Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009457.1 Hibiscus syriacus cultivar Beakdansim tig00113716_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: 528656
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:755 original size:7 final size:7
Alignment explanation
Indices: 1--753 Score: 1157
Period size: 7 Copynumber: 112.1 Consensus size: 7
1 CCAAACC
1 CCAAACC
8 CC-AACC
1 CCAAACC
14 CC-AACC
1 CCAAACC
20 CCAAACC
1 CCAAACC
27 CC-AACC
1 CCAAACC
33 CC-AACC
1 CCAAACC
39 CCAAACC
1 CCAAACC
46 CCAAACC
1 CCAAACC
53 CCAAACC
1 CCAAACC
60 CCAAACC
1 CCAAACC
67 CCAAACC
1 CCAAACC
74 CCAAACC
1 CCAAACC
81 CCAAACC
1 CCAAACC
88 CC-AACC
1 CCAAACC
94 CC-AACC
1 CCAAACC
100 CCAAACC
1 CCAAACC
107 CC-AACC
1 CCAAACC
113 CCAAACC
1 CCAAACC
120 CCAAA-C
1 CCAAACC
126 CCAAACC
1 CCAAACC
133 CCAAACC
1 CCAAACC
140 CCAAACC
1 CCAAACC
147 CCAAACC
1 CCAAACC
154 CC-AACC
1 CCAAACC
160 CC-AACC
1 CCAAACC
166 CCAAACC
1 CCAAACC
173 CCAAA-C
1 CCAAACC
179 CCAAACC
1 CCAAACC
186 CCAAACC
1 CCAAACC
193 CCAAACC
1 CCAAACC
*
200 CCAAAAC
1 CCAAACC
207 CC-AACC
1 CCAAACC
213 CC-AACC
1 CCAAACC
219 CCAAACC
1 CCAAACC
226 CCAAACC
1 CCAAACC
233 CC-AACC
1 CCAAACC
239 CCAAACCC
1 CCAAA-CC
247 CCAAAACC
1 CC-AAACC
255 CCAAACC
1 CCAAACC
262 CCAAACCC
1 CCAAA-CC
270 CCAAACC
1 CCAAACC
277 CCAAACC
1 CCAAACC
284 CCAAACC
1 CCAAACC
291 CCAAACC
1 CCAAACC
298 CCAAACC
1 CCAAACC
305 CCAAACC
1 CCAAACC
312 CC-AACC
1 CCAAACC
318 CCAAACC
1 CCAAACC
325 CCAAACC
1 CCAAACC
332 CCAAACC
1 CCAAACC
339 CCAAACC
1 CCAAACC
346 CCAAACC
1 CCAAACC
353 CCAAACC
1 CCAAACC
360 CC-AACC
1 CCAAACC
366 CCAAACC
1 CCAAACC
373 CCAAACC
1 CCAAACC
380 CCAAACC
1 CCAAACC
387 CCAAACC
1 CCAAACC
394 CCAAACC
1 CCAAACC
401 CCAAACC
1 CCAAACC
408 CCAAACC
1 CCAAACC
415 CC-AACC
1 CCAAACC
421 CCAAA-C
1 CCAAACC
427 CCAAACC
1 CCAAACC
434 CCAAACC
1 CCAAACC
441 CCAAACC
1 CCAAACC
448 CCAAACC
1 CCAAACC
455 CCAAACC
1 CCAAACC
462 CCAAACC
1 CCAAACC
469 CCAAA-C
1 CCAAACC
475 CCAAACC
1 CCAAACC
482 CC-AACC
1 CCAAACC
488 CC-AACC
1 CCAAACC
494 CCAAACC
1 CCAAACC
501 CCAAAACC
1 CC-AAACC
509 CC-AACC
1 CCAAACC
515 CCAAACC
1 CCAAACC
522 CCAAA-C
1 CCAAACC
528 CCAAACC
1 CCAAACC
535 CCAAACC
1 CCAAACC
542 CCAAAACC
1 CC-AAACC
550 CCAAACC
1 CCAAACC
557 CCAAA-C
1 CCAAACC
563 CCAAACC
1 CCAAACC
570 CCAAACC
1 CCAAACC
577 CCAAACC
1 CCAAACC
584 CC-AACC
1 CCAAACC
590 CCAAACC
1 CCAAACC
597 CCAAACC
1 CCAAACC
604 CCAAACC
1 CCAAACC
611 CCAAA-C
1 CCAAACC
617 CCAAACC
1 CCAAACC
624 CCAAA-C
1 CCAAACC
630 CCAAA-C
1 CCAAACC
636 CCAAACC
1 CCAAACC
643 CCAAA-C
1 CCAAACC
649 CCAAA-C
1 CCAAACC
655 CCAAA-C
1 CCAAACC
661 CCAAA--
1 CCAAACC
666 CCAAACC
1 CCAAACC
673 CCAAACC
1 CCAAACC
680 CCAAA-C
1 CCAAACC
*
686 CCAAA-A
1 CCAAACC
692 CCAAACC
1 CCAAACC
699 CCAAACC
1 CCAAACC
706 CCAAA-C
1 CCAAACC
712 CCAAACC
1 CCAAACC
719 CCAAACC
1 CCAAACC
*
726 CTAAA-C
1 CCAAACC
732 CCAAACC
1 CCAAACC
*
739 CTAAACC
1 CCAAACC
*
746 CTAAACC
1 CCAAACC
753 C
1 C
754 TACCCCGAGC
Statistics
Matches: 708, Mismatches: 7, Indels: 62
0.91 0.01 0.08
Matches are distributed among these distances:
5 5 0.01
6 207 0.29
7 464 0.66
8 29 0.04
9 3 0.00
ACGTcount: A:0.43, C:0.57, G:0.00, T:0.00
Consensus pattern (7 bp):
CCAAACC
Found at i:766 original size:7 final size:7
Alignment explanation
Indices: 756--957 Score: 307
Period size: 7 Copynumber: 30.3 Consensus size: 7
746 CTAAACCCTA
756 CCCCGAG
1 CCCCGAG
763 CCCC-AG
1 CCCCGAG
769 CCCCGAG
1 CCCCGAG
776 CCCCGAG
1 CCCCGAG
783 CCCCGAG
1 CCCCGAG
790 CCCCGAG
1 CCCCGAG
797 CCCCGAG
1 CCCCGAG
804 CCCCGAG
1 CCCCGAG
811 CCCCGAG
1 CCCCGAG
818 CCCCGAG
1 CCCCGAG
825 CCCCGAG
1 CCCCGAG
832 CCCCGAG
1 CCCCGAG
839 CCCCGAG
1 CCCCGAG
846 -CCCGAG
1 CCCCGAG
852 -CCCGAG
1 CCCCGAG
858 -CCCGAG
1 CCCCGAG
864 CCCCGAG
1 CCCCGAG
871 CCCCGAG
1 CCCCGAG
878 CCCC---
1 CCCCGAG
882 CCCCGAG
1 CCCCGAG
889 CCCCGAG
1 CCCCGAG
896 CCCCGAG
1 CCCCGAG
903 -CCCGAG
1 CCCCGAG
909 CCCCGAG
1 CCCCGAG
*
916 CCCCGAC
1 CCCCGAG
923 CCCCGA-
1 CCCCGAG
*
929 CCCCGAC
1 CCCCGAG
936 CCCCGA-
1 CCCCGAG
*
942 CCCCGAC
1 CCCCGAG
949 CCCCGAG
1 CCCCGAG
956 CC
1 CC
958 ACGAACCATA
Statistics
Matches: 185, Mismatches: 2, Indels: 16
0.91 0.01 0.08
Matches are distributed among these distances:
4 4 0.02
6 42 0.23
7 139 0.75
ACGTcount: A:0.14, C:0.60, G:0.26, T:0.00
Consensus pattern (7 bp):
CCCCGAG
Found at i:4038 original size:21 final size:21
Alignment explanation
Indices: 4013--4052 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4003 AGTATGTTCA
*
4013 GGGGGTATCAATTCCCCCTGG
1 GGGGGAATCAATTCCCCCTGG
*
4034 GGGGGAATCGATTCCCCCT
1 GGGGGAATCAATTCCCCCT
4053 AAAGGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.23
Consensus pattern (21 bp):
GGGGGAATCAATTCCCCCTGG
Found at i:4565 original size:19 final size:19
Alignment explanation
Indices: 4541--4590 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
4531 GTTACACATA
4541 CATCGATGCACTCCTTATG
1 CATCGATGCACTCCTTATG
4560 CATCGATGCACTCCTTATG
1 CATCGATGCACTCCTTATG
4579 CATCGATGCACT
1 CATCGATGCACT
4591 AATTGCATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (19 bp):
CATCGATGCACTCCTTATG
Found at i:7574 original size:20 final size:20
Alignment explanation
Indices: 7541--7579 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7531 AGTATGTTCA
*
7541 GGGGGTATCAATTCCCCCTG
1 GGGGGAATCAATTCCCCCTG
*
7561 GGGGGAATCGATTCCCCCT
1 GGGGGAATCAATTCCCCCT
7580 AAAGGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (20 bp):
GGGGGAATCAATTCCCCCTG
Found at i:8092 original size:19 final size:19
Alignment explanation
Indices: 8068--8117 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
8058 GTTACACATA
8068 CATCGATGCACTCCTTATG
1 CATCGATGCACTCCTTATG
8087 CATCGATGCACTCCTTATG
1 CATCGATGCACTCCTTATG
8106 CATCGATGCACT
1 CATCGATGCACT
8118 AATTGCATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (19 bp):
CATCGATGCACTCCTTATG
Found at i:16987 original size:15 final size:15
Alignment explanation
Indices: 16967--16996 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16957 GGGAGAAGTG
16967 TTATAGTAAGGGGGA
1 TTATAGTAAGGGGGA
16982 TTATAGTAAGGGGGA
1 TTATAGTAAGGGGGA
16997 GTAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.27
Consensus pattern (15 bp):
TTATAGTAAGGGGGA
Found at i:17445 original size:65 final size:63
Alignment explanation
Indices: 17326--17535 Score: 230
Period size: 65 Copynumber: 3.3 Consensus size: 63
17316 TTTTTCAGAG
* * *
17326 TGATGCACCGATGCACCAATCCATGCATTGATGCAC-CATGA-ATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCA-CAA-CCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGC
17388 ATT
61 ATT
* *
17391 TCATGCATCGATGCACATACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCAT
1 TGATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCAT
17455 T
63 T
* * * *
17456 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
17520 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
17536 TCTTACTCCA
Statistics
Matches: 126, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 47 0.37
65 70 0.56
66 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:18987 original size:200 final size:199
Alignment explanation
Indices: 18638--19123 Score: 565
Period size: 200 Copynumber: 2.4 Consensus size: 199
18628 ACCTAAATAT
* *
18638 GTGTCGATACATTT-TCTACAAGTATCGA-CCCAAAAAACATCAAAACCAATAATTATAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCAATAATTATAATGTAA
* * * * * *
18701 TAGGTAAATTAACAATGTAACC-AGTATAAATATACCGGTTAATTAGAAAACATGTCAACATAAT
64 TAGGTAAATTTACAATGTAACCGAGTAAAAATACACCGATT-ATTAGAAAACAGGTCAACATAAA
* * * * *
18765 GTATCGACACTTGTGGAATTTGTGTCGATACTTAT-TGTCCAGGATGAATGCCCAAACGAGGTGC
128 GTATCGACACTTGTGGAATTTGTGCCGATACTT-TCGGTCCAGAATGAATGCCAAAAAG-GGTGC
18829 -ACGCATAAA
191 AAC-CATAAA
* * *
18838 GTGTCGATATATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTATTA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * * *
18903 GGTAAATTTACAATGTAACCGA-TAAAAATACACCGATT-TTATGCTTAAATAGGTTAGCATAAA
66 GGTAAATTTACAATGTAACCGAGTAAAAATACACCGATTATTA-G--AAAACAGGTCAACATAAA
* *
18966 GTATTGACACTTGT-TAATTTGTGCCGATACTTTCGGTCCAGAATGAATGCCAAAAAGGGTGCAA
128 GTATCGACACTTGTGGAATTTGTGCCGATACTTTCGGTCCAGAATGAATGCCAAAAAGGGTGCAA
19030 CCATAAA
193 CCATAAA
** ** * *
19037 GTGTCGATACATTTACAAAAAGTATCGATTCCCGGAAACATCGAAACCCATAAGTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGA-TCCCAAAAACATCGAAACCAATAATTATAATGTAAT
*
19102 AGGTAAATTTTCAATGTAACCG
65 AGGTAAATTTACAATGTAACCG
19124 GTTTTATGAG
Statistics
Matches: 246, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
198 3 0.01
199 38 0.15
200 175 0.71
201 30 0.12
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (199 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGAGTAAAAATACACCGATTATTAGAAAACAGGTCAACATAAAGTA
TCGACACTTGTGGAATTTGTGCCGATACTTTCGGTCCAGAATGAATGCCAAAAAGGGTGCAACCA
TAAA
Found at i:19451 original size:87 final size:87
Alignment explanation
Indices: 19350--19511 Score: 306
Period size: 87 Copynumber: 1.9 Consensus size: 87
19340 AAATAGGTCA
19350 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
19415 CCGGTTAAATACCTATTTTATT
66 CCGGTTAAATACCTATTTTATT
* *
19437 ATATAAGCGCTACCTATTATATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
19502 CCGGTTAAAT
66 CCGGTTAAAT
19512 GATATAACAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATACCTATTTTATT
Found at i:19462 original size:21 final size:23
Alignment explanation
Indices: 19424--19484 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
19414 TCCGGTTAAA
*
19424 TACCTATTTTATTATATAAGCGC
1 TACCTATTATATTATATAAGCGC
19447 TACCTATTATATTATATAAGCGC
1 TACCTATTATATTATATAAGCGC
* *
19470 TACCTAATATGTTAT
1 TACCTATTATATTAT
19485 TGTACTTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (23 bp):
TACCTATTATATTATATAAGCGC
Found at i:19527 original size:22 final size:22
Alignment explanation
Indices: 19493--19548 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
19483 ATTGTACTTG
* *
19493 ATAATATTTCCGGTTAAATGAT
1 ATAACATTACCGGTTAAATGAT
19515 ATAACATTACCGGTTAAATGAT
1 ATAACATTACCGGTTAAATGAT
19537 ATAACATTACCG
1 ATAACATTACCG
19549 ATCAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (22 bp):
ATAACATTACCGGTTAAATGAT
Found at i:23307 original size:21 final size:21
Alignment explanation
Indices: 23281--23325 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
23271 GATTTCTGGG
* *
23281 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
23302 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
23323 CAA
1 CAA
23326 ACGAACAAGA
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:25377 original size:149 final size:149
