Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 73 of 79
Found at i:24233166 original size:23 final size:24
Alignment explanation
Indices: 24233140--24233206 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 24
24233130 TGTAGTATAA
*
24233140 TATAAT-T-ATTATTTTTATTTATT
1 TATAATGTAATTATTTTT-TTTATC
24233163 TAT-ATGTAATTATTTTTTTTATC
1 TATAATGTAATTATTTTTTTTATC
*
24233186 TAT-ATGT-ATATATTTATTTTA
1 TATAATGTAAT-TATTTTTTTTA
24233207 GTATACATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.10
23 26 0.67
24 9 0.23
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (24 bp):
TATAATGTAATTATTTTTTTTATC
Found at i:24233202 original size:27 final size:27
Alignment explanation
Indices: 24233135--24233205 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
24233125 TTTTTTGTAG
* *
24233135 TATA-ATATAATTATTATTTTTATTTA
1 TATATATATAATTATTTTTTTTATCTA
* *
24233161 TTTATATGTAATTATTTTTTTTATCTA
1 TATATATATAATTATTTTTTTTATCTA
* *
24233188 TATGTATATATTTATTTT
1 TATATATATAATTATTTT
24233206 AGTATACATA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (27 bp):
TATATATATAATTATTTTTTTTATCTA
Found at i:24238456 original size:16 final size:15
Alignment explanation
Indices: 24238435--24238485 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
24238425 TTGAGTTGAA
*
24238435 AAAAAATGACGAAATG
1 AAAAAATGA-AAAATG
24238451 AAAAAATGAAAAAGTG
1 AAAAAATGAAAAA-TG
24238467 -AAAAATGAAAAATG
1 AAAAAATGAAAAATG
24238481 AAAAA
1 AAAAA
24238486 GTAAAATGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 2 0.06
15 19 0.59
16 11 0.34
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.12
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:24238457 original size:8 final size:8
Alignment explanation
Indices: 24238435--24238485 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
24238425 TTGAGTTGAA
24238435 AAAAAATG
1 AAAAAATG
**
24238443 ACGAAATG
1 AAAAAATG
24238451 AAAAAATG
1 AAAAAATG
*
24238459 AAAAAGTG
1 AAAAAATG
24238467 -AAAAATG
1 AAAAAATG
24238474 -AAAAATG
1 AAAAAATG
24238481 AAAAA
1 AAAAA
24238486 GTAAAATGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
7 13 0.36
8 23 0.64
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:24238477 original size:22 final size:22
Alignment explanation
Indices: 24238446--24238491 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
24238436 AAAAATGACG
24238446 AAATGAAAAAATGAAAAAGTGAA
1 AAATGAAAAAATGAAAAAGT-AA
24238469 AAATG-AAAAATGAAAAAGTAA
1 AAATGAAAAAATGAAAAAGTAA
24238490 AA
1 AA
24238492 TGGAGAGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.17
22 14 0.61
23 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (22 bp):
AAATGAAAAAATGAAAAAGTAA
Found at i:24238491 original size:7 final size:7
Alignment explanation
Indices: 24238436--24238485 Score: 64
Period size: 7 Copynumber: 6.7 Consensus size: 7
24238426 TGAGTTGAAA
24238436 AAAAATG
1 AAAAATG
*
24238443 ACGAAATG
1 A-AAAATG
24238451 AAAAAATG
1 -AAAAATG
24238459 AAAAAGTG
1 AAAAA-TG
24238467 AAAAATG
1 AAAAATG
24238474 AAAAATG
1 AAAAATG
24238481 AAAAA
1 AAAAA
24238486 GTAAAATGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
7 20 0.53
8 17 0.45
9 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:24244099 original size:21 final size:21
Alignment explanation
Indices: 24244070--24244147 Score: 129
Period size: 21 Copynumber: 3.7 Consensus size: 21
24244060 ATTTTAGAGG
*
24244070 ATATACAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
24244091 ACATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
24244112 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
24244133 ATATACAATCTTAGA
1 ATATGCAATCTTAGA
24244148 AGATATGATT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:24244840 original size:23 final size:26
Alignment explanation
Indices: 24244805--24244861 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
24244795 TTATTAATTT
*
24244805 ATATGTA-ATTA-TTATTTT-TATCC
1 ATATGTATATTATTTATTTTATATAC
24244828 ATATGTATA-TATTTATTTTAGTATAC
1 ATATGTATATTATTTATTTTA-TATAC
24244854 ATATGTAT
1 ATATGTAT
24244862 GTACACATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 9 0.31
24 8 0.28
26 12 0.41
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.54
Consensus pattern (26 bp):
ATATGTATATTATTTATTTTATATAC
Found at i:24246649 original size:21 final size:20
Alignment explanation
Indices: 24246604--24246649 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
24246594 ACTTTTGGAA
* *
24246604 ATTTTAGAAATTTTATGATT
1 ATTTTAAAAATTTTAAGATT
*
24246624 TTTTTAAAAATTATTAAGATT
1 ATTTTAAAAATT-TTAAGATT
24246645 ATTTT
1 ATTTT
24246650 CCATCTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTTAAAAATTTTAAGATT
Found at i:24248418 original size:28 final size:28
Alignment explanation
Indices: 24248386--24248440 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
24248376 ATGTTAGAAA
*
24248386 AAACAGAGTTGAAAATGGAAAAATGTAC
1 AAACAGAGTTGAAAATAGAAAAATGTAC
24248414 AAACAGAGTTGAAAATAGAAAAATGTA
1 AAACAGAGTTGAAAATAGAAAAATGTA
24248441 TGTATAACGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.56, C:0.05, G:0.20, T:0.18
Consensus pattern (28 bp):
AAACAGAGTTGAAAATAGAAAAATGTAC
Found at i:24254608 original size:234 final size:234
Alignment explanation
Indices: 24254174--24254849 Score: 1167
Period size: 234 Copynumber: 2.9 Consensus size: 234
24254164 TCGATGTAAA
* * * *
24254174 TTTAGTTTGACCATTGGATTTG-GGGAGCTCAATTATAAATAGAGAGCCTCCGCCTCAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
* *
24254238 ATCATTCATTGTTTCTGTATTCTTTAAGAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
66 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
*
24254303 CTCGTGCATAGTTTTTATCGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGT
131 CTCGTGCATAGTTTTTATCGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
24254368 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
196 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
24254407 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
24254472 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
66 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
*
24254537 CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
131 CTCGTGCATAGTTTTTATCGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
24254602 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
196 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
* *
24254641 TTTATTTTGATCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
*
24254706 ATCA-TCTATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTAATCAAACACC
66 ATCATTC-ATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACC
* * * * * *
24254770 TCTCATGCATAGTTTTTTATCGTTATTCTGTTCTTTAAGCATTCTTTTATCTTTGTGTTGCTTTC
130 TCTCGTGCATAG-TTTTTATCGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTC
24254835 GCTATATAAATTGGT
194 GCTATATAAATTGGT
24254850 GCCTTGGAGG
Statistics
Matches: 422, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
233 23 0.05
234 338 0.80
235 61 0.14
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (234 bp):
TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
CTCGTGCATAGTTTTTATCGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
Found at i:24260769 original size:23 final size:22
Alignment explanation
Indices: 24260738--24260785 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
24260728 TCCATGTAAT
24260738 TATAGTAATATCCATAATTAAAA
1 TATAGTAAT-TCCATAATTAAAA
* * *
24260761 TATATTAATTCTATAATTCAAA
1 TATAGTAATTCCATAATTAAAA
24260783 TAT
1 TAT
24260786 TACCACGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.42
Consensus pattern (22 bp):
TATAGTAATTCCATAATTAAAA
Found at i:24277154 original size:33 final size:33
Alignment explanation
Indices: 24277103--24277257 Score: 107
Period size: 33 Copynumber: 4.6 Consensus size: 33
24277093 ACATTCGTAG
* * *
24277103 TGCCATAACCTAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
* *
24277136 TGCCATAGCCCAGCTATGGTCTTA-CATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTATCAT-CAGA-A
* * * * * *
24277170 CTGCCATTGTCCAACCATGGTCTTAT-ATTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTATCA-TCAGAA
* * ** * *
24277204 TGTCATAACCCAATTATGATCTTATCAACAGAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
24277237 TGCCATAGCCCAGCTATGGTC
1 TGCCATAGCCCAGCTATGGTC
24277258 CTACATATAA
Statistics
Matches: 89, Mismatches: 27, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
32 3 0.03
33 60 0.67
34 2 0.02
35 23 0.26
36 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
Found at i:24277283 original size:101 final size:101
Alignment explanation
Indices: 24277091--24277330 Score: 354
Period size: 101 Copynumber: 2.4 Consensus size: 101
24277081 AATTCATCCT
* * * *
24277091 TTACATTCGTAGTGCCATAACCTAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGTCATAACCCAGTTATGGTCTTATCAACAGAATGCCATAGCCCAGCTATGGT
* *
24277156 CTTACATATAAACACTGCCATTGTCCAACCATGGTC
66 CCTACATATAAACACTGCCATGGTCCAACCATGGTC
* * *
24277192 TTATATTCATAGTGTCATAACCCAATTATGATCTTATCAACAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGTCATAACCCAGTTATGGTCTTATCAACAGAATGCCATAGCCCAGCTATGGT
* * *
24277257 CCTACATATAAACAGTGCTATGGTCCAGCCATGGTC
66 CCTACATATAAACACTGCCATGGTCCAACCATGGTC
* *
24277293 TTACGTTCATAGTGTCATAACACAGTTATGGTCTTATC
1 TTACATTCATAGTGTCATAACCCAGTTATGGTCTTATC
24277331 CGTCAATTCA
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (101 bp):
TTACATTCATAGTGTCATAACCCAGTTATGGTCTTATCAACAGAATGCCATAGCCCAGCTATGGT
CCTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:24281892 original size:13 final size:13
Alignment explanation
Indices: 24281857--24281894 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
24281847 GAGATATTTG
24281857 TAATTTGAAAACT
1 TAATTTGAAAACT
*
24281870 TAAGTTTGAAAGCT
1 TAA-TTTGAAAACT
24281884 TAATTTGAAAA
1 TAATTTGAAAA
24281895 TTTGGAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:24281972 original size:22 final size:22
Alignment explanation
Indices: 24281933--24281975 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24281923 AACTTAAAAA
*
24281933 TTTTGAGAAACTTTGAGAAACT
1 TTTTGAGAAAATTTGAGAAACT
24281955 TTTTG-GAAAATTTGGAGAAAC
1 TTTTGAGAAAATTT-GAGAAAC
24281976 AACTCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (22 bp):
TTTTGAGAAAATTTGAGAAACT
Found at i:24282211 original size:34 final size:34
Alignment explanation
Indices: 24282173--24282249 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
24282163 TTTCTTATCT
*
24282173 TTTCTTGCAGGGAATATTTCCTGTTCACGCATCA
1 TTTCTTGCAGGGAATATTTCCTGTTCACACATCA
* *
24282207 TTTCTTGCAGGGAATCTTTCCTGTTCACACATCT
1 TTTCTTGCAGGGAATATTTCCTGTTCACACATCA
24282241 TTTCTTGCA
1 TTTCTTGCA
24282250 TCATTTCTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.42
Consensus pattern (34 bp):
TTTCTTGCAGGGAATATTTCCTGTTCACACATCA
Found at i:24284795 original size:126 final size:126
Alignment explanation
Indices: 24284570--24284821 Score: 504
Period size: 126 Copynumber: 2.0 Consensus size: 126
24284560 TTTAATCCAA
24284570 AAGGCATTACATTCCATTCATGTTGTCCAAATGGTACAATAAATGTTGTTTTATATCTTTCTTCT
1 AAGGCATTACATTCCATTCATGTTGTCCAAATGGTACAATAAATGTTGTTTTATATCTTTCTTCT
24284635 TCTTTTATTTTGATTTGCCAAAATCCAGATTTTCATGTCAAATTTTGAGAAAATATTTGCC
66 TCTTTTATTTTGATTTGCCAAAATCCAGATTTTCATGTCAAATTTTGAGAAAATATTTGCC
24284696 AAGGCATTACATTCCATTCATGTTGTCCAAATGGTACAATAAATGTTGTTTTATATCTTTCTTCT
1 AAGGCATTACATTCCATTCATGTTGTCCAAATGGTACAATAAATGTTGTTTTATATCTTTCTTCT
24284761 TCTTTTATTTTGATTTGCCAAAATCCAGATTTTCATGTCAAATTTTGAGAAAATATTTGCC
66 TCTTTTATTTTGATTTGCCAAAATCCAGATTTTCATGTCAAATTTTGAGAAAATATTTGCC
24284822 TTACAAAGTT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (126 bp):
AAGGCATTACATTCCATTCATGTTGTCCAAATGGTACAATAAATGTTGTTTTATATCTTTCTTCT
TCTTTTATTTTGATTTGCCAAAATCCAGATTTTCATGTCAAATTTTGAGAAAATATTTGCC
Found at i:24295139 original size:21 final size:22
Alignment explanation
Indices: 24295099--24295139 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24295089 ATTAATCATA
*
24295099 AAAAGAAGCAAATCTCTTTTCT
1 AAAAGAAGCAAATATCTTTTCT
*
24295121 AAAAGAAG-AAATATGTTTT
1 AAAAGAAGCAAATATCTTTT
24295140 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (22 bp):
AAAAGAAGCAAATATCTTTTCT
Found at i:24295145 original size:21 final size:22
Alignment explanation
Indices: 24295098--24295145 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
24295088 AATTAATCAT
* *
24295098 AAAAAGAAGCAAATCTCTTTTC
1 AAAAAGAAGCAAATATCTTTTA
* *
24295120 TAAAAGAAG-AAATATGTTTTA
1 AAAAAGAAGCAAATATCTTTTA
24295141 AAAAA
1 AAAAA
24295146 TTAACTGAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.27
Consensus pattern (22 bp):
AAAAAGAAGCAAATATCTTTTA
Found at i:24295201 original size:20 final size:22
Alignment explanation
Indices: 24295171--24295210 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24295161 GGAAAAAGAG
24295171 AAATACAAAAAAG-AATAGATC
1 AAATACAAAAAAGAAATAGATC
24295192 AAAT-CAAAAAAGAAATAGA
1 AAATACAAAAAAGAAATAGA
24295211 ACCAACAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (22 bp):
AAATACAAAAAAGAAATAGATC
Found at i:24302579 original size:44 final size:44
Alignment explanation
Indices: 24302527--24302810 Score: 184
