACCGA-AAGTCAAAGA
1 TGGGATTAAACC-ACAAGTCAAAGA
12088599 AATAATAAAA
Statistics
Matches: 674, Mismatches: 159, Indels: 118
0.71 0.17 0.12
Matches are distributed among these distances:
33 7 0.01
34 63 0.09
35 267 0.40
36 79 0.12
37 57 0.08
38 165 0.24
39 25 0.04
40 11 0.02
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.21
Consensus pattern (35 bp):
TGGGATTAAACCACAAGTCAAAGATTAAAAATGAC
Found at i:12087838 original size:73 final size:73
Alignment explanation
Indices: 12087673--12088666 Score: 988
Period size: 73 Copynumber: 13.7 Consensus size: 73
12087663 TAAGAAGATT
* * * *
12087673 GGGATTAAACCACGAATCAAATATTAACA-ATGACTGGGATTGAACCGTAAATCGAGGAAATTAA
1 GGGATTAAACCACGAGTCAAAGATTAA-AGATGACTGGGATTGAACCGCAAGTC-AGGAAATTAA
*
12087737 TGAAATAATC
64 TGAAATGATC
* * * *
12087747 GGGATTAAACCACGAGTCAAAGATTAAAAATGACTGGGACTAAACCGCAAGTTAGGAAATTAATG
1 GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGGAAATTAATG
12087812 AAATGATC
66 AAATGATC
* * *
12087820 GGGATTAAACCACAAGTCAAAGAATTAAAGATTACTGGAATTGAACCGCAAGTCA-GAGAATTAA
1 GGGATTAAACCACGAGTCAAAG-ATTAAAGATGACTGGGATTGAACCGCAAGTCAGGA-AATTAA
*
12087884 TGAAATGACC
64 TGAAATGATC
* * * * *
12087894 GGGATTAAATCACGAGTCAAAGATTAAAAATGACTGAGATTGAACAGCAAGTCA-GAGAATTAAG
1 GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGGA-AATTAAT
*
12087958 GAAATGACC
65 GAAATGATC
* * * * * * *
12087967 GGGATTAATCCACGAGTCAAAGACTATAGATGACTAGGATTGAACTGCAAGT---TAAA-GAATG
1 GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGGAAATTAATG
12088028 AAATGATC
66 AAATGATC
* * *
12088036 GGGATTAAATCACGAGTTAAAGATTAAAGATGAC-GGGATTGAACCGCAAGTCA-G--A-GAATG
1 GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGGAAATTAATG
12088096 AAATGA-C
66 AAATGATC
* * * * *
12088103 TGAGATTAAACCACGAGTCAACGATTAAAGATGACTGAGATTGAACCGTAAATCGAGGAAATTAA
1 -GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTC-AGGAAATTAA
12088168 TGAAATGATC
64 TGAAATGATC
* * * * *
12088178 GAGGATTAAACCACGAGTCAAAGATTAAAAATGACTGGGACTAAACCACAAGTTAGGAAATTAAT
1 G-GGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGGAAATTAAT
12088243 GAAATGATC
65 GAAATGATC
* * * *
12088252 GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACTGCAAGTCAGAAAATTAATG
1 GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGGAAATTAATG
12088317 AAATGATC
66 AAATGATC
* * * * *
12088325 GAGATTAAACCACAAGTCAAAGATTAAATATGACTGGGATTAAATCGCAAGTCA--AAGATTAA-
1 GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGGAA-ATTAAT
*
12088387 -AGATGA-C
65 GAAATGATC
* * * * * * * * *
12088394 TGGGACTAAATCGCAAGTCAAAGATTAAAGATGACTGGGACTAAATCGCGAGTCAAGAAATTAAT
1 -GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGGAAATTAAT
*
12088459 GAAATGACC
65 GAAATGATC
* * * *
12088468 GGGATTAAACCACGAGTCAAATG-TTAAAGATGACTGGAACTGAATCGCAAGTCAGAGGAA-TAA
1 GGGATTAAACCACGAGTCAAA-GATTAAAGATGACTGGGATTGAACCGCAAGTCAG-GAAATTAA
* *
12088531 TGAAATAACC
64 TGAAATGATC
* * * * * *
12088541 GAGATTAAATCGCGAGTCAAAGATTAAAGGTGACTGGGATTGAACCGAAAGTCAAAGAAA-TAAT
1 GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTC-AGGAAATTAAT
*
12088605 AAAATGATC
65 GAAATGATC
* ** * * * * * *
12088614 GGGATTAAATCGTGAGT-TAAGGTTAAAAATGACTGGGACTGATCCGTAAGTCA
1 GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA
12088667 AAGAATTAAT
Statistics
Matches: 781, Mismatches: 114, Indels: 53
0.82 0.12 0.06
Matches are distributed among these distances:
67 1 0.00
68 57 0.07
69 55 0.07
70 55 0.07
71 10 0.01
72 36 0.05
73 381 0.49
74 143 0.18
75 43 0.06
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.21
Consensus pattern (73 bp):
GGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGGAAATTAATG
AAATGATC
Found at i:12088054 original size:34 final size:33
Alignment explanation
Indices: 12087958--12088274 Score: 116
Period size: 34 Copynumber: 8.9 Consensus size: 33
12087948 GAGAATTAAG
* *
12087958 GAAATGACCGGGATTAATCCACGAGTCAAAGACTAT
1 GAAATGA-CGGGATTAAACCACGAGTTAAAGA--AT
* * * ** *
12087994 -AGATGACTAGGATTGAACTGCAAGTTAAAGAAT
1 GAAATGAC-GGGATTAAACCACGAGTTAAAGAAT
* *
12088027 GAAATGATCGGGATTAAATCACGAGTTAAAGATT
1 GAAATGA-CGGGATTAAACCACGAGTTAAAGAAT
* * * * * *
12088061 AAAGATGACGGGATTGAACCGCAAGTCAGAGAAT
1 GAA-ATGACGGGATTAAACCACGAGTTAAAGAAT
* * * *
12088095 GAAATGACTGAGATTAAACCACGAGTCAACGATT
1 GAAATGAC-GGGATTAAACCACGAGTTAAAGAAT
* * * * *
12088129 AAAGATGACTGAGATTGAACCGTAAATCGAG-GAAATTAAT
1 GAA-ATGAC-GGGATTAAACC----A-CGAGTTAAA-GAAT
* *
12088169 GAAATGATCGAGGATTAAACCACGAGTCAAAGATT
1 GAAATGA-CG-GGATTAAACCACGAGTTAAAGAAT
* * * *
12088204 AAAAATGACTGGGACTAAACCACAAGTTAGGAAATTAAT
1 -GAAATGAC-GGGATTAAACCACGAGTT---AAA-GAAT
*
12088243 GAAATGATCGGGATTAAACCACGAGTCAAAGA
1 GAAATGA-CGGGATTAAACCACGAGTTAAAGA
12088275 TTAAAGATGA
Statistics
Matches: 204, Mismatches: 55, Indels: 46
0.67 0.18 0.15
Matches are distributed among these distances:
33 7 0.03
34 68 0.33
35 66 0.32
36 11 0.05
38 24 0.12
39 11 0.05
40 17 0.08
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.21
Consensus pattern (33 bp):
GAAATGACGGGATTAAACCACGAGTTAAAGAAT
Found at i:12088415 original size:216 final size:214
Alignment explanation
Indices: 12087675--12088598 Score: 955
Period size: 216 Copynumber: 4.3 Consensus size: 214
12087665 AGAAGATTGG
* * * * *
12087675 GATTAAACCACGAATCAAATATTAACA-ATGACTGGGATTGAACCGTAAATCGAGGAA-ATTAAT
1 GATTAAACCACGAGTCAAAGATTAA-AGATGACTGAGATTGAACCGCAAGTC-A--AAGATTAA-
*
12087738 GAAAT-AATCGGGATTAAA-CCACGAGTCAAAGATTAAAAATGACTGGGACTAAACCGCAAGTTA
61 GAAATGACT-GGGA-TAAATCCA--AGTCAAAGATTAAAAATGACTGGGACTAAACCGCAAGTTA
* * *
12087801 GGAAATTAATGAAATGATCGGGATTAAACCACAAGTCAAAGAATTAAAGATTACTGGAATTGAAC
122 GGAAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAG-ATTAAAGATGACTGGAACTGAAC
*
12087866 CGCAAGTCAGAGAATTAATGAAATGACCGG
186 CGCAAGTCAGAGAA-TAATGAAATGACCGA
* * * *
12087896 GATTAAATCACGAGTCAAAGATTAAAAATGACTGAGATTGAACAGCAAGTCAGAGAATTAAGGAA
1 GATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAACCGCAAGTCAAAG-ATTAA-GAA
* * * * * * * * *
12087961 ATGACCGGGATTAATCCACGAGTCAAAGACTATAGATGACTAGGATTGAACTGCAAGTT---AAA
64 ATGACTGGGATAAATCCA--AGTCAAAGATTAAAAATGACTGGGACTAAACCGCAAGTTAGGAAA
* * * * *
12088023 -GAATGAAATGATCGGGATTAAATCACGAGTTAAAGATTAAAGATGAC-GGGATTGAACCGCAAG
127 TTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGAACTGAACCGCAAG
*
12088086 TCAGAG---AATGAAATGACTGA
192 TCAGAGAATAATGAAATGACCGA
* * *
12088106 GATTAAACCACGAGTCAACGATTAAAGATGACTGAGATTGAACCGTAAATCGAGGAA-ATTAATG
1 GATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAACCGCAAGTC-A--AAGATTAA-G
*
12088170 AAATGA-TCGAGGATTAAA-CCACGAGTCAAAGATTAAAAATGACTGGGACTAAACCACAAGTTA
62 AAATGACT-G-GGA-TAAATCCA--AGTCAAAGATTAAAAATGACTGGGACTAAACCGCAAGTTA
* * *
12088233 GGAAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGACTAAACT
122 GGAAATTAATGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGAACTGAACC
* *
12088298 GCAAGTCAGAAAATTAATGAAATGATCGA
187 GCAAGTCAGAGAA-TAATGAAATGACCGA
* * * * * *
12088327 GATTAAACCACAAGTCAAAGATTAAATATGACTGGGATTAAATCGCAAGTCAAAGATTAA-AGAT
1 GATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAACCGCAAGTCAAAGATTAAGAAAT
* * * * *
12088391 GACTGGGACTAAATCGCAAGTCAAAGATTAAAGATGACTGGGACTAAATCGCGAGTCAAGAAATT
66 GACTGGGA-TAAATC-CAAGTCAAAGATTAAAAATGACTGGGACTAAACCGCAAGTTAGGAAATT
* *
12088456 AATGAAATGACCGGGATTAAACCACGAGTCAAATG-TTAAAGATGACTGGAACTGAATCGCAAGT
129 AATGAAATGATCGGGATTAAACCACGAGTCAAA-GATTAAAGATGACTGGAACTGAACCGCAAGT
*
12088520 CAGAGGAATAATGAAATAACCGA
193 CAGA-GAATAATGAAATGACCGA
* * * * *
12088543 GATTAAATCGCGAGTCAAAGATTAAAGGTGACTGGGATTGAACCGAAAGTCAAAGA
1 GATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAACCGCAAGTCAAAGA
12088599 AATAATAAAA
Statistics
Matches: 591, Mismatches: 86, Indels: 57
0.81 0.12 0.08
Matches are distributed among these distances:
210 57 0.10
211 14 0.02
212 39 0.07
213 4 0.01
214 21 0.04
215 14 0.02
216 245 0.41
217 31 0.05
218 6 0.01
219 8 0.01
220 54 0.09
221 98 0.17
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.21
Consensus pattern (214 bp):
GATTAAACCACGAGTCAAAGATTAAAGATGACTGAGATTGAACCGCAAGTCAAAGATTAAGAAAT
GACTGGGATAAATCCAAGTCAAAGATTAAAAATGACTGGGACTAAACCGCAAGTTAGGAAATTAA
TGAAATGATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGAACTGAACCGCAAGTCAG
AGAATAATGAAATGACCGA
Found at i:12089700 original size:1 final size:1
Alignment explanation
Indices: 12089694--12089780 Score: 75
Period size: 1 Copynumber: 87.0 Consensus size: 1
12089684 TTCCTTTCTC
** * * * * *
12089694 TTTTTTTTTTTCATTTTTTTATTTTTTTATTTTTTTTTTTTTTATTTTTTTATTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * **
12089759 ATTTATTTTTTTACTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
12089781 AAGCAAAATA
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.10, C:0.02, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:12089712 original size:8 final size:8
Alignment explanation
Indices: 12089694--12089779 Score: 113
Period size: 8 Copynumber: 10.6 Consensus size: 8
12089684 TTCCTTTCTC
12089694 TTTTT-TT
1 TTTTTATT
*
12089701 TTTTCATT
1 TTTTTATT
12089709 TTTTTATT
1 TTTTTATT
12089717 TTTTTATT
1 TTTTTATT
12089725 TTTTT-TT
1 TTTTTATT
12089732 TTTTTATT
1 TTTTTATT
12089740 TTTTTATT
1 TTTTTATT
*
12089748 TTTTATTTT
1 TTTT-TATT
12089757 TTATTTATT
1 TT-TTTATT
12089766 TTTTTACTT
1 TTTTTA-TT
12089775 TTTTT
