Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 47 of 129
Found at i:9290649 original size:30 final size:30
Alignment explanation
Indices: 9290583--9290650 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
9290573 ATTAATTTTT
* * *
9290583 TAAT-TTTTTAATTATATATATTTATATAA
1 TAATATTTTTAAGTATATATATTTAAAAAA
** *
9290612 TGGTATTTTTAAGTATTTATATTTAAAAAA
1 TAATATTTTTAAGTATATATATTTAAAAAA
9290642 TAATATTTT
1 TAATATTTT
9290651 ATTAATTTCG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (30 bp):
TAATATTTTTAAGTATATATATTTAAAAAA
Found at i:9293699 original size:239 final size:238
Alignment explanation
Indices: 9293266--9293742 Score: 562
Period size: 239 Copynumber: 2.0 Consensus size: 238
9293256 AAGTTTCATT
** * *
9293266 TTATTTTAAATTTTTTATTTTCCTTTTTTTTGACCTATTTCATCTTAATTTTTGATTTATACATC
1 TTATTTTAAACCTTTTATTTTCCTTTTTTTTGACCTATTTCATCCTAATTTTTGATTTACACATC
* **
9293331 GGAGTACAATCCTAAAAAACATTCCTTATCTTTATATCTAACCATTTTCTTCTTGCTTTCTGTTC
66 GGAGTACAAACCTAAAAAACATT-CTTATCTTTATATCTAACCATTTTCTTCTCACTTTCTGTTC
* *
9293396 TTTCAAAAATATCCTTATATCGGAGCTCGACACAAATATTCGACGCTCCTAATAAAGATTTTTTC
130 TTTCAAAAATATCCTAATATCGGAGCTCGACACAAACATTCGACGCTCCTAATAAAGATTTTTTC
* *
9293461 ATTCATTAGTTGAGAACAAAACAATGCCTCTTAGGAAGAGAATC
195 ATTCATTAGTCGAGAACAAAACAATGCCTCTTAGGAAAAGAATC
* * * *
9293505 TTATTTTAAACCTTTTATTTTTCTTTTCTTTTGACTTATTTCATCCTGATTTTTGATTTGCACAT
1 TTATTTTAAACCTTTTATTTTCCTTTT-TTTTGACCTATTTCATCCTAATTTTTGATTTACACAT
** * * * * * * *
9293570 CGGAGTACAAACGC-AGGAAATATT-TTGTCTTTATATTTGATCATTTTCTTCTCATTTTTTGTT
65 CGGAGTACAAAC-CTAAAAAACATTCTTATCTTTATATCTAACCATTTTCTTCTCACTTTCTGTT
* * * * * * ** ** *
9293633 CTTTTAGGAAATATCCTAATATCGGAGGTTGGCACAAACATTTGACGCTTTTGGTAAAGGTTTTT
129 CTTTCA-AAAATATCCTAATATCGGAGCTCGACACAAACATTCGACGCTCCTAATAAAGATTTTT
* * *
9293698 TCGTTCATTAGTCGAGAACAAAATAATGTCTCTTAGGAAAAGAAT
193 TCATTCATTAGTCGAGAACAAAACAATGCCTCTTAGGAAAAGAAT
9293743 TTTAGAAAAA
Statistics
Matches: 197, Mismatches: 38, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
238 36 0.18
239 110 0.56
240 50 0.25
241 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (238 bp):
TTATTTTAAACCTTTTATTTTCCTTTTTTTTGACCTATTTCATCCTAATTTTTGATTTACACATC
GGAGTACAAACCTAAAAAACATTCTTATCTTTATATCTAACCATTTTCTTCTCACTTTCTGTTCT
TTCAAAAATATCCTAATATCGGAGCTCGACACAAACATTCGACGCTCCTAATAAAGATTTTTTCA
TTCATTAGTCGAGAACAAAACAATGCCTCTTAGGAAAAGAATC
Found at i:9301661 original size:11 final size:11
Alignment explanation
Indices: 9301628--9301654 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9301618 TGTTATTATT
9301628 ATAAATGAATA
1 ATAAATGAATA
9301639 ATAAATGAATA
1 ATAAATGAATA
9301650 ATAAA
1 ATAAA
9301655 CTAATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (11 bp):
ATAAATGAATA
Found at i:9301880 original size:26 final size:26
Alignment explanation
Indices: 9301851--9301902 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9301841 GTTTTTACCT
*
9301851 CTATATATGATATT-AGATCATCAGGC
1 CTATATATGAGATTGA-ATCATCAGGC
*
9301877 CTATGTATGAGATTGAATCATCAGGC
1 CTATATATGAGATTGAATCATCAGGC
9301903 ATAAGTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (26 bp):
CTATATATGAGATTGAATCATCAGGC
Found at i:9303784 original size:20 final size:18
Alignment explanation
Indices: 9303759--9303798 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
9303749 TAAAATATAA
9303759 TTTATATGTGAGTAAAAAAT
1 TTTATAT-T-AGTAAAAAAT
*
9303779 TTTATATTATTAAAAAAT
1 TTTATATTAGTAAAAAAT
9303797 TT
1 TT
9303799 AAATAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 1 0.05
20 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (18 bp):
TTTATATTAGTAAAAAAT
Found at i:9307908 original size:20 final size:20
Alignment explanation
Indices: 9307870--9307910 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9307860 TTTATATTTT
*
9307870 AAATAATTATATTTGAATAA
1 AAATAATTATATATGAATAA
9307890 AAATAATTATAATAT-AATAA
1 AAATAATTAT-ATATGAATAA
9307910 A
1 A
9307911 TGATTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAATAATTATATATGAATAA
Found at i:9312474 original size:20 final size:20
Alignment explanation
Indices: 9312435--9312475 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9312425 TTCATATTTT
*
9312435 AAATAATTATATTTGAATAA
1 AAATAATTATATATGAATAA
9312455 AAATAATTATCATATG-ATAA
1 AAATAATTAT-ATATGAATAA
9312475 A
1 A
9312476 TAGTCATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (20 bp):
AAATAATTATATATGAATAA
Found at i:9316920 original size:25 final size:25
Alignment explanation
Indices: 9316892--9316942 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
9316882 GACTCATGCA
9316892 CGATCATTGATATAAACATGTAGTT
1 CGATCATTGATATAAACATGTAGTT
9316917 CGATCATTGATATAAACATGTAGTT
1 CGATCATTGATATAAACATGTAGTT
9316942 C
1 C
9316943 ATGAGGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (25 bp):
CGATCATTGATATAAACATGTAGTT
Found at i:9324050 original size:24 final size:24
Alignment explanation
Indices: 9324005--9324050 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
9323995 ACGCTTGAAC
*
9324005 AGGATGAGATTGCCAATCTTTAAG
1 AGGATGAGATTACCAATCTTTAAG
9324029 AGGATTGAGATTACCAAT-TTTA
1 AGGA-TGAGATTACCAATCTTTA
9324051 CTGTCAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (24 bp):
AGGATGAGATTACCAATCTTTAAG
Found at i:9325052 original size:28 final size:29
Alignment explanation
Indices: 9325020--9325095 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 29
9325010 CAAATAAGTT
* * *
9325020 ATTTATATTTAAATAAATTTTTA-TTTTA
1 ATTTATATATAAATAAATCTTAACTTTTA
9325048 ATTTATATATAAATAAAATCTTAACTTTTA
1 ATTTATATATAAAT-AAATCTTAACTTTTA
*
9325078 ATTTATATCTAAATAAAT
1 ATTTATATATAAATAAAT
9325096 ATTTCATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 13 0.31
29 11 0.26
30 18 0.43
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTTATATATAAATAAATCTTAACTTTTA
Found at i:9327079 original size:91 final size:91
Alignment explanation
Indices: 9326970--9327154 Score: 343
Period size: 91 Copynumber: 2.0 Consensus size: 91
9326960 AGGGCGTAAA
9326970 TCAATGGAAGGCCTGCATGAGCATGTATGATGTACAGTTGGCGGTTGATGCTCATTTAATCGACG
1 TCAATGGAAGGCCTGCATGAGCATGTATGATGTACAGTTGGCGGTTGATGCTCATTTAATCGACG
*
9327035 GCTTGCAACAATAATAGCTTAGATAT
66 GCTTGCAAAAATAATAGCTTAGATAT
*
9327061 TCAATGGAAGGCCTGCATGAGCATGTATGGTGTACAGTTGGCGGTTGATGCTCATTTAATCGACG
1 TCAATGGAAGGCCTGCATGAGCATGTATGATGTACAGTTGGCGGTTGATGCTCATTTAATCGACG
*
9327126 GCTTGCAAAAATAATAGCTTGGATAT
66 GCTTGCAAAAATAATAGCTTAGATAT
9327152 TCA
1 TCA
9327155 CAAATATTTT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (91 bp):
TCAATGGAAGGCCTGCATGAGCATGTATGATGTACAGTTGGCGGTTGATGCTCATTTAATCGACG
GCTTGCAAAAATAATAGCTTAGATAT
Found at i:9328682 original size:52 final size:52
Alignment explanation
Indices: 9328616--9328748 Score: 187
Period size: 52 Copynumber: 2.6 Consensus size: 52
9328606 AAAAATTCTT
* *
9328616 TTTCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTACCTATTAAGAATC-CC
1 TTTCTCTTAAAATTCTTCTCTTGTAAGTCAAACTTACCTATTAAGAATCACC
* * *
9328667 TTTCTTTTTAAAATTCTTCTCTTGCAAGTCAAACTTACCTATTAAGAATCATC
1 TTTC-TCTTAAAATTCTTCTCTTGTAAGTCAAACTTACCTATTAAGAATCACC
* *
9328720 TTTCTCTTAGAATTCTTCTTTTGTAAGTC
1 TTTCTCTTAAAATTCTTCTCTTGTAAGTC
9328749 TTCTTATCCA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
51 4 0.06
52 62 0.87
53 5 0.07
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (52 bp):
TTTCTCTTAAAATTCTTCTCTTGTAAGTCAAACTTACCTATTAAGAATCACC
Found at i:9328798 original size:21 final size:22
Alignment explanation
Indices: 9328772--9328824 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
9328762 AGCAATATCA
*
9328772 TCAAAT-AATATCTGACAAATC
1 TCAAATAAATATCTAACAAATC
* *
9328793 TCAAATAAATTTCTAATAAATC
1 TCAAATAAATATCTAACAAATC
*
9328815 TCAAACAAAT
1 TCAAATAAAT
9328825 CTCGTATGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (22 bp):
TCAAATAAATATCTAACAAATC
Found at i:9329946 original size:19 final size:20
Alignment explanation
Indices: 9329898--9329947 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
9329888 TTATTATATT
9329898 ATTATTAATTTATTTTTAAAC
1 ATTATT-ATTTATTTTTAAAC
9329919 ATTTATTATTTA-TTTTAAATC
1 A-TTATTATTTATTTTTAAA-C
9329940 A-TATTATT
1 ATTATTATT
9329948 AAATTAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.26
20 7 0.26
21 8 0.30
22 5 0.19
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTATTATTTATTTTTAAAC
Found at i:9329946 original size:22 final size:22
