Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_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: 4521124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 21
Found at i:2290 original size:22 final size:21
Alignment explanation
Indices: 2248--2287 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2238 GAGTTTGTTT
*
2248 TCATTTTTAAATTTTGAAACA
1 TCATTTTTAAATTTTAAAACA
*
2269 TCATTTTTATATTTTAAAA
1 TCATTTTTAAATTTTAAAA
2288 ACAATTTCTC
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:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTAAATTTTAAAACA
Found at i:22584 original size:15 final size:15
Alignment explanation
Indices: 22557--22595 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
22547 ATAGCTACTT
22557 AGAGAAGATGAAG-GA
1 AGAGAA-ATGAAGAGA
22572 AGAAGAAATGAAGAGA
1 AG-AGAAATGAAGAGA
22588 AGAGAAAT
1 AGAGAAAT
22596 ATGATTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.33, T:0.08
Consensus pattern (15 bp):
AGAGAAATGAAGAGA
Found at i:26317 original size:41 final size:41
Alignment explanation
Indices: 26279--26408 Score: 122
Period size: 41 Copynumber: 3.1 Consensus size: 41
26269 TCGTTTTTCA
*
26279 ACAAACGTCGTAAGAGAGTAGTACTTTAGCGGCATTTTTAT
1 ACAAACGTCGTAATAGAGTAGTACTTTAGCGGCATTTTTAT
* * * *
26320 ACAAATGTCGTAATA-AGGTTAAT-CTATAGTGGCATTTTT-T
1 ACAAACGTCGTAATAGA-G-TAGTACTTTAGCGGCATTTTTAT
* * * *
26360 CAATAAATGTCGCAATAGAGTAGTACTTTAGCGACATTTTTAT
1 --ACAAACGTCGTAATAGAGTAGTACTTTAGCGGCATTTTTAT
26403 ACAAAC
1 ACAAAC
26409 ACCGCAATGA
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
40 2 0.03
41 35 0.51
42 30 0.43
43 2 0.03
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.34
Consensus pattern (41 bp):
ACAAACGTCGTAATAGAGTAGTACTTTAGCGGCATTTTTAT
Found at i:26340 original size:82 final size:83
Alignment explanation
Indices: 26138--26416 Score: 335
Period size: 83 Copynumber: 3.4 Consensus size: 83
26128 AAATGGTAAA
* * *
26138 TTTAGTGACGTTTTTATACAAACGCCGCAATAGGGTTCATCTATAGTGACATTTTTTCAACAAAC
1 TTTAGCGACATTTTTATACAAACGCCGCAATAGGGTTAATCTATAGTGACATTTTTTCAACAAAC
* * * *
26203 ATCATAACAGAGCAATAC
66 GTCGTAACAGAGTAGTAC
* * * * *
26221 TTTAACGATATTTTTATATAAACGCCGCAATAGGGTTAATCTATAGTGTC-GTTTTTCAACAAAC
1 TTTAGCGACATTTTTATACAAACGCCGCAATAGGGTTAATCTATAGTGACATTTTTTCAACAAAC
*
26285 GTCGTAAGAGAGTAGTAC
66 GTCGTAACAGAGTAGTAC
* * * * * * * *
26303 TTTAGCGGCATTTTTATACAAATGTCGTAATAAGGTTAATCTATAGTGGCATTTTTTCAATAAAT
1 TTTAGCGACATTTTTATACAAACGCCGCAATAGGGTTAATCTATAGTGACATTTTTTCAACAAAC
* *
26368 GTCGCAATAGAGTAGTAC
66 GTCGTAACAGAGTAGTAC
*
26386 TTTAGCGACATTTTTATACAAACACCGCAAT
1 TTTAGCGACATTTTTATACAAACGCCGCAAT
26417 GATTATAATG
Statistics
Matches: 163, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
82 67 0.41
83 96 0.59
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (83 bp):
TTTAGCGACATTTTTATACAAACGCCGCAATAGGGTTAATCTATAGTGACATTTTTTCAACAAAC
GTCGTAACAGAGTAGTAC
Found at i:26398 original size:42 final size:42
Alignment explanation
Indices: 26272--26400 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 42
26262 TATAGTGTCG
* *
26272 TTTTTCAACAAACGTCGTAAGAGAGTAGTACTTTAGCGGCA-
1 TTTTTCAACAAATGTCGTAATAGAGTAGTACTTTAGCGGCAT
* * *
26313 TTTTT-ATACAAATGTCGTAATA-AGGTTAAT-CTATAGTGGCAT
1 TTTTTCA-ACAAATGTCGTAATAGA-G-TAGTACTTTAGCGGCAT
* * *
26355 TTTTTCAATAAATGTCGCAATAGAGTAGTACTTTAGCGACAT
1 TTTTTCAACAAATGTCGTAATAGAGTAGTACTTTAGCGGCAT
26397 TTTT
1 TTTT
26401 ATACAAACAC
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
40 2 0.03
41 31 0.44
42 35 0.50
43 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (42 bp):
TTTTTCAACAAATGTCGTAATAGAGTAGTACTTTAGCGGCAT
Found at i:26664 original size:40 final size:40
Alignment explanation
Indices: 26527--26717 Score: 123
Period size: 40 Copynumber: 4.7 Consensus size: 40
26517 ACAAATATCG
* * * * * * *
26527 CTATAAACTCGTATTTTAGTGGCGTTTTTATACAATCGCCG
1 CTATAGACTTGTACTTTAGTGGC-TTTTTTTTCAAACGCCA
* * * * *
26568 CTATAGACTAGTGCTTTAGTGGCTTTTTTTATTAAATGTCA
1 CTATAGACTTGTACTTTAGTGGCTTTTTTT-TCAAACGCCA
* * *
26609 CAAAAAACTCT-TACTTTAGTGGCTTTTTTTTCAAACGCCA
1 CTATAGACT-TGTACTTTAGTGGCTTTTTTTTCAAACGCCA
* * * * * *
26649 CTATAGACTTGTACTTTAGTGGCATTTTATTAAAATGTCG
1 CTATAGACTTGTACTTTAGTGGCTTTTTTTTCAAACGCCA
* * * *
26689 CAATAGTCATGTACTTTAGTGGCGTTTTT
1 CTATAGACTTGTACTTTAGTGGCTTTTTT
26718 GTAATAAACG
Statistics
Matches: 114, Mismatches: 33, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
39 1 0.01
40 66 0.58
41 47 0.41
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (40 bp):
CTATAGACTTGTACTTTAGTGGCTTTTTTTTCAAACGCCA
Found at i:26717 original size:81 final size:80
Alignment explanation
Indices: 26531--26717 Score: 200
Period size: 81 Copynumber: 2.3 Consensus size: 80
26521 ATATCGCTAT
* * * * * *
26531 AAACTCGTATTTTAGTGGCGTTTTTATACAATCGCCGCTATAGACTAGTGCTTTAGTGGCTTTTT
1 AAACTCTTACTTTAGTGGCGTTTTTATACAAACGCCACTATAGACTAGTACTTTAGTGGCTTTTA
26596 TTATTAAATGTCACAAA
66 TTA-TAAATGTCAC-AA
* * *
26613 AAACTCTTACTTTAGTGGC-TTTTTTTTCAAACGCCACTATAGACTTGTACTTTAGTGGCATTTT
1 AAACTCTTACTTTAGTGGCGTTTTTATACAAACGCCACTATAGACTAGTACTTTAGTGGC-TTTT
*
26677 ATTA-AAATGTCGC-A
65 ATTATAAATGTCACAA
* *
26691 ATAGTCATGTACTTTAGTGGCGTTTTT
1 AAACTC-T-TACTTTAGTGGCGTTTTT
26718 GTAATAAACG
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 5 0.06
79 1 0.01
80 20 0.22
81 39 0.44
82 24 0.27
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.42
Consensus pattern (80 bp):
AAACTCTTACTTTAGTGGCGTTTTTATACAAACGCCACTATAGACTAGTACTTTAGTGGCTTTTA
TTATAAATGTCACAA
Found at i:26743 original size:42 final size:42
Alignment explanation
Indices: 26620--26811 Score: 148
Period size: 40 Copynumber: 4.7 Consensus size: 42
26610 AAAAAACTCT
* * * * *
26620 TACTTTAGTGGC-TTTTT-T-TTCAAACGCCACTATAGACTTG
1 TACTTTAGTGGCGTTTTTGTAAT-AAACGCCGCAATAGTCATG
* * *
26660 TACTTTAGTGGCATTTTAT-T-A-AAATGTCGCAATAGTCATG
1 TACTTTAGTGGCGTTTT-TGTAATAAACGCCGCAATAGTCATG
*
26700 TACTTTAGTGGCGTTTTTGTAATAAACGCCGCAATAATCATG
1 TACTTTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTCATG
** ** *
26742 TAC-TT-GTGGTATTTTTTGTAATAGGCGCCGCAATAGTCATA
1 TACTTTAGTGG-CGTTTTTGTAATAAACGCCGCAATAGTCATG
** *
26783 TACGCTAGTGGCGTTTTTATAATAAACGC
1 TACTTTAGTGGCGTTTTTGTAATAAACGC
26812 TGCGATTGTT
Statistics
Matches: 121, Mismatches: 23, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
39 1 0.01
40 46 0.38
41 35 0.29
42 35 0.29
43 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (42 bp):
TACTTTAGTGGCGTTTTTGTAATAAACGCCGCAATAGTCATG
Found at i:26771 original size:41 final size:42
Alignment explanation
Indices: 26687--26811 Score: 137
Period size: 41 Copynumber: 3.0 Consensus size: 42
26677 ATTAAAATGT
*
26687 CGCAATAGTCATGTACTTTAGTGGCGTTTTTGTAATAAACGC
1 CGCAATAGTCATGTACTTTAGTGGAGTTTTTGTAATAAACGC
* * **
26729 CGCAATAATCATGTAC-TT-GTGGTATTTTTTGTAATAGGCGC
1 CGCAATAGTCATGTACTTTAGTGG-AGTTTTTGTAATAAACGC
* ** * *
26770 CGCAATAGTCATATACGCTAGTGGCGTTTTTATAATAAACGC
1 CGCAATAGTCATGTACTTTAGTGGAGTTTTTGTAATAAACGC
26812 TGCGATTGTT
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
40 4 0.06
41 30 0.45
42 29 0.43
43 4 0.06
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (42 bp):
CGCAATAGTCATGTACTTTAGTGGAGTTTTTGTAATAAACGC
Found at i:31373 original size:3 final size:3
Alignment explanation
Indices: 31365--31409 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
31355 CGCTATTATA
* ** *
31365 GTC GTC GTC GTC ATC ACC GTC GTC GTC GTC GTC GCC GTC GTC GTC
1 GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC
31410 CTGCGCAGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.04, C:0.38, G:0.29, T:0.29
Consensus pattern (3 bp):
GTC
Found at i:31388 original size:18 final size:18
Alignment explanation
Indices: 31365--31409 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
31355 CGCTATTATA
31365 GTCGTCGTCGTCATCACC
1 GTCGTCGTCGTCATCACC
* *
31383 GTCGTCGTCGTCGTCGCC
1 GTCGTCGTCGTCATCACC
31401 GTCGTCGTC
1 GTCGTCGTC
31410 CTGCGCAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.04, C:0.38, G:0.29, T:0.29
Consensus pattern (18 bp):
GTCGTCGTCGTCATCACC
Found at i:33444 original size:17 final size:17
Alignment explanation
Indices: 33426--33463 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
33416 TAATTATGTA
33426 AAATA-TTAAAAAAATT
1 AAATACTTAAAAAAATT
*
33442 AAATACTTAAATAAATT
1 AAATACTTAAAAAAATT
*
33459 TAATA
1 AAATA
33464 TAAAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATACTTAAAAAAATT
Found at i:34472 original size:24 final size:24
Alignment explanation
Indices: 34440--34492 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
34430 CCCTGAGAAC
** *
34440 CCTTTTTACCCTTTGCTTGTACCT
1 CCTTTTTACCCAGTGCCTGTACCT
34464 CCTTTTTACCCAGTGCCTGTACCT
1 CCTTTTTACCCAGTGCCTGTACCT
34488 CCTTT
1 CCTTT
34493 AATCTATGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.09, C:0.36, G:0.09, T:0.45
Consensus pattern (24 bp):
CCTTTTTACCCAGTGCCTGTACCT
Found at i:34772 original size:39 final size:38
Alignment explanation
Indices: 34695--34774 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 38
34685 TGTGCGTTTA
* * *
34695 TTTAATAAATGAACGAACATGAACAAGATTTTTTGTTCG
1 TTTAATAAATGAACGAACATGAACAAGA-GTCTCGTTCG
34734 TTTAATTAAATGAACGAACATGAACATAG-GTCTCGTTCG
1 TTTAA-TAAATGAACGAACATGAACA-AGAGTCTCGTTCG
34773 TT
1 TT
34775 CATTTACGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 14 0.39
40 20 0.56
41 2 0.06
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (38 bp):
TTTAATAAATGAACGAACATGAACAAGAGTCTCGTTCG
Found at i:34808 original size:24 final size:24
Alignment explanation
Indices: 34781--34853 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
34771 CGTTCATTTA
34781 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * *
34805 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
34829 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
34853 C
1 C
34854 ATTCATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 42 0.95
25 2 0.05
ACGTcount: A:0.11, C:0.15, G:0.25, T:0.49
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:34810 original size:14 final size:14
Alignment explanation
Indices: 34791--34846 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
34781 CGTTCGTGAA
34791 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
34805 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
34819 CG-T---TTATGTT
1 CGTTCGGTTATGTT
*
34829 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
34843 CGTT
1 CGTT
34847 TATGTTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.09, C:0.14, G:0.25, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:34863 original size:24 final size:23
