Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008981.1 Hibiscus syriacus cultivar Beakdansim tig00112343_pilon, 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: 1473337
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 3 of 7
Found at i:404215 original size:69 final size:69
Alignment explanation
Indices: 404129--404267 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
404119 TGGGGAGTGA
* *
404129 TGAAGCCTTGGATTCAGTTTGTTTATCAGCCTCAACAGTCCAACTGTAAACTACCATGCCAAGGA
1 TGAAGCCTTGGATTCAGTTTGTTTATAAGCCTCAACAGCCCAACTGTAAACTACCATGCCAAGGA
404194 TCGC
66 TCGC
404198 TGAAGCCTTGGATTCAGTTTGTTTATAAGCCTCAACAGCCCAACTGTAAACTACCATGCCAAGGA
1 TGAAGCCTTGGATTCAGTTTGTTTATAAGCCTCAACAGCCCAACTGTAAACTACCATGCCAAGGA
404263 TCGC
66 TCGC
404267 T
1 T
404268 ATCGCCATCC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (69 bp):
TGAAGCCTTGGATTCAGTTTGTTTATAAGCCTCAACAGCCCAACTGTAAACTACCATGCCAAGGA
TCGC
Found at i:405622 original size:41 final size:41
Alignment explanation
Indices: 405575--405815 Score: 208
Period size: 41 Copynumber: 6.0 Consensus size: 41
405565 GGGTTAGGTT
*
405575 TGAAATCTAAATCACAACGACAATGACAGAGCTGGAATAAA
1 TGAAATCTAAATCACAACGACAATGACAGAGCTGGAATATA
* * *
405616 TGAAATCTATATCACAACGACAATGACAGAGCTGGAATGTG
1 TGAAATCTAAATCACAACGACAATGACAGAGCTGGAATATA
* * * * *
405657 TAAAATATATATCATAACGACAACGACAGAGCTGGAATATA
1 TGAAATCTAAATCACAACGACAATGACAGAGCTGGAATATA
* * *
405698 TGAAATC----T---AACGACAACGACAGAGCAGGAATGTA
1 TGAAATCTAAATCACAACGACAATGACAGAGCTGGAATATA
* * * * * * *
405732 TAAAATATATACCATAACGAAAACGACAGAGCTGGAATATA
1 TGAAATCTAAATCACAACGACAATGACAGAGCTGGAATATA
* * * * *
405773 TGAAATCTATATCAATAACAACAACGACAGATCTGGAATATA
1 TGAAATCTAAATC-ACAACGACAATGACAGAGCTGGAATATA
405815 T
1 T
405816 ATCGTGTATA
Statistics
Matches: 166, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
34 29 0.17
37 1 0.01
41 110 0.66
42 26 0.16
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.20
Consensus pattern (41 bp):
TGAAATCTAAATCACAACGACAATGACAGAGCTGGAATATA
Found at i:405711 original size:34 final size:34
Alignment explanation
Indices: 405671--405781 Score: 123
Period size: 34 Copynumber: 3.1 Consensus size: 34
405661 ATATATATCA
405671 TAACGACAACGACAGAGCTGGAATATATGAAATC
1 TAACGACAACGACAGAGCTGGAATATATGAAATC
* **
405705 TAACGACAACGACAGAGCAGGAATGTATAAAATATATACC
1 TAACGACAACGACAGAGCTGGAA--TATATGA-A-AT--C
*
405745 ATAACGAAAACGACAGAGCTGGAATATATGAAATC
1 -TAACGACAACGACAGAGCTGGAATATATGAAATC
405780 TA
1 TA
405782 TATCAATAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
34 24 0.38
35 1 0.02
36 5 0.08
37 3 0.05
38 3 0.05
39 5 0.08
40 1 0.02
41 21 0.33
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (34 bp):
TAACGACAACGACAGAGCTGGAATATATGAAATC
Found at i:405721 original size:116 final size:117
Alignment explanation
Indices: 405590--405815 Score: 301
Period size: 116 Copynumber: 1.9 Consensus size: 117
405580 TCTAAATCAC
* * * * * * * *
405590 AACGACAATGACAGAGCTGGAATAAATGAAATCTATATCACAACGACAATGACAGAGCTGGAATG
1 AACGACAACGACAGAGCAGGAATAAATAAAATATATACCACAACGAAAACGACAGAGCTGGAATA
* *
405655 TGTAAAATATATATC-ATAACGACAACGACAGAGCTGGAATATATGAAATCT
66 TATAAAATATATATCAATAACAACAACGACAGAGCTGGAATATATGAAATCT
** *
405706 AACGACAACGACAGAGCAGGAATGTATAAAATATATACCATAACGAAAACGACAGAGCTGGAATA
1 AACGACAACGACAGAGCAGGAATAAATAAAATATATACCACAACGAAAACGACAGAGCTGGAATA
* * *
405771 TATGAAATCTATATCAATAACAACAACGACAGATCTGGAATATAT
66 TATAAAATATATATCAATAACAACAACGACAGAGCTGGAATATAT
405816 ATCGTGTATA
Statistics
Matches: 93, Mismatches: 16, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
116 66 0.71
117 27 0.29
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (117 bp):
AACGACAACGACAGAGCAGGAATAAATAAAATATATACCACAACGAAAACGACAGAGCTGGAATA
TATAAAATATATATCAATAACAACAACGACAGAGCTGGAATATATGAAATCT
Found at i:405757 original size:75 final size:75
Alignment explanation
Indices: 405631--405781 Score: 257
Period size: 75 Copynumber: 2.0 Consensus size: 75
405621 TCTATATCAC
* * * * *
405631 AACGACAATGACAGAGCTGGAATGTGTAAAATATATATCATAACGACAACGACAGAGCTGGAATA
1 AACGACAACGACAGAGCAGGAATGTATAAAATATATACCATAACGAAAACGACAGAGCTGGAATA
405696 TATGAAATCT
66 TATGAAATCT
405706 AACGACAACGACAGAGCAGGAATGTATAAAATATATACCATAACGAAAACGACAGAGCTGGAATA
1 AACGACAACGACAGAGCAGGAATGTATAAAATATATACCATAACGAAAACGACAGAGCTGGAATA
405771 TATGAAATCT
66 TATGAAATCT
405781 A
1 A
405782 TATCAATAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (75 bp):
AACGACAACGACAGAGCAGGAATGTATAAAATATATACCATAACGAAAACGACAGAGCTGGAATA
TATGAAATCT
Found at i:418678 original size:56 final size:56
Alignment explanation
Indices: 418599--418782 Score: 217
Period size: 56 Copynumber: 3.3 Consensus size: 56
418589 TAGGGGTCTC
** * *
418599 AAATCGAATATATCTATCAGTTGTTGCCATTAGTAAGTATAAAAATAGAGGC-CCCG
1 AAATCGAATATATCTATCAGTTGTTGCCATTAACAAGCATAAAAATAG-GACTCCCG
* *
418655 AAATCGAATATATCAATCCGTTGTTGCCATTAACAAGCATAAAAATAGGACTCCCG
1 AAATCGAATATATCTATCAGTTGTTGCCATTAACAAGCATAAAAATAGGACTCCCG
* * * * **
418711 AAATCGAGTATATCTATCAGTTGTTGCTATTAAAAATCATAAAAATAGGGGTCCCG
1 AAATCGAATATATCTATCAGTTGTTGCCATTAACAAGCATAAAAATAGGACTCCCG
* **
418767 GAATTAAATATATCTA
1 AAATCGAATATATCTA
418783 GAAAATAGAG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
55 2 0.02
56 107 0.98
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (56 bp):
AAATCGAATATATCTATCAGTTGTTGCCATTAACAAGCATAAAAATAGGACTCCCG
Found at i:420321 original size:3 final size:3
Alignment explanation
Indices: 420313--420339 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
420303 CCCATTGCTT
420313 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
420340 TTGCAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:427627 original size:51 final size:51
Alignment explanation
Indices: 427566--427725 Score: 176
Period size: 51 Copynumber: 3.1 Consensus size: 51
427556 GGCTGGCTTG
* * * *
427566 GCTCCGAACTTCTCTCAGCTATTCCAATTTCTTTTCTTGACTCAGCAACCT
1 GCTCCAAACTTCTCCCAGATATTCCAACTTCTTTTCTTGACTCAGCAACCT
* * **
427617 GTTCCAAACTTCTCCCAGATATTCCAACTTCTTTTCTTGATTCAGCGGCCT
1 GCTCCAAACTTCTCCCAGATATTCCAACTTCTTTTCTTGACTCAGCAACCT
* * * * * * * *
427668 GCTCCAAACATCTCCCAGTTGTTCCAGCTTCCTTCCTTGATTCAGCAGCCT
1 GCTCCAAACTTCTCCCAGATATTCCAACTTCTTTTCTTGACTCAGCAACCT
427719 GCTCCAA
1 GCTCCAA
427726 CCTCAGATCA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 93 1.00
ACGTcount: A:0.19, C:0.34, G:0.12, T:0.34
Consensus pattern (51 bp):
GCTCCAAACTTCTCCCAGATATTCCAACTTCTTTTCTTGACTCAGCAACCT
Found at i:433107 original size:31 final size:31
Alignment explanation
Indices: 433037--433110 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
433027 TATATATAAA
*
433037 TTTTTAGTACTTAAACTATCAGTTTTTATCC
1 TTTTTAGTCCTTAAACTATCAGTTTTTATCC
*
433068 TTTTTAGTCCTTAAACTATCAGTTTTTGTCC
1 TTTTTAGTCCTTAAACTATCAGTTTTTATCC
433099 TTTTTAGTCCTT
1 TTTTTAGTCCTT
433111 TTGTGGGTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (31 bp):
TTTTTAGTCCTTAAACTATCAGTTTTTATCC
Found at i:433456 original size:18 final size:18
Alignment explanation
Indices: 433435--433471 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
433425 GTAATTGGAG
433435 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
433453 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
433471 T
1 T
433472 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:433479 original size:24 final size:24
Alignment explanation
Indices: 433427--433473 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
433417 TTTCATATGT
* *
433427 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
433451 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
433474 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:433773 original size:39 final size:39
Alignment explanation
Indices: 433730--433816 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
433720 TCCGATGCTC
*
433730 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
433769 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
433808 ATCAAAATC
1 ATCAAAATC
433817 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:434201 original size:22 final size:23
Alignment explanation
Indices: 434153--434201 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
434143 AAATTACATA
434153 ACTTTTAAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAAGTATCGATC
* * *
434176 -CTTTTTATAAAAAGTATGGA-C
1 ACTTTTAAAAAAAAGTATCGATC
434197 ACTTT
1 ACTTT
434202 CAATATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (23 bp):
ACTTTTAAAAAAAAGTATCGATC
Found at i:434269 original size:21 final size:23
Alignment explanation
Indices: 434219--434289 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
434209 ATAGGTAAAC
*
434219 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
434242 ATATAATGTAATAGGTATCG-TT
1 ATATAATGTAATAGGTAGCGCTT
* *
434264 -TATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
434286 ATAT
1 ATAT
434290 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.40
22 4 0.10
23 21 0.50
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:434293 original size:21 final size:21
Alignment explanation
Indices: 434225--434294 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
434215 AAACATATGA
*
434225 TGTAATAGGTAGCGCTTATAT
1 TGTAATAGGTAGTGCTTATAT
* *
434246 AATGTAATAGGTA-TCGTTTATAA
1 --TGTAATAGGTAGT-GCTTATAT
*
434269 TGTAATAGGTAGTGGTTATAT
1 TGTAATAGGTAGTGCTTATAT
434290 TGTAA
1 TGTAA
434295 AGTGTCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 22 0.55
22 1 0.03
23 17 0.43
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (21 bp):
TGTAATAGGTAGTGCTTATAT
Found at i:435113 original size:332 final size:327
Alignment explanation
Indices: 434340--434999 Score: 987
Period size: 332 Copynumber: 2.0 Consensus size: 327
434330 TTTCACTGTG
** * * * *
434340 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
1 GAAAACATTAA-TTAAGGTTATCTTTAAAATGAG-TGTAAGATATTAATCTAGTAATTATAAGCG
* * *
434405 TCTAATGATTTATTTTTTTCGTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATT
64 TCTAATGATTTA--TTGTACGTTA-G-TATATATTATTATTAAATTAAAAATTCTAAATAATATT
* *
434470 TTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAG
125 TTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTATAG
* *
434535 GTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATC
190 GTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATC
* *
434600 GATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATTTGCAATG
255 GATCATTTTTATAAAAAGTATGAACACTTTCAATATAATATAATGTAATAGGTAAATTTGCAATG
*
434665 CTCACTGT
320 CTCACAGT
** * * * *
434673 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
1 -GAAAACATTAA-TTAAGGTTATCTTTAAAATGAG-TGTAAGATATTAATCTAGTAATTATAAGC
*
434738 GTCTAATGATTTATTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATATTT
63 GTCTAATGATTTATTGTACGTTA--GTATATATTATTATTAAATTAAAAATTCTAAATAATATTT
*
434803 TATAAAATATCAAAACAATCAACTAATTTTTTGTGCAAATAAAATTATTAAATTAATATTATAGG
126 TATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTATAGG
*
434868 TGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATATCTTTAAAAAAAATATC
191 TGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATC
434933 GATCATTTTTATAAAAAGTATGAACACTTTCAATATAATATAATGTAATAGGTAAATTTGCAATG
255 GATCATTTTTATAAAAAGTATGAACACTTTCAATATAATATAATGTAATAGGTAAATTTGCAATG
434998 CT
320 CT
435000 ATCAGTATAA
Statistics
Matches: 313, Mismatches: 11, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
332 130 0.42
333 106 0.34
334 77 0.25
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (327 bp):
GAAAACATTAATTAAGGTTATCTTTAAAATGAGTGTAAGATATTAATCTAGTAATTATAAGCGTC
TAATGATTTATTGTACGTTAGTATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAA
AATATCAAAACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTATAGGTGGAA
AACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCAT
TTTTATAAAAAGTATGAACACTTTCAATATAATATAATGTAATAGGTAAATTTGCAATGCTCACA
GT
Found at i:437664 original size:40 final size:40
Alignment explanation
Indices: 437602--437682 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
437592 GAGTCTCAGA
* *
437602 ATATGCAAAGTTCAACAGATGTAAAATCGGGTGTAATAGC
1 ATATGCAAAGTTCAAAAAATGTAAAATCGGGTGTAATAGC
* *
437642 ATATGCACAGTTCAAAAAATGTAAAATCGGGTGTATTAGC
1 ATATGCAAAGTTCAAAAAATGTAAAATCGGGTGTAATAGC
437682 A
1 A
437683 ACAGCTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (40 bp):
ATATGCAAAGTTCAAAAAATGTAAAATCGGGTGTAATAGC
Found at i:437692 original size:35 final size:37
Alignment explanation
Indices: 437620--437692 Score: 87
Period size: 40 Copynumber: 1.9 Consensus size: 37
437610 AGTTCAACAG
*
437620 ATGTAAAATCGGGTGTAATAGCATATGCACAGTTCAAAAA
1 ATGTAAAATCGGGTGTAATAGCA-A--CACAGCTCAAAAA
*
437660 ATGTAAAATCGGGTGTATTAGC-A-ACAGCTCAAA
1 ATGTAAAATCGGGTGTAATAGCAACACAGCTCAAA
437693 GAATCACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 9 0.29
38 1 0.03
40 21 0.68
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.25
Consensus pattern (37 bp):
ATGTAAAATCGGGTGTAATAGCAACACAGCTCAAAAA
Found at i:443501 original size:28 final size:28
Alignment explanation
Indices: 443461--443516 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
443451 TGGCAGACTT
443461 GGCCTGAATGAGTCCACCAATGAAGTGG
1 GGCCTGAATGAGTCCACCAATGAAGTGG
443489 GGCCTGAATGAGTCCACCAATGAAGTGG
1 GGCCTGAATGAGTCCACCAATGAAGTGG
443517 CAAGGCATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.32, T:0.18
Consensus pattern (28 bp):
GGCCTGAATGAGTCCACCAATGAAGTGG
Found at i:446862 original size:8 final size:8
Alignment explanation
Indices: 446854--446973 Score: 222
Period size: 8 Copynumber: 15.0 Consensus size: 8
446844 TGCTATTATG
*
446854 CATGCATG
1 CATGCATA
446862 CATGCATA
1 CATGCATA
446870 CATGCATA
1 CATGCATA
446878 CATGCATA
1 CATGCATA
446886 CATGCATA
1 CATGCATA
446894 CATGCATA
1 CATGCATA
446902 CATGCATA
1 CATGCATA
446910 CATGCATA
1 CATGCATA
446918 CATGCATA
1 CATGCATA
446926 CATGCATA
1 CATGCATA
446934 CATGCATA
1 CATGCATA
446942 CATGCATA
1 CATGCATA
446950 CATGCATA
1 CATGCATA
446958 CATGCATA
1 CATGCATA
*
446966 CATACATA
1 CATGCATA
446974 ATATTAGAAT
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 110 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (8 bp):
CATGCATA
Found at i:456798 original size:31 final size:31
Alignment explanation
Indices: 456760--456823 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
456750 GGTCAGAAGT
456760 AAACTACCATGATGAAGGGATAGCTATATGG
1 AAACTACCATGATGAAGGGATAGCTATATGG
456791 AAACTACCATGATGAAGGGATAGCTATATGG
1 AAACTACCATGATGAAGGGATAGCTATATGG
456822 AA
1 AA
456824 CGCTTCGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (31 bp):
AAACTACCATGATGAAGGGATAGCTATATGG
Found at i:459391 original size:13 final size:13
Alignment explanation
Indices: 459365--459398 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
459355 TAATAAAGTG
459365 ATTAAAAATCTAA
1 ATTAAAAATCTAA
459378 ATCTAAAAAT-TAA
1 AT-TAAAAATCTAA
459391 ATTAAAAA
1 ATTAAAAA
459399 GTTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 7 0.35
14 7 0.35
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (13 bp):
ATTAAAAATCTAA
Found at i:462850 original size:54 final size:54
Alignment explanation
Indices: 462788--462983 Score: 221
Period size: 54 Copynumber: 3.4 Consensus size: 54
462778 AACTGTGGCA
462788 CTGAATTTGGATGATGATAATGAAAATGGTAATGGTGAGTTGAAGGAAGTGAAG
1 CTGAATTTGGATGATGATAATGAAAATGGTAATGGTGAGTTGAAGGAAGTGAAG
*
462842 CTGAATTTGAATGATGATAATGATGATGGTGATGGTAATGGTAATGGTGAGTTGAAGGAAGTGAA
1 CTGAATTTGGATGATGAT-A--ATGA-----A----AATGGTAATGGTGAGTTGAAGGAAGTGAA
462907 G
54 G
* * * * * *
462908 CTGAAGTTAGATGATGGTAATGAGAATGGTAATGGTGGGTTGAAAGAAGTGAAG
1 CTGAATTTGGATGATGATAATGAAAATGGTAATGGTGAGTTGAAGGAAGTGAAG
462962 CTGAATTTGGATGATGATAATG
1 CTGAATTTGGATGATGATAATG
462984 GTACCGGTAC
Statistics
Matches: 119, Mismatches: 11, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
54 64 0.54
55 1 0.01
57 4 0.03
62 1 0.01
63 4 0.03
65 1 0.01
66 44 0.37
ACGTcount: A:0.35, C:0.02, G:0.34, T:0.29
Consensus pattern (54 bp):
CTGAATTTGGATGATGATAATGAAAATGGTAATGGTGAGTTGAAGGAAGTGAAG
Found at i:462880 original size:18 final size:18
Alignment explanation
Indices: 462853--462891 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
462843 TGAATTTGAA
*
462853 TGATGATAATGATGATGG
1 TGATGATAATGATAATGG
* *
462871 TGATGGTAATGGTAATGG
1 TGATGATAATGATAATGG
462889 TGA
1 TGA
462892 GTTGAAGGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (18 bp):
TGATGATAATGATAATGG
Found at i:462901 original size:66 final size:66
Alignment explanation
Indices: 462812--462943 Score: 205
Period size: 66 Copynumber: 2.0 Consensus size: 66
462802 TGATAATGAA
* *
462812 AATGGTAATGGTGAGTTGAAGGAAGTGAAGCTGAA-TTTGAATGATGATAATGATG-ATGGTGAT
1 AATGGTAATGGTGAGTTGAAGGAAGTGAAGCTGAAGTTAG-ATGATGATAATGA-GAATGGTAAT
462875 GGT
64 GGT
*
462878 AATGGTAATGGTGAGTTGAAGGAAGTGAAGCTGAAGTTAGATGATGGTAATGAGAATGGTAATGG
1 AATGGTAATGGTGAGTTGAAGGAAGTGAAGCTGAAGTTAGATGATGATAATGAGAATGGTAATGG
462943 T
66 T
462944 GGGTTGAAAG
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
65 1 0.02
66 57 0.93
67 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.36, T:0.29
Consensus pattern (66 bp):
AATGGTAATGGTGAGTTGAAGGAAGTGAAGCTGAAGTTAGATGATGATAATGAGAATGGTAATGG
T
Found at i:476724 original size:43 final size:43
Alignment explanation
Indices: 476663--476755 Score: 143
Period size: 43 Copynumber: 2.1 Consensus size: 43
476653 AAAAGAGAGA
*
476663 CGTTTTGTTTAGTCCTTTTCGTGTTTATTGAAC-GGAGCCTTAC
1 CGTTTTGTTTAGTCCTTTTAGTGTTTATTG-ACTGGAGCCTTAC
*
476706 CGTTTTGTTTAGTCCTTTTAGTGTTTATTGACTGGAGCCTTGC
1 CGTTTTGTTTAGTCCTTTTAGTGTTTATTGACTGGAGCCTTAC
476749 CGATTTT
1 CG-TTTT
476756 CACCGGTGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 2 0.04
43 40 0.87
44 4 0.09
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (43 bp):
CGTTTTGTTTAGTCCTTTTAGTGTTTATTGACTGGAGCCTTAC
Found at i:487243 original size:121 final size:121
Alignment explanation
Indices: 487029--487275 Score: 494
Period size: 121 Copynumber: 2.0 Consensus size: 121
487019 AGAAGTGTTG
487029 TTATTCTTGGAGGTTCTGGATTCGAACACTAAAAATATTAAAAGTGTGAGCGTTTAATGTCAAAT
1 TTATTCTTGGAGGTTCTGGATTCGAACACTAAAAATATTAAAAGTGTGAGCGTTTAATGTCAAAT
487094 AGTCGAGAATTATCTATACACAAATATTGTCATACACTTATTTCAGATTAATCGAT
66 AGTCGAGAATTATCTATACACAAATATTGTCATACACTTATTTCAGATTAATCGAT
487150 TTATTCTTGGAGGTTCTGGATTCGAACACTAAAAATATTAAAAGTGTGAGCGTTTAATGTCAAAT
1 TTATTCTTGGAGGTTCTGGATTCGAACACTAAAAATATTAAAAGTGTGAGCGTTTAATGTCAAAT
487215 AGTCGAGAATTATCTATACACAAATATTGTCATACACTTATTTCAGATTAATCGAT
66 AGTCGAGAATTATCTATACACAAATATTGTCATACACTTATTTCAGATTAATCGAT
487271 TTATT
1 TTATT
487276 TTAGGAATTT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 126 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (121 bp):
TTATTCTTGGAGGTTCTGGATTCGAACACTAAAAATATTAAAAGTGTGAGCGTTTAATGTCAAAT
AGTCGAGAATTATCTATACACAAATATTGTCATACACTTATTTCAGATTAATCGAT
Found at i:491633 original size:25 final size:26
Alignment explanation
Indices: 491590--491655 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
491580 TAGTGAAGAC
* *
491590 AAATGAAAGAAATTTTTAATAAAAATAG
1 AAAT-AAAGAAATATTAAATAAAAAT-G
*
491618 ATATAAA-AAATATTAAATAAAAATG
1 AAATAAAGAAATATTAAATAAAAATG
491643 AAATAAAGAAATA
1 AAATAAAGAAATA
491656 GTAAGAGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 7 0.21
26 20 0.61
27 3 0.09
28 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (26 bp):
AAATAAAGAAATATTAAATAAAAATG
Found at i:492619 original size:17 final size:17
Alignment explanation
Indices: 492597--492643 Score: 85
Period size: 17 Copynumber: 2.7 Consensus size: 17
492587 CGGCCGGACT
492597 CTGGCCGTTTGGCATGA
1 CTGGCCGTTTGGCATGA
492614 CTGGCCGTTTGGCATGA
1 CTGGCCGTTTGGCATGA
492631 CTGGCCGTGTTGG
1 CTGGCCGT-TTGG
492644 TTTCCCATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.09, C:0.23, G:0.38, T:0.30
Consensus pattern (17 bp):
CTGGCCGTTTGGCATGA
Found at i:492816 original size:21 final size:20
Alignment explanation
Indices: 492762--492822 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 20
492752 ACAAACACCC
*
492762 AAAAACGATAAAA-AATAAT
1 AAAAACAATAAAATAATAAT
*
492781 AAAAACAAAACAAATAATAAAT
1 AAAAACAATA-AAATAAT-AAT
* *
492803 AAAAAGAATAAAATACTAAT
1 AAAAACAATAAAATAATAAT
492823 GATAAAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 8 0.24
20 6 0.18
21 9 0.26
22 11 0.32
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (20 bp):
AAAAACAATAAAATAATAAT
Found at i:492963 original size:101 final size:105
Alignment explanation
Indices: 492838--493036 Score: 232
Period size: 101 Copynumber: 1.9 Consensus size: 105
492828 AAATGTTTTA
* *
492838 AACTTTATATAATATATATCTCAAAGAT-ATTTTCAAAATC-ATATATTATATAA-ATTT-AAAA
1 AACTATATATAATATAAATCTCAAA-ATGATTTT-AAAA-CAATATATTATATAAGATTTCAAAA
*
492899 ACGTTT-TAAAACTATAT-TATAT-GTTTCAAAAAAAAATTTC
63 ACGTTTAAAAAACTATATATATATGGTTTCAAAAAAAAATTTC
