Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011124.1 Kokia drynarioides strain JFW-HI SEQ_126097, 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: 574181
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 221 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:301 original size:29 final size:29
Alignment explanation
Indices: 269--421 Score: 129
Period size: 30 Copynumber: 5.2 Consensus size: 29
259 GACATTCAGG
269 GGTAAAATGGTAACTTTTGAAAGTTTCGA
1 GGTAAAATGGTAACTTTTGAAAGTTTCGA
* * *
298 GGTAAAAAATGG-AGCTTTTGGACA--TTCGGG
1 GGT--AAAATGGTAACTTTT-GAAAGTTTC-GA
*
328 GGTAAAATGGTAATTTTTGAAAGTTTCGA
1 GGTAAAATGGTAACTTTTGAAAGTTTCGA
*
357 GGTCAAAATGG-AA-TTTTGGAAG-TTCGA
1 GGT-AAAATGGTAACTTTTGAAAGTTTCGA
* * *
384 TGGTAAAATTGTAATTTTTGAAAGTTTCGG
1 -GGTAAAATGGTAACTTTTGAAAGTTTCGA
414 GGTTAAAA
1 GG-TAAAA
422 ATAGAATTTT
Statistics
Matches: 100, Mismatches: 11, Indels: 25
0.74 0.08 0.18
Matches are distributed among these distances:
27 11 0.11
28 23 0.23
29 27 0.27
30 29 0.29
31 10 0.10
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (29 bp):
GGTAAAATGGTAACTTTTGAAAGTTTCGA
Found at i:307 original size:59 final size:59
Alignment explanation
Indices: 149--580 Score: 291
Period size: 59 Copynumber: 7.4 Consensus size: 59
139 GGATACTCGG
* * * * *
149 GGGGATAAAATGGTAATTTTGGGAAAATTTAG-GGTTAAAAATGAAA-TTTTAGATA-TCCA
1 GGGG-TAAAATGGTAATTTT-TGAAAGTTTCGAGGTTAAAAATGAAATTTTTGGA-AGTTCA
* * * * ** * **
208 AGTGTAAAACGATAATTTTTAGAAA-AATCGAGATCGAAAATGAAATTTTTGGACA-TTCA
1 GGGGTAAAATGGTAATTTTT-GAAAGTTTCGAGGTTAAAAATGAAATTTTTGGA-AGTTCA
* * * ** *
267 GGGGTAAAATGGTAACTTTTGAAAGTTTCGAGGTAAAAAATGGAGCTTTTGGACA-TTCG
1 GGGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTTAAAAATGAAATTTTTGGA-AGTTCA
* *
326 GGGGTAAAATGGTAATTTTTGAAAGTTTCGAGG-TCAAAATGGAA-TTTTGGAAGTTC-
1 GGGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTTAAAAATGAAATTTTTGGAAGTTCA
* * * *
382 GATGGTAAAATTGTAATTTTTGAAAGTTTCGGGGTTAAAAAT-AGAATTTTTGGAAGTTTA
1 G-GGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTTAAAAATGA-AATTTTTGGAAGTTCA
** ** * * * *
442 AAGGTAAAAAT-GTAATTTTCAAAAGTTTTGAGGTTAAGAATGAAATTTTTTGAAGTT-T
1 GGGGT-AAAATGGTAATTTTTGAAAGTTTCGAGGTTAAAAATGAAATTTTTGGAAGTTCA
* * * *
500 GAGGGTAAAAAT-GTAATTTTAGGAAGTTT-TAGGGTTAAAAATGTAATTTTTGGAAGTTCA
1 G-GGGT-AAAATGGTAATTTTTGAAAGTTTCGA-GGTTAAAAATGAAATTTTTGGAAGTTCA
*
560 AGGGTAAAAAT-GTAATTTTTG
1 GGGGT-AAAATGGTAATTTTTG
581 GATAGTTTAC
Statistics
Matches: 299, Mismatches: 59, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
56 2 0.01
57 41 0.14
58 49 0.16
59 201 0.67
60 6 0.02
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTTAAAAATGAAATTTTTGGAAGTTCA
Found at i:344 original size:28 final size:28
Alignment explanation
Indices: 269--409 Score: 112
Period size: 28 Copynumber: 4.9 Consensus size: 28
259 GACATTCAGG
269 GGTAAAATGGTAACTTTT-GAAAGTTTCGA
1 GGTAAAATGGTAA-TTTTGGAAAG-TTCGA
* * *
298 GGTAAAAAATGG-AGCTTTTGGACA-TTCGGG
1 GGT--AAAATGGTA-ATTTTGGAAAGTTC-GA
*
328 GGTAAAATGGTAATTTTTGAAAGTTTCGA
1 GGTAAAATGGTAATTTTGGAAAG-TTCGA
357 GGTCAAAATGG-AATTTTGG-AAGTTCGA
1 GGT-AAAATGGTAATTTTGGAAAGTTCGA
* *
384 TGGTAAAATTGTAATTTTTGAAAGTT
1 -GGTAAAATGGTAATTTTGGAAAGTT
410 TCGGGGTTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
27 11 0.12
28 27 0.30
29 23 0.26
30 19 0.21
31 10 0.11
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (28 bp):
GGTAAAATGGTAATTTTGGAAAGTTCGA
Found at i:365 original size:30 final size:29
Alignment explanation
Indices: 272--580 Score: 206
Period size: 29 Copynumber: 10.5 Consensus size: 29
262 ATTCAGGGGT
*
272 AAAATGGTAACTTTTGAAAGTTTCGAGGTAA
1 AAAAT-GTAATTTTTGAAAGTTTCGAGGT-A
* * * * *
303 AAAATGGAGCTTTTGGACA--TTCGGGGGT-
1 AAAATGTA-ATTTTTGAAAGTTTC-GAGGTA
*
331 AAAATGGTAATTTTTGAAAGTTTCGAGGTC
1 AAAAT-GTAATTTTTGAAAGTTTCGAGGTA
* *
361 AAAATGGAA-TTTTGGAAG-TTCGATGGTA
1 AAAATGTAATTTTTGAAAGTTTCGA-GGTA
* *
389 AAATTGTAATTTTTGAAAGTTTCGGGGTTA
1 AAAATGTAATTTTTGAAAGTTTCGAGG-TA
* **
419 AAAATAG-AATTTTTGGAAGTTTAAAGGTA
1 AAAAT-GTAATTTTTGAAAGTTTCGAGGTA
** *
448 AAAATGTAATTTTCAAAAGTTTTGAGGTTA
1 AAAATGTAATTTTTGAAAGTTTCGAGG-TA
* *
478 AGAATGAAATTTTTTG-AAGTTT-GAGGGTA
1 AAAATGTAA-TTTTTGAAAGTTTCGA-GGTA
* * *
507 AAAATGTAATTTTAGGAAGTTT-TAGGGTTA
1 AAAATGTAATTTTTGAAAGTTTCGA-GG-TA
* *
537 AAAATGTAATTTTTGGAAG-TTCAAGGGTA
1 AAAATGTAATTTTTGAAAGTTTCGA-GGTA
566 AAAATGTAATTTTTG
1 AAAATGTAATTTTTG
581 GATAGTTTAC
Statistics
Matches: 222, Mismatches: 38, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
27 5 0.02
28 36 0.16
29 84 0.38
30 81 0.36
31 16 0.07
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTTGAAAGTTTCGAGGTA
Found at i:450 original size:29 final size:29
Alignment explanation
Indices: 327--589 Score: 219
Period size: 29 Copynumber: 9.0 Consensus size: 29
317 GGACATTCGG
* *
327 GGGT-AAAATGGTAATTTTTGAAAGTTT-C
1 GGGTAAAAAT-GTAATTTTTGGAAGTTTAA
* * **
355 GAGGTCAAAATGGAA-TTTTGGAAGTTCGA
1 G-GGTAAAAATGTAATTTTTGGAAGTTTAA
* * * **
384 TGGTAAAATTGTAATTTTTGAAAGTTTCG
1 GGGTAAAAATGTAATTTTTGGAAGTTTAA
413 GGGTTAAAAATAG-AATTTTTGGAAGTTTAA
1 GGG-TAAAAAT-GTAATTTTTGGAAGTTTAA
* *** *
443 AGGTAAAAATGTAATTTTCAAAAGTTTTGA
1 GGGTAAAAATGTAATTTTTGGAAG-TTTAA
* * * * *
473 GGTTAAGAATGAAATTTTTTGAAGTTTGA
1 GGGTAAAAATGTAATTTTTGGAAGTTTAA
* *
502 GGGTAAAAATGTAATTTTAGGAAGTTTTA
1 GGGTAAAAATGTAATTTTTGGAAGTTTAA
*
531 GGGTTAAAAATGTAATTTTTGGAAGTTCAA
1 GGG-TAAAAATGTAATTTTTGGAAGTTTAA
561 GGGTAAAAATGTAATTTTTGGATAGTTTA
1 GGGTAAAAATGTAATTTTTGGA-AGTTTA
590 CGGACCTCTA
Statistics
Matches: 186, Mismatches: 39, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
28 22 0.12
29 84 0.45
30 79 0.42
31 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGGAAGTTTAA
Found at i:1182 original size:82 final size:82
Alignment explanation
Indices: 1045--1208 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
1035 AAACGACACC
1045 GTTTAAGAATGAATATTTAAATTAATTTTTTTTTCTTAAAATCATTTCAACCATTT-AAAAAAAA
1 GTTTAAGAATGAATATTTAAATTAATTTTTTTTTCTTAAAATCATTTCAACCATTTAAAAAAAAA
1109 AAAACCTTGGTTTTTGT
66 AAAACCTTGGTTTTTGT
1126 NGTTTAAGAATGAATATTTAAATTAATTTTTTTTTCTTAAAATCATTTCAACCATTTAAAAAAAA
1 -GTTTAAGAATGAATATTTAAATTAATTTTTTTTTCTTAAAATCATTTCAACCATTTAAAAAAAA
1191 AAAAACCTTGGTTTTTGT
65 AAAAACCTTGGTTTTTGT
1209 TTTTCTCTCC
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 56 0.69
83 25 0.31
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (82 bp):
GTTTAAGAATGAATATTTAAATTAATTTTTTTTTCTTAAAATCATTTCAACCATTTAAAAAAAAA
AAAACCTTGGTTTTTGT
Found at i:1405 original size:15 final size:15
Alignment explanation
Indices: 1385--1414 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1375 TGATCTGGGT
1385 ATGGATCTTGAAAGA
1 ATGGATCTTGAAAGA
1400 ATGGATCTTGAAAGA
1 ATGGATCTTGAAAGA
1415 TCCAACCTAG
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:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
ATGGATCTTGAAAGA
Found at i:1692 original size:23 final size:24
Alignment explanation
Indices: 1665--1713 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
1655 TCGTTTCTTG
1665 CCCTTTT-TTATTATTATTT-AAAA
1 CCCTTTTGTTATT-TTATTTCAAAA
*
1688 CCCTTTTGTTATTTTGTTTCAAAA
1 CCCTTTTGTTATTTTATTTCAAAA
1712 CC
1 CC
1714 TCAAAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.24, C:0.18, G:0.04, T:0.53
Consensus pattern (24 bp):
CCCTTTTGTTATTTTATTTCAAAA
Found at i:3793 original size:22 final size:22
Alignment explanation
Indices: 3732--3814 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
3722 GGGACCCTAA
3732 CGTGCTCTCCGTTATTTAGCATGTAT
1 CGTGCTCTCCG---TTTAGCATGT-T
* *
3758 AGTACTCTCCGTTTAGCATGTT
1 CGTGCTCTCCGTTTAGCATGTT
* **
3780 CGTGCTCTCTGTTTAGCACCTT
1 CGTGCTCTCCGTTTAGCATGTT
3802 CGTGCTCTCCGTT
1 CGTGCTCTCCGTT
3815 CTTTAGTGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 30 0.61
23 10 0.20
26 9 0.18
ACGTcount: A:0.12, C:0.28, G:0.19, T:0.41
Consensus pattern (22 bp):
CGTGCTCTCCGTTTAGCATGTT
Found at i:9805 original size:142 final size:142
Alignment explanation
Indices: 9549--9836 Score: 576
Period size: 142 Copynumber: 2.0 Consensus size: 142
9539 TTACATCAGG
9549 TAAATTTTGGGGATGAAACTTATTTAAGAGGGAGAGAATTGTAACATCCACGTTTTAGCCCGGAG
1 TAAATTTTGGGGATGAAACTTATTTAAGAGGGAGAGAATTGTAACATCCACGTTTTAGCCCGGAG
9614 TCAGAAACAGTAACGGATTGGGTCAAGAATTAGAGCACGTGGTGGAAATAAGATAAATGAGAATT
66 TCAGAAACAGTAACGGATTGGGTCAAGAATTAGAGCACGTGGTGGAAATAAGATAAATGAGAATT
9679 TGAGTATTTAAT
131 TGAGTATTTAAT
9691 TAAATTTTGGGGATGAAACTTATTTAAGAGGGAGAGAATTGTAACATCCACGTTTTAGCCCGGAG
1 TAAATTTTGGGGATGAAACTTATTTAAGAGGGAGAGAATTGTAACATCCACGTTTTAGCCCGGAG
9756 TCAGAAACAGTAACGGATTGGGTCAAGAATTAGAGCACGTGGTGGAAATAAGATAAATGAGAATT
66 TCAGAAACAGTAACGGATTGGGTCAAGAATTAGAGCACGTGGTGGAAATAAGATAAATGAGAATT
9821 TGAGTATTTAAT
131 TGAGTATTTAAT
9833 TAAA
1 TAAA
9837 GAGTATTTAG
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 146 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (142 bp):
TAAATTTTGGGGATGAAACTTATTTAAGAGGGAGAGAATTGTAACATCCACGTTTTAGCCCGGAG
TCAGAAACAGTAACGGATTGGGTCAAGAATTAGAGCACGTGGTGGAAATAAGATAAATGAGAATT
TGAGTATTTAAT
Found at i:10677 original size:18 final size:19
Alignment explanation
Indices: 10647--10685 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
10637 AGGAAGGTAG
10647 TATATAGTATATGTGTATA
1 TATATAGTATATGTGTATA
*
10666 TATATA-TATATGTGTGTA
1 TATATAGTATATGTGTATA
10684 TA
1 TA
10686 AATGTTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (19 bp):
TATATAGTATATGTGTATA
Found at i:10942 original size:22 final size:22
Alignment explanation
Indices: 10900--10969 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
10890 GCTCTCCATT
*
10900 ATTTAGCACGTATAGTGCTCTTC
1 ATTTAGCACGT-TAGTGCTCTCC
*
10923 ATTTAGCACGTTTGTGCTCTCC
1 ATTTAGCACGTTAGTGCTCTCC
* *
10945 ATTTAGCACCTTGGTGCTCTCC
1 ATTTAGCACGTTAGTGCTCTCC
10967 ATT
1 ATT
10970 CTTTAGTGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 32 0.74
23 11 0.26
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (22 bp):
ATTTAGCACGTTAGTGCTCTCC
Found at i:11489 original size:15 final size:15
Alignment explanation
Indices: 11471--11501 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11461 TTGTAATGGA
11471 ACATTTTGGTATCAT
1 ACATTTTGGTATCAT
*
11486 ACATTTTGGTCTCAT
1 ACATTTTGGTATCAT
11501 A
1 A
11502 AGTTACCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (15 bp):
ACATTTTGGTATCAT