Alignment explanation
Indices: 34792--34866 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 23
34782 GTTCGTGAAC
* *
34792 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
34816 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
*
34840 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCGTTCA-TTAT
34864 GTT
1 GTT
34867 TAACCCAACC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 1 0.02
24 46 0.98
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.55
Consensus pattern (23 bp):
GTTCGTTTATGTTCGTTCATTAT
Found at i:35609 original size:10 final size:10
Alignment explanation
Indices: 35594--35689 Score: 56
Period size: 10 Copynumber: 10.7 Consensus size: 10
35584 GGGTCTCCAA
35594 CGTTTATGTT
1 CGTTTATGTT
35604 CGTTTATGTT
1 CGTTTATGTT
35614 CG----TGTT
1 CGTTTATGTT
*
35620 CATTTATGTT
1 CGTTTATGTT
*
35630 CGTGTTCGTGTT
1 CGT-TT-ATGTT
*
35642 CGTTT-CGTT
1 CGTTTATGTT
35651 CG----TGTT
1 CGTTTATGTT
35657 CGTTTATGTT
1 CGTTTATGTT
35667 CG----TGTT
1 CGTTTATGTT
35673 CGTTTATGTT
1 CGTTTATGTT
35683 CGTTTAT
1 CGTTTAT
35690 TTATTAAATG
Statistics
Matches: 67, Mismatches: 5, Indels: 28
0.67 0.05 0.28
Matches are distributed among these distances:
6 16 0.24
9 5 0.07
10 35 0.52
11 4 0.06
12 7 0.10
ACGTcount: A:0.07, C:0.14, G:0.23, T:0.56
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:35625 original size:16 final size:16
Alignment explanation
Indices: 35600--35685 Score: 109
Period size: 16 Copynumber: 5.1 Consensus size: 16
35590 CCAACGTTTA
35600 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
35616 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
35632 TGTTCGTGTTCGTTTCGTTCG
1 TGTTC--GTT--TAT-GTTCG
35653 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
35669 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
35685 T
1 T
35686 TTATTTATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
16 42 0.69
17 2 0.03
18 2 0.03
19 3 0.05
20 2 0.03
21 10 0.16
ACGTcount: A:0.06, C:0.14, G:0.24, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:35635 original size:6 final size:6
Alignment explanation
Indices: 35626--35675 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
35616 TGTTCATTTA
*
35626 TGTTCG TGTTCG TGTTCG T-TTC- -GTTCG TGTTCG T-TT-A TGTTCG
1 TGTTCG TGTTCG TGTTCG TGTTCG TGTTCG TGTTCG TGTTCG TGTTCG
35669 TGTTCG T
1 TGTTCG T
35676 TTATGTTCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 4 0.11
5 7 0.19
6 26 0.70
ACGTcount: A:0.02, C:0.16, G:0.28, T:0.54
Consensus pattern (6 bp):
TGTTCG
Found at i:35653 original size:21 final size:22
Alignment explanation
Indices: 35610--35659 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
35600 TGTTCGTTTA
*
35610 TGTTCGTGTTCATTTATGTTCG
1 TGTTCGTGTTCATTTACGTTCG
*
35632 TGTTCGTGTTCGTTT-CGTTCG
1 TGTTCGTGTTCATTTACGTTCG
35653 TGTTCGT
1 TGTTCGT
35660 TTATGTTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.04, C:0.16, G:0.26, T:0.54
Consensus pattern (22 bp):
TGTTCGTGTTCATTTACGTTCG
Found at i:35656 original size:37 final size:38
Alignment explanation
Indices: 35600--35675 Score: 127
Period size: 37 Copynumber: 2.0 Consensus size: 38
35590 CCAACGTTTA
*
35600 TGTTCGTTTATGTTCGTGTTCATTTATGTTCGTGTTCG
1 TGTTCGTTTACGTTCGTGTTCATTTATGTTCGTGTTCG
*
35638 TGTTCGTTT-CGTTCGTGTTCGTTTATGTTCGTGTTCG
1 TGTTCGTTTACGTTCGTGTTCATTTATGTTCGTGTTCG
35675 T
1 T
35676 TTATGTTCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 27 0.75
38 9 0.25
ACGTcount: A:0.05, C:0.14, G:0.25, T:0.55
Consensus pattern (38 bp):
TGTTCGTTTACGTTCGTGTTCATTTATGTTCGTGTTCG
Found at i:35776 original size:16 final size:16
Alignment explanation
Indices: 35755--35787 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
35745 AAAAAAATTT
35755 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
35771 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
35787 T
1 T
35788 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:38038 original size:21 final size:21
Alignment explanation
Indices: 38008--38054 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
37998 TGATTTATTA
*
38008 TTATGGATTTCAAGTTGGTTG
1 TTATGAATTTCAAGTTGGTTG
*
38029 TTATGAATTTCAAGTTTGTTG
1 TTATGAATTTCAAGTTGGTTG
38050 TTATG
1 TTATG
38055 GATGTCAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.23, T:0.51
Consensus pattern (21 bp):
TTATGAATTTCAAGTTGGTTG
Found at i:40711 original size:31 final size:31
Alignment explanation
Indices: 40673--40923 Score: 235
Period size: 31 Copynumber: 8.0 Consensus size: 31
40663 GATCCTCGGC
* *
40673 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
40704 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
* **
40735 TACTGTCCATATGTCTCAAAAG-ACATAGGTA
1 AACTGTCCATATGT-TCCGAAGAACATAGGTA
*
40766 ATTA-TGTCCATATGTTCCGTAGAACATAGGTA
1 A--ACTGTCCATATGTTCCGAAGAACATAGGTA
* *
40798 TATTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* * *
40829 ATTCTATCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
*
40861 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* *
40892 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
40924 TACCCTCAAC
Statistics
Matches: 179, Mismatches: 26, Indels: 29
0.76 0.11 0.12
Matches are distributed among these distances:
30 7 0.04
31 97 0.54
32 68 0.38
33 7 0.04
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:40789 original size:63 final size:63
Alignment explanation
Indices: 40698--40926 Score: 397
Period size: 63 Copynumber: 3.7 Consensus size: 63
40688 CCGAAGAACC
* * *
40698 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCAAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
* *
40760 TAGGTAATTATGTCCATATGTTCCGTAGAACATAGGTATATTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
*
40823 TAGGTAATTCTATCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
40886 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
40927 CCTCAACTCT
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
62 7 0.04
63 150 0.96
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
Found at i:40868 original size:94 final size:95
Alignment explanation
Indices: 40674--40926 Score: 259
Period size: 94 Copynumber: 2.7 Consensus size: 95
40664 ATCCTCGGCA
* * **
40674 ACTGTCCATAGGTTCCGAAGAACCTAGGTAAACTGTCCATATGTTCCTTAGAACATAGGTATACT
1 ACTGTCCATATGTTCCGAAGAACATAGGTAAACTGTCCATATGTTCCAAAGAACATAGGTATACT
*
40739 GTCCATATGTCTCAAAAGACATAGGTAATT
66 ATCCATATGTCTCAAAAGACATAGGTAATT
* * * * *
40769 A-TGTCCATATGTTCCGTAGAACATAGGTATATTGTCCATATGTCTCGAAAG-ACATAGGTAATT
1 ACTGTCCATATGTTCCGAAGAACATAGGTAAACTGTCCATATGT-TCCAAAGAACATAGGT-ATA
***
40832 CTATCCATATGT-TCCGTAGAACATAGGT-A-T
64 CTATCCATATGTCTCAAAAG-ACATAGGTAATT
* **
40862 ACTGTCCATATG-TCTCGAA-AGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTAT
1 ACTGTCCATATGTTC-CGAAGA-ACATAGGTAA-ACTGTCCATATGTTCCAAAGAACATAGGTAT
40925 AC
63 AC
40927 CCTCAACTCT
Statistics
Matches: 129, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
93 5 0.04
94 79 0.61
95 45 0.35
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (95 bp):
ACTGTCCATATGTTCCGAAGAACATAGGTAAACTGTCCATATGTTCCAAAGAACATAGGTATACT
ATCCATATGTCTCAAAAGACATAGGTAATT
Found at i:45686 original size:30 final size:30
Alignment explanation
Indices: 45650--45721 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
45640 CCCAAAGGAC
* *
45650 CTATCCAGAGGTCACAAGGAACCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
45680 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
45710 CCATCCATAGGT
1 CTATCCAGAGGT
45722 TTCGAAGAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGCAA
Found at i:45762 original size:31 final size:31
Alignment explanation
Indices: 45727--45958 Score: 211
Period size: 31 Copynumber: 7.4 Consensus size: 31
45717 TAGGTTTCGA
* *
45727 AGAACCTAGGTAAACTGTCCATATGTTCCTT
1 AGAACATAGGTAAACTGTCCATATGTTCCAT
* * * *
45758 AGAACATATGTATACTGTCCATATGTCTCGAA
1 AGAACATAGGTAAACTGTCCATATGT-TCCAT
*
45790 AG-ACATAGGTAATTA-TGTCCATATGTTCCGT
1 AGAACATAGGTAA--ACTGTCCATATGTTCCAT
* * * *
45821 AGAACATAGGTATATTGTCCATATGTCTCGAA
1 AGAACATAGGTAAACTGTCCATATGT-TCCAT
* *
45853 AG-ACATAGGTAATTCTGTCCATATGTTCCGT
1 AGAACATAGGTAA-ACTGTCCATATGTTCCAT
* * *
45884 AGAACATAGGTATACTGTCCATATGTCTCGAA
1 AGAACATAGGTAAACTGTCCATATGT-TCCAT
* *
45916 AG-ACATAGGTAATTCTGTCCATATGTTCCGT
1 AGAACATAGGTAA-ACTGTCCATATGTTCCAT
45947 AGAACATAGGTA
1 AGAACATAGGTA
45959 TACCCTCAAC
Statistics
Matches: 159, Mismatches: 31, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
30 1 0.01
31 84 0.53
32 73 0.46
33 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (31 bp):
AGAACATAGGTAAACTGTCCATATGTTCCAT
Found at i:45814 original size:32 final size:32
Alignment explanation
Indices: 45773--45941 Score: 192
Period size: 32 Copynumber: 5.3 Consensus size: 32
45763 ATATGTATAC
45773 TGTCCATATGTCTCGAAAGACATAGGTAATTA
1 TGTCCATATGTCTCGAAAGACATAGGTAATTA
*
45805 TGTCCATATGT-TCCG-TAGAACATAGGT-A-TA
1 TGTCCATATGTCT-CGAAAG-ACATAGGTAATTA
*
45835 TTGTCCATATGTCTCGAAAGACATAGGTAATTC
1 -TGTCCATATGTCTCGAAAGACATAGGTAATTA
*
45868 TGTCCATATGT-TCCG-TAGAACATAGGT-A-TA
1 TGTCCATATGTCT-CGAAAG-ACATAGGTAATTA
*
45898 CTGTCCATATGTCTCGAAAGACATAGGTAATTC
1 -TGTCCATATGTCTCGAAAGACATAGGTAATTA
45931 TGTCCATATGT
1 TGTCCATATGT
45942 TCCGTAGAAC
Statistics
Matches: 116, Mismatches: 7, Indels: 28
0.77 0.05 0.19
Matches are distributed among these distances:
30 3 0.03
31 50 0.43
32 61 0.53
33 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (32 bp):
TGTCCATATGTCTCGAAAGACATAGGTAATTA
Found at i:45824 original size:63 final size:63
Alignment explanation
Indices: 45733--45961 Score: 406
Period size: 63 Copynumber: 3.7 Consensus size: 63
45723 TCGAAGAACC
* * *
45733 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATATGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
* *
45795 TAGGTAATTATGTCCATATGTTCCGTAGAACATAGGTATATTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
45858 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
45921 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
45962 CCTCAACTCT
Statistics
Matches: 159, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
62 7 0.04
63 152 0.96
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
Found at i:48071 original size:21 final size:20
Alignment explanation
Indices: 48045--48088 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
48035 AGAAACTTAC
48045 TTTTCCAACTATCTTATTTAG
1 TTTTCCAACTATCTT-TTTAG
*
48066 TTTTCCAACTATCTTTTTCG
1 TTTTCCAACTATCTTTTTAG
48086 TTT
1 TTT
48089 ATACATTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.18, C:0.20, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTCCAACTATCTTTTTAG
Found at i:49860 original size:2 final size:2
Alignment explanation
Indices: 49842--49880 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
49832 ATAATCTATC
* *
49842 AT AT -T AT AT AA AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49881 CTCATAACTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:50731 original size:30 final size:30
Alignment explanation
Indices: 50695--50766 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
50685 CCCAAATGAC
* *
50695 CTATCCAGAGGTCACAAGGAACCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
50725 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
50755 CCATCCATAGGT
1 CTATCCAGAGGT
50767 TCCGAAGAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGCAA
Found at i:50800 original size:31 final size:31
Alignment explanation
Indices: 50758--51003 Score: 225
Period size: 31 Copynumber: 7.8 Consensus size: 31
50748 TCGGCAACCA
* *
50758 TCCATAGGTTCCGAAGAACCTAGGTAAACTG
1 TCCATATGTTCCGAAGAACATAGGTAAACTG
** * *
50789 TCCATATGTTCCTTAGAACATATGTATACTG
1 TCCATATGTTCCGAAGAACATAGGTAAACTG
**
50820 TCCATATG-TCTCGAA-AGACATAGGTAATTTTG
1 TCCATATGTTC-CGAAGA-ACATAGGTAA-ACTG
* * *
50852 TCCATATGTTCCGTAGAACATAGGTATATTG
1 TCCATATGTTCCGAAGAACATAGGTAAACTG
*
50883 TCCATATG-TCTCGAA-AGACATAGGTAATTCTG
1 TCCATATGTTC-CGAAGA-ACATAGGTAA-ACTG
* *
50915 TCCATATGTTCCGTAGAACATAGGTATACTG
1 TCCATATGTTCCGAAGAACATAGGTAAACTG
*
50946 TCCATATG-TCTCGAA-AGACATAGGTAATTCTG
1 TCCATATGTTC-CGAAGA-ACATAGGTAA-ACTG
*
50978 TCCATATGTTCCGTAGAACATAGGTA
1 TCCATATGTTCCGAAGAACATAGGTA
51004 TACCCTCAAC
Statistics
Matches: 174, Mismatches: 26, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
30 9 0.05
31 89 0.51
32 67 0.39
33 9 0.05
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (31 bp):
TCCATATGTTCCGAAGAACATAGGTAAACTG
Found at i:50859 original size:32 final size:32
Alignment explanation
Indices: 50817--50986 Score: 210
Period size: 32 Copynumber: 5.4 Consensus size: 32
50807 CATATGTATA
50817 CTGTCCATATGTCTCGAAAGACATAGGTAATT
1 CTGTCCATATGTCTCGAAAGACATAGGTAATT
* *
50849 TTGTCCATATGT-TCCG-TAGAACATAGGT-ATAT
1 CTGTCCATATGTCT-CGAAAG-ACATAGGTAAT-T
50881 -TGTCCATATGTCTCGAAAGACATAGGTAATT
1 CTGTCCATATGTCTCGAAAGACATAGGTAATT
* *
50912 CTGTCCATATGT-TCCG-TAGAACATAGGT-ATA
1 CTGTCCATATGTCT-CGAAAG-ACATAGGTAATT
50943 CTGTCCATATGTCTCGAAAGACATAGGTAATT
1 CTGTCCATATGTCTCGAAAGACATAGGTAATT
50975 CTGTCCATATGT
1 CTGTCCATATGT
50987 TCCGTAGAAC
Statistics
Matches: 119, Mismatches: 7, Indels: 24
0.79 0.05 0.16
Matches are distributed among these distances:
31 54 0.45
32 65 0.55
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (32 bp):
CTGTCCATATGTCTCGAAAGACATAGGTAATT
Found at i:50862 original size:63 final size:63
Alignment explanation
Indices: 50778--51006 Score: 406
Period size: 63 Copynumber: 3.7 Consensus size: 63
50768 CCGAAGAACC
* * *
50778 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATATGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
* *
50840 TAGGTAATTTTGTCCATATGTTCCGTAGAACATAGGTATATTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
50903 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
50966 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
51007 CCTCAACTCT
Statistics
Matches: 159, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
62 7 0.04
63 152 0.96
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
Found at i:50948 original size:94 final size:94
Alignment explanation
Indices: 50758--51006 Score: 249
Period size: 94 Copynumber: 2.6 Consensus size: 94
50748 TCGGCAACCA
* * ** *
50758 TCCATAGGTTCCGAAGAACCTAGGTAAACTGTCCATATGTTCCTTAGAACATATGTATACTGTCC
1 TCCATATGTTCCGAAGAACATAGGTAAACTGTCCATATGTTCCAAAGAACATAGGTATACTGTCC
**
50823 ATATGTCTCGAAAGACATAGGTAATTTTG
66 ATATGTCTCGAAAGACATAGGTAATACTG
* * * * *
50852 TCCATATGTTCCGTAGAACATAGGTATATTGTCCATATGTCTCGAAAG-ACATAGGTAATTCTGT
1 TCCATATGTTCCGAAGAACATAGGTAAACTGTCCATATGT-TCCAAAGAACATAGGT-ATACTGT
*
50916 CCATATGT-TCCG-TAGAACATAGGT-ATACTG
64 CCATATGTCT-CGAAAG-ACATAGGTAATACTG
* **
50946 TCCATATG-TCTCGAA-AGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1 TCCATATGTTC-CGAAGA-ACATAGGTAA-ACTGTCCATATGTTCCAAAGAACATAGGTATAC
51007 CCTCAACTCT
Statistics
Matches: 126, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
93 3 0.02
94 76 0.60
95 47 0.37
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (94 bp):
TCCATATGTTCCGAAGAACATAGGTAAACTGTCCATATGTTCCAAAGAACATAGGTATACTGTCC
ATATGTCTCGAAAGACATAGGTAATACTG
Found at i:53129 original size:28 final size:28
Alignment explanation
Indices: 53089--53147 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
53079 TGTATCTTTC
53089 CTTGCTAATATATTTGTTTTATT-ATTTA
1 CTTGCTAATATATTTGTTTTATTGA-TTA
*
53117 CTTGCTACTATATTTGTTTTATTGATTA
1 CTTGCTAATATATTTGTTTTATTGATTA
53145 CTT
1 CTT
53148 TTAAATTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (28 bp):
CTTGCTAATATATTTGTTTTATTGATTA
Found at i:54315 original size:14 final size:14
Alignment explanation
Indices: 54296--54322 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54286 AGAGCAAAAA
54296 ATTTTGTGTTGAAG
1 ATTTTGTGTTGAAG
54310 ATTTTGTGTTGAA
1 ATTTTGTGTTGAA
54323 ATGGCCTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (14 bp):
ATTTTGTGTTGAAG
Found at i:62745 original size:20 final size:19
Alignment explanation
Indices: 62720--62761 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
62710 TATAGTTTTC
*
62720 AAAACAACATAATTAAATCA
1 AAAACAACA-AATTAAAACA
*
62740 AAAACAACAATTTAAAACA
1 AAAACAACAAATTAAAACA
62759 AAA
1 AAA
62762 CACATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAACAACAAATTAAAACA
Found at i:67183 original size:117 final size:117
Alignment explanation
Indices: 66965--67185 Score: 320
Period size: 117 Copynumber: 1.9 Consensus size: 117
66955 CTTTTAAATC
* *
66965 GAAATTTTCTTTTTCAATATTTTCAAATTTCATTTTTGAAAGCTCTAAATATTTCTTCAATATTT
1 GAAAATTTCTTTTTCAATATTTTCAAATTTCATTTTTGAAAGCTCTAAATATTTCTTCAACATTT
* ** *
67030 CATTTTGATTCTCAAAATTTATTTTATTTTTTAAAAGAAGATTGTTTAATTT
66 CATTTTGATTCTCAAAATCTATTTTAGGTTTAAAAAGAAGATTGTTTAATTT
* * *
67082 GAAAATTTCTTTTTCAA-AGTTTTCAGATTTCATTTTTGAAAGCTCTAACTCCTTT-TTCAACAT
1 GAAAATTTCTTTTTCAATA-TTTTCAAATTTCATTTTTGAAAGCTCTAAAT-ATTTCTTCAACAT
*
67145 TTCATTTTGATTTTCAAAATCTATTTTAGGTTTAAAAAGAA
64 TTCATTTTGATTCTCAAAATCTATTTTAGGTTTAAAAAGAA
67186 TATCATTTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
116 1 0.01
117 88 0.96
118 3 0.03
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (117 bp):
GAAAATTTCTTTTTCAATATTTTCAAATTTCATTTTTGAAAGCTCTAAATATTTCTTCAACATTT
CATTTTGATTCTCAAAATCTATTTTAGGTTTAAAAAGAAGATTGTTTAATTT
Found at i:69255 original size:32 final size:32
Alignment explanation
Indices: 69210--69279 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
69200 GTTTTTGGTT
* * *
69210 AGATGAAATGAGTTTTTTGTATAAGAGATTGAA
1 AGATGAAAGGAGTTTGTTATATAAGAGATT-AA
*
69243 A-ATGAAAGGAGTTTGTTATGTAAGAGATTAA
1 AGATGAAAGGAGTTTGTTATATAAGAGATTAA
69274 AGATGA
1 AGATGA
69280 TGTGCACAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 3 0.09
32 28 0.88
33 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (32 bp):
AGATGAAAGGAGTTTGTTATATAAGAGATTAA
Found at i:73395 original size:23 final size:23
Alignment explanation
Indices: 73365--73410 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
73355 TTCACGTAGT
*
73365 TTCACTTGCTGTCCTATTTAGCC
1 TTCACTTGCTGTCCCATTTAGCC
73388 TTCACTTGCTGTCCCATTTAGCC
1 TTCACTTGCTGTCCCATTTAGCC
73411 ATTAGCTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.13, C:0.33, G:0.13, T:0.41
Consensus pattern (23 bp):
TTCACTTGCTGTCCCATTTAGCC
Found at i:73979 original size:71 final size:71
Alignment explanation
Indices: 73863--74004 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
73853 TCAATGTGTA
73863 CAAAAACGTGAAGGGTTCAAGTTACCCTCTCTCCCCACCAACAGAATCTCAGTTGTTGATTCAGT
1 CAAAAACGTGAAGGGTTCAAGTTACCCTCTCTCCCCACCAACAGAATCTCAGTTGTTGATTCAGT
73928 ACTTGC
66 ACTTGC
73934 CAAAAACGTGAAGGGTTCAAGTTACCCTCTCTCCCCACCAACAGAATCTCAGTTGTTGATTCAGT
1 CAAAAACGTGAAGGGTTCAAGTTACCCTCTCTCCCCACCAACAGAATCTCAGTTGTTGATTCAGT
73999 ACTTGC
66 ACTTGC
74005 AATGTTTGCT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (71 bp):
CAAAAACGTGAAGGGTTCAAGTTACCCTCTCTCCCCACCAACAGAATCTCAGTTGTTGATTCAGT
ACTTGC
Found at i:74467 original size:3 final size:3
Alignment explanation
Indices: 74459--74493 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
74449 CTCTATGCAC
74459 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
74494 ATCATCATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:76837 original size:3 final size:3
Alignment explanation
Indices: 76829--76860 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
76819 ATGTAAGTAA
76829 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
76861 CTATTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:78101 original size:179 final size:181
Alignment explanation
Indices: 77753--78120 Score: 588
Period size: 175 Copynumber: 2.0 Consensus size: 181
77743 ATTAAATTTT
* *
77753 AAATATTAAATATATTATATATAACATATGGGCTCAATCCAAATCATTAAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAAGCCAAACCATTAAAAACCCAATTAATAA
*
77818 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAATTTTTA
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATAAAATTTTTA
**
77883 TTTTATAATTATATATTATTAAATTAATTGTAAACTTTTTTT-AA-TAAAA
131 TTTTATAATTATATATTATTAAATTAATAATAAACTTTTTTTGAATTAAAA
*
77932 AAATATTAAATATA-T-TATATAACATA-GGGCT-AAGCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAAGCCAAACCATTAAAAACCCAATTAATAA
77993 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATCTAAAATTT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAA-TTA--TAAAATTT
*
78058 TTATTTTATAATTATTTATTATTTAAATTAATAATAAACTTTTTTTGAATTAAAA
128 TTATTTTATAATTATATATTA-TTAAATTAATAATAAACTTTTTTTGAATTAAAA
78113 AAAT-TTAA
1 AAATATTAA
78121 TTTTATATAA
Statistics
Matches: 176, Mismatches: 7, Indels: 11
0.91 0.04 0.06
Matches are distributed among these distances:
175 78 0.44
176 8 0.05
177 11 0.06
178 28 0.16
179 36 0.20
180 6 0.03
181 9 0.05
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (181 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAAGCCAAACCATTAAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATAAAATTTTTA
TTTTATAATTATATATTATTAAATTAATAATAAACTTTTTTTGAATTAAAA
Found at i:82103 original size:8 final size:8
Alignment explanation
Indices: 82090--82130 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
82080 CTCATTTTCA
82090 GAGAATTT