* * * * **
492939 AACTATATATTATATAAATTTCAAAATGATTTTAAAACAATTTATTATATAAGTTTTCAAAATGG
1 AACTATATATAATATAAATCTCAAAATGATTTTAAAACAATATATTATATAAGATTTCAAAAACG
493004 TTTAAAAAACTATATAATATATGGTTTCAAAAA
66 TTTAAAAAACTATAT-ATATATGGTTTCAAAAA
493037 TATCTTCAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
99 1 0.01
100 18 0.22
101 29 0.36
102 8 0.10
103 10 0.12
105 5 0.06
106 10 0.12
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.40
Consensus pattern (105 bp):
AACTATATATAATATAAATCTCAAAATGATTTTAAAACAATATATTATATAAGATTTCAAAAACG
TTTAAAAAACTATATATATATGGTTTCAAAAAAAAATTTC
Found at i:493019 original size:72 final size:71
Alignment explanation
Indices: 492939--493241 Score: 209
Period size: 72 Copynumber: 4.2 Consensus size: 71
492929 AAAAAATTTC
* *
492939 AACTATATATTATATAAATTTC-AAAATGATTTTAAAACAATTTATTATATAAGTTTTCAAAATG
1 AACTATATATTATATAATTTTCAAAAATGATTTTAAAACAATATATTATATAAGTTTTCAAAAT-
*
493003 GTTTAAAA
65 GTTT-TAA
* ** * * *
493011 AACTATATAATATAT-GGTTTCAAAAAT-ATCTTCAAAAC--TATATAATATATGTTTTCAAAAA
1 AACTATATATTATATAATTTTCAAAAATGAT-TTTAAAACAATATATTATATAAGTTTTC---AA
493072 AATGTTTTTTAA
62 AATG--TTTTAA
* **
493084 AACTATA-A-TATATATGTTTTC-AAAATG-TTCAAAAACTATATATATATATATAAGTTTTCAA
1 AACTATATATTATATA-ATTTTCAAAAATGATTTTAAAAC-A-ATATAT-TATATAAGTTTTCAA
493145 AATGATTTTAA
62 AATG-TTTTAA
* * * *
493156 AATTATATATTATAT-ATTTTCTAAAATGTCTTTTTTAAAACTATATATTATAT-AGTTTT-AAA
1 AACTATATATTATATAATTTTCAAAAATG---ATTTTAAAACAATATATTATATAAGTTTTCAAA
* *
493218 A-ATATTAA
63 ATGTTTTAA
493226 AACTATATATTATATA
1 AACTATATATTATATA
493242 CGTAGTTTCA
Statistics
Matches: 186, Mismatches: 22, Indels: 47
0.73 0.09 0.18
Matches are distributed among these distances:
70 34 0.18
71 17 0.09
72 55 0.30
73 38 0.20
74 13 0.07
75 11 0.06
76 11 0.06
77 7 0.04
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.44
Consensus pattern (71 bp):
AACTATATATTATATAATTTTCAAAAATGATTTTAAAACAATATATTATATAAGTTTTCAAAATG
TTTTAA
Found at i:493133 original size:38 final size:39
Alignment explanation
Indices: 493087--493172 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 39
493077 TTTTTAAAAC
*
493087 TATA-ATATATATGTTTTCAAAATG-TTCAAAAACTATA
1 TATATATATATAAGTTTTCAAAATGATTCAAAAACTATA
** *
493124 TATATATATATAAGTTTTCAAAATGATTTTAAAATTATA
1 TATATATATATAAGTTTTCAAAATGATTCAAAAACTATA
493163 TAT-TATATAT
1 TATATATATAT
493173 TTTCTAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
37 4 0.09
38 26 0.60
39 13 0.30
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (39 bp):
TATATATATATAAGTTTTCAAAATGATTCAAAAACTATA
Found at i:493147 original size:73 final size:68
Alignment explanation
Indices: 492984--493184 Score: 183
Period size: 73 Copynumber: 2.8 Consensus size: 68
492974 AACAATTTAT
** * *
492984 TATATAAGTTTTCAAAATGGTTTAAAAAACTATATAATATATGGTTTCAAAAATATCTTCAAAAC
1 TATATAAGTTTTCAAAAT-GTTTTTAAAACTATAT-ATATATGTTTTC-AAAA-ATGTTCAAAAC
493049 TATATAA
62 TATATAA
493056 TATAT--GTTTTCAAAAAAATGTTTTTTAAAACTATAATATATATGTTTTC-AAAATGTTCAAAA
1 TATATAAGTTTTC---AAAATG-TTTTTAAAACTAT-ATATATATGTTTTCAAAAATGTTC-AAA
493118 ACTATATATATA
60 AC--TATATA-A
* * * *
493130 TATATAAGTTTTCAAAATGATTTTAAAATTATATATTATATATTTTCTAAAATGT
1 TATATAAGTTTTCAAAATGTTTTTAAAACTATATA-TATATGTTTTCAAAAATGT
493185 CTTTTTTAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 25
0.77 0.05 0.18
Matches are distributed among these distances:
70 11 0.10
71 11 0.10
72 27 0.25
73 46 0.42
74 8 0.07
76 6 0.06
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (68 bp):
TATATAAGTTTTCAAAATGTTTTTAAAACTATATATATATGTTTTCAAAAATGTTCAAAACTATA
TAA
Found at i:493147 original size:110 final size:105
Alignment explanation
Indices: 492984--493257 Score: 279
Period size: 110 Copynumber: 2.5 Consensus size: 105
492974 AACAATTTAT
* *
492984 TATATAAGTTTTCAAAATGGTTTAAAAA--ACTATATA-ATATATGGTTTCAAAAATATCTTCAA
1 TATATATGTTTTCAAAAT-G-TTAAAAACTA-TATATATATATATAGTTTC-AAAATAT-TTCAA
* *
493046 AACTATATAATATATGTTTTCAAAAAAATGTTTTTTAAAACTATAA
61 AACTATATAATATATATTTTCAAAAAAATCTTTTTTAAAACTAT-A
*
493092 TATATATGTTTTCAAAATGTTCAAAAACTATATATATATATATAAGTTTTCAAAATGATTTTAAA
1 TATATATGTTTTCAAAATGTT-AAAAACTATATATATATATAT-AG-TTTCAAAAT-ATTTCAAA
* * * **
493157 ATTATATATTATATATTTTCTAAAATGTCTTTTTTAAAACTATA
62 ACTATATAATATATATTTTCAAAAAAATCTTTTTTAAAACTATA
* *
493201 TATTATATAGTTTTAAAAATATT-AAAACTATATAT-TATATACGTAGTTTCAAAATAT
1 TA-TATAT-GTTTTCAAAATGTTAAAAACTATATATATATATA--TAGTTTCAAAATAT
493258 GTATATATAT
Statistics
Matches: 143, Mismatches: 12, Indels: 23
0.80 0.07 0.13
Matches are distributed among these distances:
106 2 0.01
107 8 0.06
108 38 0.27
109 24 0.17
110 53 0.37
111 18 0.13
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (105 bp):
TATATATGTTTTCAAAATGTTAAAAACTATATATATATATATAGTTTCAAAATATTTCAAAACTA
TATAATATATATTTTCAAAAAAATCTTTTTTAAAACTATA
Found at i:493220 original size:38 final size:35
Alignment explanation
Indices: 492939--493255 Score: 229
Period size: 35 Copynumber: 8.8 Consensus size: 35
492929 AAAAAATTTC
** *
492939 AACTATATATTATATAAATTTCAAAATGATTTTAA
1 AACTATATATTATATAGTTTTCAAAATGTTTTTAA
* * **
492974 AACAATTTATTATATAAGTTTTCAAAATGGTTTAAAA
1 AACTATATATTATAT-AGTTTTCAAAAT-GTTTTTAA
* * * * *
493011 AACTATATAATATAT-GGTTTCAAAAATATCTTCAA
1 AACTATATATTATATAGTTTTC-AAAATGTTTTTAA
*
493046 AACTATATAATATAT-GTTTTCAAAAAAATGTTTTTTAA
1 AACTATATATTATATAGTTTTC---AAAATG-TTTTTAA
**
493084 AACTATA-A-TATATATGTTTTCAAAATG-TTCAAA
1 AACTATATATTATATA-GTTTTCAAAATGTTTTTAA
*
493117 AACTATATATATATATATAAGTTTTCAAAATGATTTTAA
1 AAC--TATATAT-TATAT-AGTTTTCAAAATGTTTTTAA
*
493156 AATTATATATTATATA-TTTTCTAAAATGTCTTTTTTAA
1 AACTATATATTATATAGTTTTC-AAAATG---TTTTTAA
* *
493194 AACTATATATTATATAGTTTT-AAAA--ATATTAA
1 AACTATATATTATATAGTTTTCAAAATGTTTTTAA
493226 AACTATATATTATATACGTAGTTTCAAAAT
1 AACTATATATTATATA-GT--TTTCAAAAT
493256 ATGTATATAT
Statistics
Matches: 229, Mismatches: 28, Indels: 48
0.75 0.09 0.16
Matches are distributed among these distances:
32 21 0.09
33 9 0.04
34 5 0.02
35 62 0.27
36 30 0.13
37 35 0.15
38 56 0.24
39 11 0.05
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (35 bp):
AACTATATATTATATAGTTTTCAAAATGTTTTTAA
Found at i:494302 original size:105 final size:105
Alignment explanation
Indices: 494106--495385 Score: 2062
Period size: 105 Copynumber: 12.2 Consensus size: 105
494096 TATTGTTCCA
* ** * ** * *
494106 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTCGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TGTTTATTGACAAC
494171 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
494212 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
*
494277 AGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
494317 AGTCCAATATCCTTCGTTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 AGTCCAATATCCTTCG-TTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTTATTGACAA
*
494382 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* ** *
494424 AGTCCAATATCATTCGCCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTTATTGACAAC
*
494488 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
494529 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGCAATATTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
494594 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
494634 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
* *
494699 AGGGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
494739 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
* *
494804 AGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
494844 AGTCCAATATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTTATTGACAAC
*
494909 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
494950 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
495015 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
495055 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AATGTTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
495119 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
495159 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
* * *
495224 AGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTATCTTG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * * *
495264 AGTCCAATATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTTATTGACAAC
*
495328 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
495369 AGTCCAATATCCTTCGT
1 AGTCCAATATCCTTCGT
495386 GCTCATGGTT
Statistics
Matches: 1095, Mismatches: 73, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
104 106 0.10
105 709 0.65
106 212 0.19
107 68 0.06
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:495155 original size:420 final size:420
Alignment explanation
Indices: 494106--495385 Score: 2301
Period size: 420 Copynumber: 3.0 Consensus size: 420
494096 TATTGTTCCA
* ** * ** * * *
494106 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTCGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TATTTATTGACAAC
494171 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
494236 TTGAAATTGGCTCTAAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
130 TTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
494301 AACATGCGTTGTCTGGAGTCCAATATCCTTCGTTTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
195 AACTTGCGTTGTCTGGAGTCCAATATCCTTCG-TTGTGAAGTTGAAATTGGCTCTGAAATTGAGA
* *
494366 AGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAA
259 A-ATGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAA
* * *
494431 TATCATTCGCCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTGACAACCAGCGGTC
323 TATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTGACAACCAGCGGTC
494496 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
388 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
*
494529 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGCAATATTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAACC
494594 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
*
494659 TGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGGGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
*
494724 ACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA
196 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA
494789 TGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATAT
261 TGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATAT
494854 CATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCC
326 CATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-TTGACAACCAGCGGTCCC
494919 TTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
390 TTCGTCGTGAAGTTGAACTTGCGTTGTCAGG
494950 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAACC
495015 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
495080 TGAAATTGGCTCTGAAATTGGG-AATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
495144 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA
196 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA
*
495209 TGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTATCTTGAGTCCAATAT
261 TGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATAT
*
495274 CATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTGACAAGCAGCGGTCCCT
326 CATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTGACAACCAGCGGTCCCT
* *
495339 TCGTCGTGAAGTTGAACTTGCGTTGTCTGA
391 TCGTCGTGAAGTTGAACTTGCGTTGTCAGG
495369 AGTCCAATATCCTTCGT
1 AGTCCAATATCCTTCGT
495386 GCTCATGGTT
Statistics
Matches: 829, Mismatches: 27, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
419 63 0.08
420 322 0.39
421 233 0.28
422 168 0.20
423 43 0.05
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (420 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
TGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA
TGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATAT
CATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTTTGACAACCAGCGGTCCCT
TCGTCGTGAAGTTGAACTTGCGTTGTCAGG
Found at i:498557 original size:46 final size:47
Alignment explanation
Indices: 498494--498583 Score: 157
Period size: 46 Copynumber: 1.9 Consensus size: 47
498484 TTAAAATGGG
498494 TCCGGAGCTCGGTTTAGAGCTTAGAGATGACAATTTTGAAAAAAAATC
1 TCCGGAGCTCGGTTTAGAGCTTAGAGATGAC-ATTTTGAAAAAAAATC
498542 TCCGGAG-TC-GTTTAGAGCTTAGAGATGACATTTTGAAAAAAA
1 TCCGGAGCTCGGTTTAGAGCTTAGAGATGACATTTTGAAAAAAA
498584 TCTGAAATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
45 13 0.31
46 20 0.48
47 2 0.05
48 7 0.17
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (47 bp):
TCCGGAGCTCGGTTTAGAGCTTAGAGATGACATTTTGAAAAAAAATC
Found at i:500122 original size:17 final size:17
Alignment explanation
Indices: 500100--500145 Score: 76
Period size: 17 Copynumber: 2.7 Consensus size: 17
500090 CCGGACTCTT
500100 CTGGCCGTTTGGCATGA
1 CTGGCCGTTTGGCATGA
500117 CTGGCCGTTTGGCATGA
1 CTGGCCGTTTGGCATGA
500134 -TGGCCGTGTTGG
1 CTGGCCGT-TTGG
500146 TTTCCCATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.09, C:0.22, G:0.39, T:0.30
Consensus pattern (17 bp):
CTGGCCGTTTGGCATGA
Found at i:500527 original size:37 final size:38
Alignment explanation
Indices: 500441--500760 Score: 191
Period size: 37 Copynumber: 8.4 Consensus size: 38
500431 AAAAAAATTC
* ** *
500441 AACTATATATTATATA-AATTTC-AAAATGATTT-TAA
1 AACTATATAATATATATGTTTTCAAAAATGATTTCAAA
* * * * * *
500476 AACAATTTATTATATAAGTTTTC-AAAATGGTTTAAAA
1 AACTATATAATATATATGTTTTCAAAAATGATTTCAAA
*
500513 AACTATATAATATATATGGTTTCAAAAAT-ATCTTCAAA
1 AACTATATAATATATATGTTTTCAAAAATGAT-TTCAAA
* **
500551 AACTATATAATATATATGTTCTCAAAAAAATG-TTTTTAA
1 AACTATATAATATATATGTTTTC--AAAAATGATTTCAAA
*
500590 AAC--TATAATATATATGTTTTCAAAAATGTTTTCAAA
1 AACTATATAATATATATGTTTTCAAAAATGATTTCAAA
*
500626 AACTATATATATATATATATATAAGTTTTC-AAAATGATTTTAAA
1 AAC----TATATA-ATATATAT--GTTTTCAAAAATGATTTCAAA
* * * * * **
500670 AATTATATATTATATATATTTTCTAAAATGTCTTTTTTTAA
1 AACTATATAATATATATGTTTTCAAAAATG---ATTTCAAA
*
500711 AACTATATATTATATA-GTTTT-AAAAACT-A-TT-AAA
1 AACTATATAATATATATGTTTTCAAAAA-TGATTTCAAA
*
500745 AACTATATATTATATA
1 AACTATATAATATATA
500761 CGTAGTTTCA
Statistics
Matches: 231, Mismatches: 32, Indels: 45
0.75 0.10 0.15
Matches are distributed among these distances:
34 18 0.08
35 23 0.10
36 21 0.09
37 43 0.19
38 37 0.16
39 18 0.08
40 18 0.08
41 21 0.09
42 4 0.02
43 8 0.03
44 14 0.06
45 6 0.03
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (38 bp):
AACTATATAATATATATGTTTTCAAAAATGATTTCAAA
Found at i:500577 original size:75 final size:74
Alignment explanation
Indices: 500486--500643 Score: 194
Period size: 75 Copynumber: 2.1 Consensus size: 74
500476 AACAATTTAT
* *
500486 TATATAAGTTTTC-AAAATGGTTTAAAAAACTATATAATATATATGGTTTCAAAAATATCTTCAA
1 TATATATGTTCTCAAAAAT-GTTTAAAAAAC--TATAATATATATGGTTTCAAAAATATCTTCAA
500550 AAACTATATA-A
63 AAACTATATATA
** * * *
500561 TATATATGTTCTCAAAAAAATGTTTTTAAAACTATAATATATATGTTTTCAAAAATGTTTTCAAA
1 TATATATGTTCTC--AAAAATGTTTAAAAAACTATAATATATATGGTTTCAAAAATATCTTCAAA
500626 AACTATATATA
64 AACTATATATA
500637 TATATAT
1 TATATAT
500644 ATATAAGTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
75 50 0.69
76 8 0.11
77 9 0.12
78 5 0.07
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.41
Consensus pattern (74 bp):
TATATATGTTCTCAAAAATGTTTAAAAAACTATAATATATATGGTTTCAAAAATATCTTCAAAAA
CTATATATA
Found at i:500620 original size:12 final size:12
Alignment explanation
Indices: 500603--500627 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
500593 TATAATATAT
500603 ATGTTTTCAAAA
1 ATGTTTTCAAAA
500615 ATGTTTTCAAAA
1 ATGTTTTCAAAA
500627 A
1 A
500628 CTATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:500654 original size:45 final size:43
Alignment explanation
Indices: 500593--500688 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 43
500583 TTTTTAAAAC
*
500593 TATA-ATATATATGTTTTCAAAAATG-TTTTCAAAAACTATATAT
1 TATATATATATAAGTTTTC-AAAATGATTTT-AAAAACTATATAT
*
500636 ATATATATATATAAGTTTTCAAAATGATTTTAAAAATTATATAT
1 -TATATATATATAAGTTTTCAAAATGATTTTAAAAACTATATAT
500680 TATATATAT
1 TATATATAT
500689 TTTCTAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
43 9 0.19
44 22 0.46
45 17 0.35
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (43 bp):
TATATATATATAAGTTTTCAAAATGATTTTAAAAACTATATAT
Found at i:500759 original size:157 final size:158
Alignment explanation
Indices: 500486--500778 Score: 337
Period size: 157 Copynumber: 1.8 Consensus size: 158
500476 AACAATTTAT
* *
500486 TATATAAGTTTTCAAAATGGTTTAAAAAACTATATAATATATATGGTTTCAAAAATATCTTCAAA
1 TATATAAGTTTTCAAAATGATTTAAAAAACTATATAATATATATAGTTTCAAAAATATCTTCAAA
* * * *
500551 AACTATATAATATATATGTTCTCAAAAAAATGTTTTTAAAACTATAATATATATGT-TTTCAAAA
66 AACTATATAATATATATGTTCT-AAAAAAATCTATTAAAAACTATAATATATACGTATTTCAAAA
500615 -ATGTTTTCAAAAACTATATATATATATA
130 TATGTTTTCAAAAACTATATATATATATA
* * * * * * *
500643 TATATAAGTTTTCAAAATGATTTTAAAAATTATATATTATATATATTTTCTAAAATGTCTTTTTT
1 TATATAAGTTTTCAAAATGATTTAAAAAACTATATAATATATATAGTTTCAAAAATATC---TTC
* * *
500708 TAAAACTATATATTATATA-GTT-T-TAAAAA-CTATTAAAAACTATATATTATATACGTAGTTT
63 AAAAACTATATAATATATATGTTCTAAAAAAATCTATTAAAAACTATA-A-TATATACGTA-TTT
500769 CAAAATATGT
125 CAAAATATGT
500779 ATATATATAA
Statistics
Matches: 112, Mismatches: 16, Indels: 13
0.79 0.11 0.09
Matches are distributed among these distances:
155 12 0.11
156 6 0.05
157 59 0.53
158 1 0.01
159 11 0.10
160 23 0.21
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (158 bp):
TATATAAGTTTTCAAAATGATTTAAAAAACTATATAATATATATAGTTTCAAAAATATCTTCAAA
AACTATATAATATATATGTTCTAAAAAAATCTATTAAAAACTATAATATATACGTATTTCAAAAT
ATGTTTTCAAAAACTATATATATATATA
Found at i:501841 original size:26 final size:26
Alignment explanation
Indices: 501811--501864 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
501801 TCCTCACCTT
501811 CACCGATATTTAAAATAAAAGTAAAA
1 CACCGATATTTAAAATAAAAGTAAAA
501837 CACCGATATTTAAAATAAAAGTAAAA
1 CACCGATATTTAAAATAAAAGTAAAA
501863 CA
1 CA
501865 AAAATCGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.22
Consensus pattern (26 bp):
CACCGATATTTAAAATAAAAGTAAAA
Found at i:505699 original size:26 final size:25
Alignment explanation
Indices: 505645--505699 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
505635 AGGACTAAAT
* *
505645 TAAATAAAAATTAAAGTTTATATTT
1 TAAATAAAAATTAAAGTTTAAATTC
*
505670 TAAACTAATAATTAAA-TTATAAATTC
1 TAAA-TAAAAATTAAAGTT-TAAATTC
505696 TAAA
1 TAAA
505700 AGGTGAGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAATAAAAATTAAAGTTTAAATTC
Found at i:509935 original size:530 final size:529
Alignment explanation
Indices: 508453--509945 Score: 2616
Period size: 526 Copynumber: 2.8 Consensus size: 529
508443 AGACGAATCC
* *
508453 AAACTGCTTATATCCGTGCGATTTGCGATATGTACTGTAGATCTACTACATACGTCAGGACTACA
1 AAACTGCTTATATCCGGGCGATTCGCGATATGTACTGTAGATCTACTACATACGTCAGGACTACA
* *
508518 GTTGGCGACACCGAGGCATTCCTGGTGGAAATCGGACTCCACCAGGGGTCGGCTCTTAGCCCTTA
66 GTTGGCGACACCGAGGCATTCCCGGTGGAAATCGGACTCCACCAGGGGTCAGCTCTTAGCCCTTA
*
508583 CATCTTCGCCTTGATTATGGACGACATCTATTGTGCGACACCAGACAATGTTTCATGGTGTATGC
131 CATCTTCGCCTTGATTATGGACGAC-TCTATTGTGCGACACCAGACAATGTTCCATGGTGTATGC
* *
508648 TTTTCGCTGATGACATTGACCTAGTTAATGAAACAAAAAATGAGTTGAATAGTAGACTGGCTACC
195 TTTTCGCTGACGACATTGACCTAGTTGATGAAACAAAAAATGAGTTGAATAGTAGACTGGCTACC
* *
508713 TGGAAGACTACTTTGGAAGAAAAAGGTCTAAGGATCAATATTGAAAAGACAGAGTATTTATGTTC
260 TGGAAGACTGCTTTGAAAGAAAAAGGTCTAAGGATCAATATTGAAAAGACAGAGTATTTATGTTC
508778 AAACTTCAGTGGGAACCAAAACGTTGAAGATGTAGAAGTTTGCATCGAAGGACACGTTCTCCCCT
325 AAACTTCAGTGGGAACCAAAACGTTGAAGATGTAGAAGTTTGCATCGAAGGACACGTTCTCCCCT
*
508843 CAAAGAATTGTTTCAAGTACCTAGGGTCTATGATACATAAATATGGGGGTATAGGTGATGACGTT
390 CAAAGAATTGTTTCAAGTACCTAGGGTCTATGATACATAAAGATGGGGGTATAGGTGATGACGTT
508908 ACACACCGTATAAAGGCGGGATGGCTAAAGTGGAGGGCTGCTACTGGAGTTTTGTATGACAAGAA
455 ACACACCGTATAAAGGCGGGATGGCTAAAGTGGAGGGCTGCTACTGGAGTTTTGTATGACAAGAA
508973 GGTGCCTCTA
520 GGTGCCTCTA
*
508983 AAACTGCTTATATCCGGGCGATTCGCGATATGTACTGTAGATATACTACATACGTCAGGACTACA
1 AAACTGCTTATATCCGGGCGATTCGCGATATGTACTGTAGATCTACTACATACGTCAGGACTACA
509048 GTTGGCGACACCGAGGCATTCCCGGTGGAAATCGGACTCCACCAGGGGTCAGCTCTTAGCCCTTA
66 GTTGGCGACACCGAGGCATTCCCGGTGGAAATCGGACTCCACCAGGGGTCAGCTCTTAGCCCTTA
509113 CATCTTCGCCTTGATTATGGACGA--C-ATTGTGCGACACCAGACAATGTTCCATGGTGTATGCT
131 CATCTTCGCCTTGATTATGGACGACTCTATTGTGCGACACCAGACAATGTTCCATGGTGTATGCT
* *
509175 TTTCGCTGACGACATTGACCTAGTTGTTGAAACAAAAAATGAGTTGAATAGTAGACTGACTACCT
196 TTTCGCTGACGACATTGACCTAGTTGATGAAACAAAAAATGAGTTGAATAGTAGACTGGCTACCT
*
509240 GAAAGACTGCTTT-AGAAGAAAAAGGTCTAAGGATCAATATTGAAAAGACAGAGTATTTATGTTC
261 GGAAGACTGCTTTGA-AAGAAAAAGGTCTAAGGATCAATATTGAAAAGACAGAGTATTTATGTTC
* *
509304 AAACTTCAGTGGGAACAAAAACGTTGAAGATTTAGAAGTTTGCATCGAAGGACACGTTCTCCCCT
325 AAACTTCAGTGGGAACCAAAACGTTGAAGATGTAGAAGTTTGCATCGAAGGACACGTTCTCCCCT
*
509369 CAAAGAATTGTTTCAAGTACCTAGGGTCTATGATACATAAAGATGGGGGTGTAGGTGATGACGTT