Alignment explanation
Indices: 9329897--9329948 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
9329887 TTTATTATAT
9329897 TATTATTAATTTATTTTTAAACA
1 TATTATT-ATTTATTTTTAAACA
9329920 T-TTATTATTTA-TTTTAAATCA
1 TATTATTATTTATTTTTAAA-CA
9329941 TATTATTA
1 TATTATTA
9329949 AATTAACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 7 0.26
21 8 0.30
22 11 0.41
23 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATTATTTATTTTTAAACA
Found at i:9330547 original size:19 final size:20
Alignment explanation
Indices: 9330510--9330547 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
9330500 TATATATATC
**
9330510 AAAATTTATTAATTTTTAAA
1 AAAATTTATTAATACTTAAA
9330530 AAAATTT-TTAATACTTAA
1 AAAATTTATTAATACTTAA
9330548 TTTATGTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAATTTATTAATACTTAAA
Found at i:9333307 original size:19 final size:19
Alignment explanation
Indices: 9333283--9333323 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
9333273 ACATGATATG
9333283 AACCCTATCAAC-CTCCTTC
1 AACCCTATCAACACTCC-TC
9333302 AACCCTATCAACACTCCTC
1 AACCCTATCAACACTCCTC
9333321 AAC
1 AAC
9333324 ATGAATTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.22
Consensus pattern (19 bp):
AACCCTATCAACACTCCTC
Found at i:9337179 original size:59 final size:58
Alignment explanation
Indices: 9337091--9337320 Score: 245
Period size: 59 Copynumber: 3.9 Consensus size: 58
9337081 TATTTTTAAT
*
9337091 AAATTTCAAAAAATGTTTTTTAA-AGAAAAATTGAAGTATCAATTTTTTTTAAAAATAAA
1 AAATTTCAAAAAAT-ATTTTTAAGA-AAAAATTGAAGTATCAATTTTTTTTAAAAATAAA
* *
9337150 AAATTTCAAAAAACTATTTTTGAGAAAAAATTGAAGTATCAATTTTTCTTAAAAATAAA
1 AAATTTCAAAAAA-TATTTTTAAGAAAAAATTGAAGTATCAATTTTTTTTAAAAATAAA
* * * *
9337209 AAATTTTAAAAAAATATTTTTAAGAAAAAGTTAAAATATCAA-TTTTTTTAAATAA-AAA
1 AAA-TTTCAAAAAATATTTTTAAGAAAAAATTGAAGTATCAATTTTTTTTAAA-AATAAA
* * * ** *
9337267 ATATTTCAAAAAAAAGTTTTAA-AGAAAAGCTAAAGTATC-ATTTTTTCTTAAAAA
1 AAATTTCAAAAAATATTTTTAAGA-AAAAATTGAAGTATCAATTTTTT-TTAAAAA
9337321 AATATTTTTA
Statistics
Matches: 149, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
56 2 0.01
57 36 0.24
58 19 0.13
59 81 0.54
60 11 0.07
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (58 bp):
AAATTTCAAAAAATATTTTTAAGAAAAAATTGAAGTATCAATTTTTTTTAAAAATAAA
Found at i:9342279 original size:23 final size:23
Alignment explanation
Indices: 9342240--9342298 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
9342230 ATTTATCTTG
* *
9342240 ATTTTTTT-TTTACTTTTCATTT
1 ATTTTTTTATCTAATTTTCATTT
**
9342262 ATTTTTTTATCTAATTTTTTTTT
1 ATTTTTTTATCTAATTTTCATTT
9342285 ATTTTGATTTATCT
1 ATTTT--TTTATCT
9342299 TTAATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 8 0.27
23 15 0.50
25 7 0.23
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.75
Consensus pattern (23 bp):
ATTTTTTTATCTAATTTTCATTT
Found at i:9342306 original size:22 final size:21
Alignment explanation
Indices: 9342281--9342338 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
9342271 TCTAATTTTT
9342281 TTTTATTTTGATTTATCTTTAA
1 TTTTATTTT-ATTTATCTTTAA
* *
9342303 TTTTAAGTTCATTTATCTTTAA
1 TTTT-ATTTTATTTATCTTTAA
9342325 TATTTATTTTATTT
1 T-TTTATTTTATTT
9342339 TACTTTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.67
Consensus pattern (21 bp):
TTTTATTTTATTTATCTTTAA
Found at i:9344396 original size:16 final size:16
Alignment explanation
Indices: 9344375--9344406 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9344365 CAAACAACCA
*
9344375 TAAAAAATCAAAATTT
1 TAAAAAATAAAAATTT
9344391 TAAAAAATAAAAATTT
1 TAAAAAATAAAAATTT
9344407 AGAAAAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAAAATAAAAATTT
Found at i:9344402 original size:15 final size:16
Alignment explanation
Indices: 9344375--9344412 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9344365 CAAACAACCA
*
9344375 TAAAAAATCAAAATTT
1 TAAAAAATCAAAAATT
9344391 TAAAAAAT-AAAAATT
1 TAAAAAATCAAAAATT
9344406 TAGAAAA
1 TA-AAAA
9344413 GTTTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
TAAAAAATCAAAAATT
Found at i:9344412 original size:16 final size:16
Alignment explanation
Indices: 9344375--9344412 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
9344365 CAAACAACCA
*
9344375 TAAAAAATCAAAATTT
1 TAAAAAATCAAAAATT
9344391 TAAAAAAT-AAAAATT
1 TAAAAAATCAAAAATT
*
9344406 TAGAAAA
1 TAAAAAA
9344413 GTTTTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
TAAAAAATCAAAAATT
Found at i:9354490 original size:26 final size:27
Alignment explanation
Indices: 9354432--9354490 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
9354422 TCATTTGCAG
* *
9354432 TGGGACATCGAATATCATCATATAATCAA
1 TGGGACATCAAATATCATCAAATAAT--A
9354461 TGGGACATCAAATATCATCAAATAAT-
1 TGGGACATCAAATATCATCAAATAATA
9354487 TGGG
1 TGGG
9354491 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
29 24 0.86
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (27 bp):
TGGGACATCAAATATCATCAAATAATA
Found at i:9368359 original size:14 final size:14
Alignment explanation
Indices: 9368320--9368360 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
9368310 TAACTGATAA
*
9368320 TTTTT-AATTACAT
1 TTTTTAAATTATAT
9368333 TTTTTATAATTATAT
1 TTTTTA-AATTATAT
9368348 TTTTTAAATTATA
1 TTTTTAAATTATA
9368361 GAGATCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 13 0.52
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTAAATTATAT
Found at i:9368834 original size:24 final size:24
Alignment explanation
Indices: 9368802--9368848 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
9368792 CTTGTGTAAA
*
9368802 TTTTAGACTTTTATAAATGAAAAC
1 TTTTAGACTTGTATAAATGAAAAC
9368826 TTTTAGACTTGTATAAATGAAAA
1 TTTTAGACTTGTATAAATGAAAA
9368849 ATGTAAACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (24 bp):
TTTTAGACTTGTATAAATGAAAAC
Found at i:9368922 original size:9 final size:9
Alignment explanation
Indices: 9368894--9368950 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
9368884 TGATTTTTGT
9368894 AAAAAA-GA
1 AAAAAATGA
* *
9368902 AAAAATTAA
1 AAAAAATGA
9368911 AAAAAATGA
1 AAAAAATGA
***
9368920 AAAGGCTGA
1 AAAAAATGA
9368929 AAAAAATGA
1 AAAAAATGA
9368938 AAAAATATGA
1 AAAAA-ATGA
9368948 AAA
1 AAA
9368951 GTTTAAATGG
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
8 5 0.14
9 25 0.68
10 7 0.19
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (9 bp):
AAAAAATGA
Found at i:9369583 original size:20 final size:20
Alignment explanation
Indices: 9369558--9369597 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9369548 CCGTTGTTGA
* *
9369558 GCTGCTTAGTCGAGCAGCGT
1 GCTGCTTAGCCAAGCAGCGT
9369578 GCTGCTTAGCCAAGCAGCGT
1 GCTGCTTAGCCAAGCAGCGT
9369598 ATCAAGCCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.23
Consensus pattern (20 bp):
GCTGCTTAGCCAAGCAGCGT
Found at i:9369908 original size:75 final size:76
Alignment explanation
Indices: 9369824--9369965 Score: 241
Period size: 75 Copynumber: 1.9 Consensus size: 76
9369814 AATTTTGAAA
*
9369824 AAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAAAAAATTT-GAAAAAATAT
1 AAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAAAAAAATTTCGAAAAAATAT
9369888 TTCTAATTTCT
66 TTCTAATTTCT
* * *
9369899 AAAATATTTTTAAGGAAAAGTTAAAAGTGTCAATTTTTCTTGAAAATAAAATTTCTAAAAAATAT
1 AAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAAAAAAATTTCGAAAAAATAT
9369964 TT
66 TT
9369966 TTGAGGAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 51 0.82
76 11 0.18
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (76 bp):
AAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAAAAAAATTTCGAAAAAATAT
TTCTAATTTCT
Found at i:9369967 original size:58 final size:58
Alignment explanation
Indices: 9369892--9370124 Score: 256
Period size: 58 Copynumber: 3.9 Consensus size: 58
9369882 AAATATTTCT
* *
9369892 AATTTCT--AAAATATTTTTAAGGAAAAGTTAAAAGTGTCAATTTTTCTTGAAAATAA
1 AATTTCTAAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAA
* *
9369948 AATTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAAATA
1 AATTTCTAAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTC-T-----T--AAAAAT-
9370013 AA
57 AA
* * *
9370015 AATTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAA-TATCAATTTTCCTTAAAAATAA
1 AA-TTTC-TAAAAAATATTTTTAAGGAAAAGTT-AAAAGTATCAATTTTTCTTAAAAATAA
* *
9370075 AATTTCTAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
1 AATTTCTAAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTT
9370125 GTGTAAAAGC
Statistics
Matches: 150, Mismatches: 12, Indels: 28
0.79 0.06 0.15
Matches are distributed among these distances:
56 7 0.05
57 3 0.02
58 71 0.47
59 5 0.03
60 4 0.03
61 6 0.04
63 1 0.01
64 1 0.01
66 5 0.03
67 4 0.03
68 5 0.03
69 35 0.23
70 3 0.02
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (58 bp):
AATTTCTAAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAA
Found at i:9370080 original size:127 final size:130
Alignment explanation
Indices: 9369807--9370124 Score: 432
Period size: 127 Copynumber: 2.4 Consensus size: 130
9369797 TGATCTCTTT
*
9369807 AAAATAAAATTT-TGAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAA
1 AAAATAAAATTTCT--AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAA
** ** *
9369871 AAAATTTGAAAAAATATTTCTAATTTCTAAAATATTTTTAAGGAAAAGTTAAAAGTGTCAATTTT
64 AAAAAAT-AAAAAATATTTCTAA--TAAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTT
* *
9369936 TCTTG
126 CCTTA
*
9369941 AAAATAAAATTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
1 AAAATAAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAA-AA
*
9370006 AAAAAT-AAAAAT-TTTC-AA-AAAAAATATTTTTGAGGAAAAGTTGAAAA-TATCAATTTTCCT
65 AAAAATAAAAAATATTTCTAATAAAAAATATTTTTAAGGAAAAGTT-AAAAGTATCAATTTTCCT
9370066 TA
129 TA
*
9370068 AAAATAAAATTTCTAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAATAAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
9370125 GTGTAAAAGC
Statistics
Matches: 169, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
127 88 0.52
128 4 0.02
130 2 0.01
131 4 0.02
132 6 0.04
133 46 0.27
134 18 0.11
135 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (130 bp):
AAAATAAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAAA
AAAATAAAAAATATTTCTAATAAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTA
Found at i:9374247 original size:13 final size:13
Alignment explanation
Indices: 9374231--9374265 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
9374221 ATCAATAATG
9374231 AAAAAAAATAAAT
1 AAAAAAAATAAAT
*
9374244 AAAATAAATAAAT
1 AAAAAAAATAAAT
9374257 AAAATAAAA
1 AAAA-AAAA
9374266 AAGATGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAAAATAAAT
Found at i:9375175 original size:23 final size:23
Alignment explanation
Indices: 9375149--9375192 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
9375139 GAAGCCTATG
9375149 AATGATGATCAAG-TGATGAAAAT
1 AATGATGATC-AGTTGATGAAAAT
9375172 AATGATGATCAGTTGATGAAA
1 AATGATGATCAGTTGATGAAA
9375193 CTTGTTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (23 bp):
AATGATGATCAGTTGATGAAAAT
Found at i:9375551 original size:21 final size:21
Alignment explanation
Indices: 9375525--9375566 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9375515 ATTTTTGAGT
*
9375525 TTTCAAATGATAATCTTTGAA
1 TTTCAAATGACAATCTTTGAA
9375546 TTTCAAATGACAATCTTTGAA
1 TTTCAAATGACAATCTTTGAA
9375567 GTGTGAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTCAAATGACAATCTTTGAA
Found at i:9375625 original size:79 final size:79
Alignment explanation
Indices: 9375527--9375735 Score: 303
Period size: 79 Copynumber: 2.6 Consensus size: 79
9375517 TTTTGAGTTT
*
9375527 TCAAATGATAATCTTTGAATTTCAAATGACAATCTTTGAAGTGTGAAACCCAAAATTTGTTGAAT
1 TCAAATGAGAATCTTTGAATTTCAAATGACAATCTTTGAAGTGTGAAACCCAAAATTTGTTGAAT
9375592 GTGAATCTTCAAAC
66 GTGAATCTTCAAAC
* *
9375606 TCAAATGAGAGTCTTTGAATTTCAAATGACAATCTTT-AAGGTGTGAAACCTAAAATTTGTTGAA
1 TCAAATGAGAATCTTTGAATTTCAAATGACAATCTTTGAA-GTGTGAAACCCAAAATTTGTTGAA
* **
9375670 TGTGAATTTTTGAAC
65 TGTGAATCTTCAAAC
* * * * *
9375685 TCAAATGAGAATCTTTGAATTTCGAATAAGAATCTTTGAGGTGAGAAACCC
1 TCAAATGAGAATCTTTGAATTTCAAATGACAATCTTTGAAGTGTGAAACCC
9375736 TAAGATTTAT
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
78 2 0.02
79 112 0.97
80 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (79 bp):
TCAAATGAGAATCTTTGAATTTCAAATGACAATCTTTGAAGTGTGAAACCCAAAATTTGTTGAAT
GTGAATCTTCAAAC
Found at i:9376091 original size:41 final size:41
Alignment explanation
Indices: 9376033--9376271 Score: 259
Period size: 41 Copynumber: 5.8 Consensus size: 41
9376023 ATCTATGACT
* *
9376033 CCTCTGTTTAGAA-GAGCAATTTA-TTTTCTAAAGTCT-TTGTG
1 CCTCTATTTA-AAGGAGCAATTTATTTTTC-AAAGT-TGTGGTG
*
9376074 CCTCTATTTATAGGAGCAATTTATTTTTCAAAGTTGTGGTG
1 CCTCTATTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTG
* * * * *
9376115 TCTCTGTTTAAAGAAGCAATTTATTTTTCAAAGTTATGATG
1 CCTCTATTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTG
* ** * * *
9376156 CCTCTGTTTAAATAAGCAATTTATTTTCCAAAGTTATGGTA
1 CCTCTATTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTG
* * *
9376197 CTTCTATTTAGAGGAGCAATTTATTTTTCAAAATTGTGGTG
1 CCTCTATTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTG
* *
9376238 CCTCTATTTAGAGGAGCATTTTATTTTTCAAAGT
1 CCTCTATTTAAAGGAGCAATTTATTTTTCAAAGT
9376272 CGTTGAGCTT
Statistics
Matches: 169, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
40 2 0.01
41 162 0.96
42 5 0.03
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.44
Consensus pattern (41 bp):
CCTCTATTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTG
Found at i:9376290 original size:123 final size:123
Alignment explanation
Indices: 9376033--9376271 Score: 338
Period size: 123 Copynumber: 1.9 Consensus size: 123
9376023 ATCTATGACT
* * * * *
9376033 CCTCTGTTTAGAA-GAGCAATTTATTTTCTAAAGTCTTTGTGCCTCTATTTATAGGAGCAATTTA
1 CCTCTGTTTA-AATAAGCAATTTATTTTCCAAAGTCTTGGTACCTCTATTTAGAGGAGCAATTTA
* * *
9376097 TTTTTCAAAGTTGTGGTGTCTCTGTTTAAAGAAGCAATTTATTTTTCAAAGTTATGATG
65 TTTTTCAAAATTGTGGTGCCTCTATTTAAAGAAGCAATTTATTTTTCAAAGTTATGATG
*
9376156 CCTCTGTTTAAATAAGCAATTTATTTTCCAAAGT-TATGGTACTTCTATTTAGAGGAGCAATTTA
1 CCTCTGTTTAAATAAGCAATTTATTTTCCAAAGTCT-TGGTACCTCTATTTAGAGGAGCAATTTA
* * *
9376220 TTTTTCAAAATTGTGGTGCCTCTATTTAGAGGAGCATTTTATTTTTCAAAGT
65 TTTTTCAAAATTGTGGTGCCTCTATTTAAAGAAGCAATTTATTTTTCAAAGT
9376272 CGTTGAGCTT
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
122 3 0.03
123 99 0.97
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.44
Consensus pattern (123 bp):
CCTCTGTTTAAATAAGCAATTTATTTTCCAAAGTCTTGGTACCTCTATTTAGAGGAGCAATTTAT
TTTTCAAAATTGTGGTGCCTCTATTTAAAGAAGCAATTTATTTTTCAAAGTTATGATG
Found at i:9377186 original size:10 final size:9
Alignment explanation
Indices: 9377171--9377203 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9377161 TACTCCAAGG
9377171 TTATTTTATT
1 TTATTTTA-T
9377181 TTATTTTAT
1 TTATTTTAT
9377190 TTATTTT-T
1 TTATTTTAT
9377198 TTATTT
1 TTATTT
9377204 ATCTATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 7 0.30
9 8 0.35
10 8 0.35
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (9 bp):
TTATTTTAT
Found at i:9377422 original size:62 final size:60
Alignment explanation
Indices: 9377310--9377584 Score: 298
Period size: 62 Copynumber: 4.3 Consensus size: 60
9377300 TGATCTCTTT
* *
9377310 AAAATAAAAATTTGAAAAAAAATATTTTTGAGGAAAAGTTGAAAGAATCAATTTTCCTTG
1 AAAATAAAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
9377370 AAAAATAAAAATTTGAAAAAAAATTATTTTTGAGAAAAAGTTTAAAGTATCAATTTTCCTTG
1 -AAAATAAAAATTTCAAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
9377432 AAAATAAAAAAATAAAAATTTTCAAAAACAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATT
1 --------AAAATAAAAA-TTTCAAAAA-AAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATT
*
9377497 TTTCTTG
54 TTCCTTG
* * * * *
9377504 AAAATAAAATTTTCAAAAAAAAAAGCATTTTGAGGAAAAGTTTAAAGTATCAATTTTCTTTG
1 AAAATAAAAATTTCAAAAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
9377566 AAAATAAAAATGTCAAAAA
1 AAAATAAAAATTTCAAAAA
9377585 TGCTTTAAGA
Statistics
Matches: 185, Mismatches: 16, Indels: 25
0.82 0.07 0.11
Matches are distributed among these distances:
60 1 0.01
61 22 0.12
62 87 0.47
63 9 0.05
64 9 0.05
69 11 0.06
70 8 0.04
71 3 0.02
72 35 0.19
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (60 bp):
AAAATAAAAATTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:9377488 original size:134 final size:129
Alignment explanation
Indices: 9377310--9377575 Score: 381
Period size: 134 Copynumber: 2.0 Consensus size: 129
9377300 TGATCTCTTT
*
9377310 AAAATAAAAATTTGAAAAAAAATATTTTTGAGGAAAAGTTGAAAGAATCAATTTTCCTTGAAAAA
1 AAAATAAAAATTTAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGAATCAATTTTCCTTG-AAAA
* * *
9377375 TAAAAATTTGAAAAAAAATTA-TTTTTGAGAAAAAGTTTAAAGTATCAATTTTCCTTGAAAATAA
65 TAAAAATTTCAAAAAAAA-AACATTTTGAGAAAAAGTTTAAAGTATCAATTTTCCTTGAAAATAA
