Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 27 of 52
Found at i:4423651 original size:19 final size:18
Alignment explanation
Indices: 4423594--4423657 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
4423584 TACAAGCCAA
4423594 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-A-TTTTTG
4423614 TGTATCGATACA----T-
1 TGTATCGATACATTTTTG
4423627 TGTATCGATACATTCTTTG
1 TGTATCGATACATT-TTTG
4423646 TGTATCGATACA
1 TGTATCGATACA
4423658 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 12 0.32
14 1 0.03
18 1 0.03
19 13 0.34
20 11 0.29
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (18 bp):
TGTATCGATACATTTTTG
Found at i:4423651 original size:32 final size:33
Alignment explanation
Indices: 4423594--4423657 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
4423584 TACAAGCCAA
*
4423594 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTCTTTGTGTATCGATACAT
4423627 TGTATCGATAC-ATTCTTTGTGTATCGATACA
1 TGTATCGATACAATTCTTTGTGTATCGATACA
4423658 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATTCTTTGTGTATCGATACAT
Found at i:4424432 original size:150 final size:150
Alignment explanation
Indices: 4424156--4424542 Score: 391
Period size: 150 Copynumber: 2.6 Consensus size: 150
4424146 ATATATAGAA
* * *
4424156 AAAAATTC-AAAACTCATAAAACAAATTGAATTTTTTAGAATTGATTTAATATAAATTAATAATA
1 AAAAATTCTAAAACTCAT-AAAGAAATTGAATTTTTTAAAACTGATTTAATATAAATTAATAATA
** *
4424220 ATATTTGATGAATTTTAAAAATTTTGCACTGAGAAAATCCAACCAAAAAAATTTACGAAGTAGAA
65 ATATTTGAAAAATTTTAAAAATTTAGCACTGAGAAAATCCAACC-AAAAAATTTACGAAGTAGAA
4424285 AACTCCATATTTTA-A-AACTGAA-
129 AACTCCATA-TTTAGATAAC--AAG
* *
4424307 AAAAATTTTAAAA--CATATAA-AAATTGAATTTTTTAAAACTGATTTCATATAAATTAAATAAT
1 AAAAATTCTAAAACTCATA-AAGAAATTGAATTTTTTAAAACTGATTTAATATAAATT-AATAAT
* * ** * * *
4424369 AATATTTGAAAAATTTTTAAAATTATAAGCATTGA-AAAATTTTATCC-AAAAATTTATGGAGTA
64 AATATTTGAAAAATTTTAAAAATT-T-AGCACTGAGAAAA-TCCAACCAAAAAATTTACGAAGTA
***
4424432 GAAAACTTTGTATTTAGATAACAAG
126 GAAAACTCCATATTTAGATAACAAG
* * *
4424457 AAAAATTCTAAAACTCATAAAGTAAATTAAATTTTTTAAAACTAATTTAATATGAATTAA-AATA
1 AAAAATTCTAAAACTCATAAAG-AAATTGAATTTTTTAAAACTGATTTAATATAAATTAATAATA
*
4424521 ATATTTTAAGAAA-TTTAAAAAT
65 ATATTTGAA-AAATTTTAAAAAT
4424543 CATATACTCA
Statistics
Matches: 198, Mismatches: 24, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
149 39 0.20
150 68 0.34
151 37 0.19
152 23 0.12
153 31 0.16
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (150 bp):
AAAAATTCTAAAACTCATAAAGAAATTGAATTTTTTAAAACTGATTTAATATAAATTAATAATAA
TATTTGAAAAATTTTAAAAATTTAGCACTGAGAAAATCCAACCAAAAAATTTACGAAGTAGAAAA
CTCCATATTTAGATAACAAG
Found at i:4425611 original size:150 final size:151
Alignment explanation
Indices: 4425412--4425799 Score: 406
Period size: 150 Copynumber: 2.6 Consensus size: 151
4425402 GATATATAGA
* * *
4425412 AAAATATTC-AAAACTCATAAAACAAATTGAATTTTTTAGAATTGATTTAATATGAATTAAATAA
1 AAAA-ATTCTAAAACTCAT-AAAGAAATTGAATTTTTTAAAACTGATTTAATATGAATTAAATAA
*
4425476 TAATATTTGATGAATTTTAAAAATT-T-TGCATTGAGAAAA-TCCAACCAAAAAAATTTACGGAG
64 TAATATTTGA-GAATTTTAAAAATTATAAGCATTGA-AAAATTCCAACC--AAAAATTTACGGAG
*
4425538 TAGAAAACTCCATATTTTA-AAAATGAA-
125 TAGAAAACTCCATA-TTTAGAAAA-CAAG
* *
4425565 AAAAATTTTAAAA--CATATAA-AAATTGAATTTTTTAAAACTGATTTAATATAAATTAAATAAT
1 AAAAATTCTAAAACTCATA-AAGAAATTGAATTTTTTAAAACTGATTTAATATGAATTAAATAAT
* ** * *
4425627 AATATTTGAAAAAATTTT--AAATTATAAGCATTGAAAAATTTTATCCAAAAATTTATGGAGTAG
65 AATATTTG--AGAATTTTAAAAATTATAAGCATTGAAAAATTCCAACCAAAAATTTACGGAGTAG
***
4425690 AAAACTTTGTATTTAGAAAACAAG
128 AAAACTCCATATTTAGAAAACAAG
* *
4425714 AAAAATTCTAAAACTCATAAAGTAAATTAAATTTTTTAAAACTAATTTAATATGAATT-AA-AAT
1 AAAAATTCTAAAACTCATAAAG-AAATTGAATTTTTTAAAACTGATTTAATATGAATTAAATAAT
*
4425777 AATATTTTCAGAATTTTAAAAAT
65 AATA-TTTGAGAATTTTAAAAAT
4425800 CATATACTCA
Statistics
Matches: 199, Mismatches: 20, Indels: 34
0.79 0.08 0.13
Matches are distributed among these distances:
148 6 0.03
149 52 0.26
150 62 0.31
151 35 0.18
152 36 0.18
153 8 0.04
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (151 bp):
AAAAATTCTAAAACTCATAAAGAAATTGAATTTTTTAAAACTGATTTAATATGAATTAAATAATA
ATATTTGAGAATTTTAAAAATTATAAGCATTGAAAAATTCCAACCAAAAATTTACGGAGTAGAAA
ACTCCATATTTAGAAAACAAG
Found at i:4425647 original size:25 final size:24
Alignment explanation
Indices: 4425618--4425669 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
4425608 TTAATATAAA
*
4425618 TTAAATAATAA-TATTTGAAAAAATT
1 TTAAATAATAAGCA-TTG-AAAAATT
*
4425643 TTAAATTATAAGCATTGAAAAATT
1 TTAAATAATAAGCATTGAAAAATT
4425667 TTA
1 TTA
4425670 TCCAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.42
25 13 0.54
26 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (24 bp):
TTAAATAATAAGCATTGAAAAATT
Found at i:4426869 original size:60 final size:59
Alignment explanation
Indices: 4426791--4427058 Score: 173
Period size: 60 Copynumber: 4.5 Consensus size: 59
4426781 AGACTTAATG
* *
4426791 AAATGGCTTGGATAAAATCAGAAACCT-AACAATAACTATGGGCAAAACCAAAACTCAACA
1 AAATGGCCTGGATAAAATCAAAAACCTAAACAATAACT-TGGGCAAAA-CAAAACTCAACA
* * ** * * * *
4426851 AAATGGCCTGGGTGAAATCAAAAATGTAAATAATGACTTGGGCAAAACAAGACTTAACA
1 AAATGGCCTGGATAAAATCAAAAACCTAAACAATAACTTGGGCAAAACAAAACTCAACA
* * * * ** * * **
4426910 AAATGGCCTAGACAAAA-CTATAAAGCTAAACAATGGCTTGGGTAAAACCAAGACTCAAGG
1 AAATGGCCTGGATAAAATC-AAAAACCTAAACAATAACTTGGGCAAAA-CAAAACTCAACA
* * * * * * * **
4426970 AAATGTCCTGGAT-AAAGCGAGAAACCTAAATAATGACTTGGGTAAAATCAAGACTCAAGG
1 AAATGGCCTGGATAAAATC-AAAAACCTAAACAATAACTTGGGCAAAA-CAAAACTCAACA
* * *
4427030 AAATGGCCTAGATAAAACCAAAACCCTAA
1 AAATGGCCTGGATAAAATCAAAAACCTAA
4427059 CAAGGGATAT
Statistics
Matches: 166, Mismatches: 37, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
58 1 0.01
59 48 0.29
60 105 0.63
61 12 0.07
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (59 bp):
AAATGGCCTGGATAAAATCAAAAACCTAAACAATAACTTGGGCAAAACAAAACTCAACA
Found at i:4426914 original size:119 final size:117
Alignment explanation
Indices: 4426751--4427061 Score: 295
Period size: 119 Copynumber: 2.6 Consensus size: 117
4426741 CAATAAAACC
* * * * * * *
4426751 AAAAACCT-AATAATGATTTGAGCATAATGAAGACTTAATGAAATGGCTTGGATAAAATCAGAAA
1 AAAAACCTAAATAATGACTTGGGCAAAATCAAGACTTAACGAAATGGCCTAGATAAAA-CA-AAA
* *
4426815 CCTAACAATAACTATGGGCAAAACCAAAACTCAACAAAATGGCCTGGGTGAAATC-
64 CCTAACAATAACT-TGGGCAAAACCAAAACTCAACAAAATGGCCTGGAT-AAAGCG
** * *
4426870 AAAAATGTAAATAATGACTTGGGCAAAA-CAAGACTTAACAAAATGGCCTAGACAAAACTATAAA
1 AAAAACCTAAATAATGACTTGGGCAAAATCAAGACTTAACGAAATGGCCTAGATAAAAC-A-AAA
* ** * * ** *
4426934 GCTAAACAATGGCTTGGGTAAAACCAAGACTCAAGGAAATGTCCTGGATAAAGCG
64 CCT-AACAATAACTTGGGCAAAACCAAAACTCAACAAAATGGCCTGGATAAAGCG
* * * *
4426989 AGAAACCTAAATAATGACTTGGGTAAAATCAAGACTCAAGGAAATGGCCTAGATAAAACCAAAAC
1 AAAAACCTAAATAATGACTTGGGCAAAATCAAGACTTAACGAAATGGCCTAGATAAAA-CAAAA-
4427054 CCTAACAA
64 CCTAACAA
4427062 GGGATATATA
Statistics
Matches: 154, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
118 5 0.03
119 96 0.62
120 52 0.34
121 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (117 bp):
AAAAACCTAAATAATGACTTGGGCAAAATCAAGACTTAACGAAATGGCCTAGATAAAACAAAACC
TAACAATAACTTGGGCAAAACCAAAACTCAACAAAATGGCCTGGATAAAGCG
Found at i:4428767 original size:8 final size:7
Alignment explanation
Indices: 4428756--4428818 Score: 54
Period size: 7 Copynumber: 8.1 Consensus size: 7
4428746 TTTCATTTCA
4428756 TGTTTGTT
1 TGTTT-TT
4428764 TGTTTTTT
1 TG-TTTTT
*
4428772 TATTTTTT
1 T-GTTTTT
*
4428780 TATTTTT
1 TGTTTTT
4428787 TGTTTTT
1 TGTTTTT
4428794 TGTTTTCTTT
1 TG--TT-TTT
4428804 TGTTTTT
1 TGTTTTT
4428811 TGTTTTT
1 TGTTTTT
4428818 T
1 T
4428819 ATTTAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
7 24 0.51
8 13 0.28
9 5 0.11
10 5 0.11
ACGTcount: A:0.03, C:0.02, G:0.11, T:0.84
Consensus pattern (7 bp):
TGTTTTT
Found at i:4428788 original size:23 final size:24
Alignment explanation
Indices: 4428762--4428822 Score: 83
Period size: 23 Copynumber: 2.6 Consensus size: 24
4428752 TTCATGTTTG
4428762 TTTGTTTTTTTATTT-TTTTATTT
1 TTTGTTTTTTTATTTCTTTTATTT
*
4428785 TTTGTTTTTTGT-TTTCTTTTGTTT
1 TTTGTTTTTT-TATTTCTTTTATTT
4428809 TTTG-TTTTTTATTT
1 TTTGTTTTTTTATTT
4428823 AGACTAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
22 1 0.03
23 21 0.62
24 12 0.35
ACGTcount: A:0.05, C:0.02, G:0.08, T:0.85
Consensus pattern (24 bp):
TTTGTTTTTTTATTTCTTTTATTT
Found at i:4428793 original size:24 final size:24
Alignment explanation
Indices: 4428762--4428818 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
4428752 TTCATGTTTG
4428762 TTTGTTTTTT-TATTT-TTTTATTT
1 TTTGTTTTTTGT-TTTCTTTTATTT
*
4428785 TTTGTTTTTTGTTTTCTTTTGTTT
1 TTTGTTTTTTGTTTTCTTTTATTT
4428809 TTTGTTTTTT
1 TTTGTTTTTT
4428819 ATTTAGACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.86
Consensus pattern (24 bp):
TTTGTTTTTTGTTTTCTTTTATTT
Found at i:4428794 original size:17 final size:17
Alignment explanation
Indices: 4428766--4428823 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
4428756 TGTTTGTTTG
4428766 TTTTTTTA-TTTTT-TT
1 TTTTTTTATTTTTTGTT
* *
4428781 ATTTTTTGTTTTTTGTT
1 TTTTTTTATTTTTTGTT
* *
4428798 TTCTTTTGTTTTTTGTT
1 TTTTTTTATTTTTTGTT
4428815 TTTTATTTA
1 TTTT-TTTA
4428824 GACTAAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 6 0.18
16 5 0.15
17 20 0.59
18 3 0.09
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.84
Consensus pattern (17 bp):
TTTTTTTATTTTTTGTT
Found at i:4430532 original size:144 final size:136
Alignment explanation
Indices: 4430321--4430599 Score: 443
Period size: 135 Copynumber: 2.0 Consensus size: 136
4430311 TCTTGAGAAA
*
4430321 AAAAGATGATATCTTCTATGTAGACACCAAATTTTGTCTAGCTTTTTTTTTTTAAGATACTCATT
1 AAAAGATGATATCTTCTATGTAGACACCAAATTTTGTCTAGC-TCTTTTTTTTAAGATACTCATT
*
4430386 TTTTTAGTTAATCAGGCCATCTTTGATTTGGATTTGTAGGATCTAGATTAATTGAGTTATTTCTT
65 TTTTTAGTTAATCAGG-CATC------TTGGATTTGTAGGATCCAGATTAATTGAGTTATTTCTT
4430451 TTAATTTAGATTTT
123 TTAATTTAGATTTT
*
4430465 AAAAGATGATATCTTCTATGTAGACACCAAATTTTGTCTGGC-CTTTTTTTTAAGATACTCATTT
1 AAAAGATGATATCTTCTATGTAGACACCAAATTTTGTCTAGCTCTTTTTTTTAAGATACTCATTT
*
4430529 TTTTAGTTAATCAGGCATCTTGGATTTGTAGGATCCGGATTAATTGAGTTATTTCTTTTAATTTA
66 TTTTAGTTAATCAGGCATCTTGGATTTGTAGGATCCAGATTAATTGAGTTATTTCTTTTAATTTA
4430594 GATTTT
131 GATTTT
4430600 TTAAAAAAAG
Statistics
Matches: 131, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
135 50 0.38
141 4 0.03
142 36 0.27
144 41 0.31
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (136 bp):
AAAAGATGATATCTTCTATGTAGACACCAAATTTTGTCTAGCTCTTTTTTTTAAGATACTCATTT
TTTTAGTTAATCAGGCATCTTGGATTTGTAGGATCCAGATTAATTGAGTTATTTCTTTTAATTTA
GATTTT
Found at i:4431043 original size:20 final size:20
Alignment explanation
Indices: 4430992--4431045 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
4430982 AAGTACCCAG
* * *
4430992 ATGTATCGATAAATTTTTCA
1 ATGTATCGATACATGTATCA
* *
4431012 ATGTATCAATACATGTATGA
1 ATGTATCGATACATGTATCA
4431032 ATGTATCGATACAT
1 ATGTATCGATACAT