Period size: 44 Copynumber: 6.5 Consensus size: 44
24302517 CACTCTACTG
* *
24302527 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
* * * *
24302571 CAACTTCAGGGAGATAGGAT-TATTGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTATT-ACTTCAATCCGCTCCACTA
* * *** * ** * *
24302615 TAACTTCAGGGAGATAAGATTTGCCATCTTCGATCTACCCCACTG
1 CAACTTCAGGGAGATAAGATCTATTA-CTTCAATCCGCTCCACTA
* * * * * * *
24302660 CAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTCTGCTCCGCTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTCAATCCGCTCCACTA
* * * * * * *
24302704 TAACTTCAGGGAGATAAGA-C-CTGA-TGCAATCCACTCTAATGA
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACT-A
* * *
24302746 -AACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
*
24302789 CAACTTCAGGGAGATAGGATCT
1 CAACTTCAGGGAGATAAGATCT
24302811 GTAATTTCCA
Statistics
Matches: 181, Mismatches: 49, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
41 28 0.15
42 1 0.01
43 8 0.04
44 108 0.60
45 35 0.19
46 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATCTATTACTTCAATCCGCTCCACTA
Found at i:24302728 original size:218 final size:217
Alignment explanation
Indices: 24302406--24302808 Score: 680
Period size: 218 Copynumber: 1.9 Consensus size: 217
24302396 TGCACCGCCT
* * * *
24302406 GGGAAATAAGATTCGCTATCTTTGATCTGCCCCACTGCAACTTCAGAGGGATAAGACCGTTTACT
1 GGGAAATAAGATTCGCCATCTTCGATCTACCCCACTGCAACTTCAGAGGGATAAGACCGCTTACT
* * * *
24302471 CAGTCTGTTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAG
66 CAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCAATCCACTCTAATGAAACTTCAG
*
24302536 AGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTC
131 AGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTC
24302601 AATCTGCTCCACTGTAACTTCA
196 AATCTGCTCCACTGTAACTTCA
* * *
24302623 GGGAGATAAGATTTGCCATCTTCGATCTACCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
1 GGGAAATAAGATTCGCCATCTTCGATCTACCCCACTGCAACTTCAGAGGGATAAGACC-GCTTAC
*
24302688 TCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGACCTGATGCAATCCACTCTAATGAAACTTCA
65 TCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCAATCCACTCTAATGAAACTTCA
24302753 GAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGAT
130 GAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGAT
24302809 CTGTAATTTC
Statistics
Matches: 172, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
217 52 0.30
218 120 0.70
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.27
Consensus pattern (217 bp):
GGGAAATAAGATTCGCCATCTTCGATCTACCCCACTGCAACTTCAGAGGGATAAGACCGCTTACT
CAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCAATCCACTCTAATGAAACTTCAG
AGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTC
AATCTGCTCCACTGTAACTTCA
Found at i:24302985 original size:128 final size:127
Alignment explanation
Indices: 24302796--24303204 Score: 629
Period size: 128 Copynumber: 3.2 Consensus size: 127
24302786 CTACAACTTC
* *
24302796 AGGGAGATAGGATCTGTAATTTCCAAACCTATTCCACTGCTGACCAGGAATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTTCC-AACCTATTCCACTGCTGACCAGGAATATAGGACTTGTGGC
** *
24302861 TTAAATCAACTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGCTT
65 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCC-TCTTCGATCTGCTCCGCTATTGCTT
*
24302925 AGGGAGACAAGATCTGTGATTTCCAACCTATTCCACTGCTGACCAGGAATATAGGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGAATATAGGACTTGTGGCT
* * * *
24302990 TAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCACTTCGATCTGCTCCGCTACTGCTT
66 TAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCTCTTCGATCTGCTCCGCTATTGCTT
* * * *
24303052 AGGGAGACAAGATCTATAATTTCCCAACCTATTTCACTGCTGACCAGGGATATAGGAATTGTGGC
1 AGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGAATATAGGACTTGTGGC
* * *
24303117 TTAAATCTGCTTCTTTACACTTGAAGATAAGATTCGTCATCTTCGATCTGCTCCGATATTGCTT
65 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCG-CCTCTTCGATCTGCTCCGCTATTGCTT
24303181 AGGGAGACAAGATCTGTAATTTCC
1 AGGGAGACAAGATCTGTAATTTCC
24303205 CAGATCTGTT
Statistics
Matches: 255, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
127 42 0.16
128 148 0.58
129 65 0.25
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (127 bp):
AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGAATATAGGACTTGTGGCT
TAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCTCTTCGATCTGCTCCGCTATTGCTT
Found at i:24305346 original size:15 final size:15
Alignment explanation
Indices: 24305326--24305357 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24305316 TTTCTTTTTC
24305326 TTTTTTATTTTCATT
1 TTTTTTATTTTCATT
*
24305341 TTTTTTATTTTGATT
1 TTTTTTATTTTCATT
24305356 TT
1 TT
24305358 GATTTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTTTATTTTCATT
Found at i:24305357 original size:12 final size:12
Alignment explanation
Indices: 24305342--24305389 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
24305332 ATTTTCATTT
24305342 TTTTTATTTTGA
1 TTTTTATTTTGA
*
24305354 TTTTGATTTTGA
1 TTTTTATTTTGA
* *
24305366 TTGATTTTTTTTCA
1 TT--TTTATTTTGA
24305380 TTTTTATTTT
1 TTTTTATTTT
24305390 TTCGACTTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 20 0.69
14 9 0.31
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:24305357 original size:27 final size:26
Alignment explanation
Indices: 24305320--24305389 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 26
24305310 TTTATTTTTC
* **
24305320 TTTTTCTTTTTTATTTTCATTTTTTT
1 TTTTTCATTTTTATTTTCATTGATTT
* * *
24305346 TATTTTGATTTTGATTTTGATTGATTT
1 T-TTTTCATTTTTATTTTCATTGATTT
24305373 TTTTTCATTTTTATTTT
1 TTTTTCATTTTTATTTT
24305390 TTCGACTTTG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 15 0.43
27 20 0.57
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (26 bp):
TTTTTCATTTTTATTTTCATTGATTT
Found at i:24305382 original size:41 final size:39
Alignment explanation
Indices: 24305328--24305426 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 39
24305318 TCTTTTTCTT
* *
24305328 TTTTATTTTCATTTTTTTTATTTTGATTTTGATTTTGATTGA
1 TTTT-TTTTCATTTTTTTT-TTTCGACTTTGATTTTGATT-A
* *
24305370 TTTTTTTTCATTTTTATTTTTTCGACTTTGATTTTGCTTT
1 TTTTTTTTCATTTTT-TTTTTTCGACTTTGATTTTGATTA
24305410 TTTCTTTTTC-TTTTTTT
1 TTT-TTTTTCATTTTTTT
24305427 GAATCAGATC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
39 2 0.04
40 8 0.16
41 34 0.67
42 7 0.14
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.75
Consensus pattern (39 bp):
TTTTTTTTCATTTTTTTTTTTCGACTTTGATTTTGATTA
Found at i:24305388 original size:16 final size:15
Alignment explanation
Indices: 24305326--24305391 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