9377439 A
129 A
* *
9377440 AAAATAAAAATTTTCAAAAACAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGA
1 AAAATAAAAA-TTT-AAAAA-AAA-ATATTTTTGAGGAAAAGTTGAAAGAATCAATTTTCCTTGA
* * *
9377505 AAATAAAATTTTCAAAAAAAAAAGCATTTTGAGGAAAAGTTTAAAGTATCAATTTTCTTTGAAAA
62 AAATAAAAATTTCAAAAAAAAAA-CATTTTGAGAAAAAGTTTAAAGTATCAATTTTCCTTGAAAA
9377570 TAAA
126 TAAA
9377574 AA
1 AA
9377576 TGTCAAAAAT
Statistics
Matches: 121, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 10 0.08
131 3 0.02
132 5 0.04
133 23 0.19
134 80 0.66
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.33
Consensus pattern (129 bp):
AAAATAAAAATTTAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGAATCAATTTTCCTTGAAAAT
AAAAATTTCAAAAAAAAAACATTTTGAGAAAAAGTTTAAAGTATCAATTTTCCTTGAAAATAAA
Found at i:9377611 original size:56 final size:58
Alignment explanation
Indices: 9377477--9377620 Score: 159
Period size: 62 Copynumber: 2.4 Consensus size: 58
9377467 ATTTTTGAGG
* * * *
9377477 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAAAAAAAAAGCATTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATGTC---AAAAAAAGCA-TTTAAGA
* *
9377539 AAAAGTTTAAAGTATCAA-TTTTCTTTGAAAATAAAAATGTC-AAAAATGC-TTTAAGA
1 AAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAAAATGTCAAAAAAAGCATTTAAGA
*
9377595 AAAAGTTGAAAATATCAATTTTTCTT
1 AAAAGTTGAAAGTATCAATTTTTCTT
9377621 ATGTAAAAGC
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
56 23 0.32
57 5 0.07
58 7 0.10
61 5 0.07
62 32 0.44
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (58 bp):
AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATGTCAAAAAAAGCATTTAAGA
Found at i:9382433 original size:22 final size:22
Alignment explanation
Indices: 9382380--9382425 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
9382370 ATATATCATA
*
9382380 ATAACATAA-TACAAAAATGAT
1 ATAAAATAATTACAAAAATGAT
9382401 ATAAAATAATTACAAAAATGAT
1 ATAAAATAATTACAAAAATGAT
9382423 ATA
1 ATA
9382426 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (22 bp):
ATAAAATAATTACAAAAATGAT
Found at i:9388255 original size:24 final size:23
Alignment explanation
Indices: 9388210--9388262 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
9388200 TACAAATAAC
*
9388210 TTTTTTTATAAATTTATTATTTT
1 TTTTTTTATAAATTTATAATTTT
9388233 TTTTGTTTACTAAATTTA-AATTTT
1 TTTT-TTTA-TAAATTTATAATTTT
*
9388257 TATTTT
1 TTTTTT
9388263 GGATTGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 6 0.23
24 12 0.46
25 8 0.31
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTTTTATAAATTTATAATTTT
Found at i:9394367 original size:17 final size:18
Alignment explanation
Indices: 9394347--9394380 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9394337 AATTTTGGTT
9394347 TGCTTAC-TTTTTGGGTC
1 TGCTTACTTTTTTGGGTC
*
9394364 TGCTTGCTTTTTTGGGT
1 TGCTTACTTTTTTGGGT
9394381 TTCTAGAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.03, C:0.15, G:0.26, T:0.56
Consensus pattern (18 bp):
TGCTTACTTTTTTGGGTC
Found at i:9395703 original size:15 final size:15
Alignment explanation
Indices: 9395683--9395719 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
9395673 ATTTTTAAAT
*
9395683 AATTAATCATAATTA
1 AATTAATCAAAATTA
9395698 AATTAATCAAAATTA
1 AATTAATCAAAATTA
*
9395713 ATTTAAT
1 AATTAAT
9395720 TTAATCGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTAATCAAAATTA
Found at i:9397838 original size:3 final size:3
Alignment explanation
Indices: 9397830--9397883 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
9397820 ACTAGGAGTA
* *
9397830 TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9397878 TAT TAT
1 TAT TAT
9397884 ACAAAAACAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:9403471 original size:18 final size:18
Alignment explanation
Indices: 9403448--9403483 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9403438 CATTCATTCA
*
9403448 ATTTAAATTGATTTTTTT
1 ATTTAAATTAATTTTTTT
*
9403466 ATTTAATTTAATTTTTTT
1 ATTTAAATTAATTTTTTT
9403484 CAAATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTAAATTAATTTTTTT
Found at i:9408193 original size:14 final size:14
Alignment explanation
Indices: 9408176--9408205 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9408166 AATTTGAATT
*
9408176 ATTTTATTTTTAAA
1 ATTTTAATTTTAAA
9408190 ATTTTAATTTTAAA
1 ATTTTAATTTTAAA
9408204 AT
1 AT
9408206 AATGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTTAATTTTAAA
Found at i:9408771 original size:2 final size:2
Alignment explanation
Indices: 9408764--9408814 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
9408754 AAGGAAAAGG
9408764 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9408806 GA GA GA GA G
1 GA GA GA GA G
9408815 GGATTTACGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9412840 original size:21 final size:22
Alignment explanation
Indices: 9412816--9412859 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9412806 TAATGGACCT
*
9412816 TTGTAC-CTTAGTTATGAGTCA
1 TTGTACTCTTAGTTATGACTCA
*
9412837 TTGTACTTTTAGTTATGACTCA
1 TTGTACTCTTAGTTATGACTCA
9412859 T
1 T
9412860 CATCCTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.48
Consensus pattern (22 bp):
TTGTACTCTTAGTTATGACTCA
Found at i:9412867 original size:22 final size:22
Alignment explanation
Indices: 9412823--9412867 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9412813 CCTTTGTACC
* **
9412823 TTAGTTATGAGTCATTGTACTT
1 TTAGTTATGACTCATCATACTT
*
9412845 TTAGTTATGACTCATCATCCTT
1 TTAGTTATGACTCATCATACTT
9412867 T
1 T
9412868 AGTCTTATCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (22 bp):
TTAGTTATGACTCATCATACTT
Found at i:9423123 original size:21 final size:22
Alignment explanation
Indices: 9423099--9423152 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
9423089 TTAGGATAAG
* *
9423099 ACTAAAGG-ACGATGAGTCATA
1 ACTAAAGGTACAATGACTCATA
9423120 ACT-AAGGTACAATGACTCATA
1 ACTAAAGGTACAATGACTCATA
*
9423141 ACT-AGGGTACAA
1 ACTAAAGGTACAA
9423153 AGGTCTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (22 bp):
ACTAAAGGTACAATGACTCATA
Found at i:9426545 original size:2 final size:2
Alignment explanation
Indices: 9426540--9426584 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
9426530 GGAGACACAC
9426540 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9426582 AG A
1 AG A
9426585 AGATTTACGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9434393 original size:17 final size:19
Alignment explanation
Indices: 9434360--9434401 Score: 70
Period size: 17 Copynumber: 2.3 Consensus size: 19
9434350 TTTTTATTTC
9434360 ATAAAAATTTAAAAAATAT
1 ATAAAAATTTAAAAAATAT
9434379 ATAAAAA-TT-AAAAATAT
1 ATAAAAATTTAAAAAATAT
9434396 ATAAAA
1 ATAAAA
9434402 TTCCATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.61
18 2 0.09
19 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAAAATTTAAAAAATAT
Found at i:9434557 original size:18 final size:20
Alignment explanation
Indices: 9434520--9434558 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
9434510 TAATCTAAAC
9434520 TAAATCGAATATTATAATTT
1 TAAATCGAATATTATAATTT
*
9434540 TAAATC-AAT-TTCTAATTT
1 TAAATCGAATATTATAATTT
9434558 T
1 T
9434559 CTTATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (20 bp):
TAAATCGAATATTATAATTT
Found at i:9438398 original size:18 final size:18
Alignment explanation
Indices: 9438366--9438420 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
9438356 AATTGAATAA
9438366 TAAA-TATA-TTT-AATT
1 TAAATTATATTTTAAATT
9438381 TAAATTATATTTTAAA-T
1 TAAATTATATTTTAAATT
* *
9438398 TATAATTTTATTTTATATT
1 TA-AATTATATTTTAAATT
9438417 TAAA
1 TAAA
9438421 ATAAATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 4 0.12
16 4 0.12
17 6 0.18
18 16 0.48
19 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAAATTATATTTTAAATT
Found at i:9438407 original size:13 final size:12
Alignment explanation
Indices: 9438379--9438422 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
9438369 ATATATTTAA
9438379 TTTAAATTATAT
1 TTTAAATTATAT
9438391 TTTAAATTATAAT
1 TTTAAATTAT-AT
**
9438404 TTTATTTTATAT
1 TTTAAATTATAT
*
9438416 TTAAAAT
1 TTTAAAT
9438423 AAATTAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTAAATTATAT
Found at i:9445691 original size:17 final size:17
Alignment explanation
Indices: 9445645--9445682 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9445635 TATAATATGT
* *
9445645 TATAAAATTATATGAAA
1 TATAAAAATATTTGAAA