1 TTTTT
12089780 TAAGCAAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
7 11 0.16
8 40 0.57
9 17 0.24
10 2 0.03
ACGTcount: A:0.10, C:0.02, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:12089718 original size:15 final size:15
Alignment explanation
Indices: 12089694--12089778 Score: 99
Period size: 15 Copynumber: 5.9 Consensus size: 15
12089684 TTCCTTTCTC
*
12089694 TTTTTT-TTTTTCAT
1 TTTTTTATTTTTTAT
12089708 TTTTTTATTTTTTTAT
1 TTTTTTA-TTTTTTAT
*
12089724 TTTTTTTTTTTTTAT
1 TTTTTTATTTTTTAT
12089739 TTTTTTATTTTTTA-
1 TTTTTTATTTTTTAT
12089753 TTTTTTA---TTTAT
1 TTTTTTATTTTTTAT
12089765 TTTTTTACTTTTTT
1 TTTTTTA-TTTTTT
12089779 TTAAGCAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
11 4 0.07
12 7 0.11
14 13 0.21
15 21 0.34
16 16 0.26
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:12089726 original size:23 final size:22
Alignment explanation
Indices: 12089694--12089781 Score: 97
Period size: 23 Copynumber: 4.0 Consensus size: 22
12089684 TTCCTTTCTC
12089694 TTTTTTTTTTTCATTTTTTTAT
1 TTTTTTTTTTTCATTTTTTTAT
**
12089716 TTTTTTATTTTTTTTTTTTTTAT
1 TTTTTT-TTTTTCATTTTTTTAT
*
12089739 TTTTTTATTTTTTA-TTTTTTAT
1 TTTTTT-TTTTTCATTTTTTTAT
* * *
12089761 TTATTTTTTTACTTTTTTTTA
1 TTTTTTTTTTTCATTTTTTTA
12089782 AGCAAAATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
21 4 0.07
22 26 0.46
23 27 0.47
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.86
Consensus pattern (22 bp):
TTTTTTTTTTTCATTTTTTTAT
Found at i:12089732 original size:31 final size:30
Alignment explanation
Indices: 12089694--12089767 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 30
12089684 TTCCTTTCTC
12089694 TTTTTTTTTTTCATTTTTTTATTTTTTTATT
1 TTTTTTTTTTTCATTTTTTTA-TTTTTTATT
*
12089725 TTTTTTTTTTTTATTTTTTTATTTTTTATT
1 TTTTTTTTTTTCATTTTTTTATTTTTTATT
12089755 TTTTATTTATTTT
1 TTTT-TTT-TTTT
12089768 TTTACTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 13 0.32
31 23 0.57
32 4 0.10
ACGTcount: A:0.11, C:0.01, G:0.00, T:0.88
Consensus pattern (30 bp):
TTTTTTTTTTTCATTTTTTTATTTTTTATT
Found at i:12101519 original size:22 final size:23
Alignment explanation
Indices: 12101479--12101521 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
12101469 ATTTTATTAT
*
12101479 TAATAACAATTAAATATTTATCC
1 TAATAACAATTAAACATTTATCC
*
12101502 TAATAA-ATTTAAACATTTAT
1 TAATAACAATTAAACATTTAT
12101522 GCATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATAACAATTAAACATTTATCC
Found at i:12102563 original size:20 final size:19
Alignment explanation
Indices: 12102504--12102580 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 19
12102494 ACATCCTTAA
* * *
12102504 TTTTTTTTGTCTTCTGTTCT
1 TTTTTTTTGT-TTTTATTTT
*
12102524 TTTTTTTTGTATTTTTTTTT
1 TTTTTTTTGT-TTTTATTTT
12102544 TTTTTTTTGTTTTGTATTTT
1 TTTTTTTTGTTTT-TATTTT
12102564 GTATTTTTTTGGTTTTT
1 -T-TTTTTTT-GTTTTT
12102581 TTGTATTTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
19 3 0.06
20 31 0.65
21 1 0.02
22 8 0.17
23 5 0.10
ACGTcount: A:0.04, C:0.04, G:0.10, T:0.82
Consensus pattern (19 bp):
TTTTTTTTGTTTTTATTTT
Found at i:12102570 original size:26 final size:25
Alignment explanation
Indices: 12102523--12102596 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 25
12102513 TCTTCTGTTC
*
12102523 TTTTTTTTTGTATTTT-TTTTTTTT
1 TTTTTTTTTGTATTTTGTATTTTTT
12102547 TTTTTGTTTTGTATTTTGTATTTTTT
1 TTTTT-TTTTGTATTTTGTATTTTTT
* *
12102573 TGGTTTTTTTGTATTTCGTATTTT
1 T-TTTTTTTTGTATTTTGTATTTT
12102597 GTAATATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 5 0.11
25 11 0.25
26 25 0.57
27 3 0.07
ACGTcount: A:0.07, C:0.01, G:0.11, T:0.81
Consensus pattern (25 bp):
TTTTTTTTTGTATTTTGTATTTTTT
Found at i:12102572 original size:33 final size:32
Alignment explanation
Indices: 12102528--12102599 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
12102518 TGTTCTTTTT
** * * *
12102528 TTTTGTATTTTTTTTTTTTTTTTTGTTTTGTA
1 TTTTGTATTTTTTGGTTTTTTTGTATTTCGTA
12102560 TTTTGTATTTTTTTGGTTTTTTTGTATTTCGTA
1 TTTTGTA-TTTTTTGGTTTTTTTGTATTTCGTA
12102593 TTTTGTA
1 TTTTGTA
12102600 ATATTATTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.08, C:0.01, G:0.12, T:0.78
Consensus pattern (32 bp):
TTTTGTATTTTTTGGTTTTTTTGTATTTCGTA
Found at i:12102612 original size:33 final size:32
Alignment explanation
Indices: 12102545--12102629 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
12102535 TTTTTTTTTT
* *
12102545 TTTTTTTGT-TTTGTATTTTGTATTTTTTTGG
1 TTTTTTTGTATTTGTATTTTGTATATTATTGG
12102576 TTTTTTTGTATTTCGTATTTTGTAATATTATT-G
1 TTTTTTTGTATTT-GTATTTTGT-ATATTATTGG
*
12102609 TTTTTATTTTATTT-TATTTTG
1 TTTTT-TTGTATTTGTATTTTG
12102630 GGACAAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
31 9 0.19
32 10 0.21
33 15 0.32
34 13 0.28
ACGTcount: A:0.13, C:0.01, G:0.12, T:0.74
Consensus pattern (32 bp):
TTTTTTTGTATTTGTATTTTGTATATTATTGG
Found at i:12103792 original size:19 final size:18
Alignment explanation
Indices: 12103764--12103807 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
12103754 TATTAAAAGT
12103764 TTATT-AAAAATTATTAAA
1 TTATTAAAAAATT-TTAAA
12103782 TTATATAAAAAATTTTAAA
1 TTAT-TAAAAAATTTTAAA
12103801 TT-TTAAA
1 TTATTAAA
12103808 TAAAAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.17
18 5 0.21
19 8 0.33
20 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTATTAAAAAATTTTAAA
Found at i:12103810 original size:21 final size:20
Alignment explanation
Indices: 12103769--12103813 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
12103759 AAAGTTTATT
*
12103769 AAAAATTATTAAATTATATA
1 AAAAATTATTAAATTAAATA
12103789 AAAAATT-TTAAATTTTAAATA
1 AAAAATTATTAAA--TTAAATA
12103810 AAAA
1 AAAA
12103814 TCAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 7 0.32
21 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTATTAAATTAAATA
Found at i:12103812 original size:20 final size:21
Alignment explanation
Indices: 12103768--12103814 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
12103758 AAAAGTTTAT
*
12103768 TAAAAATTATTAAATTATATA
1 TAAAAATTATTAAATTATAAA
*
12103789 -AAAAATT-TTAAATTTTAAA
1 TAAAAATTATTAAATTATAAA
12103808 TAAAAAT
1 TAAAAAT
12103815 CAATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAATTATTAAATTATAAA
Found at i:12106630 original size:24 final size:25
Alignment explanation
Indices: 12106577--12106632 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
12106567 TTTTGTCTTC
12106577 TATTTTT-TTTTGGGTATTTTTCAT
1 TATTTTTGTTTTGGGTATTTTTCAT
* *
12106601 TTTTTTTGTTTT-TGTATTTTGT-AT
1 TATTTTTGTTTTGGGTATTTT-TCAT
12106625 TATTTTTG
1 TATTTTTG
12106633 GTATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.11, C:0.02, G:0.12, T:0.75
Consensus pattern (25 bp):
TATTTTTGTTTTGGGTATTTTTCAT
Found at i:12107171 original size:71 final size:70
Alignment explanation
Indices: 12107086--12107905 Score: 1091
Period size: 71 Copynumber: 11.9 Consensus size: 70
12107076 AGAATAAGAA
* * * * *
12107086 GATCAGGATTAAACCACGAATC-AA-ATTAATGATGACTGGGATTGAACCGCAAGTCGAGGAATT
1 GATC-GGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTC-A-AAAAT
12107149 AATGAAAT
63 AATGAAAT
* * * *
12107157 GATCGAGATTAAACCACGAG-CAAAGATTAAAGATGACT-GGA-TAAACCGCAAGTC--AGAGAA
1 GATCG-GATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAATAA
12107217 TGAAAT
65 TGAAAT
* * * * *
12107223 GATCTAGATTAAACCACGAGTCAAAGATTAAAGATGACT-GGATTGAGCCACAAGTCAGAGAATT
1 GATC-GGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCA-A-AAAT
12107287 AATGAAAT
63 AATGAAAT
** * *
12107295 GA-CAGGATTAAACCATGAGTCAAAGATTAAAGATGACTGAGATTGAACCGTAAGTCAAAAAATA
1 GATC-GGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTC-AAAAATA
12107359 ATGAAAT
64 ATGAAAT
* *
12107366 GATCGGGATTAAA-C-CGAGTCAAAGATTAAAGATGACTGGGATTGAACCGTAAGTTAAAAATTA
1 GATC-GGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAA-TA
12107429 ATGAAAT
64 ATGAAAT
* * *
12107436 GATCGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGAGATTGAACCGTAAGTC---AAGAAT
1 GATCGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAATAAT
12107498 GAAAT
66 GAAAT
*
12107503 GATCGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAGAAT--T
1 GATCGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAATAAT
12107566 --AAT
66 GAAAT
12107569 GATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACT-GGATTGAA-CGCAAGTC-AAAA-AA
1 GATC-GGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAATAA
12107630 TGAAAT
65 TGAAAT
*
12107636 GATCGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAATTA
1 GATC-GGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAA-TA
12107701 ATGAAAT
64 ATGAAAT
12107708 GATCGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAATTAA
1 GATCGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAA-TAA
12107773 TGAAAT
65 TGAAAT
12107779 GATCGGATTAAACCGCGAGTCAAAGATTAAAGATGA-T-GGA-TGAACCGCAAGTC-AAAA-AAT
1 GATCGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAATAAT
12107839 GAAAT
66 GAAAT
12107844 GATCGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAAT
1 GATCGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAAT
12107906 TATATAAGAC
Statistics
Matches: 681, Mismatches: 34, Indels: 69
0.87 0.04 0.09
Matches are distributed among these distances:
64 3 0.00
65 53 0.08
66 43 0.06
67 165 0.24
68 47 0.07
69 28 0.04
70 73 0.11