4431046 TCTGTCTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:4445059 original size:8 final size:8
Alignment explanation
Indices: 4445046--4445121 Score: 73
Period size: 9 Copynumber: 9.1 Consensus size: 8
4445036 TTCATACCAA
4445046 AAAAAAAC
1 AAAAAAAC
4445054 AAAAAAAAC
1 -AAAAAAAC
*
4445063 AAAAAAATAG
1 -AAAAAA-AC
4445073 AAAAAAACC
1 AAAAAAA-C
4445082 AAAAAAAC
1 AAAAAAAC
4445090 AAAAAAAC
1 AAAAAAAC
* *
4445098 CAAGAAA-
1 AAAAAAAC
*
4445105 AAAATAAC
1 AAAAAAAC
4445113 AAAAAAAC
1 AAAAAAAC
4445121 A
1 A
4445122 GAAAGGGGTC
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
7 4 0.07
8 23 0.41
9 28 0.50
10 1 0.02
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:4445059 original size:9 final size:9
Alignment explanation
Indices: 4445045--4445107 Score: 74
Period size: 9 Copynumber: 6.9 Consensus size: 9
4445035 CTTCATACCA
4445045 AAAAAAAAC
1 AAAAAAAAC
4445054 AAAAAAAAC
1 AAAAAAAAC
4445063 AAAAAAATA-
1 AAAAAAA-AC
*
4445072 GAAAAAAAC
1 AAAAAAAAC
*
4445081 CAAAAAAAC
1 AAAAAAAAC
*
4445090 AAAAAAACC
1 AAAAAAAAC
4445099 AAGAAAAAA
1 AA-AAAAAA
4445108 ATAACAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
8 1 0.02
9 39 0.85
10 6 0.13
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:4445105 original size:27 final size:27
Alignment explanation
Indices: 4445046--4445118 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
4445036 TTCATACCAA
*
4445046 AAAAAAACAAAAAAAACAAAAAAATAG
1 AAAAAAACAAAAAAAACAAAAAAACAG
*
4445073 AAAAAAACCAAAAAAACAAAAAAACCAAG
1 AAAAAAACAAAAAAAACAAAAAAA-C-AG
*
4445102 AAAAAAATAACAAAAAA
1 AAAAAAACAA-AAAAAA
4445119 ACAGAAAGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
27 23 0.59
29 10 0.26
30 6 0.15
ACGTcount: A:0.84, C:0.11, G:0.03, T:0.03
Consensus pattern (27 bp):
AAAAAAACAAAAAAAACAAAAAAACAG
Found at i:4446380 original size:28 final size:28
Alignment explanation
Indices: 4446337--4447044 Score: 880
Period size: 28 Copynumber: 24.9 Consensus size: 28
4446327 CGTTCATCTC
*
4446337 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4446365 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
4446393 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4446421 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** * *
4446449 TTCAAAGCCCATGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
*
4446479 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4446507 TTCAAAGCCCACAAATCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4446535 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
4446563 TTCAAAGCCCACGAGTCGGTAGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* * *
4446593 TTCAAAGCCCATAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
4446621 TTTAAAGCCCACAAGTTAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4446649 TTCAAAGCCCACAAGTC-GATGGCAACTCTT
1 TTCAAAGCCCACAAGTCAG-TGGC-AC-CCT
4446679 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4446707 TTCAAAGCCCACATGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4446735 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4446763 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4446791 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4446819 TTCAAAGCCCACGAA-TCGGTGGCAACTCTT
1 TTCAAAGCCCAC-AAGTCAGTGGC-AC-CCT
*
4446849 TTCAAAGCCCAAAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4446877 TTCAAAGCCCACAAGTCAGTAGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * *
4446906 TTCAAAACCCACAAGTCAATAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4446934 ATCAAAGCCCATAAGTCAGTGGCACCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4446962 TTCAAAGCCCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4446990 TTCAAAGCCCACAAGTCGGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
4447019 TTCAAAGCCCACACGAGTCAGTGGCA
1 TTCAAAGCCCACA--AGTCAGTGGCA
4447045 ACTCTTTTCA
Statistics
Matches: 588, Mismatches: 76, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.00
28 439 0.75
29 53 0.09
30 84 0.14
31 11 0.02
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:4446535 original size:114 final size:114
Alignment explanation
Indices: 4446337--4447056 Score: 956
Period size: 114 Copynumber: 6.3 Consensus size: 114
4446327 CGTTCATCTC
* *
4446337 TTCAAAGCCCATAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
4446401 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
66 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
** * *
4446449 TTCAAAGCCCATGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGC-ACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
*
4446514 CCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
65 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * * * *
4446563 TTCAAAGCCCACGAGTCGGTAGCAACTCTTTTCAAAGCCCATAAGTCAATGGCATCCTTTTAAAG
1 TTCAAAGCCCACAAGTCAGTGGC-ACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
* ** *
4446628 CCCACAAGTTAGTGGCATTCTTTCAAAGCCCACAAGTC-GATGGCAACTCTT
65 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAG-TGGC-ACTCCT
*
4446679 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACATGTCAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
*
4446743 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
66 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * *
4446791 TTCAAAGCCCACAAGTCAATGGCA-TCCTTTCAAAGCCCACGAA-TCGGTGGCAACTCTTTTCAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC-AAGTCAGTGGC-A-TCCTTTCAA
* * *
4446854 AGCCCAAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGCACTCTT
63 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * *
4446906 TTCAAAACCCACAAGTCAATAGCA-TCCTATCAAAGCCCATAAGTCAGTGGCA-CCATTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAG
* * *
4446969 CCCACAAGTCAGTGACACCCTTTCAAAGCCCACAAGTCGGTGGCACTCTT
65 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
*
4447019 TTCAAAGCCCACACGAGTCAGTGGCAACTCTTTTCAAA
1 TTCAAAGCCCACA--AGTCAGTGGC-ACTCCTTTCAAA
4447057 ACCCGCACAA
Statistics
Matches: 542, Mismatches: 49, Indels: 29
0.87 0.08 0.05
Matches are distributed among these distances:
112 70 0.13
113 72 0.13
114 310 0.57
115 58 0.11
116 24 0.04
117 8 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (114 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCT
Found at i:4448000 original size:20 final size:20
Alignment explanation
Indices: 4447975--4448052 Score: 113
Period size: 20 Copynumber: 3.9 Consensus size: 20
4447965 AAAGTGCCCA
4447975 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
* *
4447995 AATGTATCGATACATAT-ATG
1 AATGTATCGATACAT-TCTTC
*
4448015 AATGTATCGATACATTCTTT
1 AATGTATCGATACATTCTTC
4448035 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
4448053 ATCTTTTTAC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 50 0.96
21 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:4451169 original size:13 final size:13
Alignment explanation
Indices: 4451151--4451175 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4451141 CATAAAGTGT
4451151 TGTATCGATACAA
1 TGTATCGATACAA
4451164 TGTATCGATACA
1 TGTATCGATACA
4451176 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4451173 original size:33 final size:33
Alignment explanation
Indices: 4451131--4451197 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4451121 TTCAACGATT
4451131 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
4451164 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
4451197 T
1 T
4451198 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:4451256 original size:13 final size:13
Alignment explanation
Indices: 4451238--4451262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4451228 ATCACTTAAA
4451238 TGTATCGATACAT
1 TGTATCGATACAT
4451251 TGTATCGATACA
1 TGTATCGATACA
4451263 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4750497 original size:13 final size:13
Alignment explanation
Indices: 4750476--4750508 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4750466 CCCTTATATT
4750476 GATACAATGTATC
1 GATACAATGTATC
*
4750489 GATATAATGTATC
1 GATACAATGTATC
4750502 GATACAA
1 GATACAA
4750509 AGAATATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (13 bp):
GATACAATGTATC
Found at i:4756400 original size:32 final size:33
Alignment explanation
Indices: 4756359--4756421 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
4756349 CAGTTTCATG
*
4756359 TATCGATACAATG-A-ACATGTATCGATACATTA
1 TATCGATACAAAGCATA-ATGTATCGATACATTA
4756391 TATCGATACAAAGCATAATGTATCGATACAT
1 TATCGATACAAAGCATAATGTATCGATACAT
4756422 CTGGGTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.43
33 15 0.54
34 1 0.04
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (33 bp):
TATCGATACAAAGCATAATGTATCGATACATTA
Found at i:4756559 original size:22 final size:22
Alignment explanation
Indices: 4756528--4756582 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
4756518 ATTTTTACTT
* *
4756528 AAAAAGATTTGAATTAAGGTTC
1 AAAAACATTTGAATTAAAGTTC
4756550 AAAAACATTTGAATTAAAGTTC
1 AAAAACATTTGAATTAAAGTTC
4756572 AAAAACATTTG
1 AAAAACATTTG
4756583 TTTATAACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (22 bp):
AAAAACATTTGAATTAAAGTTC
Found at i:4759092 original size:20 final size:20
Alignment explanation
Indices: 4759054--4759099 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
4759044 ATTCAATGAG
*
4759054 ATGC-TGAAAAT-ATTAAAA
1 ATGCATGAAAATAATAAAAA
4759072 ATGCATGAAACATAATAAAAA
1 ATGCATGAAA-ATAATAAAAA
4759093 ATGCATG
1 ATGCATG
4759100 GTCAAAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 5 0.21
20 2 0.08
21 13 0.54
ACGTcount: A:0.54, C:0.09, G:0.13, T:0.24
Consensus pattern (20 bp):
ATGCATGAAAATAATAAAAA
Found at i:4760047 original size:20 final size:20
Alignment explanation
Indices: 4760003--4760074 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 20
4759993 AAGACATAAT
* * *
4760003 GTATCGATACATTGTAGAAT
1 GTATCGATACATTGAAAAAG
* * * *
4760023 ATATCGATACATTTATACAG
1 GTATCGATACATTGAAAAAG
* *
4760043 GTATCGATATATTGAAAAAT
1 GTATCGATACATTGAAAAAG
4760063 GTATCGATACAT
1 GTATCGATACAT
4760075 CAAGGTAAAA
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
GTATCGATACATTGAAAAAG
Found at i:4760674 original size:32 final size:32
Alignment explanation
Indices: 4760631--4761021 Score: 613
Period size: 32 Copynumber: 12.2 Consensus size: 32
4760621 TTTTTTAAAA
** * *
4760631 AAAAGGG-TGCCACTAACTTATGTGGGCCTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
** *
4760662 AAAAGAATTGCCACCGACTCGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
4760694 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
4760726 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
4760758 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* * *
4760790 GAATGGGTTGCCATCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
4760822 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTC
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