Found at i:14747 original size:25 final size:25
Alignment explanation
Indices: 14705--14832 Score: 152
Period size: 25 Copynumber: 5.1 Consensus size: 25
14695 TTTGTCGAGC
*
14705 CCAGACAGATTAAT-GCTCTTACAAG
1 CCAGACAGAAT-ATCGCTCTTACAAG
* *
14730 CCAGATAGAATATCGCTCTTACAAT
1 CCAGACAGAATATCGCTCTTACAAG
* *
14755 CCAGACAGAGTATCGCTCTTACGAG
1 CCAGACAGAATATCGCTCTTACAAG
* **
14780 CCAGACAGAATATTGCTCTTATGAG
1 CCAGACAGAATATCGCTCTTACAAG
14805 CCAGACA-AATTATCGCTCTTACAAG
1 CCAGACAGAA-TATCGCTCTTACAAG
14830 CCA
1 CCA
14833 AACTTCAGAG
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.05
25 84 0.95
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (25 bp):
CCAGACAGAATATCGCTCTTACAAG
Found at i:14759 original size:50 final size:50
Alignment explanation
Indices: 14705--14832 Score: 168
Period size: 50 Copynumber: 2.6 Consensus size: 50
14695 TTTGTCGAGC
* *
14705 CCAGACAGATTAAT-GCTCTTACAAGCCAGATAGAATATCGCTCTTACAAT
1 CCAGACAGATT-ATCGCTCTTACAAGCCAGACAGAATATCGCTCTTACAAG
* * * **
14755 CCAGACAGAGTATCGCTCTTACGAGCCAGACAGAATATTGCTCTTATGAG
1 CCAGACAGATTATCGCTCTTACAAGCCAGACAGAATATCGCTCTTACAAG
*
14805 CCAGACAAATTATCGCTCTTACAAGCCA
1 CCAGACAGATTATCGCTCTTACAAGCCA
14833 AACTTCAGAG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
49 2 0.03
50 65 0.97
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (50 bp):
CCAGACAGATTATCGCTCTTACAAGCCAGACAGAATATCGCTCTTACAAG
Found at i:32197 original size:21 final size:20
Alignment explanation
Indices: 32159--32197 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32149 TGGAAAATAA
*
32159 TAAAAAAAAGAAAGGAAATT
1 TAAAAAAAAGAAAAGAAATT
*
32179 TAAAAAAACATAAAAGAAA
1 TAAAAAAA-AGAAAAGAAA
32198 AAATTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (20 bp):
TAAAAAAAAGAAAAGAAATT
Found at i:33331 original size:33 final size:33
Alignment explanation
Indices: 33293--33355 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
33283 AATTACCTAT
* **
33293 TTACACGGATCGAAGCTGAGATAGAAAACTTAC
1 TTACACGGAACGAAGAAGAGATAGAAAACTTAC
33326 TTACACGGAACGAAGAAGAGATAGAAAACT
1 TTACACGGAACGAAGAAGAGATAGAAAACT
33356 AATTTATACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (33 bp):
TTACACGGAACGAAGAAGAGATAGAAAACTTAC
Found at i:33853 original size:245 final size:245
Alignment explanation
Indices: 33423--33911 Score: 960
Period size: 245 Copynumber: 2.0 Consensus size: 245
33413 CTTGCATCTA
33423 AATCTGTATGTATGCATGCTTGAAAAGGATGTTTTGATTGCAAAATTTTGTTATTTAATGCAAGT
1 AATCTGTATGTATGCATGCTTGAAAAGGATGTTTTGATTGCAAAATTTTGTTATTTAATGCAAGT
33488 AATTTTGAATGATATAACGTTTTCCATTAAAAATAAAGTTACTCGTATTGATTTATAAGAAATTC
66 AATTTTGAATGATATAACGTTTTCCATTAAAAATAAAGTTACTCGTATTGATTTATAAGAAATTC
33553 ACGAAAGTGACATCATAATATATTAAATATTATAAACAACAAGTTTGTTCAAATATAAACTCTTT
131 ACGAAAGTGACATCATAATATATTAAATATTATAAACAACAAGTTTGTTCAAATATAAACTCTTT
*
33618 CATATTATGATACTAATTTTTTTGGTGAATTACAATAACATGACAAAACT
196 CATATTATGATACTAATTTTTTTGGTGAATTACAATAACAGGACAAAACT
*
33668 AATCTGTATGTATGCATGCTTTAAAAGGATGTTTTGATTGCAAAATTTTGTTATTTAATGCAAGT
1 AATCTGTATGTATGCATGCTTGAAAAGGATGTTTTGATTGCAAAATTTTGTTATTTAATGCAAGT
33733 AATTTTGAATGATATAACGTTTTCCATTAAAAATAAAGTTACTCGTATTGATTTATAAGAAATTC
66 AATTTTGAATGATATAACGTTTTCCATTAAAAATAAAGTTACTCGTATTGATTTATAAGAAATTC
33798 ACGAAAGTGACATCATAATATATTAAATATTATAAACAACAAGTTTGTTCAAATATAAACTCTTT
131 ACGAAAGTGACATCATAATATATTAAATATTATAAACAACAAGTTTGTTCAAATATAAACTCTTT
33863 CATATTATGATACTAATTTTTTTGGTGAATTACAATAACAGGACAAAAC
196 CATATTATGATACTAATTTTTTTGGTGAATTACAATAACAGGACAAAAC
33912 CCGAACAACA
Statistics
Matches: 242, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
245 242 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (245 bp):
AATCTGTATGTATGCATGCTTGAAAAGGATGTTTTGATTGCAAAATTTTGTTATTTAATGCAAGT
AATTTTGAATGATATAACGTTTTCCATTAAAAATAAAGTTACTCGTATTGATTTATAAGAAATTC
ACGAAAGTGACATCATAATATATTAAATATTATAAACAACAAGTTTGTTCAAATATAAACTCTTT
CATATTATGATACTAATTTTTTTGGTGAATTACAATAACAGGACAAAACT
Found at i:43592 original size:2 final size:2
Alignment explanation
Indices: 43585--43620 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
43575 ATTTGAACTT
*
43585 CA CA CA CA CA GA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
43621 TATATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:43625 original size:2 final size:2
Alignment explanation
Indices: 43620--43649 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
43610 ACACACACAC
*
43620 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43650 TCATATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:47280 original size:261 final size:261
Alignment explanation
Indices: 46645--47295 Score: 670
Period size: 261 Copynumber: 2.5 Consensus size: 261
46635 AAAAGAGAAA
* * * *
46645 AGAAGAAGATTTATAATAATCAACGTGAAGGAACGTATGTCTCAAACTATAAATCATGATTGTAC
1 AGAAGAAGATTTATAATGATCAACGTGAAGGAACGTATGTCTCAAACTATAAACCATGATTGCAT
* * * * * *
46710 AACATGTGGTCACAACAAGATATCAATACTTATTTTACCCAGTTTAATTACGTTC--TTCCCTCA
66 AACATTTGGTCTCAACAAGTTATCAATACTTATTTCA-CCGGTGTAATTACGTTCTTTTCCCTCA
** * * * * *
46773 AGGTTCGGTTAAACATGTCAAAAGCAAAAAGTGGTTCCCTCAATATTTTGTTAAGAGAAAATATG
130 AACTTCAGTTAAACATGTCAAAAGCAAAAAGAGGTTCCCTCAAAATTATGTTAAGAGAAAATACG
* * *** * *
46838 TAAATGCATCGTGTAAAGTATGAGGAACCATTACATTTATCGAGCAAGAACAACTACCAAAAATA
195 TAAATACACCACATAAAGTACGAGGAACCATTACACTTATCGAGCAAGAACAACTA-CAAAAAT-
46903 AGATT
258 A-ATT
* * *** * * *
46908 AGAAGAAGATTTATAATGATCAACGCGAATGAACGTATGTCTTGGAGTATAAGCAAT-ACTTGCA
1 AGAAGAAGATTTATAATGATCAACGTGAAGGAACGTATGTCTCAAACTATAAACCATGA-TTGCA
* * * **
46972 TAACATTTAGTCTCAACAAGTTACCAATACCTATTTACAATGGTGTAAGTTA-GTTCTTTTTCCC
65 TAACATTTGGTCTCAACAAGTTATCAATACTTATTT-CACCGGTGTAA-TTACGTTC-TTTTCCC
** * * ** *
47036 TCAAACTTCAGTTGTACATGTCAAGAGCGAAGGGAGGTTCCCTCAAAATTATGTTAAG-GGAAAT
127 TCAAACTTCAGTTAAACATGTCAAAAGCAAAAAGAGGTTCCCTCAAAATTATGTTAAGAGAAAAT
** *
47100 ACGTAAATACACCACATAAAGTACGAGGAATTATTACCCTT-TCGAAGCAAGAACAACTA-AACA
192 ACGTAAATACACCACATAAAGTACGAGGAACCATTACACTTATCG-AGCAAGAACAACTACAA-A
47163 AAT-ATT
255 AATAATT
* * * *
47169 AGAAGAAGATTTATACTGATCAACGTGAAGGACCGTATGTCTCAAACTATAAACCGTGTTTGCAT
1 AGAAGAAGATTTATAATGATCAACGTGAAGGAACGTATGTCTCAAACTATAAACCATGATTGCAT
*
47234 AACATTTGGTCTCAACAAGTTATCAATACTTACTTTCACCGGTGTAATTATGTTCTTCTTCC
66 AACATTTGGTCTCAACAAGTTATCAATACTTA-TTTCACCGGTGTAATTACGTTCTT-TTCC
47296 TTTAATCTTC
Statistics
Matches: 312, Mismatches: 64, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
260 5 0.02
261 101 0.32
262 4 0.01
263 91 0.29
264 11 0.04
265 49 0.16
266 51 0.16
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (261 bp):
AGAAGAAGATTTATAATGATCAACGTGAAGGAACGTATGTCTCAAACTATAAACCATGATTGCAT
AACATTTGGTCTCAACAAGTTATCAATACTTATTTCACCGGTGTAATTACGTTCTTTTCCCTCAA
ACTTCAGTTAAACATGTCAAAAGCAAAAAGAGGTTCCCTCAAAATTATGTTAAGAGAAAATACGT
AAATACACCACATAAAGTACGAGGAACCATTACACTTATCGAGCAAGAACAACTACAAAAATAAT
T
Found at i:51239 original size:21 final size:21
Alignment explanation
Indices: 51215--51256 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
51205 TATGTGATTA
51215 CAATCATCTCATGATTGGTCT
1 CAATCATCTCATGATTGGTCT
51236 CAATCATCTCATGATTGGTCT
1 CAATCATCTCATGATTGGTCT
51257 TTGGGCATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (21 bp):
CAATCATCTCATGATTGGTCT
Found at i:57587 original size:29 final size:30
Alignment explanation
Indices: 57529--57590 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
57519 AGAATGATTA
* *
57529 AAATTAATAACTTATTTAATAGAACAGACT
1 AAATTAATAAATTATTTAAAAGAACAGACT
57559 AAATTAATAAATT-TTTAAAATGAAC-GACT
1 AAATTAATAAATTATTTAAAA-GAACAGACT
57588 AAA
1 AAA
57591 ATACAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.32
Consensus pattern (30 bp):
AAATTAATAAATTATTTAAAAGAACAGACT
Found at i:58366 original size:6 final size:6
Alignment explanation
Indices: 58355--58495 Score: 88
Period size: 6 Copynumber: 25.0 Consensus size: 6
58345 TGAGATTTAT
** *
58355 TTTAAA TTTAAA TTT-GT TTTAAA TTTAAA TTT-AT TTTAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
* * * * * *
58402 TTTAAA -ATAAG TTTAAA TTT-AT TTTAAA TTCAAAA GTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA
* *
58448 TTTAAA -TT-AA TTTAAA TTT--G TTTGAA TTTAAA TTT--A TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
58490 TTTAAA
1 TTTAAA
58496 ATAAATAAGT
Statistics
Matches: 101, Mismatches: 21, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
4 9 0.09
5 21 0.21
6 63 0.62
7 8 0.08
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:58374 original size:17 final size:17
Alignment explanation
Indices: 58349--58466 Score: 139
Period size: 17 Copynumber: 6.9 Consensus size: 17
58339 TCATTTTGAG
58349 ATTTATTTTAAATTTAA
1 ATTTATTTTAAATTTAA
*
58366 ATTTGTTTTAAATTTAA
1 ATTTATTTTAAATTTAA
58383 ATTTATTTTAAAATTTAA
1 ATTTATTTT-AAATTTAA
*** *
58401 ATTTAAAATAAGTTTAA
1 ATTTATTTTAAATTTAA
*
58418 ATTTATTTTAAATTCAAA
1 ATTTATTTTAAATT-TAA
*
58436 AGTTATTTTAAATTTAA
1 ATTTATTTTAAATTTAA
*
58453 A-TTAATTTAAATTT
1 ATTTATTTTAAATTT
58467 GTTTGAATTT
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
16 12 0.14
17 44 0.52
18 29 0.34
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTATTTTAAATTTAA
Found at i:58392 original size:11 final size:11
Alignment explanation
Indices: 58378--58431 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
58368 TTGTTTTAAA
58378 TTTAAATTTAT
1 TTTAAATTTAT
*
58389 TTTAAAATTTAAA
1 TTT-AAATTT-AT
* * *
58402 TTTAAAATAAG
1 TTTAAATTTAT
58413 TTTAAATTTAT
1 TTTAAATTTAT
58424 TTTAAATT
1 TTTAAATT
58432 CAAAAGTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
11 20 0.59
12 10 0.29
13 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:58404 original size:35 final size:34
Alignment explanation
Indices: 58349--58466 Score: 139
Period size: 35 Copynumber: 3.4 Consensus size: 34
58339 TCATTTTGAG
*
58349 ATTTATTTTAAATTTAAATTTGTTTTAAATTTAA
1 ATTTATTTTAAATTTAAATTTATTTTAAATTTAA
*** *
58383 ATTTATTTTAAAATTTAAATTTAAAATAAGTTTAA
1 ATTTATTTT-AAATTTAAATTTATTTTAAATTTAA
* *
58418 ATTTATTTTAAATTCAAAAGTTATTTTAAATTTAA
1 ATTTATTTTAAATT-TAAATTTATTTTAAATTTAA
*
58453 A-TTAATTTAAATTT
1 ATTTATTTTAAATTT
58467 GTTTGAATTT
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
34 25 0.36
35 44 0.64
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (34 bp):
ATTTATTTTAAATTTAAATTTATTTTAAATTTAA
Found at i:58475 original size:16 final size:16