24305316 TTTCTTTTTC
*
24305326 TTTTTTATTTTCATT
1 TTTTTTATTTTGATT
24305341 TTTTTTATTTTGATT
1 TTTTTTATTTTGATT
24305356 TTGATTTTGA--TTGATT
1 TT--TTTT-ATTTTGATT
*
24305372 TTTTTTCATTTTTATT
1 TTTTTT-ATTTTGATT
24305388 TTTT
1 TTTT
24305392 CGACTTTGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 5 0.12
15 16 0.37
16 17 0.40
17 4 0.09
18 1 0.02
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (15 bp):
TTTTTTATTTTGATT
Found at i:24310053 original size:12 final size:11
Alignment explanation
Indices: 24310017--24310061 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 11
24310007 AAAAGATTTA
24310017 AAATAATAAAAT
1 AAATAA-AAAAT
24310029 ATAATAACAAAAT
1 A-AATAA-AAAAT
24310042 AAATAAATAAAT
1 AAATAAA-AAAT
24310054 AAATAAAA
1 AAATAAAA
24310062 GGTGTAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 2 0.07
12 17 0.57
13 11 0.37
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:24310061 original size:21 final size:21
Alignment explanation
Indices: 24310015--24310061 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
24310005 ACAAAAGATT
24310015 TAAAATAATAAAATATAATAA
1 TAAAATAATAAAATATAATAA
*
24310036 CAAAATAA-ATAAATA-AATAAA
1 TAAAATAATA-AAATATAAT-AA
24310057 TAAAA
1 TAAAA
24310062 GGTGTAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAATAATAAAATATAATAA
Found at i:24315515 original size:18 final size:19
Alignment explanation
Indices: 24315489--24315526 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
24315479 ATCTTTTTCT
*
24315489 TTTATATATATATTTTAAA
1 TTTATATATATATTTAAAA
*
24315508 TTTA-ATATGTATTTAAAA
1 TTTATATATATATTTAAAA
24315526 T
1 T
24315527 ATTTATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTATATATATATTTAAAA
Found at i:24319244 original size:14 final size:14
Alignment explanation
Indices: 24319225--24319251 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24319215 CATTTCTTGG
24319225 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
24319239 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
24319252 ACTGGATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:24323616 original size:18 final size:19
Alignment explanation
Indices: 24323590--24323630 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
24323580 GTGTAATTTG
*
24323590 ATTTGGTTA-TTTTACTTA
1 ATTTCGTTAGTTTTACTTA
*
24323608 ATTTCGTTAGTTTTATTTA
1 ATTTCGTTAGTTTTACTTA
24323627 ATTT
1 ATTT
24323631 AATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.22, C:0.05, G:0.10, T:0.63
Consensus pattern (19 bp):
ATTTCGTTAGTTTTACTTA
Found at i:24323627 original size:19 final size:18
Alignment explanation
Indices: 24323585--24323630 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
24323575 AATTGGTGTA
* *
24323585 ATTTGATTTGGTTATTTT
1 ATTTAATTTCGTTATTTT
*
24323603 ACTTAATTTCGTTAGTTTT
1 ATTTAATTTCGTTA-TTTT
24323622 ATTTAATTT
1 ATTTAATTT
24323631 AATTTAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.63
Consensus pattern (18 bp):
ATTTAATTTCGTTATTTT
Found at i:24323632 original size:5 final size:5
Alignment explanation
Indices: 24323622--24323650 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
24323612 CGTTAGTTTT
24323622 ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
24323651 CTACATGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:24327925 original size:67 final size:67
Alignment explanation
Indices: 24327766--24327967 Score: 190
Period size: 67 Copynumber: 3.0 Consensus size: 67
24327756 GAATATCGTC
* * * * * * * *
24327766 AGTCCAACCAACACACACCAAATTCTCATACGAACCAATCCAA-CAGAAACACGCCAATGCTCAT
1 AGTCCAACCAAAACACACC-AATGCTCACAAGAGCTAGTCCAACCA-AAACCCGCCAATGCTCAT
*
24327830 AAGAGCT
64 -A-TG-T
* *
24327837 AGTCCAACCAAAACACGCCAATGCTCACAAGAGCTAGTCCAACCAAAACCCGTCAATGCTCATAT
1 AGTCCAACCAAAACACACCAATGCTCACAAGAGCTAGTCCAACCAAAACCCGCCAATGCTCATAT
24327902 GT
66 GT
* * * * * **
24327904 AGTCCAACCGAAACACACCAATGCTCATAAGAGGTAGTCTATCTGAAACCCGCCAATGCTCATA
1 AGTCCAACCAAAACACACCAATGCTCACAAGAGCTAGTCCAACCAAAACCCGCCAATGCTCATA
24327968 AGAGTTAATC
Statistics
Matches: 110, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
67 56 0.51
68 1 0.01
69 1 0.01
70 33 0.30
71 19 0.17
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.16
Consensus pattern (67 bp):
AGTCCAACCAAAACACACCAATGCTCACAAGAGCTAGTCCAACCAAAACCCGCCAATGCTCATAT
GT
Found at i:24327952 original size:35 final size:35
Alignment explanation
Indices: 24327804--24327980 Score: 198
Period size: 35 Copynumber: 5.1 Consensus size: 35
24327794 TACGAACCAA
*
24327804 TCCAACAGAAACACGCCAATGCTCATAAGAGCTAG
1 TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
* *
24327839 TCCAACCAAAACACGCCAATGCTCACAAGAGCTAG
1 TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
* * * *
24327874 TCCAACCAAAACCCGTCAATGCTCAT-A-TG-TAG
1 TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
* *
24327906 TCCAACCGAAACACACCAATGCTCATAAGAGGTAG
1 TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
* * * * * *
24327941 TCTATCTGAAACCCGCCAATGCTCATAAGAGTTAA
1 TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
24327976 TCCAA
1 TCCAA
24327981 TTAAAACAAG
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
32 25 0.21
33 2 0.02
34 2 0.02
35 89 0.75
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.18
Consensus pattern (35 bp):
TCCAACCGAAACACGCCAATGCTCATAAGAGCTAG
Found at i:24327994 original size:35 final size:35
Alignment explanation
Indices: 24327766--24327994 Score: 196
Period size: 35 Copynumber: 6.6 Consensus size: 35
24327756 GAATATCGTC
* * * * * *
24327766 AGTCCAACCAACACACACCAAATTCTCATACGAACC
1 AGTCCAACCAAAACACGCC-AATGCTCATAAGAGCT
*
24327802 AATCCAA-CAGAAACACGCCAATGCTCATAAGAGCT
1 AGTCCAACCA-AAACACGCCAATGCTCATAAGAGCT
*
24327837 AGTCCAACCAAAACACGCCAATGCTCACAAGAGCT
1 AGTCCAACCAAAACACGCCAATGCTCATAAGAGCT
* * *
24327872 AGTCCAACCAAAACCCGTCAATGCTCAT-A-TG-T
1 AGTCCAACCAAAACACGCCAATGCTCATAAGAGCT
* * *
24327904 AGTCCAACCGAAACACACCAATGCTCATAAGAGGT
1 AGTCCAACCAAAACACGCCAATGCTCATAAGAGCT
* * ** * *
24327939 AGTCTATCTGAAACCCGCCAATGCTCATAAGAGTT
1 AGTCCAACCAAAACACGCCAATGCTCATAAGAGCT
* ** *
24327974 AATCCAATTAAAACAAGCCAA
1 AGTCCAACCAAAACACGCCAA
24327995 ACAAAGAGTA
Statistics
Matches: 157, Mismatches: 31, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
32 25 0.16
33 2 0.01
34 2 0.01
35 113 0.72
36 15 0.10
ACGTcount: A:0.40, C:0.31, G:0.13, T:0.17
Consensus pattern (35 bp):
AGTCCAACCAAAACACGCCAATGCTCATAAGAGCT
Found at i:24341103 original size:44 final size:44
Alignment explanation
Indices: 24341039--24341137 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 44