71 210 0.31
72 58 0.09
73 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.21
Consensus pattern (70 bp):
GATCGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAAAAATAAT
GAAAT
Found at i:12107316 original size:37 final size:36
Alignment explanation
Indices: 12107089--12107907 Score: 289
Period size: 35 Copynumber: 23.8 Consensus size: 36
12107079 ATAAGAAGAT
12107089 CAGGATTAAACCACGAA-TC-AA-ATTAATG--ATGA
1 CAGGATTAAACCAC-AAGTCAAAGATTAATGAAATGA
* * * * *
12107121 CTGGGATTGAACCGCAAGTCGAGGAATTAATGAAATGA
1 C-AGGATTAAACCACAAGTCAAAG-ATTAATGAAATGA
* *
12107159 TC-GAGATTAAACCACGAG-CAAAGATTAA--AGATGA
1 -CAG-GATTAAACCACAAGTCAAAGATTAATGAAATGA
* * *
12107193 CTGGA-TAAACCGCAAGTC--AGA-GAATGAAATGA
1 CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* *
12107225 TCTA-GATTAAACCACGAGTCAAAGATTAA--AGATGA
1 -C-AGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * * *
12107260 CTGGATTGAGCCACAAGTCAGAGAATTAATGAAATGA
1 CAGGATTAAACCACAAGTCAAAG-ATTAATGAAATGA
** *
12107297 CAGGATTAAACCATGAGTCAAAGATTAA--AGATGA
1 CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * ** * *
12107331 CTGAGATTGAACCGTAAGTCAAAAAATAATGAAATGA
1 CAG-GATTAAACCACAAGTCAAAGATTAATGAAATGA
* * *
12107368 TCGGGATTAAA-C-CGAGTCAAAGATTAA--AGATGA
1 -CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * ** * *
12107401 CTGGGATTGAACCGTAAGTTAAAAATTAATGAAATGA
1 C-AGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * *
12107438 TC-GGATTAAACCGCGAGTCAAAGATTAA--AGATGA
1 -CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * **
12107472 CTGAGATTGAACCGTAAGTC-AAG---AATGAAATGA
1 CAG-GATTAAACCACAAGTCAAAGATTAATGAAATGA
* * *
12107505 TC-GGATTAAACCGCGAGTCAAAGATTAA--AGATGA
1 -CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * *
12107539 CTGGGATTGAACCGCAAGTC-AAGAATTAATG--AT--
1 C-AGGATTAAACCACAAGTCAAAG-ATTAATGAAATGA
* * * *
12107572 CGGGATTAAACCGCGAGTCAAAGATTAA--AGATGA
1 CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * *
12107606 CTGGATTGAA-CGCAAGTCAAA-A--AATGAAATGA
1 CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * *
12107638 TCGGGATTAAACCACGAGTCAAAGATTAA--AGATGA
1 -CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * * *
12107673 CTGGGATTGAACCGCAAGTCAAAAATTAATGAAATGA
1 C-AGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * *
12107710 TC-GGATTAAACCGCGAGTCAAAGATTAA--AGATGA
1 -CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * * *
12107744 CTGGGATTGAACCGCAAGTCAAAAATTAATGAAATGA
1 C-AGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * *
12107781 TC-GGATTAAACCGCGAGTCAAAGATTAA--AGATGA
1 -CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * *
12107815 -TGGA-TGAACCGCAAGTCAAA-A--AATGAAATGA
1 CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * *
12107846 TC-GGATTAAACCGCGAGTCAAAGATTAA--AGATGA
1 -CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
* * * *
12107880 CTGGGATTGAACCGCAAGTCAAAAATTA
1 C-AGGATTAAACCACAAGTCAAAGATTA
12107908 TATAAGACTG
Statistics
Matches: 603, Mismatches: 105, Indels: 155
0.70 0.12 0.18
Matches are distributed among these distances:
29 2 0.00
30 4 0.01
31 11 0.02
32 77 0.13
33 84 0.14
34 95 0.16
35 161 0.27
36 92 0.15
37 56 0.09
38 20 0.03
39 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.21
Consensus pattern (36 bp):
CAGGATTAAACCACAAGTCAAAGATTAATGAAATGA
Found at i:12108957 original size:1 final size:1
Alignment explanation
Indices: 12108951--12108984 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
12108941 TCCTTTCTCA
*
12108951 TTTTTTTTTTTTTTTTTTTTTTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12108985 AAGCAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:12121716 original size:18 final size:18
Alignment explanation
Indices: 12121693--12121732 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12121683 CCATCCTTGA
12121693 TTTTTTTATCTTCTATTT
1 TTTTTTTATCTTCTATTT
* * *
12121711 TTTTTTTTTTTTTTATTT
1 TTTTTTTATCTTCTATTT
12121729 TTTT
1 TTTT
12121733 GTTTTGTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.05, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTTATCTTCTATTT
Found at i:12121743 original size:33 final size:34
Alignment explanation
Indices: 12121692--12121806 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 34
12121682 GCCATCCTTG
* * *
12121692 ATTTTTTTATCTTCTATTTT-TTTTTTTTTTTTT
1 ATTTTTTTATCTTCTATTTTGTATTATTTTTTGT
* * *
12121725 ATTTTTTTGTTTTGTATTTTGTATTATTTTTTGT
1 ATTTTTTTATCTTCTATTTTGTATTATTTTTTGT
*
12121759 ATTTTTTTTATATTTCATATTTTGTAATATTATTGTTTT-T
1 A-TTTTTTTAT-CTTC-TATTTTG---TATTATT-TTTTGT
12121799 ATTTTTTT
1 ATTTTTTT
12121807 TTTGGGACAA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
33 17 0.26
34 11 0.17
35 8 0.12
36 3 0.05
37 7 0.11
39 7 0.11
40 9 0.14
41 4 0.06
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (34 bp):
ATTTTTTTATCTTCTATTTTGTATTATTTTTTGT
Found at i:12121756 original size:12 final size:11
Alignment explanation
Indices: 12121708--12121773 Score: 61
Period size: 9 Copynumber: 6.2 Consensus size: 11
12121698 TTATCTTCTA
12121708 TTTTTTT-T-T
1 TTTTTTTGTAT
12121717 TTTTTTT-TA-
1 TTTTTTTGTAT
12121726 TTTTTTTGT-T
1 TTTTTTTGTAT
12121736 TTGTATTTTGTAT
1 TT-T-TTTTGTAT
12121749 TATTTTTTGTAT
1 T-TTTTTTGTAT
*
12121761 TTTTTTTATAT
1 TTTTTTTGTAT
12121772 TT
1 TT
12121774 CATATTTTGT
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
9 15 0.31
10 3 0.06
11 12 0.24
12 15 0.31
13 3 0.06
14 1 0.02
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (11 bp):
TTTTTTTGTAT
Found at i:12121767 original size:37 final size:38
Alignment explanation
Indices: 12121716--12121810 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 38
12121706 TATTTTTTTT
* **
12121716 TTTTTTTTTATTTTTTTGTTTTGTATTTTG-TATTATT-
1 TTTTTATTT-TTTTTTTGTTTCATATTTTGATATTATTG
* *
12121753 TTTTGTATTTTTTTTATATTTCATATTTTGTAATATTATTG
1 TTTT-TATTTTTTTTTTGTTTCATATTTTG--ATATTATTG
12121794 TTTTTATTTTTTTTTTG
1 TTTTTATTTTTTTTTTG
12121811 GGACAAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
37 20 0.43
38 4 0.09
40 18 0.39
41 4 0.09
ACGTcount: A:0.15, C:0.01, G:0.07, T:0.77
Consensus pattern (38 bp):
TTTTTATTTTTTTTTTGTTTCATATTTTGATATTATTG
Found at i:12121807 original size:43 final size:42
Alignment explanation
Indices: 12121709--12121809 Score: 105
Period size: 43 Copynumber: 2.4 Consensus size: 42
12121699 TATCTTCTAT
** * * *
12121709 TTTTTTTTTTTTTTTTATTTTTTTGTTTTGTATTTTGTATTA
1 TTTTTTTTTTTTTTTTATTTTCATATTTTGTAATATGTATTA
* *
12121751 TTTTTTGTATTTTTTTTATATTTCATATTTTGTAATAT-TATTG
1 TTTTTT-TTTTTTTTTTAT-TTTCATATTTTGTAATATGTATTA
*
12121794 TTTTTATTTTTTTTTT
1 TTTTTTTTTTTTTTTT
12121810 GGGACAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
42 15 0.31
43 20 0.42
44 13 0.27
ACGTcount: A:0.14, C:0.01, G:0.06, T:0.79
Consensus pattern (42 bp):
TTTTTTTTTTTTTTTTATTTTCATATTTTGTAATATGTATTA
Found at i:12122235 original size:50 final size:50
Alignment explanation
Indices: 12122169--12122269 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
12122159 ATCACAACAT
** * *
12122169 TATCATATCATTCTATGCATCA-TTTCTATCCTTATGTTTTAACATTTTCA
1 TATCATATCATTCTATGCATCATTTTC-ATAATCATGTTTTAACATTATCA
*
12122219 TATCATTTCATTCTATGCATCATTTTCATAATCATGTTTTAACATTATCA
1 TATCATATCATTCTATGCATCATTTTCATAATCATGTTTTAACATTATCA
12122269 T
1 T
12122270 TTGCATCATT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
50 41 0.91
51 4 0.09
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.50
Consensus pattern (50 bp):
TATCATATCATTCTATGCATCATTTTCATAATCATGTTTTAACATTATCA
Found at i:12124342 original size:19 final size:19
Alignment explanation
Indices: 12124315--12124364 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
12124305 ATATTAGTAT
*
12124315 ATTTGATGCATACATTTGC
1 ATTTCATGCATACATTTGC
12124334 ATTTCATGCATACATTTGC
1 ATTTCATGCATACATTTGC
*
12124353 ATTTCATACATA
1 ATTTCATGCATA
12124365 GAACACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (19 bp):
ATTTCATGCATACATTTGC
Found at i:12131603 original size:9 final size:9
Alignment explanation
Indices: 12131580--12131615 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
12131570 CTATGCTTGA
*
12131580 AAAAAAAAG
1 AAAAAAAAT
12131589 AGAAAAAAAT
1 A-AAAAAAAT
12131599 AAAAAAAAT
1 AAAAAAAAT
12131608 AAAAAAAA
1 AAAAAAAA
12131616 GGTAGACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.89, C:0.00, G:0.06, T:0.06
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:12132736 original size:41 final size:41
Alignment explanation
Indices: 12132691--12132939 Score: 230
Period size: 41 Copynumber: 5.8 Consensus size: 41
12132681 TTGTGGTGCC
* * * *
12132691 TTCAAAGTTATGATACCTCTATTTAGAGGAGCAATTTATTT
1 TTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTT
* *
12132732 TTCAAAGTCATGATACCTCTGTTTAGAGGAGCAATTTATTT
1 TTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTT
12132773 TTCAAAGTCATGGTGCCT-TCGTTTAGAGGAGCAATATAGCAATATGTTTT
1 TTCAAAGTCATGGTGCCTCT-GTTTAGAGGAGCAAT-T-----TA---TTT
*
12132823 TTCAAAGTCATGGTGCCTCTGTTTAGATGAGCAATTTTATTT
1 TTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAA-TTTATTT
** * * *
12132865 TTCAAAGTTGTGGTGCCTTTATTTAGAGGAGCATTTTATTTTT
1 TTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTA--TTT
* ***
12132908 TTCAAAGTCGTTAAGCCTCTGTTTAGAGGAGC
1 TTCAAAGTCATGGTGCCTCTGTTTAGAGGAGC
12132940 TTTGTTTACT