Alignment explanation
Indices: 58349--58495 Score: 108
Period size: 17 Copynumber: 9.1 Consensus size: 16
58339 TCATTTTGAG
58349 ATTTATTTTAAATTTAA
1 ATTTA-TTTAAATTTAA
*
58366 ATTTGTTTTAAATTTAA
1 ATTT-ATTTAAATTTAA
58383 ATTTATTTTAAAATTTAA
1 ATTTA-TTT-AAATTTAA
** *
58401 ATTTAAAATAAGTTTAA
1 ATTT-ATTTAAATTTAA
*
58418 ATTTATTTTAAATTCAAA
1 ATTTA-TTTAAATT-TAA
*
58436 AGTTATTTTAAATTT-A
1 ATTTA-TTTAAATTTAA
58452 A---A-TT-AATTTAA
1 ATTTATTTAAATTTAA
* *
58463 ATTTGTTTGAATTTAA
1 ATTTATTTAAATTTAA
58479 ATTTATTTAAATTTAA
1 ATTTATTTAAATTTAA
58495 A
1 A
58496 ATAAATAAGT
Statistics
Matches: 104, Mismatches: 14, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
10 5 0.05
11 4 0.04
13 1 0.01
15 2 0.02
16 25 0.24
17 38 0.37
18 28 0.27
19 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (16 bp):
ATTTATTTAAATTTAA
Found at i:60252 original size:30 final size:30
Alignment explanation
Indices: 60213--60318 Score: 107
Period size: 30 Copynumber: 3.6 Consensus size: 30
60203 TCCAAAAGGT
60213 CCCT-AAACTTTCT-ATAAATCACATTTTAA
1 CCCTCAAACTTTCTCA-AAATCACATTTTAA
* * *
60242 CCCTCGAAC-TTCTCAAAAATTACATTTTGA
1 CCCTCAAACTTTCTC-AAAATCACATTTTAA
*
60272 CCC-CAAACTTT-TCAAAAACTACATTTTAA
1 CCCTCAAACTTTCTCAAAATC-ACATTTTAA
60301 CCCTCAAACTTT-TCAAAA
1 CCCTCAAACTTTCTCAAAA
60319 ATTCTATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
28 4 0.06
29 25 0.39
30 34 0.53
31 1 0.02
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (30 bp):
CCCTCAAACTTTCTCAAAATCACATTTTAA
Found at i:60281 original size:29 final size:28
Alignment explanation
Indices: 60228--60558 Score: 141
Period size: 29 Copynumber: 11.5 Consensus size: 28
60218 AACTTTCTAT
* *
60228 AAATCACATTTTAACCCTCGAACTTCTCAA
1 AAATTACATTTT-ACCC-CAAACTTCTCAA
*
60258 AAATTACATTTTGACCCCAAACTTTTCAA
1 AAATTACATTTT-ACCCCAAACTTCTCAA
* *
60287 AAACTACATTTTAACCCTCAAACTTTTCAA
1 AAATTACATTTT-ACCC-CAAACTTCTCAA
*** *
60317 AAATT-CTATTTTTACCTTTGAACCTC-CAA
1 AAATTAC-A-TTTTACC-CCAAACTTCTCAA
* * * *
60346 AAATCACATTTTTCCCCGAACTT-T--T
1 AAATTACATTTTACCCCAAACTTCTCAA
* * *
60371 AAAGTACATTTTAACCCTAA---C-CAA
1 AAATTACATTTTACCCCAAACTTCTCAA
*
60395 AAATTACATTTTTGACCCTAAACTT-TCCAA
1 AAATTACA-TTTT-ACCCCAAACTTCT-CAA
* * *
60425 AAGTTACCATTTTACCCCCAAACATC-AAA
1 AAATTA-CATTTTA-CCCCAAACTTCTCAA
*
60454 AAATTACCATTTTACCCTCGAA-TGTC-CAA
1 AAATTA-CATTTTACCC-CAAACT-TCTCAA
* *
60483 AAATTACATTTTTGACCCTAAACTTTTCCAA
1 AAATTACA-TTTT-ACCCCAAACTTCT-CAA
* *
60514 AAATTACCATTTTACCCTCGAACATC-CAA
1 AAATTA-CATTTTACCC-CAAACTTCTCAA
60543 AAATTACCATTTTACC
1 AAATTA-CATTTTACC
60559 TTGGATGTCC
Statistics
Matches: 230, Mismatches: 43, Indels: 57
0.70 0.13 0.17
Matches are distributed among these distances:
24 7 0.03
25 19 0.08
26 5 0.02
27 5 0.02
28 11 0.05
29 89 0.39
30 69 0.30
31 23 0.10
32 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (28 bp):
AAATTACATTTTACCCCAAACTTCTCAA
Found at i:60319 original size:30 final size:30
Alignment explanation
Indices: 60233--60319 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
60223 TCTATAAATC
* * *
60233 ACATTTTAACCCTCGAACTTCTCAAAAATT
1 ACATTTTAACCCTCAAACTTTTCAAAAACT
*
60263 ACATTTTGACCC-CAAACTTTTCAAAAACT
1 ACATTTTAACCCTCAAACTTTTCAAAAACT
60292 ACATTTTAACCCTCAAACTTTTCAAAAA
1 ACATTTTAACCCTCAAACTTTTCAAAAA
60320 TTCTATTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 25 0.49
30 26 0.51
ACGTcount: A:0.39, C:0.26, G:0.02, T:0.32
Consensus pattern (30 bp):
ACATTTTAACCCTCAAACTTTTCAAAAACT
Found at i:60567 original size:88 final size:88
Alignment explanation
Indices: 60391--60607 Score: 314
Period size: 89 Copynumber: 2.5 Consensus size: 88
60381 TTAACCCTAA
*
60391 CCAAAAATTACATTTTTGACCCTAAACTTTCCAAAAGTTACCATTTTACCCCCAAACATCAAAAA
1 CCAAAAATTACATTTTTGACCCTAAACTTTCCAAAAATTACCATTTTACCCCCAAACATCAAAAA
60456 ATTACCATTTTACCCTCGAATGT
66 ATTACCATTTTACCCTCGAATGT
* * *
60479 CCAAAAATTACATTTTTGACCCTAAACTTTTCCAAAAATTACCATTTTACCCTCGAACATCCAAA
1 CCAAAAATTACATTTTTGACCCTAAAC-TTTCCAAAAATTACCATTTTACCCCCAAACATCAAAA
* *
60544 AATTACCATTTTA-CCTTGGATGT
65 AATTACCATTTTACCCTCGAATGT
* *
60567 CCAAAAATTATGATTTTT-ATCACTAAACTTTCC-AAAATTAC
1 CCAAAAATTA-CATTTTTGA-CCCTAAACTTTCCAAAAATTAC
60608 GTTTTCATCC
Statistics
Matches: 118, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
87 8 0.07
88 51 0.43
89 59 0.50
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (88 bp):
CCAAAAATTACATTTTTGACCCTAAACTTTCCAAAAATTACCATTTTACCCCCAAACATCAAAAA
ATTACCATTTTACCCTCGAATGT
Found at i:60573 original size:29 final size:29
Alignment explanation
Indices: 60420--60576 Score: 149
Period size: 29 Copynumber: 5.4 Consensus size: 29
60410 CCCTAAACTT
* * * **
60420 TCCAAAAGTTACCATTTTACCCCCAAACA
1 TCCAAAAATTACCATTTTACCCTCGAATG
*
60449 TCAAAAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
* *
60478 TCCAAAAATTA-CATTTTTGACCCT-AAACTTT
1 TCCAAAAATTACCA-TTTT-ACCCTCGAA--TG
**
60509 TCCAAAAATTACCATTTTACCCTCGAACA
1 TCCAAAAATTACCATTTTACCCTCGAATG
* *
60538 TCCAAAAATTACCATTTTA-CCTTGGATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
60566 TCCAAAAATTA
1 TCCAAAAATTA
60577 TGATTTTTAT
Statistics
Matches: 106, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
28 18 0.17
29 58 0.55
30 10 0.09
31 18 0.17
32 2 0.02
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCTCGAATG
Found at i:64962 original size:11 final size:11
Alignment explanation
Indices: 64933--64962 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
64923 ACCACATCGT
64933 AAAAAAAATAA
1 AAAAAAAATAA
*
64944 AGAAAAAATAA
1 AAAAAAAATAA
64955 AAAAAAAA
1 AAAAAAAA
64963 GTGAATAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.07
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:65505 original size:6 final size:6
Alignment explanation
Indices: 65470--65538 Score: 57
Period size: 6 Copynumber: 10.8 Consensus size: 6
65460 GATTCAATGA
* * * * *
65470 AAAAAA AAAAAG AGAGAAG AAGAAG AAAAAAG AAAAGG AAAAAGG AAAATG
1 AAAAAG AAAAAG A-AAAAG AAAAAG -AAAAAG AAAAAG AAAAA-G AAAAAG
65521 AAAAAG AAAATAG AAAAA
1 AAAAAG AAAA-AG AAAAA
65539 AAGAGAAACA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
6 31 0.60
7 21 0.40
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:65536 original size:13 final size:12
Alignment explanation
Indices: 65496--65538 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
65486 AAGAAGAAGA
*
65496 AAAAAGAAAAGG
1 AAAAAGAAAATG
65508 AAAAAGGAAAATG
1 AAAAA-GAAAATG
65521 AAAAAGAAAATAG
1 AAAAAGAAAAT-G
65534 AAAAA
1 AAAAA
65539 AAGAGAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:65541 original size:15 final size:16
Alignment explanation
Indices: 65521--65553 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
65511 AAGGAAAATG
*
65521 AAAAAGA-AAATAGAA
1 AAAAAGAGAAACAGAA
65536 AAAAAGAGAAACAGAA
1 AAAAAGAGAAACAGAA
65552 AA
1 AA
65554 GGAAAGGTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAAGAGAAACAGAA
Found at i:65553 original size:13 final size:12
Alignment explanation
Indices: 65472--65558 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
65462 TTCAATGAAA
*
65472 AAAAAAAAAGAG
1 AAAAGAAAAGAG
* *
65484 AGAAGAAGAAGAA
1 AAAAGAA-AAGAG
65497 AAAAGAAAAG-G
1 AAAAGAAAAGAG
65508 AAAAAGGAAAATGA-
1 -AAAA-GAAAA-GAG
*
65522 AAAAGAAAATAG
1 AAAAGAAAAGAG
65534 -AAA-AAAAGAG
1 AAAAGAAAAGAG
65544 AAACAGAAAAG-G
1 AAA-AGAAAAGAG
65556 AAA
1 AAA
65559 GGTCGAGGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
10 6 0.10
11 6 0.10
12 22 0.37
13 24 0.41
14 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.22, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAGAG
Found at i:67077 original size:44 final size:41
Alignment explanation
Indices: 66969--67104 Score: 157
Period size: 41 Copynumber: 3.2 Consensus size: 41
66959 ATCATTCAAG
*
66969 TCTTTTACCCTTAATCAAGAAGGGCAGATTGAATATTCTAT
1 TCTTTTACCCTTAATCAAGAAGGGCAGATTGAAGATTCTAT
* * *
67010 TCTTTTACCTTTAATTAAGAAGGGCAGATTGAAGATTTTAGTTT
1 TCTTTTACCCTTAATCAAGAAGGGCAGATTGAAGATTCTA---T
* * * *
67054 TCTTTTACCCTTAATCAAAAAGGGAAGAATGAAGATTCCGA-
1 TCTTTTACCCTTAATCAAGAAGGGCAGATTGAAGATT-CTAT
67095 TCTTTTACCC
1 TCTTTTACCC
67105 CGAGCCTTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
41 46 0.57
44 33 0.41
45 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (41 bp):
TCTTTTACCCTTAATCAAGAAGGGCAGATTGAAGATTCTAT
Found at i:67904 original size:209 final size:209
Alignment explanation
Indices: 67245--68489 Score: 1631
Period size: 209 Copynumber: 6.0 Consensus size: 209
67235 ATAAAGCGAT
* *
67245 CGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGA-GACGGTCATCTTCCTGATGAG
1 CGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATG-CGGTCATCTTCCTGATGAG
* * * * *
67309 ATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAA-CTTCGAACCCCAGT
65 ATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAAAGTGAGC-AAATCTTCGAACCCCAGC
* * ** *
67373 TTCCTGATGAGATATTGACAAGCAGGTCGAAGCAATAAAATGGTTGTCTTCTTGATTG-GATACA
129 TTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGA-TGAGATACA
* *
67437 GAGAAGTGGACCAAATC
193 GAGAAGTGAACCAGATC
* * ** * *
67454 AGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGCGAGGCGGTCATCTTCCTGATGAGA
1 CGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGA
* * * * * * * * *
67519 TA-TAGAGAAGTATACCAACTCAATGAAACCAAATCTCGATGTGAGTAAAACTTCGAACTCCAAC
66 TACT-GAGAAGTAGACCAAATCAATGAAACC-AAGCTCAAAGTGAGCAAATCTTCGAACCCCAGC
* * * * * *
67583 TTCCTGATGAGATATTGAGAAGCAAGTCGAAGAAATAAAACAGTTATCTTCCTAATAAGATACAG
129 TTCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGATGAGATACAG
67648 AGAAGTGAACCAGATC
194 AGAAGTGAACCAGATC
* * *
67664 CGTCTTCTTGATGAGACACAGAGAAGTGGATCAAAACAAGTGACGCGGTCATCTTCTTGATGAGA
1 CGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGA
* * *
67729 TACTGAGAAGTAGACCAAATCAATGAAACGAGGCTCAAAGTGAGCAAATCTTTGAACCCCAGCTT
66 TACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTT
* * * * *
67794 CCTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAGCAGTTACCTTCCTGATGAGATATAGAG
131 CCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGATGAGATACAGAG
*
67859 AAGTGAATCAGATC
196 AAGTGAACCAGATC
*
67873 TGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGA
1 CGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGA
* * *
67938 TATTGAGAAGGAGACCAAATCAATGAAACC-AGACTCAAAGTGAGCAAATCTTCGAACCCTAGCT