9445662 TATAAAAATATTTGAAA
1 TATAAAAATATTTGAAA
9445679 TATA
1 TATA
9445683 GGAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (17 bp):
TATAAAAATATTTGAAA
Found at i:9445757 original size:12 final size:14
Alignment explanation
Indices: 9445723--9445752 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9445713 TTTTTCCTTC
*
9445723 TTTATAAAATATAT
1 TTTACAAAATATAT
9445737 TTTACAAAATATAT
1 TTTACAAAATATAT
9445751 TT
1 TT
9445753 GAAAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTACAAAATATAT
Found at i:9446652 original size:11 final size:11
Alignment explanation
Indices: 9446632--9446666 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
9446622 CATAGGATTA
*
9446632 ATATTAATATT
1 ATATTTATATT
9446643 ATATTTATATT
1 ATATTTATATT
*
9446654 GTATTTATATT
1 ATATTTATATT
9446665 AT
1 AT
9446667 TAATATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
ATATTTATATT
Found at i:9457958 original size:16 final size:16
Alignment explanation
Indices: 9457937--9457969 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9457927 GATTTGCTTG
9457937 ACATCTTTTGTACTTA
1 ACATCTTTTGTACTTA
9457953 ACATCTTTTGTACTTA
1 ACATCTTTTGTACTTA
9457969 A
1 A
9457970 TAAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.48
Consensus pattern (16 bp):
ACATCTTTTGTACTTA
Found at i:9466765 original size:8 final size:8
Alignment explanation
Indices: 9466752--9466856 Score: 67
Period size: 8 Copynumber: 13.0 Consensus size: 8
9466742 TTAATATTCA
9466752 TTTATATT
1 TTTATATT
9466760 TTTATATT
1 TTTATATT
9466768 TTTATATT
1 TTTATATT
*
9466776 ATTATATT
1 TTTATATT
* *
9466784 TTAAAATT
1 TTTATATT
*
9466792 TATA-ATT
1 TTTATATT
9466799 TATT-TATT
1 T-TTATATT
9466807 TTGT-TATAT
1 TT-TATAT-T
9466816 TTTAT-TT
1 TTTATATT
9466823 ATTT-TATT
1 -TTTATATT
9466831 TGTTATATT
1 T-TTATATT
*
9466840 TTATTTATT
1 TT-TATATT
*
9466849 TTAATATT
1 TTTATATT
9466857 ATATCTTATT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
7 8 0.10
8 53 0.69
9 16 0.21
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (8 bp):
TTTATATT
Found at i:9466822 original size:23 final size:23
Alignment explanation
Indices: 9466746--9466851 Score: 101
Period size: 23 Copynumber: 4.5 Consensus size: 23
9466736 ATGTTATTAA
*
9466746 TATTCATTTATATTT-TTATATTTT
1 TATTTATTT-TATTTGTTATA-TTT
* * *
9466770 TATATTATTATATTT-TAAAATTT
1 TAT-TTATTTTATTTGTTATATTT
9466793 ATAATTTA-TTTATTTTGTTATATTT
1 -T-ATTTATTTTA-TTTGTTATATTT
9466818 TATTTATTTTATTTGTTATATTT
1 TATTTATTTTATTTGTTATATTT
9466841 TATTTATTTTA
1 TATTTATTTTA
9466852 ATATTATATC
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
23 34 0.49
24 23 0.33
25 12 0.17
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.69
Consensus pattern (23 bp):
TATTTATTTTATTTGTTATATTT
Found at i:9466827 original size:9 final size:9
Alignment explanation
Indices: 9466797--9466851 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
9466787 AAATTTATAA
9466797 TTTATTTAT
1 TTTATTTAT
*
9466806 TTTGTTATAT
1 TTTATT-TAT
9466816 TTTATTTAT
1 TTTATTTAT
9466825 TTTA-TT-T
1 TTTATTTAT
*
9466832 GTTA--TAT
1 TTTATTTAT
9466839 TTTATTTAT
1 TTTATTTAT
9466848 TTTA
1 TTTA
9466852 ATATTATATC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 1 0.03
7 8 0.21
8 2 0.05
9 19 0.50
10 8 0.21
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (9 bp):
TTTATTTAT
Found at i:9466843 original size:49 final size:51
Alignment explanation
Indices: 9466716--9466843 Score: 122
Period size: 49 Copynumber: 2.5 Consensus size: 51
9466706 ATTATTATTA
* *
9466716 ATTTATATTATTTGTTATTAATGTTATTAATATTCATTTATATTTTTATATTTT
1 ATTTATTTTATTTGTTA-T-ATTTTA-TAATATTCATTTATATTTTTATATTTT
* * *
9466770 -TATATTATTATATT-TTAAAATTTATAAT-TT-ATTTAT-TTTGTTATATTTT
1 ATTTATT-TTAT-TTGTTATATTTTATAATATTCATTTATATTT-TTATATTTT
9466819 ATTTATTTTATTTGTTATATTTTAT
1 ATTTATTTTATTTGTTATATTTTAT
9466844 TTATTTTAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
48 5 0.08
49 28 0.46
50 7 0.11
51 4 0.07
52 4 0.07
53 4 0.07
54 7 0.11
55 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (51 bp):
ATTTATTTTATTTGTTATATTTTATAATATTCATTTATATTTTTATATTTT
Found at i:9466880 original size:12 final size:13
Alignment explanation
Indices: 9466840--9466899 Score: 61
Period size: 13 Copynumber: 4.7 Consensus size: 13
9466830 TTGTTATATT
*
9466840 TTATT-TATTTTA
1 TTATTATATCTTA
*
9466852 ATATTATATCTTA
1 TTATTATATCTTA
9466865 TTATTATATC-TA
1 TTATTATATCTTA
*
9466877 TTATTATATATTA
1 TTATTATATCTTA
*
9466890 GTATTTATAT
1 TTA-TTATAT
9466900 ATTTAGTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
12 15 0.38
13 19 0.47
14 6 0.15
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (13 bp):
TTATTATATCTTA
Found at i:9466907 original size:15 final size:14
Alignment explanation
Indices: 9466880--9466914 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
9466870 ATATCTATTA
9466880 TTATATATTAGTAT
1 TTATATATTAGTAT
9466894 TTATATATTTAGTAT
1 TTATATA-TTAGTAT
9466909 TTATAT
1 TTATAT
9466915 CCTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (14 bp):
TTATATATTAGTAT
Found at i:9470752 original size:38 final size:39
Alignment explanation
Indices: 9470673--9470767 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 39
9470663 GGGCTTGGAA
*
9470673 GATCTGGTTGGATATTTTGGACTTAAAAGGGAATTAGAG
1 GATCTGGTTGGATATTTTAGACTTAAAAGGGAATTAGAG
* *
9470712 GATCTGGTTGGAT-TTTTAGACTTGAAAGGGAGTT-GAAG
1 GATCTGGTTGGATATTTTAGACTTAAAAGGGAATTAG-AG
**
9470750 GATCTAATTGGATATTTT
1 GATCTGGTTGGATATTTT
9470768 GGATGTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
37 1 0.02
38 31 0.63
39 17 0.35
ACGTcount: A:0.28, C:0.05, G:0.29, T:0.37
Consensus pattern (39 bp):
GATCTGGTTGGATATTTTAGACTTAAAAGGGAATTAGAG
Found at i:9473021 original size:6 final size:6
Alignment explanation
Indices: 9473010--9473075 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
9473000 TTTTTTTTCT
*
9473010 ATTTTA ATTTTA ATTTTA A-TTT- ATTTTA TATTTTA AGTTTTTT ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA -ATTTTA A--TTTTA ATTTTA
* * *
9473059 TTTTTA TTTTTA GTTTT
1 ATTTTA ATTTTA ATTTT
9473076 TTTATTCATT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
4 1 0.02
5 6 0.12
6 33 0.65
7 6 0.12
8 5 0.10
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (6 bp):
ATTTTA
Found at i:9473032 original size:17 final size:17
Alignment explanation
Indices: 9473016--9473054 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
9473006 TTCTATTTTA
9473016 ATTTTA-ATTTTAATTT
1 ATTTTATATTTTAATTT
*
9473032 ATTTTATATTTTAAGTT
1 ATTTTATATTTTAATTT
9473049 -TTTTAT
1 ATTTTAT
9473055 TTTATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTTTATATTTTAATTT
Found at i:9473037 original size:5 final size:5
Alignment explanation
Indices: 9472999--9473094 Score: 54
Period size: 6 Copynumber: 18.4 Consensus size: 5
9472989 CCGATCACAA
* * **
9472999 ATTTT TTTTCT ATTTT AATTTT AATTTT AATTT ATTTTAT ATTTT AAGTT
1 ATTTT ATTT-T ATTTT -ATTTT -ATTTT ATTTT A-TTT-T ATTTT ATTTT
* *
9473049 -TTTT ATTTT ATTTTT ATTTTT AGTTT -TTTT A-TTC ATTTT ATTTT AT
1 ATTTT ATTTT A-TTTT A-TTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
9473095 CATTTATTTA
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
4 8 0.11
5 30 0.42
6 31 0.44
7 2 0.03
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:9473081 original size:26 final size:26
Alignment explanation
Indices: 9473000--9473077 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 26
9472990 CGATCACAAA
*
9473000 TTTTTT-TTCTATTTTA-ATTTTAA-
1 TTTTTTATTTTATTTTATATTTTAAG
*
9473023 --TTTTAATTTATTTTATATTTTAAG
1 TTTTTTATTTTATTTTATATTTTAAG
*
9473047 TTTTTTATTTTATTTT-TATTTTTAG
1 TTTTTTATTTTATTTTATATTTTAAG
9473072 TTTTTT
1 TTTTTT
9473078 TATTCATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 4 0.09
22 8 0.17
23 7 0.15
25 14 0.30
26 13 0.28
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.76
Consensus pattern (26 bp):
TTTTTTATTTTATTTTATATTTTAAG
Found at i:9473610 original size:13 final size:13
Alignment explanation
Indices: 9473592--9473634 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
9473582 GTAAGAAAAT
9473592 TATCTAAAATTAC
1 TATCTAAAATTAC
* *
9473605 TATCTAGAAA-AAT
1 TATCTA-AAATTAC
9473618 TATCTAAAATTAC
1 TATCTAAAATTAC
9473631 TATC
1 TATC
9473635 AAACTATTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 3 0.12
13 18 0.75
14 3 0.12
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (13 bp):