Statistics
Matches: 177, Mismatches: 17, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
40 1 0.01
41 74 0.42
42 32 0.18
43 29 0.16
45 2 0.01
47 2 0.01
50 35 0.20
51 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.40
Consensus pattern (41 bp):
TTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTT
Found at i:12132897 original size:92 final size:91
Alignment explanation
Indices: 12132729--12132897 Score: 266
Period size: 92 Copynumber: 1.8 Consensus size: 91
12132719 GAGCAATTTA
*
12132729 TTTTTCAAAGTCATGATACCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTGCCTTCG
1 TTTTTCAAAGTCATGATACCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTGCCTTCA
12132794 TTTAGAGGAGCAATATAGCAATATGT
66 TTTAGAGGAGCAATATAGCAATATGT
* * * ** *
12132820 TTTTTCAAAGTCATGGTGCCTCTGTTTAGATGAGCAATTTTATTTTTCAAAGTTGTGGTGCCTTT
1 TTTTTCAAAGTCATGATACCTCTGTTTAGAGGAGCAA-TTTATTTTTCAAAGTCATGGTGCCTTC
12132885 ATTTAGAGGAGCA
65 ATTTAGAGGAGCA
12132898 TTTTATTTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 34 0.49
92 36 0.51
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (91 bp):
TTTTTCAAAGTCATGATACCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCATGGTGCCTTCA
TTTAGAGGAGCAATATAGCAATATGT
Found at i:12132933 original size:43 final size:43
Alignment explanation
Indices: 12132819--12132957 Score: 147
Period size: 42 Copynumber: 3.2 Consensus size: 43
12132809 TAGCAATATG
* *
12132819 TTTTTTCAAAGTCATGGTGCCTCTGTTTAGATGAGCAATTTTA
1 TTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTTA
* * *
12132862 -TTTTTCAAAGTTGTGGTGCCTTTATTTAGAGGAGC-ATTTTA
1 TTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTTA
*** **
12132903 TTTTTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTTTGTTTA
1 -TTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT-TTTA
*
12132948 CTTTTTCAAA
1 TTTTTTCAAA
12132958 AAAAAAAAGA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
41 6 0.08
42 30 0.38
43 29 0.37
44 10 0.13
45 4 0.05
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (43 bp):
TTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTTA
Found at i:12133201 original size:24 final size:22
Alignment explanation
Indices: 12133174--12133221 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
12133164 TATTATTTTG
12133174 AGAAATAAT-GATTAAAATTAAAAA
1 AGAAATAATAGA-TAAAA--AAAAA
12133198 AG-AATAATAGATAAAAAAAAA
1 AGAAATAATAGATAAAAAAAAA
12133219 AGA
1 AGA
12133222 TGGTTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
21 7 0.32
23 11 0.50
24 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (22 bp):
AGAAATAATAGATAAAAAAAAA
Found at i:12133869 original size:4 final size:4
Alignment explanation
Indices: 12133860--12133899 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
12133850 TGTTCTTTAG
* *
12133860 TATT TATT TATT TATTT TATG TGTT TATT TATT TATT TAT
1 TATT TATT TATT TA-TT TATT TATT TATT TATT TATT TAT
12133900 AGTATTTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:12133913 original size:21 final size:21
Alignment explanation
Indices: 12133857--12133918 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
12133847 AGCTGTTCTT
12133857 TAGTATTTATTTATTTATTT-
1 TAGTATTTATTTATTTATTTA
*
12133877 TATGTGTTTATTTATTTATTTA
1 TA-GTATTTATTTATTTATTTA
12133899 TAGTATTT-TTGTA-TTATTTA
1 TAGTATTTATT-TATTTATTTA
12133919 ATTTAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 11 0.30
21 24 0.65
22 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (21 bp):
TAGTATTTATTTATTTATTTA
Found at i:12133913 original size:25 final size:26
Alignment explanation
Indices: 12133859--12133923 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
12133849 CTGTTCTTTA
**
12133859 GTATTTATTTATTTATTTTATGTGTT
1 GTATTTATTTATTTATAGTATGTGTT
*
12133885 -TATTTATTTATTTATAGTAT-TTTT
1 GTATTTATTTATTTATAGTATGTGTT
12133909 GTA-TTATTTAATTTA
1 GTATTTATTT-ATTTA
12133924 ATAAAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 9 0.26
25 25 0.74
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.68
Consensus pattern (26 bp):
GTATTTATTTATTTATAGTATGTGTT
Found at i:12134247 original size:191 final size:190
Alignment explanation
Indices: 12133927--12134272 Score: 459
Period size: 191 Copynumber: 1.8 Consensus size: 190
12133917 TAATTTAATA
** * * *
12133927 AAAAATAAATTTTGGGAATAAATATTAATTATCCAATGATGGAATTTATAGAAATTTCAAATGGT
1 AAAAATAAATTTTGGGAATAAATACAAATTATCCAAGGATGGAATTTATAAAAATTTCAAATGAT
* * * *
12133992 AAATTTTTATAAAATTCTTAAGTGAGAAATTTTGTCTAAATTTATCCCAAATGGTAAAATAATTT
66 AAATTTCTATAAAATTCTTAAGTGAGAAATTTTATCCAAATTTATCCCAAATAGTAAAATAATTT
12134057 AGATAAAGTTTCAATA-ACAGTAATTAATGTTTATTTTCAAATCAAAAAATAATAAAAAAT
131 AGATAAAGTTTCAATATA-AGTAATTAATGTTTATTTTCAAATCAAAAAATAATAAAAAAT
* *
12134117 AAAAATAAAATTTT-GGAATTAAATACAAATTATTCAAGGAT-GAGATTTTTAAAAATTTCAAAT
1 AAAAAT-AAATTTTGGGAA-TAAATACAAATTATCCAAGGATGGA-ATTTATAAAAATTTCAAAT
* * **
12134180 GATAAATTTCTA-AGAAA-TCTCTAGGTGAGAAATTTTATCCAAATTTGTCCCAAATAGTGGAAT
63 GATAAATTTCTATA-AAATTCT-TAAGTGAGAAATTTTATCCAAATTTATCCCAAATAGTAAAAT
*
12134243 AATTTAGATAAGGTTTCAATATAAGTAATT
126 AATTTAGATAAAGTTTCAATATAAGTAATT
12134273 GTATTATTTT
Statistics
Matches: 134, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
190 16 0.12
191 117 0.87
192 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (190 bp):
AAAAATAAATTTTGGGAATAAATACAAATTATCCAAGGATGGAATTTATAAAAATTTCAAATGAT
AAATTTCTATAAAATTCTTAAGTGAGAAATTTTATCCAAATTTATCCCAAATAGTAAAATAATTT
AGATAAAGTTTCAATATAAGTAATTAATGTTTATTTTCAAATCAAAAAATAATAAAAAAT
Found at i:12139678 original size:29 final size:30
Alignment explanation
Indices: 12139644--12139700 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12139634 GCTTAATTAA
* *
12139644 ATGAAAA-AAATGTTTAAAGGTTTAATTTG
1 ATGAAAACAAATATTTAAAGGTTCAATTTG
*
12139673 ATGAAAACAAATATTTAAATGTTCAATT
1 ATGAAAACAAATATTTAAAGGTTCAATT
12139701 GGTTTGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (30 bp):
ATGAAAACAAATATTTAAAGGTTCAATTTG
Found at i:12140045 original size:22 final size:23
Alignment explanation
Indices: 12140009--12140053 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
12139999 TAAGATTTAA
12140009 ATTTTAATACTTATAATTTTTTT
1 ATTTTAATACTTATAATTTTTTT
* *
12140032 ATTTTTATA-TTATAGTTTTTTT
1 ATTTTAATACTTATAATTTTTTT
12140054 TATAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (23 bp):
ATTTTAATACTTATAATTTTTTT
Found at i:12141980 original size:18 final size:19
Alignment explanation
Indices: 12141957--12142006 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
12141947 AGTCAATATT
12141957 TTAATTTAATAAAAAATA-
1 TTAATTTAATAAAAAATAG
*
12141975 TTAA-TTAAAAATAAAATAG
1 TTAATTTAATAA-AAAATAG
*
12141994 TTAATTAAATAAA
1 TTAATTTAATAAA
12142007 TTATCAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.23
18 10 0.38
19 5 0.19
20 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TTAATTTAATAAAAAATAG
Found at i:12148179 original size:2 final size:2
Alignment explanation
Indices: 12148172--12148203 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12148162 AACAGAACCG
12148172 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
12148204 GCACACACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12150509 original size:16 final size:17
Alignment explanation
Indices: 12150488--12150522 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
12150478 AAAAAGATCC
12150488 TAAATAAATAA-TAAAA
1 TAAATAAATAACTAAAA
12150504 TAAATAAATAACTAAAA
1 TAAATAAATAACTAAAA
12150521 TA
1 TA
12150523 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATAAATAACTAAAA
Found at i:12150820 original size:44 final size:43
Alignment explanation
Indices: 12150772--12151399 Score: 550
Period size: 44 Copynumber: 14.4 Consensus size: 43
12150762 CAACTTTTGT
** * **
12150772 AAAAATAAATATGGCTCTTCTAAACAGAGACTCAACTTCTTTCA
1 AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGACTTT-A
* * *
12150816 AAAAATAAATAAAGCTCCTCTAAACAAAGGCTCAATGACTTTTGAA
1 AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGAC-TTT--A
** * * *
12150862 AATAAATAAATAAAATTCCTCTAAATAGAGGCTCAACGACTTTTG
1 AA-AAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGAC-TTTA
* * * * * *
12150907 AAAAATAACTAAAGTTATTCTAAATAGAGGCTCACCGACTTTTG
1 AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGAC-TTTA
* * * * *
12150951 GAAAATAAATAAAGCTTTTCTAAATAGAGGCTCAACAACTTTG
1 AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGACTTTA
* * * *
12150994 AAAAATAAATAATGCTCCTCTAAACAGAAGCTCAATGACTTT-
1 AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGACTTTA
* * * *
12151036 GAAAATAAATTAAGCCCTTCTAAACAGAGGCTCAAAGACTTTA
1 AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGACTTTA
* *
12151079 AAAAAT--ATAAAGCTCCTCTAAACAGAGGCTCAACTACTTTCA
1 AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGACTTT-A
* * *
12151121 AAAAATAAATAAAGCTCCTT-TAAACAAAGGCTTAATGACTTTTGAA
1 AAAAATAAATAAAGCT-CTTCTAAACAGAGGCTCAACGAC-TTT--A
* *
12151167 AATAAATAAATAAAGCTCTTCTAAATAGAGGCTCAACGACTTTTG
1 AA-AAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGAC-TTTA
12151212 AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGACTTTTA
1 AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGAC-TTTA
* * *
12151256 AAAAATAAATAAAGCT-TATCTAAACAGAGACTCAACAACTTTG
1 AAAAATAAATAAAGCTCT-TCTAAACAGAGGCTCAACGACTTTA