4760854 AAAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
4760886 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
4760918 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
4760950 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
4760982 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
4761014 AAATGGGT
1 AAAAGGGT
4761022 GCCTCAGAGT
Statistics
Matches: 332, Mismatches: 27, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
31 5 0.02
32 327 0.98
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (32 bp):
AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
Found at i:4761130 original size:55 final size:54
Alignment explanation
Indices: 4761018--4762136 Score: 1543
Period size: 55 Copynumber: 20.5 Consensus size: 54
4761008 GCTTTGAAAT
* * * * * * *
4761018 GGGTGCCTCAGAGTTGTGGATTTTAAAAGAGTGGCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAA
* * *
4761074 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAA
*
4761129 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
4761183 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGA-TTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAA
* * *
4761237 GGGTGCCATGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
4761292 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
4761347 GGGTGACACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
* *
4761402 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGCACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
4761456 GGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
4761510 GGGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
**
4761565 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCATAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** * *
4761620 GATATGGCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTT-AAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
**
4761674 GGTGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAA
1 GG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
4761730 GGATATGCCACGGAGTTGTGGACTTAAAAGGGTGCTACGGAGTTGCGGACTTAAAA
1 GG--GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* **
4761786 GTGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
4761841 GGATGCCACGAAGTTGTGGGC-T--AA---TGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
**
4761889 GGGTGCCACTAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
4761943 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
4761998 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** * * * *
4762053 GAATGCCACAGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTATGGACTCTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACT-TAAAA
* * *
4762109 GGGTACCACGGAGTTGTGGGCTTTAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG
4762137 AGGTCACAGT
Statistics
Matches: 957, Mismatches: 83, Indels: 47
0.88 0.08 0.04
Matches are distributed among these distances:
48 24 0.03
49 19 0.02
51 2 0.00
52 2 0.00
53 2 0.00
54 343 0.36
55 421 0.44
56 102 0.11
57 42 0.04
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.24
Consensus pattern (54 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:4761143 original size:27 final size:27
Alignment explanation
Indices: 4761018--4762136 Score: 1543
Period size: 27 Copynumber: 41.0 Consensus size: 27
4761008 GCTTTGAAAT
* * *
4761018 GGGTGCCTCAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* * * *
4761046 GAGTGGCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
4761074 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
4761101 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
4761129 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4761156 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4761183 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
4761210 GGGTGCCACGGAGTTATGGA-TTAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
*
4761237 GGGTGCCATGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
4761265 GGGTGCCACAGAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
4761292 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
4761320 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
4761347 GGGTGACACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4761374 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
4761402 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
4761429 GGGTGCCACAGAGTTGTGCACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4761456 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
4761483 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4761510 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
4761538 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4761565 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
**
4761593 GGGTGCCATAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
4761620 GATATGGCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
4761648 AGGTGCCACGGAGTTGTGGACTT-AAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4761674 GGTGTGCCACGGAGTTGTGGACTTAAAA
1 GG-GTGCCACGGAGTTGTGGACTTAAAA
**
4761702 GAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
4761730 GGATATGCCACGGAGTTGTGGACTTAAAA
1 GG--GTGCCACGGAGTTGTGGACTTAAAA
* *
4761759 GGGTGCTACGGAGTTGCGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
4761786 GTGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
4761813 GAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
4761841 GGATGCCACGAAGTTGTGGGC-T--AA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4761865 ---TGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
4761889 GGGTGCCACTAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4761916 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4761943 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
4761971 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4761998 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
4762026 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
4762053 GAATGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
4762081 GGATGCCACGAAGTTATGGACTCTAAAA
1 GGGTGCCACGGAGTTGTGGACT-TAAAA
* * *
4762109 GGGTACCACGGAGTTGTGGGCTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4762136 G
1 G
4762137 AGGTCACAGT
Statistics
Matches: 984, Mismatches: 82, Indels: 51
0.88 0.07 0.05
Matches are distributed among these distances:
21 16 0.02
22 1 0.00
24 4 0.00
26 7 0.01
27 583 0.59
28 344 0.35
29 10 0.01
30 19 0.02
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.24
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:4761178 original size:82 final size:81
Alignment explanation
Indices: 4761018--4762136 Score: 1543
Period size: 82 Copynumber: 13.7 Consensus size: 81
4761008 GCTTTGAAAT
* * * * * * *
4761018 GGGTGCCTCAGAGTTGTGGATTTTAAAAGAGTGGCACAGAGTTGTGGATTTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCAC
*
4761083 AGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* * *
4761101 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
4761166 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
4761183 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGA-TTAAAAAGGGTGCCATG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACG
4761247 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* * * *
4761265 GGGTGCCACAGAGTTATGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
4761330 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
4761347 GGGTGACACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
4761412 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * * *
4761429 GGGTGCCACAGAGTTGTGCACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
4761494 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
*
4761510 GGGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
4761575 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
** ** * *
4761593 GGGTGCCATAGAGTTGTGGACTTAAAAGATATGGCACGGAGTTGTGGACTTAAAAAGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
4761658 GAGTTGTGGACTT-AAA
65 GAGTTGTGGACTTAAAA
** *
4761674 GGTGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAAGGATATGCC
1 GG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGG--GTGCC
4761739 ACGGAGTTGTGGACTTAAAA
62 ACGGAGTTGTGGACTTAAAA
* * * **
4761759 GGGTGCTACGGAGTTGCGGACTTAAAAGTGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
4761824 AGTTGTGGACTTTAAAA
66 AGTTGTGGAC-TTAAAA
* * * **
4761841 GGATGCCACGAAGTTGTGGGC-T--AA---TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACTA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
4761900 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
4761916 GGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
4761981 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
** *
4761998 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
4762063 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* * * * * *
4762081 GGATGCCACGAAGTTATGGACTCTAAAAGGGTACCACGGAGTTGTGGGCTTTAAAG
1 GGGTGCCACGGAGTTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
4762137 AGGTCACAGT
Statistics
Matches: 933, Mismatches: 78, Indels: 50
0.88 0.07 0.05
Matches are distributed among these distances:
75 24 0.03
76 42 0.05
78 2 0.00
79 2 0.00
80 2 0.00
81 162 0.17
82 428 0.46
83 187 0.20
84 79 0.08
85 5 0.01
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.24
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:4763161 original size:9 final size:9
Alignment explanation
Indices: 4763147--4763179 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
4763137 TGAAAAAGTT
4763147 TTTTTTTTG
1 TTTTTTTTG
4763156 TTTTTTTTG
1 TTTTTTTTG
*
4763165 TTTTTTTTC
1 TTTTTTTTG
4763174 TTTTTT
1 TTTTTT
4763180 AGGATTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:4767626 original size:21 final size:21
Alignment explanation
Indices: 4767600--4767676 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
4767590 AAAAATTCCA
4767600 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
4767621 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
4767642 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
4767663 AATGTATCGATACA
1 AATGTATCGATACA
4767677 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:4767736 original size:19 final size:19
Alignment explanation
Indices: 4767712--4767779 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
4767702 AATTCAACAA
4767712 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
4767731 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
4767746 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
4767763 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
4767780 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:4767751 original size:13 final size:13
Alignment explanation
Indices: 4767733--4767757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4767723 ACATAAGTTT