66 TACTGAGAAGTAGACCAAATCAATGAAACCAAG-CTCAAAGTGAGCAAATCTTCGAACCCCAGCT
* * * * * * *
68002 TCTTGATAAGATATTTAGAAGTAAGTAGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACAGA
130 TCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGATGAGATACAGA
* *
68067 GAAGTGAACCAAATT
195 GAAGTGAACCAGATC
* * * * *
68082 TGTTTTCCT-AGTGAGACACAAAGAAGTAGATCAAAACAAGTGATGCGATCATCTTCCTGATGAG
1 CGTCTTCCTGA-TGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAG
* *
68146 ATACTGAGAAATAGACCAAATCAATGAAACCAAGCTCAAAGTGAGCAAATCTTCGAACCCTAGCT
65 ATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCT
* * * * *
68211 TCCTGATGAGATACTAAGAAGTAGGTCGAAGTAATAAAACGGTTACCTTCCGGATGAGATACAGA
130 TCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGATGAGATACAGA
68276 GAAGTGAACCAGATC
195 GAAGTGAACCAGATC
*
68291 CGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATAAGA
1 CGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGA
* *
68356 TATTGAGAAGTAGACCAAATCAATGAAACC-AGACTCAAAGTGAGCAAATCTTTGAACCCCAGCT
66 TACTGAGAAGTAGACCAAATCAATGAAACCAAG-CTCAAAGTGAGCAAATCTTCGAACCCCAGCT
* * * ** * *
68420 TCTTAATGAGATATTGAGAAGCAGGTAGAAATAATAAAGCGGTTACCTTCCTGATGAGATACAAA
130 TCCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGATGAGATACAGA
68485 GAAGT
195 GAAGT
68490 AAACTGAGAG
Statistics
Matches: 913, Mismatches: 112, Indels: 22
0.87 0.11 0.02
Matches are distributed among these distances:
208 4 0.00
209 731 0.80
210 177 0.19
211 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (209 bp):
CGTCTTCCTGATGAGACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGA
TACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTT
CCTGATGAGATATTGAGAAGCAGGTCGAAGCAATAAAACGGTTACCTTCCTGATGAGATACAGAG
AAGTGAACCAGATC
Found at i:68928 original size:11 final size:11
Alignment explanation
Indices: 68866--68982 Score: 69
Period size: 11 Copynumber: 10.5 Consensus size: 11
68856 GAGATTTATT
68866 TTAAATTTAAA
1 TTAAATTTAAA
* *
68877 TCAAGTTTAAA
1 TTAAATTTAAA
* *
68888 TTTATTTTAAA
1 TTAAATTTAAA
* **
68899 TTCAAAAGTTATT
1 TT--AAATTTAAA
68912 TTAAATTTAAA
1 TTAAATTTAAA
68923 TTAAATTTAAA
1 TTAAATTTAAA
68934 TTTAAATTT-AA
1 -TTAAATTTAAA
** *
68945 TT-TGTTTGAAT
1 TTAAATTT-AAA
*
68956 TTAAATTT-AT
1 TTAAATTTAAA
68966 TTAAATTTAAA
1 TTAAATTTAAA
*
68977 ATAAAT
1 TTAAAT
68983 AAGTGTCCAA
Statistics
Matches: 79, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
9 3 0.04
10 12 0.15
11 47 0.59
12 11 0.14
13 6 0.08
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:68933 original size:17 final size:17
Alignment explanation
Indices: 68911--68947 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
68901 CAAAAGTTAT
68911 TTTAAATTTAAATTAAA
1 TTTAAATTTAAATTAAA
*
68928 TTTAAATTTAAATTTAA
1 TTTAAATTTAAATTAAA
68945 TTT
1 TTT
68948 GTTTGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTAAA
Found at i:68947 original size:5 final size:6
Alignment explanation
Indices: 68865--68976 Score: 80
Period size: 6 Copynumber: 20.0 Consensus size: 6
68855 TGAGATTTAT
* * * * * *
68865 TTTAAA TTTAAA -TCAAG TTTAAA TTT-AT TTTAAA TTCAAAA GTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
* *
68911 TTTAAA TTTAAA -TTAAA TTTAAA TTTAAA TTT-AA TTT--G TTTGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
68955 TTTAAA TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
68977 ATAAATAAGT
Statistics
Matches: 82, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
4 7 0.09
5 20 0.24
6 51 0.62
7 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:69675 original size:9 final size:10
Alignment explanation
Indices: 69635--69673 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
69625 AAAATCATTA
69635 ATTAATAAAT
1 ATTAATAAAT
69645 A-TAATAATAAT
1 ATTAAT-A-AAT
69656 ATTAATAAAT
1 ATTAATAAAT
69666 ATTAATAA
1 ATTAATAA
69674 TAAAAAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 4 0.15
10 13 0.50
11 5 0.19
12 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTAATAAAT
Found at i:70797 original size:59 final size:59
Alignment explanation
Indices: 70724--70934 Score: 209
Period size: 60 Copynumber: 3.6 Consensus size: 59
70714 TAAATCACAC
**
70724 TTTGACCCCCGAACTTCTCAAAAATTA-CATTTTGACCTTAAACTTTTCAAAAATTA-CA
1 TTTGACCCCCGAACTTC-CAAAAATTACCATTTTGACCCCAAACTTTTCAAAAATTACCA
* * *
70782 TTATGACCCCCGAACTTTCCAAAAGTTACCATTTT-ACCCCCAAACATCT-AAAAATTACCA
1 TT-TGACCCCCGAAC-TTCCAAAAATTACCATTTTGA-CCCCAAACTTTTCAAAAATTACCA
* * * *
70842 TTTTACCCTC-AAATGTCCAAAAATTA-CATTTTTGACCCCAAACTTTTTCCAAAATTACCA
1 TTTGACCCCCGAACT-TCCAAAAATTACCA-TTTTGACCCCAAAC-TTTTCAAAAATTACCA
* * *
70902 TTTTACCCCCAAACATCCAAAAATTACCATTTT
1 TTTGACCCCCGAACTTCCAAAAATTACCATTTT
70935 ACTCTCGGAT
Statistics
Matches: 126, Mismatches: 15, Indels: 22
0.77 0.09 0.13
Matches are distributed among these distances:
57 3 0.02
58 26 0.21
59 38 0.30
60 55 0.44
61 4 0.03
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.32
Consensus pattern (59 bp):
TTTGACCCCCGAACTTCCAAAAATTACCATTTTGACCCCAAACTTTTCAAAAATTACCA
Found at i:70800 original size:29 final size:29
Alignment explanation
Indices: 70704--70991 Score: 144
Period size: 29 Copynumber: 9.8 Consensus size: 29
70694 AAAGGTCCTT
* *
70704 GAACTTTCCATAAATCACACTTTGACCCCC
1 GAACTTTCCAAAAATTACA-TTTGACCCCC
**
70734 GAAC-TTCTCAAAAATTACATTTTGA-CCTT
1 GAACTTTC-CAAAAATTACA-TTTGACCCCC
* *
70763 AAACTTTTCAAAAATTACATTATGACCCCC
1 GAACTTTCCAAAAATTACATT-TGACCCCC
* *
70793 GAACTTTCCAAAAGTTACCATTTTACCCCC
1 GAACTTTCCAAAAATTA-CATTTGACCCCC
* * * * *
70823 AAAC-ATCTAAAAATTACCATTTTACCCTC
1 GAACTTTCCAAAAATTA-CATTTGACCCCC
* *
70852 -AAATGTCCAAAAATTACATTTTTGA-CCCC
1 GAACTTTCCAAAAATTACA--TTTGACCCCC
* *
70881 AAACTTTTTCC-AAAATTACCATTTTACCCCC
1 GAAC--TTTCCAAAAATTA-CATTTGACCCCC
* * * * *
70912 AAAC-ATCCAAAAATTACCATTTTACTCTC
1 GAACTTTCCAAAAATTA-CATTTGACCCCC
* * * *
70941 GGA-TGTCCAAAAATTACAATTTTGATCCCT
1 GAACTTTCCAAAAATTAC-A-TTTGACCCCC
*
70971 AAACTTTCC-AAAATTACATTT
1 GAACTTTCCAAAAATTACATTT
70992 TCATCCCGAA
Statistics
Matches: 200, Mismatches: 40, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
28 13 0.06
29 88 0.44
30 70 0.35
31 23 0.12
32 6 0.03
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (29 bp):
GAACTTTCCAAAAATTACATTTGACCCCC
Found at i:70878 original size:89 final size:86
Alignment explanation
Indices: 70705--70992 Score: 314
Period size: 89 Copynumber: 3.3 Consensus size: 86
70695 AAGGTCCTTG
* * * * *
70705 AACTTTCCATAAATCA-CACTTTGACCCCCGAACTTCTCAAAAATTA-CATTTTGA-CCTTAAAC
1 AACTTTCCA-AAATTACCA-TTTTACCCCCAAACATCT-AAAAATTACCATTTT-ACCCTCAAA-
* * * *
70767 TTTTCAAAAATTACATTATGACCCCCG
61 TGTCCAAAAATTACATTTTGA-CCCCA
70794 AACTTTCCAAAAGTTACCATTTTACCCCCAAACATCTAAAAATTACCATTTTACCCTCAAATGTC
1 AACTTTCCAAAA-TTACCATTTTACCCCCAAACATCTAAAAATTACCATTTTACCCTCAAATGTC
70859 CAAAAATTACATTTTTGACCCCA
65 CAAAAATTACA-TTTTGACCCCA
* * **
70882 AACTTTTTCCAAAATTACCATTTTACCCCCAAACATCCAAAAATTACCATTTTACTCTCGGATGT
1 AAC--TTTCCAAAATTACCATTTTACCCCCAAACATCTAAAAATTACCATTTTACCCTCAAATGT
*
70947 CCAAAAATTACAATTTTGATCCCTA
64 CCAAAAATTAC-ATTTTGA-CCCCA
70972 AACTTTCCAAAATTA-CATTTT
1 AACTTTCCAAAATTACCATTTT
70993 CATCCCGAAC
Statistics
Matches: 176, Mismatches: 14, Indels: 20
0.84 0.07 0.10
Matches are distributed among these distances:
87 6 0.03
88 44 0.25
89 107 0.61
90 19 0.11
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (86 bp):
AACTTTCCAAAATTACCATTTTACCCCCAAACATCTAAAAATTACCATTTTACCCTCAAATGTCC
AAAAATTACATTTTGACCCCA
Found at i:73870 original size:20 final size:20
Alignment explanation
Indices: 73847--73884 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
73837 TAAAATAATC
73847 AAAATAATTTTCAAAATTTG
1 AAAATAATTTTCAAAATTTG
*
73867 AAAATAATTTTTAAAATT
1 AAAATAATTTTCAAAATT
73885 CAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAATAATTTTCAAAATTTG
Found at i:82958 original size:6 final size:6
Alignment explanation
Indices: 82937--82984 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
82927 TAATTGTTTC
* ** *
82937 AAATTT AAA-CT AAATTT AAATTT AAAAAT GAATTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
82984 A
1 A
82985 GAGTAAATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
AAATTT
Found at i:82992 original size:41 final size:41
Alignment explanation
Indices: 82937--83015 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
82927 TAATTGTTTC
*
82937 AAATTTAAACTAAATTTAAATT-TAAAAATGAATTTAAATTT
1 AAATTTAAACTAAATTT-AATTCTAAAAATGAATCTAAATTT
* * *
82978 AAATTTAGAGTAAATTTAATTCTAGAAATGAATCTAAA
1 AAATTTAAACTAAATTTAATTCTAAAAATGAATCTAAA
83016 ACCCATCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.12
41 29 0.88
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (41 bp):
AAATTTAAACTAAATTTAATTCTAAAAATGAATCTAAATTT
Found at i:85453 original size:42 final size:42
Alignment explanation
Indices: 85404--85583 Score: 170
Period size: 42 Copynumber: 4.3 Consensus size: 42
85394 TCGGGTCATA
* *
85404 AGTCTTCCTTTAATCATATTCTCTTTGTCATAC-TGAGACATG
1 AGTCTTCCTTTAATCATATTCTCATTCTCAT-CTTGAGACATG
* *
85446 AGTCTTCCTTTATTCATAATCTCATTCTCATCTTGAGACATG
1 AGTCTTCCTTTAATCATATTCTCATTCTCATCTTGAGACATG
* * * * *
85488 AGTCTTCCTTTAATCATATTTTCATGCTCAT-TCCGAGTCATA
1 AGTCTTCCTTTAATCATATTCTCATTCTCATCT-TGAGACATG
* * **
85530 AGTCTTCCATTT-ATACAAATTCTCATGCTCGA-CCCGAGACATG
1 AGTCTTCC-TTTAAT-CATATTCTCATTCTC-ATCTTGAGACATG
85573 AGTCTTCCTTT
1 AGTCTTCCTTT
85584 TTATACATCA
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 82 0.71
43 31 0.27
44 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (42 bp):
AGTCTTCCTTTAATCATATTCTCATTCTCATCTTGAGACATG
Found at i:85581 original size:85 final size:84
Alignment explanation
Indices: 85404--85583 Score: 213
Period size: 84 Copynumber: 2.1 Consensus size: 84
85394 TCGGGTCATA
* * * *
85404 AGTCTTCCTTTAATCATATTCTCTTTGTCATACTGAGACATGAGTCTTCCTTTATTCATAATCTC
1 AGTCTTCCTTTAATCATATTCTCTATGTCATACCGAGACATAAGTCTTCCTTTATACATAATCTC
* **
85469 ATTCTCATCTTGAGACATG
66 ATGCTCATCCCGAGACATG
* * *
85488 AGTCTTCCTTTAATCATATTTTC-ATGCTCATTCCGAGTCATAAGTCTTCCATTTATACA-AATT
1 AGTCTTCCTTTAATCATATTCTCTATG-TCATACCGAGACATAAGTCTTCC-TTTATACATAA-T
85551 CTCATGCTCGA-CCCGAGACATG
63 CTCATGCTC-ATCCCGAGACATG
85573 AGTCTTCCTTT
1 AGTCTTCCTTT
85584 TTATACATCA
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
83 2 0.02
84 43 0.52
85 36 0.44
86 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (84 bp):