390 CAAAGAATTGTTTCAAGTACCTAGGGTCTATGATACATAAAGATGGGGGTATAGGTGATGACGTT
*
509434 ACACACCGTATAAAGGCGGGATGGCTAAAGTGGAGGGCTGCTACTGGAGTTTTGTGTGACAAGAA
455 ACACACCGTATAAAGGCGGGATGGCTAAAGTGGAGGGCTGCTACTGGAGTTTTGTATGACAAGAA
509499 GGTGCCTCTA
520 GGTGCCTCTA
* * * *
509509 AAACTGCTTATATCCGGGTGATTCGTGATATGTATTGTATATCTACTACATACGTCAGGACTACA
1 AAACTGCTTATATCCGGGCGATTCGCGATATGTACTGTAGATCTACTACATACGTCAGGACTACA
* * * *
509574 GTTGGTGACACCGAGGCATTCCCGGGGGAAATCGGACTCCATCAGGGGTCATCTCTTAGCCCTTA
66 GTTGGCGACACCGAGGCATTCCCGGTGGAAATCGGACTCCACCAGGGGTCAGCTCTTAGCCCTTA
* *
509639 CGTCTTCGCCTTGATTATGGATGACTTCTATTGTGCGACACCAGACAATGTTCCATGGTGTATGC
131 CATCTTCGCCTTGATTATGGACGAC-TCTATTGTGCGACACCAGACAATGTTCCATGGTGTATGC
* * *
509704 TTTTCGCTGACGACATTAACCTAGTTGCTGAAACAAAAAATAAGTTGAATAGTAGACTGGCTACC
195 TTTTCGCTGACGACATTGACCTAGTTGATGAAACAAAAAATGAGTTGAATAGTAGACTGGCTACC
* *
509769 TGGAAGACTGTTTTGAAAGAAAAAGGTCTAAGGATCAATATTGAAAAGACAAAGTATTTATGTTC
260 TGGAAGACTGCTTTGAAAGAAAAAGGTCTAAGGATCAATATTGAAAAGACAGAGTATTTATGTTC
*
509834 AAACTTCAGTGGGAACCAAAACGTTGAAGATGTAGAAGTTTGCATCGAAGGACACGTTCTCCCTT
325 AAACTTCAGTGGGAACCAAAACGTTGAAGATGTAGAAGTTTGCATCGAAGGACACGTTCTCCCCT
*
509899 CAGAGAATTGTTTCAAGTACCTAGGGTCTATGATACATAAAGATGGG
390 CAAAGAATTGTTTCAAGTACCTAGGGTCTATGATACATAAAGATGGG
509946 TGTAACATCC
Statistics
Matches: 917, Mismatches: 40, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
526 500 0.55
527 1 0.00
529 1 0.00
530 414 0.45
531 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (529 bp):
AAACTGCTTATATCCGGGCGATTCGCGATATGTACTGTAGATCTACTACATACGTCAGGACTACA
GTTGGCGACACCGAGGCATTCCCGGTGGAAATCGGACTCCACCAGGGGTCAGCTCTTAGCCCTTA
CATCTTCGCCTTGATTATGGACGACTCTATTGTGCGACACCAGACAATGTTCCATGGTGTATGCT
TTTCGCTGACGACATTGACCTAGTTGATGAAACAAAAAATGAGTTGAATAGTAGACTGGCTACCT
GGAAGACTGCTTTGAAAGAAAAAGGTCTAAGGATCAATATTGAAAAGACAGAGTATTTATGTTCA
AACTTCAGTGGGAACCAAAACGTTGAAGATGTAGAAGTTTGCATCGAAGGACACGTTCTCCCCTC
AAAGAATTGTTTCAAGTACCTAGGGTCTATGATACATAAAGATGGGGGTATAGGTGATGACGTTA
CACACCGTATAAAGGCGGGATGGCTAAAGTGGAGGGCTGCTACTGGAGTTTTGTATGACAAGAAG
GTGCCTCTA
Found at i:510670 original size:21 final size:21
Alignment explanation
Indices: 510644--510688 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
510634 GATTTCTGGG
* *
510644 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
510665 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
510686 CAA
1 CAA
510689 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:512526 original size:23 final size:23
Alignment explanation
Indices: 512493--512560 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
512483 ATTATTATAT
512493 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
512516 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
512539 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
512561 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:517081 original size:2 final size:2
Alignment explanation
Indices: 517074--517113 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
517064 TATCCGTTAT
517074 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T
517114 GTCATCAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:517666 original size:23 final size:23
Alignment explanation
Indices: 517633--517700 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
517623 ATTATTATAT
517633 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
517656 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
517679 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
517701 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:520330 original size:2 final size:2
Alignment explanation
Indices: 520318--520381 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
520308 ACAGTTGAGC
*
520318 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
520360 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
520382 TCTTTCACGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:525325 original size:31 final size:31
Alignment explanation
Indices: 525287--525361 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
525277 ATTGCACGTC
525287 TAGTACCTAAACTATCAGTTTTGGTTCATTT
1 TAGTACCTAAACTATCAGTTTTGGTTCATTT
* *
525318 TAGTACCTAAATTATTAGTTTTGGTTCATTT
1 TAGTACCTAAACTATCAGTTTTGGTTCATTT
*
525349 TAGTACATAAACT
1 TAGTACCTAAACT
525362 TTCAATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.45
Consensus pattern (31 bp):
TAGTACCTAAACTATCAGTTTTGGTTCATTT
Found at i:525823 original size:45 final size:45
Alignment explanation
Indices: 525712--525808 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
525702 AATGTAACTG
* * ** *
525712 AAAATGTT-ATAT-AAAATATAATATTTTGGATTGGACGTAATCT
1 AAAATGTTAATTTAAAAAAATAATATTTTAAATTGCACGTAATCT
*
525755 AAAATGTTAATTTAAAAAAATAATATTTTAAATTGCACTTAA-CT
1 AAAATGTTAATTTAAAAAAATAATATTTTAAATTGCACGTAATCT
525799 AAAAGTGTTA
1 AAAA-TGTTA
525809 TTTTTTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 8 0.18
44 9 0.20
45 28 0.62
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (45 bp):
AAAATGTTAATTTAAAAAAATAATATTTTAAATTGCACGTAATCT
Found at i:534190 original size:26 final size:27
Alignment explanation
Indices: 534141--534191 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
534131 AGGTCTGATT
*
534141 TAATATTTAAATTTTTAAAATTATATC
1 TAATATTTAAATTTTGAAAATTATATC
* *
534168 TAATATTT-AGTTTTGAAACTTATA
1 TAATATTTAAATTTTGAAAATTATA
534192 AGATTATCGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (27 bp):
TAATATTTAAATTTTGAAAATTATATC
Found at i:534245 original size:23 final size:24
Alignment explanation
Indices: 534219--534270 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
534209 ATTTAAACTA
*
534219 TTAATTTTGATATATTTT-AAAAC
1 TTAATTTTCATATATTTTCAAAAC
* * *
534242 TTAAATTTCATTTTTTTTCAAAAC
1 TTAATTTTCATATATTTTCAAAAC
534266 TTAAT
1 TTAAT
534271 ATTAAATTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (24 bp):
TTAATTTTCATATATTTTCAAAAC
Found at i:542327 original size:23 final size:23
Alignment explanation
Indices: 542301--542370 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
542291 TATGTTCACG
542301 ATAATTTCTTTGACATCTCTCTT
1 ATAATTTCTTTGACATCTCTCTT
** * **
542324 ATAA-TTC--TG-GGT-TCACGA
1 ATAATTTCTTTGACATCTCTCTT
542342 ATAATTTCTTTGACATCTCTCTT
1 ATAATTTCTTTGACATCTCTCTT
542365 ATAATT
1 ATAATT
542371 CTGGGTTGAA
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
18 7 0.22
19 4 0.12
20 2 0.06
21 2 0.06
22 4 0.12
23 13 0.41
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (23 bp):
ATAATTTCTTTGACATCTCTCTT
Found at i:542350 original size:41 final size:40
Alignment explanation
Indices: 542294--542377 Score: 159
Period size: 41 Copynumber: 2.1 Consensus size: 40
542284 ATTTGTTTAT
542294 GTTCACGATAATTTCTTTGACATCTCTCTTATAATTCTGG
1 GTTCACGATAATTTCTTTGACATCTCTCTTATAATTCTGG
542334 GTTCACGAATAATTTCTTTGACATCTCTCTTATAATTCTGG
1 GTTCACG-ATAATTTCTTTGACATCTCTCTTATAATTCTGG
542375 GTT
1 GTT
542378 GAATACAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 7 0.16
41 36 0.84
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (40 bp):
GTTCACGATAATTTCTTTGACATCTCTCTTATAATTCTGG
Found at i:544625 original size:170 final size:171
Alignment explanation
Indices: 544340--544681 Score: 668
Period size: 170 Copynumber: 2.0 Consensus size: 171
544330 GGTGGCGAGG
*
544340 CCATTCAAGATGGAACCGAGGAGGAACGAAAGGCCTCCGATGAACATCGAGAAACTCCGAACCGA
1 CCATTCAAGATGGAACCGAGGAGGAACGAAAGGCCTCCGATGAACATCGAGAAACTACGAACCGA
544405 AGATCCTCGTCAACACCGAAGCGACGAAGGACGCTATGAACGCCGCCAGGTAGAGGGAAGAGGTG
66 AGATCCTCGTCAACACCGAAGCGACGAAGGACGCTATGAACGCCGCCAGGTAGAGGGAAGAGGTG
544470 AACAACGTGAGCAGCTGGCTATCGAATTTGCAATACGCGCT
131 AACAACGTGAGCAGCTGGCTATCGAATTTGCAATACGCGCT
544511 CCATTCAAGATGGAACCGAGGAGGAACGAAAGGCCTCCGATGAACATCGAGAAACTACG-ACCGA
1 CCATTCAAGATGGAACCGAGGAGGAACGAAAGGCCTCCGATGAACATCGAGAAACTACGAACCGA
544575 AGATCCTCGTCAACACCGAAGCGACGAAGGACGCTATGAACGCCGCCAGGTAGAGGGAAGAGGTG
66 AGATCCTCGTCAACACCGAAGCGACGAAGGACGCTATGAACGCCGCCAGGTAGAGGGAAGAGGTG
544640 AACAACGTGAGCAGCTGGCTATCGAATTTGCAATACGCGCT
131 AACAACGTGAGCAGCTGGCTATCGAATTTGCAATACGCGCT
544681 C
1 C
544682 TCGTGTGCCA
Statistics
Matches: 170, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
170 112 0.66
171 58 0.34
ACGTcount: A:0.33, C:0.25, G:0.29, T:0.13
Consensus pattern (171 bp):
CCATTCAAGATGGAACCGAGGAGGAACGAAAGGCCTCCGATGAACATCGAGAAACTACGAACCGA
AGATCCTCGTCAACACCGAAGCGACGAAGGACGCTATGAACGCCGCCAGGTAGAGGGAAGAGGTG
AACAACGTGAGCAGCTGGCTATCGAATTTGCAATACGCGCT
Found at i:553735 original size:21 final size:21
Alignment explanation
Indices: 553711--553752 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
553701 ATGCTTTACC
553711 TCAATTCACTCTTGAATTGAG
1 TCAATTCACTCTTGAATTGAG
553732 TCAATTCACTCTTGAATTGAG
1 TCAATTCACTCTTGAATTGAG
553753 GGGAGGATAT
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:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (21 bp):
TCAATTCACTCTTGAATTGAG
Found at i:554859 original size:17 final size:19
Alignment explanation
Indices: 554837--554877 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
554827 GAGAGAAAGA
554837 GAAGAAAGA-AAG-TGAAG
1 GAAGAAAGAGAAGATGAAG
554854 GAAG-AAGAGAAGATGAAG
1 GAAGAAAGAGAAGATGAAG
554872 G-AGAAA
1 GAAGAAA
554878 AGGAGTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 9 0.43
18 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.37, T:0.05
Consensus pattern (19 bp):
GAAGAAAGAGAAGATGAAG
Found at i:561428 original size:34 final size:34
Alignment explanation
Indices: 561385--561481 Score: 185
Period size: 34 Copynumber: 2.9 Consensus size: 34
561375 CATCATCCGT
*
561385 CGAGTCATTCCAGGTAGCTTCAAACTCATGATGA
1 CGAGCCATTCCAGGTAGCTTCAAACTCATGATGA
561419 CGAGCCATTCCAGGTAGCTTCAAACTCATGATGA
1 CGAGCCATTCCAGGTAGCTTCAAACTCATGATGA
561453 CGAGCCATTCCAGGTAGCTTCAAACTCAT
1 CGAGCCATTCCAGGTAGCTTCAAACTCAT
561482 CATTAGCAGT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (34 bp):
CGAGCCATTCCAGGTAGCTTCAAACTCATGATGA
Found at i:568890 original size:32 final size:32
Alignment explanation
Indices: 568854--568929 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
568844 AGGCGTGAGG
* *
568854 GCCTACCCAAGGGAGTATCTTAGGGCCTAAGA
1 GCCTACCCAAGGAAGTACCTTAGGGCCTAAGA
** * *
568886 GCCTACCCAAAAAAGTACCTTGGGGCCTTAGA
1 GCCTACCCAAGGAAGTACCTTAGGGCCTAAGA
568918 GCCTACCCAAGG
1 GCCTACCCAAGG
568930 TTACCTTAGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (32 bp):
GCCTACCCAAGGAAGTACCTTAGGGCCTAAGA