4767733 TGTATCGATACAA
1 TGTATCGATACAA
4767746 TGTATCGATACA
1 TGTATCGATACA
4767758 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4767755 original size:32 final size:32
Alignment explanation
Indices: 4767714--4767776 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4767704 TTCAACAATT
*
4767714 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
4767746 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
4767777 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4767824 original size:20 final size:20
Alignment explanation
Indices: 4767799--4767853 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
4767789 GCCAAGGAAA
*
4767799 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTATCTG
** *
4767819 TGTATCGATACATGGATCTT
1 TGTATCGATACATTTATCTG
4767839 TGTATCGATACATTT
1 TGTATCGATACATTT
4767854 GGAAATTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTTATCTG
Found at i:4768881 original size:32 final size:33
Alignment explanation
Indices: 4768826--4768888 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
4768816 CAAGCCAATG
4768826 TATCGATACATATTTTTTGTGTATCGATACATTA
1 TATCGATACATA-TTTTTGTGTATCGATACATTA
4768860 TATCGATACATA-TTTTGTGTATCGATACA
1 TATCGATACATATTTTTGTGTATCGATACA
4768889 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.59
34 12 0.41
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (33 bp):
TATCGATACATATTTTTGTGTATCGATACATTA
Found at i:4771432 original size:13 final size:13
Alignment explanation
Indices: 4771416--4771440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4771406 ATCGATGTAG
4771416 TGTATCGATACAT
1 TGTATCGATACAT
4771429 TGTATCGATACA
1 TGTATCGATACA
4771441 AAGAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4773504 original size:15 final size:15
Alignment explanation
Indices: 4773484--4773514 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4773474 ATTTCGTTTG
*
4773484 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4773499 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4773514 G
1 G
4773515 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4777278 original size:32 final size:30
Alignment explanation
Indices: 4777242--4777300 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
4777232 GAAATCAAAT
4777242 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
4777274 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
4777301 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:4777600 original size:19 final size:20
Alignment explanation
Indices: 4777560--4777611 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
4777550 TACAAGCCAA
*
4777560 TGTATTGATACATATTTTTTG
1 TGTATCGATACATA-TTTTTG
4777581 TGTATCGATACATA-TTTTG
1 TGTATCGATACATATTTTTG
4777600 TGTATCGATACA
1 TGTATCGATACA
4777612 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 17 0.57
21 13 0.43
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (20 bp):
TGTATCGATACATATTTTTG
Found at i:4777688 original size:20 final size:21
Alignment explanation
Indices: 4777641--4777695 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
4777631 AATTCCAATG
* *
4777641 ACATGTATCGATACATCTTTT
1 ACATGTATCGATACATCTGTA
*
4777662 TCATGTATCGATACAT-TGTA
1 ACATGTATCGATACATCTGTA
4777682 ACATGTATCGATAC
1 ACATGTATCGATAC
4777696 TTTGAATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (21 bp):
ACATGTATCGATACATCTGTA
Found at i:4780243 original size:28 final size:30
Alignment explanation
Indices: 4780207--4780282 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 30
4780197 ATTTTTCACA
* * *
4780207 ATCGAGGATACTCCAACCTCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCCATTACTTTCG
4780235 ATCGGGGATACTCCAACCCCATTACTTTCG
1 ATCGGGGATACTCCAACCCCATTACTTTCG
4780265 A--GGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
4780283 GGCTTTATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 38 0.88
29 4 0.09
30 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCATTACTTTCG
Found at i:4780349 original size:107 final size:107
Alignment explanation
Indices: 4780158--4780357 Score: 260
Period size: 107 Copynumber: 1.9 Consensus size: 107
4780148 CCCTTTAATC
* * *
4780158 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
4780223 CCTCGTTATTTCATCGGGGATACTCCAACCCCATTACTTTCGA
66 CCCCGTTATTTCA-CGGGGATACTCCAACCCCATTACTTTCGA
* * * * * * *
4780266 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATCGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
4780330 CCCCGTTATTTTCGA-GGGGATACTCCAA
66 CCCCGTTA-TTTC-ACGGGGATACTCCAA
4780358 TCTCGATTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
107 53 0.67
108 25 0.32
109 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTCACGGGGATACTCCAACCCCATTACTTTCGA
Found at i:4780383 original size:79 final size:79
Alignment explanation
Indices: 4780237--4780441 Score: 232
Period size: 79 Copynumber: 2.6 Consensus size: 79
4780227 GTTATTTCAT
* * *
4780237 CGGGGATACTCCAACCCCATTACTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* *
4780302 CGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * * ** *
4780316 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCTCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
4780380 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * * *
4780395 CGGGTATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
4780442 TTATTATCTC
Statistics
Matches: 104, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
78 3 0.03
79 101 0.97
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:4792819 original size:1 final size:1
Alignment explanation
Indices: 4792813--4792876 Score: 65
Period size: 1 Copynumber: 64.0 Consensus size: 1
4792803 CCTTCTCTTC
* * * * * * *
4792813 AAAAAAATAAAAAAAAACAAAAAATAAAAAAAACAAAAAAACAAAACAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4792877 TCTACTTAAG
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.89, C:0.06, G:0.02, T:0.03
Consensus pattern (1 bp):
A
Found at i:4792836 original size:17 final size:17
Alignment explanation
Indices: 4792814--4792876 Score: 76
Period size: 16 Copynumber: 3.7 Consensus size: 17
4792804 CTTCTCTTCA
4792814 AAAAAATAAAAAAAAAC
1 AAAAAATAAAAAAAAAC
4792831 AAAAAAT-AAAAAAAAC
1 AAAAAATAAAAAAAAAC
*
4792847 AAAAAA-ACAAAACAAAAA
1 AAAAAATA-AAAA-AAAAC
*
4792865 AAAAAAGAAAAA
1 AAAAAATAAAAA
4792877 TCTACTTAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
16 15 0.37
17 11 0.27
18 14 0.34
19 1 0.02
ACGTcount: A:0.89, C:0.06, G:0.02, T:0.03
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAC
Found at i:4792841 original size:24 final size:23
Alignment explanation
Indices: 4792812--4792876 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 23
4792802 ACCTTCTCTT
*
4792812 CAAAAAAATAAAAAAAAACAAAA
1 CAAAAAAAAAAAAAAAAACAAAA
4792835 -AATAAAAAAAACAAAAAAACAAAA
1 CAA-AAAAAAAA-AAAAAAACAAAA
*
4792859 CAAAAAAAAAAAGAAAAA
1 CAAAAAAAAAAAAAAAAA
4792877 TCTACTTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
22 2 0.05
23 13 0.35
24 20 0.54
25 2 0.05
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.03
Consensus pattern (23 bp):
CAAAAAAAAAAAAAAAAACAAAA
Found at i:4793972 original size:59 final size:59
Alignment explanation
Indices: 4793826--4795308 Score: 1938
Period size: 59 Copynumber: 25.2 Consensus size: 59
4793816 TCCGCTTTTT
* * * * **
4793826 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAAGCCCACATAGGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCGGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCACCTT-C
* **
4793888 AGTCCTTAAAGAGCGGGATTCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
4793947 AGTCCTCAAAAAGCGGGACGCCTTTTCTATTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
4794006 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* **
4794065 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CCTTC
4794126 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
4794185 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
4794244 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
4794303 AGTCCTCAAAGAGTGGGACGCCTTTTCTTTTAAAGCCCGCACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
4794362 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCGCACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
4794421 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
4794480 AATCCTCAAAGAGCGGGACGCATTTTCTTTTAAAGCTCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
4794539 AATCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
4794598 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCACCTTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* * * ** *
4794659 AGTCCCCAAAGAGCAGGAC-CCCTTTC--AGAAAGCCCACACAAGTTGGTAGCA-CTTCCC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--C
* * *
4794716 AATCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCGGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* *
4794776 TAGTCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACAAAAGTTGGTGGCA-CTTCCC
1 -AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--C
* *
4794832 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCGGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* * *
4794892 TAGTCCTCAAAGAGCAGGATG-C----CTTTTAAAGCCCACACAAGTTGGTGGCACTTCTC
1 -AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TC
* * *
4794948 AGTCCTCAAAGAGCAGGACGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCGGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
4795008 TAGTCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCC
1 -AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--C
* * *
4795064 AGTTCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCGGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* * *
4795124 TAGTCCTCAAAGAGCGAGATGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* *
4795185 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * *
4795240 AGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
4795295 AGTCCTCAAAGAGC
1 AGTCCTCAAAGAGC
4795309 AGGATACACT
Statistics
Matches: 1304, Mismatches: 75, Indels: 91
0.89 0.05 0.06
Matches are distributed among these distances:
55 240 0.18
56 10 0.01
57 44 0.03
58 3 0.00
59 579 0.44
60 152 0.12
61 251 0.19
62 25 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (59 bp):
AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:4795206 original size:26 final size:26
Alignment explanation
Indices: 4795177--4795266 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
4795167 AAGTTGGTGG
4795177 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
* * * * **
4795203 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCTCA-AAG-AGCAGGA
4795232 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
*
4795258 CGCCTTTCA
1 CACCTTTCA
4795267 AAGCCCACAC
Statistics
Matches: 46, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
25 3 0.07
26 16 0.35
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (26 bp):