24341029 CAACTTCAGA
*
24341039 GAGATAAGATCTAT-TACTTTAATCCGCTCCAAC-ACAACCTGAGG
1 GAGATAAGAT-TATCGACTTTAATCCGCTCC-ACTACAACCTGAGG
* * * *
24341083 GAGATAGGATTATCGACTTTAATCTGCTCCACTGCAACCTTAGG
1 GAGATAAGATTATCGACTTTAATCCGCTCCACTACAACCTGAGG
24341127 GAGATAAGATT
1 GAGATAAGATT
24341138 TGTTTTCTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 5 0.11
44 42 0.89
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (44 bp):
GAGATAAGATTATCGACTTTAATCCGCTCCACTACAACCTGAGG
Found at i:24341153 original size:44 final size:44
Alignment explanation
Indices: 24341105--24341218 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
24341095 TCGACTTTAA
*
24341105 TCTGCTCCACTGCAACCTTAGGGAGATAAGATTTGTTTTCTCAG
1 TCTGCTCCACTGCGACCTTAGGGAGATAAGATTTGTTTTCTCAG
* * * *
24341149 TCTGCCCCACTGTGA-CTTCAGGGGGATAAGATTTGTTTTCTCGG
1 TCTGCTCCACTGCGACCTT-AGGGAGATAAGATTTGTTTTCTCAG
* * *
24341193 TCTACTCCGCTGCGACCTCAGGGAGA
1 TCTGCTCCACTGCGACCTTAGGGAGA
24341219 AAGGACTCGT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
43 3 0.05
44 52 0.91
45 2 0.04
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCGACCTTAGGGAGATAAGATTTGTTTTCTCAG
Found at i:24341460 original size:129 final size:129
Alignment explanation
Indices: 24341196--24341541 Score: 371
Period size: 129 Copynumber: 2.7 Consensus size: 129
24341186 TTCTCGGTCT
* * *
24341196 ACTCCGCTGCGACCTCAGGGAGAAAGGACTCGTGGCTTAAATCTGCTTCCTTACACTTGAAGATA
1 ACTCCACTGCTACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATA
* * * * * *
24341261 AGATTCGCCGTCTTCGATCTGTCCCATTGCAACTTCAGGGGGATAAGACCTGCTTACTTAGTCC
66 AGATTCGCCGTCTTCGATCTGTCCCACTACAACTTCAGGGAGACAAGACCTGCTTACTCAGACC
* *
24341325 GCTCCACTG-TAACCTCAGGGAGAAAGGACTTGTGGCTTAAACCTGCTTCCTTACACTTGAAGAT
1 ACTCCACTGCT-ACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
* ** * *
24341389 AAGATTCGCCGTCTTCGATCTGTCCCGCTACTGCTT-AGGGAGACAAGATCTGCAATTTC-CA-A
65 AAGATTCGCCGTCTTCGATCTGTCCCACTACAACTTCAGGGAGACAAGACCTGC--TTACTCAGA
24341451 CC
128 CC
* * * * * *
24341453 TATTCCACTGCTA-GTCAGGGACATAA-GACTTGTGGCTTAAATCTGTTTCCCTACTCTTGGGGA
1 -ACTCCACTGCTACCTCAGGGAGA-AAGGACTTGTGGCTTAAATCTGCTTCCTTACACTT---GA
*
24341516 AGATAAGATTCGCCCTCTTCGATCTG
61 AGATAAGATTCGCCGTCTTCGATCTG
24341542 CTTCACTGTC
Statistics
Matches: 183, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
128 52 0.28
129 100 0.55
130 4 0.02
131 27 0.15
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (129 bp):
ACTCCACTGCTACCTCAGGGAGAAAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATA
AGATTCGCCGTCTTCGATCTGTCCCACTACAACTTCAGGGAGACAAGACCTGCTTACTCAGACC
Found at i:24341679 original size:87 final size:87
Alignment explanation
Indices: 24341533--24341888 Score: 550
Period size: 87 Copynumber: 4.1 Consensus size: 87
24341523 ATTCGCCCTC
* * * * * * *
24341533 TTCGATCTGCTTCACTGTCGACGCGGGAGGGCAAGATCTGTTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
24341598 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
24341620 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
24341685 CTGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * *
24341707 TTCGATCTACTTCGCTGTTAATGCAAGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
24341772 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * *
24341794 TTCGATCTGCTTCGCTGTTAATGCTGGAAGACAAGATCTGTTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
24341859 CCAATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
24341881 TTCGATCT
1 TTCGATCT
24341889 TCACTGATCT
Statistics
Matches: 249, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 249 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTCAATGCAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:24343978 original size:15 final size:13
Alignment explanation
Indices: 24343944--24343982 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
24343934 TGACCTCTCA
*
24343944 TTTTCTTTTTTTC
1 TTTTCCTTTTTTC
24343957 TTTTCCTTTTTTC
1 TTTTCCTTTTTTC
24343970 TTCTCTCCTTTTT
1 TT-T-TCCTTTTT
24343983 CATTTTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
14 1 0.04
15 8 0.35
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCCTTTTTTC
Found at i:24344046 original size:18 final size:17
Alignment explanation
Indices: 24344020--24344062 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
24344010 TTTTTCTTTT
24344020 TTTTGTTTTGATCTTGA
1 TTTTGTTTTGATCTTGA
* *
24344037 TTTTGCTTTTGCTTTTGA
1 TTTTG-TTTTGATCTTGA
24344055 TTTT-TTTT
1 TTTTGTTTT
24344063 ATTGAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 14 0.61
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.72
Consensus pattern (17 bp):
TTTTGTTTTGATCTTGA
Found at i:24353034 original size:20 final size:20
Alignment explanation
Indices: 24353009--24353051 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
24352999 ATCTTGAATT
24353009 ATTTGATTCTAATCAATTTG
1 ATTTGATTCTAATCAATTTG
*
24353029 ATTTGATTTTAATCAATTTG
1 ATTTGATTCTAATCAATTTG
24353049 ATT
1 ATT
24353052 AAATTGCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTTGATTCTAATCAATTTG
Found at i:24353826 original size:89 final size:88
Alignment explanation
Indices: 24353724--24354072 Score: 386
Period size: 89 Copynumber: 4.0 Consensus size: 88
24353714 TTTTGTTTCC
* * * *
24353724 AAATTAAAAGTAAATAAAATATGTTTCGGGATTTATTCCTGCCGATT-AACGGATTTTATTCCAT
1 AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCG-TTCAACGGATTTTATTCCAT
*
24353788 TATTTTGATTTTATTTCCAAACGAG
65 TATTTTAATTTTATTTCCAAA-GAG
* * * * *
24353813 AAATTAAAGGTAAATAAAATCTGTTTCGGGACTTATTCTCGTCGTTCAATGGATTTTATTCCATT
1 AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATT
*
24353878 ATTTTAATTTTATTTCCAAATGGG
66 ATTTTAATTTTATTTCCAAA-GAG
* * * ** *
24353902 AAATTAATGGTAAATAATATCCATTTCGCGG-TTTATTCCCGCCAATCAACGGATTTAATTCCAT
1 AAATTAAAGGTAAATAAAATCTATTTCG-GGATTTATTCCCGCCGTTCAACGGATTTTATTCCAT
* * *
24353966 TATTTTGATTTTATTACCAAATAGG
65 TATTTTAATTTTATTTCCAAAGA-G
* * *
24353991 ATACTAAAGGTAAATAAAAT-TCATTTCGGGATTGATTCCCGCCGTTCAAC-GATTTTATTCCA-
1 AAATTAAAGGTAAATAAAATCT-ATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAT
*
24354053 -ATTTTAATTTTATTTTCAAA
65 TATTTTAATTTTATTTCCAAA
24354073 ACTGAGTATG
Statistics
Matches: 218, Mismatches: 37, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
86 17 0.08
88 15 0.07
89 184 0.84
90 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (88 bp):
AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATT
ATTTTAATTTTATTTCCAAAGAG
Found at i:24354039 original size:178 final size:175
Alignment explanation
Indices: 24353747--24354072 Score: 444