* * * * *
12151299 AAAAATAAGTAATGCTCCTCTAAACAGAAGCTCAATGACTTT-
1 AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGACTTTA
* * * * * * **
12151341 GAAAATAAATTAAGCTCCTCTAAATAGAAGCTTAATAACTTT-
1 AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGACTTTA
* *
12151383 GAAAATAAATAATGCTC
1 AAAAATAAATAAAGCTC
12151400 ATTAACAATC
Statistics
Matches: 491, Mismatches: 79, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
41 29 0.06
42 92 0.19
43 81 0.16
44 199 0.41
45 12 0.02
46 9 0.02
47 69 0.14
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (43 bp):
AAAAATAAATAAAGCTCTTCTAAACAGAGGCTCAACGACTTTA
Found at i:12151341 original size:305 final size:305
Alignment explanation
Indices: 12150785--12151364 Score: 973
Period size: 305 Copynumber: 1.9 Consensus size: 305
12150775 AATAAATATG
* *
12150785 GCTCTTCTAAACAGAGACTCAACTTCTTTCAAAAAATAAATAAAGCTCCTCTAAACAAAGGCTCA
1 GCTCCTCTAAACAGAGACTCAACTACTTTCAAAAAATAAATAAAGCTCCTCTAAACAAAGGCTCA
*
12150850 ATGACTTTTGAAAATAAATAAATAAAATTCCTCTAAATAGAGGCTCAACGACTTTTGAAAAATAA
66 ATGACTTTTGAAAATAAATAAATAAAACTCCTCTAAATAGAGGCTCAACGACTTTTGAAAAATAA
* * * * ** * *
12150915 CTAAAGTTATTCTAAATAGAGGCTCACCGACTTTTGGAAAATAAATAAAGCTTTTCTAAATAGAG
131 ATAAAGCTATTCTAAACAGAGGCTCAACGACTTTTAAAAAATAAATAAAGCTTATCTAAACAGAG
*
12150980 GCTCAACAACTTTGAAAAATAAATAATGCTCCTCTAAACAGAAGCTCAATGACTTTGAAAATAAA
196 ACTCAACAACTTTGAAAAATAAATAATGCTCCTCTAAACAGAAGCTCAATGACTTTGAAAATAAA
12151045 TTAAGC-CCTTCTAAACAGAGGCTCAAAGACTTTAAAAAATATAAA
261 TTAAGCTCC-TCTAAACAGAGGCTCAAAGACTTTAAAAAATATAAA
* * *
12151090 GCTCCTCTAAACAGAGGCTCAACTACTTTCAAAAAATAAATAAAGCTCCTTTAAACAAAGGCTTA
1 GCTCCTCTAAACAGAGACTCAACTACTTTCAAAAAATAAATAAAGCTCCTCTAAACAAAGGCTCA
* *
12151155 ATGACTTTTGAAAATAAATAAATAAAGCTCTTCTAAATAGAGGCTCAACGACTTTTGAAAAATAA
66 ATGACTTTTGAAAATAAATAAATAAAACTCCTCTAAATAGAGGCTCAACGACTTTTGAAAAATAA
*
12151220 ATAAAGCTCTTCTAAACAGAGGCTCAACGACTTTTAAAAAATAAATAAAGCTTATCTAAACAGAG
131 ATAAAGCTATTCTAAACAGAGGCTCAACGACTTTTAAAAAATAAATAAAGCTTATCTAAACAGAG
*
12151285 ACTCAACAACTTTGAAAAATAAGTAATGCTCCTCTAAACAGAAGCTCAATGACTTTGAAAATAAA
196 ACTCAACAACTTTGAAAAATAAATAATGCTCCTCTAAACAGAAGCTCAATGACTTTGAAAATAAA
12151350 TTAAGCTCCTCTAAA
261 TTAAGCTCCTCTAAA
12151365 TAGAAGCTTA
Statistics
Matches: 255, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
305 253 0.99
306 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (305 bp):
GCTCCTCTAAACAGAGACTCAACTACTTTCAAAAAATAAATAAAGCTCCTCTAAACAAAGGCTCA
ATGACTTTTGAAAATAAATAAATAAAACTCCTCTAAATAGAGGCTCAACGACTTTTGAAAAATAA
ATAAAGCTATTCTAAACAGAGGCTCAACGACTTTTAAAAAATAAATAAAGCTTATCTAAACAGAG
ACTCAACAACTTTGAAAAATAAATAATGCTCCTCTAAACAGAAGCTCAATGACTTTGAAAATAAA
TTAAGCTCCTCTAAACAGAGGCTCAAAGACTTTAAAAAATATAAA
Found at i:12151701 original size:28 final size:27
Alignment explanation
Indices: 12151661--12151718 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
12151651 GTAAGATTTT
*
12151661 AAAATTTGCATTTATGAGATTCGCATCC
1 AAAATTTGAATTTA-GAGATTCGCATCC
* * *
12151689 AAAATTTTAATTTAGGGATTCGCATGC
1 AAAATTTGAATTTAGAGATTCGCATCC
12151716 AAA
1 AAA
12151719 TTGCAAGGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (27 bp):
AAAATTTGAATTTAGAGATTCGCATCC
Found at i:12151776 original size:21 final size:21
Alignment explanation
Indices: 12151747--12151789 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12151737 ACATTTAAAT
12151747 ATTCAAATTCTGGAGATTCAC
1 ATTCAAATTCTGGAGATTCAC
* * *
12151768 ATTCGAATTTTGGTGATTCAC
1 ATTCAAATTCTGGAGATTCAC
12151789 A
1 A
12151790 CCCAAAAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (21 bp):
ATTCAAATTCTGGAGATTCAC
Found at i:12152087 original size:20 final size:20
Alignment explanation
Indices: 12152056--12152159 Score: 122
Period size: 21 Copynumber: 5.0 Consensus size: 20
12152046 TTCACATCTA
12152056 AAAGATTTTCATTTGAAACTC
1 AAAGA-TTTCATTTGAAACTC
*
12152077 AAAGATTTCA-TTGGAACTC
1 AAAGATTTCATTTGAAACTC
*
12152096 AAAAATTCTCATTTGAAACTC
1 AAAGATT-TCATTTGAAACTC
*
12152117 AAAGATTTCA-TTGAAAAACAC
1 AAAGATTTCATTTG--AAACTC
12152138 AAAGATTCTCATTTGAAACTC
1 AAAGATT-TCATTTGAAACTC
12152159 A
1 A
12152160 TAATTTTATC
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
19 17 0.24
20 11 0.15
21 37 0.52
22 3 0.04
23 3 0.04
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (20 bp):
AAAGATTTCATTTGAAACTC
Found at i:12152108 original size:40 final size:41
Alignment explanation
Indices: 12152055--12152159 Score: 149
Period size: 40 Copynumber: 2.5 Consensus size: 41
12152045 TTTCACATCT
* * *
12152055 AAAAGATTTTCATTTGAAACTCAAAGATTTCATTG-GAACTC
1 AAAA-ATTCTCATTTGAAACTCAAAGATTTCATTGAAAACAC
12152096 AAAAATTCTCATTTGAAACTCAAAGATTTCATTGAAAAACAC
1 AAAAATTCTCATTTGAAACTCAAAGATTTCATTG-AAAACAC
*
12152138 AAAGATTCTCATTTGAAACTCA
1 AAAAATTCTCATTTGAAACTCA
12152160 TAATTTTATC
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
40 29 0.50
41 4 0.07
42 25 0.43
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (41 bp):
AAAAATTCTCATTTGAAACTCAAAGATTTCATTGAAAACAC
Found at i:12152750 original size:53 final size:53
Alignment explanation
Indices: 12152629--12152775 Score: 179
Period size: 53 Copynumber: 2.8 Consensus size: 53
12152619 TCATTCACAC
* * *
12152629 CATTTGATCGCAATTCACAGGCTTCTTAGCACTAGCAATTTCATCATTTGCAT
1 CATTTGATCGCAACTCACAGGCTTCTCAGCATTAGCAATTTCATCATTTGCAT
* * * * *
12152682 CA-TTGAATTGTAACTCATAGGCTTATCAGCATTAGCAATTTCATCATTTGTAT
1 CATTTG-ATCGCAACTCACAGGCTTCTCAGCATTAGCAATTTCATCATTTGCAT
* * *
12152735 CATTTGATCGCAACTCACAAGCTTCTCATCATTAGTAATTT
1 CATTTGATCGCAACTCACAGGCTTCTCAGCATTAGCAATTT
12152776 TAGCATAAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 3 0.04
53 71 0.92
54 3 0.04
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (53 bp):
CATTTGATCGCAACTCACAGGCTTCTCAGCATTAGCAATTTCATCATTTGCAT
Found at i:12153855 original size:16 final size:16
Alignment explanation
Indices: 12153819--12153883 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
12153809 TGTAACATTC
12153819 ATTTTTCTTTTC-TCTTT
1 ATTTTTC-TTTCGT-TTT
12153836 -TTTTTGCTTT-GTTTT
1 ATTTTT-CTTTCGTTTT
*
12153851 ATTTTTCTTTCTTTTT
1 ATTTTTCTTTCGTTTT
*
12153867 ATTTTT-TTTCTTTTT
1 ATTTTTCTTTCGTTTT
12153882 AT
1 AT
12153884 CTTTGAGATC
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
15 18 0.42
16 24 0.56
17 1 0.02
ACGTcount: A:0.06, C:0.11, G:0.03, T:0.80
Consensus pattern (16 bp):
ATTTTTCTTTCGTTTT
Found at i:12153864 original size:19 final size:20
Alignment explanation
Indices: 12153833--12153879 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
12153823 TTCTTTTCTC
12153833 TTTTT-TTTGCTTTGTT-TTA
1 TTTTTCTTTGCTTT-TTATTA
*
12153852 TTTTTCTTT-CTTTTTATTT
1 TTTTTCTTTGCTTTTTATTA
12153871 TTTTTCTTT
1 TTTTTCTTT
12153880 TTATCTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 20 0.80
20 3 0.12
ACGTcount: A:0.04, C:0.09, G:0.04, T:0.83
Consensus pattern (20 bp):
TTTTTCTTTGCTTTTTATTA
Found at i:12153876 original size:15 final size:16
Alignment explanation
Indices: 12153819--12153883 Score: 73
Period size: 15 Copynumber: 4.1 Consensus size: 16
12153809 TGTAACATTC
12153819 ATTTTTCTTTTCTCTTTT
1 ATTTTTC-TTTCT-TTTT
* *
12153837 -TTTTGCTTT-GTTTT
1 ATTTTTCTTTCTTTTT
12153851 ATTTTTCTTTCTTTTT
1 ATTTTTCTTTCTTTTT
12153867 ATTTTT-TTTCTTTTT
1 ATTTTTCTTTCTTTTT
12153882 AT
1 AT
12153884 CTTTGAGATC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
14 4 0.10
15 19 0.46
16 13 0.32
17 5 0.12
ACGTcount: A:0.06, C:0.11, G:0.03, T:0.80
Consensus pattern (16 bp):
ATTTTTCTTTCTTTTT
Found at i:12158757 original size:25 final size:24
Alignment explanation
Indices: 12158702--12158758 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
12158692 TATCTCTTAA
12158702 CAAAAAAACCAAAGATAAATCAAT
1 CAAAAAAACCAAAGATAAATCAAT
*
12158726 CGAAAAAA-CAAAGAATTAAAT-AAT
1 CAAAAAAACCAAAG-A-TAAATCAAT
12158750 CAACAAAAA
1 CAA-AAAAA
12158759 GATAAGACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 5 0.18
24 13 0.46
25 10 0.36
ACGTcount: A:0.68, C:0.14, G:0.05, T:0.12
Consensus pattern (24 bp):
CAAAAAAACCAAAGATAAATCAAT
Found at i:12159754 original size:29 final size:28
Alignment explanation
Indices: 12159721--12159798 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 28
12159711 TATACTTGAA
*
12159721 TAATATGAATATATACCAATAGACACGAT
1 TAATATGAATATATA-CAATAGACACAAT
* * *
12159750 TAATATGGATATATATGAATAGATACAAT
1 TAATATGAATATATA-CAATAGACACAAT
* *
12159779 TAACACGAATATATACAATA
1 TAATATGAATATATACAATA
12159799 ATATGACTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 4 0.10
29 36 0.90
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (28 bp):
TAATATGAATATATACAATAGACACAAT
Found at i:12165159 original size:10 final size:9
Alignment explanation
Indices: 12165138--12165181 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
12165128 TAAACAAACT
12165138 TGAATAATA
1 TGAATAATA
12165147 TGAATATATA
1 TGAATA-ATA
*
12165157 TGAATAGACA
1 TGAATA-ATA
*
12165167 TGACTAATA
1 TGAATAATA
12165176 TGAATA
1 TGAATA
12165182 TATACGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 13 0.45
10 16 0.55
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.32
Consensus pattern (9 bp):
TGAATAATA
Found at i:12167753 original size:23 final size:23
Alignment explanation
Indices: 12167721--12167769 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