AGTCTTCCTTTAATCATATTCTCTATGTCATACCGAGACATAAGTCTTCCTTTATACATAATCTC
ATGCTCATCCCGAGACATG
Found at i:86400 original size:21 final size:20
Alignment explanation
Indices: 86376--86419 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
86366 ACTTTCATCA
* *
86376 TTAAGCTTTAATTAACCCTTT
1 TTAAGC-TTAATTAAACCTAT
*
86397 TTAATCTTAATTAAACCTAT
1 TTAAGCTTAATTAAACCTAT
86417 TTA
1 TTA
86420 TACTCAGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAAGCTTAATTAAACCTAT
Found at i:97792 original size:19 final size:19
Alignment explanation
Indices: 97756--97793 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
97746 AGGTAGTCTA
97756 TTGTTGAAGTAGTTTTTGT
1 TTGTTGAAGTAGTTTTTGT
*
97775 TTGTT-AAGTTGTTCTTTGT
1 TTGTTGAAGTAGTT-TTTGT
97794 CGGGCTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.13, C:0.03, G:0.24, T:0.61
Consensus pattern (19 bp):
TTGTTGAAGTAGTTTTTGT
Found at i:102419 original size:86 final size:86
Alignment explanation
Indices: 102274--102446 Score: 337
Period size: 86 Copynumber: 2.0 Consensus size: 86
102264 CACAAAACTC
*
102274 ACATCCTCATGGGTATATGTATTTATACACTGGAGTTGGTATATTTTTAATAAAATTTGTTCATG
1 ACATCCTCATGGGTATATGTATTTATACACTGGAGCTGGTATATTTTTAATAAAATTTGTTCATG
102339 ATGATAATAGTGACGACGATG
66 ATGATAATAGTGACGACGATG
102360 ACATCCTCATGGGTATATGTATTTATACACTGGAGCTGGTATATTTTTAATAAAATTTGTTCATG
1 ACATCCTCATGGGTATATGTATTTATACACTGGAGCTGGTATATTTTTAATAAAATTTGTTCATG
102425 ATGATAATAGTGACGACGATG
66 ATGATAATAGTGACGACGATG
102446 A
1 A
102447 TGAAGAACCA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (86 bp):
ACATCCTCATGGGTATATGTATTTATACACTGGAGCTGGTATATTTTTAATAAAATTTGTTCATG
ATGATAATAGTGACGACGATG
Found at i:115609 original size:6 final size:6
Alignment explanation
Indices: 115598--115632 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
115588 TTTCAAAATA
115598 TTTATT TTTATT TTTATT TTTA-T TTT-TT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT T
115633 GTAACATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 8 0.30
6 19 0.70
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTATT
Found at i:125423 original size:19 final size:19
Alignment explanation
Indices: 125401--125440 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
125391 ACAATCACTG
*
125401 TTACTCACCGTAATCAAAT
1 TTACCCACCGTAATCAAAT
*
125420 TTACCCATCGTAATCAAAT
1 TTACCCACCGTAATCAAAT
125439 TT
1 TT
125441 GTTATTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (19 bp):
TTACCCACCGTAATCAAAT
Found at i:127296 original size:77 final size:77
Alignment explanation
Indices: 127169--127323 Score: 292
Period size: 77 Copynumber: 2.0 Consensus size: 77
127159 TTTGTTAATT
* *
127169 TCATTTTCTTTCCATTTTTCTAATGATACTGCAAATTGCATGGTACTGCATCATCACGGATTCTT
1 TCATTTTCTTTCCATTTTTCTAATGATACTACAAATTGCATGGCACTGCATCATCACGGATTCTT
127234 CATTTACGTAAC
66 CATTTACGTAAC
127246 TCATTTTCTTTCCATTTTTCTAATGATACTACAAATTGCATGGCACTGCATCATCACGGATTCTT
1 TCATTTTCTTTCCATTTTTCTAATGATACTACAAATTGCATGGCACTGCATCATCACGGATTCTT
127311 CATTTACGTAAC
66 CATTTACGTAAC
127323 T
1 T
127324 TTCAATAGCA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (77 bp):
TCATTTTCTTTCCATTTTTCTAATGATACTACAAATTGCATGGCACTGCATCATCACGGATTCTT
CATTTACGTAAC
Found at i:132181 original size:24 final size:24
Alignment explanation
Indices: 132154--132203 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
132144 TATGAAATGG
132154 TAATGCTTGGATGAATGATTAAGT
1 TAATGCTTGGATGAATGATTAAGT
** * *
132178 TAATTTTTGGATGAATGGTTGAGT
1 TAATGCTTGGATGAATGATTAAGT
132202 TA
1 TA
132204 TAAATGTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (24 bp):
TAATGCTTGGATGAATGATTAAGT
Found at i:134734 original size:17 final size:18
Alignment explanation
Indices: 134714--134752 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
134704 CTACTTCTTG
134714 TTTAGATTAATT-AGAGT
1 TTTAGATTAATTAAGAGT
* *
134731 TTTAGTTTACTTAAGAGT
1 TTTAGATTAATTAAGAGT
134749 TTTA
1 TTTA
134753 TTTAGATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (18 bp):
TTTAGATTAATTAAGAGT
Found at i:139125 original size:128 final size:128
Alignment explanation
Indices: 138897--139133 Score: 447
Period size: 128 Copynumber: 1.9 Consensus size: 128
138887 CTATAGTGGT
*
138897 GCTTTTACAAGCATCGTAAAAAATGCAGCTAAAAATCACGATATTTATGAGGAAAAACGCTACTA
1 GCTTTTACAAGCATCGTAAAAAATGCAGCTAAAAATCACGATATTTATGAGGAAAAACGCCACTA
138962 TAAAACATGGTCTTTAGAGGCACTATCTAAAAAACGCCGTTAAAGAGCATGGTCTTTAGCGAA
66 TAAAACATGGTCTTTAGAGGCACTATCTAAAAAACGCCGTTAAAGAGCATGGTCTTTAGCGAA
* *
139025 GCTTTTACAAGCATCGTAAAAAATGCAGCTAAAAATCGCGGTATTTATGAGGAAAAACGCCACTA
1 GCTTTTACAAGCATCGTAAAAAATGCAGCTAAAAATCACGATATTTATGAGGAAAAACGCCACTA
139090 TAAAACATGGTCTTTAGAGGCACTATCTAAAAAACGCCGTTAAA
66 TAAAACATGGTCTTTAGAGGCACTATCTAAAAAACGCCGTTAAA
139134 TGCCGCTAAA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 106 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (128 bp):
GCTTTTACAAGCATCGTAAAAAATGCAGCTAAAAATCACGATATTTATGAGGAAAAACGCCACTA
TAAAACATGGTCTTTAGAGGCACTATCTAAAAAACGCCGTTAAAGAGCATGGTCTTTAGCGAA
Found at i:139192 original size:43 final size:43
Alignment explanation
Indices: 139130--139244 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 43
139120 AAAACGCCGT
* *
139130 TAAATGCCGCTAAAAAACATGGTCTTTAGCGAAGCTTTTTGCA
1 TAAATGCCGCTAAAGAACATGGTCTTTAGCGAAGCTTTTAGCA
* *
139173 TAAATGCCGCTAAAGAACATGGTTTTTAGCGACGCTTTTAGCA
1 TAAATGCCGCTAAAGAACATGGTCTTTAGCGAAGCTTTTAGCA
* * *
139216 CAAACGTCGCTAAAGAACATGGTCTTTAG
1 TAAATGCCGCTAAAGAACATGGTCTTTAG
139245 NGCTAAAGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (43 bp):
TAAATGCCGCTAAAGAACATGGTCTTTAGCGAAGCTTTTAGCA
Found at i:139802 original size:66 final size:66
Alignment explanation
Indices: 139670--139803 Score: 153
Period size: 66 Copynumber: 2.0 Consensus size: 66
139660 ATGTTGAAGC
* * * * **
139670 TGTAGTTGCAGTTCGTCATACTTTTTTCGAGACTCTGCTTCCCTCGTTGTTGCCTTGGCTTCAAG
1 TGTAGTTGAAGTTCATCATACTTTTTTCGAGACTCTGCTTCCCTCGCTGCTGCCTCCGCTTCAAG
139735 T
66 T
* * * * *
139736 TGTAGTTGAAGTTCATCATA-TTTTCTTTGAGCCTCTGTTTCTCTCGCTGCTGCCTCCGCTTTAA
1 TGTAGTTGAAGTTCATCATACTTTT-TTCGAGACTCTGCTTCCCTCGCTGCTGCCTCCGCTTCAA
139800 GT
65 GT
139802 TG
1 TG
139804 AGCAATTTGC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 4 0.07
66 52 0.93
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (66 bp):
TGTAGTTGAAGTTCATCATACTTTTTTCGAGACTCTGCTTCCCTCGCTGCTGCCTCCGCTTCAAG
T
Found at i:142138 original size:21 final size:21
Alignment explanation
Indices: 142112--142156 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
142102 CTGCAACTTC
*
142112 TACCGATACAAATATTCTAAG
1 TACCGATACAAATATGCTAAG
*
142133 TACCGATACAAATATGCTCAG
1 TACCGATACAAATATGCTAAG
142154 TAC
1 TAC
142157 TATCGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (21 bp):
TACCGATACAAATATGCTAAG
Found at i:142855 original size:41 final size:41
Alignment explanation
Indices: 142737--142904 Score: 230
Period size: 41 Copynumber: 4.1 Consensus size: 41
142727 GAGTCATAAA
* * *
142737 TCTTCCTTTAGTCATATTCTCATTCTCATCTGGAGACATGAG
1 TCTTCC-TTATTCATAATCTCATTCTCATCTCGAGACATGAG
** *
142779 TCTTCCTTAACCA-AATCTCATTCTCATTTCGAGACATGAG
1 TCTTCCTTATTCATAATCTCATTCTCATCTCGAGACATGAG
* * *
142819 TCTTCCTTATTCATAATCTCATTCTAATCTCAAGACATAAG
1 TCTTCCTTATTCATAATCTCATTCTCATCTCGAGACATGAG
*
142860 TCTTCCTTATTCATAATCTCATTCTCATCTCGAGACTTGAG
1 TCTTCCTTATTCATAATCTCATTCTCATCTCGAGACATGAG
142901 TCTT
1 TCTT
142905 TCATTTATAC
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
40 35 0.32
41 69 0.63
42 6 0.05
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.40
Consensus pattern (41 bp):
TCTTCCTTATTCATAATCTCATTCTCATCTCGAGACATGAG
Found at i:142901 original size:82 final size:82
Alignment explanation
Indices: 142737--142904 Score: 230
Period size: 81 Copynumber: 2.0 Consensus size: 82
142727 GAGTCATAAA
* * ** *
142737 TCTTCCTTTAGTCATATTCTCATTCTCATCTGGAGACATGAGTCTTCCTTAACCAAATCTCATTC
1 TCTTCCTTTAGTCATAATCTCATTCTAATCTCAAGACATAAGTCTTCCTTAACCAAATCTCATTC
*
142802 TCATTTCGAGACATGAG
66 TCATCTCGAGACATGAG
* **
142819 TCTTCC-TTATTCATAATCTCATTCTAATCTCAAGACATAAGTCTTCCTTATTCATAATCTCATT
1 TCTTCCTTTAGTCATAATCTCATTCTAATCTCAAGACATAAGTCTTCCTTAACCA-AATCTCATT
*
142883 CTCATCTCGAGACTTGAG
65 CTCATCTCGAGACATGAG
142901 TCTT
1 TCTT
142905 TCATTTATAC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
81 40 0.53
82 35 0.47
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.40
Consensus pattern (82 bp):
TCTTCCTTTAGTCATAATCTCATTCTAATCTCAAGACATAAGTCTTCCTTAACCAAATCTCATTC
TCATCTCGAGACATGAG
Found at i:144714 original size:22 final size:22
Alignment explanation
Indices: 144689--144732 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
144679 TCATTTTTTA
144689 CCATATAATGCTTCAAATGGTT
1 CCATATAATGCTTCAAATGGTT
144711 CCATATAATGCTTCAAATGGTT
1 CCATATAATGCTTCAAATGGTT
144733 TCATTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (22 bp):
CCATATAATGCTTCAAATGGTT
Found at i:149955 original size:41 final size:41
Alignment explanation
Indices: 149828--150095 Score: 315
Period size: 41 Copynumber: 6.5 Consensus size: 41
149818 TTATGCTCTA
* * * * *
149828 TCGAGTCATAAGTTTTCCTTTAATCATATTCTCATTCTCATC
1 TCGAGACATGAGTCTTCC-TTATTCATAATCTCATTCTCATC
* ** *
149870 TGGAGACATGAGTCTTCCTTAAGCAT-ATCTCATTCTCATT
1 TCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTCATC
149910 TCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTCATC
1 TCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTCATC
* *
149951 TCGAGACATGAGTCTTCTTTATTCATAATCTCGTTCTCATC
1 TCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTCATC
**
149992 TCGTCACATGAGTCTTCCTTATTCATAATCTCATTCTCATC
1 TCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTCATC
* * * * *
150033 TCAAGACATGAGTCTTCCATTTATACA-ATTCCTCATGCTCAAC
1 TCGAGACATGAGTCTTCC--TTATTCATAAT-CTCATTCTCATC
*
150076 GCGAGACATGAGTCTTCCTT
1 TCGAGACATGAGTCTTCCTT
150096 TTTATACACC
Statistics
Matches: 196, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
40 35 0.18
41 113 0.58
42 16 0.08
43 32 0.16
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (41 bp):
TCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTCATC
Found at i:150811 original size:3 final size:3
Alignment explanation
Indices: 150798--150888 Score: 173
Period size: 3 Copynumber: 30.3 Consensus size: 3
150788 AGTCGTGTAG
*