TATCTAAAATTAC
Found at i:9478981 original size:18 final size:18
Alignment explanation
Indices: 9478958--9478993 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
9478948 ACTAAGATTG
9478958 CAAAAG-CAAAAGTAAAAA
1 CAAAAGTCAAAAG-AAAAA
9478976 CAAAAGTCAAAAGAAAAA
1 CAAAAGTCAAAAGAAAAA
9478994 ATAACTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.06
Consensus pattern (18 bp):
CAAAAGTCAAAAGAAAAA
Found at i:9479479 original size:28 final size:28
Alignment explanation
Indices: 9479425--9479479 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
9479415 TGTGGGATTG
* *
9479425 GGGGTGGGGTGCGTTGGGGGTAGGGTGA
1 GGGGTGGGGTGCATTGGGGGCAGGGTGA
* *
9479453 GGGGTGGGGTGCATTGGTGGCATGGTG
1 GGGGTGGGGTGCATTGGGGGCAGGGTG
9479480 GGGAATGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.07, C:0.05, G:0.64, T:0.24
Consensus pattern (28 bp):
GGGGTGGGGTGCATTGGGGGCAGGGTGA
Found at i:9481386 original size:22 final size:22
Alignment explanation
Indices: 9481353--9481396 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9481343 ATTTTATATC
*
9481353 CTTAATTCTAGATATACAAATA
1 CTTAATTCTAGAAATACAAATA
9481375 CTTAATAT-TAGAAATACAAATA
1 CTTAAT-TCTAGAAATACAAATA
9481397 TAAATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAAATACAAATA
Found at i:9482806 original size:26 final size:26
Alignment explanation
Indices: 9482777--9482841 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 26
9482767 TAATAAAATT
9482777 ATTTTAATAATTAAATTATCACGATC
1 ATTTTAATAATTAAATTATCACGATC
9482803 ATTTTTTGTTAATAATTAAATTATCACGATC
1 A----TT-TTAATAATTAAATTATCACGATC
9482834 ATCTTTAA
1 AT-TTTAA
9482842 AATATATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
26 1 0.03
27 5 0.15
28 1 0.03
30 2 0.06
31 24 0.73
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (26 bp):
ATTTTAATAATTAAATTATCACGATC
Found at i:9488360 original size:27 final size:27
Alignment explanation
Indices: 9488268--9488353 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 27
9488258 AATTTTCTAA
*
9488268 AAAAAAT-TAAAATATTTAAAAACATT-T
1 AAAAAATATAAAATATTT-TAAA-ATTAT
* *
9488295 -AAAAATGTGAAATATTTTAAAATTAT
1 AAAAAATATAAAATATTTTAAAATTAT
9488321 AAAAAATATAAAATATTTTTAGAAATTAT
1 AAAAAATATAAAATA-TTTTA-AAATTAT
9488350 AAAA
1 AAAA
9488354 CTTAAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
25 3 0.06
26 10 0.20
27 21 0.42
28 5 0.10
29 11 0.22
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (27 bp):
AAAAAATATAAAATATTTTAAAATTAT
Found at i:9488362 original size:29 final size:27
Alignment explanation
Indices: 9488304--9488362 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
9488294 TAAAAATGTG
*
9488304 AAATATTTTAAAATTATAAAAAATATA
1 AAATATTTTAAAATTATAAAAAATAAA
**
9488331 AAATATTTTTAGAAATTATAAAACTTAAA
1 AAATA-TTTTA-AAATTATAAAAAATAAA
9488360 AAA
1 AAA
9488363 AATGGAAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 5 0.19
29 17 0.63
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
AAATATTTTAAAATTATAAAAAATAAA
Found at i:9488675 original size:24 final size:25
Alignment explanation
Indices: 9488626--9488675 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
9488616 TCTTAAAAAT
**
9488626 AATATAAAAATAAAAATTTTTGAAA
1 AATATAAAAATAAAAATACTTGAAA
9488651 AATA-AAAAATAAAAATAACTT-AAA
1 AATATAAAAATAAAAAT-ACTTGAAA
9488675 A
1 A
9488676 TTTTAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (25 bp):
AATATAAAAATAAAAATACTTGAAA
Found at i:9488827 original size:20 final size:20
Alignment explanation
Indices: 9488783--9488840 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
9488773 ATAATTTATA
9488783 AAAAAATTTATA-ATTTTTTTC
1 AAAAAATTT-TAGA-TTTTTTC
9488804 --AAAATTTTAGATTTTTTC
1 AAAAAATTTTAGATTTTTTC
9488822 AAAAAATTTTAGATTTTTT
1 AAAAAATTTTAGATTTTTT
9488841 TAAGTTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 9 0.26
19 8 0.24
20 17 0.50
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
AAAAAATTTTAGATTTTTTC
Found at i:9488951 original size:19 final size:19
Alignment explanation
Indices: 9488931--9488976 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
9488921 GATTTTTGGA
9488931 TTTTATTAAAATTTTAAGAT
1 TTTTA-TAAAATTTTAAGAT
* *
9488951 TTTTATAAATTTTTAA-TT
1 TTTTATAAAATTTTAAGAT
9488969 TTTTATAA
1 TTTTATAA
9488977 TTTTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.38
19 10 0.42
20 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTATAAAATTTTAAGAT
Found at i:9488971 original size:8 final size:9
Alignment explanation
Indices: 9488949--9489007 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
9488939 AAATTTTAAG
9488949 ATTTTTATAA
1 ATTTTTAT-A
9488959 ATTTTTA-A
1 ATTTTTATA
*
9488967 TTTTTTATA
1 ATTTTTATA
9488976 ATTTTT-TA
1 ATTTTTATA
*
9488984 A-TTATATAA
1 ATTTTTAT-A
*
9488993 ATATTTATA
1 ATTTTTATA
9489002 ATTTTT
1 ATTTTT
9489008 TTAAATATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
7 3 0.08
8 11 0.28
9 14 0.36
10 11 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:9489027 original size:28 final size:26
Alignment explanation
Indices: 9488969--9489042 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 26
9488959 ATTTTTAATT
*
9488969 TTTTATAA-TTTTTTAATTATATAAA
1 TTTTATAATTTTTTTAAATATATAAA
*
9488994 TATTTATAATTTTTTTAAATATGTCAAAA
1 T-TTTATAATTTTTTTAAATATAT--AAA
* *
9489023 TTTTAACAATTTTTTAAAAT
1 TTTT-ATAATTTTTTTAAAT
9489043 TTTTGAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.03
26 7 0.17
27 12 0.30
28 3 0.08
29 17 0.43
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (26 bp):
TTTTATAATTTTTTTAAATATATAAA
Found at i:9489053 original size:20 final size:20
Alignment explanation
Indices: 9489030--9489096 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
9489020 AAATTTTAAC
*
9489030 AATTTTTTAAAATTTTTGAA
1 AATTTTTTAGAATTTTTGAA
* **
9489050 AATTTTTTTTGAATTTTTGTG
1 AA-TTTTTTAGAATTTTTGAA
* *
9489071 ATTTTTTTAGAATTTTTTAA
1 AATTTTTTAGAATTTTTGAA
9489091 AATTTT
1 AATTTT
9489097 CTTTTAATAT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (20 bp):
AATTTTTTAGAATTTTTGAA
Found at i:9489058 original size:21 final size:21
Alignment explanation
Indices: 9489032--9489096 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
9489022 ATTTTAACAA
*
9489032 TTTTTTAAAATTTTTGAAAAT
1 TTTTTTAGAATTTTTGAAAAT
* **
9489053 TTTTTTTGAATTTTTG-TGAT
1 TTTTTTAGAATTTTTGAAAAT
*
9489073 TTTTTTAGAATTTTTTAAAAT
1 TTTTTTAGAATTTTTGAAAAT
9489094 TTT
1 TTT
9489097 CTTTTAATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.65
Consensus pattern (21 bp):
TTTTTTAGAATTTTTGAAAAT
Found at i:9489089 original size:10 final size:10
Alignment explanation
Indices: 9489023--9489096 Score: 60
Period size: 10 Copynumber: 7.2 Consensus size: 10
9489013 TATGTCAAAA
9489023 TTTTAACAATT
1 TTTTAA-AATT
9489034 TTTTAAAATT
1 TTTTAAAATT
*
9489044 TTTGAAAATTT
1 TTTTAAAA-TT
**
9489055 TTTTTGAATT
1 TTTTAAAATT
* *
9489065 TTTGT-GATTT
1 TTT-TAAAATT
*
9489075 TTTTAGAATT
1 TTTTAAAATT
9489085 TTTTAAAATT
1 TTTTAAAATT
9489095 TT
1 TT
9489097 CTTTTAATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
9 1 0.02
10 38 0.72
11 14 0.26
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:9489096 original size:19 final size:19
Alignment explanation
Indices: 9488930--9489096 Score: 53
Period size: 18 Copynumber: 8.8 Consensus size: 19
9488920 AGATTTTTGG
*
9488930 ATTTTATTAAAATTTTAAG-
1 ATTTT-TTAAAATTTTTAGA
9488949 A-TTTTTATAAATTTTT--A
1 ATTTTTTA-AAATTTTTAGA
* *
9488966 ATTTTTTATAATTTTT-TA
1 ATTTTTTAAAATTTTTAGA
* * * *
9488984 ATTATAT-AAATATTTATA
1 ATTTTTTAAAATTTTTAGA
* * *
9489002 ATTTTTTTAAATATGTCA-A
1 ATTTTTTAAAAT-TTTTAGA
* *
9489021 A-ATTTTAACAATTTTTTAAA
1 ATTTTTTAA-AA-TTTTTAGA
* *
9489041 ATTTTTGAAAATTTTTTTTGA
1 ATTTTTTAAAA--TTTTTAGA
* **
9489062 ATTTTTGTGATTTTTTTAGA
1 ATTTTT-TAAAATTTTTAGA
9489082 ATTTTTTAAAATTTT
1 ATTTTTTAAAATTTT
9489097 CTTTTAATAT
Statistics
Matches: 108, Mismatches: 27, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
17 17 0.16
18 34 0.31
19 18 0.17
20 20 0.19
21 18 0.17
22 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (19 bp):
ATTTTTTAAAATTTTTAGA
Found at i:9491897 original size:18 final size:17
Alignment explanation
Indices: 9491852--9491898 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
9491842 ACAAAGGTTC
9491852 TAGATTTGCAAGGATTT
1 TAGATTTGCAAGGATTT
*
9491869 TA-AGTTCGCAAGGACTTT
1 TAGA-TTTGCAAGGA-TTT
9491887 TAGATTTGCAAG