Alignment explanation
Indices: 24914--25366 Score: 879
Period size: 149 Copynumber: 3.0 Consensus size: 149
24904 GAGTCGAGGG
24914 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
24979 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
*
25044 AATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
25063 TCTACGCGGTTCTTCGGGATATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
25128 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
25193 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
25212 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
25277 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
*
25342 TATGGCACTACGATGCAAT
131 TATGGCACTACGGTGCAAT
25361 TCTACG
1 TCTACG
25367 GGGCACTTCG
Statistics
Matches: 300, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 300 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:25389 original size:23 final size:23
Alignment explanation
Indices: 25345--25389 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
25335 ATCATTATAT
*
25345 GGCACTACGATGCAATTCTACGG
1 GGCACTACGATGCAATTATACGG
* * *
25368 GGCACTTCGGTGCATTTATACG
1 GGCACTACGATGCAATTATACG
25390 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGATGCAATTATACGG
Found at i:28300 original size:26 final size:25
Alignment explanation
Indices: 28271--28323 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
28261 AAAATAAAAT
*
28271 TAAAAAAAT-ATTAATAATAATATTAA
1 TAAAAAAATAAATAAT-ATAATA-TAA
*
28297 TAAATAAATAAATAATATAATATAA
1 TAAAAAAATAAATAATATAATATAA
28322 TA
1 TA
28324 TTTTTGTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.21
26 14 0.58
27 5 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAAAAAATAAATAATATAATATAA
Found at i:28318 original size:12 final size:13
Alignment explanation
Indices: 28262--28323 Score: 62
Period size: 12 Copynumber: 5.1 Consensus size: 13
28252 GGCCTGCAAA
*
28262 AAATAAAATTAA-
1 AAATAATATTAAT
28274 AAA-AATATTAAT
1 AAATAATATTAAT
28286 -AATAATATTAAT
1 AAATAATATTAAT
*
28298 AAATAA-ATAAAT
1 AAATAATATTAAT
28310 AATATAATA-TAAT
1 AA-ATAATATTAAT
28323 A
1 A
28324 TTTTTGTAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
11 9 0.21
12 19 0.45
13 13 0.31
14 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATAATATTAAT
Found at i:28713 original size:103 final size:105
Alignment explanation
Indices: 28510--28718 Score: 314
Period size: 103 Copynumber: 2.0 Consensus size: 105
28500 CATACAAAAT
* * *
28510 ATCAACGCCATTTTCCTTTTTCTTCGCCTTCAGAGCTGGGATATGGGAGCGGATAGAGATAGGAA
1 ATCAACACCATTTTCCTTCTTCTTCGCCTTCAGAGCTGGGATATGGAAGCGGATAGAGATAGGAA
* * * *
28575 GAGAGATAATGAAATAGATAGGAGCAGGGACCATAACACC
66 GAGAGATAAGGAAAGAGATAGAAGCAGGGAACATAACACC
*
28615 ATCAACACCATTTTCC-TCTTCTTCGCCTTCAGAGCTGGGATATGGAAGC-GATAGAGATAGGTA
1 ATCAACACCATTTTCCTTCTTCTTCGCCTTCAGAGCTGGGATATGGAAGCGGATAGAGATAGGAA
* *
28678 GAGCGATAAGGAAAGAGATTGAAGCAGGGAACATAACACC
66 GAGAGATAAGGAAAGAGATAGAAGCAGGGAACATAACACC
28718 A
1 A
28719 CTACTGACAG
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 48 0.51
104 31 0.33
105 15 0.16
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (105 bp):
ATCAACACCATTTTCCTTCTTCTTCGCCTTCAGAGCTGGGATATGGAAGCGGATAGAGATAGGAA
GAGAGATAAGGAAAGAGATAGAAGCAGGGAACATAACACC
Found at i:30148 original size:29 final size:29
Alignment explanation
Indices: 30112--30184 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
30102 AGGCACCTTT
30112 TCCCAAGTTGCTACCTAAAGAAGTTTTGC
1 TCCCAAGTTGCTACCTAAAGAAGTTTTGC
*
30141 TCCCAAGTTGGTACCTAAAGAAGTTTTGC
1 TCCCAAGTTGCTACCTAAAGAAGTTTTGC
*
30170 TCCCAAGCTGCTACC
1 TCCCAAGTTGCTACC
30185 GAACTTTAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (29 bp):
TCCCAAGTTGCTACCTAAAGAAGTTTTGC
Found at i:30551 original size:18 final size:17
Alignment explanation
Indices: 30524--30559 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
30514 AATTGCATGT
*
30524 TGTCTTATTTTTTTTTC
1 TGTCTTATTTTTTATTC
30541 TGTCATTATTTTTTATTC
1 TGTC-TTATTTTTTATTC
30559 T
1 T
30560 TGTTGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (17 bp):
TGTCTTATTTTTTATTC
Found at i:30999 original size:18 final size:18
Alignment explanation
Indices: 30953--31001 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
30943 TTTTTCTAAA
30953 AATAATAT-TTTTTAATT
1 AATAATATATTTTTAATT
30970 -ATGAA-ATA-TTTTAATT
1 AAT-AATATATTTTTAATT
30986 AATAATATATTTTTAA
1 AATAATATATTTTTAA
31002 AATCTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
16 14 0.52
17 7 0.26
18 6 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
AATAATATATTTTTAATT
Found at i:31104 original size:16 final size:18
Alignment explanation
Indices: 31058--31108 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
31048 ATTAATGGTC
31058 GATATTTATTTAAATTAG
1 GATATTTATTTAAATTAG
*
31076 GATGTTTATTTAAATTA-
1 GATATTTATTTAAATTAG
*
31093 G-TATTTAATTAAATTA
1 GATATTTATTTAAATTA
31109 CTTTTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 13 0.43
17 1 0.03
18 16 0.53
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (18 bp):
GATATTTATTTAAATTAG
Found at i:39862 original size:134 final size:132
Alignment explanation
Indices: 39617--39884 Score: 412
Period size: 134 Copynumber: 2.0 Consensus size: 132
39607 TCAAGTTTGT
*
39617 TTGCTATCAATGTTATTAAGAGTGCAGGGAAATTTGATAATATCAAAACACTAGTGTGGGCAAGT
1 TTGCTATCAATGTTATTAAGAGTGCAGGGAAATTTGATAATAGCAAAACACTAGTGTGGGCAAGT
* * * **
39682 ATATGTCATCTGTTCTTTTGCAGTGTGAATATTTTGCTGTTTATTGAAGTAGGTATGTTGAACAG
66 ATATGTCATCTGTTATTTTGCAGGGTGAATATTTTGCCGTCGATTGAAGTAGGTATGTTGAACAG
39747 AC
131 AC
* * *
39749 TTGCTATCAGTTTTATTAAGAGTGC-GGGAAATTTGATAATAGCAAAACACTAGTGTATTGTGCA
1 TTGCTATCAATGTTATTAAGAGTGCAGGGAAATTTGATAATAGCAAAACACTAGTG---TGGGCA
*
39813 AGTATATGTCATCTGTTATTTTGCAGGGTTAATATTTTGCCGTCGATTGAAGTAGGTATGTTGAA
63 AGTATATGTCATCTGTTATTTTGCAGGGTGAATATTTTGCCGTCGATTGAAGTAGGTATGTTGAA
39878 CAGAC
128 CAGAC
39883 TT
1 TT
39885 TAGGCTGGAT
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
131 29 0.24
132 23 0.19
134 71 0.58
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (132 bp):
TTGCTATCAATGTTATTAAGAGTGCAGGGAAATTTGATAATAGCAAAACACTAGTGTGGGCAAGT
ATATGTCATCTGTTATTTTGCAGGGTGAATATTTTGCCGTCGATTGAAGTAGGTATGTTGAACAG
AC
Found at i:44621 original size:18 final size:19
Alignment explanation
Indices: 44586--44622 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
44576 CACGGAATGT
44586 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
44606 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
44623 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:44802 original size:36 final size:36
Alignment explanation
Indices: 44769--44836 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
44759 TACAAATTGT
44769 AAAATATTTATAT-ATTTTCTTTA-AAAATTAAATTC
1 AAAATATTTATATAATTTT-TTTACAAAATTAAATTC
*
44804 ATAATATTTATATAATTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTTTTACAAAATTAAA
44837 AAATATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (36 bp):
AAAATATTTATATAATTTTTTTACAAAATTAAATTC
Found at i:45323 original size:12 final size:11
Alignment explanation
Indices: 45308--45372 Score: 67
Period size: 12 Copynumber: 5.5 Consensus size: 11
45298 ATAAAAAAAA
45308 ATAAAGAAGCTT
1 ATAAAG-AGCTT
*
45320 ATAAACGGGCTT
1 ATAAA-GAGCTT
45332 ATATAAGAGCTT
1 ATA-AAGAGCTT
*
45344 ATAAACGGGCTT
1 ATAAA-GAGCTT
45356 ATATAAGAGCTT
1 ATA-AAGAGCTT
45368 ATAAA
1 ATAAA
45373 CGAACTTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
11 4 0.09
12 36 0.80
13 5 0.11
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (11 bp):
ATAAAGAGCTT
Found at i:45344 original size:24 final size:24
Alignment explanation
Indices: 45315--45374 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
45305 AAAATAAAGA
45315 AGCTTATAAACGGGCTTATATAAG
1 AGCTTATAAACGGGCTTATATAAG
45339 AGCTTATAAACGGGCTTATATAAG
1 AGCTTATAAACGGGCTTATATAAG
45363 AGCTTATAAACG
1 AGCTTATAAACG
45375 AACTTGTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (24 bp):
AGCTTATAAACGGGCTTATATAAG
Found at i:45767 original size:14 final size:14
Alignment explanation
Indices: 45750--45797 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
45740 GGAAAATAAT
45750 TTACGTAAAATGAA
1 TTACGTAAAATGAA
* **
45764 TTACATGAAAAATGTT
1 TTAC--GTAAAATGAA
45780 TTACGTAAAATGAA
1 TTACGTAAAATGAA
45794 TTAC
1 TTAC
45798 ATAGAAATTG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 15 0.58
16 11 0.42
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (14 bp):
TTACGTAAAATGAA
Found at i:45776 original size:30 final size:29
Alignment explanation
Indices: 45742--45858 Score: 130
Period size: 30 Copynumber: 4.0 Consensus size: 29
45732 GGTTTTCTGG
*
45742 AAAATAATTTACGTAAAATGAATTACATGA
1 AAAATATTTTACGTAAAATGAATTACAT-A
*
45772 AAAATGTTTTACGTAAAATGAATTACATA
1 AAAATATTTTACGTAAAATGAATTACATA
* * *
45801 GAAAT-TGTTGTACATAAAATGAATGA-ACTA
1 AAAATAT-TT-TACGTAAAATGAATTACA-TA
*
45831 AAACTATTTTACGTAAAATGAATTACAT
1 AAAATATTTTACGTAAAATGAATTACAT
45859 TTTCTAAGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.01
29 23 0.32
30 48 0.66
31 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (29 bp):
AAAATATTTTACGTAAAATGAATTACATA
Found at i:46150 original size:24 final size:27
Alignment explanation
Indices: 46123--46175 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 27
46113 TAATTATTAG
*
46123 TATTTTATTAACA-T-AATA-ATAAAT
1 TATTATATTAACATTAAATATATAAAT
*
46147 TATTATATTAATATTAAATATATAAAT
1 TATTATATTAACATTAAATATATAAAT
46174 TA
1 TA
46176 ATATTACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.46
25 1 0.04
26 4 0.17
27 8 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TATTATATTAACATTAAATATATAAAT
Found at i:46158 original size:19 final size:19
Alignment explanation
Indices: 46136--46178 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
46126 TTTATTAACA
*
46136 TAATAATAAAT-TATTATAT
1 TAATAATAAATATA-TAAAT
*
46155 TAATATTAAATATATAAAT
1 TAATAATAAATATATAAAT
46174 TAATA
1 TAATA
46179 TTACTCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATAATAAATATATAAAT
Found at i:46171 original size:27 final size:30
Alignment explanation
Indices: 46114--46175 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
46104 CCTTAATTTT
*
46114 AATTATTAGTATTTTATTAACATAATAATA
1 AATTATTAGTATTATATTAACATAATAATA
46144 AATTATTA-TATTAATATTAA-AT-AT-ATA
1 AATTATTAGTATT-ATATTAACATAATAATA
46171 AATTA
1 AATTA
46176 ATATTACTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.27
28 2 0.07
29 6 0.20
30 14 0.47
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (30 bp):