12167711 TTTATAGAGC
* *
12167721 TTTTTGGGATTCAAATCTCAGAT
1 TTTTTAGGATCCAAATCTCAGAT
12167744 TTTTTAGGATCCAAATCTCAGAT
1 TTTTTAGGATCCAAATCTCAGAT
12167767 TTT
1 TTT
12167770 CAACTAGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (23 bp):
TTTTTAGGATCCAAATCTCAGAT
Found at i:12167936 original size:3 final size:3
Alignment explanation
Indices: 12167930--12167976 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
12167920 AAAGAAAAAT
* *
12167930 ATA ATA ATA ATG ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
12167977 TGATATATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12167950 original size:15 final size:15
Alignment explanation
Indices: 12167930--12167976 Score: 85
Period size: 15 Copynumber: 3.1 Consensus size: 15
12167920 AAAGAAAAAT
12167930 ATAATAATAATGATA
1 ATAATAATAATGATA
12167945 ATAATAATAATGATA
1 ATAATAATAATGATA
*
12167960 ATAATAATAATAATA
1 ATAATAATAATGATA
12167975 AT
1 AT
12167977 TGATATATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (15 bp):
ATAATAATAATGATA
Found at i:12168266 original size:44 final size:44
Alignment explanation
Indices: 12168143--12168284 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 44
12168133 AATAATTTTT
* * * *
12168143 TTTTTAAA-TTTAAAAAGGCTCCTCTAAATAGAGGCTCGACGAC
1 TTTTAAAATTTTAAAATGGCTTCTCTAAGTAGAGGCTCGACGAC
* * * * *
12168186 TTTTAAAATTTTAAAAAT-GC-TCATTTAAGCAAAGGCTTGATGAC
1 TTTTAAAATTTT-AAAATGGCTTC-TCTAAGTAGAGGCTCGACGAC
* * *
12168230 TTTTGAAATTTTAAAATGGCTTCTCCAAGTAGAGGCTCAACGAC
1 TTTTAAAATTTTAAAATGGCTTCTCTAAGTAGAGGCTCGACGAC
*
12168274 -TTTAAATTTTT
1 TTTTAAAATTTT
12168285 CACCTTGCTC
Statistics
Matches: 75, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
43 22 0.29
44 47 0.63
45 6 0.08
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (44 bp):
TTTTAAAATTTTAAAATGGCTTCTCTAAGTAGAGGCTCGACGAC
Found at i:12168423 original size:49 final size:50
Alignment explanation
Indices: 12168324--12168486 Score: 165
Period size: 49 Copynumber: 3.3 Consensus size: 50
12168314 AACTTAAAAC
* * * * * *
12168324 TTAAAAATTTCATC-TCGAAAAAGTTCATCTAAGCAAATGC-TCAACGACT
1 TTAAAAATTTCATCTTGGAAAAAGCTCCTTTAAGTAAA-GCTTCAACAACT
*
12168373 TTAAAAATTTCATCTTGGAAAAA-CTCCTTTAAGTAAAGACTT-AAGAACT
1 TTAAAAATTTCATCTTGGAAAAAGCTCCTTTAAGTAAAG-CTTCAACAACT
* * * *
12168422 TTAAAGATTTCAT-TTTGAAAAAGCTCCTTTAAGTAGAGGTTCAACAACT
1 TTAAAAATTTCATCTTGGAAAAAGCTCCTTTAAGTAAAGCTTCAACAACT
*
12168471 TTAAAAATTTTATCTT
1 TTAAAAATTTCATCTT
12168487 TTCTCGAAAC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
48 11 0.12
49 73 0.78
50 10 0.11
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (50 bp):
TTAAAAATTTCATCTTGGAAAAAGCTCCTTTAAGTAAAGCTTCAACAACT
Found at i:12172849 original size:26 final size:26
Alignment explanation
Indices: 12172812--12172865 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
12172802 GAATGGCAAG
* *
12172812 AAAATGATAATGGAAA-AATGAAAAGA
1 AAAATGAAAATGAAAATAAT-AAAAGA
12172838 AAAATGAAAATGAAAATAATAAAAGA
1 AAAATGAAAATGAAAATAATAAAAGA
12172864 AA
1 AA
12172866 TGCGAATGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (26 bp):
AAAATGAAAATGAAAATAATAAAAGA
Found at i:12172854 original size:12 final size:13
Alignment explanation
Indices: 12172812--12172853 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
12172802 GAATGGCAAG
*
12172812 AAAATGATAATGGA
1 AAAATGAAAAT-GA
12172826 AAAATGAAAA-GA
1 AAAATGAAAATGA
12172838 AAAATGAAAATGA
1 AAAATGAAAATGA
12172851 AAA
1 AAA
12172854 TAATAAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 12 0.46
13 5 0.19
14 9 0.35
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:12172867 original size:18 final size:18
Alignment explanation
Indices: 12172826--12172865 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12172816 TGATAATGGA
*
12172826 AAAATGAAAAGAAAAATG
1 AAAATGAAAAGAAAAAAG
*
12172844 AAAATGAAAATAATAAAAG
1 AAAATGAAAAGAA-AAAAG
12172863 AAA
1 AAA
12172866 TGCGAATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAATGAAAAGAAAAAAG
Found at i:12175168 original size:3 final size:3
Alignment explanation
Indices: 12175155--12175239 Score: 104
Period size: 3 Copynumber: 28.7 Consensus size: 3
12175145 ATCTTATAAA
* * *
12175155 TAT TGT TAT TAT TAT T-T T-T TAT TCT GAT GTGAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T-AT TAT TAT TAT TAT
12175199 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
12175240 CTACTACTAC
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
2 6 0.08
3 63 0.88
4 1 0.01
5 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:12175534 original size:32 final size:28
Alignment explanation
Indices: 12175483--12175547 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
12175473 TTTATCGTAT
* *
12175483 TTTATTTTTTTCATTATTTTTAATATTTC
1 TTTATTTTGTTCATTATTTTAAAT-TTTC
12175512 TTTATTATTGTTCATTAAATTTTAAATTTTC
1 TTTATT-TTGTTCATT--ATTTTAAATTTTC
*
12175543 ATTAT
1 TTTAT
12175548 GTCATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.20
30 8 0.27
31 8 0.27
32 8 0.27
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTATTTTGTTCATTATTTTAAATTTTC
Found at i:12175700 original size:23 final size:25
Alignment explanation
Indices: 12175674--12175720 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
12175664 AAAAGTTTAT
12175674 AAAAAA-ATAAAATAAA-AATAACA
1 AAAAAACATAAAATAAATAATAACA
*
12175697 AAAAAATCATAAATTAAATAATAA
1 AAAAAA-CATAAAATAAATAATAA
12175721 AAATATCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
25 9 0.45
26 5 0.25
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (25 bp):
AAAAAACATAAAATAAATAATAACA
Found at i:12175722 original size:23 final size:24
Alignment explanation
Indices: 12175672--12175731 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
12175662 TCAAAAGTTT
12175672 ATAAAAAAAT-A-AAATAAAAATA
1 ATAAAAAAATCATAAATAAAAATA
* *
12175694 ACAAAAAAATCATAAAT-TAAATA
1 ATAAAAAAATCATAAATAAAAATA
*
12175717 ATAAAAATATC-TAAA
1 ATAAAAAAATCATAAA
12175732 AATTTTGAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 13 0.41
23 15 0.47
24 4 0.12
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (24 bp):
ATAAAAAAATCATAAATAAAAATA
Found at i:12176733 original size:3 final size:3
Alignment explanation
Indices: 12176720--12176753 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
12176710 AGAAAAGAAA
12176720 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12176754 TGATATAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:12178827 original size:161 final size:161
Alignment explanation
Indices: 12178228--12179727 Score: 1445
Period size: 161 Copynumber: 9.3 Consensus size: 161
12178218 CTTATTCATG
* * * * *
12178228 CATATCAACAGT-AGAAATCAAGTTCAATTATTCAGACAAATTTAATATCATGTATTAAAGTTAT
1 CATATCAACTGTGA-AAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTAT
* * * * * * * *
12178292 CCAAATTGTTAAAATAGCACAATAACAGTAATTTTGCATTTTGTCCCTATTAACGGCATAAAAAG
65 CCAAACTGTTAAAACAGAACAATAACAGCAAATTTGCATTTT-TACCTTTTAACAGCATAAAAAG
* *
12178357 TCTTAAACAAACATAAACAATAACTTTTTCACA
129 TCTTAAACAAACGTAAATAATAACTTTTTCACA
* * * * * *
12178390 CATTTCAATTGTGAAAACCAAGTTCAATCATTCAAATAAGTTTTATATCATGTATTAAAGCCATC
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATC
* * * *
12178455 CAAACTGTTAAAACAGAATAATAACAGCAAATTTACATTTTTATCTTTTAAC-GACATAAAAATT
66 CAAACTGTTAAAACAGAACAATAACAGCAAATTTGCATTTTTACCTTTTAACAG-CATAAAAAGT
* * * *
12178519 CTTAAACAGAGGTAAACAATAACTTTTTCATA
130 CTTAAACAAACGTAAATAATAACTTTTTCACA
* * * * * * * * *
12178551 -TTATTAACTGTGAAAACTAAGTTTAATCATTCGGATAAGTTTAATATCGTATATTGAAGCTATC
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATC
* * ** *
12178615 CAAACTGTTAAAACAGAATAATAATAGCAAATTTATATTTTTACATTTTAACAGCATAAAAAGTC
66 CAAACTGTTAAAACAGAACAATAACAGCAAATTTGCATTTTTACCTTTTAACAGCATAAAAAGTC
* **
12178680 TTAAACAAATGTAAATGGTAGA-TTTTTCACA
131 TTAAACAAACGTAAATAATA-ACTTTTTCACA
* * *
12178711 CATATCAACTGTGAAAATCAAGTTCAATCATTCGGACAAGTTTAATATCATATATTAAAGCTATC
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATC
* * * * * * * *
12178776 TAAACTATTAAAATAGCACAATAACAACAATTTTGCATTTTTGCCTTTTAACAGCACAAAAAGTC
66 CAAACTGTTAAAACAGAACAATAACAGCAAATTTGCATTTTTACCTTTTAACAGCATAAAAAGTC
* * ** * *
12178841 TTAAACAGATGTAAACGATACCTTTTTCATA
131 TTAAACAAACGTAAATAATAACTTTTTCACA
* * *
12178872 CATTTCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCCATC
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATC
* * * * ** * *
12178937 CAAACTATTAAAACAGAATAATAATAGCAAAATTATATTTTTACCTTTTAACAACATAAAAAATC
66 CAAACTGTTAAAACAGAACAATAACAGCAAATTTGCATTTTTACCTTTTAACAGCATAAAAAGTC
* * *
12179002 TTAAATAAAGGTAAACAATAACTTTTTCACA
131 TTAAACAAACGTAAATAATAACTTTTTCACA
* * ** * *
12179033 CATATCAATTGTGAAAATCAAGTTCAATCATTTGGGCAAGTTTAATATCATGTATTGAAGCTATC
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATC
* * * * *
12179098 CAAACTATTAAAACAGAACAATAATAGCAAATTTGTATTTTTGCCTTTTAACGGCATAAAAAGTC
66 CAAACTGTTAAAACAGAACAATAACAGCAAATTTGCATTTTTACCTTTTAACAGCATAAAAAGTC
* * *
12179163 TTAAACAAACATAAATGACAACTTTTTCACA
131 TTAAACAAACGTAAATAATAACTTTTTCACA
* * * * * * *
12179194 CATATCAATTATGGAAACCAAGTTCAATCATTCGGACAAATTTAATATCATGTATTGAAGTTATC
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATC
* * * * * * *
12179259 CAAATTGTTAAAATAGAACAATAACAACAAATTTGTACTTTTATCTTTT-A-AGCATAAAAAATC