1 TAGATTTGCAAG
9491899 AAAAAAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 11 0.44
18 12 0.48
19 1 0.04
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (17 bp):
TAGATTTGCAAGGATTT
Found at i:9491954 original size:86 final size:86
Alignment explanation
Indices: 9491733--9491956 Score: 281
Period size: 86 Copynumber: 2.6 Consensus size: 86
9491723 TAAGAATGGG
* * * * *
9491733 AGATTCGCAAGATTCCAAATTTCACAAAGGTTCTAGATTTGCAAAGATCTCAGGTTTGCAAGGAC
1 AGATTCGCAAGATTCCAAGTTTCACAAAGGTTCTAGATTTGCAAAGATTTTAAGTTCGCAAGGAC
9491798 TTTCAGATTCACAGAAAAGAA
66 TTTCAGATTCACAGAAAAGAA
* *
9491819 AGATTCACAAGATTCCAAGTTTCACAAAGGTTCTAGATTTGCAAGGATTTTAAGTTCGCAAGGAC
1 AGATTCGCAAGATTCCAAGTTTCACAAAGGTTCTAGATTTGCAAAGATTTTAAGTTCGCAAGGAC
*
9491884 TTTTAGATTTGCA-AGAAAA-AA
66 TTTCAGA-TT-CACAGAAAAGAA
* ** * * **
9491905 AGATTTGCAAGATTCCAAGTTTTGCAAGGGTTCTAAATTCACAAAGATTTTA
1 AGATTCGCAAGATTCCAAGTTTCACAAAGGTTCTAGATTTGCAAAGATTTTA
9491957 GGTTTACAAG
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
86 109 0.92
87 8 0.07
88 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (86 bp):
AGATTCGCAAGATTCCAAGTTTCACAAAGGTTCTAGATTTGCAAAGATTTTAAGTTCGCAAGGAC
TTTCAGATTCACAGAAAAGAA
Found at i:9491975 original size:68 final size:68
Alignment explanation
Indices: 9491856--9491998 Score: 180
Period size: 68 Copynumber: 2.1 Consensus size: 68
9491846 AGGTTCTAGA
* * * * * *
9491856 TTTGCAAGGATTTTAAGTTCGCAAGGACTTTTAGATTTGCAAGAAAAAAAGATTTGCAAGATTCC
1 TTTGCAAGGATTCTAAATTCACAAAGACTTTTAGATTTACAAGAAAAAAAGATTCGCAAGATT-C
9491921 AAGT
65 AAGT
* * * *
9491925 TTTGCAAGGGTTCTAAATTCACAAAGA-TTTTAGGTTTACAAGAAAGAAAGATTCGTAAGATTCA
1 TTTGCAAGGATTCTAAATTCACAAAGACTTTTAGATTTACAAGAAAAAAAGATTCGCAAGATTCA
9491989 AGT
66 AGT
9491992 TTTGCAA
1 TTTGCAA
9491999 AGGTCAAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 12 0.19
68 30 0.47
69 22 0.34
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (68 bp):
TTTGCAAGGATTCTAAATTCACAAAGACTTTTAGATTTACAAGAAAAAAAGATTCGCAAGATTCA
AGT
Found at i:9493505 original size:20 final size:20
Alignment explanation
Indices: 9493480--9493523 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9493470 ATTCTCTTCA
9493480 TTTTC-TTTGTTTTCCCTTTT
1 TTTTCTTTTGTTTT-CCTTTT
*
9493500 TTTTCTTTTGTTTTTCTTTT
1 TTTTCTTTTGTTTTCCTTTT
9493520 TTTT
1 TTTT
9493524 GGGTCCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.82
Consensus pattern (20 bp):
TTTTCTTTTGTTTTCCTTTT
Found at i:9493514 original size:11 final size:10
Alignment explanation
Indices: 9493480--9493523 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
9493470 ATTCTCTTCA
*
9493480 TTTTCTTTGT
1 TTTTCTTTTT
* *
9493490 TTTCCCTTTT
1 TTTTCTTTTT
9493500 TTTTCTTTTGT
1 TTTTCTTTT-T
9493511 TTTTCTTTTT
1 TTTTCTTTTT
9493521 TTT
1 TTT
9493524 GGGTCCATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.82
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:9499260 original size:10 final size:10
Alignment explanation
Indices: 9499245--9499277 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
9499235 ACATAGTTGA
9499245 TATTATCAAC
1 TATTATCAAC
9499255 TATTATCAAC
1 TATTATCAAC
9499265 TATTATCAAC
1 TATTATCAAC
9499275 TAT
1 TAT
9499278 GTTTTCTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (10 bp):
TATTATCAAC
Found at i:9499905 original size:17 final size:18
Alignment explanation
Indices: 9499883--9499922 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9499873 TAATCTTTAC
9499883 TTATTA-AAACATAATGT
1 TTATTATAAACATAATGT
* *
9499900 TTATTATAAATATAGTGT
1 TTATTATAAACATAATGT
9499918 TTATT
1 TTATT
9499923 TTCTTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (18 bp):
TTATTATAAACATAATGT
Found at i:9501841 original size:21 final size:20
Alignment explanation
Indices: 9501821--9501859 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9501811 ATTAACATTA
*
9501821 AAAATAATAAATTTTATATT
1 AAAATAATAAAATTTATATT
**
9501841 AATTTAATAAAATTTATAT
1 AAAATAATAAAATTTATAT
9501860 ATAGAATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAATAATAAAATTTATATT
Found at i:9502417 original size:2 final size:2
Alignment explanation
Indices: 9502410--9502440 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9502400 AGTGCCAATT
9502410 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9502441 AAGATCGCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9510300 original size:21 final size:21
Alignment explanation
Indices: 9510259--9510309 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
9510249 TTTTAATTAT
*
9510259 TTAAAAAATAAATTATTTATA-
1 TTAAATAA-AAATTATTTATAG
*
9510280 TTATATAAAAATTATTTTATAG
1 TTAAATAAAAATTA-TTTATAG
9510302 TTAAATAA
1 TTAAATAA
9510310 TACATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 12 0.48
22 7 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAATAAAAATTATTTATAG
Found at i:9514322 original size:15 final size:16
Alignment explanation
Indices: 9514297--9514327 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9514287 ATATTAAATC
9514297 ATTTATTATATTTTTT
1 ATTTATTATATTTTTT
9514313 ATTT-TTATATTTTTT
1 ATTTATTATATTTTTT
9514328 TAATTTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTATTATATTTTTT
Found at i:9514343 original size:17 final size:16
Alignment explanation
Indices: 9514306--9514345 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
9514296 CATTTATTAT
*
9514306 ATTTTTTATTTTTATA
1 ATTTTTTATTTTTAGA
*
9514322 TTTTTTTAATTTTTAGA
1 ATTTTTT-ATTTTTAGA
9514339 ATTTTTT
1 ATTTTTT
9514346 CTACTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (16 bp):
ATTTTTTATTTTTAGA
Found at i:9537400 original size:15 final size:15
Alignment explanation
Indices: 9537368--9537413 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
9537358 CTAAATTATC
*
9537368 AAAAAATTCACTTT-
1 AAAAAATTCATTTTA
9537382 -AAAAATTCATTTTA
1 AAAAAATTCATTTTA
*
9537396 AAAAAATTAATTTTA
1 AAAAAATTCATTTTA
9537411 AAA
1 AAA
9537414 GATAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.43
15 16 0.57
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAAATTCATTTTA
Found at i:9537413 original size:13 final size:13
Alignment explanation
Indices: 9537369--9537413 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
9537359 TAAATTATCA
*
9537369 AAAAATTCACTTT
1 AAAAATTCATTTT
9537382 AAAAATTCATTTT
1 AAAAATTCATTTT
*
9537395 AAAAAAATTAATTTT
1 --AAAAATTCATTTT
9537410 AAAA
1 AAAA
9537414 GATAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 16 0.57
15 12 0.43
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAATTCATTTT
Found at i:9539829 original size:17 final size:16
Alignment explanation
Indices: 9539809--9539840 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
9539799 TAATTTAAAT
9539809 ATATATTATGTTAATAA
1 ATATATTAT-TTAATAA
9539826 ATATATTATTTAATA
1 ATATATTATTTAATA
9539841 TTTTAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
ATATATTATTTAATAA
Found at i:9539841 original size:29 final size:29
Alignment explanation
Indices: 9539809--9539872 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
9539799 TAATTTAAAT
*
9539809 ATATATT-ATGTTAATAAATATATTAT-TTA
1 ATATATTAAT-TTAATAAA-AAATTATATTA
* *
9539838 ATATTTTAATTTAATAAAAAATTATATTT
1 ATATATTAATTTAATAAAAAATTATATTA
9539867 ATATAT
1 ATATAT
9539873 AACTAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.21
29 21 0.72
30 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
ATATATTAATTTAATAAAAAATTATATTA
Found at i:9539918 original size:22 final size:22
Alignment explanation
Indices: 9539890--9539931 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9539880 TTATATTTTA
*
9539890 TATTAAAAATACACTTATATAT
1 TATTAAAAATACACATATATAT
9539912 TATTAAAAATACACATATAT
1 TATTAAAAATACACATATAT
9539932 TTCTTTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTAAAAATACACATATATAT
Found at i:9544525 original size:32 final size:32
Alignment explanation
Indices: 9544465--9544525 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
9544455 TATTTCTACC
* *
9544465 TTTTTATATTATTGTTATTATTATTAATATAT
1 TTTTTATATTATTGTTATTATAAATAATATAT
*
9544497 TTTTTGATTTTATT-TTATTATAAATAATA
1 TTTTT-ATATTATTGTTATTATAAATAATA
9544526 AATCATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 18 0.72
33 7 0.28
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (32 bp):
TTTTTATATTATTGTTATTATAAATAATATAT
Found at i:9544636 original size:56 final size:57
Alignment explanation