CACCTTTCAGTCCTCAAAGAGCAGGA
Found at i:4796056 original size:21 final size:21
Alignment explanation
Indices: 4796030--4796106 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
4796020 AAAAATTCCA
*
4796030 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTATAG
*
4796051 AATGTATCGATACATTTATGG
1 AATGTATCGATACATTTATAG
*
4796072 AATGTATCGATACATTCTACA-
1 AATGTATCGATACATT-TATAG
4796093 AATGTATCGATACA
1 AATGTATCGATACA
4796107 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 49 0.96
22 2 0.04
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTATAG
Found at i:4796166 original size:19 final size:19
Alignment explanation
Indices: 4796142--4796209 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
4796132 AATTCAACAA
4796142 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
4796161 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
4796176 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
4796193 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
4796210 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:4796181 original size:13 final size:13
Alignment explanation
Indices: 4796163--4796187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4796153 ACATAAGTTT
4796163 TGTATCGATACAA
1 TGTATCGATACAA
4796176 TGTATCGATACA
1 TGTATCGATACA
4796188 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4796185 original size:32 final size:32
Alignment explanation
Indices: 4796144--4796206 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4796134 TTCAACAATT
*
4796144 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
4796176 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
4796207 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4796267 original size:13 final size:13
Alignment explanation
Indices: 4796249--4796274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4796239 CATTTTTCTG
4796249 TGTATCGATACAT
1 TGTATCGATACAT
4796262 TGTATCGATACAT
1 TGTATCGATACAT
4796275 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4796271 original size:33 final size:33
Alignment explanation
Indices: 4796229--4796295 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4796219 GCCAAGGAAA
***
4796229 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
4796262 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
4796295 T
1 T
4796296 TGGAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:4798772 original size:28 final size:28
Alignment explanation
Indices: 4798736--4798812 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
4798726 ATTTTTCACA
* * *
4798736 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
4798764 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
4798792 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
4798813 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:4798878 original size:107 final size:108
Alignment explanation
Indices: 4798690--4798886 Score: 263
Period size: 107 Copynumber: 1.8 Consensus size: 108
4798680 TTTAATCGGA
* * * *
4798690 GATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCT
1 GATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAACCC
*
4798755 CGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGG
66 CGTTATTTCATAGGGGATACTCCAACCCCGTTACTTCCGAGGG
* * * * * * *
4798798 GATACTCCAACCCCGGCTTTA-TTCCCAAAATATCGATTTCTCATAATTGGGGATACTCCAACCC
1 GATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAACCC
4798862 CGTTATTTTCA-AGGGGATACTCCAA
66 CGTTA-TTTCATAGGGGATACTCCAA
4798887 TCTCGATTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
107 53 0.70
108 23 0.30
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.29
Consensus pattern (108 bp):
GATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAACCC
CGTTATTTCATAGGGGATACTCCAACCCCGTTACTTCCGAGGG
Found at i:4803134 original size:20 final size:20
Alignment explanation
Indices: 4803087--4803161 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
4803077 AAAAAGACAT
*
4803087 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
4803106 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
4803127 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
4803147 AATGTATCGATACAT
1 AATGTATCGATACAT
4803162 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:4803155 original size:40 final size:39
Alignment explanation
Indices: 4803084--4803161 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
4803074 GGTAAAAAGA
* *
4803084 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
4803123 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
4803162 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:4804308 original size:46 final size:46
Alignment explanation
Indices: 4804243--4804379 Score: 213
Period size: 46 Copynumber: 3.0 Consensus size: 46
4804233 TGTAGCAATC
*
4804243 AAAA-TTTATCTCTAATTAAATTAAATTAATTAAGAGATAAATGAA
1 AAAATTTTATCTTTAATTAAATTAAATTAATTAAGAGATAAATGAA
* *
4804288 AAAATTTTATCTTTACTTAAATTAAATTCATTAAGAGATAAATGAA
1 AAAATTTTATCTTTAATTAAATTAAATTAATTAAGAGATAAATGAA
* * *
4804334 TAAATTCTATCTTTAATTAAATTAACTTAATTAAGAGATAAATGAA
1 AAAATTTTATCTTTAATTAAATTAAATTAATTAAGAGATAAATGAA
4804380 GTAATCTAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.05
46 79 0.95
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.38
Consensus pattern (46 bp):
AAAATTTTATCTTTAATTAAATTAAATTAATTAAGAGATAAATGAA
Found at i:4804805 original size:34 final size:35
Alignment explanation
Indices: 4804765--4804852 Score: 106
Period size: 34 Copynumber: 2.5 Consensus size: 35
4804755 CCCTATTGAC
*
4804765 TCAAGATTAAGTTTCAAAGACCCTTAAAGCAAA-T
1 TCAAGATCAAGTTTCAAAGACCCTTAAAGCAAATT
* * * * *
4804799 TCAAGATCAAGTCTCGAAGTCCTTTGAAGCAAATT
1 TCAAGATCAAGTTTCAAAGACCCTTAAAGCAAATT
4804834 TCAAGATCAAGTCTTCAAA
1 TCAAGATCAAGT-TTCAAA
4804853 TATCTTTGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 27 0.61
35 13 0.30
36 4 0.09
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (35 bp):
TCAAGATCAAGTTTCAAAGACCCTTAAAGCAAATT
Found at i:4804868 original size:36 final size:35
Alignment explanation
Indices: 4804794--4804868 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
4804784 ACCCTTAAAG
* *
4804794 CAAA-TTCAAGATCAAGTCTCGAAGTCCTTTGAAG
1 CAAATTTCAAGATCAAGTCTCGAAATCCTTTGAAA
*
4804828 CAAATTTCAAGATCAAGTCTTC-AAATATCTTTGAAA
1 CAAATTTCAAGATCAAGTC-TCGAAAT-CCTTTGAAA
4804864 CAAAT
1 CAAAT
4804869 GTAAGTCAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 4 0.11
35 17 0.49
36 14 0.40
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (35 bp):
CAAATTTCAAGATCAAGTCTCGAAATCCTTTGAAA
Found at i:4805793 original size:16 final size:16
Alignment explanation
Indices: 4805753--4805795 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
4805743 TAATTTAAGC
*
4805753 TCAAATTATTTTGAGT
1 TCAAATTATTTTGAAT
* *
4805769 TTAAGTTATTTTGAAT
1 TCAAATTATTTTGAAT
4805785 TCAAATTATTT
1 TCAAATTATTT
4805796 CAAATTCAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (16 bp):
TCAAATTATTTTGAAT
Found at i:4814451 original size:15 final size:16
Alignment explanation
Indices: 4814431--4814463 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4814421 TAAGACATTC
4814431 AAGAT-AACTTATTTT
1 AAGATAAACTTATTTT
*
4814446 AAGATAAATTTATTTT
1 AAGATAAACTTATTTT
4814462 AA
1 AA
4814464 ACATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
AAGATAAACTTATTTT
Found at i:4816698 original size:13 final size:15
Alignment explanation
Indices: 4816678--4816713 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
4816668 AAGAAAAATG
4816678 ATGAAAAAG-TCAAA
1 ATGAAAAAGCTCAAA
4816692 A-GAAAAAGCTCAAA
1 ATGAAAAAGCTCAAA
4816706 ATGAAAAA
1 ATGAAAAA
4816714 AAAGGCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.35
14 7 0.35
15 6 0.30
ACGTcount: A:0.67, C:0.08, G:0.14, T:0.11
Consensus pattern (15 bp):
ATGAAAAAGCTCAAA
Found at i:4822953 original size:20 final size:21
Alignment explanation
Indices: 4822911--4822962 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
4822901 TTTTACAATT
*
4822911 TGTATCGATACAACAAATTAA
1 TGTATCGATACAACAAATGAA
*
4822932 TGTATCGATAC-ATAAATGAA
1 TGTATCGATACAACAAATGAA
4822952 TGTATCGATAC
1 TGTATCGATAC
4822963 TAGACCTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAACAAATGAA
Found at i:4826187 original size:52 final size:52
Alignment explanation
Indices: 4826109--4826237 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
4826099 CGAAATATGA
* *
4826109 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTAGGC
*
4826161 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCAATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTAGGC
*
4826213 AAAATTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4826238 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTAGGC
Found at i:4826264 original size:13 final size:13
Alignment explanation
Indices: 4826246--4826270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4826236 CAAAGATCAG
4826246 TGTATCGATACAA
1 TGTATCGATACAA
4826259 TGTATCGATACA
1 TGTATCGATACA
4826271 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4826317 original size:13 final size:13
Alignment explanation
Indices: 4826299--4826323 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4826289 ACAACACTTA
4826299 TATATCGATACAT
1 TATATCGATACAT
4826312 TATATCGATACA
1 TATATCGATACA
4826324 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TATATCGATACAT
Found at i:4826323 original size:32 final size:33
Alignment explanation
Indices: 4826282--4826343 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
4826272 TTGAGTAATG
4826282 TATCGATACAACAC-TTATATATCGATACATTA
1 TATCGATACAACACTTTATATATCGATACATTA
*
4826314 TATCGATACAACACTTTATGTATCGATACA
1 TATCGATACAACACTTTATATATCGATACA
4826344 AATCGTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (33 bp):
TATCGATACAACACTTTATATATCGATACATTA
Found at i:4830790 original size:16 final size:16
Alignment explanation
Indices: 4830752--4830846 Score: 59
Period size: 16 Copynumber: 6.0 Consensus size: 16
4830742 ATCGCACTCA
**
4830752 TCTCATTCATAAGCAT
1 TCTCATTCATGTGCAT
4830768 T-TGCATTCATGTGCAT
1 TCT-CATTCATGTGCAT
** *
4830784 TCTCATTCACATGCCT
1 TCTCATTCATGTGCAT
* *
4830800 TCACACTCATGTGCAT
1 TCTCATTCATGTGCAT
* * *
4830816 TCT-ACTCATTTCCAT
1 TCTCATTCATGTGCAT
* *
4830831 TCACATTCATGGGCAT
1 TCTCATTCATGTGCAT
4830847 CTGTACTCAT
Statistics
Matches: 58, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
15 13 0.22
16 44 0.76
17 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (16 bp):
TCTCATTCATGTGCAT
Found at i:4831987 original size:51 final size:51
Alignment explanation
Indices: 4831794--4832561 Score: 351
Period size: 51 Copynumber: 15.0 Consensus size: 51
4831784 TAACCTTACA
* * * * * * * *
4831794 AAGTCCACACTAGCTGGCACTTGTATAGAGAGGTTAAACCTTACAAAATAC
1 AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
* * * * * *
4831845 AAGTCCAAACTAGTTGGCATCTATATATA--GAGGTCAAGGCCTACAGAA-CTT