1 GAGAATTT
82098 GAGAATTT
1 GAGAATTT
*
82106 -AGAGTTT
1 GAGAATTT
*
82113 GGGAATTT
1 GAGAATTT
82121 GAGAATTT
1 GAGAATTT
82129 GA
1 GA
82131 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:82438 original size:128 final size:128
Alignment explanation
Indices: 82211--83444 Score: 2107
Period size: 128 Copynumber: 9.7 Consensus size: 128
82201 ACTATTCACA
* * *
82211 TGAAGGCGCATTCACGGGGGCGCGCCTTCCATTATATTGT-AGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
82275 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
82338 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
** * *
82403 TTATGTCACTCATGTCCCTCATGCACACTATTCATATCATTACCTATTATTTCTCAGGAGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
82466 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTA-TTTGTC--AGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
82528 TTATGTCACTCATGTCCCTC-GGGACACTATTCATATCATTACCTATTATTT-TCATGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
82589 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
82654 TTATGTCACTCATGTCCCTCGGAGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
* * * *
82717 TGAAGGCACGTTCCCGAGGGCGCGCCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCTCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* * * *
82782 TTATGTCACTTATGTCCCTCGGGGACACTATTTATATCATTACCTATTATTTCTAAGGAGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
82845 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
82910 TTATGTCACTCATGTCCCTCGGGGACACTATTCA-ATCATTACCTATTA-TTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
* * * *
82971 TGAAGGCACATTCCCGAGGGCGCGCCTTCCATTATTTTGTCAGAG-ATATGTTATTATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
83035 TTATGTCACTCA-GTCCCTCGGGGACAC---TCATATCATTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
*** *
83094 TGAAGGAATGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGTCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
83159 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
* *
83222 TGAAGGCGCATTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
83287 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAAGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
* *
83350 TGAAGGCGCGTTCCCGGGGGCGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCTTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
83415 TTATGTCACTCATGTCCCTCGGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
83445 GATGGATTGT
Statistics
Matches: 1043, Mismatches: 51, Indels: 25
0.93 0.05 0.02
Matches are distributed among these distances:
121 3 0.00
122 14 0.01
123 96 0.09
124 79 0.08
125 87 0.08
126 95 0.09
127 87 0.08
128 582 0.56
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
Found at i:83280 original size:505 final size:504
Alignment explanation
Indices: 82211--83444 Score: 2109
Period size: 505 Copynumber: 2.4 Consensus size: 504
82201 ACTATTCACA
* *
82211 TGAAGGCGCATTCACGGGGGCGCGCCTTCCATTATATTGT-AGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
82275 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACTTG
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCT-AAGGGACTTG
82340 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
130 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
** *
82405 ATGTCACTCATGTCCCTCATGCACACTATTCATATCATTACCTATTATTTCTCAGGAGACTTGAA
195 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGAGACTTGAA
* * *
82470 GGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTGTCAGAATATGTTATCATTGCCCTATTATGTC
260 GGCACATTCCCGAGGGCGCGCCTTCCATTATTTGTCAGAATATGTTATCATTGCCCTATTATGTC
* **
82535 ACTCATGTCCCTCGGGACACTATTCATATCATTACCTATTATTTTCATGGGACTTGAAGGCGCGT
325 ACTCATGTCCCTCGGGACAC--TTCATATCATTACCTATTATTTTCAGGGGACTTGAAGGAACGT
82600 TCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTC
388 TCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTC
82665 ATGTCCCTCGGAGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
453 ATGTCCCTCGGAGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
* * * * *
82717 TGAAGGCACGTTCCCGAGGGCGCGCCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCTCTA
1 TGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
82782 TTATGTCACTTATGTCCCTCGGGGACACTATTTATATCATTACCTATTATTTCTAAGGAGACTTG
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTAAGG-GACTTG
82847 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
130 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
*
82912 ATGTCACTCATGTCCCTCGGGGACACTATTCA-ATCATTACCTATTA-TTCTCAGGGGACTTGAA
195 ATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGAGACTTGAA
*
82975 GGCACATTCCCGAGGGCGCGCCTTCCATTATTTTGTCAGAGATATGTTATTATTGCCCTATTATG
260 GGCACATTCCCGAGGGCGCGCCTTCCATTA-TTTGTCAGA-ATATGTTATCATTGCCCTATTATG
*
83040 TCACTCA-GTCCCTCGGGGACAC-TCATATCATTACCTATTATTTCTCAGGGGACTTGAAGGAAT
323 TCACTCATGTCCCTC-GGGACACTTCATATCATTACCTATTATTT-TCAGGGGACTTGAAGGAAC
*
83103 GTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGTCCTATTATGTCAC
386 GTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCAC
*
83168 TCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
451 TCATGTCCCTCGGAGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
*
83222 TGAAGGCGCATTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
83287 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAAGGGACTTG
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCT-AAGGGACTTG
* *
83352 AAGGCGCGTTCCCGGGGGCGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCTTATT
130 AAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATT
83417 ATGTCACTCATGTCCCTCGGGGACACTA
195 ATGTCACTCATGTCCCTCGGGGACACTA
83445 GATGGATTGT
Statistics
Matches: 687, Mismatches: 34, Indels: 15
0.93 0.05 0.02
Matches are distributed among these distances:
504 21 0.03
505 383 0.56
506 71 0.10
507 212 0.31
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (504 bp):
TGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTAAGGGACTTGA
AGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
TGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAGGAGACTTGAAG
GCACATTCCCGAGGGCGCGCCTTCCATTATTTGTCAGAATATGTTATCATTGCCCTATTATGTCA
CTCATGTCCCTCGGGACACTTCATATCATTACCTATTATTTTCAGGGGACTTGAAGGAACGTTCC
CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATG
TCCCTCGGAGACACTATTCATATCATTACCTATTATTTCTCAGGGGACT
Found at i:83939 original size:25 final size:23
Alignment explanation
Indices: 83893--83950 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
83883 ATAAATTCAT
83893 AATAAAT-TTAAATTAAACATAA
1 AATAAATATTAAATTAAACATAA
**
83915 CAATAAATATTAACATTAATTATAA
1 -AATAAATATTAA-ATTAAACATAA
*
83940 AAAAAATATTA
1 AATAAATATTA
83951 CCATATCGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.23
24 14 0.47
25 9 0.30
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (23 bp):
AATAAATATTAAATTAAACATAA
Found at i:88056 original size:20 final size:20
Alignment explanation
Indices: 88031--88070 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
88021 CATGCATACT
88031 AGTATTCAAATATAATGGTA
1 AGTATTCAAATATAATGGTA
88051 AGTATTCAAATATAATGGTA
1 AGTATTCAAATATAATGGTA
88071 TTCCGATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (20 bp):
AGTATTCAAATATAATGGTA
Found at i:88510 original size:163 final size:163
Alignment explanation
Indices: 88240--88565 Score: 652
Period size: 163 Copynumber: 2.0 Consensus size: 163
88230 AGGCAAAGAA
88240 TTGCAGGTCCTGCAGCAGCGAAACAAATAAATGGAACATTCATTAATTATTTCAACAGGAAATCT
1 TTGCAGGTCCTGCAGCAGCGAAACAAATAAATGGAACATTCATTAATTATTTCAACAGGAAATCT
88305 TAGTCCAAGGTTACTGTAAAATGGATAGTTCCAAGAAGGGGGGGGGGGACAAGGGTCTAATGATG
66 TAGTCCAAGGTTACTGTAAAATGGATAGTTCCAAGAAGGGGGGGGGGGACAAGGGTCTAATGATG
88370 CCGGTAATCATCGTCCACTCGAGACAAGACCGG
131 CCGGTAATCATCGTCCACTCGAGACAAGACCGG
88403 TTGCAGGTCCTGCAGCAGCGAAACAAATAAATGGAACATTCATTAATTATTTCAACAGGAAATCT
1 TTGCAGGTCCTGCAGCAGCGAAACAAATAAATGGAACATTCATTAATTATTTCAACAGGAAATCT
88468 TAGTCCAAGGTTACTGTAAAATGGATAGTTCCAAGAAGGGGGGGGGGGACAAGGGTCTAATGATG
66 TAGTCCAAGGTTACTGTAAAATGGATAGTTCCAAGAAGGGGGGGGGGGACAAGGGTCTAATGATG
88533 CCGGTAATCATCGTCCACTCGAGACAAGACCGG
131 CCGGTAATCATCGTCCACTCGAGACAAGACCGG
88566 AATGAGTACC
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 163 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (163 bp):
TTGCAGGTCCTGCAGCAGCGAAACAAATAAATGGAACATTCATTAATTATTTCAACAGGAAATCT
TAGTCCAAGGTTACTGTAAAATGGATAGTTCCAAGAAGGGGGGGGGGGACAAGGGTCTAATGATG
CCGGTAATCATCGTCCACTCGAGACAAGACCGG
Found at i:90359 original size:20 final size:19
Alignment explanation
Indices: 90334--90460 Score: 73
Period size: 20 Copynumber: 6.4 Consensus size: 19
90324 TTTTCCAAAT
90334 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAAT-TGTAAA
*
90354 TCGCAACTCGAATTTGTAAA
1 TCGCAACGCGAA-TTGTAAA
* *
90374 TCGTAACACAGAA--GTCAAA
1 TCGCAACGC-GAATTGT-AAA
** *
90393 TTCATAACACAGAA--GTCAAA
1 -TCGCAACGC-GAATTGT-AAA
*
90413 TTCGCAACGCGGATCTGTAAA
1 -TCGCAACGCGAAT-TGTAAA
90434 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAA-TTGTAAA
90454 TCGCAAC
1 TCGCAAC
90461 ACAAAAGTCA
Statistics
Matches: 90, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.02
19 5 0.06
20 73 0.81
21 8 0.09
22 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (19 bp):
TCGCAACGCGAATTGTAAA
Found at i:90429 original size:80 final size:80
Alignment explanation
Indices: 90329--90504 Score: 307
Period size: 80 Copynumber: 2.2 Consensus size: 80
90319 TGCGATTTTC
* * *
90329 CAAATTCGCAACGCGAATCTGTAAATCGCAACTCGAATTTGTAAATCGTAACACAGAAGTCAAAT
1 CAAATTCGCAACGCGAATCTGTAAATCGCAACGCGAATTTGTAAATCGCAACACAAAAGTCAAAT
90394 TCATAACACAGAAGT
66 TCATAACACAGAAGT
*
90409 CAAATTCGCAACGCGGATCTGTAAATCGCAACGCGAATTTGTAAATCGCAACACAAAAGTCAAAT
1 CAAATTCGCAACGCGAATCTGTAAATCGCAACGCGAATTTGTAAATCGCAACACAAAAGTCAAAT
*
90474 TCGTAACACAGAAGT
66 TCATAACACAGAAGT
90489 CAAATTCGCAACGCGA
1 CAAATTCGCAACGCGA
90505 TAGTCAAATT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 90 1.00
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.20
Consensus pattern (80 bp):
CAAATTCGCAACGCGAATCTGTAAATCGCAACGCGAATTTGTAAATCGCAACACAAAAGTCAAAT
TCATAACACAGAAGT
Found at i:90452 original size:100 final size:100
Alignment explanation
Indices: 90334--90520 Score: 263
Period size: 100 Copynumber: 1.9 Consensus size: 100
90324 TTTTCCAAAT
* **
90334 TCGCAACGCGAATCTGTAAATCGCAACTCGAATTTGT-AAA-TCGTAACACAGAAGTCAAATTCA
1 TCGCAACGCGAATCTGTAAATCGCAACAC-AA-AAGTCAAATTCGTAACACAGAAGTCAAATTCA
*
90397 TAACACAGA-AGTCAAATTCGCAACGCGGATCTGTAAA
64 CAACAC-GATAGTCAAATTCGCAACGCGGATCTGTAAA
* *