66 CAAACTGTTAAAACAGAACAATAACAGCAAATTTGCATTTTTACCTTTTAACAGCATAAAAAGTC
* * * *
12179322 TTAAATAGACGTAAATGATAACTTTTTTCATA
131 TTAAACAAACGTAAATAATAAC-TTTTTCACA
* ** * * * * *
12179354 CATATTAACCATGGAAAGCAAGTTCAATTATTCAGACAAATTTAATATCATGTATTGAAA-CTTT
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATT-AAAGCTAT
* * * * * * **
12179418 CAAAACTATTAAAACAAAACAACAATAGCAAATTTGCATTTTTGCCTTTTAACAATATAAAAAGT
65 CCAAACTGTTAAAACAGAACAATAACAGCAAATTTGCATTTTTACCTTTTAACAGCATAAAAAGT
* * ** *
12179483 CCTAAACATATATAAATAACAACTTTTTCACA
130 CTTAAACAAACGTAAATAATAACTTTTTCACA
** * * * * *
12179515 CATATCAATCAT-CAAAAACTAAGTTCAATTATTCAAAAAATTTTAATATCATGTATTGAAA-CT
1 CATATCAA-C-TGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATT-AAAGCT
* * * * * * *
12179578 ATCAAAACTGTTAAAATAGAACAATAACTGTAAATTTACATTTTTACCTTTTAA-TGACACAAAA
63 ATCCAAACTGTTAAAACAGAACAATAACAGCAAATTTGCATTTTTACCTTTTAACAG-CATAAAA
* * ** *
12179642 AATCTTAAACAAACATAAATTGTAACTTTTTCACC
127 AGTCTTAAACAAACGTAAATAATAACTTTTTCACA
*** * * *
12179677 CATATCAACAACGAAAACCAAGTTCAATCATTCAAATAAGCTTAATATCAT
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCAT
12179728 AAACTTATTT
Statistics
Matches: 1109, Mismatches: 215, Indels: 29
0.82 0.16 0.02
Matches are distributed among these distances:
159 29 0.03
160 232 0.21
161 608 0.55
162 239 0.22
163 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (161 bp):
CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATC
CAAACTGTTAAAACAGAACAATAACAGCAAATTTGCATTTTTACCTTTTAACAGCATAAAAAGTC
TTAAACAAACGTAAATAATAACTTTTTCACA
Found at i:12179139 original size:483 final size:483
Alignment explanation
Indices: 12178214--12179728 Score: 1770
Period size: 483 Copynumber: 3.1 Consensus size: 483
12178204 ATTGTTAATT
* ** * * *
12178214 GTAACTTATTCATGCATATCAACAGT-AGAAATCAAGTTCAATTATTCAGACAAATTTAATATCA
1 GTAACTTTTTCACACATATCAACAATGA-AAACCAAGTTCAATCATTCAGACAAATTTAATATCA
* ** * *
12178278 TGTATTAAAGTTATCCAAATTGTTAAAATAGCACAATAACAGTAATTTTGCATTTTGTCCCTATT
65 TATATTAAAGTTATCCAAATTGTTAAAATAGCACAATAACAACAATTTTGCATTTT-TACCTTTT
* * * * * * *
12178343 AACGGCATAAAAAGTCTTAAACAAACATAAACAATAACTTTTTCACACATTTCAATTGTGAAAAC
129 AACAGCATAAAAAGTCTTAAACAGACGTAAACGATACCTTTTTCATACATTTCAACTGTGAAAAC
* * * * *
12178408 CAAGTTCAATCATTCAAATAAGTTTTATATCATGTATTAAAGCCATCCAAACTGTTAAAACAGAA
194 CAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCCATCCAAACTATTAAAACAGAA
* * * * *
12178473 TAATAACAGCAAATTTACATTTTTATCTTTTAACGACATAAAAATTCTTAAACAGAGGTAAACAA
259 TAATAATAGCAAATTTACATTTTTACCTTTTAACAACATAAAAAATCTTAAACAAAGGTAAACAA
* * * * * * * *
12178538 TAACTTTTTCATA-TTATTAACTGTGAAAACTAAGTTTAATCATTCGGATAAGTTTAATATCGTA
324 TAACTTTTTCACACATATCAATTGTGAAAACTAAGTTCAATCATTCGGAAAAGTTTAATATCATG
* *
12178602 TATTGAAGCTATCCAAACTGTTAAAACAGAATAATAATAGCAAATTTATATTTTTACATTTTAAC
389 TATTGAAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAAATTTATATTTTTACCTTTTAAC
**
12178667 AGCATAAAAAGTCTTAAACAAATGTAAATG
454 AGCATAAAAAGTCTTAAACAAACATAAATG
** * * *
12178697 GTAGA-TTTTTCACACATATCAACTGTGAAAATCAAGTTCAATCATTCGGACAAGTTTAATATCA
1 GTA-ACTTTTTCACACATATCAACAATGAAAACCAAGTTCAATCATTCAGACAAATTTAATATCA
* * * * *
12178761 TATATTAAAGCTATCTAAACTATTAAAATAGCACAATAACAACAATTTTGCATTTTTGCCTTTTA
65 TATATTAAAGTTATCCAAATTGTTAAAATAGCACAATAACAACAATTTTGCATTTTTACCTTTTA
* *
12178826 ACAGCACAAAAAGTCTTAAACAGATGTAAACGATACCTTTTTCATACATTTCAACTGTGAAAACC
130 ACAGCATAAAAAGTCTTAAACAGACGTAAACGATACCTTTTTCATACATTTCAACTGTGAAAACC
12178891 AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCCATCCAAACTATTAAAACAGAAT
195 AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCCATCCAAACTATTAAAACAGAAT
* * *
12178956 AATAATAGCAAAATTATATTTTTACCTTTTAACAACATAAAAAATCTTAAATAAAGGTAAACAAT
260 AATAATAGCAAATTTACATTTTTACCTTTTAACAACATAAAAAATCTTAAACAAAGGTAAACAAT
* **
12179021 AACTTTTTCACACATATCAATTGTGAAAA-TCAAGTTCAATCATTTGGGCAAGTTTAATATCATG
325 AACTTTTTCACACATATCAATTGTGAAAACT-AAGTTCAATCATTCGGAAAAGTTTAATATCATG
* * *
12179085 TATTGAAGCTATCCAAACTATTAAAACAGAACAATAATAGCAAATTTGTATTTTTGCCTTTTAAC
389 TATTGAAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAAATTTATATTTTTACCTTTTAAC
*
12179150 GGCATAAAAAGTCTTAAACAAACATAAATG
454 AGCATAAAAAGTCTTAAACAAACATAAATG
** ** * *
12179180 ACAACTTTTTCACACATATCAATTATGGAAACCAAGTTCAATCATTCGGACAAATTTAATATCAT
1 GTAACTTTTTCACACATATCAACAATGAAAACCAAGTTCAATCATTCAGACAAATTTAATATCAT
* * * * * * *
12179245 GTATTGAAGTTATCCAAATTGTTAAAATAGAACAATAACAACAAATTTGTACTTTTATCTTTT-A
66 ATATTAAAGTTATCCAAATTGTTAAAATAGCACAATAACAACAATTTTGCATTTTTACCTTTTAA
* * * * ** * *
12179309 -AGCATAAAAAATCTTAAATAGACGTAAATGATAACTTTTTTCATACATATT-AACCATGGAAAG
131 CAGCATAAAAAGTCTTAAACAGACGTAAACGAT-ACCTTTTTCATACAT-TTCAACTGTGAAAAC
* * * ** * *
12179372 CAAGTTCAATTATTCAGACAAATTTAATATCATGTATTGAAACTTTCAAAACTATTAAAACAAAA
194 CAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCCATCCAAACTATTAAAACAGAA
* * * * * * * * ** *
12179437 CAACAATAGCAAATTTGCATTTTTGCCTTTTAACAATATAAAAAGTCCTAAACATATATAAATAA
259 TAATAATAGCAAATTTACATTTTTACCTTTTAACAACATAAAAAATCTTAAACAAAGGTAAACAA
* ** * * ** *
12179502 CAACTTTTTCACACATATCAATCATCAAAAACTAAGTTCAATTATTCAAAAAATTTTAATATCAT
324 TAACTTTTTCACACATATCAATTGT-GAAAACTAAGTTCAATCATTCGGAAAAGTTTAATATCAT
* * * * *
12179567 GTATTGAAACTATCAAAACTGTTAAAATAGAACAATAACT-GTAAATTTACATTTTTACCTTTTA
388 GTATTGAAGCTATCCAAACTGTTAAAACAGAACAATAA-TAGCAAATTTATATTTTTACCTTTTA
* * * *
12179631 A-TGACACAAAAAATCTTAAACAAACATAAATT
452 ACAG-CATAAAAAGTCTTAAACAAACATAAATG
* * * * **
12179663 GTAACTTTTTCACCCATATCAACAACGAAAACCAAGTTCAATCATTCAAATAAGCTTAATATCAT
1 GTAACTTTTTCACACATATCAACAATGAAAACCAAGTTCAATCATTCAGACAAATTTAATATCAT
12179728 A
66 A
12179729 AACTTATTTT
Statistics
Matches: 879, Mismatches: 142, Indels: 22
0.84 0.14 0.02
Matches are distributed among these distances:
481 27 0.03
482 348 0.40
483 500 0.57
484 4 0.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (483 bp):
GTAACTTTTTCACACATATCAACAATGAAAACCAAGTTCAATCATTCAGACAAATTTAATATCAT
ATATTAAAGTTATCCAAATTGTTAAAATAGCACAATAACAACAATTTTGCATTTTTACCTTTTAA
CAGCATAAAAAGTCTTAAACAGACGTAAACGATACCTTTTTCATACATTTCAACTGTGAAAACCA
AGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCCATCCAAACTATTAAAACAGAATA
ATAATAGCAAATTTACATTTTTACCTTTTAACAACATAAAAAATCTTAAACAAAGGTAAACAATA
ACTTTTTCACACATATCAATTGTGAAAACTAAGTTCAATCATTCGGAAAAGTTTAATATCATGTA
TTGAAGCTATCCAAACTGTTAAAACAGAACAATAATAGCAAATTTATATTTTTACCTTTTAACAG
CATAAAAAGTCTTAAACAAACATAAATG
Found at i:12183427 original size:9 final size:9
Alignment explanation
Indices: 12183413--12183442 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
12183403 TTTATAGATC
12183413 ATTCTAATA
1 ATTCTAATA
12183422 ATTCTAATA
1 ATTCTAATA
12183431 ATTCTAATA
1 ATTCTAATA
12183440 ATT
1 ATT
12183443 ATTAGAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTCTAATA
Found at i:12183715 original size:2 final size:2
Alignment explanation
Indices: 12183708--12183736 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12183698 GTTGGCTACA
12183708 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12183737 AATCAATTAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12187164 original size:68 final size:68
Alignment explanation
Indices: 12187089--12187229 Score: 228
Period size: 68 Copynumber: 2.1 Consensus size: 68
12187079 TAGATTTTAG
* *
12187089 AATAAAGTATATAAAACAAATCATTAAGGTAAGTATATATATTATATTATAATAATACCTTATCA
1 AATAAAGTATATAAAACAAATCATTAAGGTAAGTATATACATTATATTATAAAAATACCTTATCA
12187154 CAT
66 CAT
* * * *
12187157 GATAAAGTATATAAAACAAATCATTAAGGTGAGTATATACATTATATTATAAAAATTCCTTATTA
1 AATAAAGTATATAAAACAAATCATTAAGGTAAGTATATACATTATATTATAAAAATACCTTATCA
12187222 CAT
66 CAT
12187225 AATAA
1 AATAA
12187230 GGAAATATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.35
Consensus pattern (68 bp):
AATAAAGTATATAAAACAAATCATTAAGGTAAGTATATACATTATATTATAAAAATACCTTATCA
CAT
Found at i:12187798 original size:16 final size:16
Alignment explanation
Indices: 12187768--12187818 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
12187758 AAACAATATT
*
12187768 TATTTA-ATATGTTAA
1 TATTTATATATATTAA
12187783 TATTTATATATATTAA
1 TATTTATATATATTAA
* *
12187799 TATATATACATTATTAA
1 TATTTATATA-TATTAA
12187816 TAT
1 TAT
12187819 AAAAAATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 6 0.19
16 16 0.52
17 9 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (16 bp):
TATTTATATATATTAA
Found at i:12187886 original size:2 final size:2
Alignment explanation
Indices: 12187879--12187905 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12187869 TATGCGTTTA
12187879 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12187906 ACAATCATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12188017 original size:23 final size:22
Alignment explanation
Indices: 12187990--12188032 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
12187980 AAAATAATGA
*
12187990 TATATTGTATTAATACTATTATT
1 TATATTATATTAATA-TATTATT
*
12188013 TATATTATATTTATATATTA
1 TATATTATATTAATATATTA
12188033 AATATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TATATTATATTAATATATTATT
Found at i:12189731 original size:22 final size:21
Alignment explanation
Indices: 12189700--12189757 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
12189690 AAAAAATCAT
*
12189700 AAAAATATTTTAAATATAAAA
1 AAAAAAATTTTAAATATAAAA
*
12189721 AATAAAAATTTTAAATGTAAAA