150798 AGA ATA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
150846 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
150889 AGAAAGAAAG
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:150893 original size:4 final size:4
Alignment explanation
Indices: 150884--150909 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
150874 GAAGAAGAAG
150884 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
150910 ATGTGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:154984 original size:6 final size:6
Alignment explanation
Indices: 154973--155000 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
154963 TTGTTATATG
154973 TTTAGA TTTAGA TTTAGA TTTAGA TTTA
1 TTTAGA TTTAGA TTTAGA TTTAGA TTTA
155001 TATTCTATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (6 bp):
TTTAGA
Found at i:155116 original size:8 final size:8
Alignment explanation
Indices: 155102--155136 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
155092 GATTGTTTTT
155102 ATAATTAA
1 ATAATTAA
*
155110 CTAATTAA
1 ATAATTAA
*
155118 ATATTTAA
1 ATAATTAA
155126 ATAATTAA
1 ATAATTAA
155134 ATA
1 ATA
155137 TTTGAGTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATTAA
Found at i:155123 original size:47 final size:48
Alignment explanation
Indices: 155054--155162 Score: 134
Period size: 49 Copynumber: 2.2 Consensus size: 48
155044 CAAATAATTA
* *
155054 AATAACTAAATAATTTAATATTT-TGAATTAAATATTTG-GATTGTTTTT
1 AATAATTAAATAATTAAATATTTAT-AATTAAATATTTGAG-TTGTTTTT
*
155102 -ATAATTAACTAATTAAATATTTAAATAATTAAATATTTGAGTTGTTTTT
1 AATAATTAAATAATTAAATATTT--ATAATTAAATATTTGAGTTGTTTTT
155151 AATAATTAAATA
1 AATAATTAAATA
155163 TTTATTTAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
47 19 0.37
49 21 0.40
50 12 0.23
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (48 bp):
AATAATTAAATAATTAAATATTTATAATTAAATATTTGAGTTGTTTTT
Found at i:155130 original size:16 final size:16
Alignment explanation
Indices: 155106--155139 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
155096 GTTTTTATAA
*
155106 TTAACTAATTAAATAT
1 TTAAATAATTAAATAT
155122 TTAAATAATTAAATAT
1 TTAAATAATTAAATAT
155138 TT
1 TT
155140 GAGTTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAATAATTAAATAT
Found at i:155139 original size:49 final size:53
Alignment explanation
Indices: 155079--155195 Score: 154
Period size: 49 Copynumber: 2.2 Consensus size: 53
155069 TAATATTTTG
*
155079 AATTAAATATTTG-GATTGTTTTT-ATAATTAACTA-A-TTAAATAT-TTAAAT
1 AATTAAATATTTGAG-TTGTTTTTAATAATTAAATATATTTAAATATATTAAAT
155128 AATTAAATATTTGAGTTGTTTTTAATAATTAAATATTTATTTAAATATAATTAAAT
1 AATTAAATATTTGAGTTGTTTTTAATAATTAAATA--TATTTAAATAT-ATTAAAT
155184 AATTAAATATTT
1 AATTAAATATTT
155196 TGAATTAAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
49 21 0.36
50 11 0.19
53 1 0.02
54 8 0.14
56 18 0.31
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (53 bp):
AATTAAATATTTGAGTTGTTTTTAATAATTAAATATATTTAAATATATTAAAT
Found at i:155246 original size:44 final size:43
Alignment explanation
Indices: 155198--155334 Score: 129
Period size: 44 Copynumber: 3.2 Consensus size: 43
155188 AAATATTTTG
155198 AATTAAATATTTGGGTTTTGGGTTTAATAAATAACTAATTAAAA
1 AATTAAATATTTGGGTTTT-GGTTTAATAAATAACTAATTAAAA
* * * * ***
155242 AATTAAATTTTTAGGTTTT--TTTAATAATTAAAT-ATT-TTG
1 AATTAAATATTTGGGTTTTGGTTTAATAAATAACTAATTAAAA
* * * *
155281 AATTAAATAGTTGAGTTTAGGATTTAATAAATAACTAATTAAAT
1 AATTAAATATTTGGGTTTTGG-TTTAATAAATAACTAATTAAAA
155325 AATTAAATAT
1 AATTAAATAT
155335 AATTAAATAA
Statistics
Matches: 70, Mismatches: 18, Indels: 10
0.71 0.18 0.10
Matches are distributed among these distances:
39 14 0.20
40 3 0.04
41 12 0.17
42 12 0.17
43 3 0.04
44 26 0.37
ACGTcount: A:0.44, C:0.01, G:0.10, T:0.45
Consensus pattern (43 bp):
AATTAAATATTTGGGTTTTGGTTTAATAAATAACTAATTAAAA
Found at i:155275 original size:83 final size:77
Alignment explanation
Indices: 155168--155408 Score: 333
Period size: 76 Copynumber: 3.1 Consensus size: 77
155158 AAATATTTAT
*
155168 TTAAA-TATAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTTTGGGTTTAATAAATAA
1 TTAAATTATAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTTAGGGTTTAATAAATAA
*
155232 CTAATTAAAAAA
66 CTAATTAAATAA
** * * * *
155244 TTAAATTTTTAGGTTTTTTTAATAATTAAATATTTTGAATTAAATAGTTGAGTTTAGGATTTAAT
1 TTAAA---TTA---TAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTTAGGGTTTAAT
155309 AAATAACTAATTAAATAA
60 AAATAACTAATTAAATAA
*
155327 TTAAA-TATAATTAAATAATTAAATATTTTGAATTAAATATTTGGATTTAGGGTTTAATAAATAA
1 TTAAATTATAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTTAGGGTTTAATAAATAA
155391 CTAATTAAATAA
66 CTAATTAAATAA
155403 TTAAAT
1 TTAAAT
155409 ATCTAAGACT
Statistics
Matches: 142, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
76 72 0.51
79 2 0.01
80 2 0.01
83 66 0.46
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (77 bp):
TTAAATTATAATTAAATAATTAAATATTTTGAATTAAATATTTGGGTTTAGGGTTTAATAAATAA
CTAATTAAATAA
Found at i:155329 original size:8 final size:8
Alignment explanation
Indices: 155306--155351 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
155296 TTTAGGATTT
*
155306 AATAAATA
1 AATAATTA
*
155314 ACTAATTA
1 AATAATTA
155322 AATAATTAA
1 AATAATT-A
155331 ATATAATTA
1 A-ATAATTA
155340 AATAATTA
1 AATAATTA
155348 AATA
1 AATA
155352 TTTTGAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 23 0.70
9 4 0.12
10 6 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (8 bp):
AATAATTA
Found at i:155365 original size:22 final size:18
Alignment explanation
Indices: 155316--155352 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
155306 AATAAATAAC
155316 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
155334 TAATTAAATAATTAAATA
1 TAATTAAATAATTAAATA
155352 T
1 T
155353 TTTGAATTAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATTAAATAATTAAATA
Found at i:156851 original size:16 final size:16
Alignment explanation
Indices: 156830--156862 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
156820 TTTGTAAAGG
156830 AATATAATAATATTAT
1 AATATAATAATATTAT
156846 AATATAATAATATTAT
1 AATATAATAATATTAT
156862 A
1 A
156863 TGTATGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATAATAATATTAT
Found at i:157532 original size:13 final size:14
Alignment explanation
Indices: 157509--157537 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
157499 TTACTATGTT
157509 AAAAACAAAAACAA
1 AAAAACAAAAACAA
157523 AAAAAC-AAAACAA
1 AAAAACAAAAACAA
157536 AA
1 AA
157538 CAAAACTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAACAAAAACAA
Found at i:158071 original size:42 final size:42
Alignment explanation
Indices: 157999--158109 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
157989 TTAGCGGTGT
* * *
157999 TTTTCCCATAAACGCCGCTAATGAC-CTGGACATTTTGTGACA
1 TTTTCCCATAAACGCCGCTATTG-CTTTGGACATTTTGCGACA
* * *
158041 TTTTCCAATAAACGCCGCTATTGCTTTGGACCTTTTGCGGCA
1 TTTTCCCATAAACGCCGCTATTGCTTTGGACATTTTGCGACA
* *
158083 TTTTCCCCATAAACACCGTTATTGCTT
1 TTTT-CCCATAAACGCCGCTATTGCTT
158110 GACCTCTAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 38 0.66
43 19 0.33
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (42 bp):
TTTTCCCATAAACGCCGCTATTGCTTTGGACATTTTGCGACA
Found at i:159666 original size:41 final size:41
Alignment explanation
Indices: 159537--159676 Score: 158
Period size: 41 Copynumber: 3.5 Consensus size: 41
159527 TGGGAAAATA
* * * *
159537 CCGCTATTGCT-TAACCTTTAGCGGCGTTTTCTAATAAA-A
1 CCGCTAATGCTCTGACCTTTAGCGGCGTTTTCTCATAAACG
* *
159576 CCGCTAATGCTATGACTTTTAGCGGCGTTTTCTCATAAACG
1 CCGCTAATGCTCTGACCTTTAGCGGCGTTTTCTCATAAACG
* ** * *
159617 TCTTTAATGTTCTGACCTTTAGTGGCGTTTTCTCATAAACG
1 CCGCTAATGCTCTGACCTTTAGCGGCGTTTTCTCATAAACG
*
159658 CCGCTAATGCTCTAACCTT
1 CCGCTAATGCTCTGACCTT
159677 AAACGCTGCT
Statistics
Matches: 82, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 10 0.12
40 24 0.29
41 48 0.59
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (41 bp):
CCGCTAATGCTCTGACCTTTAGCGGCGTTTTCTCATAAACG
Found at i:164547 original size:21 final size:21
Alignment explanation
Indices: 164521--164571 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
164511 CGAAAAATGA
*
164521 TTTTTGAAAAATGACATATTT
1 TTTTTGAAAAATAACATATTT
*
164542 TTTTTG-AAAATAACTTATTT
1 TTTTTGAAAAATAACATATTT
*
164562 TTTTGGAAAA
1 TTTTTGAAAA
164572 GCTAATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (21 bp):
TTTTTGAAAAATAACATATTT
Found at i:167360 original size:7 final size:7
Alignment explanation
Indices: 167348--167389 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
167338 GACTGAGCAA
167348 TTGAGAG
1 TTGAGAG
167355 TTGAGAG
1 TTGAGAG
167362 TTGAGAG
1 TTGAGAG
167369 TTGAGAG
1 TTGAGAG
167376 TTGAGAG
1 TTGAGAG
167383 TTGAGAG
1 TTGAGAG
167390 ATAGAGACTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.29, C:0.00, G:0.43, T:0.29
Consensus pattern (7 bp):
TTGAGAG
Found at i:168460 original size:34 final size:34
Alignment explanation
Indices: 168417--168488 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
168407 AGTAAACAAC
*
168417 ATTTGGGTAAGGTAAAAGATAAAAAATTAAAAAT
1 ATTTGGGTAAGATAAAAGATAAAAAATTAAAAAT
*
168451 ATTTGGGTAAGATAAAAGGTAAAAAATTAAAAAT
1 ATTTGGGTAAGATAAAAGATAAAAAATTAAAAAT
168485 ATTT
1 ATTT
168489 AAGTTTAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (34 bp):
ATTTGGGTAAGATAAAAGATAAAAAATTAAAAAT
Found at i:170488 original size:22 final size:22
Alignment explanation
Indices: 170463--170505 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
170453 TATAGTTTTT
* *
170463 TTTTTTAATATTTTATATTTAC
1 TTTTTAAATATTTTAAATTTAC
*
170485 TTTTTAAATTTTTTAAATTTA
1 TTTTTAAATATTTTAAATTTA
170506 AAATTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTAAATATTTTAAATTTAC
Found at i:170774 original size:33 final size:33
Alignment explanation
Indices: 170736--170803 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
170726 ATAAATTTAC
*
170736 CTCTTCAATGTTTATAGATTCTATCAATTTAGT
1 CTCTTCAATATTTATAGATTCTATCAATTTAGT
170769 CTCTTCAATATTTATAGATTCTATCAATTTAGT
1 CTCTTCAATATTTATAGATTCTATCAATTTAGT
170802 CT
1 CT
170804 TAATTCTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (33 bp):
CTCTTCAATATTTATAGATTCTATCAATTTAGT
Found at i:171551 original size:20 final size:20
Alignment explanation
Indices: 171526--171569 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