AATTATTAGTATTATATTAACATAATAATA
Found at i:46382 original size:15 final size:16
Alignment explanation
Indices: 46362--46399 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46352 ATGTATATTA
46362 AATATTTTAAT-AATT
1 AATATTTTAATAAATT
*
46377 AATATTTTTATTAAATT
1 AATA-TTTTAATAAATT
46394 AATATT
1 AATATT
46400 AAAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATATTTTAATAAATT
Found at i:46407 original size:19 final size:19
Alignment explanation
Indices: 46385--46421 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
46375 TTAATATTTT
46385 TATTAAATTAATATTAAAA
1 TATTAAATTAATATTAAAA
*
46404 TATTAAGTTAATATTAAA
1 TATTAAATTAATATTAAA
46422 TGTATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
TATTAAATTAATATTAAAA
Found at i:46740 original size:16 final size:16
Alignment explanation
Indices: 46716--46746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46706 CCATTAATTA
*
46716 AAATTTTAAATTTCTT
1 AAATGTTAAATTTCTT
46732 AAATGTTAAATTTCT
1 AAATGTTAAATTTCT
46747 ATTAGACCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
AAATGTTAAATTTCTT
Found at i:48129 original size:2 final size:2
Alignment explanation
Indices: 48124--48153 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
48114 AAGAAGATGA
48124 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
48154 TTATGAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60588 original size:18 final size:17
Alignment explanation
Indices: 60534--60582 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
60524 TTAGACCCTT
* *
60534 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
60552 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
60570 AGTGCATTCGATG
1 AGTGCA-TCGATG
60583 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:60621 original size:45 final size:45
Alignment explanation
Indices: 60551--60675 Score: 153
Period size: 46 Copynumber: 2.8 Consensus size: 45
60541 CGGTGCACTA
*
60551 AGAGTGCATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-AGCC
* * *
60596 AGAGTGCATTGATGCATTAAATGCATTCGATGTTTTCATAAAATCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAGCC
** * *
60642 TCAGTGCATCGATGCATGAAATGCATTCAATGTT
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTT
60676 CAATTTAATT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 31 0.45
46 35 0.51
47 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (45 bp):
AGAGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAAGCC
Found at i:61412 original size:29 final size:27
Alignment explanation
Indices: 61358--61416 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
61348 GTATATATAT
61358 AATAAGTTAAAAATCCATAAAACATCA
1 AATAAGTTAAAAATCCATAAAACATCA
*
61385 AATAAGTTCAAAACATCCA-ACAACCATCA
1 AATAAGTT-AAAA-ATCCATA-AAACATCA
61414 AAT
1 AAT
61417 TTAAACATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 8 0.29
28 5 0.18
29 15 0.54
ACGTcount: A:0.56, C:0.20, G:0.03, T:0.20
Consensus pattern (27 bp):
AATAAGTTAAAAATCCATAAAACATCA
Found at i:63367 original size:23 final size:22
Alignment explanation
Indices: 63339--63418 Score: 90
Period size: 22 Copynumber: 3.6 Consensus size: 22
63329 GCATGGCCTT
*
63339 GTGCATTGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
63361 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
63383 GTGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
63405 ATGCATCGATGCAC
1 GTGCATCGATGCAC
63419 TGTTAGGTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 15 0.33
22 16 0.35
23 15 0.33
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:63396 original size:44 final size:42
Alignment explanation
Indices: 63346--63437 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 42
63336 CTTGTGCATT
* *
63346 GATGCACATTCAAGGCGTGCATCGGTGCACCT-TCATGGTGTATC
1 GATGCACATTCAAGG-ATGCATCGATGCA-CTGTCA-GGTGTATC
*
63390 GATGCACATTCAAGGATGCATCGATGCACTGTTAGGTGTATC
1 GATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGTATC
63432 GATGCA
1 GATGCA
63438 TTAAGCACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 16 0.36
43 13 0.30
44 15 0.34
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (42 bp):
GATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGTATC
Found at i:63434 original size:20 final size:21
Alignment explanation
Indices: 63346--63437 Score: 80
Period size: 21 Copynumber: 4.3 Consensus size: 21
63336 CTTGTGCATT
*
63346 GATGCACATTCAAGGCGTGCATC
1 GATGCACATTCAA-G-GTGTATC
* * *
63369 GGTGCACCTTCATGGTGTATC
1 GATGCACATTCAAGGTGTATC
*
63390 GATGCACATTCAAGGATGCATC
1 GATGCACATTCAAGG-TGTATC
*
63412 GATGCAC-TGT-TAGGTGTATC
1 GATGCACAT-TCAAGGTGTATC
63432 GATGCA
1 GATGCA
63438 TTAAGCACAA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 11 0.19
21 22 0.39
22 14 0.25
23 10 0.18
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (21 bp):
GATGCACATTCAAGGTGTATC
Found at i:67288 original size:22 final size:21
Alignment explanation
Indices: 67246--67285 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
67236 GAGTTTATTT
*
67246 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
67267 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
67286 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:68091 original size:18 final size:19
Alignment explanation
Indices: 68054--68090 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
68044 TTTTTTATTA
*
68054 TGGGGGAATCGGTTCCCCC
1 TGGGGGAATCGATTCCCCC
*
68073 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
68091 TCTAGCGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.30, G:0.35, T:0.24
Consensus pattern (19 bp):
TGGGGGAATCGATTCCCCC
Found at i:68142 original size:21 final size:21
Alignment explanation
Indices: 68118--68160 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
68108 TCATATTCGT
* *
68118 TTGAGGGGGTATTGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
68139 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
68160 T
1 T
68161 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.28, T:0.35
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:70150 original size:17 final size:18
Alignment explanation
Indices: 70111--70152 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
70101 AAGTAGTGTT
*
70111 CTTGAAAGAAAAATGAAT
1 CTTGAAAGAAAAATGAAG
* *
70129 ATTGAATGAAAAAT-AAG
1 CTTGAAAGAAAAATGAAG
70146 CTTGAAA
1 CTTGAAA
70153 TGCTCAAACT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (18 bp):
CTTGAAAGAAAAATGAAG
Found at i:70502 original size:45 final size:46
Alignment explanation
Indices: 70436--70534 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
70426 CATTAGTGAA
* * *
70436 CGATGCATCAAGTGCATTCGATG-TTTCA-AAATAGCCAGAGTGCAT
1 CGATGCATCAAATGCACTCGATGTTTTCATAAA-AGCCACAGTGCAT
* *
70481 CGATGCATCAAATGCACTCGATGTTTTCATAAAATCCTCAGTGCAT
1 CGATGCATCAAATGCACTCGATGTTTTCATAAAAGCCACAGTGCAT
70527 CGATGCAT
1 CGATGCAT
70535 GGTATGTGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
45 21 0.45
46 23 0.49
47 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATCAAATGCACTCGATGTTTTCATAAAAGCCACAGTGCAT
Found at i:70609 original size:65 final size:64
Alignment explanation
Indices: 70475--70620 Score: 163
Period size: 65 Copynumber: 2.2 Consensus size: 64
70465 AATAGCCAGA
*
70475 GTGCATCGATGCATCAAATGCACTCGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCACTCGATG-TTTCATAAAATCCTCAGTGCATCGATACATGGTAT
* * ** *
70540 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATCCAT-GGTGCATCGATACATGG-A
1 GTGCATCGATGCATCAAATGCACTCGATGTTTC-ATAAAATCC-TCAGTGCATCGATACATGGTA
70602 TT
64 -T
*
70604 GGTGCATCGGTGCATCA
1 -GTGCATCGATGCATCA
70621 CTTTAATAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
63 4 0.06
64 23 0.33
65 42 0.61
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCACTCGATGTTTCATAAAATCCTCAGTGCATCGATACATGGTAT
Found at i:79532 original size:17 final size:16
Alignment explanation
Indices: 79507--79542 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
79497 ATAAAAAAAG
79507 TAAACAAATTATTTGTT
1 TAAACAAATTATTT-TT
*
79524 TAAATAAATTATTTTT
1 TAAACAAATTATTTTT
79540 TAA
1 TAA
79543 CCGTTAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
TAAACAAATTATTTTT
Found at i:79750 original size:26 final size:27
Alignment explanation
Indices: 79708--79761 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
79698 TTAATAATTT
*
79708 TCAAATAAATTTTGGTTCGATTAACGG
1 TCAAATAAATTTCGGTTCGATTAACGG
79735 TCAAAT-AATTTCGGTTCGATTAACGG
1 TCAAATAAATTTCGGTTCGATTAACGG
79761 T
1 T
79762 TAAAGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (27 bp):
TCAAATAAATTTCGGTTCGATTAACGG
Found at i:79771 original size:93 final size:94
Alignment explanation
Indices: 79605--79829 Score: 346
Period size: 93 Copynumber: 2.4 Consensus size: 94
79595 CGTTAATCGA
* * *
79605 TTAATAATTTTCAAATTAATTTCGGTTTGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTA
1 TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAAGGTTA
* * * *
79670 AAGAAAAAAAA-TGGTTAATTTGGTTTTG
66 AAGAAAAAAAATTCGTTAATTCGATTTGG
*
79698 TTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAACGGTT
1 TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA-GGTT
79763 AAAG-AAAAAAATTCGTTAATTCGATTTGG
65 AAAGAAAAAAAATTCGTTAATTCGATTTGG
*
79792 TTAATAATTTTTAAATAAATTTCGGTTCGATTAACGGT
1 TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGT
79830 TAAGAAAAAA
Statistics
Matches: 120, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
93 64 0.53
94 56 0.47
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.41
Consensus pattern (94 bp):
TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAAGGTTA
AAGAAAAAAAATTCGTTAATTCGATTTGG
Found at i:79812 original size:94 final size:93
Alignment explanation
Indices: 79605--79829 Score: 351
Period size: 94 Copynumber: 2.4 Consensus size: 93
79595 CGTTAATCGA
* * *
79605 TTAATAATTTTCAAATTAATTTCGGTTTGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTA
1 TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAAGGTTA
* * * *
79670 AAGAAAAAAAATGGTTAATTTGGTTTTG
66 AAGAAAAAAAATCGTTAATTCGATTTGG
*
79698 TTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAACGGTT
1 TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA-GGTT
*
79763 AAAGAAAAAAATTCGTTAATTCGATTTGG
65 AAAGAAAAAAAATCGTTAATTCGATTTGG
*
79792 TTAATAATTTTTAAATAAATTTCGGTTCGATTAACGGT
1 TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGT
79830 TAAGAAAAAA
Statistics
Matches: 120, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 57 0.47
94 63 0.52
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.41