90434 TCGCAACGCGAATTTGTAAATCGCAACACAAAAGTCAAATTCGTAACACAGAAGTCAAATTCGCA
1 TCGCAACGCGAATCTGTAAATCGCAACACAAAAGTCAAATTCGTAACACAGAAGTCAAATTCACA
*
90499 ACGCGATAGTCAAATTCGCAAC
66 ACACGATAGTCAAATTCGCAAC
90521 ACTGAATTTC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
98 2 0.03
99 7 0.09
100 68 0.88
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (100 bp):
TCGCAACGCGAATCTGTAAATCGCAACACAAAAGTCAAATTCGTAACACAGAAGTCAAATTCACA
ACACGATAGTCAAATTCGCAACGCGGATCTGTAAA
Found at i:90483 original size:20 final size:20
Alignment explanation
Indices: 90454--90541 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
90444 AATTTGTAAA
90454 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* *
90474 TCGTAACACAGAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* * *
90494 TCGCAACGCGATAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* **
90514 TCGCAACACTGAATTTCAAAT
1 TCGCAACAC-AAAAGTCAAAT
90535 TCGCAAC
1 TCGCAAC
90542 TGAACTTCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
20 41 0.73
21 15 0.27
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (20 bp):
TCGCAACACAAAAGTCAAAT
Found at i:90518 original size:60 final size:61
Alignment explanation
Indices: 90386--90541 Score: 142
Period size: 60 Copynumber: 2.6 Consensus size: 61
90376 GTAACACAGA
** * * * *
90386 AGTCAAATTCATAACACAGAAGTCAAATTCGCAACGCGGATCTGTAAATCGCAACGCGAATT
1 AGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACAGA-CAGTAAATCGCAACGCGAATT
* *
90448 TGT-AAA-TCGCAACACAAAAGTCAAATTCGTAACACAGA-AGTCAAATTCGCAACGCG-A-T
1 AGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACAGACAGT-AAA-TCGCAACGCGAATT
* **
90506 AGTCAAATTCGCAACACTGAATTTCAAATTCGCAAC
1 AGTCAAATTCGCAACAC-AAAAGTCAAATTCGCAAC
90542 TGAACTTCAA
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
58 5 0.07
59 7 0.09
60 45 0.59
61 17 0.22
62 2 0.03
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.21
Consensus pattern (61 bp):
AGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACAGACAGTAAATCGCAACGCGAATT
Found at i:90518 original size:80 final size:79
Alignment explanation
Indices: 90329--90529 Score: 296
Period size: 80 Copynumber: 2.5 Consensus size: 79
90319 TGCGATTTTC
* * *
90329 CAAATTCGCAACGCGAATCTGTAAATCGCAACTCGAATTTGTAAATCGTAACACAGAAGTCAAAT
1 CAAATTCGCAACGCG-ATCTGTAAATCGCAACACGAATTTGTAAATCGCAACACAAAAGTCAAAT
90394 TCATAACACAGAAGT
65 TCATAACACAGAAGT
*
90409 CAAATTCGCAACGCGGATCTGTAAATCGCAACGCGAATTTGTAAATCGCAACACAAAAGTCAAAT
1 CAAATTCGCAACGC-GATCTGTAAATCGCAACACGAATTTGTAAATCGCAACACAAAAGTCAAAT
*
90474 TCGTAACACAGAAGT
65 TCATAACACAGAAGT
*
90489 CAAATTCGCAACGCGAT-AGTCAAATTCGCAACACTGAATTT
1 CAAATTCGCAACGCGATCTGT-AAA-TCGCAACAC-GAATTT
90530 CAAATTCGCA
Statistics
Matches: 111, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
78 2 0.02
79 6 0.05
80 96 0.86
81 7 0.06
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (79 bp):
CAAATTCGCAACGCGATCTGTAAATCGCAACACGAATTTGTAAATCGCAACACAAAAGTCAAATT
CATAACACAGAAGT
Found at i:90552 original size:40 final size:39
Alignment explanation
Indices: 90468--90618 Score: 125
Period size: 40 Copynumber: 3.9 Consensus size: 39
90458 AACACAAAAG
* * * * *
90468 TCAAATTCGTAACACAGAA-GTCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACACTGAATTTCAAATTCGCAAC-TGA-AT
90508 TCAAATTCGCAACACTGAATTTCAAATTCGCAACTGAACT
1 TCAAATTCGCAACACTGAATTTCAAATTCGCAACTGAA-T
* *
90548 TCAAATTCGC-A-ACTGAATTTCAAATTCACAACTCGATTT
1 TCAAATTCGCAACACTGAATTTCAAATTCGCAACT-GA-AT
* *
90587 TCAAATTCACAATC-C-GAATTT-AATTTCGCAAC
1 TCAAATTCGCAA-CACTGAATTTCAAATTCGCAAC
90619 ACAAATGTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
38 21 0.22
39 23 0.24
40 36 0.38
41 14 0.15
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.28
Consensus pattern (39 bp):
TCAAATTCGCAACACTGAATTTCAAATTCGCAACTGAAT
Found at i:90571 original size:38 final size:39
Alignment explanation
Indices: 90488--90618 Score: 133
Period size: 39 Copynumber: 3.3 Consensus size: 39
90478 AACACAGAAG
* *
90488 TCAAATTCGCAACGCGATA-GTCAAATTCGCAACACTGAATT
1 TCAAATTCGCAACTCGA-ACTTCAAATTCGC-A-ACTGAATT
90529 TCAAATTCGCAACT-GAACTTCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTCGAACTTCAAATTCGCAACTGAATT
* ** * *
90567 TCAAATTCACAACTCGATTTTCAAATTCACAATCCGAATT
1 TCAAATTCGCAACTCGAACTTCAAATTCGCAA-CTGAATT
*
90607 T-AATTTCGCAAC
1 TCAAATTCGCAAC
90619 ACAAATGTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
38 21 0.27
39 25 0.32
40 19 0.24
41 13 0.17
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (39 bp):
TCAAATTCGCAACTCGAACTTCAAATTCGCAACTGAATT
Found at i:90590 original size:20 final size:20
Alignment explanation
Indices: 90488--90618 Score: 128
Period size: 19 Copynumber: 6.7 Consensus size: 20
90478 AACACAGAAG
* *
90488 TCAAATTCGCAACGCG-ATAG
1 TCAAATTCGCAACTCGAAT-T
*
90508 TCAAATTCGCAACACTGAATT
1 TCAAATTCGCAACTC-GAATT
*
90529 TCAAATTCGCAACT-GAACT
1 TCAAATTCGCAACTCGAATT
90548 TCAAATTCGCAACT-GAATT
1 TCAAATTCGCAACTCGAATT
* *
90567 TCAAATTCACAACTCGATTT
1 TCAAATTCGCAACTCGAATT
*
90587 TCAAATTCACAA-TCCGAATT
1 TCAAATTCGCAACT-CGAATT
*
90607 T-AATTTCGCAAC
1 TCAAATTCGCAAC
90619 ACAAATGTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
19 44 0.46
20 36 0.38
21 14 0.15
22 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (20 bp):
TCAAATTCGCAACTCGAATT
Found at i:90615 original size:58 final size:59
Alignment explanation
Indices: 90508--90618 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 59
90498 AACGCGATAG
* * *
90508 TCAAATTCGCAACACTGAATTTCAAATTCGCAACTGAACTTCAAATTCGCAACTGAATT
1 TCAAATTCACAACACTGAATTTCAAATTCACAACCGAACTTCAAATTCGCAACTGAATT
* * * *
90567 TCAAATTCACAACTC-GATTTTCAAATTCACAATCCGAA-TTTAATTTCGCAAC
1 TCAAATTCACAACACTGAATTTCAAATTCACAA-CCGAACTTCAAATTCGCAAC
90619 ACAAATGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
58 27 0.61
59 17 0.39
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (59 bp):
TCAAATTCACAACACTGAATTTCAAATTCACAACCGAACTTCAAATTCGCAACTGAATT
Found at i:91565 original size:24 final size:24
Alignment explanation
Indices: 91538--91591 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
91528 GTATTTGAAA
91538 TTTGATCTTGGTCAATACCCAGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
91562 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
91586 TTTGAT
1 TTTGAT
91592 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:91774 original size:3 final size:3
Alignment explanation
Indices: 91766--91790 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
91756 ATATAACCCT
91766 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
91791 TCCCCGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:95731 original size:21 final size:21
Alignment explanation
Indices: 95707--95801 Score: 93
Period size: 21 Copynumber: 4.5 Consensus size: 21
95697 GAGGGACCCA
*
95707 TTGAATGATGATAGGGGCCTC
1 TTGAATGATGAGAGGGGCCTC
* *
95728 TTGAATGGTGGGAGGGGCCTC
1 TTGAATGATGAGAGGGGCCTC
* * *
95749 TTGAACGATGAGATGAGCCTC
1 TTGAATGATGAGAGGGGCCTC
* * *
95770 TTGAACGAT-AGGATGCGCCTC
1 TTGAATGATGA-GAGGGGCCTC
95791 TTGAATGATGA
1 TTGAATGATGA
95802 CAGGTGAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
20 1 0.02
21 60 0.97
22 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (21 bp):
TTGAATGATGAGAGGGGCCTC
Found at i:95742 original size:42 final size:42
Alignment explanation
Indices: 95683--95776 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
95673 GTGAATCGGG
* * * *
95683 CTCTTTAACGGTGGGAGGGACC-CATTGAATGATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTC-TTGAACGATGAGAGGAGC
* * *
95725 CTCTTGAATGGTGGGAGGGGCCTCTTGAACGATGAGATGAGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGAGAGGAGC
95767 CTCTTGAACG
1 CTCTTGAACG
95777 ATAGGATGCG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.24
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGAGAGGAGC
Found at i:97971 original size:20 final size:20
Alignment explanation
Indices: 97956--98059 Score: 172
Period size: 20 Copynumber: 5.2 Consensus size: 20
97946 TCGCAACGTA
* * *
97956 AAAATGAAAATTGCAACGCG
1 AAAATGAAAATCGTAACGAG
97976 AAAATGAAAATCGTAACGAG
1 AAAATGAAAATCGTAACGAG
97996 AAAATGAAAATCGTAACGAG
1 AAAATGAAAATCGTAACGAG
*
98016 AAAATAAAAATCGTAACGAG
1 AAAATGAAAATCGTAACGAG
98036 AAAATGAAAATCGTAACGAG
1 AAAATGAAAATCGTAACGAG
98056 AAAA
1 AAAA
98060 GCGCAACGCG
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 79 1.00
ACGTcount: A:0.57, C:0.11, G:0.18, T:0.14
Consensus pattern (20 bp):
AAAATGAAAATCGTAACGAG
Found at i:98114 original size:20 final size:21
Alignment explanation
Indices: 98089--98127 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
98079 TCGCGTTGCT
*
98089 ATTTTCTCGTTGC-AATTTTC
1 ATTTTCGCGTTGCGAATTTTC
98109 ATTTTCGCGTTGCGAATTT
1 ATTTTCGCGTTGCGAATTT
98128 AAGTTTCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (21 bp):
ATTTTCGCGTTGCGAATTTTC
Found at i:98495 original size:22 final size:22
Alignment explanation
Indices: 98469--98516 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
98459 AGAGATAGAT
98469 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGTCGGAGATGGGGAC
98491 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGTCGGAGATGGGGAC
98513 GGAT
1 GGAT
98517 GTCGCCGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.12, G:0.46, T:0.23
Consensus pattern (22 bp):
GGATTTCGTCGGAGATGGGGAC
Found at i:98703 original size:20 final size:20
Alignment explanation
Indices: 98678--99023 Score: 243
Period size: 20 Copynumber: 17.3 Consensus size: 20
98668 TAAACAAGCT
*
98678 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGTG
* *
98698 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTCGTG
* *
98718 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTCGTG
98738 TTGCGAATTTGAC-TTCTGTG
1 TTGCGAATTTGACTTTC-GTG
* *
98758 TTGCG-ATTT-ACAAATTCGCG
1 TTGCGAATTTGAC--TTTCGTG
* * *
98778 TTACG-ATTT-ACAGATTCGCG
1 TTGCGAATTTGAC--TTTCGTG
98798 TTGCGAATTTGAC-TTCAGTG
1 TTGCGAATTTGACTTTC-GTG
*
98818 TTGCGAATTTGACTATCGTG
1 TTGCGAATTTGACTTTCGTG
*
98838 TTGCGAATTTGACTATCGTG
1 TTGCGAATTTGACTTTCGTG
*
98858 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTTCGTG
* *
98878 TTGTGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTTCGTG
*
98898 TTGCG-ATTT-ACAAATTCGTG
1 TTGCGAATTTGAC--TTTCGTG
* *
98918 TTGCG-ATTT-ACAGATTCGCG
1 TTGCGAATTTGAC--TTTCGTG
*** *
98938 TTGCGAATTTGGAAACT-GGG
1 TTGCGAATTT-GACTTTCGTG
*
98958 TTGCGAAATTTGA-GTTCAGTG
1 TTGCG-AATTTGACTTTC-GTG
*
98979 TTGCGAA-TTGACTTTTGTG
1 TTGCGAATTTGACTTTCGTG
*
98998 TTGTGAATTTGACTTAT-GTG
1 TTGCGAATTTGACTT-TCGTG
99018 TTGCGA
1 TTGCGA
99024 TTTACAAATT
Statistics