171516 CTTAAATTGA
*
171526 TTTATTTATAATATTATTAT
1 TTTATTTATAAAATTATTAT
*
171546 TTTATTTTTAAAATTATTAT
1 TTTATTTATAAAATTATTAT
171566 TTTA
1 TTTA
171570 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTATTTATAAAATTATTAT
Found at i:171693 original size:16 final size:15
Alignment explanation
Indices: 171661--171690 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
171651 TAAAAATGAA
171661 ATTTTTAATATTTTT
1 ATTTTTAATATTTTT
171676 ATTTTTAATATTTTT
1 ATTTTTAATATTTTT
171691 TATAATTTTT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTTAATATTTTT
Found at i:180308 original size:22 final size:22
Alignment explanation
Indices: 180280--180325 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
180270 TGTCAGCTGC
180280 ACATAAGAGAAACTACTTACTA
1 ACATAAGAGAAACTACTTACTA
180302 ACATAAGAGAAACTACTTACTA
1 ACATAAGAGAAACTACTTACTA
180324 AC
1 AC
180326 TCCAACTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.22
Consensus pattern (22 bp):
ACATAAGAGAAACTACTTACTA
Found at i:184959 original size:62 final size:62
Alignment explanation
Indices: 184862--184986 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
184852 TTATATAGCA
*
184862 TCTTATCTCAATAAGTTACCTCAAACTTACCGAATGAACTGAATGTTAGGGGCACCCGGTAC
1 TCTTATCTCAATAAGTTACCTCAAACTTACCGAATGAACTGAATGTTAGGGGCACCCGATAC
*
184924 TCTTATCTCAATAAGTTACCTCAACCTTACCGAATGAACTGAATGTTAGGGGCACCCGATAC
1 TCTTATCTCAATAAGTTACCTCAAACTTACCGAATGAACTGAATGTTAGGGGCACCCGATAC
184986 T
1 T
184987 TAGCGGGTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (62 bp):
TCTTATCTCAATAAGTTACCTCAAACTTACCGAATGAACTGAATGTTAGGGGCACCCGATAC
Found at i:185164 original size:35 final size:35
Alignment explanation
Indices: 185125--185243 Score: 132
Period size: 35 Copynumber: 3.4 Consensus size: 35
185115 GGATTTGTGT
*
185125 GCCCAGCACTAGTCAGATAAACTGATGAAGGTTGC
1 GCCCAACACTAGTCAGATAAACTGATGAAGGTTGC
* * * * ** *
185160 GCCCATCGCTAGTCGGATAAACTGA-CAATTTGTGT
1 GCCCAACACTAGTCAGATAAACTGATGAAGGT-TGC
*
185195 GCCCAACACTAGTCATATAAACTGATGAAGGTTGC
1 GCCCAACACTAGTCAGATAAACTGATGAAGGTTGC
*
185230 GCCCAACGCTAGTC
1 GCCCAACACTAGTC
185244 GAATAGACTG
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
34 3 0.05
35 60 0.91
36 3 0.05
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (35 bp):
GCCCAACACTAGTCAGATAAACTGATGAAGGTTGC
Found at i:185254 original size:70 final size:70
Alignment explanation
Indices: 185098--185255 Score: 244
Period size: 70 Copynumber: 2.3 Consensus size: 70
185088 GTGCCTAGCA
* ** *
185098 CTAGTCGAATAAACCGAGGATTTGTGTGCCCAGCACTAGTCAGATAAACTGATGAAGGTTGCGCC
1 CTAGTCGAATAAACTGACAATTTGTGTGCCCAACACTAGTCAGATAAACTGATGAAGGTTGCGCC
*
185163 CATCG
66 CAACG
* *
185168 CTAGTCGGATAAACTGACAATTTGTGTGCCCAACACTAGTCATATAAACTGATGAAGGTTGCGCC
1 CTAGTCGAATAAACTGACAATTTGTGTGCCCAACACTAGTCAGATAAACTGATGAAGGTTGCGCC
185233 CAACG
66 CAACG
*
185238 CTAGTCGAATAGACTGAC
1 CTAGTCGAATAAACTGAC
185256 GATGTAAATA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 79 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (70 bp):
CTAGTCGAATAAACTGACAATTTGTGTGCCCAACACTAGTCAGATAAACTGATGAAGGTTGCGCC
CAACG
Found at i:186552 original size:15 final size:15
Alignment explanation
Indices: 186534--186568 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
186524 AAACTCCGAA
186534 AACCCAAAAATAAAG
1 AACCCAAAAATAAAG
**
186549 AACCCTCAAATAAAG
1 AACCCAAAAATAAAG
186564 AACCC
1 AACCC
186569 TCAAAACGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.29, G:0.06, T:0.09
Consensus pattern (15 bp):
AACCCAAAAATAAAG
Found at i:186569 original size:15 final size:15
Alignment explanation
Indices: 186541--186573 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
186531 GAAAACCCAA
186541 AAATAAAGAACCCTC
1 AAATAAAGAACCCTC
186556 AAATAAAGAACCCTC
1 AAATAAAGAACCCTC
186571 AAA
1 AAA
186574 ACGTAAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.24, G:0.06, T:0.12
Consensus pattern (15 bp):
AAATAAAGAACCCTC
Found at i:209641 original size:2 final size:2
Alignment explanation
Indices: 209634--209665 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
209624 ATATTCAAAA
209634 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
209666 GATTATATGG
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:215774 original size:337 final size:334
Alignment explanation
Indices: 215167--215946 Score: 1182
Period size: 337 Copynumber: 2.3 Consensus size: 334
215157 CGTCTGTTTT
* *
215167 GTATCGTCGTTATTCCCTCTCTCTTTTTATGCATTTTGCTTTCCTGAAAATTCCCTAGTTGATGC
1 GTATCGTCGTTATTCCCTCTCTTTTTTTATGCTTTTTGC-TTCCTGAAAATTCCCTAGTTGATGC
* *
215232 GAAAT-ACATGTCATACGTTGCAACACCTT-GGTGTCATC--T-AT---GATAAAAAAAATACCA
65 GAAATCAC-TGTCATACGTTGCAACA-CTTCGGTGTCATCTTTGATAAAAATAAAAAAAACACCA
*
215289 AAAGGCTCTCCTCTTCTCCTTCTTCAACTCTATCCAATTAGATTTCCCTAGAAAACAACCAAACA
128 AAAGGCTCTCCTCTTCTCCTTCTTCAACTCTATCCAATTAGAATTCCCTAGAAAACAACCAAACA
* * *
215354 CTCCAAAAATCCATGCAAATGTTTGAATGTATCACCCCTAAAATTGTTATACCATGAAATCAATA
193 CTCCAAAAATCCATGCAAAAGTTTGAATGTATCACCCCTAAAATTATTATACCATAAAATCAATA
* * * * *
215419 ATAAATCGAGAATGTATATGATTTATTTCTCGATCAAGTGAAATACGGAAAATAAAAGTGATAAA
258 ATAAATCAAGAATGTATATGATTGATTTCTCGATAAAGTGAAATAAGAAAAATAAAAGTGATAAA
*
215484 AGGGAAGGTTGA
323 AGAGAAGGTTGA
*
215496 GTATCGTCGTTATTCCCTC-CATTTTTTTATGCTTTTTGCTTCCTCGAAAATTCTCTAGTTGATG
1 GTATCGTCGTTATTCCCTCTC-TTTTTTTATGCTTTTTGCTTCCT-GAAAATTCCCTAGTTGATG
215560 CGAAATCACTGTCATACGTTGCAACACTTCGGTGTCATCTTTGATAAAAATAAAAAAAAACCACC
64 CGAAATCACTGTCATACGTTGCAACACTTCGGTGTCATCTTTGATAAAAAT-AAAAAAAA-CACC
* *
215625 AAAAGGCTCTCCTCTTCTCCTTCTTCAACTCTGTCCGATTAGAATTCCCTAGAAAACAACCAAAC
127 AAAAGGCTCTCCTCTTCTCCTTCTTCAACTCTATCCAATTAGAATTCCCTAGAAAACAACCAAAC
* **
215690 TCTCCAAAAATCCATGCAAAAGTTTGAATGTATCACCCCTAAAATTATTATACCATAAAATCGGT
192 ACTCCAAAAATCCATGCAAAAGTTTGAATGTATCACCCCTAAAATTATTATACCATAAAATCAAT
215755 AATAAATCAAGAATGTATATGATTGATTTCTCGATAAAGTGAAATAAGAAAAATAAAAGTGATAA
257 AATAAATCAAGAATGTATATGATTGATTTCTCGATAAAGTGAAATAAGAAAAATAAAAGTGATAA
*
215820 AAGAGATGGTTGA
322 AAGAGAAGGTTGA
* * * *
215833 GTATCGTCGTTATTCCTTCTCTTTTTTTACGCTTTTTGCTTCCTTGAAAATTCCCTAGTTCATGT
1 GTATCGTCGTTATTCCCTCTCTTTTTTTATGCTTTTTGCTTCC-TGAAAATTCCCTAGTTGATGC
* *
215898 GAAATCATTGTCATACGTTGCAACACTTCAGTGTCATCTTTGATAAAAA
65 GAAATCACTGTCATACGTTGCAACACTTCGGTGTCATCTTTGATAAAAA
215947 AAAGGCATAA
Statistics
Matches: 409, Mismatches: 28, Indels: 20
0.89 0.06 0.04
Matches are distributed among these distances:
328 9 0.02
329 85 0.21
330 2 0.00
331 1 0.00
332 2 0.00
335 2 0.00
336 8 0.02
337 298 0.73
338 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (334 bp):
GTATCGTCGTTATTCCCTCTCTTTTTTTATGCTTTTTGCTTCCTGAAAATTCCCTAGTTGATGCG
AAATCACTGTCATACGTTGCAACACTTCGGTGTCATCTTTGATAAAAATAAAAAAAACACCAAAA
GGCTCTCCTCTTCTCCTTCTTCAACTCTATCCAATTAGAATTCCCTAGAAAACAACCAAACACTC
CAAAAATCCATGCAAAAGTTTGAATGTATCACCCCTAAAATTATTATACCATAAAATCAATAATA
AATCAAGAATGTATATGATTGATTTCTCGATAAAGTGAAATAAGAAAAATAAAAGTGATAAAAGA
GAAGGTTGA
Found at i:217109 original size:336 final size:335
Alignment explanation
Indices: 216434--217321 Score: 1490
Period size: 333 Copynumber: 2.7 Consensus size: 335
216424 TTATGCCTAA
216434 AAAAAAAACAACAACACCAAAAGGCTCTCCTCTTCTCCTTCTTCAACTCTATCCGAA-TAGATTT
1 AAAAAAAA-AACAACACCAAAAGGCTCTCCTCTTCTCCTTCTTCAACTCTATCC-AATTAGATTT
* * *
216498 CCCTAGAAAATAACCAAACTCTCGAAAAAATCCACGCAAATGTTTGAATGTATCACCCCTAAAAT
64 CCCTAGAAAACAACCAAACTCTC-CAAAAATCCATGCAAATGTTTGAATGTATCACCCCTAAAAT
* *
216563 TGTTATACCATAAAATCAGTAATAAATCGAGAATGTATATGATTGACTTCT-AACT--A---AAA
128 TGTTATACCATAAAATCAGTAATAAATCAAGAATGTATATGATTGATTTCTCAA-TAAAGTGAAA
*
216622 TAAGGAAAATAAAAGTGATAAAAGAGAAGGTTGAGTATCGTCGTTATTCCCTCTCTCTTTTTTAT
192 TAAGGAAAATAAAAGTGATAAAAGAGAAGGTTGAGTATCGTCGTTATTCCCTCTCTCTTTTTTAG
* *
216687 GCTTTTTGCTTCCCAGAAAATTCCCTAGTTGATGTGAAATCACTGTCATACGTTGCAACACTTCG
257 GCTTTTTGCTTCCCAGAAAATTCCCTAGTTGATGCGAAATCACTGTCATACATTGCAACACTTCG
216752 GTGTCATCTTTGAT
322 GTGTCATCTTTGAT
216766 AAAAAAAAAACAACACCAAAAGGCTCTCCTCTTCTCCTTCTTCAACTCTATCCAATTAGATTTCC
1 AAAAAAAAAACAACACCAAAAGGCTCTCCTCTTCTCCTTCTTCAACTCTATCCAATTAGATTTCC
216831 CTAGAAAACAACCAAACTCTCCAAAAATCCATGCAAATGTTTGAATGTATCACCCCTAAAATTGT
66 CTAGAAAACAACCAAACTCTCCAAAAATCCATGCAAATGTTTGAATGTATCACCCCTAAAATTGT
*
216896 TATACCATAAAATCAGTAATAAATCAAGAATGTATATGACTGATTTCTCAATAAAGTGAAATAAG
131 TATACCATAAAATCAGTAATAAATCAAGAATGTATATGATTGATTTCTCAATAAAGTGAAATAAG
*
216961 GAAAATAAAAGTGATAAAAGAGAAGGTTGAGTATCGTCGTTATTTCCTCTCTCTCTTTTTAGGCT
196 GAAAATAAAAGTGATAAAAGAGAAGGTTGAGTATCGTCGTTATTCCCTCTCTCT-TTTTTAGGCT
* * *
217026 TTTTGCTTCCCCGAAAATTCCCTAGTTGATGCGAAATCACTGTCATACATTGCAAGACTTGGGTG
260 TTTTGCTTCCCAGAAAATTCCCTAGTTGATGCGAAATCACTGTCATACATTGCAACACTTCGGTG
217091 TCATCTTTGAT
325 TCATCTTTGAT
* * *
217102 AAAAAAAAAAC--C-CCAAAAGGCTCTCCTCTTCTCCTTCTTCAACTATACCCGATTAGATTTCC
1 AAAAAAAAAACAACACCAAAAGGCTCTCCTCTTCTCCTTCTTCAACTCTATCCAATTAGATTTCC
*
217164 CTAGAAAACAACCAAATTCTCCAAAAATCCATGCAAATGTTTGAATGTATCACCCCTAAAATTGT
66 CTAGAAAACAACCAAACTCTCCAAAAATCCATGCAAATGTTTGAATGTATCACCCCTAAAATTGT
* *
217229 TATACCATAAAATCAATAATAAATCAAGAATGTCTATGATTGATTTCTCAATAAAGTGAAATAAG
131 TATACCATAAAATCAGTAATAAATCAAGAATGTATATGATTGATTTCTCAATAAAGTGAAATAAG
217294 GAAAATAAAAGTGATAAAAGAGAAGGTT
196 GAAAATAAAAGTGATAAAAGAGAAGGTT
217322 AAGTGATGTC
Statistics
Matches: 528, Mismatches: 20, Indels: 15
0.94 0.04 0.03
Matches are distributed among these distances:
330 90 0.17
331 76 0.14
332 9 0.02
333 201 0.38
334 1 0.00
335 60 0.11
336 91 0.17
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (335 bp):
AAAAAAAAAACAACACCAAAAGGCTCTCCTCTTCTCCTTCTTCAACTCTATCCAATTAGATTTCC
CTAGAAAACAACCAAACTCTCCAAAAATCCATGCAAATGTTTGAATGTATCACCCCTAAAATTGT
TATACCATAAAATCAGTAATAAATCAAGAATGTATATGATTGATTTCTCAATAAAGTGAAATAAG
GAAAATAAAAGTGATAAAAGAGAAGGTTGAGTATCGTCGTTATTCCCTCTCTCTTTTTTAGGCTT
TTTGCTTCCCAGAAAATTCCCTAGTTGATGCGAAATCACTGTCATACATTGCAACACTTCGGTGT
CATCTTTGAT
Found at i:218421 original size:81 final size:81
Alignment explanation
Indices: 218286--218447 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
218276 CTGATATAAA
218286 TCATAATAAGTAAATAAATTCATTAAAACAGTTTTGGACAGCAGTAGCAGTTTAACTTTGAAAAT
1 TCATAATAAGTAAATAAATTCATTAAAACAGTTTTGGACAGCAGTAGCAGTTTAACTTTGAAAAT
218351 TCACCAAAAATTATAT
66 TCACCAAAAATTATAT
*
218367 TCATAATAAGTAAATAAATTCATTAAAACAGTTTTGGATAGCAGTAGCAGTTTAACTTTGAAAAT