Consensus pattern (93 bp):
TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAAGGTTA
AAGAAAAAAAATCGTTAATTCGATTTGG
Found at i:79831 original size:37 final size:37
Alignment explanation
Indices: 79790--79905 Score: 95
Period size: 33 Copynumber: 3.3 Consensus size: 37
79780 AATTCGATTT
* *
79790 GGTTAATAATTTTTAAATAAATTTCGGTTCGATTAAC
1 GGTTAATAATTTTAAAATAAATTTCGATTCGATTAAC
* * **
79827 GGTTAAGAA----AAAATTAATTT--ATTTTATT--C
1 GGTTAATAATTTTAAAATAAATTTCGATTCGATTAAC
*
79856 GGTTAATAATTTTCAAATAAATTTCGATTCGATTAAC
1 GGTTAATAATTTTAAAATAAATTTCGATTCGATTAAC
*
79893 GGTCAAGTAATTT
1 GGTTAA-TAATTT
79906 CGGTTCGATT
Statistics
Matches: 58, Mismatches: 12, Indels: 17
0.67 0.14 0.20
Matches are distributed among these distances:
29 9 0.16
31 5 0.09
33 18 0.31
35 6 0.10
37 14 0.24
38 6 0.10
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (37 bp):
GGTTAATAATTTTAAAATAAATTTCGATTCGATTAAC
Found at i:79874 original size:66 final size:68
Alignment explanation
Indices: 79735--79895 Score: 229
Period size: 66 Copynumber: 2.4 Consensus size: 68
79725 CGATTAACGG
** *
79735 TCAAAT-AATTTCGGTTCGATTAACGGTTAAAGAAAAAAATTCGTTAATTCGATTTGGTTAATAA
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATTAATTAATTCGATTCGGTTAATAA
79799 TTT
66 TTT
* * **
79802 TTAAATAAATTTCGGTTCGATTAACGGTT-AAG-AAAAAATTAATTTATTTTATTCGGTTAATAA
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATTAATTAATTCGATTCGGTTAATAA
79865 TTT
66 TTT
*
79868 TCAAATAAATTTCGATTCGATTAACGGT
1 TCAAATAAATTTCGGTTCGATTAACGGT
79896 CAAGTAATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
66 54 0.64
67 8 0.10
68 22 0.26
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (68 bp):
TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATTAATTAATTCGATTCGGTTAATAA
TTT
Found at i:79889 original size:160 final size:160
Alignment explanation
Indices: 79697--79989 Score: 480
Period size: 160 Copynumber: 1.8 Consensus size: 160
79687 ATTTGGTTTT
* *
79697 GTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAACGGT
1 GTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAACGGT
* * *
79762 TAAAGAAAAAAATTC-GTTAATTCGATTTGGTTAATAATTTTTAAATAAATTTCGGTTCGATTAA
66 TAAAGAAAAAAA-TCGGTTAATTCGATTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAA
79826 CGGTTAAGAAAAAATTAATTTATTTTATTCG
130 CGGTTAAGAAAAAATTAATTTATTTTATTCG
* *
79857 GTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAGTAATTTCGGTTCGATTAATGGT
1 GTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAACGGT
* * *
79922 TAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAAC
66 TAAAGAAAAAAATCGGTTAATTCGATTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAAC
79987 GGT
131 GGT
79990 CAAATAATTT
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
159 2 0.02
160 120 0.98
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (160 bp):
GTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAACGGT
TAAAGAAAAAAATCGGTTAATTCGATTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAAC
GGTTAAGAAAAAATTAATTTATTTTATTCG
Found at i:79968 original size:94 final size:94
Alignment explanation
Indices: 79804--80084 Score: 431
Period size: 94 Copynumber: 3.0 Consensus size: 94
79794 AATAATTTTT
* *** * **
79804 AAATAAATTTCGGTTCGATTAACGGTT-AAG-AAAAAATTAATTTATTTTATTCGGTTAATAATT
1 AAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATT
79867 TTCAAATAAATTTCGATTCGATTAACGGTC
65 TTCAAATAAATTTCGATTCGATTAACGGTC
*
79897 AAGTAATTTCGGTTCGATTAATGGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTT
1 AAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTT
79962 TCAAATAAATTTCGATTCGATTAACGGTC
66 TCAAATAAATTTCGATTCGATTAACGGTC
*
79991 AAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGGTTCAGTTAATAATT
1 AAATAATTTCGGTTCGATTAATGGTTAAAG-AAAAAAATCGGTTGATTTGGTTCGGTTAATAATT
* *
80056 TTCAAATAAATTTCGGTTCTATTAACGGT
65 TTCAAATAAATTTCGATTCGATTAACGGT
80085 TAAAGAAAAA
Statistics
Matches: 173, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
92 21 0.12
93 6 0.03
94 86 0.50
95 60 0.35
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (94 bp):
AAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTT
TCAAATAAATTTCGATTCGATTAACGGTC
Found at i:80101 original size:254 final size:251
Alignment explanation
Indices: 79605--80345 Score: 1107
Period size: 254 Copynumber: 3.0 Consensus size: 251
79595 CGTTAATCGA
* *
79605 TTAATAATTTTCAAATTAATTTCGGTTTGATTAACGGTCAAATAATTTCGGTTCGATTAAT-GTT
1 TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTT
* *
79669 AAAGAAAAAAAATGGTTAATTTGGTTTTGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACG
66 AAAG-AAAAAAATGGTT-ATTTGG-TTCGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACG
* * * *
79734 GTCAAATAATTTCGGTTCGATTAACGGTTAAAGAAAAAAATTC-GTTAATTCGATTTGGTTAATA
128 GTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAATTCGGTTAATTTG-GTTCGTTAATA
* **
79798 ATTTTTAAATAAATTTCGGTTCGATTAACGGTT-AAGAAAAAATTAATTTATTTTATTCGG
192 ATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAA-TAATTTATTTTATTCAC
* *
79858 TTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAGTAATTTCGGTTCGATTAATGGTT
1 TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTT
*
79923 AAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAACG
66 AAAGAAAAAAAT-GGTT-ATTTGGTTC-GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACG
* *
79988 GTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGGTTCAGTTAATA
128 GTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAATTCGGTTAATTTGGTTC-GTTAATA
*
80053 ATTTTCAAATAAATTTCGGTTCTATTAACGGTTAAAG-AAAAATAATTTATTTTATTCAC
192 ATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAATAATTTATTTTATTCAC
* *
80112 TTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGGTT
1 TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTT
*
80177 AAAGAAAAAAA-----A-TTGGTTC----ATAATTTTCAAATAAATTTCGGTTCGATTAACAGTC
66 AAAGAAAAAAATGGTTATTTGGTTCGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTC
80232 AAATAATTTCGGTTCGATTAAT-GTTAAAGAAAAAAATTCGGTTAATTTGGTTCGATTAATAATT
131 AAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAATTCGGTTAATTTGGTTCG-TTAATAATT
80296 TTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAATAATTTATTT
195 TTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAATAATTTATTT
80346 AAACACATAA
Statistics
Matches: 453, Mismatches: 27, Indels: 28
0.89 0.05 0.06
Matches are distributed among these distances:
239 1 0.00
240 71 0.16
241 71 0.16
246 7 0.02
247 1 0.00
253 67 0.15
254 182 0.40
255 50 0.11
256 3 0.01
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (251 bp):
TTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTT
AAAGAAAAAAATGGTTATTTGGTTCGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTC
AAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAATTCGGTTAATTTGGTTCGTTAATAATTT
TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAATAATTTATTTTATTCAC
Found at i:80118 original size:160 final size:161
Alignment explanation
Indices: 79901--80194 Score: 457
Period size: 160 Copynumber: 1.8 Consensus size: 161
79891 ACGGTCAAGT
* * **
79901 AATTTCGGTTCGATTAATGGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTTTCAA
1 AATTTCGGTTCGATTAACGGTTAAAGAAAAAAAT--GTTGATTTGATTCACTTAATAATTTTCAA
79966 ATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATC
64 ATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATC
80031 GGTTGATTTGGTTCAGTTAATAATTTTCAAATA
129 GGTTGATTTGGTTCAGTTAATAATTTTCAAATA
* *
80064 AATTTCGGTTCTATTAACGGTTAAAGAAAAATAAT-TT-ATTTTATTCACTTAATAATTTTCAAA
1 AATTTCGGTTCGATTAACGGTTAAAGAAAAA-AATGTTGATTTGATTCACTTAATAATTTTCAAA
* * * *
80127 TAAATTTGGGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAAAATTG
65 TAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATCG
80192 GTT
130 GTT
80195 CATAATTTTC
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
160 86 0.72
161 2 0.02
163 29 0.24
164 3 0.03
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (161 bp):
AATTTCGGTTCGATTAACGGTTAAAGAAAAAAATGTTGATTTGATTCACTTAATAATTTTCAAAT
AAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATCGG
TTGATTTGGTTCAGTTAATAATTTTCAAATA
Found at i:80145 original size:65 final size:67
Alignment explanation
Indices: 79989--80149 Score: 220
Period size: 65 Copynumber: 2.4 Consensus size: 67
79979 CGATTAACGG
* * *
79989 TCAAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGGTTCAGTTAATA
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAAAT--GTTGATTTGATTCACTTAATA
80053 ATTT
64 ATTT
* * *
80057 TCAAATAAATTTCGGTTCTATTAACGGTTAAAGAAAAATAAT-TT-ATTTTATTCACTTAATAAT
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAAATGTTGATTTGATTCACTTAATAAT
80120 TT
66 TT
*
80122 TCAAATAAATTTGGGTTCGATTAACGGT
1 TCAAATAAATTTCGGTTCGATTAACGGT
80150 CAAATAATTT
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 44 0.52
66 2 0.02
68 6 0.07
69 32 0.38
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (67 bp):
TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAAATGTTGATTTGATTCACTTAATAAT
TT
Found at i:80152 original size:27 final size:27
Alignment explanation
Indices: 80122--80252 Score: 101
Period size: 26 Copynumber: 4.9 Consensus size: 27
80112 TTAATAATTT
*
80122 TCAAATAAATTTGGGTTCGATTAACGG
1 TCAAATAAATTTCGGTTCGATTAACGG
* *
80149 TCAAAT-AATTTTGGTTCGATTAATGG
1 TCAAATAAATTTCGGTTCGATTAACGG
* * * ***
80175 TTAAAGAAAAAAAATT-GGTTC-A-TAATTT
1 -T---CAAATAAATTTCGGTTCGATTAACGG
*
80203 TCAAATAAATTTCGGTTCGATTAACAG
1 TCAAATAAATTTCGGTTCGATTAACGG
80230 TCAAAT-AATTTCGGTTCGATTAA
1 TCAAATAAATTTCGGTTCGATTAA
80253 TGTTAAAGAA
Statistics
Matches: 83, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
24 8 0.10
25 5 0.06
26 36 0.43
27 17 0.20
28 4 0.05
29 1 0.01
30 8 0.10
31 4 0.05
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (27 bp):
TCAAATAAATTTCGGTTCGATTAACGG
Found at i:80250 original size:81 final size:80
Alignment explanation
Indices: 80115--80267 Score: 270
Period size: 81 Copynumber: 1.9 Consensus size: 80
80105 TATTCACTTA
* * *
80115 ATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAATGGTTAAA
1 ATAATTTTCAAATAAATTTCGGTTCGATTAACAGTCAAATAATTTCGGTTCGATTAAT-GTTAAA
80180 GAAAAAAAATTGGTTC
65 GAAAAAAAATTGGTTC
80196 ATAATTTTCAAATAAATTTCGGTTCGATTAACAGTCAAATAATTTCGGTTCGATTAATGTTAAAG
1 ATAATTTTCAAATAAATTTCGGTTCGATTAACAGTCAAATAATTTCGGTTCGATTAATGTTAAAG
80261 AAAAAAA
66 AAAAAAA
80268 TTCGGTTAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
80 14 0.20
81 55 0.80
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (80 bp):
ATAATTTTCAAATAAATTTCGGTTCGATTAACAGTCAAATAATTTCGGTTCGATTAATGTTAAAG