Period size: 178 Copynumber: 1.8 Consensus size: 175
24353737 ATAAAATATG
* * * * * *
24353747 TTTCGGGATTTATTCCTGCCGATTAACGGATTTTATTCCATTATTTTGATTTTATTTCCAAACGA
1 TTTCGGGATTTATTCCCGCCAATCAACGGATTTAATTCCATTATTTTGATTTTATTACCAAAAGA
* * * * *
24353812 GAAATTAAAGGTAAATAAAATCTGTTTCGGGACTTATTCTCGTCGTTCAATGGATTTTATTCCAT
66 GAAACTAAAGGTAAATAAAATCTATTTCGGGACTTATTCCCGCCGTTCAA-CGATTTTATTCCA-
24353877 TATTTTAATTTTATTTCCAAATGGGAAATTAATGGTAAATAATATCCA
129 -ATTTTAATTTTATTTCCAAATGGGAAATTAATGGTAAATAATATCCA
24353925 TTTCGCGG-TTTATTCCCGCCAATCAACGGATTTAATTCCATTATTTTGATTTTATTACCAAATA
1 TTTCG-GGATTTATTCCCGCCAATCAACGGATTTAATTCCATTATTTTGATTTTATTACCAAA-A
*
24353989 G-GATACTAAAGGTAAATAAAAT-TCATTTCGGGA-TTGATTCCCGCCGTTCAACGATTTTATTC
64 GAGAAACTAAAGGTAAATAAAATCT-ATTTCGGGACTT-ATTCCCGCCGTTCAACGATTTTATTC
*
24354051 CAATTTTAATTTTATTTTCAAA
127 CAATTTTAATTTTATTTCCAAA
24354073 ACTGAGTATG
Statistics
Matches: 131, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
175 19 0.15
177 15 0.11
178 94 0.72
179 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.41
Consensus pattern (175 bp):
TTTCGGGATTTATTCCCGCCAATCAACGGATTTAATTCCATTATTTTGATTTTATTACCAAAAGA
GAAACTAAAGGTAAATAAAATCTATTTCGGGACTTATTCCCGCCGTTCAACGATTTTATTCCAAT
TTTAATTTTATTTCCAAATGGGAAATTAATGGTAAATAATATCCA
Found at i:24354348 original size:84 final size:84
Alignment explanation
Indices: 24354188--24354349 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 84
24354178 AATAAATTTT
* * * ***
24354188 TTTCTGGATTTATTCCTGTCGTTTAACAAGATTTTATTTGATTTTTTTTGTTTTCCAAATTTGAA
1 TTTCAGGATTTATTCCTGTCGTTTAACAAGATTTTATTCGATTTGTTTTGTTTTCCAAAAAAGAA
* *
24354253 TTAAATCAAATAAAATCTG
66 TGAAATAAAATAAAATCTG
24354272 TTTCAGGATTTATT-CTCGTCGTTTAACAAGATTTTATTCGATATTGTTTTG-TTTCCAAACAAA
1 TTTCAGGATTTATTCCT-GTCGTTTAACAAGATTTTATTCGAT-TTGTTTTGTTTTCCAAA-AAA
*
24354335 G-ATGCAATAAAATAA
63 GAATGAAATAAAATAA
24354350 TTTTATTTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
83 2 0.03
84 56 0.85
85 8 0.12
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (84 bp):
TTTCAGGATTTATTCCTGTCGTTTAACAAGATTTTATTCGATTTGTTTTGTTTTCCAAAAAAGAA
TGAAATAAAATAAAATCTG
Found at i:24367955 original size:16 final size:17
Alignment explanation
Indices: 24367934--24367972 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
24367924 TTTATATATA
24367934 TATTTAAGTCA-TTTTT
1 TATTTAAGTCATTTTTT
*
24367950 TATTTAGGTCATTTTTT
1 TATTTAAGTCATTTTTT
24367967 TATTTA
1 TATTTA
24367973 TCTCTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.23, C:0.05, G:0.08, T:0.64
Consensus pattern (17 bp):
TATTTAAGTCATTTTTT
Found at i:24371034 original size:334 final size:335
Alignment explanation
Indices: 24370640--24371275 Score: 1109
Period size: 335 Copynumber: 1.9 Consensus size: 335
24370630 AAATATTACA
*
24370640 AAAAAAAATACCAAAATTTTATAAACTTCTTCTTTATTTACCAAAATAATAGAGGGAAAAAAAAG
1 AAAAAAAATACCAAAATATTATAAACTTCTTCTTTATTTACCAAAATAATAGAGGGAAAAAAAAG
* * *
24370705 GGTGATGGAGGGG-AAAAAAAGGCGGTACAAATATGTGGCTAATTACCTTTTAATCTCTACTTAT
66 GGTGATGGAGGGGAAAAAAAAGGCAGCACAAATATGTGGCTAATTACCTTTTAATCCCTACTTAT
*
24370769 TTATTATTTTCTTTTATTCCTCCTTAACACACTAAATTAATAAATTTCAAACATGATGCACTGAA
131 TTATTATTTTCTTTTATTCCCCCTTAACACACTAAATTAATAAATTTCAAACATGATGCACTGAA
**
24370834 ATAATGTAAAATTATAAAAGACTAAGTTTATGATATTTTTTAAAGTAATAAAATGC-AGAGAAAA
196 ATAATGTAAAATTATAAAAGACTAAAATTATGATATTTTTTAAAGTAATAAAATGCGA-AGAAAA
24370898 AAATACGAACAAATGGCAGAAGTAAGAGTGTA-TTACTAACTTTCTCGGGTTTTTTACCGAAATA
260 AAATACGAACAAATGGCAGAAGTAAGA-TGTATTTACTAACTTTCTCGGGTTTTTTACCGAAATA
24370962 TTACAAAAAAAT
324 TTACAAAAAAAT
* *
24370974 AAAAAAAATACCAAAATATTATAAACTTTTTTTTTTATTTACCAAAATAATAGA-GGAAAAAAAA
1 AAAAAAAATACCAAAATATTATAAAC-TTCTTCTTTATTTACCAAAATAATAGAGGGAAAAAAAA
*
24371038 GGGTGATGGAGGGGAAAAAAAAGGCAGCACAAATATGTGGCTAATTACCTTTTAATCCCTGCTTA
65 GGGTGATGGAGGGGAAAAAAAAGGCAGCACAAATATGTGGCTAATTACCTTTTAATCCCTACTTA
24371103 TTTATTATTTTCTTTTATTCCCCCTTAACACACTAAATTAATAAATTTCAAACATGATGCACTGA
130 TTTATTATTTTCTTTTATTCCCCCTTAACACACTAAATTAATAAATTTCAAACATGATGCACTGA
24371168 AATAATGTAAAATTATAAAAGACTAAAATTATGATATTTTTTAAAGTAATAAAATGCGAAGAAAA
195 AATAATGTAAAATTATAAAAGACTAAAATTATGATATTTTTTAAAGTAATAAAATGCGAAGAAAA
* *
24371233 AAATACGAATAAATGGCAGAAGTAAGATTTATTTACTAACTTT
260 AAATACGAACAAATGGCAGAAGTAAGATGTATTTACTAACTTT
24371276 TTTTTCAACT
Statistics
Matches: 286, Mismatches: 12, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
334 52 0.18
335 233 0.81
336 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (335 bp):
AAAAAAAATACCAAAATATTATAAACTTCTTCTTTATTTACCAAAATAATAGAGGGAAAAAAAAG
GGTGATGGAGGGGAAAAAAAAGGCAGCACAAATATGTGGCTAATTACCTTTTAATCCCTACTTAT
TTATTATTTTCTTTTATTCCCCCTTAACACACTAAATTAATAAATTTCAAACATGATGCACTGAA
ATAATGTAAAATTATAAAAGACTAAAATTATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAA
AATACGAACAAATGGCAGAAGTAAGATGTATTTACTAACTTTCTCGGGTTTTTTACCGAAATATT
ACAAAAAAAT
Found at i:24373616 original size:12 final size:10
Alignment explanation
Indices: 24373579--24373611 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
24373569 AGTAAAACAA
24373579 AAAATATTAC
1 AAAATATTAC
24373589 AAAATA-TAC
1 AAAATATTAC
24373598 AAAATATTAC
1 AAAATATTAC
24373608 AAAA
1 AAAA
24373612 AATATCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAATATTAC
Found at i:24373657 original size:10 final size:11
Alignment explanation
Indices: 24373616--24373656 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
24373606 ACAAAAAATA
24373616 TCTTCTTTTTC
1 TCTTCTTTTTC
*
24373627 TCCTCTTTTTC
1 TCTTCTTTTTC
24373638 TC-TCTTTTTC
1 TCTTCTTTTTC
24373648 TCTTCTTTT
1 TCTTCTTTT
24373657 CCGCGCCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
10 10 0.36
11 18 0.64
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (11 bp):
TCTTCTTTTTC
Found at i:24373821 original size:54 final size:54
Alignment explanation
Indices: 24373737--24373839 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
24373727 ATAATACGAG
**
24373737 TGGTGCCGCCAATTAGTATGGCACCATTGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATTAGTATGGCACCATTGGTGCCGCCAATCCCATTGGCACCAT
* * *
24373791 TGGTGCCGCCAA-TGGTTTTGGCACCTTTGGTGCCGCCAATCCCATTGGC
1 TGGTGCCGCCAATTAG-TATGGCACCATTGGTGCCGCCAATCCCATTGGC
24373840 GTGACCAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 2 0.05
54 41 0.95
ACGTcount: A:0.17, C:0.29, G:0.28, T:0.26
Consensus pattern (54 bp):
TGGTGCCGCCAATTAGTATGGCACCATTGGTGCCGCCAATCCCATTGGCACCAT
Found at i:24373838 original size:27 final size:27
Alignment explanation
Indices: 24373737--24373839 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
24373727 ATAATACGAG