Found at i:573799 original size:25 final size:25
Alignment explanation
Indices: 573768--573816 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
573758 TGATTTTTGG
*
573768 ATTAAGCTATTATATAGAGAATTAT
1 ATTAAGCTATTAGATAGAGAATTAT
573793 ATTAAGCTATTAGATAGAGAATTA
1 ATTAAGCTATTAGATAGAGAATTA
573817 ATATACTTAC
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:0.45, C:0.04, G:0.14, T:0.37
Consensus pattern (25 bp):
ATTAAGCTATTAGATAGAGAATTAT
Found at i:574640 original size:12 final size:12
Alignment explanation
Indices: 574623--574649 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
574613 AAATTCATAC
574623 ATGGTGATTAGA
1 ATGGTGATTAGA
574635 ATGGTGATTAGA
1 ATGGTGATTAGA
574647 ATG
1 ATG
574650 CAAAGGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (12 bp):
ATGGTGATTAGA
Found at i:576199 original size:12 final size:12
Alignment explanation
Indices: 576184--576211 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
576174 ATCTTTAACT
576184 CATATTTTAATA
1 CATATTTTAATA
576196 CATATTTTAATA
1 CATATTTTAATA
576208 CATA
1 CATA
576212 AGGTAAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (12 bp):
CATATTTTAATA
Found at i:576296 original size:30 final size:30
Alignment explanation
Indices: 576242--576329 Score: 124
Period size: 30 Copynumber: 3.0 Consensus size: 30
576232 TCTTTTAGTT
* *
576242 TTTTAATTTATTAAATAT-TTTTATTTTTA
1 TTTTAAATTATTAAATATATTTTATTCTTA
*
576271 TTTTAACTTATTAAATATATTTTATTCTTA
1 TTTTAAATTATTAAATATATTTTATTCTTA
**
576301 TTTTAAATTAAAAAATATATTTTATTCTT
1 TTTTAAATTATTAAATATATTTTATTCTT
576330 CACTTAAAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 17 0.32
30 36 0.68
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTAAATTATTAAATATATTTTATTCTTA
Found at i:576426 original size:14 final size:13
Alignment explanation
Indices: 576386--576423 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
576376 ATAAATATTT
576386 AAATATATTTTAA
1 AAATATATTTTAA
576399 ATTAATATA-TTTAA
1 A--AATATATTTTAA
576413 AAATATATTTT
1 AAATATATTTT
576424 TAAGTGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 6 0.27
15 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATATATTTTAA
Found at i:576540 original size:31 final size:31
Alignment explanation
Indices: 576461--576533 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 31
576451 TTTTTACATT
* * *
576461 AAAATAAAAAAATATTTAATAAGTTAAGACA
1 AAAATAAAAATATATTTAATAAGATAAAACA
*
576492 AAAGT-AAAATATATTTAATAAGATAAAACA
1 AAAATAAAAATATATTTAATAAGATAAAACA
576522 AAAATAAAAATA
1 AAAATAAAAATA
576534 CTTTTAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 26 0.72
31 10 0.28
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (31 bp):
AAAATAAAAATATATTTAATAAGATAAAACA
Found at i:578699 original size:2 final size:2
Alignment explanation
Indices: 578694--578725 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
578684 TATAATGTTA
578694 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
578726 GAGTAAATTT
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:580131 original size:18 final size:19
Alignment explanation
Indices: 580105--580140 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
580095 ATAAAAATTT
*
580105 AAATTATTT-TATATTTTA
1 AAATCATTTATATATTTTA
580123 AAATCATTTATATATTTT
1 AAATCATTTATATATTTT
580141 TTTTGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
AAATCATTTATATATTTTA
Found at i:581795 original size:28 final size:29
Alignment explanation
Indices: 581736--581796 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
581726 TAGCACAAAT
581736 GATGGAGCGAGTTTTGATTTTAAAAAAAAG
1 GATGGAGCGAGTTTTGA-TTTAAAAAAAAG
*
581766 GATGGAGTGAGTTTTGA-TTAAAAAAAAG
1 GATGGAGCGAGTTTTGATTTAAAAAAAAG
581794 GAT
1 GAT
581797 CGGAACTAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 14 0.47
30 16 0.53
ACGTcount: A:0.41, C:0.02, G:0.28, T:0.30
Consensus pattern (29 bp):
GATGGAGCGAGTTTTGATTTAAAAAAAAG
Found at i:595491 original size:6 final size:6
Alignment explanation
Indices: 595480--595509 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
595470 TTATTAACAC
595480 GCGCCA GCGCCA GCGCCA GCGCCA GCGCCA
1 GCGCCA GCGCCA GCGCCA GCGCCA GCGCCA
595510 ACGAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.50, G:0.33, T:0.00
Consensus pattern (6 bp):
GCGCCA
Found at i:603134 original size:26 final size:27
Alignment explanation
Indices: 603105--603166 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
603095 TTTTTCCTTT
603105 TAATACTCTAGAGTAATTACAAAATA-
1 TAATACTCTAGAGTAATTACAAAATAG
603131 TAATACTCTAGAGTAATTACAAAATAG
1 TAATACTCTAGAGTAATTACAAAATAG
603158 T-ATACTCTA
1 TAATACTCTA
603167 TTAAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 34 0.97
27 1 0.03
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (27 bp):
TAATACTCTAGAGTAATTACAAAATAG
Found at i:604571 original size:35 final size:35
Alignment explanation
Indices: 604503--604617 Score: 178
Period size: 35 Copynumber: 3.3 Consensus size: 35
604493 ACCCATTCCT
* * *
604503 ATTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
604537 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACC
*
604573 ATTTTCAAAGAAACATTTATCAAACTTTGAAAACC
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
604608 ATTTTCAAAG
1 ATTTTCAAAG
604618 TTGGTTGCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
34 1 0.01
35 48 0.64
36 26 0.35
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.30
Consensus pattern (35 bp):
ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
Found at i:604575 original size:21 final size:21
Alignment explanation
Indices: 604551--604616 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 21
604541 TTCAAAGAAA
*
604551 CATTTACCAAACTTTGAAAAC
1 CATTTATCAAACTTTGAAAAC
604572 CATTT-TCAAA----G-AAA-
1 CATTTATCAAACTTTGAAAAC
604586 CATTTATCAAACTTTGAAAAC
1 CATTTATCAAACTTTGAAAAC
604607 CATTT-TCAAA
1 CATTTATCAAA
604617 GTTGGTTGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 15
0.70 0.02 0.28
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 1 0.03
19 1 0.03
20 12 0.32
21 10 0.27
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.32
Consensus pattern (21 bp):
CATTTATCAAACTTTGAAAAC
Found at i:609164 original size:21 final size:21
Alignment explanation
Indices: 609139--609199 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
609129 ATCAAAGAAA
609139 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
609160 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
609174 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
609195 CATTT
1 CATTT
609200 TCAAAGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:609171 original size:35 final size:35
Alignment explanation
Indices: 609130--609205 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
609120 TCAACAAACA
609130 TCAAAGAAACATTTACCAAACTTTGAAAACCATTT
1 TCAAAGAAACATTTACCAAACTTTGAAAACCATTT
609165 TCAAAGAAACATTTACCAAACTTTGAAAACCATTT
1 TCAAAGAAACATTTACCAAACTTTGAAAACCATTT
609200 TCAAAG
1 TCAAAG
609206 TTGGTTGCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (35 bp):
TCAAAGAAACATTTACCAAACTTTGAAAACCATTT
Found at i:609783 original size:32 final size:32
Alignment explanation
Indices: 609643--609783 Score: 183
Period size: 32 Copynumber: 4.4 Consensus size: 32
609633 CAAAATATAT
* *
609643 TAAGGGCTCATTTGGTTATCAATTAAAGTGTG
1 TAAGGGCTTATTTGGTTATCAATTAAAGTGTA
* *
609675 TAAGGGCTCATTTGGATATCAATTAAAGTGTA
1 TAAGGGCTTATTTGGTTATCAATTAAAGTGTA
609707 TAAGGGCTTATTTGGTTATCAATTAAAGTGTA
1 TAAGGGCTTATTTGGTTATCAATTAAAGTGTA
* * * * * *
609739 CAAGAGCGTATTTGTTTATCAATTAAAATCTA
1 TAAGGGCTTATTTGGTTATCAATTAAAGTGTA
*
609771 TAAGGTCTTATTT
1 TAAGGGCTTATTT
609784 TGGACTAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 95 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (32 bp):
TAAGGGCTTATTTGGTTATCAATTAAAGTGTA
Found at i:609803 original size:30 final size:30
Alignment explanation
Indices: 609768--609850 Score: 125
Period size: 30 Copynumber: 2.8 Consensus size: 30
609758 CAATTAAAAT
*
609768 CTATAAGGTCTTATTTTGGACTAATAAA-G
1 CTATAAGGGCTTATTTTGGACTAATAAAGG
*
609797 CGTATAAGGGATTATTTTGGACTAATAAAGG
1 C-TATAAGGGCTTATTTTGGACTAATAAAGG
609828 CTATAAGGGCTTA-TTTGGACTAA
1 CTATAAGGGCTTATTTTGGACTAA
609851 AAAAAGTGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
29 11 0.22
30 36 0.73
31 2 0.04
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.35
Consensus pattern (30 bp):
CTATAAGGGCTTATTTTGGACTAATAAAGG
Found at i:622660 original size:16 final size:16
Alignment explanation
Indices: 622639--622670 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
622629 ACTATTCACA
*
622639 TGAATAGTGAATTTCG
1 TGAATAGTGAAATTCG
622655 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
622671 GTCGACGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (16 bp):
TGAATAGTGAAATTCG
Found at i:634534 original size:2 final size:2
Alignment explanation
Indices: 634527--634551 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
634517 TTTCTTTTTA
634527 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 A
634552 ACTTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:634651 original size:18 final size:18
Alignment explanation
Indices: 634610--634652 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
634600 AAAATGTGTC
*
634610 ACTTAACGGTCCGTCACG
1 ACTTAACGGTCCATCACG
*
634628 ATTTAACGGTCCATCACG
1 ACTTAACGGTCCATCACG
*
634646 GCTTAAC
1 ACTTAAC
634653 CCGTTTTGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (18 bp):
ACTTAACGGTCCATCACG
Found at i:644848 original size:2 final size:2
Alignment explanation
Indices: 644841--644865 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
644831 AAAAATAAGA
644841 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 A
644866 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:648307 original size:21 final size:21
Alignment explanation
Indices: 648278--648339 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
648268 AGTGTTGATG
* *
648278 TGATAGTTCACGGTGCTGACA
1 TGATTGTTCACAGTGCTGACA
648299 TGATTGTTCACAGTGCTGACA
1 TGATTGTTCACAGTGCTGACA
* *
648320 TGATTGTCCACAGTACTGAC
1 TGATTGTTCACAGTGCTGAC
648340 GTGACGGTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (21 bp):
TGATTGTTCACAGTGCTGACA
Found at i:650407 original size:114 final size:115
Alignment explanation
Indices: 650251--650464 Score: 308
Period size: 114 Copynumber: 1.9 Consensus size: 115