1 AAGTCCACACTAGCTGGCA-C-ATGTATAGGGAGGTCAAGCCCTATAGAATC-C
* * * * * * *
4831896 ATAGTCCACACTAGTTGGCACCTATGTAGAGAGATCAAGCCTTATAGAATCC
1 A-AGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
* *
4831948 AAGTCCACACTAGCTGG-AGCATGTATAGGGAGGTTAAGCCCAATA-AATTCC
1 AAGTCCACACTAGCTGGCA-CATGTATAGGGAGGTCAAGCCCTATAGAA-TCC
* * ** * *
4831999 AAGTCCATAGTAGCTGGCATTTGTACA--GAGGTCAAGCCCTATCGAA-CC
1 AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
* * *
4832047 TAAAGTCCACACTAGCTGGCACTTATATAGGGAGGTCAAGCCCTATACAATCC
1 --AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
* * * * *
4832100 AAGTCTACACTAGCTGGCACCTGTATCGGGAGATTAAGCCCTATAGAA-CC
1 AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
* * * * * * * * *
4832150 TAAAATCCACATTATCTAGCACTTGTATAAGGAGTTCAGGCCCTATAGAATCT
1 --AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
* * * * * * * * * *
4832203 AAATTCACATTAGTTAGCACCTGTATAGGAAGGTTAAGCCTTATGGAATCC
1 AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
** * * * ** *
4832254 AAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAA-CGTTATA-AAACC
1 AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
* * * * * * * * *
4832303 TAAAGTCCATACAAACTAGCACTTGTATAAGGAGTTCAGGCCCTATAGAATCT
1 --AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
* * * * * * * *
4832356 ACA-TTCACATTAGTTAGCACCTGTATAGGAAGGTTAAGCCTTATAGAATCC
1 A-AGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
** * * * * *
4832407 AAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAA-CCTTATA-AAACC
1 AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
* * * * * *
4832456 TAAAGTCCATACAAGCTAGCACTTGTATAGAGAGGTCAAGCCCTATA-AAACC
1 --AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
* * * * *** * * *
4832508 AAAGTCCATACCAGTTAGCGTTTGTATAGAGAGGTCAAGTCCTATAGAACCC
1 -AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
4832560 AA
1 AA
4832562 AGTTCACATA
Statistics
Matches: 551, Mismatches: 137, Indels: 58
0.74 0.18 0.08
Matches are distributed among these distances:
48 2 0.00
49 21 0.04
50 47 0.09
51 359 0.65
52 110 0.20
53 12 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (51 bp):
AAGTCCACACTAGCTGGCACATGTATAGGGAGGTCAAGCCCTATAGAATCC
Found at i:4832057 original size:101 final size:103
Alignment explanation
Indices: 4831898--4832160 Score: 286
Period size: 101 Copynumber: 2.6 Consensus size: 103
4831888 CAGAACTTAT
* * * * *
4831898 AGTCCACACTAGTTGGCACCTATGTAGAGAGATCAAGCCTTATAGAATCC--AAGTCCACACTAG
1 AGTCCACACTAGCTGGCACCTGTATCGAGAGATCAAGCCCTATAGAA-CCTAAAGTCCACACTAG
* *
4831961 CTGG-AGCATGTATAGGGAGGTTAAGCCCAATA-AATTCCA
65 CTGGCA-CATATATAGGGAGGTCAAGCCCAATACAA-TCCA
* * ** * *
4832000 AGTCCATAGTAGCTGGCATTTGTA-C-AGAGGTCAAGCCCTATCGAACCTAAAGTCCACACTAGC
1 AGTCCACACTAGCTGGCACCTGTATCGAGAGATCAAGCCCTATAGAACCTAAAGTCCACACTAGC
* *
4832063 TGGCACTTATATAGGGAGGTCAAGCCCTATACAATCCA
66 TGGCACATATATAGGGAGGTCAAGCCCAATACAATCCA
* * * *
4832101 AGTCTACACTAGCTGGCACCTGTATCGGGAGATTAAGCCCTATAGAACCTAAAATCCACA
1 AGTCCACACTAGCTGGCACCTGTATCGAGAGATCAAGCCCTATAGAACCTAAAGTCCACA
4832161 TTATCTAGCA
Statistics
Matches: 130, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
99 2 0.02
100 17 0.13
101 62 0.48
102 21 0.16
103 28 0.22
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (103 bp):
AGTCCACACTAGCTGGCACCTGTATCGAGAGATCAAGCCCTATAGAACCTAAAGTCCACACTAGC
TGGCACATATATAGGGAGGTCAAGCCCAATACAATCCA
Found at i:4832346 original size:153 final size:153
Alignment explanation
Indices: 4832072--4832502 Score: 623
Period size: 153 Copynumber: 2.8 Consensus size: 153
4832062 CTGGCACTTA
* * * * * * * * *
4832072 TATAGGGAGGTCAAGCCCTATACAATCCAAGTCT-ACACTAGCTGGCACCTGTATCGGGAGATTA
1 TATAGGAAGGTTAAGCCTTATAGAATCCAAGT-TAACATTAGCTGGCACCTATATAGGGAGGTCA
* * * * ** *
4832136 AGCCCTATAGAACCTAAAATCCACATTATCTAGCACTTGTATAAGGAGTTCAGGCCCTATAGAAT
65 A-CCTTATAAAACCTAAAGTCCATACAAACTAGCACTTGTATAAGGAGTTCAGGCCCTATAGAAT
4832201 CTAAATTCACATTAGTTAGCACCTG
129 CTAAATTCACATTAGTTAGCACCTG
*
4832226 TATAGGAAGGTTAAGCCTTATGGAATCCAAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAA
1 TATAGGAAGGTTAAGCCTTATAGAATCCAAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAA
*
4832291 CGTTATAAAACCTAAAGTCCATACAAACTAGCACTTGTATAAGGAGTTCAGGCCCTATAGAATCT
66 CCTTATAAAACCTAAAGTCCATACAAACTAGCACTTGTATAAGGAGTTCAGGCCCTATAGAATCT
*
4832356 ACATTCACATTAGTTAGCACCTG
131 AAATTCACATTAGTTAGCACCTG
4832379 TATAGGAAGGTTAAGCCTTATAGAATCCAAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAA
1 TATAGGAAGGTTAAGCCTTATAGAATCCAAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAA
* * *
4832444 CCTTATAAAACCTAAAGTCCATACAAGCTAGCACTTGTAT-AGAGAGGTCAAGCCCTATA
66 CCTTATAAAACCTAAAGTCCATACAAACTAGCACTTGTATAAG-GAGTTCAGGCCCTATA
4832503 AAACCAAAGT
Statistics
Matches: 251, Mismatches: 24, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
152 2 0.01
153 196 0.78
154 53 0.21
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (153 bp):
TATAGGAAGGTTAAGCCTTATAGAATCCAAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAA
CCTTATAAAACCTAAAGTCCATACAAACTAGCACTTGTATAAGGAGTTCAGGCCCTATAGAATCT
AAATTCACATTAGTTAGCACCTG
Found at i:4832526 original size:153 final size:153
Alignment explanation
Indices: 4832026--4832513 Score: 579
Period size: 153 Copynumber: 3.2 Consensus size: 153
4832016 CATTTGTACA
* * * * * * * * *
4832026 GAGGTCAAGCCCTATCG-AACCTAAAGTCCACACTAGCTGGCACTTATATAGGGAGGTCAAGCCC
1 GAGGTCAAGCCCTATAGAAACC-AAAGT-CACATTAGTTAGCACCTGTATAGGAAGGTTAAGCCT
* * * * * * * *
4832090 TATACAATCCAAGTCT-ACACTAGCTGGCACCTGTATCGGGAGATTAAGCCCTATAGAACCTAAA
64 TATAGAATCCAAGT-TAACATTAGCTGGCACCTATATAGGGAGGTCAA-CCTTATAAAACCTAAA
* * ** *
4832154 ATCCACATTATCTAGCACTTGTATAAG
127 GTCCATACAAACTAGCACTTGTATAAG
* * * * *
4832181 GAGTTCAGGCCCTATAGAATCTAAATTCACATTAGTTAGCACCTGTATAGGAAGGTTAAGCCTTA
1 GAGGTCAAGCCCTATAGAAACCAAAGTCACATTAGTTAGCACCTGTATAGGAAGGTTAAGCCTTA
* *
4832246 TGGAATCCAAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAACGTTATAAAACCTAAAGTCC
66 TAGAATCCAAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAACCTTATAAAACCTAAAGTCC
4832311 ATACAAACTAGCACTTGTATAAG
131 ATACAAACTAGCACTTGTATAAG
* * * * * *
4832334 GAGTTCAGGCCCTATAGAATCTACATTCACATTAGTTAGCACCTGTATAGGAAGGTTAAGCCTTA
1 GAGGTCAAGCCCTATAGAAACCAAAGTCACATTAGTTAGCACCTGTATAGGAAGGTTAAGCCTTA
4832399 TAGAATCCAAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAACCTTATAAAACCTAAAGTCC
66 TAGAATCCAAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAACCTTATAAAACCTAAAGTCC
*
4832464 ATACAAGCTAGCACTTGTAT-AG
131 ATACAAACTAGCACTTGTATAAG
4832486 AGAGGTCAAGCCCTATA-AAACCAAAGTC
1 -GAGGTCAAGCCCTATAGAAACCAAAGTC
4832514 CATACCAGTT
Statistics
Matches: 291, Mismatches: 39, Indels: 9
0.86 0.12 0.03
Matches are distributed among these distances:
152 9 0.03
153 196 0.67
154 66 0.23
155 18 0.06
156 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (153 bp):
GAGGTCAAGCCCTATAGAAACCAAAGTCACATTAGTTAGCACCTGTATAGGAAGGTTAAGCCTTA
TAGAATCCAAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAACCTTATAAAACCTAAAGTCC
ATACAAACTAGCACTTGTATAAG
Found at i:4832623 original size:89 final size:89
Alignment explanation
Indices: 4832481--4832645 Score: 210
Period size: 89 Copynumber: 1.9 Consensus size: 89
4832471 CTAGCACTTG
* **
4832481 TATAGAGAGGTCAAGCCCTATAAAACCAAAGTCCATACCAGTTAGCGTTTGTAT-AGAGAGGTCA
1 TATAGAGAGGTCAAGCCCTATAAAACCAAAGTCCATACCAGCTAGCGACTGTATAAG-GAGGTCA
4832545 AGTCC-TATAGAACCCAAAGTTCACA
65 A-TCCTTATAGAACCCAAAGTTCACA
* * * **
4832570 TATAGGGAGGTTAAGCCCTATAAAACCCAAAGTCTATATTAGCTAGC-ACTGTATAAGGAGGTCA
1 TATAGAGAGGTCAAGCCCTATAAAA-CCAAAGTCCATACCAGCTAGCGACTGTATAAGGAGGTCA
4832634 ATCCTTATAGAA
65 ATCCTTATAGAA
4832646 TCTAGGTTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
88 3 0.05
89 43 0.66
90 19 0.29
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (89 bp):
TATAGAGAGGTCAAGCCCTATAAAACCAAAGTCCATACCAGCTAGCGACTGTATAAGGAGGTCAA
TCCTTATAGAACCCAAAGTTCACA
Found at i:4832709 original size:51 final size:52
Alignment explanation
Indices: 4832569--4832864 Score: 203
Period size: 51 Copynumber: 5.8 Consensus size: 52
4832559 CAAAGTTCAC
* * *
4832569 ATATAGGGAGGTTAAGCCCTATA-AAACCCAAAGTCTATATTAGCTAGCA-CT
1 ATATAGGGAGGTCAAGCCCTATAGAAA-CCAAAGTCCACATTAGCTAGCACCT
* * * * * * * * *
4832620 GTATAAGGAGGTCAATCCTTATAG-AATCTAGGTTCACATTAACTAGCACCT
1 ATATAGGGAGGTCAAGCCCTATAGAAACCAAAGTCCACATTAGCTAGCACCT
* * * * *
4832671 ATATAGGGAGGTCAAGCCTTATA-AAACAAAAGTCCACATTAGTTGGCACTT
1 ATATAGGGAGGTCAAGCCCTATAGAAACCAAAGTCCACATTAGCTAGCACCT
* * * * * **
4832722 ATTTAGAGAGGTCAAGCCCTATAGATACCAAAGTACACATTAGCTGGCATTT
1 ATATAGGGAGGTCAAGCCCTATAGAAACCAAAGTCCACATTAGCTAGCACCT
* * * ** * * *
4832774 GTATAAGGAGGTCAAGCTCTAT-G-AGTCAAAGTCCATACTAGCTAGCA-TT
1 ATATAGGGAGGTCAAGCCCTATAGAAACCAAAGTCCACATTAGCTAGCACCT
** *
4832823 AATATAGAAAGGTCAAGCCCTATAGAATCC-AAGTCCACATTA
1 -ATATAGGGAGGTCAAGCCCTATAGAAACCAAAGTCCACATTA
4832865 ATTGACGCCT
Statistics
Matches: 185, Mismatches: 53, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
49 2 0.01
50 49 0.26
51 92 0.50
52 42 0.23
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (52 bp):
ATATAGGGAGGTCAAGCCCTATAGAAACCAAAGTCCACATTAGCTAGCACCT
Found at i:4832806 original size:293 final size:292
Alignment explanation
Indices: 4832276--4832862 Score: 653
Period size: 293 Copynumber: 2.0 Consensus size: 292
4832266 GCTGGCACCT
** * *
4832276 ATATAGGGAGGTCAACGTTATAAAACCTAAAGTCCATACAAACTAGCACTTGTATAAGGAGTTCA
1 ATATAGGGAGGTCAACCCTATAAAACCCAAAGTCCATACAAACTAGCACTTGTATAAGGAGGTCA
* ** * * *
4832341 GGCCCTATAGAATCTACATTCACATTAGTTAGCACCTGTATAGGAAGGTTAAGCCTTATAGAATC
66 AGCCCTATAGAATCTACATTCACATTAACTAGCACCTATATAGGAAGGTCAAGCCTTATAGAAAC
* * * * * *
4832406 CAAGTTAACATTAGCTGGCACCTATATAGGGAGGTCAACCTTATAAAACCTAAAGTCCATACAAG
131 AAAGTCAACATTAGCTGGCACCTATATAGAGAGGTCAACCCTATAAAACCTAAAGTACACACAAG
* * **
4832471 CTAGCACTTGTATAGAGAGGTCAAGCCCTATAAAACCAAAGTCCATACCAGTTAGCGTTTGTATA
196 CTAGCACTTGTATAGAGAGGTCAAGCCCTATAAAACCAAAGTCCATACCAGCTAGCATTAATATA
* * *
4832536 GAGAGGTCAAGTCCTATAGAACCCAAAGTTCAC
261 GAAAGGTCAAGCCCTATAGAACCC-AAGTCCAC
* * ** *
4832569 ATATAGGGAGGTTAAGCCCTATAAAACCCAAAGTCTATATTAGCTAGCAC-TGTATAAGGAGGTC
1 ATATAGGGAGGTCAA-CCCTATAAAACCCAAAGTCCATACAAACTAGCACTTGTATAAGGAGGTC
* * ** *
4832633 AATCCTTATAGAATCTAGGTTCACATTAACTAGCACCTATATAGGGAGGTCAAGCCTTATA-AAA
65 AAGCCCTATAGAATCTACATTCACATTAACTAGCACCTATATAGGAAGGTCAAGCCTTATAGAAA
* * * * *
4832697 CAAAAGTCCACATTAGTTGGCACTTATTTAGAGAGGTCAAGCCCTATAGATACC-AAAGTACACA
130 C-AAAGTCAACATTAGCTGGCACCTATATAGAGAGGTCAA-CCCTATA-AAACCTAAAGTACACA
** * * * * ** *
4832761 TTAGCTGGCATTTGTATA-AGGAGGTCAAGCTCTAT-GAGTCAAAGTCCATACTAGCTAGCATTA
192 CAAGCTAGCACTTGTATAGA-GAGGTCAAGCCCTATAAAACCAAAGTCCATACCAGCTAGCATTA
*
4832824 ATATAGAAAGGTCAAGCCCTATAGAATCCAAGTCCAC
256 ATATAGAAAGGTCAAGCCCTATAGAACCCAAGTCCAC
4832861 AT
1 AT
4832863 TAATTGACGC
Statistics
Matches: 241, Mismatches: 48, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
292 12 0.05