AAAAAAAATTGGTTC
Found at i:81523 original size:20 final size:21
Alignment explanation
Indices: 81490--81528 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
81480 ATTACAGGTA
*
81490 CAAATATGATAAAACCGGTCC
1 CAAATATGACAAAACCGGTCC
*
81511 CAAA-ATGACAAAATCGGT
1 CAAATATGACAAAACCGGT
81529 AAAACGCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.18
Consensus pattern (21 bp):
CAAATATGACAAAACCGGTCC
Found at i:82126 original size:183 final size:183
Alignment explanation
Indices: 81673--82304 Score: 840
Period size: 183 Copynumber: 3.5 Consensus size: 183
81663 TAATAGGTAA
* *
81673 AAAATT-ACAAAACTAG-AAAAAGTTATCGGATATATTGAAAGTGTCGATAATTTAATATTAGTA
1 AAAATTGACAAAACTAGTAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTA
*
81736 TCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAATGTCGATACTTTATGAA
66 TCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATGAA
* ** * * *
81801 AATTTATCGATCCT-TTCCAATATAACATGTAAAAATATGATAAAACATGTTTA
131 AATATATCGAT-CTATAACAATATAACAAGTAAAAATATGATAAAACATGTCTC
* * * * * *
81854 AAAAATGACAAAAC-CGGAAAAAGTTACCAGATATGTTAAAAGTGTCGATAATTTAATATAAGTA
1 AAAATTGACAAAACTAGTAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTA
* * * * * *
81918 TCGACACTTTCTGAATTTAAAAGAGAAAAAATTATTGCGCTTAAAAAGTGTCTACACTTTATGAA
66 TCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATGAA
* * *
81983 AATGTATTGATCTATAACAATATAACAGGTAAAAATATGATAAAACATGTCTC
131 AATATATCGATCTATAACAATATAACAAGTAAAAATATGATAAAACATGTCTC
** * * *
82036 AAAATTGACTTAACTAGTAAAACGCTATCGGATATATTGAAAGTGTCGATAATTTAATATAAGTA
1 AAAATTGACAAAACTAGTAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTA
* * *
82101 TCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTATAAA
66 TCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATGAA
* * * *
82166 AATATATCGATCCACAACAATATAACAAGTAAAAATATGATAAAACAAGTCCC
131 AATATATCGATCTATAACAATATAACAAGTAAAAATATGATAAAACATGTCTC
* * * * *
82219 AAAATTGACAAAACCAGTAAAACGATACCGTATATGTTGAAAGTGTCGATAATTTAATATAAGTA
1 AAAATTGACAAAACTAGTAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTA
* *
82284 TCGACACTTTCTAAAATTAAA
66 TCGACACTTTCTGAATTTAAA
82305 CTAAAAAGTG
Statistics
Matches: 389, Mismatches: 58, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
181 8 0.02
182 161 0.41
183 220 0.57
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (183 bp):
AAAATTGACAAAACTAGTAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTA
TCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATGAA
AATATATCGATCTATAACAATATAACAAGTAAAAATATGATAAAACATGTCTC
Found at i:82396 original size:164 final size:162
Alignment explanation
Indices: 82145--82466 Score: 464
Period size: 164 Copynumber: 2.0 Consensus size: 162
82135 TAGCGCCTAT
*
82145 AAAGTGTCGATACTTTATAAAAATATATCGATCCACAACAATATAACAAGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATAAAAATATATCGATCCACAACAATATAACAAGTAAAAATATGATAAA
* * * * *
82210 ACAAGTCCCAAAATTGACAAAACCAGTAAAACGATACCGTATATGTTGAAAGTGTCGATAATTTA
66 ACAAGTCCCAAAAATGACAAAACC-GAAAAAAGATACCGGATATATTGAAA-TGTCGATAATTTA
82275 ATATAAGTATCGACACTTTCTAAAATTAAACTAA
129 ATATAAGTATCGACACTTTCTAAAATTAAACTAA
* * * *
82309 AAAGTGTCGACACTTTATAAAAATGTATCGATTCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTATAAAAATATATCGATCCACAACAATATAACAAGTAAAAATATGATAAA
*** * *
82374 ATTGGTCTCAAAAATGACAAAACCGAAAAAAGTTACCGGATATATTGAAATGTCGATAATTTAAT
66 ACAAGTCCCAAAAATGACAAAACCGAAAAAAGATACCGGATATATTGAAATGTCGATAATTTAAT
* * *
82439 ATTAGTATCGACACTTTCTGAATTTAAA
131 ATAAGTATCGACACTTTCTAAAATTAAA
82467 AGAGAAGAAG
Statistics
Matches: 140, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
162 40 0.29
163 21 0.15
164 79 0.56
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (162 bp):
AAAGTGTCGACACTTTATAAAAATATATCGATCCACAACAATATAACAAGTAAAAATATGATAAA
ACAAGTCCCAAAAATGACAAAACCGAAAAAAGATACCGGATATATTGAAATGTCGATAATTTAAT
ATAAGTATCGACACTTTCTAAAATTAAACTAA
Found at i:83660 original size:199 final size:195
Alignment explanation
Indices: 83219--83700 Score: 521
Period size: 195 Copynumber: 2.5 Consensus size: 195
83209 ATACATATGT
* **
83219 AAGAAT-ATGTGTCGATACATTTTAAAAAAGTATCGA-CCCAAAAACATCGAAACAAATAATTAT
1 AAGAATAAAGTGTCGATACA-TTTAAAATTGTATCGATCCCAAAAACATCGAAACAAATAATTAT
** * * * *
83282 AATGTAATATTTAAATTAACAATGTAACCAATATACATATACCGGTTAATTAAAAACATGCCAAC
65 AATGTAATAAGTAAATTTACAATGTAACCAATATAAATATACCGGTTAATGAAAAACAGGCCAAC
* *
83347 ATAAAGTATCGACACTTTTTAAGTTTGTGGCGATACTTTTTTCCAAAAGAAAGCACAAACAGGTT
130 ATAAAGTATCGACACTTTTTAAGTTTGTAGCGATACTTTTTTCCAAAAGAAAGCACAAACAGGTG
83412 C
195 C
* * *
83413 ACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCACAAAAACATCGAAATC-AATAATTAT
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAA-CAAATAATTAT
* * ** * * * * *
83477 AATGTAATAGGTCAATTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCA
65 AATGTAATAAGTAAATTTACAATGTAACCAATATAAATATACCGG-TTAATGA-AAAACAGGCCA
* * * ** *
83542 GA-ATAAAGTATCGACATTTTTGTAA-TTTGTATCGATA-TATTTTATCCATAATGAATTC-CCA
128 -ACATAAAGTATCGACACTTTT-TAAGTTTGTAGCGATACT-TTTT-TCCA-AAAGAAAGCACAA
83603 ACGAGGTGC
188 AC-AGGTGC
* * *
83612 AAGAATAACGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACGAA-AATTACA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACAAATAATTATA
*
83676 ATGTTATAAGTAAATTTACAATGTA
66 ATGTAATAAGTAAATTTACAATGTA
83701 CCTGGTATAG
Statistics
Matches: 240, Mismatches: 36, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
194 18 0.08
195 72 0.30
196 7 0.03
197 40 0.17
198 41 0.17
199 62 0.26
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (195 bp):
AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACAAATAATTATA
ATGTAATAAGTAAATTTACAATGTAACCAATATAAATATACCGGTTAATGAAAAACAGGCCAACA
TAAAGTATCGACACTTTTTAAGTTTGTAGCGATACTTTTTTCCAAAAGAAAGCACAAACAGGTGC
Found at i:83734 original size:26 final size:26
Alignment explanation
Indices: 83680--83736 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
83670 ATTACAATGT
**
83680 TATAAGTAAATTTACAATGTACCTGG
1 TATAAGTAAATTTACAATGTACCCAG
*
83706 TATAGGTAAATTTACAATGTACCCAG
1 TATAAGTAAATTTACAATGTACCCAG
83732 TATAA
1 TATAA
83737 ATATACCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (26 bp):
TATAAGTAAATTTACAATGTACCCAG
Found at i:84016 original size:23 final size:23
Alignment explanation
Indices: 83966--84010 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
83956 TGCCTATTTT
*
83966 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
83989 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
84011 TGTTATTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:85905 original size:13 final size:13
Alignment explanation
Indices: 85887--85911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85877 CAAAAAAACC
85887 TGATCCGATCTGT
1 TGATCCGATCTGT
85900 TGATCCGATCTG
1 TGATCCGATCTG
85912 AAAATTCGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (13 bp):
TGATCCGATCTGT
Found at i:87138 original size:20 final size:20
Alignment explanation
Indices: 87113--87165 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
87103 AAATGTCATG
87113 AGGGTATCGATACCCCCAAT
1 AGGGTATCGATACCCCCAAT
*
87133 AGGGTATCGATACCCCCAGT
1 AGGGTATCGATACCCCCAAT
87153 AGGGTATCGATAC
1 AGGGTATCGATAC
87166 TCCCTAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (20 bp):
AGGGTATCGATACCCCCAAT
Found at i:88724 original size:24 final size:24
Alignment explanation
Indices: 88697--88767 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
88687 TTTTATGTGG
88697 TCCTTCGGGACAAATTCTACGCGA
1 TCCTTCGGGACAAATTCTACGCGA
*
88721 TCCTTCGGGACAAATTTCTACGCGG
1 TCCTTCGGGACAAA-TTCTACGCGA
* * *
88746 TACTTTGGTACAAAATTCTACG
1 TCCTTCGGGAC-AAATTCTACG
88768 TGGCACTACG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
24 14 0.34
25 24 0.59
26 3 0.07
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (24 bp):
TCCTTCGGGACAAATTCTACGCGA
Found at i:90169 original size:15 final size:17
Alignment explanation
Indices: 90144--90177 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
90134 CGGATATCCG
90144 ATCCGAAA-TTTCGGAT
1 ATCCGAAATTTTCGGAT
90160 ATCC-AAATTTTCGGAT
1 ATCCGAAATTTTCGGAT
90176 AT
1 AT
90178 TTGATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (17 bp):
ATCCGAAATTTTCGGAT
Found at i:111389 original size:3 final size:3
Alignment explanation
Indices: 111381--111445 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
111371 AAATTTAAAT
* **
111381 TTA TTA TTA TTA TTA TAA TTA TTA TTA CAA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
111430 TTA TTTA TTA ATA TTA
1 TTA -TTA TTA TTA TTA
111446 CAAAACCCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:112789 original size:2 final size:2
Alignment explanation
Indices: 112782--112817 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
112772 ACATAAATAA
112782 AT 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
112818 TAATAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120994 original size:114 final size:114
Alignment explanation
Indices: 120794--121011 Score: 330
Period size: 114 Copynumber: 1.9 Consensus size: 114
120784 CACGTTCTCG
* * *
120794 TAGCAGAAATAAGGAAACCCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGATTT
1 TAGCAAAAATAAGGAAACCCAATAGCATCTTCTGGAAATGTTCTTTAAGTTATCTGATCTGATTC
* * *
120859 GGTATGAACCCTAAAACCAATCATTGGATTTAAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATTTGCTCA
* *
120908 TAGCAAAAATAAGGAGACCCAATAGCATCTTCT-GAAAGTGTTCTTTAAGTTATCTGATCTGGTT
1 TAGCAAAAATAAGGAAACCCAATAGCATCTTCTGGAAA-TGTTCTTTAAGTTATCTGATCTGATT
* *
120972 CGGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATG
65 CGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATG
121012 GTCTGCATGA
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
113 4 0.04
114 89 0.96
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (114 bp):
TAGCAAAAATAAGGAAACCCAATAGCATCTTCTGGAAATGTTCTTTAAGTTATCTGATCTGATTC
GGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATTTGCTCA
Found at i:123107 original size:54 final size:54
Alignment explanation
Indices: 123020--123173 Score: 263
Period size: 54 Copynumber: 2.9 Consensus size: 54
123010 AAATCTTGGT
*
123020 AGAAGCCACAGGAAAGGATGAATGTATTGTCAAATGTTTTACGAACATCTGAAC
1 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAAC
* *
123074 AGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAGC
1 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAAC
* *
123128 AGAAGCCACAGGAAAGGATGAATGCGCTGTCAAATGTTTTACGAAC
1 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
123174 CTACTATTCT