650241 GTAATATTTG
* * * *
650251 AAAAAAGTGATTAAATTTAATTTAAGATTGAATGAATAAATAAGAGAAATGGAAAAAGAGGGTCA
1 AAAAAAGTGATTAAATTTAATTCAAAATTGAATGAATAAATAACAGAAATGGAAAAAGAGGATCA
*
650316 AAAACTAAACGTTTTATGAAATTATAA-AATTAGGAATCTAATTAAAATAT
66 AAAACTAAA-ATTTTATGAAATTATAATAATTAGGAATCTAATTAAAATAT
* * * *
650366 AAAAAA-TGGTTAATTTTAATTCAAAATT-AGATGAATTAATAACATAAATGGAAAAAGAGGATC
1 AAAAAAGTGATTAAATTTAATTCAAAATTGA-ATGAATAAATAACAGAAATGGAAAAAGAGGATC
650429 AAAAACTAAAATTTTATGAAATTATAATAATTAGGA
65 AAAAACTAAAATTTTATGAAATTATAATAATTAGGA
650465 GCCCTAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
113 17 0.19
114 65 0.74
115 6 0.07
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (115 bp):
AAAAAAGTGATTAAATTTAATTCAAAATTGAATGAATAAATAACAGAAATGGAAAAAGAGGATCA
AAAACTAAAATTTTATGAAATTATAATAATTAGGAATCTAATTAAAATAT
Found at i:654233 original size:18 final size:18
Alignment explanation
Indices: 654210--654248 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
654200 ATTTTTATTG
654210 AATATATATATA-ATTTAA
1 AATATATA-ATACATTTAA
*
654228 AATATATAATACTTTTAA
1 AATATATAATACATTTAA
654246 AAT
1 AAT
654249 GTTAAATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATATAATACATTTAA
Found at i:655354 original size:22 final size:23
Alignment explanation
Indices: 655326--655376 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
655316 AAGAAATATA
655326 TCTTTGTGACATG-TTATCTCTG
1 TCTTTGTGACATGTTTATCTCTG
* *
655348 TCTTTGTGATATGTTTTTTCTCTG
1 TCTTTGTGACATG-TTTATCTCTG
655372 TCTTT
1 TCTTT
655377 TGGTAGCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 12 0.48
24 13 0.52
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.59
Consensus pattern (23 bp):
TCTTTGTGACATGTTTATCTCTG
Found at i:656397 original size:19 final size:20
Alignment explanation
Indices: 656353--656403 Score: 86
Period size: 19 Copynumber: 2.5 Consensus size: 20
656343 ATAAAAACAA
656353 TCAAAGGCCAAACTCACCCTT
1 TCAAAGGCC-AACTCACCCTT
656374 TCAAAGGCCAACTCACCC-T
1 TCAAAGGCCAACTCACCCTT
656393 TCAAAGGCCAA
1 TCAAAGGCCAA
656404 AGCCAAAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.40
20 9 0.30
21 9 0.30
ACGTcount: A:0.35, C:0.37, G:0.12, T:0.16
Consensus pattern (20 bp):
TCAAAGGCCAACTCACCCTT
Found at i:665010 original size:36 final size:36
Alignment explanation
Indices: 664943--665012 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
664933 CACATAAATT
* * *
664943 TTAAAAATTCAAATTACATAATTAAAATAAATTTTA
1 TTAAAAATTCAAAATAAATAAATAAAATAAATTTTA
*
664979 TTAAAAATT-AAAATAAATAAATAAATGTAAATTT
1 TTAAAAATTCAAAATAAATAAATAAA-ATAAATTT
665013 CAAATGTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 13 0.45
36 16 0.55
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (36 bp):
TTAAAAATTCAAAATAAATAAATAAAATAAATTTTA
Found at i:665591 original size:30 final size:31
Alignment explanation
Indices: 665531--665595 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
665521 GTGACCACAA
665531 CTTAATTAAATAAAAACAAAATTAACCATAT
1 CTTAATTAAATAAAAACAAAATTAACCATAT
* * *
665562 CTTAATTAAATAGAAAC-AAATTGATCATAT
1 CTTAATTAAATAAAAACAAAATTAACCATAT
665592 CTTA
1 CTTA
665596 TATTTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.32
Consensus pattern (31 bp):
CTTAATTAAATAAAAACAAAATTAACCATAT
Found at i:671623 original size:36 final size:38
Alignment explanation
Indices: 671566--671645 Score: 119
Period size: 36 Copynumber: 2.2 Consensus size: 38
671556 ATTCATATAT
671566 TCGGGTCGGATTTTTTTAAGTGTGATATTCGAGTCGAG
1 TCGGGTCGGATTTTTTTAAGTGTGATATTCGAGTCGAG
* * *
671604 TCGGGTC-G-TTTTTTTAAGTGTGGTATTCGGGTCGGG
1 TCGGGTCGGATTTTTTTAAGTGTGATATTCGAGTCGAG
671640 TCGGGT
1 TCGGGT
671646 TTATGGTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
36 31 0.79
37 1 0.03
38 7 0.18
ACGTcount: A:0.12, C:0.11, G:0.36, T:0.40
Consensus pattern (38 bp):
TCGGGTCGGATTTTTTTAAGTGTGATATTCGAGTCGAG
Found at i:671835 original size:26 final size:28
Alignment explanation
Indices: 671806--671863 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
671796 CTTTATTTTG
671806 TTCGAGTCG-G-GTTTTTAAGTGTGATA
1 TTCGAGTCGAGTGTTTTTAAGTGTGATA
* *
671832 TTCGGGTCGAGTTTTTTTAAGTGTGATA
1 TTCGAGTCGAGTGTTTTTAAGTGTGATA
671860 TTCG
1 TTCG
671864 GGTCAGGTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.29
27 1 0.04
28 19 0.68
ACGTcount: A:0.17, C:0.09, G:0.29, T:0.45
Consensus pattern (28 bp):
TTCGAGTCGAGTGTTTTTAAGTGTGATA
Found at i:672514 original size:18 final size:16
Alignment explanation
Indices: 672462--672522 Score: 77
Period size: 16 Copynumber: 3.7 Consensus size: 16
672452 TATGAAATTG
* *
672462 GATTCCAATTCTTACG
1 GATTCTAATTCTTACA
*
672478 GATTCCAATTCTTACA
1 GATTCTAATTCTTACA
672494 GATTCTAATTCATTCACA
1 GATTCTAATTC-TT-ACA
672512 GATTCTAATTC
1 GATTCTAATTC
672523 CCTCATAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
16 25 0.61
17 2 0.05
18 14 0.34
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (16 bp):
GATTCTAATTCTTACA
Found at i:674187 original size:51 final size:51
Alignment explanation
Indices: 674111--674211 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
674101 AGTCATTAAT
674111 GTTTGAACATGTGACCTTTAAGAATAA-CAATGATTCTTTTAACCACTGAGG
1 GTTTGAACATGTGACCTTTAAGAATAATC-ATGATTCTTTTAACCACTGAGG
*
674162 GTTTGAAC-TCGTGACCTTTAAGAATAATCATGGTTCTTTTAACCACTGAG
1 GTTTGAACAT-GTGACCTTTAAGAATAATCATGATTCTTTTAACCACTGAG
674212 ATAAGTTGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
50 1 0.02
51 45 0.96
52 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (51 bp):
GTTTGAACATGTGACCTTTAAGAATAATCATGATTCTTTTAACCACTGAGG
Found at i:675235 original size:18 final size:18
Alignment explanation
Indices: 675192--675238 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
675182 CTAATGTCAG
*
675192 ATTAATTAATTAAAATTT
1 ATTATTTAATTAAAATTT
*
675210 ATTTTTTAATTAAAATTT
1 ATTATTTAATTAAAATTT
675228 -TATATTTAATT
1 AT-TATTTAATT
675239 TGACTCGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTATTTAATTAAAATTT
Found at i:680591 original size:28 final size:30
Alignment explanation
Indices: 680559--680637 Score: 110
Period size: 28 Copynumber: 2.7 Consensus size: 30
680549 TTTTTTTAAT
*
680559 TTTAAATATATT-TAAAAATATTTATGTTA
1 TTTAAATATATTATAAAAATATTTATATTA
*
680588 -TTAAATAT-TTATAAAAATATTTTTATTA
1 TTTAAATATATTATAAAAATATTTATATTA
*
680616 TTTAAAAATATTATAAAAATAT
1 TTTAAATATATTATAAAAATAT
680638 AATTAATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
27 2 0.05
28 23 0.52
29 7 0.16
30 12 0.27
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (30 bp):
TTTAAATATATTATAAAAATATTTATATTA
Found at i:680648 original size:30 final size:31
Alignment explanation
Indices: 680590--680649 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
680580 TTATGTTATT
** *
680590 AAATATTTATAAAAATATTTTTATTATTTAA
1 AAATATTTATAAAAATATAATTAATATTTAA
680621 AAATA-TTATAAAAATATAATTAATATTTA
1 AAATATTTATAAAAATATAATTAATATTTA
680650 TTTTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
AAATATTTATAAAAATATAATTAATATTTAA
Found at i:688272 original size:2 final size:2
Alignment explanation
Indices: 688267--688293 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
688257 GTTACGGGTG
688267 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
688294 GAAGTCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:689769 original size:17 final size:17
Alignment explanation
Indices: 689734--689772 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
689724 CATTCACACT
689734 GAAAAGGGAAAAGAGAG
1 GAAAAGGGAAAAGAGAG
*
689751 GAAAGAGGGAAATGA-AG
1 GAAA-AGGGAAAAGAGAG
689768 GAAAA
1 GAAAA
689773 TAGGCTGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 10 0.50
18 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (17 bp):
GAAAAGGGAAAAGAGAG
Found at i:691989 original size:14 final size:15
Alignment explanation
Indices: 691970--692002 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
691960 AAAAAGCCTA
691970 AAACC-TATAACCCT
1 AAACCATATAACCCT
691984 AAACCTATATAACCCT
1 AAACC-ATATAACCCT
692000 AAA
1 AAA
692003 TACCTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
16 12 0.71
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.21
Consensus pattern (15 bp):
AAACCATATAACCCT
Found at i:692643 original size:32 final size:32
Alignment explanation
Indices: 692597--692663 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
692587 ATCCCTCTTG
* *
692597 CTTATGGCTTAGTTGTGAATTTCATCCCTCAA
1 CTTATAGCTAAGTTGTGAATTTCATCCCTCAA
*
692629 CTTATAGCTAAGTTGTGAATTTCATCCCTCGA
1 CTTATAGCTAAGTTGTGAATTTCATCCCTCAA
692661 CTT
1 CTT
692664 CCCAAACACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (32 bp):
CTTATAGCTAAGTTGTGAATTTCATCCCTCAA
Found at i:698833 original size:18 final size:19
Alignment explanation
Indices: 698806--698843 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
698796 TAAATTATCG
*
698806 ATTTTGTTTT-GTTTTAGT
1 ATTTTGTTTTCATTTTAGT
*
698824 ATTTTTTTTTCATTTTAGT
1 ATTTTGTTTTCATTTTAGT
698843 A
1 A
698844 CCACACCGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.16, C:0.03, G:0.11, T:0.71
Consensus pattern (19 bp):
ATTTTGTTTTCATTTTAGT
Found at i:703577 original size:13 final size:14
Alignment explanation
Indices: 703559--703588 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
703549 TTTTAAATGC
703559 AAATATAAT-TTTT
1 AAATATAATCTTTT
703572 AAATATAATCTTTT
1 AAATATAATCTTTT
703586 AAA
1 AAA
703589 CTTAATGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATATAATCTTTT
Found at i:704620 original size:18 final size:18
Alignment explanation
Indices: 704594--704631 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
704584 TTATTAATTT
704594 GATTATGACTAGTACTTA
1 GATTATGACTAGTACTTA
*
704612 GATTTTGACTAGTACTTA
1 GATTATGACTAGTACTTA
704630 GA
1 GA
704632 GGATCGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (18 bp):
GATTATGACTAGTACTTA
Found at i:704642 original size:19 final size:18
Alignment explanation
Indices: 704600--704644 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
704590 ATTTGATTAT
** *
704600 GACTAGTACTTAGATTTT
1 GACTAGTACTTAGAGATC
704618 GACTAGTACTTAGAGGATC
1 GACTAGTACTTAGA-GATC
704637 GACTAGTA
1 GACTAGTA
704645 GCGAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33
Consensus pattern (18 bp):
GACTAGTACTTAGAGATC
Found at i:707899 original size:75 final size:75
Alignment explanation
Indices: 707749--707956 Score: 247
Period size: 75 Copynumber: 2.8 Consensus size: 75