Indices: 9544523--9544638 Score: 146
Period size: 56 Copynumber: 2.1 Consensus size: 57
9544513 ATTATAAATA
* * **
9544523 ATAAATCATAAAAATTCAAAATCAATAAAAAAACACAACTAATTACAAATTCACATC
1 ATAAATCATAAAAACTCAAAATCAATAAAAAAACACAACCAATTACAAACCCACATC
* * *
9544580 ATAAATGATAAAAACTCAAAACTC-AT-AAAAAACATATCCAATTACAAACCCACATC
1 ATAAATCATAAAAACTCAAAA-TCAATAAAAAAACACAACCAATTACAAACCCACATC
9544636 ATA
1 ATA
9544639 CAAACACCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 28 0.55
57 21 0.41
58 2 0.04
ACGTcount: A:0.58, C:0.20, G:0.01, T:0.22
Consensus pattern (57 bp):
ATAAATCATAAAAACTCAAAATCAATAAAAAAACACAACCAATTACAAACCCACATC
Found at i:9544842 original size:16 final size:15
Alignment explanation
Indices: 9544807--9544858 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
9544797 TATGTATGTA
* * *
9544807 AATAAAGAATAAACC
1 AATAAATAAAAAATC
9544822 AATAAATAAGAAAATC
1 AATAAATAA-AAAATC
* *
9544838 AATAAATGAAAAATA
1 AATAAATAAAAAATC
9544853 AATAAA
1 AATAAA
9544859 ACAACAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 19 0.61
16 12 0.39
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (15 bp):
AATAAATAAAAAATC
Found at i:9556198 original size:23 final size:23
Alignment explanation
Indices: 9556167--9556212 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9556157 TCAGTCCATC
* *
9556167 AAATAATTTGGATTGATTTTTGA
1 AAATAATTTGGAATGAATTTTGA
* *
9556190 AAATGATTTTGAATGAATTTTGA
1 AAATAATTTGGAATGAATTTTGA
9556213 TTTTAAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (23 bp):
AAATAATTTGGAATGAATTTTGA
Found at i:9556558 original size:23 final size:22
Alignment explanation
Indices: 9556532--9556583 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
9556522 ATTCGATTGA
9556532 TATATAAAAATAAATTTAATTTT
1 TATATAAAAA-AAATTTAATTTT
* *
9556555 TATATTTAATAAAATTTTAATTTT
1 TATA--TAAAAAAAATTTAATTTT
9556579 TATAT
1 TATAT
9556584 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.04
23 4 0.16
24 15 0.60
25 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATATAAAAAAAATTTAATTTT
Found at i:9556715 original size:32 final size:31
Alignment explanation
Indices: 9556665--9556724 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
9556655 AAATTATTCA
* *
9556665 AATCGAATATAACATTATTTAAATTTAATTT
1 AATCGAAAATAAAATTATTTAAATTTAATTT
9556696 AATCGATAAATAAAATTATTTAAATTTAA
1 AATCGA-AAATAAAATTATTTAAATTTAA
9556725 ACTTCGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (31 bp):
AATCGAAAATAAAATTATTTAAATTTAATTT
Found at i:9557397 original size:15 final size:15
Alignment explanation
Indices: 9557368--9557435 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
9557358 TCAGTTAAAT
9557368 TTTAAAATTAA-TAA
1 TTTAAAATTAATTAA
*
9557382 TTTAAATTTAATTAA
1 TTTAAAATTAATTAA
9557397 TAAATATAAAATTAATTAA
1 T---T-TAAAATTAATTAA
** *
9557416 TTTAATTTTAAATAA
1 TTTAAAATTAATTAA
9557431 TTTAA
1 TTTAA
9557436 TTCAAAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
14 10 0.23
15 19 0.43
16 1 0.02
18 1 0.02
19 13 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAAATTAATTAA
Found at i:9557411 original size:19 final size:18
Alignment explanation
Indices: 9557373--9557416 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
9557363 TAAATTTTAA
* *
9557373 AATTAATAATTTAAATTT
1 AATTAATAATATAAAATT
9557391 AATTAATAAATATAAAATT
1 AATTAAT-AATATAAAATT
9557410 AATTAAT
1 AATTAAT
9557417 TTAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTAATAATATAAAATT
Found at i:9563339 original size:29 final size:29
Alignment explanation
Indices: 9563279--9563349 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
9563269 TTTTTTTATT
* *
9563279 TTTAATTATTTTTTATTATAAAAATTAGA
1 TTTAATTATTTATTATTATAAAAATTAAA
9563308 TTTAATTA-TTATTA-TATAAAATATTAAAA
1 TTTAATTATTTATTATTATAAAA-ATT-AAA
9563337 TTT-ATATATTTAT
1 TTTAAT-TATTTAT
9563350 ATTTTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 7 0.19
28 10 0.28
29 15 0.42
30 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (29 bp):
TTTAATTATTTATTATTATAAAAATTAAA
Found at i:9563395 original size:31 final size:32
Alignment explanation
Indices: 9563327--9563400 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 32
9563317 TATTATATAA
* *
9563327 AATATTAAAATTTATATATTTATATTTTATTTT
1 AATA-TAAAAATTATATATTTATAATTTATTTT
*
9563360 -ATATAAAAATTATGTA-TTATAATTTATTTT
1 AATATAAAAATTATATATTTATAATTTATTTT
9563390 AATATAAAAAT
1 AATATAAAAAT
9563401 ATAAAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 13 0.35
31 21 0.57
32 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (32 bp):
AATATAAAAATTATATATTTATAATTTATTTT
Found at i:9563406 original size:70 final size:61
Alignment explanation
Indices: 9563289--9563452 Score: 158
Period size: 70 Copynumber: 2.6 Consensus size: 61
9563279 TTTAATTATT
9563289 TTTTATTATAAAAATTAGATTTAATTATTATTATATAAAATATTAAAATTTATATATTTATATTT
1 TTTTA-TATAAAAATTAGATTTAATTATTATTATATAAAATATTAAAA--TATA-ATTT-T-TTT
9563354 TA
60 TA
9563356 TTTTATATAAAAATTATGTATTATAATTTATT-TTAATATAAAA-ATATAAAATATAATTTTTTT
1 TTTTATATAAAAATTA-G-ATT-TAA-TTATTATT-ATATAAAATAT-TAAAATATAATTTTTTT
9563419 TA
60 TA
* *
9563421 TTTTAT-T-AAATTTA-TTTATAATTATTATTATA
1 TTTTATATAAAAATTAGATT-TAATTATTATTATA
9563453 ATTTTAAATT
Statistics
Matches: 88, Mismatches: 2, Indels: 22
0.79 0.02 0.20
Matches are distributed among these distances:
59 8 0.09
60 8 0.09
63 6 0.07
64 1 0.01
65 11 0.12
66 12 0.14
67 10 0.11
68 7 0.08
69 7 0.08
70 18 0.20
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (61 bp):
TTTTATATAAAAATTAGATTTAATTATTATTATATAAAATATTAAAATATAATTTTTTTTA
Found at i:9563411 original size:30 final size:31
Alignment explanation
Indices: 9563347--9563420 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 31
9563337 TTTATATATT
* ** *
9563347 TATATTTTATTTT-ATATAAAAATTATGTAT
1 TATAATTTATTTTAATATAAAAATTATAAAA
9563377 TATAATTTATTTTAATATAAAAA-TATAAAA
1 TATAATTTATTTTAATATAAAAATTATAAAA
*
9563407 TATAATTTTTTTTA
1 TATAATTTATTTTA
9563421 TTTTATTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 29 0.76
31 9 0.24
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (31 bp):
TATAATTTATTTTAATATAAAAATTATAAAA
Found at i:9564843 original size:17 final size:18
Alignment explanation
Indices: 9564813--9564857 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
9564803 ATAAATAAAT
*
9564813 AAAATAAGAACAATTAC-A
1 AAAATAA-AACAATAACAA
*
9564831 GAAATAAAACAATAACAA
1 AAAATAAAACAATAACAA
9564849 AAAATAAAA
1 AAAATAAAA
9564858 TAAAATTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.73, C:0.09, G:0.04, T:0.13
Consensus pattern (18 bp):
AAAATAAAACAATAACAA
Found at i:9565006 original size:67 final size:67
Alignment explanation
Indices: 9564935--9565071 Score: 238
Period size: 67 Copynumber: 2.0 Consensus size: 67
9564925 CTTAAATAAC
*
9564935 TAAAATTTGAATTAATCTCGATTAAATTGAGCTTTGACTCAAATAAAATTAGATTTGATAATTAA
1 TAAAATTTGAATTAATCTCGATTAAATTGAGCTTTGACCCAAATAAAATTAGATTTGATAATTAA
9565000 AT
66 AT
* *
9565002 TAAAATTTGAATTAATCTCGATTAAATTGAGCTTTGACCCAAATAGAATTGGATTTGATAATTAA
1 TAAAATTTGAATTAATCTCGATTAAATTGAGCTTTGACCCAAATAAAATTAGATTTGATAATTAA
*
9565067 TT
66 AT
9565069 TAA
1 TAA
9565072 GATAAGCTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.39
Consensus pattern (67 bp):
TAAAATTTGAATTAATCTCGATTAAATTGAGCTTTGACCCAAATAAAATTAGATTTGATAATTAA
AT
Found at i:9580646 original size:124 final size:123
Alignment explanation
Indices: 9580422--9580661 Score: 281
Period size: 124 Copynumber: 1.9 Consensus size: 123
9580412 CTCTATTTTA
*
9580422 CAATAGAAGACACATTTAATAATCTCAATAAATTTTAGAAGAAAATTATTGAAGGCGTTTATTAT
1 CAATAGAAGACACATTTAATAATCTCAATAAATTTTAGAAGAAAATTATTGAAGGCATTTATTAT
* * * * *
9580487 CAAGAAATGCCTTCAATATTTATAAAGATAATTTAAAATGAATTATTGAAGGCGTTTGT
66 CAACAAACGCCTTCAATAATTATAAAGATAATTTAAAA-AAATTATTAAAGGCGTTTGT
* * *
9580546 CAATAGAAGACACCTTTAATAAT-TCTAA-AATTTTTTAGAGGAAAATTATTGAAGGCATTTATT
1 CAATAGAAGACACATTTAATAATCTC-AATAA-ATTTTAGAAGAAAATTATTGAAGGCATTTATT
* * ** *
9580609 AAT-AACAAACGTCTTCAGTAATTATGTA-CTAAGTTTAAAAAAATTATTAAAGG
64 -ATCAACAAACGCCTTCAATAATTATAAAGATAA-TTTAAAAAAATTATTAAAGG
9580662 TATTTTTTAG
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
123 18 0.18
124 78 0.80
125 2 0.02
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (123 bp):
CAATAGAAGACACATTTAATAATCTCAATAAATTTTAGAAGAAAATTATTGAAGGCATTTATTAT
CAACAAACGCCTTCAATAATTATAAAGATAATTTAAAAAAATTATTAAAGGCGTTTGT
Done.