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAAC
Found at i:123569 original size:22 final size:22
Alignment explanation
Indices: 123540--123594 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
123530 ATCTACACTC
123540 TTCAAAGATGATA-AGTTCTCTT
1 TTCAAAGATGATAGA-TTCTCTT
*
123562 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
123584 TTCAAAGATGA
1 TTCAAAGATGA
123595 AAGCTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:126344 original size:55 final size:55
Alignment explanation
Indices: 126285--126647 Score: 412
Period size: 55 Copynumber: 6.7 Consensus size: 55
126275 AATCCTTGGC
* *
126285 AAACGGGTGCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTC-AT
1 AAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAT
* * * *
126339 AAAACGGGTCCGCTCTCTATTTCTTCAGAGAGTATAGAACTAGAATAATCTTC-AT
1 -AAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAT
*
126394 AAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAT
1 -AAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAT
* *
126450 AAACGGGTTCGCTCCCTA-TCCGTTCAGGGAGTATAGAACTCGAACAATCTTC-AT
1 AAACGGGTCCGCTCCCTATTCC-TTCAGAGAGTATAGAACTCGAACAATCTTCAAT
*
126504 AAAACGGGTCCGCTCCCTA-TCCGTTCAGGGAGTATA-AGACTCG----ATCTTCAAT
1 -AAACGGGTCCGCTCCCTATTCC-TTCAGAGAGTATAGA-ACTCGAACAATCTTCAAT
** * *
126556 AAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAAC
1 AAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAT
* ** *
126607 GAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTC
1 AAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTC
126648 AATCTTCAAC
Statistics
Matches: 281, Mismatches: 17, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
51 84 0.30
52 5 0.02
54 6 0.02
55 184 0.65
56 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (55 bp):
AAACGGGTCCGCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAT
Found at i:128073 original size:22 final size:23
Alignment explanation
Indices: 128042--128100 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
128032 CATTTTTTTC
*
128042 TTTTCATTTTTATT-ATTATTATT
1 TTTTC-TTTTTATTCATTATTACT
* *
128065 TTTTCTTTTT-TTCATTTTTCCT
1 TTTTCTTTTTATTCATTATTACT
128087 TTTTCTCTTTTATT
1 TTTTCT-TTTTATT
128101 TCTTCTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.07
22 17 0.57
23 9 0.30
24 2 0.07
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTCTTTTTATTCATTATTACT
Found at i:141198 original size:168 final size:169
Alignment explanation
Indices: 140869--141198 Score: 520
Period size: 168 Copynumber: 1.9 Consensus size: 169
140859 AAAATTAGCA
140869 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAAAAACAGAATGAGAA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT--AAAAAAAAACAGAATGAGAA
**
140934 AACGATTTTCATAGTTTCTCATTTTATCTTTTCTAAAACGAAATTGTTGAAAAGTAAGAAAACGA
64 AACGATTTTCATAGTTTCTCATTCAATCTTTTCTAAAACGAAATTGTTGAAAAGTAAGAAAACGA
* *
140999 TTTTCTTAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
129 TTTCCTTAGTTTTTTTACTTAATAAACTATTTCCAACAGCC
* ** *
141040 TTATCTTGAGATTGGGGCATGTTACCCAATTAACATGTTATTT-TGAAAAAA-ATAATGAGAAAA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAAAACAGAATGAGAAAA
* * *
141103 TGATTTTCATAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTTTTGAAAAGTAAGAAAACGAT
66 CGATTTTCATAGTTTCTCATTCAATCTTTTCT-AAAACGAAATTGTTGAAAAGTAAGAAAACGAT
141168 TTCCTTAGTTTTTTTACTTAATAAACTATTT
130 TTCCTTAGTTTTTTTACTTAATAAACTATTT
141199 TCCACATCTG
Statistics
Matches: 147, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
167 40 0.27
168 65 0.44
171 42 0.29
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (169 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAAAACAGAATGAGAAAA
CGATTTTCATAGTTTCTCATTCAATCTTTTCTAAAACGAAATTGTTGAAAAGTAAGAAAACGATT
TCCTTAGTTTTTTTACTTAATAAACTATTTCCAACAGCC
Found at i:141302 original size:76 final size:76
Alignment explanation
Indices: 141203--141573 Score: 681
Period size: 76 Copynumber: 4.9 Consensus size: 76
141193 CTATTTTCCA
*
141203 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATCG-TTTCA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT-GTTTTCA
*
141267 AAGCCTTAGGGT
65 AAACCTTAGGGT
*
141279 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCTTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
141344 AACCTTAGGGT
66 AACCTTAGGGT
*
141355 CATCTGTAAGTCCTGCAGTGCATGGTGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
141420 AGCCTTAGGGT
66 AACCTTAGGGT
141431 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
141496 AACCTTAGGGT
66 AACCTTAGGGT
141507 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
141572 AA
66 AA
141574 TGTTGAAAAC
Statistics
Matches: 286, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
75 1 0.00
76 285 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:151308 original size:76 final size:76
Alignment explanation
Indices: 151177--151683 Score: 899
Period size: 76 Copynumber: 6.6 Consensus size: 76
151167 TAACTCAACA
*
151177 CAAAACCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
1 CAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
151242 TTTGATGTTTT
66 TTTGATGTTTT
151253 CAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
1 CAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
151318 TTTGATGTTTT
66 TTTGATGTTTT
151329 CAAAGCCTTAGGGTCAT-TGGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCT
1 CAAAGCCTTAGGGTCATCT-GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCT
151393 TTTTGATGTTTT
65 TTTTGATGTTTT
*
151405 CAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTT
1 CAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
151470 TTTGATGTTTT
66 TTTGATGTTTT
*
151481 CAAAGCCTTAGGGTCATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
1 CAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
151546 TTTGATGTTTT
66 TTTGATGTTTT
*
151557 CAAAGCCTTAGGGTCATCTGTAAGTCCTGCGGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
1 CAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
151622 TTTGATGTTTT
66 TTTGATGTTTT
* * * * *
151633 CAAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 C--AAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAA
151684 CATTTTCATC
Statistics
Matches: 415, Mismatches: 12, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
75 1 0.00
76 371 0.89
77 1 0.00
78 42 0.10
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (76 bp):
CAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTT
TTTGATGTTTT
Found at i:151825 original size:3 final size:3
Alignment explanation
Indices: 151817--151869 Score: 79
Period size: 3 Copynumber: 17.0 Consensus size: 3
151807 AAATTTAAAT
151817 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA
*
151864 ATA TTA
1 TTA TTA
151870 CAAAACCCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 40 0.87
4 6 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:151963 original size:32 final size:32
Alignment explanation
Indices: 151927--151990 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
151917 GGTTTACATC
151927 CCATACACCCAGCCGCCGTTTCTATCAACCGT
1 CCATACACCCAGCCGCCGTTTCTATCAACCGT
151959 CCATACACCCAGCCGCCGTTTCTATCAACCGT
1 CCATACACCCAGCCGCCGTTTCTATCAACCGT
151991 TGGATCTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.44, G:0.12, T:0.22
Consensus pattern (32 bp):
CCATACACCCAGCCGCCGTTTCTATCAACCGT
Found at i:153191 original size:16 final size:16
Alignment explanation
Indices: 153170--153202 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
153160 TTACTTTTAA
153170 ATTTATTT-TAAATATT
1 ATTTATTTAT-AATATT
153186 ATTTATTTATAATATT
1 ATTTATTTATAATATT
153202 A
1 A
153203 ATTTGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTATTTATAATATT
Found at i:153228 original size:17 final size:17
Alignment explanation
Indices: 153208--153241 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
153198 TATTAATTTG
153208 TTATTAATTTT-ATATTA
1 TTATT-ATTTTCATATTA
153225 TTATTATTTTCATATTA
1 TTATTATTTTCATATTA
153242 GTCACATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTTTCATATTA
Found at i:153231 original size:20 final size:21
Alignment explanation
Indices: 153148--153232 Score: 59
Period size: 20 Copynumber: 4.0 Consensus size: 21
153138 TATATTTTGC
*
153148 AATTTAATATT-ATTACTT-TT
1 AATTTTATATTAATTA-TTATT
* * *
153168 AAATTTATTTTAAATATTATT
1 AATTTTATATTAATTATTATT
* *
153189 TATTTATAATATTAATTTGTTATT
1 AATTT-T-ATATTAA-TTATTATT
153213 AATTTTATATT-ATTATTATT
1 AATTTTATATTAATTATTATT
153233 TTCATATTAG
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
20 17 0.35
21 9 0.18
22 6 0.12
23 7 0.14
24 10 0.20
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (21 bp):
AATTTTATATTAATTATTATT
Found at i:153254 original size:2 final size:2
Alignment explanation
Indices: 153247--153287 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
153237 TATTAGTCAC
*
153247 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AA 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
153288 TTTTTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:156920 original size:17 final size:18
Alignment explanation
Indices: 156898--156931 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
156888 AATATAGGAA
156898 GCAAAGCAGA-AGCAGAG
1 GCAAAGCAGAGAGCAGAG
*
156915 GCAAAGTAGAGAGCAGA
1 GCAAAGCAGAGAGCAGA
156932 TAACACAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.15, G:0.35, T:0.03
Consensus pattern (18 bp):
GCAAAGCAGAGAGCAGAG
Found at i:160007 original size:13 final size:13
Alignment explanation
Indices: 159985--160018 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
159975 AAAATTTAGA
*
159985 TTTTTATTTTCTC
1 TTTTTCTTTTCTC
*
159998 TTTTTCTTTTCTT
1 TTTTTCTTTTCTC
160011 TTTTTCTT
1 TTTTTCTT
160019 GGAATATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTTCTC
Found at i:160301 original size:25 final size:23
Alignment explanation
Indices: 160264--160310 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
160254 TGGTTGGTTG
*
160264 AATGGATGTTTAAACTTTATTTTT
1 AATGGATATTT-AACTTTATTTTT
*
160288 AATGGTATATTTAAGTTTATTTT
1 AATGG-ATATTTAACTTTATTTT
160311 GGTTCTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (23 bp):
AATGGATATTTAACTTTATTTTT
Found at i:161908 original size:4 final size:4
Alignment explanation
Indices: 161901--161946 Score: 56
Period size: 4 Copynumber: 11.0 Consensus size: 4
161891 GAAAGAAAAC
* *
161901 TAAA TAAA TAAT TAAA TAAA TAAA TAAA TAGA TAAGA TAAGA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA-A TAA-A TAAA
161947 GAATAAAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