293 156 0.65
294 69 0.29
295 4 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (292 bp):
ATATAGGGAGGTCAACCCTATAAAACCCAAAGTCCATACAAACTAGCACTTGTATAAGGAGGTCA
AGCCCTATAGAATCTACATTCACATTAACTAGCACCTATATAGGAAGGTCAAGCCTTATAGAAAC
AAAGTCAACATTAGCTGGCACCTATATAGAGAGGTCAACCCTATAAAACCTAAAGTACACACAAG
CTAGCACTTGTATAGAGAGGTCAAGCCCTATAAAACCAAAGTCCATACCAGCTAGCATTAATATA
GAAAGGTCAAGCCCTATAGAACCCAAGTCCAC
Found at i:4833394 original size:114 final size:114
Alignment explanation
Indices: 4833188--4833412 Score: 301
Period size: 114 Copynumber: 2.0 Consensus size: 114
4833178 AGTAAGGTCG
* * * * *
4833188 TAAATTATTTAATTTAAGATCAAATTTTATAAATATATATATTAGATAAAATAGGTCCAACGTGC
1 TAAATTATTTAATTTAAGATCAAACTCTATAAATAAATAAATTAAATAAAATAGGTCCAACGTGC
* *
4833253 ATTTTTAATTATTTTATTTAGGACTATTTTATTTAATTATATTAGGTTA
66 ATATTTAATTATTTTATTCAGGACTATTTTATTTAATTATATTAGGTTA
* * *
4833302 TAAATTATTTAATTTAAGATCGAGCTCTATAAA-AAATAAATTAAATAAAATAAGG-CCCACGTG
1 TAAATTATTTAATTTAAGATCAAACTCTATAAATAAATAAATTAAATAAAAT-AGGTCCAACGTG
* * *
4833365 CATATTTGATTATTTTATTCGGGACCTATTTTATTTAATTGTATTAGG
65 CATATTTAATTATTTTATTCAGGA-CTATTTTATTTAATTATATTAGG
4833413 CCAATCTTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
113 42 0.44
114 54 0.56
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.44
Consensus pattern (114 bp):
TAAATTATTTAATTTAAGATCAAACTCTATAAATAAATAAATTAAATAAAATAGGTCCAACGTGC
ATATTTAATTATTTTATTCAGGACTATTTTATTTAATTATATTAGGTTA
Found at i:4834574 original size:22 final size:22
Alignment explanation
Indices: 4834548--4834589 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
4834538 ATGTTTTTCG
4834548 TATTACTCAAAACTAATGAAAT
1 TATTACTCAAAACTAATGAAAT
4834570 TATTACTCAAAACTAATGAA
1 TATTACTCAAAACTAATGAA
4834590 TTTCACTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (22 bp):
TATTACTCAAAACTAATGAAAT
Found at i:4839313 original size:33 final size:31
Alignment explanation
Indices: 4839276--4839336 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
4839266 AATCAGAAAG
4839276 AACCTAAACCTAAAAAAAACTTGATCCCAAAAA
1 AACCTAAACCT-AAAAAAACTTGA-CCCAAAAA
*
4839309 AACCTAAACCTAAAAGAACTTGACCCAA
1 AACCTAAACCTAAAAAAACTTGACCCAA
4839337 GACTGACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 5 0.19
32 11 0.41
33 11 0.41
ACGTcount: A:0.54, C:0.26, G:0.05, T:0.15
Consensus pattern (31 bp):
AACCTAAACCTAAAAAAACTTGACCCAAAAA
Found at i:4856662 original size:12 final size:12
Alignment explanation
Indices: 4856645--4856669 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4856635 ACAATTTTTG
4856645 TGTATCGATACA
1 TGTATCGATACA
4856657 TGTATCGATACA
1 TGTATCGATACA
4856669 T
1 T
4856670 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:4856663 original size:31 final size:31
Alignment explanation
Indices: 4856625--4856687 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
4856615 TTACAAGCCA
**
4856625 ATGTATCGATACAATTTTTG-TGTATCGATAC
1 ATGTATCGATAC-ATACTTGCTGTATCGATAC
4856656 ATGTATCGATACATACTTGCTGTATCGATAC
1 ATGTATCGATACATACTTGCTGTATCGATAC
4856687 A
1 A
4856688 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (31 bp):
ATGTATCGATACATACTTGCTGTATCGATAC
Found at i:4859244 original size:13 final size:13
Alignment explanation
Indices: 4859226--4859250 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4859216 ATAATCACCC
4859226 TGTATCGATACAA
1 TGTATCGATACAA
4859239 TGTATCGATACA
1 TGTATCGATACA
4859251 CAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4861345 original size:15 final size:15
Alignment explanation
Indices: 4861325--4861355 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4861315 ATTTCGTTTG
*
4861325 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4861340 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4861355 G
1 G
4861356 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4863188 original size:21 final size:21
Alignment explanation
Indices: 4863159--4863203 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4863149 AAGTTTTCAT
*
4863159 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4863179 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4863201 TTT
1 TTT
4863204 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4869718 original size:18 final size:18
Alignment explanation
Indices: 4869680--4869724 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
4869670 CCTTCATACC
*
4869680 AAAAAAAACAAAAAACCA
1 AAAAAAAACAAAAAAACA
* *
4869698 AAAAAAAAGAAAAAAATA
1 AAAAAAAACAAAAAAACA
4869716 AAAATAAAA
1 AAAA-AAAA
4869725 AACAGAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.87, C:0.07, G:0.02, T:0.04
Consensus pattern (18 bp):
AAAAAAAACAAAAAAACA
Found at i:4873211 original size:52 final size:51
Alignment explanation
Indices: 4873133--4873281 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
4873123 CGAAATATGA
4873133 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
4873185 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
4873237 AAATTTTCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
4873282 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:4873288 original size:13 final size:13
Alignment explanation
Indices: 4873270--4873294 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4873260 CAAAGATCAG
4873270 TGTATCGATACAA
1 TGTATCGATACAA
4873283 TGTATCGATACA
1 TGTATCGATACA
4873295 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4873374 original size:33 final size:33
Alignment explanation
Indices: 4873337--4873401 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
4873327 TAGCTTAAAT
4873337 TGTATCGATACAAAAAAATATGTATCGATACAG
1 TGTATCGATACAAAAAAATATGTATCGATACAG
* ***
4873370 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAAAAAAATATGTATCGATACA
4873402 AATCGTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAAAAAAATATGTATCGATACAG
Found at i:4873375 original size:13 final size:13
Alignment explanation
Indices: 4873357--4873381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4873347 CAAAAAAATA
4873357 TGTATCGATACAG
1 TGTATCGATACAG
4873370 TGTATCGATACA
1 TGTATCGATACA
4873382 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4874312 original size:55 final size:52
Alignment explanation
Indices: 4874212--4874495 Score: 190
Period size: 49 Copynumber: 5.7 Consensus size: 52
4874202 GAAAAGTGAT
* * * * * * ** *
4874212 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
4874266 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
4874319 AAAGGTGCCAATATGCTGATTCGAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
4874362 -AAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAATAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
4874411 -AAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT-AA-A-GG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
4874458 CAAGGTGCCAATATGCT-AGTTCAAGGCCAGCTATATTG
1 AAAGGTGCCAATATGCTGA-TTCAAGGCCAGCTACATTG
4874496 GGCTTAAAAG
Statistics
Matches: 192, Mismatches: 27, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
42 36 0.19
43 1 0.01
46 1 0.01
47 3 0.02
48 36 0.19
49 37 0.19
51 1 0.01
52 31 0.16
53 6 0.03
54 5 0.03
55 35 0.18
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:4874379 original size:42 final size:42
Alignment explanation
Indices: 4874320--4874502 Score: 152
Period size: 42 Copynumber: 4.0 Consensus size: 42
4874310 AAAGATGGAA
* *
4874320 AAGGTGCCAATATGCTGATTCGAGGCCAGCTATATTGGACTT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
4874362 AAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC-----T-T
* * *
4874410 GAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
4874453 AAAGGCAAGGTGCCAATATGCT-AGTTCAAGGCCAGCTATATTGGGCTT
1 ------AAGGTGCCAATATGCTGA-TTCAAGGCCAGCTACATTGGACTT
4874501 AA
1 AA
4874503 AAGGAGACGC
Statistics
Matches: 115, Mismatches: 13, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
42 38 0.33
43 1 0.01
44 1 0.01
47 2 0.02
48 38 0.33
49 35 0.30
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (42 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:4874449 original size:91 final size:93
Alignment explanation
Indices: 4874275--4874454 Score: 283
Period size: 91 Copynumber: 1.9 Consensus size: 93
4874265 AAAAGGATGT
4874275 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG-AAAGGTGCCAATATGCTGATT
* *
4874340 CGAGGCCAGCTATATTGGACTTAAGGTGC
65 CAAGGCCAGCGATATTGGACTTAAGGTGC
* * * *
4874369 CAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAATAT-G-AAGGTGCCAATATGCTGATTT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
4874432 AAGGCCAGCGATATTGGACTTAA
66 AAGGCCAGCGATATTGGACTTAA
4874455 AGGCAAGGTG
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
91 41 0.51
93 1 0.01
94 38 0.47
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (93 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAGGTGC
Found at i:4874606 original size:30 final size:30
Alignment explanation
Indices: 4874547--4874777 Score: 181
Period size: 30 Copynumber: 7.7 Consensus size: 30
4874537 AGGTTTGCAT
*
4874547 CACTGACTTGTGGGCTTTT--AAAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
4874575 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
* *
4874605 CACTAACTTGTGGGCTTTTGGAAAGGGTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
* ** *
4874635 CACTAACTTGTGGGCTTAAAAAGAAAAAGAGTGC
1 CACTGACTTGTGGGCTT---TTG-AAAAGGGTGC
* * * * *
4874669 TA-TAGAGTTGTGAGCTTTGGAAAA-GATGC
1 CACT-GACTTGTGGGCTTTTGAAAAGGGTGC
* * *
4874698 CACCGACTTATGGGC-TTCGAAAAAAGGGTGC
1 CACTGACTTGTGGGCTTTTG--AAAAGGGTGC
* *
4874729 CACTGATTTGTGGGC-TTTG--AAGGTTGC
1 CACTGACTTGTGGGCTTTTGAAAAGGGTGC
*
4874756 CACTGACTTGTGGACTTTTGAA
1 CACTGACTTGTGGGCTTTTGAA
4874778 GGGTGATAAA
Statistics
Matches: 160, Mismatches: 29, Indels: 26
0.74 0.13 0.12
Matches are distributed among these distances:
27 20 0.12
28 26 0.16
29 12 0.08
30 61 0.38
31 20 0.12
33 2 0.01
34 19 0.12
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (30 bp):
CACTGACTTGTGGGCTTTTGAAAAGGGTGC
Found at i:4874759 original size:27 final size:28
Alignment explanation
Indices: 4874721--4874782 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
4874711 GCTTCGAAAA
* *
4874721 AAGGGTGCCACTGATTTGTGGGC-TTTG
1 AAGGGTGCCACTGACTTGTGGACTTTTG
*
4874748 AAGGTTGCCACTGACTTGTGGACTTTTG
1 AAGGGTGCCACTGACTTGTGGACTTTTG
4874776 AAGGGTG
1 AAGGGTG
4874783 ATAAATGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.18, C:0.15, G:0.35, T:0.32
Consensus pattern (28 bp):
AAGGGTGCCACTGACTTGTGGACTTTTG
Found at i:4876222 original size:1 final size:1
Alignment explanation
Indices: 4876211--4876298 Score: 77
Period size: 1 Copynumber: 88.0 Consensus size: 1
4876201 ATCCAGACCC
* * * * * * * **
4876211 TTTTTTGTTTTTTTTTTGTTTTTTTTGTTTTTTTCTTTGTATTTTTGTTTTTGCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
4876276 GTTTTGTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
4876299 GTGGAGGACG
Statistics