1 TCATAATAAGTAAATAAATTCATTAAAACAGTTTTGGACAGCAGTAGCAGTTTAACTTTGAAAAT
218432 TCACCAAAAATTATAT
66 TCACCAAAAATTATAT
218448 AAGTCGATTT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (81 bp):
TCATAATAAGTAAATAAATTCATTAAAACAGTTTTGGACAGCAGTAGCAGTTTAACTTTGAAAAT
TCACCAAAAATTATAT
Found at i:225833 original size:24 final size:24
Alignment explanation
Indices: 225806--225869 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
225796 TTGACTCAGT
225806 CAGAGTTTAATTGAAACAAATAAA
1 CAGAGTTTAATTGAAACAAATAAA
*
225830 CAGAGTTTAATTGAAACAATTAAA
1 CAGAGTTTAATTGAAACAAATAAA
*
225854 CAGAGTTTAACTGAAA
1 CAGAGTTTAATTGAAA
225870 GATTATTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.27
Consensus pattern (24 bp):
CAGAGTTTAATTGAAACAAATAAA
Found at i:233037 original size:3 final size:3
Alignment explanation
Indices: 233025--233059 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
233015 ATCATTTTTT
* *
233025 TTC TTT TTC TTC TTC TTT TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
233060 AGCGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:233042 original size:12 final size:12
Alignment explanation
Indices: 233025--233059 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
233015 ATCATTTTTT
233025 TTCTTTTTCTTC
1 TTCTTTTTCTTC
233037 TTCTTTTTCTTC
1 TTCTTTTTCTTC
*
233049 TTCTTCTTCTT
1 TTCTTTTTCTT
233060 AGCGTGTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTCTTTTTCTTC
Found at i:234283 original size:15 final size:16
Alignment explanation
Indices: 234254--234284 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
234244 GGAAACCGAT
234254 GATATTTTCGAAAATG
1 GATATTTTCGAAAATG
234270 GATATTTT-GAAAATG
1 GATATTTTCGAAAATG
234285 AATTTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (16 bp):
GATATTTTCGAAAATG
Found at i:237092 original size:23 final size:23
Alignment explanation
Indices: 237070--237211 Score: 178
Period size: 23 Copynumber: 6.2 Consensus size: 23
237060 ACACTAGCGC
* *
237070 GCTCTCCGATTAGCACTGTGCGC
1 GCTCTCCGATTAGCACTGTGTGT
*
237093 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCCGATTAGCACTGTGTGT
* *
237116 GCTCTCCGTTTAGCACTTTGTGT
1 GCTCTCCGATTAGCACTGTGTGT
* *
237139 GCTCTCCGTTTAGCACTTTGTGT
1 GCTCTCCGATTAGCACTGTGTGT
*
237162 GCTCTCCGTTTAGCACT-TCGTGT
1 GCTCTCCGATTAGCACTGT-GTGT
* *
237185 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCCGATTAGCACTGTGTGT
237208 GCTC
1 GCTC
237212 AATACTTTGT
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
22 1 0.01
23 107 0.98
24 1 0.01
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (23 bp):
GCTCTCCGATTAGCACTGTGTGT
Found at i:237143 original size:46 final size:46
Alignment explanation
Indices: 237070--237211 Score: 212
Period size: 46 Copynumber: 3.1 Consensus size: 46
237060 ACACTAGCGC
* * * * *
237070 GCTCTCCGATTAGCACTGTGCGCGCTCTCTGATTAGCACTGTGTGT
1 GCTCTCCGTTTAGCACTTTGTGTGCTCTCTGATTAGCACTTTGTGT
* *
237116 GCTCTCCGTTTAGCACTTTGTGTGCTCTCCGTTTAGCACTTTGTGT
1 GCTCTCCGTTTAGCACTTTGTGTGCTCTCTGATTAGCACTTTGTGT
*
237162 GCTCTCCGTTTAGCACTTCGTGTGCTCTCTGATTAGCACTTTGTGT
1 GCTCTCCGTTTAGCACTTTGTGTGCTCTCTGATTAGCACTTTGTGT
237208 GCTC
1 GCTC
237212 AATACTTTGT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 86 1.00
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (46 bp):
GCTCTCCGTTTAGCACTTTGTGTGCTCTCTGATTAGCACTTTGTGT
Found at i:237185 original size:69 final size:69
Alignment explanation
Indices: 237070--237211 Score: 196
Period size: 69 Copynumber: 2.1 Consensus size: 69
237060 ACACTAGCGC
* *
237070 GCTCTCCGATTAGCACTGTGCGCGCTCTCTGATTAGCACTGTGTGTGCTCTCCGTTTAGCACTTT
1 GCTCTCCGATTAGCACTGTGCGCGCTCTCCGATTAGCACTGTGTGTGCTCTCCGATTAGCACTTT
237135 GTGT
66 GTGT
* * * * * *
237139 GCTCTCCGTTTAGCACTTTGTGTGCTCTCCGTTTAGCACT-TCGTGTGCTCTCTGATTAGCACTT
1 GCTCTCCGATTAGCACTGTGCGCGCTCTCCGATTAGCACTGT-GTGTGCTCTCCGATTAGCACTT
237203 TGTGT
65 TGTGT
237208 GCTC
1 GCTC
237212 AATACTTTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 1 0.02
69 63 0.98
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (69 bp):
GCTCTCCGATTAGCACTGTGCGCGCTCTCCGATTAGCACTGTGTGTGCTCTCCGATTAGCACTTT
GTGT
Found at i:237240 original size:39 final size:39
Alignment explanation
Indices: 237176--237250 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
237166 TCCGTTTAGC
* *
237176 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAAT
1 ACTTCGTGTACTCTCTGATTAGCACTGTGTGTGCTCAAT
* *
237215 ACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTGTGTGTGCTC
237251 TCTGTTGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTGTGTGTGCTCAAT
Found at i:241990 original size:21 final size:22
Alignment explanation
Indices: 241959--242008 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
241949 TTATTTTTTA
*
241959 AAATATAAATTATTTTAAA-AT
1 AAATTTAAATTATTTTAAATAT
* *
241980 TAATTTAAATTTTTTTAAATAT
1 AAATTTAAATTATTTTAAATAT
242002 AAATTTA
1 AAATTTA
242009 TTAAAATCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATTTAAATTATTTTAAATAT
Found at i:242006 original size:16 final size:16
Alignment explanation
Indices: 241951--242015 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 16
241941 TTTTAAAATT
241951 ATTTTTTAAAATATAA
1 ATTTTTTAAAATATAA
241967 ATTATTTTAAAATTAATTTAA
1 ATT-TTTTAAAA-T-A--TAA
*
241988 ATTTTTTTAAATATAA
1 ATTTTTTAAAATATAA
*
242004 ATTTATTAAAAT
1 ATTTTTTAAAAT
242016 CATCATTATC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
16 16 0.39
17 8 0.20
18 2 0.05
19 2 0.05
20 7 0.17
21 6 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTTTTAAAATATAA
Found at i:242294 original size:15 final size:17
Alignment explanation
Indices: 242273--242313 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
242263 AATTGAAAAG
242273 GGAAAATGAAATT-CGA
1 GGAAAATGAAATTCCGA
*
242289 -GAAAAT-AGATTCCGA
1 GGAAAATGAAATTCCGA
242304 GGAAAATGAA
1 GGAAAATGAA
242314 GGGAATTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
14 4 0.20
15 9 0.45
16 6 0.30
17 1 0.05
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (17 bp):
GGAAAATGAAATTCCGA
Found at i:246792 original size:27 final size:27
Alignment explanation
Indices: 246761--246827 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
246751 TAAATTCAAT
246761 GTTTCAATCTTTCTTTTCTTTCAAAAA
1 GTTTCAATCTTTCTTTTCTTTCAAAAA
246788 GTTTCAATCTTTCTTTTCTTTCAAAAA
1 GTTTCAATCTTTCTTTTCTTTCAAAAA
246815 GTTTCAATCTTTC
1 GTTTCAATCTTTC
246828 ATATGTTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.04, T:0.52
Consensus pattern (27 bp):
GTTTCAATCTTTCTTTTCTTTCAAAAA
Found at i:251519 original size:16 final size:18
Alignment explanation
Indices: 251498--251535 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
251488 AGAGTAGACA
251498 AAAACTT-CTAAA-AATG
1 AAAACTTACTAAACAATG
*
251514 AAAACTTATTAAACAATG
1 AAAACTTACTAAACAATG
251532 AAAA
1 AAAA
251536 ATAAACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAACTTACTAAACAATG
Found at i:252679 original size:21 final size:20
Alignment explanation
Indices: 252644--252698 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
252634 ATTCAATCCC
* *
252644 CAATTTCCAATTTTATATTTT
1 CAATTT-CAAATTTAAATTTT
252665 CAATCTTCAAATTTAAATTTT
1 CAAT-TTCAAATTTAAATTTT
*
252686 CAATTTTAAATTT
1 CAATTTCAAATTT
252699 TTGATCCTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.27
21 20 0.67
22 2 0.07
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.53
Consensus pattern (20 bp):
CAATTTCAAATTTAAATTTT
Found at i:252690 original size:7 final size:7
Alignment explanation
Indices: 252644--252699 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
252634 ATTCAATCCC
*
252644 CAATTTC
1 CAATTTT
252651 CAATTTT
1 CAATTTT
252658 -ATATTTT
1 CA-ATTTT
*
252665 CAATCTT
1 CAATTTT
*
252672 CAAATTT
1 CAATTTT
*
252679 AAATTTT
1 CAATTTT
252686 CAATTTT
1 CAATTTT
*
252693 AAATTTT
1 CAATTTT
252700 TGATCCTCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
6 1 0.03
7 37 0.95
8 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (7 bp):
CAATTTT
Found at i:252710 original size:35 final size:35
Alignment explanation
Indices: 252645--252711 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
252635 TTCAATCCCC
* *
252645 AATTTCCAATTTTATATTTTCAATCTTCAAATTTA
1 AATTTCCAATTTTAAATTTTCAATCCTCAAATTTA
* **
252680 AATTTTCAATTTTAAATTTTTGATCCTCAAAT
1 AATTTCCAATTTTAAATTTTCAATCCTCAAAT
252712 ATTTTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.34, C:0.13, G:0.01, T:0.51
Consensus pattern (35 bp):
AATTTCCAATTTTAAATTTTCAATCCTCAAATTTA
Found at i:256342 original size:14 final size:14
Alignment explanation
Indices: 256325--256378 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
256315 ATAATTTCTC
256325 TTTTTATATTTTAA
1 TTTTTATATTTTAA
* *
256339 TTTTCATATGTTAA
1 TTTTTATATTTTAA
256353 TATTTTATATTTATAGA
1 T-TTTTATATTT-TA-A
*
256370 TTTTAATAT
1 TTTTTATAT
256379 ATTTGTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 13 0.41
15 8 0.25
16 9 0.28
17 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (14 bp):
TTTTTATATTTTAA
Found at i:256402 original size:26 final size:25
Alignment explanation
Indices: 256352--256405 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
256342 TCATATGTTA
* *
256352 ATATTTTATATTTATAGATTTTAAT
1 ATATTTTATATCTATAGATTATAAT
256377 ATATTTGTATATCTATAG-TCTATAAT
1 ATATTT-TATATCTATAGAT-TATAAT
256403 ATA
1 ATA
256406 AGTTATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (25 bp):
ATATTTTATATCTATAGATTATAAT
Found at i:276185 original size:18 final size:18
Alignment explanation
Indices: 276158--276200 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
276148 TCTTATAATT
276158 TTTTAT-ATTTCTATA-TA
1 TTTTATAATTT-TATACTA
*
276175 TTTTATAATTTTTTACTA
1 TTTTATAATTTTATACTA
276193 TTTTATAA
1 TTTTATAA
276201 AATTATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATAATTTTATACTA
Found at i:276214 original size:28 final size:27
Alignment explanation
Indices: 276183--276240 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
276173 TATTTTATAA
*
276183 TTTTTTACT-ATTTTATAAAATTAT-ATT
1 TTTTTTTCTAATTTT-TAAAATT-TGATT
*
276210 TTTTTTTCTAATTTTTAATATTTGATT
1 TTTTTTTCTAATTTTTAAAATTTGATT
276237 TTTT
1 TTTT
276241 ATTAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 1 0.04
27 21 0.78
28 5 0.19
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTTTTCTAATTTTTAAAATTTGATT
Done.