4 28 0.76
5 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:162105 original size:35 final size:35
Alignment explanation
Indices: 162058--162124 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
162048 ATACATAATA
*
162058 AATATAAGAAAAAGTAAACCTACCCCCATCACTTC
1 AATATAAGAAAAAGAAAACCTACCCCCATCACTTC
162093 AATATTAA-AAAAAGAAAACCTACCCCCATCAC
1 AATA-TAAGAAAAAGAAAACCTACCCCCATCAC
162125 CCCATCGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 27 0.90
36 3 0.10
ACGTcount: A:0.49, C:0.28, G:0.04, T:0.18
Consensus pattern (35 bp):
AATATAAGAAAAAGAAAACCTACCCCCATCACTTC
Found at i:164396 original size:106 final size:105
Alignment explanation
Indices: 164185--164396 Score: 334
Period size: 106 Copynumber: 2.0 Consensus size: 105
164175 TTGCGTTGTT
164185 TCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTCTGAAACTGGAAAGTGTTTGTTGACA
1 TCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTCTGAAACTGGAAAGTGTTTGTTGACA
* *
164250 ACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
66 ACCAACGGCCCCTTCGTTGTGAAGTTGAACTTGTGATGTC
* * * * * *
164290 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGACATTGGGAAGTTGTTTGTTGAC
1 TCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTCTGAAACTGGAAAG-TGTTTGTTGAC
*
164355 AGCCAACGGCCCCTTCGTTGTGAAGTTGAACTTGTGATGTC
65 AACCAACGGCCCCTTCGTTGTGAAGTTGAACTTGTGATGTC
164396 T
1 T
164397 TAAACTGGGA
Statistics
Matches: 97, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
105 47 0.48
106 50 0.52
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (105 bp):
TCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTCTGAAACTGGAAAGTGTTTGTTGACA
ACCAACGGCCCCTTCGTTGTGAAGTTGAACTTGTGATGTC
Found at i:164434 original size:64 final size:64
Alignment explanation
Indices: 164346--164717 Score: 600
Period size: 64 Copynumber: 5.8 Consensus size: 64
164336 TGGGAAGTTG
* * * *
164346 TTTGTTGACAGCCAACGGCCCCTTCGTTGTGAAGTTGAACTTGTGATGTCTTAAACTGGGAAAT
1 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAAT
* *
164410 TTTGTTGACAACCAGCAGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGATACTGGGAAATT
1 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAA-T
*
164475 TTTGTCGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAAT
1 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAAT
* *
164539 TTTGTTGACAACCAGCGGCCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGACACTGGGAAAT
1 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAAT
* * * *
164603 TTTGTTGACAACCAGCGGCCCATTCGTTGTGAAGTTGAACTTGTGTTGTCTAAAACTAGAAAAT
1 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAAT
* *
164667 TTTGTTGACAACCAGCGGCCCCTTCATCGTGAAGTTGAACTTGTGTTGTCT
1 TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
164718 TGAGTGGAAC
Statistics
Matches: 286, Mismatches: 21, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
64 225 0.79
65 61 0.21
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (64 bp):
TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGAAACTGGGAAAT
Found at i:164513 original size:129 final size:129
Alignment explanation
Indices: 164328--164717 Score: 629
Period size: 129 Copynumber: 3.0 Consensus size: 129
164318 TGAAATTGGC
* * * * *
164328 TCTGACATTGGGAAGTTGTTTGTTGACAGCCAACGGCCCCTTCGTTGTGAAGTTGAACTTGTGAT
1 TCTGACACTGGGAAATT-TTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTT
* * *
164393 GTCTTAAACTGGGAAATTTTGTTGACAACCAGCAGCCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 GTCTAAAACTGGGAAATTTTGTTGACAACCAGCGGCCCCTTCGTCGTGAAGTTGAACTTGTGTTG
* *
164458 TCTGATACTGGGAAATTTTTGTCGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTG
1 TCTGACACTGGGAAATTTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTG
*
164523 TCTGAAACTGGGAAATTTTGTTGACAACCAGCGGCCCCTTCGTCGTGAAGTTGAACTTGTGTTG
66 TCTAAAACTGGGAAATTTTGTTGACAACCAGCGGCCCCTTCGTCGTGAAGTTGAACTTGTGTTG
*
164587 TCTGACACTGGGAAA-TTTTGTTGACAACCAGCGGCCCATTCGTTGTGAAGTTGAACTTGTGTTG
1 TCTGACACTGGGAAATTTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTG
* * *
164651 TCTAAAACTAGAAAATTTTGTTGACAACCAGCGGCCCCTTCATCGTGAAGTTGAACTTGTGTTG
66 TCTAAAACTGGGAAATTTTGTTGACAACCAGCGGCCCCTTCGTCGTGAAGTTGAACTTGTGTTG
164715 TCT
1 TCT
164718 TGAGTGGAAC
Statistics
Matches: 243, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
128 110 0.45
129 119 0.49
130 14 0.06
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (129 bp):
TCTGACACTGGGAAATTTTTGTTGACAACCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGTGTTG
TCTAAAACTGGGAAATTTTGTTGACAACCAGCGGCCCCTTCGTCGTGAAGTTGAACTTGTGTTG
Found at i:165845 original size:16 final size:14
Alignment explanation
Indices: 165824--165866 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
165814 TTTTCCTTCA
*
165824 TTTTTTTGGTTTTT
1 TTTTTTTTGTTTTT
165838 GTTTTTTTTG-TTTT
1 -TTTTTTTTGTTTTT
165852 TTTTTTTTGTTTTT
1 TTTTTTTTGTTTTT
165866 T
1 T
165867 CCTCTTTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
14 9 0.35
15 8 0.31
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (14 bp):
TTTTTTTTGTTTTT
Found at i:165866 original size:15 final size:15
Alignment explanation
Indices: 165824--165865 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
165814 TTTTCCTTCA
165824 TTTTTTTGGTTTTTG
1 TTTTTTTGGTTTTTG
*
165839 TTTTTTTTGTTTTT-
1 TTTTTTTGGTTTTTG
165853 TTTTTTT-GTTTTT
1 TTTTTTTGGTTTTT
165866 TCCTCTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 6 0.23
14 7 0.27
15 13 0.50
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (15 bp):
TTTTTTTGGTTTTTG
Found at i:176392 original size:4 final size:4
Alignment explanation
Indices: 176385--176430 Score: 56
Period size: 4 Copynumber: 11.0 Consensus size: 4
176375 GAAAGAAAAC
* *
176385 TAAA TAAA TAAT TAAA TAAA TAAA TAAA TAGA TAAGA TAAGA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA-A TAA-A TAAA
176431 GAAGAAAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
4 28 0.76
5 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:176581 original size:35 final size:36
Alignment explanation
Indices: 176542--176609 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
176532 ATACATAATA
* *
176542 AATA-TAAGAAAAAGTAAACATACCCCCATCACTTC
1 AATATTAAAAAAAAGGAAACATACCCCCATCACTTC
*
176577 AATATTAAAAAAAAGGAAACCTACCCCCATCAC
1 AATATTAAAAAAAAGGAAACATACCCCCATCAC
176610 CCCACCGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.50, C:0.26, G:0.06, T:0.18
Consensus pattern (36 bp):
AATATTAAAAAAAAGGAAACATACCCCCATCACTTC
Found at i:184007 original size:19 final size:21
Alignment explanation
Indices: 183970--184012 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
183960 TAACTTTTTC
183970 TTTTATCTTTCATTATTAA-T
1 TTTTATCTTTCATTATTAACT
*
183990 TTTTCTCTTTCATT-TTAACT
1 TTTTATCTTTCATTATTAACT
184010 TTT
1 TTT
184013 ACCTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTCATTATTAACT
Found at i:184018 original size:19 final size:20
Alignment explanation
Indices: 183969--184018 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
183959 TTAACTTTTT
*
183969 CTTTTATCTTTCATTATTAA
1 CTTTTACCTTTCATTATTAA
*
183989 -TTTTTCTCTTTCATT-TTAA
1 CTTTTAC-CTTTCATTATTAA
184008 CTTTTACCTTT
1 CTTTTACCTTT
184019 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTACCTTTCATTATTAA
Found at i:185478 original size:11 final size:11
Alignment explanation
Indices: 185462--185489 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
185452 AGGAGCTGCT
185462 AGCACCTCCAA
1 AGCACCTCCAA
185473 AGCACCTCCAA
1 AGCACCTCCAA
185484 AGCACC
1 AGCACC
185490 ACCATCACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.46, G:0.11, T:0.07
Consensus pattern (11 bp):
AGCACCTCCAA
Found at i:190717 original size:31 final size:31
Alignment explanation
Indices: 190679--190820 Score: 214
Period size: 31 Copynumber: 4.6 Consensus size: 31
190669 GGGTCGAGGG
190679 TTTACCTATGTTCTTCGGGACATATGGACTA
1 TTTACCTATGTTCTTCGGGACATATGGACTA
* *
190710 TTTACCTATGTTCTTCGGTACATATGGACTG
1 TTTACCTATGTTCTTCGGGACATATGGACTA
* *
190741 TTTACCTATGTTCTTCGGGACATATTGACTG
1 TTTACCTATGTTCTTCGGGACATATGGACTA
*
190772 TTTACCTATATTCTTCGGGACATATGGACTGA
1 TTTACCTATGTTCTTCGGGACATATGGACT-A
*
190804 -TTACCTAGGTTCTTCGG
1 TTTACCTATGTTCTTCGG
190821 AATCTATGGA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (31 bp):
TTTACCTATGTTCTTCGGGACATATGGACTA
Found at i:194995 original size:31 final size:31
Alignment explanation
Indices: 194844--194999 Score: 222
Period size: 31 Copynumber: 5.0 Consensus size: 31
194834 AGGGTCGAGG
*
194844 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGATATATGGACT
194875 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGATATATGGACT
* *
194906 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGATATATGGACT
* *
194937 GTTTACCTATATTCTTCGGGATATATGGATT
1 GTTTACCTATGTTCTTCGGGATATATGGACT
* * * * *
194968 GATTACCTAGGTTCTTTGGAATTTATGGACT
1 GTTTACCTATGTTCTTCGGGATATATGGACT
194999 G
1 G
195000 GTCCTTCGGG
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 111 1.00
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.42
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGATATATGGACT
Found at i:195505 original size:21 final size:21
Alignment explanation
Indices: 195480--195522 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
195470 AAAGAATATA
195480 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
195501 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
195522 T
1 T
195523 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:208876 original size:3 final size:3
Alignment explanation
Indices: 208868--208933 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
208858 CTGGCAATGC
208868 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
208916 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
208934 GGTGTATGAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:213732 original size:5 final size:5
Alignment explanation
Indices: 213718--213757 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
213708 GTCTACAAAA
*
213718 ATATT TTATT ATATT ATATT ATATT ATATT -TATT -TATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
213758 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 8 0.25
5 24 0.75
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
ATATT
Found at i:213777 original size:14 final size:13
Alignment explanation
Indices: 213719--213779 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 13
213709 TCTACAAAAA
213719 TATTTTATTA-TAT
1 TATTTT-TTATTAT
* *
213732 TATATTATATTA-
1 TATTTTTTATTAT
213744 TATTTATTTATTAT
1 TATTT-TTTATTAT