* *
24373737 TGGTGCCGCCAATTAGTA-TGGCACCAT
1 TGGTGCCGCCAA-TGGCATTGGCACCAT
24373764 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
24373791 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
24373818 TGGTGCCGCCAATCCCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
24373840 GTGACCAGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
26 3 0.05
27 63 0.95
ACGTcount: A:0.17, C:0.29, G:0.28, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:24373886 original size:12 final size:12
Alignment explanation
Indices: 24373869--24373897 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
24373859 ATCGATTTGA
24373869 TTTTTTTTGGTT
1 TTTTTTTTGGTT
24373881 TTTTTTTTGGTT
1 TTTTTTTTGGTT
24373893 TTTTT
1 TTTTT
24373898 GATATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTTTGGTT
Found at i:24373960 original size:28 final size:27
Alignment explanation
Indices: 24373899--24373969 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
24373889 GGTTTTTTTG
* *
24373899 ATATATTTTGGTAAATAAAATAAATTT
1 ATATATTTTGGTAAATAAAAAAAAGTT
24373926 ATATATTTTGGTAAATAAAAAAAAGTT
1 ATATATTTTGGTAAATAAAAAAAAGTT
24373953 ATAATATTTTGGTAAAT
1 AT-ATATTTTGGTAAAT
24373970 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 27 0.66
28 14 0.34
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAAAGTT
Found at i:24390947 original size:9 final size:9
Alignment explanation
Indices: 24390933--24390966 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
24390923 TTAATTGAAA
24390933 AATTAATTT
1 AATTAATTT
*
24390942 AGTTAATTT
1 AATTAATTT
*
24390951 AATTAATTC
1 AATTAATTT
24390960 AATTAAT
1 AATTAAT
24390967 AGAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (9 bp):
AATTAATTT
Found at i:24400079 original size:57 final size:57
Alignment explanation
Indices: 24400010--24400124 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
24400000 TAGATTCGTC
* * *
24400010 TACTAATATAAGTTATCTTTCCTTATTACGATCCAACCACGTAATACCGCTTAATAT
1 TACTAATATAAGTTACCTTTCCGTATTACGATCCAACCACGTAATACCACTTAATAT
* * * *
24400067 TACTAATATAAGTTACCTTTTCGTATTACGATCCGACCTCGTAATACCACTTAGTAT
1 TACTAATATAAGTTACCTTTCCGTATTACGATCCAACCACGTAATACCACTTAATAT
24400124 T
1 T
24400125 CATTAAACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (57 bp):
TACTAATATAAGTTACCTTTCCGTATTACGATCCAACCACGTAATACCACTTAATAT
Found at i:24403591 original size:23 final size:23
Alignment explanation
Indices: 24403565--24403612 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
24403555 TTCACCAAGT
* *
24403565 ATAAAATTTTTAACTCTATTAAC
1 ATAAAATTTTAAACCCTATTAAC
24403588 ATAAAATTTTAAACCCTATTAAC
1 ATAAAATTTTAAACCCTATTAAC
24403611 AT
1 AT
24403613 GACTCAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAAAATTTTAAACCCTATTAAC
Found at i:24403758 original size:19 final size:19
Alignment explanation
Indices: 24403723--24403759 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24403713 AAATGCATAC
*
24403723 TGGCACACAAGGCGCATCT
1 TGGCACACAAAGCGCATCT
*
24403742 TGGCACACAAAGTGCATC
1 TGGCACACAAAGCGCATC
24403760 CTAGTGCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (19 bp):
TGGCACACAAAGCGCATCT
Found at i:24408356 original size:32 final size:32
Alignment explanation
Indices: 24408319--24408389 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
24408309 TCTTTTCTTG
* ** *
24408319 CTATTTTTTTGTTGTTTTGCTGCTATTTGCTA
1 CTATTTTGTTGTCATTTTGCTACTATTTGCTA
*
24408351 CTATTTTGTTGTCATTTTGCTATTATTTGCTA
1 CTATTTTGTTGTCATTTTGCTACTATTTGCTA
24408383 CTATTTT
1 CTATTTT
24408390 AGAGATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.62
Consensus pattern (32 bp):
CTATTTTGTTGTCATTTTGCTACTATTTGCTA
Found at i:24423732 original size:11 final size:11
Alignment explanation
Indices: 24423716--24423748 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
24423706 AAATATTGTT
24423716 TAAAATAATAA
1 TAAAATAATAA
24423727 TAAAATAATAA
1 TAAAATAATAA
*
24423738 CAAAAT-ATAA
1 TAAAATAATAA
24423748 T
1 T
24423749 CAACATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:24426728 original size:6 final size:6
Alignment explanation
Indices: 24426717--24426764 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
24426707 AATTTAGCCA
* *
24426717 TTTATT TTTA-T TGTA-T ATTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
24426763 TT
1 TT
24426765 CTAATTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 7 0.19
6 30 0.81
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:24436000 original size:29 final size:30
Alignment explanation
Indices: 24435948--24436030 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 30
24435938 TATAATAAGT
*
24435948 AAATGAAATAAAAAGAGAAAGAAAGAAACA
1 AAATGAAACAAAAAGAGAAAGAAAGAAACA
*
24435978 AAATGAAACACAAAG-GAAAGAAAGAAA-A
1 AAATGAAACAAAAAGAGAAAGAAAGAAACA
*
24436006 GAAA--AAACAAGAA-AGAAAGAAAGAA
1 -AAATGAAACAAAAAGAGAAAGAAAGAA
24436031 GAAGCATAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
27 18 0.38
28 1 0.02
29 15 0.32
30 13 0.28
ACGTcount: A:0.73, C:0.05, G:0.18, T:0.04
Consensus pattern (30 bp):
AAATGAAACAAAAAGAGAAAGAAAGAAACA
Found at i:24436928 original size:19 final size:20
Alignment explanation
Indices: 24436904--24436952 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
24436894 TTGTTAGTAA
24436904 TTTTTGTGATTAGGTTAAT-
1 TTTTTGTGATTAGGTTAATG
*
24436923 TTTTTGT--TTAGTTTAATG
1 TTTTTGTGATTAGGTTAATG
24436941 TTTATTGTGATT
1 TTT-TTGTGATT
24436953 TGGTAGATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 11 0.44
21 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (20 bp):
TTTTTGTGATTAGGTTAATG
Found at i:24436933 original size:17 final size:18
Alignment explanation
Indices: 24436901--24436939 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
24436891 ATTTTGTTAG
24436901 TAATTTTTGTGATTAGGT
1 TAATTTTTGTGATTAGGT
* *
24436919 TAATTTTT-TGTTTAGTT
1 TAATTTTTGTGATTAGGT
24436936 TAAT
1 TAAT
24436940 GTTTATTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (18 bp):
TAATTTTTGTGATTAGGT
Found at i:24452162 original size:40 final size:40
Alignment explanation
Indices: 24452107--24452255 Score: 192
Period size: 40 Copynumber: 3.7 Consensus size: 40
24452097 TATGTCATGA
*
24452107 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCCGGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTGGTGT
* * * *
24452147 GATTATCAGGCTTAGTGCATAACAGGCTTTGTGTTGGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTGGTGT
* * *
24452187 GATTATTAGGCTTAGTGCCTAGCAGCCTTTATGCTAGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTGGTGT
* *
24452227 -AGTTATTAGACTTAGTGCCTAGTAGGCTT