Matches: 66, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.01, C:0.02, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:4876236 original size:20 final size:19
Alignment explanation
Indices: 4876211--4876295 Score: 107
Period size: 20 Copynumber: 4.3 Consensus size: 19
4876201 ATCCAGACCC
4876211 TTTTTTGTTTTTTTTTTGTT
1 TTTTTTGTTTTTTTTTT-TT
*
4876231 TTTTTTGTTTTTTTCTTTGT
1 TTTTTTGTTTTTTT-TTTTT
* **
4876251 ATTTTTGTTTTTGCTTTTT
1 TTTTTTGTTTTTTTTTTTT
4876270 TTTTTTGTTTTGTTTTTTTT
1 TTTTTTGTTTT-TTTTTTTT
4876290 TTTTTT
1 TTTTTT
4876296 TTTGTGGAGG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.25
20 38 0.69
21 3 0.05
ACGTcount: A:0.01, C:0.02, G:0.09, T:0.87
Consensus pattern (19 bp):
TTTTTTGTTTTTTTTTTTT
Found at i:4886005 original size:10 final size:10
Alignment explanation
Indices: 4885990--4886016 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4885980 ATGTATCAAG
4885990 CAAAAACAAA
1 CAAAAACAAA
4886000 CAAAAACAAA
1 CAAAAACAAA
4886010 CAAAAAC
1 CAAAAAC
4886017 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:4890209 original size:52 final size:52
Alignment explanation
Indices: 4890131--4890259 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
4890121 CGAAATATGA
*
4890131 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
4890183 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
4890235 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4890260 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:4890272 original size:52 final size:51
Alignment explanation
Indices: 4890131--4890279 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
4890121 CGAAATATGA
4890131 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
4890183 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
4890235 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
4890280 ATGTATCGAT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:4890286 original size:13 final size:13
Alignment explanation
Indices: 4890268--4890292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4890258 CAAAGATCAG
4890268 TGTATCGATACAA
1 TGTATCGATACAA
4890281 TGTATCGATACA
1 TGTATCGATACA
4890293 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4890372 original size:13 final size:13
Alignment explanation
Indices: 4890354--4890378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4890344 ACAAAAAATA
4890354 TGTATCGATACAT
1 TGTATCGATACAT
4890367 TGTATCGATACA
1 TGTATCGATACA
4890379 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4890374 original size:32 final size:33
Alignment explanation
Indices: 4890333--4890398 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
4890323 AGTAGCTTAA
4890333 ATTGTATCGATACAA-AAAATATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
***
4890365 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
4890398 A
1 A
4890399 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAACAAAATATGTATCGATAC
Found at i:4891458 original size:49 final size:48
Alignment explanation
Indices: 4891383--4891613 Score: 287
Period size: 49 Copynumber: 4.9 Consensus size: 48
4891373 TTGGACTTAA
*
4891383 AGGTGCCAATGTGCT-ATTCAAGGCCAGCTACATTGGACTTAAAGGTG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
4891430 AGGTGCCAATGTTGCTGATTCAAGGCCAGCTACACTGGACCTTAAAGATG
1 AGGTGCCAATG-TGCTGATTCAAGGCCAGCTACATTGGA-CTTAAAGATG
* *
4891480 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
1 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* * *
4891530 AGGGGCCAATATGCTGATTCAAGG-CAGCTATATTGGACTT--A-AT-
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * *
4891573 -GGTGCCAATGTGCTGAGTCAAGGCCAGCTATATTGGGCTTA
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
4891614 GAATGGTTGC
Statistics
Matches: 164, Mismatches: 13, Indels: 17
0.85 0.07 0.09
Matches are distributed among these distances:
42 20 0.12
43 15 0.09
45 2 0.01
46 1 0.01
47 11 0.07
48 19 0.12
49 51 0.31
50 34 0.21
51 11 0.07
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:4891552 original size:99 final size:93
Alignment explanation
Indices: 4891374--4891613 Score: 294
Period size: 91 Copynumber: 2.6 Consensus size: 93
4891364 ATATGCTGAT
* * * *
4891374 TGGACTT-A-AAGGTGCCAATGTGCT-ATTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGC
1 TGGACTTAATAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAGGGGC
*
4891436 CAATGTTGCTGATTCAAGGCCAGCTACAC
66 CAATGATGCTGATTCAAGG-CAGCTACAC
4891465 TGGACCTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
1 TGGA-CTT--A-AT-AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-A
* *
4891530 AGGGGCCAAT-ATGCTGATTCAAGGCAGCTATAT
60 AGGGGCCAATGATGCTGATTCAAGGCAGCTACAC
* *
4891563 TGGACTTAAT--GGTGCCAATGTGCTGAGTCAAGGCCAGCTATATTGGGCTTA
1 TGGACTTAATAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
4891614 GAATGGTTGC
Statistics
Matches: 131, Mismatches: 9, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
91 43 0.33
92 3 0.02
94 2 0.02
95 1 0.01
96 1 0.01
97 3 0.02
98 27 0.21
99 42 0.32
100 9 0.07
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (93 bp):
TGGACTTAATAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAGGGGC
CAATGATGCTGATTCAAGGCAGCTACAC
Found at i:4891657 original size:33 final size:33
Alignment explanation
Indices: 4891613--4891709 Score: 176
Period size: 33 Copynumber: 2.9 Consensus size: 33
4891603 TATTGGGCTT
*
4891613 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
4891646 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
4891679 AAAAGGGTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
4891710 TAAAGGTTGC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:4891751 original size:28 final size:29
Alignment explanation
Indices: 4891634--4891980 Score: 144
Period size: 29 Copynumber: 11.7 Consensus size: 29
4891624 CACCGACTTG
*
4891634 TGTGGGC-TTTAGAGAAGGGTTGCCACCGACTT
1 TGTGGGCTTTTA-A-AAGGG-TGCCACTGAC-T
* *
4891666 GTGTGGGCTTTAGAAAAGGGTTGCCACCGACTT
1 -TGTGGGCTTT-TAAAAGGG-TGCCACTGAC-T
*
4891699 GTGTGGGCTTTT-AAAGGTTGCCCACTGACT
1 -TGTGGGCTTTTAAAAGGGTG-CCACTGACT
4891729 TGT-GGCTTTTAAAAGGGTGCCACT-ACT
1 TGTGGGCTTTTAAAAGGGTGCCACTGACT
*
4891756 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT-AAAAGGGTGCCACTGACT
** * ** *
4891786 TGT-GGCTTAAAAAAAAAGAGTGTTA-TAGAGT
1 TGTGGGCTT---TTAAAAGGGTGCCACT-GACT
* * * *
4891817 TGTGAGCTTTGGAAAA-AG-GCCACCGACT
1 TGTGGGCTTT-TAAAAGGGTGCCACTGACT
*** *
4891845 TGGGTGGGCTGCGAAAAGGGTGCCACTGATT
1 T--GTGGGCTTTTAAAAGGGTGCCACTGACT
* *
4891876 TGT-GGC-TTT-GAAGGTTGCCACTTGACT
1 TGTGGGCTTTTAAAAGGGTGCCAC-TGACT
***
4891903 TGTGGGCTTTTGAAAAAAATGCCACTGAC-
1 TGTGGGCTTTT-AAAAGGGTGCCACTGACT
* ***
4891932 TGTGGGCTTTGAAAAAAAATGCCACTGACT
1 TGTGGGCTTT-TAAAAGGGTGCCACTGACT
* *
4891962 TGTGGACTTTT-GAAGGGTG
1 TGTGGGCTTTTAAAAGGGTG
4891981 ATAAATGTCT
Statistics
Matches: 247, Mismatches: 42, Indels: 55
0.72 0.12 0.16
Matches are distributed among these distances:
26 10 0.04
27 13 0.05
28 35 0.14
29 68 0.28
30 34 0.14
31 43 0.17
32 4 0.02
33 36 0.15
34 3 0.01
35 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTTAAAAGGGTGCCACTGACT
Found at i:4891894 original size:26 final size:28
Alignment explanation
Indices: 4891860--4891912 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
4891850 GGGCTGCGAA
*
4891860 AAGGGTGCCAC-TGATTTGT-GGCTTTG
1 AAGGGTGCCACTTGACTTGTGGGCTTTG
*
4891886 AAGGTTGCCACTTGACTTGTGGGCTTT
1 AAGGGTGCCACTTGACTTGTGGGCTTT
4891913 TGAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 10 0.43
27 7 0.30
28 6 0.26
ACGTcount: A:0.15, C:0.17, G:0.32, T:0.36
Consensus pattern (28 bp):
AAGGGTGCCACTTGACTTGTGGGCTTTG
Found at i:4895801 original size:13 final size:13
Alignment explanation
Indices: 4895783--4895808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4895773 CAATTTTTTG
4895783 TGTATCGATACAT
1 TGTATCGATACAT
4895796 TGTATCGATACAT
1 TGTATCGATACAT
4895809 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4896556 original size:21 final size:21
Alignment explanation
Indices: 4896515--4896558 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4896505 CCCCTTTATC
* *
4896515 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
4896536 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
4896557 TC
1 TC
4896559 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:4898384 original size:13 final size:13
Alignment explanation
Indices: 4898366--4898390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4898356 ATAATCACCC
4898366 TGTATCGATACAA
1 TGTATCGATACAA
4898379 TGTATCGATACA
1 TGTATCGATACA
4898391 CAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4898609 original size:8 final size:8
Alignment explanation
Indices: 4898596--4898627 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
4898586 CATCATTCAA
4898596 CACAAAAT
1 CACAAAAT
4898604 CACAAAAT
1 CACAAAAT
4898612 CACAAAAT
1 CACAAAAT
4898620 CACAAAAT
1 CACAAAAT
4898628 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:4900502 original size:15 final size:15
Alignment explanation
Indices: 4900482--4900512 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4900472 ATTTCGTTTG
*
4900482 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4900497 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4900512 G
1 G
4900513 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4902941 original size:13 final size:13
Alignment explanation
Indices: 4902923--4902948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4902913 CAATTTTTTG
4902923 TGTATCGATACAT
1 TGTATCGATACAT
4902936 TGTATCGATACAT
1 TGTATCGATACAT
4902949 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4903033 original size:20 final size:20
Alignment explanation
Indices: 4903008--4903080 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4902998 CAACTTTTTT
4903008 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
4903028 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
4903049 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
4903069 ATGTATCGATAC
1 ATGTATCGATAC
4903081 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:4903046 original size:41 final size:41
Alignment explanation
Indices: 4902987--4903080 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
4902977 CTGCCAAGAA
*
4902987 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
4903028 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
4903069 ATGTATCGATAC
1 ATGTATCGATAC
4903081 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:4903062 original size:21 final size:21
Alignment explanation
Indices: 4902987--4903062 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
4902977 CTGCCAAGAA
* *
4902987 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
4903008 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
4903028 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
4903049 ATGTATCGATACAT
1 ATGTATCGATACAT
4903063 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Done.