Matches: 280, Mismatches: 27, Indels: 38
0.81 0.08 0.11
Matches are distributed among these distances:
18 4 0.01
19 27 0.10
20 218 0.78
21 28 0.10
22 2 0.01
23 1 0.00
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.40
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGTG
Found at i:98722 original size:40 final size:40
Alignment explanation
Indices: 98678--99068 Score: 244
Period size: 40 Copynumber: 9.8 Consensus size: 40
98668 TAAACAAGCT
*
98678 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGTG
*
98718 TTGCGAATTTGACTATCGCGTTGCGAATTTGACT-TCTGTG
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATC-GTG
* * * *
98758 TTGCG-ATTT-ACAAATTCGCGTTACG-ATTT-ACAGATTCGCG
1 TTGCGAATTTGAC--TTTCGCGTTGCGAATTTGAC-TA-TCGTG
*
98798 TTGCGAATTTGAC-TTCAGTGTTGCGAATTTGACTATCGTG
1 TTGCGAATTTGACTTTC-GCGTTGCGAATTTGACTATCGTG
* * * *
98838 TTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGTG
* * * *
98878 TTGTGAATTTGACTTTTGTGTTGCG-ATTT-ACAAATTCGTG
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGAC-TA-TCGTG
* * *
98918 TTGCG-ATTT-ACAGATTCGCGTTGCGAATTTGGA--AACTGGG
1 TTGCGAATTTGAC--TTTCGCGTTGCGAATTT-GACTATC-GTG
* * * *
98958 TTGCGAAATTTGA-GTTCAGTGTTGCGAA-TTGACTTTTGTG
1 TTGCG-AATTTGACTTTC-GCGTTGCGAATTTGACTATCGTG
* * *
98998 TTGTGAATTTGACTTAT-GTGTTGCG-ATTT-ACAAATTCGTG
1 TTGCGAATTTGACTT-TCGCGTTGCGAATTTGAC-TA-TCGTG
*
99038 TTGCGATTTATAGA--TTCGCGTTGCGAATTTG
1 TTGCGAATT-T-GACTTTCGCGTTGCGAATTTG
99069 GAAACTGGGT
Statistics
Matches: 275, Mismatches: 40, Indels: 70
0.71 0.10 0.18
Matches are distributed among these distances:
38 11 0.04
39 42 0.15
40 178 0.65
41 32 0.12
42 10 0.04
43 2 0.01
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (40 bp):
TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGTG
Found at i:98905 original size:120 final size:120
Alignment explanation
Indices: 98678--99068 Score: 460
Period size: 120 Copynumber: 3.3 Consensus size: 120
98668 TAAACAAGCT
* *
98678 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGCGTTGCG
1 TTGCGAATTTGACATTCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGTGTTGCG
* * * * * * * *
98743 AATTTGACTTCTGTGTTGCG-ATTT-ACAAATTCGCGTTACGATTTACAGATTCGCG
66 AATTTGACTTTTGTGTTGTGAATTTGAC--TTTTGTGTTGCGATTTACAAATTCGTG
* *
98798 TTGCGAATTTGAC-TTCAGTGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTATCGTGTTGC
1 TTGCGAATTTGACATTC-GCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGTGTTGC
98862 GAATTTGACTTTTGTGTTGTGAATTTGACTTTTGTGTTGCGATTTACAAATTCGTG
65 GAATTTGACTTTTGTGTTGTGAATTTGACTTTTGTGTTGCGATTTACAAATTCGTG
* * *
98918 TTGCG-ATTT-ACAGATTCGCGTTGCGAATTTGGA--AACTGGGTTGCGAAATTTGAGT-TCAGT
1 TTGCGAATTTGAC--ATTCGCGTTGCGAATTT-GACTATC-GCGTTGCG-AATTTGACTATC-GT
*
98978 GTTGCGAA-TTGACTTTTGTGTTGTGAATTTGACTTATGTGTTGCGATTTACAAATTCGTG
60 GTTGCGAATTTGACTTTTGTGTTGTGAATTTGACTTTTGTGTTGCGATTTACAAATTCGTG
* *
99038 TTGCG-ATTTATAGATTCGCGTTGCGAATTTG
1 TTGCGAATTT-GACATTCGCGTTGCGAATTTG
99069 GAAACTGGGT
Statistics
Matches: 242, Mismatches: 17, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
118 2 0.01
119 10 0.04
120 200 0.83
121 27 0.11
122 3 0.01
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (120 bp):
TTGCGAATTTGACATTCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGTGTTGCG
AATTTGACTTTTGTGTTGTGAATTTGACTTTTGTGTTGCGATTTACAAATTCGTG
Found at i:98930 original size:140 final size:139
Alignment explanation
Indices: 98678--99063 Score: 483
Period size: 140 Copynumber: 2.8 Consensus size: 139
98668 TAAACAAGCT
* * * * *
98678 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGCGTTGCG
1 TTGCGAATTTGAC-TTCGTGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGCG
* *
98743 AATTTGACTTCTGTGTTGCGATTTACAAATTCGCGTTACGATTTACAGATTCGCGTTGCGAATTT
65 AATTTGACTTTTGTGTTGCGATTTACAAATTCGCGTTGCGATTTACAGATTCGCGTTGCGAATTT
** *
98808 -GACTTCAGTG
130 GGA-AACAGGG
*
98818 TTGCGAATTTGACTATCGTGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGTG
1 TTGCGAATTTGACT-TCGTGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGCG
*
98883 AATTTGACTTTTGTGTTGCGATTTACAAATTCGTGTTGCGATTTACAGATTCGCGTTGCGAATTT
65 AATTTGACTTTTGTGTTGCGATTTACAAATTCGCGTTGCGATTTACAGATTCGCGTTGCGAATTT
*
98948 GGAAACTGGG
130 GGAAACAGGG
* * * * *
98958 TTGCGAAATTTGAGTTCAGTGTTGCGAA-TTGACTTTTGTGTTGTGAATTTGACTTATGTGTTGC
1 TTGCG-AATTTGACTTC-GTGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGC
* * * *
99022 G-ATTT-ACAAATTCGTGTTGCGATTTATAGATTCGCGTTGCGA
64 GAATTTGAC--TTTTGTGTTGCGATTTACAAATTCGCGTTGCGA
99064 ATTTGGAAAC
Statistics
Matches: 216, Mismatches: 24, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
138 2 0.01
139 5 0.02
140 189 0.88
141 20 0.09
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (139 bp):
TTGCGAATTTGACTTCGTGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGCGA
ATTTGACTTTTGTGTTGCGATTTACAAATTCGCGTTGCGATTTACAGATTCGCGTTGCGAATTTG
GAAACAGGG
Found at i:99024 original size:100 final size:100
Alignment explanation
Indices: 98857--99043 Score: 245
Period size: 100 Copynumber: 1.9 Consensus size: 100
98847 TGACTATCGT
** *
98857 GTTGCGAATTTGACTTTTGTGTTGTGAATTTGACTTTTGTGTTGCGATTTACAAATTCGTGTTGC
1 GTTGCGAATTTGACTTCAGTGTTGCGAATTTGACTTTTGTGTTGCGATTTACAAATTCGTGTTGC
*
98922 GATTTACAGATTCGCGTTGCGAATTTGGAAACTGG
66 GATTTACAAATTCGCGTTGCGAATTTGGAAACTGG
* * **
98957 GTTGCGAAATTTGAGTTCAGTGTTGCGAA-TTGACTTTTGTGTTGTGAATTTGACTTA-T-GTGT
1 GTTGCG-AATTTGACTTCAGTGTTGCGAATTTGACTTTTGTGTTGCG-ATTT-ACAAATTCGTGT
*
99019 TGCGATTTACAAATTCGTGTTGCGA
63 TGCGATTTACAAATTCGCGTTGCGA
99044 TTTATAGATT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 49 0.65
101 23 0.31
102 3 0.04
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.42
Consensus pattern (100 bp):
GTTGCGAATTTGACTTCAGTGTTGCGAATTTGACTTTTGTGTTGCGATTTACAAATTCGTGTTGC
GATTTACAAATTCGCGTTGCGAATTTGGAAACTGG
Found at i:99038 original size:20 final size:20
Alignment explanation
Indices: 99015--99063 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
99005 TTTGACTTAT
99015 GTGTTGCGATTTACAAATTC
1 GTGTTGCGATTTACAAATTC
* *
99035 GTGTTGCGATTTATAGATTC
1 GTGTTGCGATTTACAAATTC
*
99055 GCGTTGCGA
1 GTGTTGCGA
99064 ATTTGGAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (20 bp):
GTGTTGCGATTTACAAATTC
Found at i:99069 original size:120 final size:120
Alignment explanation
Indices: 98837--99108 Score: 467
Period size: 120 Copynumber: 2.3 Consensus size: 120
98827 TGACTATCGT
* *
98837 GTTGCG-AATTTGACTATCGTGTTGCGAATTTGACTTTTGTGTTGTGAATTTGACTTTTGTGTTG
1 GTTGCGAAATTTGAGT-TCGTGTTGCGAATTTGACTTTTGTGTTGTGAATTTGACTTATGTGTTG
98901 CGATTTACAAATTCGTGTTGCGATTTACAGATTCGCGTTGCGAATTTGGAAACTGG
65 CGATTTACAAATTCGTGTTGCGATTTACAGATTCGCGTTGCGAATTTGGAAACTGG
98957 GTTGCGAAATTTGAGTTCAGTGTTGCGAA-TTGACTTTTGTGTTGTGAATTTGACTTATGTGTTG
1 GTTGCGAAATTTGAGTTC-GTGTTGCGAATTTGACTTTTGTGTTGTGAATTTGACTTATGTGTTG
*
99021 CGATTTACAAATTCGTGTTGCGATTTATAGATTCGCGTTGCGAATTTGGAAACTGG
65 CGATTTACAAATTCGTGTTGCGATTTACAGATTCGCGTTGCGAATTTGGAAACTGG
* *
99077 GTTGCGAAATTTGAGTTCGCGTTACGAATTTG
1 GTTGCGAAATTTGAGTTCGTGTTGCGAATTTG
99109 TTGGTCATTT
Statistics
Matches: 144, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 8 0.06
120 118 0.82
121 18 0.12
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (120 bp):
GTTGCGAAATTTGAGTTCGTGTTGCGAATTTGACTTTTGTGTTGTGAATTTGACTTATGTGTTGC
GATTTACAAATTCGTGTTGCGATTTACAGATTCGCGTTGCGAATTTGGAAACTGG
Found at i:101754 original size:23 final size:23
Alignment explanation
Indices: 101724--101770 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
101714 TTCAAATGCC
101724 TAAGTTCAAACTTTCTCTTAGCA
1 TAAGTTCAAACTTTCTCTTAGCA
101747 TAAGTTCAAACTTTCTCTTAGCA
1 TAAGTTCAAACTTTCTCTTAGCA
101770 T
1 T
101771 TGCCAAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (23 bp):
TAAGTTCAAACTTTCTCTTAGCA
Found at i:101885 original size:30 final size:30
Alignment explanation
Indices: 101837--101910 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
101827 AAAATTGAAT
* * * *
101837 TAAAAGGGGAAGGAAAAAAATAATTTATGC
1 TAAACGGGGACGGGAAAAAACAATTTATGC
** *
101867 TAAACGGGGACGGGAAAAAACCGTTTATGT
1 TAAACGGGGACGGGAAAAAACAATTTATGC
101897 TAAACGGGGACGGG
1 TAAACGGGGACGGG
101911 GACGGGTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.31, T:0.18
Consensus pattern (30 bp):
TAAACGGGGACGGGAAAAAACAATTTATGC
Found at i:104587 original size:16 final size:16
Alignment explanation
Indices: 104563--104594 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
104553 ACCCAGGTTA
*
104563 AATTTAAAAAATAATT
1 AATTAAAAAAATAATT
104579 AATTAAAAAAATAATT
1 AATTAAAAAAATAATT
104595 TTTACTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTAAAAAAATAATT
Found at i:111482 original size:23 final size:23
Alignment explanation
Indices: 111455--111515 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
111445 TTTTATATGG
111455 CACTTCGGTGCATTTCTACGCGA
1 CACTTCGGTGCATTTCTACGCGA
* * *
111478 CACTTCGGTGCAATTCTACGTGG
1 CACTTCGGTGCATTTCTACGCGA
111501 CACTTCGGTGCATTT
1 CACTTCGGTGCATTT
111516 ATATGAGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.16, C:0.28, G:0.23, T:0.33
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGCGA
Found at i:114210 original size:31 final size:31
Alignment explanation
Indices: 114143--114202 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
114133 ACAATTTAGG
*
114143 CAAAATGGTTTTTGAACTTGAATTGAATTTA
1 CAAAATGGTATTTGAACTTGAATTGAATTTA
*
114174 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGAACTTGAATTGAATTTA
114203 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 10 0.37
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGAACTTGAATTGAATTTA
Found at i:114408 original size:21 final size:21
Alignment explanation
Indices: 114382--114423 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
114372 ATTTGAATAT
*
114382 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
114403 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
114424 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:114485 original size:21 final size:21
Alignment explanation
Indices: 114452--114491 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
114442 TTTTTGCAAA
*
114452 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
114474 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
114492 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:114745 original size:34 final size:32
Alignment explanation
Indices: 114706--114775 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 32
114696 TATTGTAAAG
* *
114706 GGGAAA-TGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGT-TTCTAGCTTAGCCCG-G-AAAAACTA
*