1 AA-AAAAATTTTAAATATAAAA
12189743 AAAAATAATTTTAAA
1 AAAAA-AATTTTAAA
12189758 ACACAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAAAATTTTAAATATAAAA
Found at i:12191390 original size:2 final size:2
Alignment explanation
Indices: 12191385--12191419 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
12191375 CTTCTCTCCT
12191385 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12191420 GGGTTTGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12199280 original size:151 final size:155
Alignment explanation
Indices: 12199004--12199282 Score: 354
Period size: 157 Copynumber: 1.8 Consensus size: 155
12198994 CTTTCCCTTC
* ** *
12199004 TTCACTTCTCCTTCCATTTCTCTTCTTCTCACCAAAACTACTATCTTTTTTTTTTTTTACTTTTT
1 TTCACTTCTCCTTCCATTTCTCTTCCTCTCACCAAAACTACTATC-TTTTTTTTTTCGAC-TCTT
*
12199069 TTTTCTCTCCCCTCATCTTCTTTCCCTTTTCTCAATTAGCTAACTAATCACGAAAATTTTTTTGT
64 TTTTCTCTCACCTCATCTTCTTTCCCTTTTCTCAATTAGCTAACTAATCACGAAAATTTTTTTGT
12199134 TTTTTCATTGTTGGGTTCCTCACCACT
129 TTTTTCATTGTTGGGTTCCTCACCACT
* ***
12199161 TTCACTTCTCCTTCCCTTTCTCTTCCTCTTGTCAAAACTA-T-TC-TTTTTTTTTCGAC-CTTTT
1 TTCACTTCTCCTTCCATTTCTCTTCCTCTCACCAAAACTACTATCTTTTTTTTTTCGACTCTTTT
** * * *
12199222 TTCTCTCATTTCATCTTCTTTCCCCCTTTT-TCAGTTGGCTAACTAATCAC-AAATTTTTTTT
66 TTCTCTCACCTCATCTTCTTT--CCCTTTTCTCAATTAGCTAACTAATCACGAAAATTTTTTT
12199283 TTATGTTTTT
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
151 32 0.30
152 18 0.17
153 18 0.17
155 2 0.02
156 1 0.01
157 35 0.33
ACGTcount: A:0.16, C:0.28, G:0.04, T:0.52
Consensus pattern (155 bp):
TTCACTTCTCCTTCCATTTCTCTTCCTCTCACCAAAACTACTATCTTTTTTTTTTCGACTCTTTT
TTCTCTCACCTCATCTTCTTTCCCTTTTCTCAATTAGCTAACTAATCACGAAAATTTTTTTGTTT
TTTCATTGTTGGGTTCCTCACCACT
Found at i:12199913 original size:11 final size:11
Alignment explanation
Indices: 12199897--12199921 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12199887 TTTATTTAGC
12199897 TTTTGTTTTAA
1 TTTTGTTTTAA
12199908 TTTTGTTTTAA
1 TTTTGTTTTAA
12199919 TTT
1 TTT
12199922 ATTAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTGTTTTAA
Found at i:12200183 original size:30 final size:30
Alignment explanation
Indices: 12200147--12200203 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
12200137 AACAAGCTAC
** *
12200147 AATCCCAGGAAATCTGGGATTTTAATCCAT
1 AATCCCAAAAAATCTGAGATTTTAATCCAT
12200177 AATCCCAAAAAATCTGAGATTTTAATC
1 AATCCCAAAAAATCTGAGATTTTAATC
12200204 TCAAAGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (30 bp):
AATCCCAAAAAATCTGAGATTTTAATCCAT
Found at i:12201015 original size:25 final size:25
Alignment explanation
Indices: 12200987--12201038 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
12200977 TAGGATTTTT
12200987 AAGAAATAATGGTTTGAAAAGTCAA
1 AAGAAATAATGGTTTGAAAAGTCAA
** *
12201012 AAGAAATTGTGTTTTGAAAAGTCAA
1 AAGAAATAATGGTTTGAAAAGTCAA
12201037 AA
1 AA
12201039 AGAGAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.19, T:0.27
Consensus pattern (25 bp):
AAGAAATAATGGTTTGAAAAGTCAA
Found at i:12205185 original size:31 final size:31
Alignment explanation
Indices: 12205126--12205216 Score: 105
Period size: 31 Copynumber: 2.9 Consensus size: 31
12205116 CGGTAATTTG
** *
12205126 TATATTTATATTATATAAAATATTAAAATTA
1 TATATTTATATTATATTTAATATAAAAATTA
*
12205157 TATATTTATATTATATTTTATATAAAAATTA
1 TATATTTATATTATATTTAATATAAAAATTA
*
12205188 TGTA-TTATAATT-TATATTAATATAAAAAT
1 TATATTTAT-ATTATAT-TTAATATAAAAAT
12205217 ATAAAATACA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 7 0.13
31 45 0.87
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (31 bp):
TATATTTATATTATATTTAATATAAAAATTA
Found at i:12205201 original size:37 final size:38
Alignment explanation
Indices: 12205126--12205211 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
12205116 CGGTAATTTG
12205126 TATATT-TATATTATATAAAATATTAAAATTATATATT
1 TATATTATATATTATATAAAATATTAAAATTATATATT
* **
12205163 TATATTATATTTTATATAAAA-ATTATGTATTATA-ATT
1 TATATTATATATTATATAAAATATTA-AAATTATATATT
12205200 TATATTAATATA
1 TATATT-ATATA
12205212 AAAATATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 19 0.45
38 23 0.55
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (38 bp):
TATATTATATATTATATAAAATATTAAAATTATATATT
Found at i:12205518 original size:13 final size:13
Alignment explanation
Indices: 12205502--12205536 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
12205492 ATTATTTAAA
*
12205502 TAAAAATTAAAAT
1 TAAAAATTAAAAC
12205515 TAAAAATTAAAAC
1 TAAAAATTAAAAC
12205528 TAATAAATT
1 TAA-AAATT
12205537 GAAAGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAAATTAAAAC
Found at i:12216203 original size:21 final size:20
Alignment explanation
Indices: 12216170--12216225 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
12216160 AAAAGAACAT
*
12216170 AAACGTG-TCAAAATTGAGGA
1 AAACGTGCT-AAAATTGAGCA
*
12216190 AGAACGTGCTAAAATGGAGCA
1 A-AACGTGCTAAAATTGAGCA
12216211 AAAGCGTGC-AAAATT
1 AAA-CGTGCTAAAATT
12216226 TCAACAGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 8 0.27
21 21 0.70
22 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.18
Consensus pattern (20 bp):
AAACGTGCTAAAATTGAGCA
Found at i:12222785 original size:10 final size:10
Alignment explanation
Indices: 12222760--12222802 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
12222750 TTTTTTATAT
*
12222760 TATTTTAATA
1 TATTTAAATA
*
12222770 TAATTTTAATA
1 T-ATTTAAATA
12222781 TATTTAAATA
1 TATTTAAATA
*
12222791 AATTTAAATA
1 TATTTAAATA
12222801 TA
1 TA
12222803 AAATAATTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TATTTAAATA
Found at i:12222794 original size:20 final size:21
Alignment explanation
Indices: 12222760--12222802 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
12222750 TTTTTTATAT
* *
12222760 TATTTTAATATAATTTTAATA
1 TATTTAAATATAATTTAAATA
12222781 TATTTAAATA-AATTTAAATA
1 TATTTAAATATAATTTAAATA
12222801 TA
1 TA
12222803 AAATAATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTAAATATAATTTAAATA
Found at i:12222995 original size:11 final size:10
Alignment explanation
Indices: 12222979--12223012 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
12222969 AATACTATAA
12222979 TTTTAAATTAT
1 TTTTAAATT-T
12222990 TTTTAAA-TT
1 TTTTAAATTT
12222999 TTTTAAATTT
1 TTTTAAATTT
12223009 TTTT
1 TTTT
12223013 CCGTTCCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.36
10 7 0.32
11 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:12227495 original size:24 final size:23
Alignment explanation
Indices: 12227463--12227584 Score: 95
Period size: 24 Copynumber: 5.2 Consensus size: 23
12227453 TATACATCAC
12227463 AAAAA-TTGGACTTGTATAAATG
1 AAAAATTTGGACTTGTATAAATG
* * *
12227485 AAAAACTTTGGACATGTATAGATC
1 AAAAA-TTTGGACTTGTATAAATG
* * *
12227509 ATAAAATTTGAACATGTTTAAATG
1 A-AAAATTTGGACTTGTATAAATG
* * *
12227533 AAAATTTTGGACTTGTGTTAAT-
1 AAAAATTTGGACTTGTATAAATG
* *
12227555 AATAAAGTTTGAATTTGTATAAATG
1 AA-AAA-TTTGGACTTGTATAAATG
12227580 AAAAA
1 AAAAA
12227585 AATTTAAATT
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
22 7 0.09
23 18 0.23
24 46 0.60
25 6 0.08
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (23 bp):
AAAAATTTGGACTTGTATAAATG
Found at i:12229438 original size:59 final size:59
Alignment explanation
Indices: 12229367--12229478 Score: 188
Period size: 59 Copynumber: 1.9 Consensus size: 59
12229357 CTGCAACAGA
12229367 CTGCTGGTTTCCTGCAGCAGACTACTGGTTTCCTGCAGCAGACTATTGGTTTCCTACGT
1 CTGCTGGTTTCCTGCAGCAGACTACTGGTTTCCTGCAGCAGACTATTGGTTTCCTACGT
* * * *
12229426 CTGCTGGTTTCCTGCAGTAGACTATTGGTTTTCTGCAGCAGACTGTTGGTTTC
1 CTGCTGGTTTCCTGCAGCAGACTACTGGTTTCCTGCAGCAGACTATTGGTTTC
12229479 TTGCAGCAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.14, C:0.24, G:0.25, T:0.37
Consensus pattern (59 bp):
CTGCTGGTTTCCTGCAGCAGACTACTGGTTTCCTGCAGCAGACTATTGGTTTCCTACGT
Found at i:12229501 original size:21 final size:21
Alignment explanation
Indices: 12229342--12229499 Score: 171
Period size: 21 Copynumber: 7.7 Consensus size: 21
12229332 AAGACAGCAA
* *
12229342 CAGACTACTGGTTTTCTGCAA
1 CAGACTACTGGTTTCCTGCAG
*
12229363 CAGACTGCTGGTTTCCTGCAG
1 CAGACTACTGGTTTCCTGCAG
12229384 CAGACTACTGGTTTCCTGCAG
1 CAGACTACTGGTTTCCTGCAG
*
12229405 CAGACTATTGGTTTCCT--A-
1 CAGACTACTGGTTTCCTGCAG
* *
12229423 C-GTCTGCTGGTTTCCTGCAG
1 CAGACTACTGGTTTCCTGCAG
* * *
12229443 TAGACTATTGGTTTTCTGCAG
1 CAGACTACTGGTTTCCTGCAG
** *
12229464 CAGACTGTTGGTTTCTTGCAG
1 CAGACTACTGGTTTCCTGCAG
*
12229485 CAGACTACCGGTTTC
1 CAGACTACTGGTTTC
12229500 TTTCAGTAGG
Statistics
Matches: 113, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
17 12 0.11
18 1 0.01
19 2 0.02
21 98 0.87
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (21 bp):
CAGACTACTGGTTTCCTGCAG
Found at i:12230304 original size:26 final size:29
Alignment explanation
Indices: 12230250--12230331 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
12230240 AATAATTGTG
* *
12230250 TGAATATTACTTT-ATTATTTTTTCATTATT
1 TGAATA-TAATTTAATTATTTATT-ATTATT
*
12230280 TGAATATAATTTTATT-TTTATTTATTATT
1 TGAATATAATTTAATTATTTA-TTATTATT
*
12230309 TTAATATAATTTAATTATTTATT
1 TGAATATAATTTAATTATTTATT
12230332 TTTTATTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
29 30 0.67
30 15 0.33
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (29 bp):
TGAATATAATTTAATTATTTATTATTATT
Done.