707739 AAAAGCCAAA
* * * * * **
707749 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCTCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
707814 TTTGGCTCCGAG
64 TTTGGCTCCGAG
* *
707826 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACATTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
* *
707891 TTGTTCCGAG
66 TGGCTCCGAG
* * ** *
707901 AATTCCAGTATGCTCGGAGGGAATCGATTCCCCCCCAGG-GGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCT
707957 GTTCAACAGT
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
74 16 0.14
75 73 0.64
77 25 0.22
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.23
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:713762 original size:23 final size:21
Alignment explanation
Indices: 713708--713789 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
713698 TTTTGGTGCA
713708 GAGGGAATCGA-TCCCCCCCT
1 GAGGGAATCGATTCCCCCCCT
* **
713728 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCCCCT
*
713749 GAAGAGGAATCGATTCCCCCCACA
1 G-AG-GGAATCGATTCCCCCC-CT
*
713773 G-GGGAATCGATACCCCC
1 GAGGGAATCGATTCCCCC
713790 ATGGGGTTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
20 10 0.20
21 22 0.44
22 3 0.06
23 14 0.28
24 1 0.02
ACGTcount: A:0.24, C:0.35, G:0.24, T:0.16
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCCCT
Found at i:716542 original size:75 final size:75
Alignment explanation
Indices: 716385--716592 Score: 229
Period size: 75 Copynumber: 2.8 Consensus size: 75
716375 AAAAGCCAAA
* * * * * * **
716385 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGTGGAACCG-ATTCCCCCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT--CCCCCATAGGAGGAACCGAATCCCCCCTAAACAG
716449 TTTGGCTCCGAG
64 TTTGGCTCCGAG
* * *
716461 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGAAACCGAATCCCCCCTAAACATTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGAATCCCCCCTAAACAGTT
* *
716526 TTGTTCCGAG
66 TGGCTCCGAG
* * * * *
716536 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCTAGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGAATCCCCCCT
716593 GTTCAACGGT
Statistics
Matches: 111, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
74 16 0.14
75 70 0.63
76 25 0.23
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGAATCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:718181 original size:263 final size:249
Alignment explanation
Indices: 717701--718251 Score: 807
Period size: 257 Copynumber: 2.2 Consensus size: 249
717691 CTTATTCATA
717701 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGT
* * *
717766 CGGGTGAAATTTTATTTTGGTCGGGTTGGGTCGGTTGTTTTAAGTGTGATATTCGGGTCGGGTCG
66 CGGGTGAAACTTTATTTTGGTCGGGTCGAGTCGGTTGTTTTAAGTGTGATATTCGGGTCGGGTCG
*
717831 AGTTCGGGTTTAGAGTGAAAAAATCCCGCCCGAAAATATATATAATTTTACCTTATATATTTAGG
131 AGTTCGGGTTTAGAGTGAAAAAATCCCGCCCGAAAAAATATATAATTTTACCTTATATATTTAGG
* * * * *
717896 AATAATTACAATAATACCCCTATGTATATAATTTTTTTCAATTAAGTCATTGTTTT
196 AATAATTACAATAATACCCCTATATATAT-A-TATTTCCAATTAAGTCACTATTTT
*
717952 TATTGAATAAAAATATTTTTTTTATTATTTCGGGTCAGGTCGGATTTCTAATTCTTATATTCGGG
1 TATTGAATAAAAATA-TTTTTTTATTATTTCGGGTC--G--GG-TTTCTAATTCATATATTCGGG
* * *
718017 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGAGTCAGTTTTTTTTAAGTGTTATATTCGGGT
60 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGAGTC-GGTTGTTTTAAGTGTGATATTCGGGT
* * *
718082 CGGGTTGGGTTCGGGTTTAGGGTG-AAAAATACCCGACCCGACCTAAAAAATATATAATTTTACC
124 CGGGTCGAGTTCGGGTTTAGAGTGAAAAAAT-CCCG-CCCG----AAAAAATATATAATTTTACC
718146 TTATATATTTAGGAATAATTACAATAATACCCCTATATATATATATTTCCAATTAAGTCACTATT
183 TTATATATTTAGGAATAATTACAATAATACCCCTATATATATATATTTCCAATTAAGTCACTATT
718211 TT
248 TT
*
718213 TATTGAATACAAATATTTTTTTATTATTTCGGGTCGGGT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGT
718252 GAAACTTTAT
Statistics
Matches: 270, Mismatches: 17, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
251 15 0.06
252 20 0.07
254 1 0.00
255 1 0.00
256 4 0.01
257 61 0.23
258 49 0.18
259 4 0.01
260 20 0.07
261 34 0.13
262 1 0.00
263 60 0.22
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (249 bp):
TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGT
CGGGTGAAACTTTATTTTGGTCGGGTCGAGTCGGTTGTTTTAAGTGTGATATTCGGGTCGGGTCG
AGTTCGGGTTTAGAGTGAAAAAATCCCGCCCGAAAAAATATATAATTTTACCTTATATATTTAGG
AATAATTACAATAATACCCCTATATATATATATTTCCAATTAAGTCACTATTTT
Found at i:721452 original size:55 final size:55
Alignment explanation
Indices: 721368--721472 Score: 201
Period size: 55 Copynumber: 1.9 Consensus size: 55
721358 GCCCTTCTAA
721368 GGCTGTTAGAAGGGTCTCAGTGTTTCATAAGTGTTTGTTAGATATACTTTACTAC
1 GGCTGTTAGAAGGGTCTCAGTGTTTCATAAGTGTTTGTTAGATATACTTTACTAC
*
721423 GGCTGTTATAAGGGTCTCAGTGTTTCATAAGTGTTTGTTAGATATACTTT
1 GGCTGTTAGAAGGGTCTCAGTGTTTCATAAGTGTTTGTTAGATATACTTT
721473 GTAATGATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.23, C:0.11, G:0.24, T:0.42
Consensus pattern (55 bp):
GGCTGTTAGAAGGGTCTCAGTGTTTCATAAGTGTTTGTTAGATATACTTTACTAC
Found at i:724923 original size:176 final size:176
Alignment explanation
Indices: 724626--724976 Score: 531
Period size: 176 Copynumber: 2.0 Consensus size: 176
724616 TTTTTGGGAT
*
724626 CTAATCAGCGTGTCAATGTTTCTTTACTTCCCCAACGTGTTCAGAGCAGAACAGAAACAGAGGAA
1 CTAATCAGCGTGTCAATGTTTCTTTACTTCCCCAACGTGCTCAGAGCAGAACAGAAACAGAGGAA
* *
724691 GCATGCAATGATATCCTTTAAAAGGCAAAACAATTAGACATTAACACACAGATTAGTTCCGAATG
66 GCATGCAATGATATCCTTTAAAAGGCAAAAAAATTAGACATTAACACACAGATTAGTTCCAAATG
***
724756 ATGCAATTAAATTTGGAATAAAATGCATGCACTCTTTCAACTTCAA
131 ATGCAATTAAACCAGGAATAAAATGCATGCACTCTTTCAACTTCAA
** * * * * * * *
724802 CTAATCAGTTTGTTAATGTTTCTTTATTTCCCCAATGTGCTCATAGGAGAACATAAGCAGAGGAA
1 CTAATCAGCGTGTCAATGTTTCTTTACTTCCCCAACGTGCTCAGAGCAGAACAGAAACAGAGGAA
*
724867 GCATGCAATGATATCCTTTAAAAGGCAAAAAAATTAGACATTAACACACTGATTAGTTCCAAATG
66 GCATGCAATGATATCCTTTAAAAGGCAAAAAAATTAGACATTAACACACAGATTAGTTCCAAATG
* * *
724932 ATGCAATTAAACCAGGAATTAAATGCATGCTCTTTTTCAACTTCA
131 ATGCAATTAAACCAGGAATAAAATGCATGCACTCTTTCAACTTCA
724977 TAATTACCTG
Statistics
Matches: 156, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
176 156 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (176 bp):
CTAATCAGCGTGTCAATGTTTCTTTACTTCCCCAACGTGCTCAGAGCAGAACAGAAACAGAGGAA
GCATGCAATGATATCCTTTAAAAGGCAAAAAAATTAGACATTAACACACAGATTAGTTCCAAATG
ATGCAATTAAACCAGGAATAAAATGCATGCACTCTTTCAACTTCAA
Found at i:735949 original size:19 final size:20
Alignment explanation
Indices: 735917--735960 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
735907 GGGGTACATA
*
735917 ATGCGGTCTGATGCGATCCG
1 ATGCGGTCTGATGCGAGCCG
*
735937 ATGCGGT-TGATGCGGGCCG
1 ATGCGGTCTGATGCGAGCCG
735956 ATGCG
1 ATGCG
735961 TTTAGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.14, C:0.23, G:0.41, T:0.23
Consensus pattern (20 bp):
ATGCGGTCTGATGCGAGCCG
Found at i:737463 original size:87 final size:87
Alignment explanation
Indices: 737317--737490 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
737307 CCGTGTGCTC
*
737317 CGGCCATTTTCCCAAAGGCGGCAGCTGTTCCTGGCATCTTCCGGTGACACTGTTTAGAATGCCTT
1 CGGCCATTTTCCCAAAGGCGCCAGCTGTTCCTGGCATCTTCCGGTGACACTGTTTAGAATGCCTT
737382 TCTGAAGAAAATAATATGGGTG
66 TCTGAAGAAAATAATATGGGTG
737404 CGGCCATTTTCCCAAAGGCGCCAGCTGTTCCTGGCATCTTCCGGTGACACTGTTTAGAATGCCTT
1 CGGCCATTTTCCCAAAGGCGCCAGCTGTTCCTGGCATCTTCCGGTGACACTGTTTAGAATGCCTT
737469 TCTGAAGAAAATAATATGGGTG
66 TCTGAAGAAAATAATATGGGTG
737491 GTGCTTTAAC
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.29
Consensus pattern (87 bp):
CGGCCATTTTCCCAAAGGCGCCAGCTGTTCCTGGCATCTTCCGGTGACACTGTTTAGAATGCCTT
TCTGAAGAAAATAATATGGGTG
Found at i:760923 original size:29 final size:32
Alignment explanation
Indices: 760884--760943 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 32
760874 AAAAAATATA
760884 AAACAATGAATTTTCG-TT-A-TTTATTTTTTT
1 AAACAATGAATTTT-GTTTAATTTTATTTTTTT
760914 AAAC-ATGAATTTTGTTTAATTTTATTTTTT
1 AAACAATGAATTTTGTTTAATTTTATTTTTT
760944 AAATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 1 0.04
29 11 0.41
30 5 0.19
31 10 0.37
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (32 bp):
AAACAATGAATTTTGTTTAATTTTATTTTTTT
Found at i:761914 original size:60 final size:60
Alignment explanation
Indices: 761850--761962 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 60
761840 GTCGGGTGAC
* * **
761850 CATTTTATGACGTTTAATAGTCAAAGGACCTAATAAAGCAATATTCTATAGTTAAAGGAT
1 CATTTTATAACGTTTAATAGTCAAAGAACCTAATAAAGCAATACCCTATAGTTAAAGGAT
* * * * *
761910 CATTTTGTAACTTTTAATAGTCAAATAACTTAATAAAGTAATACCCTATAGTT
1 CATTTTATAACGTTTAATAGTCAAAGAACCTAATAAAGCAATACCCTATAGTT
761963 GGGGACCATT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (60 bp):
CATTTTATAACGTTTAATAGTCAAAGAACCTAATAAAGCAATACCCTATAGTTAAAGGAT
Found at i:767860 original size:60 final size:59
Alignment explanation
Indices: 767760--767880 Score: 179
Period size: 60 Copynumber: 2.0 Consensus size: 59
767750 ACATGTTATT
* * * *
767760 ATGGAATCCGACTTATTTTTGAATTTGAATGTATATTTTTTTCAGGAGGTTCCACGCTGC
1 ATGGAATCCGACTTACTTTTGAATTTGAATGTATA-GTTTTTCAGGAGCTTCCACGCCGC
* *
767820 ATGGAATCCGACTTACTTTTGCATTTGAATGTGTAGTTTTTCAGGAGCTTCCACGCCGC
1 ATGGAATCCGACTTACTTTTGAATTTGAATGTATAGTTTTTCAGGAGCTTCCACGCCGC
767879 AT
1 AT
767881 ATGTTGATGC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
59 23 0.42
60 32 0.58
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (59 bp):
ATGGAATCCGACTTACTTTTGAATTTGAATGTATAGTTTTTCAGGAGCTTCCACGCCGC
Found at i:768941 original size:29 final size:29
Alignment explanation
Indices: 768904--768969 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
768894 ATCGATAAGA
* * *
768904 AAAACACGGAGATGCCGATAACACAACCG
1 AAAATACGGAGATACCGATAAAACAACCG
768933 AAAATACGGAGATACCGATAAAACAACCG
1 AAAATACGGAGATACCGATAAAACAACCG
*
768962 AAGATACG
1 AAAATACG
768970 TAAAAGCTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.48, C:0.23, G:0.20, T:0.09
Consensus pattern (29 bp):
AAAATACGGAGATACCGATAAAACAACCG
Found at i:769816 original size:27 final size:27
Alignment explanation
Indices: 769786--769842 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
769776 GTGTTCCTGT
* * *
769786 TTCCTCCTTGCCCACTTCTGTTAGTTC
1 TTCCCCCTTGCCCACTGCTGTTAGCTC
769813 TTCCCCCTTGCCCACTGCTGTTAGCTC
1 TTCCCCCTTGCCCACTGCTGTTAGCTC
769840 TTC
1 TTC
769843 GCCTTTATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.07, C:0.40, G:0.12, T:0.40
Consensus pattern (27 bp):
TTCCCCCTTGCCCACTGCTGTTAGCTC
Done.