114740 GGGAAAGTTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGTTTCTAGCTTAGCCCGGAAAAACTA
114772 GGGA
1 GGGA
114776 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 19 0.59
35 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (32 bp):
GGGAAAGTTTCTAGCTTAGCCCGGAAAAACTA
Found at i:119867 original size:23 final size:23
Alignment explanation
Indices: 119841--119909 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
119831 CACCACAGCT
*
119841 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
119864 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
119887 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
119910 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:120088 original size:103 final size:103
Alignment explanation
Indices: 119925--120137 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
119915 TAATGTCCAT
* * * *
119925 AAGGACTACATATCATTCCTTAAGAATCATATATATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
119990 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
120028 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
120093 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
120131 AAGGACC
1 AAGGACC
120138 GCGTAGACCC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:121847 original size:21 final size:21
Alignment explanation
Indices: 121823--121867 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
121813 TTTTGTTCGT
*
121823 TTGAAGGGGTA-TCGGTTCCCC
1 TTGAAGGGGTACT-GATTCCCC
*
121844 TTGAATGGGTACTGATTCCCC
1 TTGAAGGGGTACTGATTCCCC
121865 TTG
1 TTG
121868 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACTGATTCCCC
Found at i:122655 original size:22 final size:22
Alignment explanation
Indices: 122621--122672 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
122611 TTGGAATATG
* *
122621 TATATGATTCTTAAGGA-ATTT
1 TATATGGTCCTTAAGGACATTT
* *
122642 CTATGTGGTCCTTATGGACATTT
1 -TATATGGTCCTTAAGGACATTT
122665 TATATGGT
1 TATATGGT
122673 ACTTCGGTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.46
Consensus pattern (22 bp):
TATATGGTCCTTAAGGACATTT
Found at i:122699 original size:23 final size:23
Alignment explanation
Indices: 122673--122732 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
122663 TTTATATGGT
*
122673 ACTTCGGTGTATTTCTACACGAC
1 ACTTCGGTGCATTTCTACACGAC
* * ** *
122696 ACTTCAGTGCAATTCTACGTGGC
1 ACTTCGGTGCATTTCTACACGAC
122719 ACTTCGGTGCATTT
1 ACTTCGGTGCATTT
122733 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (23 bp):
ACTTCGGTGCATTTCTACACGAC
Found at i:131151 original size:53 final size:53
Alignment explanation
Indices: 131087--131198 Score: 152
Period size: 53 Copynumber: 2.1 Consensus size: 53
131077 TAAAAAACAT
* * * *
131087 AGAATGGATATAAATAAATACAAAAAAGATAGCATCATATTATATAAATTATA
1 AGAAGGGATATAAATAAATACAAAAAAGATAACACCACATTATATAAATTATA
* * *
131140 AGAAGGGATATAAATAAATACGAAAGAGATAACACCACATTATATAAGTTATA
1 AGAAGGGATATAAATAAATACAAAAAAGATAACACCACATTATATAAATTATA
*
131193 ACAAGG
1 AGAAGG
131199 TAACTTTTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.54, C:0.08, G:0.13, T:0.24
Consensus pattern (53 bp):
AGAAGGGATATAAATAAATACAAAAAAGATAACACCACATTATATAAATTATA
Found at i:133061 original size:14 final size:14
Alignment explanation
Indices: 133042--133080 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
133032 AGCAAAAACT
133042 TTTGTGTTGAAGAA
1 TTTGTGTTGAAGAA
133056 TTTGTGTTGAAGAA
1 TTTGTGTTGAAGAA
133070 TTTGTGTTGAA
1 TTTGTGTTGAA
133081 ATGGAATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (14 bp):
TTTGTGTTGAAGAA
Found at i:144375 original size:18 final size:18
Alignment explanation
Indices: 144338--144375 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
144328 CCCATCCTCT
*
144338 CCTTATATTCTCTCTGTC
1 CCTTATATTCTCTATGTC
*
144356 CCTTATATTCTCTATTTC
1 CCTTATATTCTCTATGTC
144374 CC
1 CC
144376 CCTCACTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.34, G:0.03, T:0.50
Consensus pattern (18 bp):
CCTTATATTCTCTATGTC
Found at i:145473 original size:22 final size:22
Alignment explanation
Indices: 145448--145493 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
145438 ACAGAGAAAA
*
145448 AGACTTATGAATTTATATTAGG
1 AGACGTATGAATTTATATTAGG
*
145470 AGACGTGTGAATTTATATTAGG
1 AGACGTATGAATTTATATTAGG
145492 AG
1 AG
145494 CGCCGTGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (22 bp):
AGACGTATGAATTTATATTAGG
Found at i:151183 original size:82 final size:79
Alignment explanation
Indices: 150838--151186 Score: 572
Period size: 80 Copynumber: 4.3 Consensus size: 79
150828 TATAAGTCCT
* * * *
150838 TACGGACCTAAGGATATCTTGGGTAGGGCCCAAGGCATATCCTTAGGTTGGTTTCCTTTGTTGTG
1 TACGGATCTAAGGATACCTTGGGTA-GACCCAAGGTATATCCTTAGGTTGGTTTCCTTTGTTGTG
150903 TGCATAAGGTAACCC
65 TGCATAAGGTAACCC
150918 TACGGATCTAAGGATACCTTTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCCTTTGTTGTG
1 TACGGATCTAAGGATACC-TTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCCTTTGTTGTG
150983 TGCATAAGGTAACCC
65 TGCATAAGGTAACCC
150998 TACGGATCTAAGGATACCTTTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCCTTTGTTGTG
1 TACGGATCTAAGGATACC-TTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCCTTTGTTGTG
151063 TGCATAAGGTAACCC
65 TGCATAAGGTAACCC
*
151078 TACGGATCTAAGGATACCCTTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCCTTTTTGCTG
1 TACGGATCTAAGGATA-CCTTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCC--TTTGTTG
*
151143 TGTGCTTAAGGTAACCC
63 TGTGCATAAGGTAACCC
*
151160 TACAGATCTAAGGATATCCTTGGGTAG
1 TACGGATCTAAGGATA-CCTTGGGTAG
151187 GCCTATAGGC
Statistics
Matches: 257, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
80 201 0.78
81 9 0.04
82 47 0.18
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (79 bp):
TACGGATCTAAGGATACCTTGGGTAGACCCAAGGTATATCCTTAGGTTGGTTTCCTTTGTTGTGT
GCATAAGGTAACCC
Found at i:151221 original size:17 final size:17
Alignment explanation
Indices: 151199--151232 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
151189 CTATAGGCCC
151199 CAAGGTATATCCTTAGG
1 CAAGGTATATCCTTAGG
*
151216 CAAGGTATATTCTTAGG
1 CAAGGTATATCCTTAGG
151233 TTGGCTCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (17 bp):
CAAGGTATATCCTTAGG
Found at i:152365 original size:20 final size:20
Alignment explanation
Indices: 152340--152384 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
152330 ATTAGTGTCG
*
152340 ATACCGGAG-GAAGAGTATCA
1 ATACCGAAGAGAAG-GTATCA
*
152360 ATACCGAAGAGAAGGTATCG
1 ATACCGAAGAGAAGGTATCA
152380 ATACC
1 ATACC
152385 ATTTTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.16
Consensus pattern (20 bp):
ATACCGAAGAGAAGGTATCA
Found at i:152953 original size:45 final size:43
Alignment explanation
Indices: 152902--153053 Score: 128
Period size: 45 Copynumber: 3.7 Consensus size: 43
152892 AGAATAATGT
*
152902 ATATGGGTGCATTATTGGCATGAAAGAATGCCTTAGCTAAAATAC
1 ATATGGGTGCATTATCGGCATGAAAGAATG-CTTAGCT-AAATAC
**
152947 ATATGGGTGCATTATCGGCAT-AAA-AA-----A--T-AATGT
1 ATATGGGTGCATTATCGGCATGAAAGAATGCTTAGCTAAATAC
*
152980 ATATGGGTGCATTATTGGCATGAAATG-ATGCATTAGCTGAAATAC
1 ATATGGGTGCATTATCGGCATGAAA-GAATGC-TTAGCT-AAATAC
* *
153025 ATATAGGTGCATTATCGGCATAAAAGAAT
1 ATATGGGTGCATTATCGGCATGAAAGAAT
153054 AATGCATATG
Statistics
Matches: 84, Mismatches: 9, Indels: 28
0.69 0.07 0.23
Matches are distributed among these distances:
33 23 0.27
34 3 0.04
35 2 0.02
37 1 0.01
41 1 0.01
43 3 0.04
44 4 0.05
45 47 0.56
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (43 bp):
ATATGGGTGCATTATCGGCATGAAAGAATGCTTAGCTAAATAC
Found at i:153023 original size:78 final size:78
Alignment explanation
Indices: 152889--153129 Score: 349
Period size: 78 Copynumber: 3.1 Consensus size: 78
152879 ACGAATGATC
*
152889 AAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAGAATGCCTTAGCTAAAATACATATGGG
1 AAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAG-ATGCCTTAGCTGAAATACATATGGG
152954 TGCATTATCGGCAT
65 TGCATTATCGGCAT
* *
152968 AAAA-AATAATGTATATGGGTGCATTATTGGCATGAAATGATGCATTAGCTGAAATACATATAGG
1 AAAAGAATAATGTATATGGGTGCATTATTGGCATGAAA-GATGCCTTAGCTGAAATACATATGGG
153032 TGCATTATCGGCAT
65 TGCATTATCGGCAT
* * ** * *
153046 AAAAGAATAATGCATATGGGTGCATTATTGGTATGAAAGGATGCCGAAGTTGAAATGCATATGGG
1 AAAAGAATAATGTATATGGGTGCATTATTGGCATGAAA-GATGCCTTAGCTGAAATACATATGGG
**
153111 TGCATTATCAACAT
65 TGCATTATCGGCAT
153125 AAAAG
1 AAAAG
153130 TATGCTATAA
Statistics
Matches: 146, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
78 73 0.50
79 73 0.50
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (78 bp):
AAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAGATGCCTTAGCTGAAATACATATGGGT
GCATTATCGGCAT
Found at i:157090 original size:45 final size:43
Alignment explanation
Indices: 157040--157261 Score: 167
Period size: 45 Copynumber: 5.5 Consensus size: 43
157030 TCAAAAGAAT
*
157040 AATGCATATGGGTGCATTATTGGCATGAAATGATACCTTAGCTG
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATACC-TAGCTG
* *
157084 AAATGCATATGGGTGCATTATCGGCA--AAA--AGA---A--T-
1 -AATGCATATGGGTGCATTATTGGCATGAAAGGATACCTAGCTG
* *
157118 AATGCATATGGGTGTATTATTGGCATGAAAGGATGCCTTAGCTG
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATACC-TAGCTG
* *
157162 CAATGCATATGGGTGCATTATCGGCAT-AAAAGA-A--TA-C--
1 -AATGCATATGGGTGCATTATTGGCATGAAAGGATACCTAGCTG
* * *
157199 --TGCATATGGGTGCATTATTGGCATGAAAGGATGCCGAAGTTG
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATACC-TAGCTG
157241 AAATGCATATGGGTGCATTAT
1 -AATGCATATGGGTGCATTAT
157262 CAACATAAAA
Statistics
Matches: 139, Mismatches: 15, Indels: 46
0.69 0.08 0.23
Matches are distributed among these distances:
33 23 0.17
34 23 0.17
35 9 0.06
37 2 0.01
39 2 0.01
40 2 0.01
41 3 0.02
43 4 0.03
44 5 0.04
45 66 0.47
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.29
Consensus pattern (43 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATACCTAGCTG
Found at i:157225 original size:79 final size:79
Alignment explanation
Indices: 157032--157272 Score: 385
Period size: 79 Copynumber: 3.1 Consensus size: 79
157022 ACGAATGATC
* *
157032 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAATGATACCTTAGCTGAAATGCATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGGG
157097 TGCATTATCGGCA-
66 TGCATTATCGGCAT
* *
157110 AAAAGAATAATGCATATGGGTGTATTATTGGCATGAAAGGATGCCTTAGCTGCAATGCATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGGG
157175 TGCATTATCGGCAT
66 TGCATTATCGGCAT
* ** *
157189 AAAAGAATACTGCATATGGGTGCATTATTGGCATGAAAGGATGCCGAAGTTGAAATGCATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGGG
**
157254 TGCATTATCAACAT
66 TGCATTATCGGCAT
157268 AAAAG
1 AAAAG
157273 TATGCTATAA