*
213758 TATTTTTTAATTTT
1 TATTTTTT-ATTAT
213772 TATTTTTT
1 TATTTTTT
213780 TTCAGGCCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 6 0.15
13 16 0.41
14 17 0.44
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTTTATTAT
Found at i:213869 original size:33 final size:33
Alignment explanation
Indices: 213831--213897 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
213821 GAAAATAAAT
* *
213831 CAACGTATTTTAGTCCTATTAAAACACTAAAAC
1 CAACGTATCTGAGTCCTATTAAAACACTAAAAC
213864 CAACGTATCTGAGTCCTATTAAAACACTAAAAC
1 CAACGTATCTGAGTCCTATTAAAACACTAAAAC
213897 C
1 C
213898 GAAGCATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (33 bp):
CAACGTATCTGAGTCCTATTAAAACACTAAAAC
Found at i:213910 original size:33 final size:33
Alignment explanation
Indices: 213831--213912 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
213821 GAAAATAAAT
* *
213831 CAACGTATTTTAGTCCTATTAAAACACTAAAAC
1 CAACGCATTTGAGTCCTATTAAAACACTAAAAC
* *
213864 CAACGTATCTGAGTCCTATTAAAACACTAAAAC
1 CAACGCATTTGAGTCCTATTAAAACACTAAAAC
213897 CGAA-GCATTTGAGTCC
1 C-AACGCATTTGAGTCC
213913 AAGTAGGACT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 42 0.95
34 2 0.05
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (33 bp):
CAACGCATTTGAGTCCTATTAAAACACTAAAAC
Found at i:218154 original size:110 final size:108
Alignment explanation
Indices: 217947--218224 Score: 307
Period size: 110 Copynumber: 2.6 Consensus size: 108
217937 ACGAATGGGC
* * ** * *
217947 TTCCCAG-T-TTCAGAGTCAATTTCAACTTCACAACGAATGATATTGGACTAAAGACAGCACGAG
1 TTCCCAGTTCTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
* * *
218010 CTCAACTTCACAACGAATGGGCGACTGACTGTCAACAAACACCT
66 CTCAACTTCACAACGAAGGGGCGACTGACCGTCAACAAACA-AT
* *
218054 TT-TCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACA
1 TTCCCAG-TTC-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACA
* * * *
218118 AGCTCAACTTCACAGCGAAGGGGCGGCTGGCCGTCAACAAATAAT
64 AGCTCAACTTCACAACGAAGGGGCGACTGACCGTCAACAAACAAT
* * * *
218163 TTCCCAGTTC--CAGAGTCAATTTTAACTTCAC-GACGGAGGATATTGGACTCGAAACAATACAA
1 TTCCCAGTTCTTCAGAGTCAATTTCAACTTCACAG-CGAAGGATATTGGACTCGAGACAACACAA
218225 CTTACTTGGA
Statistics
Matches: 144, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
105 1 0.01
106 48 0.33
107 2 0.01
108 1 0.01
109 6 0.04
110 86 0.60
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (108 bp):
TTCCCAGTTCTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
CTCAACTTCACAACGAAGGGGCGACTGACCGTCAACAAACAAT
Found at i:218753 original size:37 final size:36
Alignment explanation
Indices: 218712--218888 Score: 214
Period size: 36 Copynumber: 4.9 Consensus size: 36
218702 ACAAGAGGTC
* * *
218712 GTCTCGCTTGAGACTAATTT-ACTCAAAACAAAGTTTT
1 GTCTCTCTTGAGAC-AGTTTCACTTAAAACAAA-TTTT
* *
218749 GTCTCTCTTGAGACTGTTT-ATCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCA-CTTAAAACAAATTTT
* *
218785 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCACTTAAAACAAATTTT
*
218821 GTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCACTTAAAACAAATTTT
* * *
218857 GTCTCTCTTGAGGCAGTTTCCCTTGAAACAAA
1 GTCTCTCTTGAGACAGTTTCACTTAAAACAAA
218889 ATCTTTGAAT
Statistics
Matches: 128, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
36 106 0.83
37 22 0.17
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (36 bp):
GTCTCTCTTGAGACAGTTTCACTTAAAACAAATTTT
Found at i:218792 original size:36 final size:36
Alignment explanation
Indices: 218737--218888 Score: 232
Period size: 36 Copynumber: 4.2 Consensus size: 36
218727 AATTTACTCA
* *
218737 AAACAAAGTTTTGTCTCTCTTGAGACTGTTTATCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTG
*
218774 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
218810 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
218846 AAACAAATTTTGTCTCTCTTGAGGCAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
218882 AAACAAA
1 AAACAAA
218889 ATCTTTGAAT
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 102 0.94
37 7 0.06
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:218795 original size:21 final size:21
Alignment explanation
Indices: 218769--218867 Score: 69
Period size: 21 Copynumber: 5.3 Consensus size: 21
218759 AGACTGTTTA
218769 TCTTGAAACAAATTTTGTCTC
1 TCTTGAAACAAATTTTGTCTC
* *
218790 TCTTGAGAC--A-GTT-TC-C
1 TCTTGAAACAAATTTTGTCTC
218806 -CTTGAAACAAATTTTGTCTC
1 TCTTGAAACAAATTTTGTCTC
* *
218826 TCTTGAGAC--A-GTT-TC-C
1 TCTTGAAACAAATTTTGTCTC
*
218842 -CTTAAAACAAATTTTGTCTC
1 TCTTGAAACAAATTTTGTCTC
218862 TCTTGA
1 TCTTGA
218868 GGCAGTTTCC
Statistics
Matches: 56, Mismatches: 10, Indels: 24
0.62 0.11 0.27
Matches are distributed among these distances:
15 13 0.23
16 2 0.04
17 6 0.11
18 8 0.14
19 6 0.11
20 2 0.04
21 19 0.34
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (21 bp):
TCTTGAAACAAATTTTGTCTC
Found at i:218940 original size:101 final size:102
Alignment explanation
Indices: 218800--218990 Score: 244
Period size: 101 Copynumber: 1.9 Consensus size: 102
218790 TCTTGAGACA
** *
218800 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAAC-AAATTTTGTCTCTC
1 GTTTCCCTTGAAACAAATTTCATATCTCTTGAGACAGTTTCCCTTAAAACTAAATTTTGTCTCTC
218864 TTGAG-GCAGTTTCCCTTGAAACAAAATCTTTGAATAT
66 TTGAGAGC-GTTTCCCTTGAAACAAAATCTTTGAATAT
* ** ** *
218901 GTTTTCCTTGAAACAAATTTCATATC-CGTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
1 GTTTCCCTTGAAACAAATTTCATATCTC-TTGAGACAGTTTCCCTTAAAACTAAATTTTGTCTCT
* *
218965 CTTGAGATCGTTTCTCTTGAAACAAA
65 CTTGAGAGCGTTTCCCTTGAAACAAA
218991 TTTTGTCTCT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
100 1 0.01
101 40 0.53
102 34 0.45
103 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (102 bp):
GTTTCCCTTGAAACAAATTTCATATCTCTTGAGACAGTTTCCCTTAAAACTAAATTTTGTCTCTC
TTGAGAGCGTTTCCCTTGAAACAAAATCTTTGAATAT
Found at i:218993 original size:138 final size:137
Alignment explanation
Indices: 218770--219025 Score: 381
Period size: 138 Copynumber: 1.9 Consensus size: 137
218760 GACTGTTTAT
** *
218770 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
1 CTTGAAACAAATTTCATATCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
*
218835 AGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGGCAGTTTCCCTTGAAACAAAATCTTTGAATA
66 AGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATA
218900 TGTTTTC
131 TGTTTTC
** * *
218907 CTTGAAACAAATTTCATATC-CGTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAG
1 CTTGAAACAAATTTCATATCTC-TTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAG
* *
218971 ATC-GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
64 A-CAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
219026 GTTTTGTCTC
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
136 1 0.01
137 36 0.34
138 68 0.64
139 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (137 bp):
CTTGAAACAAATTTCATATCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAC
AGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATA
TGTTTTC
Found at i:219002 original size:21 final size:21
Alignment explanation
Indices: 218977--219041 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
218967 TGAGATCGTT
218977 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
218998 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
*
219015 -C-CTTGAAACAAGTTTTGTC
1 TCTCTTGAAACAAATTTTGTC
219034 TCTCTTGA
1 TCTCTTGA
219042 GACAGTTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 2 0.06
18 4 0.12
19 3 0.09
20 1 0.03
21 15 0.45
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:219002 original size:36 final size:36
Alignment explanation
Indices: 218903--219125 Score: 202
Period size: 36 Copynumber: 6.4 Consensus size: 36
218893 TTGAATATGT
** *
218903 TTTC-CTTGAAACAAATTTCATATC-CGTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTC-TTGAGACAG
* * *
218938 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATC-G
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGA-CAG
218975 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
219011 TTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
219047 TTTCTCTTGAAACACCAA-------TCT-TTGA-ATATG
1 TTTCTCTTGAAACA--AATTTTGTCTCTCTTGAGACA-G
* *
219077 TTTCTCTTAAAACAAA-ATTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
219112 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
219126 CAAAAAAAAC
Statistics
Matches: 155, Mismatches: 17, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
28 2 0.01
29 2 0.01
30 18 0.12
31 3 0.02
34 3 0.02
35 23 0.15
36 75 0.48
37 26 0.17
38 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:219033 original size:174 final size:174
Alignment explanation
Indices: 218747--219116 Score: 527
Period size: 174 Copynumber: 2.1 Consensus size: 174
218737 AAACAAAGTT
* * * * * *
218747 TTGTCTCTCTTGAGACTGTTTATCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
1 TTGTCTATCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGA
*
218811 AACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGGCAGTTT
66 AACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTT
*
218876 CCCTTGAAACA-AAATCTTTGAATATGTTT-TCCTTGAAAC-AAA
131 CCCTTGAAACACAAATCTTTGAATATGTTTCT-CTTAAAACAAAA
*
218918 TT-TCATATCCGTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATC-GTTTCTC
1 TTGTC-TAT-C-TTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGA-CAGTTTCCC
* *
218981 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACA
62 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACA
* *
219046 GTTTCTCTTGAAACACCAATCTTTGAATATGTTTCTCTTAAAACAAAA
127 GTTTCCCTTGAAACACAAATCTTTGAATATGTTTCTCTTAAAACAAAA
*
219094 TTGTCTCTCTTGAGACAGTTTCT
1 TTGTCTATCTTGAGACAGTTTCT
219117 CTTGAAACAC
Statistics
Matches: 176, Mismatches: 14, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
170 2 0.01
171 4 0.02
172 1 0.01
173 18 0.10
174 115 0.65
175 26 0.15
176 8 0.05
177 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (174 bp):
TTGTCTATCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGA
AACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTT
CCCTTGAAACACAAATCTTTGAATATGTTTCTCTTAAAACAAAA
Found at i:219635 original size:3 final size:3
Alignment explanation
Indices: 219608--219671 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
219598 CAAAAACATT
* *
219608 TTA TTA -TA TTA -TA TTTA CTA CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
219652 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
219672 TCAAGCCCCA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 4 0.07
3 50 0.89
4 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Done.