Statistics
Matches: 150, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
78 74 0.49
79 76 0.51
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGGG
TGCATTATCGGCAT
Found at i:158600 original size:2 final size:2
Alignment explanation
Indices: 158593--158647 Score: 52
Period size: 2 Copynumber: 31.0 Consensus size: 2
158583 AATTTATTTC
*
158593 AT AT AT AT A- AT AT AT AT AT -T A- AT AT TT AT AT -T AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
158630 AT AT AT A- AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
158648 TCATTTGGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
1 7 0.16
2 37 0.84
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:158607 original size:7 final size:7
Alignment explanation
Indices: 158595--158640 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
158585 TTTATTTCAT
158595 ATATATA
1 ATATATA
158602 ATATAT-
1 ATATATA
158608 ATAT-TA
1 ATATATA
158614 ATATTTATA
1 ATA--TATA
*
158623 TTATATA
1 ATATATA
158630 ATATATA
1 ATATATA
158637 ATAT
1 ATAT
158641 TATATATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
5 1 0.03
6 7 0.21
7 20 0.61
8 1 0.03
9 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
ATATATA
Found at i:158617 original size:12 final size:12
Alignment explanation
Indices: 158593--158648 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
158583 AATTTATTTC
158593 ATATATA-TAAT
1 ATATATATTAAT
158604 ATATATATTAAT
1 ATATATATTAAT
*
158616 ATTTATATT-AT
1 ATATATATTAAT
158627 ATA-ATATATAAT
1 ATATATAT-TAAT
158639 ATTATATATT
1 A-TATATATT
158649 CATTTGGTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 4 0.11
11 12 0.32
12 15 0.39
13 3 0.08
14 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATATATATTAAT
Found at i:158627 original size:28 final size:30
Alignment explanation
Indices: 158587--158648 Score: 94
Period size: 28 Copynumber: 2.1 Consensus size: 30
158577 CCATTAAATT
158587 TATTTCATATATATAATATAT-ATATTA-A
1 TATTTCATATATATAATATATAATATTATA
158615 TATTT-ATATTATATAATATATAATATTATA
1 TATTTCATA-TATATAATATATAATATTATA
158645 TATT
1 TATT
158649 CATTTGGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 3 0.10
28 17 0.55
29 6 0.19
30 5 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
TATTTCATATATATAATATATAATATTATA
Found at i:159818 original size:2 final size:2
Alignment explanation
Indices: 159811--159844 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
159801 TTAAAGTTAT
*
159811 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
159845 ACTATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:169749 original size:12 final size:12
Alignment explanation
Indices: 169725--169774 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 12
169715 GCCCTAAATT
169725 GAAAAAAGAAGAA
1 GAAAAAAG-AGAA
169738 GAAAAAAGAGAAA
1 GAAAAAAGAG-AA
* * *
169751 AAAAAAACAAAA
1 GAAAAAAGAGAA
169763 GAAAAAAGAGAA
1 GAAAAAAGAGAA
169775 AATAAAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
12 13 0.43
13 17 0.57
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (12 bp):
GAAAAAAGAGAA
Found at i:169764 original size:25 final size:26
Alignment explanation
Indices: 169726--169781 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
169716 CCCTAAATTG
*
169726 AAAAAAGAAGAAGAAAAAAGAGAAAA
1 AAAAAACAAGAAGAAAAAAGAGAAAA
169752 AAAAAACAA-AAGAAAAAAGAGAAAA
1 AAAAAACAAGAAGAAAAAAGAGAAAA
*
169777 TAAAA
1 AAAAA
169782 TAAGGTGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (26 bp):
AAAAAACAAGAAGAAAAAAGAGAAAA
Found at i:169781 original size:13 final size:12
Alignment explanation
Indices: 169726--169781 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
169716 CCCTAAATTG
*
169726 AAAAAAGAAGAAG
1 AAAAAAG-AGAAA
169739 AAAAAAGAGAAA
1 AAAAAAGAGAAA
*
169751 AAAAAA-ACAAAA
1 AAAAAAGA-GAAA
169763 GAAAAAAGAGAAA
1 -AAAAAAGAGAAA
*
169776 ATAAAA
1 AAAAAA
169782 TAAGGTGGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 1 0.03
12 18 0.50
13 16 0.44
14 1 0.03
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (12 bp):
AAAAAAGAGAAA
Found at i:171092 original size:111 final size:111
Alignment explanation
Indices: 170894--171098 Score: 286
Period size: 111 Copynumber: 1.8 Consensus size: 111
170884 GTTTCCCAAT
* *
170894 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAACTCAATTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAACTCAACTTCA
* *
170959 CAATGAAGGGGCGACTGATTGTCGACAAATAACTTTTTCAGTTTCA
66 CAACGAAGGGGCGACTGATTGTCAACAAATAACTTTTTCAGTTTCA
* * *
171005 TTCAGAGTCAATTTCAACTTTC-CAGGGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTC
1 TTCAGAGCCAATTTCAAC-TTCACAGCGAAGGATATTAGACTCAAGACAACACAAACTCAACTTC
* * ** *
171069 ACAGCGAAGGGGTGGTTGTTTGTCAACAAA
65 ACAACGAAGGGGCGACTGATTGTCAACAAA
171099 CAATTTCCCA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
111 78 0.96
112 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (111 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAACTCAACTTCA
CAACGAAGGGGCGACTGATTGTCAACAAATAACTTTTTCAGTTTCA
Found at i:171861 original size:12 final size:14
Alignment explanation
Indices: 171836--171880 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
171826 AAATTTATTT
171836 TATA-TATATAATA
1 TATATTATATAATA
171849 TATATT-T-TAATA
1 TATATTATATAATA
171861 TTTATATTATATAATA
1 --TATATTATATAATA
171877 TATA
1 TATA
171881 ATATTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
14 11 0.41
15 1 0.04
16 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATTATATAATA
Found at i:171866 original size:21 final size:20
Alignment explanation
Indices: 171831--171891 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
171821 CCATTAAATT
171831 TATTTTATATATATAATATA
1 TATTTTATATATATAATATA
* *
171851 TATTTTAATATTTATATTATA
1 TATTTT-ATATATATAATATA
* * *
171872 TAATATATA-ATATTATATA
1 TATTTTATATATATAATATA
171891 T
1 T
171892 TCATTTGGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 8 0.24
20 9 0.27
21 16 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTTATATATATAATATA
Found at i:171889 original size:28 final size:26
Alignment explanation
Indices: 171830--171889 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 26
171820 TCCATTAAAT
*
171830 TTAT-TTTATATATATAATATATATT
1 TTATATTTATATATATAATATATATA
171855 TTAATATTTATATTATATAATATATAATA
1 TT-ATATTTATA-TATATAATATAT-ATA
171884 TTATAT
1 TTATAT
171890 ATTCATTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.07
26 2 0.07
27 6 0.20
28 16 0.53
29 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTATATTTATATATATAATATATATA
Found at i:171891 original size:12 final size:12
Alignment explanation
Indices: 171838--171891 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
171828 ATTTATTTTA
171838 TATATATAATA-
1 TATATATAATAT
*
171849 TATATTTTAATAT
1 TATA-TATAATAT
*
171862 T-TATATTATAT
1 TATATATAATAT
*
171873 AATATATAATAT
1 TATATATAATAT
171885 TATATAT
1 TATATAT
171892 TCATTTGGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
11 10 0.29
12 23 0.68
13 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATATATAATAT
Found at i:173269 original size:22 final size:22
Alignment explanation
Indices: 173241--173295 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
173231 ATTTTATATT
173241 TTTATTTTTTCCTTTGTCTTTA
1 TTTATTTTTTCCTTTGTCTTTA
* * *
173263 TTTATTTTCT-ATTTTTCTTTA
1 TTTATTTTTTCCTTTGTCTTTA
173284 --TATTTTTTCCTT
1 TTTATTTTTTCCTT
173296 ATTTATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 7 0.26
20 2 0.07
21 9 0.33
22 9 0.33
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTATTTTTTCCTTTGTCTTTA
Found at i:174750 original size:21 final size:20
Alignment explanation
Indices: 174664--174821 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
174654 AAATGACCAA
**
174664 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
174683 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
174703 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
174723 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
174744 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
174765 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
174785 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
174806 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
174822 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 42 0.40
21 46 0.44
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:174850 original size:20 final size:20
Alignment explanation
Indices: 174789--175017 Score: 230
Period size: 20 Copynumber: 11.4 Consensus size: 20
174779 GATTTTCAAG
* ** *
174789 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
174809 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
174829 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
174849 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
174869 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
174889 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
174909 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
174929 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
174949 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
174969 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
174989 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
175009 AATCACAAC
1 AATCGCAAC
175018 ACTGAAATTT
Statistics
Matches: 175, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 171 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:175749 original size:24 final size:24
Alignment explanation
Indices: 175710--175756 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
175700 AAATTTGGTC
175710 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
175734 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
175757 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:178287 original size:33 final size:34
Alignment explanation
Indices: 178217--178382 Score: 192
Period size: 33 Copynumber: 4.8 Consensus size: 34
178207 GCATTTGACT
** * * * *
178217 ATCGCAACACGGAAATTACAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
*
178251 ATCGCAATGC-GAAATGAAAATCCCAACAAGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
178284 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--C--AA-GAAA
* *
178323 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
178356 ATCGCAATGCGGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA
178383 TGCGAAATGA
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
33 41 0.36
34 40 0.35
36 2 0.02
38 18 0.16
39 14 0.12
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
Done.