1 GA-TTATTAGGCTTAGTGCCTAGCAGGCTT
24452256 CGTGTGGATA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 92 0.99
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.37
Consensus pattern (40 bp):
GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTGGTGT
Found at i:24457750 original size:3 final size:3
Alignment explanation
Indices: 24457742--24457788 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
24457732 TTTATATTTG
* *
24457742 TTA TTA TTA TTA TTA TTG TTG TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24457789 CACGTTAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24465710 original size:12 final size:12
Alignment explanation
Indices: 24465691--24465720 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24465681 CCCGACTTCT
24465691 ACTAATTAATTA
1 ACTAATTAATTA
*
24465703 ATTAATTAATTA
1 ACTAATTAATTA
24465715 ACTAAT
1 ACTAAT
24465721 ACTCGTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
ACTAATTAATTA
Found at i:24467827 original size:25 final size:25
Alignment explanation
Indices: 24467799--24467920 Score: 93
Period size: 25 Copynumber: 4.9 Consensus size: 25
24467789 TCGAGCCATG
* *
24467799 TAACGGAAAGCTCATGTGAGCTGAA
1 TAACGGGAAGCTCATGAGAGCTGAA
* * *
24467824 TAACGGGAAGCTCTTGCGAGCTAAA
1 TAACGGGAAGCTCATGAGAGCTGAA
* * *
24467849 TATCGGGAAGCTCATAAGAGCTGTA
1 TAACGGGAAGCTCATGAGAGCTGAA
** * * * *
24467874 TAACAAGAAGCTTAAGAGAGC-CAT
1 TAACGGGAAGCTCATGAGAGCTGAA
*
24467898 TAATTGGGAAGCTCATGAGAGCT
1 TAA-CGGGAAGCTCATGAGAGCT
24467921 ATGGTGTGTC
Statistics
Matches: 71, Mismatches: 24, Indels: 3
0.72 0.24 0.03
Matches are distributed among these distances:
24 3 0.04
25 68 0.96
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (25 bp):
TAACGGGAAGCTCATGAGAGCTGAA
Found at i:24467860 original size:50 final size:50
Alignment explanation
Indices: 24467779--24467877 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
24467769 CATGTAAAAA
* ** **
24467779 GGAAGCTCTTTCGAGCCATGTAACGGAAAGCTCATGTGAGCTGAATAACG
1 GGAAGCTCTTGCGAGCCAAATAACGGAAAGCTCATAAGAGCTGAATAACG
* * * *
24467829 GGAAGCTCTTGCGAGCTAAATATCGGGAAGCTCATAAGAGCTGTATAAC
1 GGAAGCTCTTGCGAGCCAAATAACGGAAAGCTCATAAGAGCTGAATAAC
24467878 AAGAAGCTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.22
Consensus pattern (50 bp):
GGAAGCTCTTGCGAGCCAAATAACGGAAAGCTCATAAGAGCTGAATAACG
Found at i:24482915 original size:49 final size:49
Alignment explanation
Indices: 24482856--24483291 Score: 466
Period size: 49 Copynumber: 8.9 Consensus size: 49
24482846 AATGACAACA
* ** *
24482856 CCCAACATATACGCCAATCTGGTTAGCAAATATCATGCTTTACCAACGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
* * * *
24482905 CCCAACATATACGCCAAT-TGGGTTAGCAAATTACATGACCTACTAGTGG
1 CCCAACATATACGCCAATCT-GGTTAGCAAATAACATGCCCTACCAATGG
* *
24482954 CCCAACATATACGCCAATCTGGTTAGCGAATAACATACCCTA-CAAGTGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAA-TGG
* * ***
24483003 CCAAACATATACGCCAATCTGGTTAGCAAATAATATGCCCTACTGGTGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
* * * *
24483052 CCCAACATATACGCCAATCTAGTTAGCAAATGACATGGCCTACCGATGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
* * * * **
24483101 CTCAACATATACACCAACCTAGTTAGCAAATAACATGCCCTATTAATGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
* * * * * *
24483150 CCC-ATATATATGCCAATTTGGTTAGCAAATAACATACCCTATCAGTGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
* * * * *
24483198 CCTAACATATATGCCAATCTAGTTAGCAAATAAGC-TGCCCTACTAGTGG
1 CCCAACATATACGCCAATCTGGTTAGCAAATAA-CATGCCCTACCAATGG
* * *
24483247 CCCAACATATATGCCAATCTAGTTAACAAATAACATGCCCTACCA
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCA
24483292 GTGACCGCCT
Statistics
Matches: 324, Mismatches: 56, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
48 41 0.13
49 281 0.87
50 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (49 bp):
CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGG
Found at i:24482965 original size:98 final size:98
Alignment explanation
Indices: 24482856--24483291 Score: 520
Period size: 98 Copynumber: 4.5 Consensus size: 98
24482846 AATGACAACA
* ** *
24482856 CCCAACATATACGCCAATCTGGTTAGCAAATATCATGCTTTACCAACGGCCCAACATATACGCCA
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGGCCCAACATATACGCCA
* * *
24482921 AT-TGGGTTAGCAAATTACATGACCTACTAGTGG
66 ATCT-AGTTAGCAAATAACATGCCCTACTAGTGG
* * *
24482954 CCCAACATATACGCCAATCTGGTTAGCGAATAACATACCCTA-CAAGTGGCCAAACATATACGCC
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAA-TGGCCCAACATATACGCC
* * *
24483018 AATCTGGTTAGCAAATAATATGCCCTACTGGTGG
65 AATCTAGTTAGCAAATAACATGCCCTACTAGTGG
* * * * * *
24483052 CCCAACATATACGCCAATCTAGTTAGCAAATGACATGGCCTACCGATGGCTCAACATATACACCA
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGGCCCAACATATACGCCA
* * *
24483117 ACCTAGTTAGCAAATAACATGCCCTATTAATGG
66 ATCTAGTTAGCAAATAACATGCCCTACTAGTGG
* * * * * * * *
24483150 CCC-ATATATATGCCAATTTGGTTAGCAAATAACATACCCTATCAGTGGCCTAACATATATGCCA
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGGCCCAACATATACGCCA
24483214 ATCTAGTTAGCAAATAAGC-TGCCCTACTAGTGG
66 ATCTAGTTAGCAAATAA-CATGCCCTACTAGTGG
* * *
24483247 CCCAACATATATGCCAATCTAGTTAACAAATAACATGCCCTACCA
1 CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCA
24483292 GTGACCGCCT
Statistics
Matches: 284, Mismatches: 49, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
97 81 0.29
98 200 0.70
99 3 0.01
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (98 bp):
CCCAACATATACGCCAATCTGGTTAGCAAATAACATGCCCTACCAATGGCCCAACATATACGCCA
ATCTAGTTAGCAAATAACATGCCCTACTAGTGG
Found at i:24483032 original size:25 final size:25
Alignment explanation
Indices: 24483004--24483081 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
24482994 TACAAGTGGC
24483004 CAAACATATACGCCAATCTGGTTAG
1 CAAACATATACGCCAATCTGGTTAG
* * * *
24483029 CAAATA-ATATGCC-CTACTGG-TGG
1 CAAACATATACGCCAAT-CTGGTTAG
* *
24483052 CCCAACATATACGCCAATCTAGTTAG
1 -CAAACATATACGCCAATCTGGTTAG
24483078 CAAA
1 CAAA
24483082 TGACATGGCC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
23 3 0.08
24 14 0.38
25 17 0.46
26 3 0.08
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (25 bp):
CAAACATATACGCCAATCTGGTTAG
Found at i:24483230 original size:195 final size:195
Alignment explanation
Indices: 24482856--24483291 Score: 565
Period size: 195 Copynumber: 2.2 Consensus size: 195
24482846 AATGACAACA
* * *
24482856 CCCAACATATACGCCAATCTGGTTAGCAAATATCAT-GCTTTACCAACGGCCCAACATATACGCC
1 CCCAACATATACGCCAATCTAGTTAGCAAATA-CATGGC-CTACCAACGGCCCAACATATACACC
* * * * *
24482920 AATTGGGTTAGCAAATTACATGACCTACTAGTGGCCCAACATATACGCCAATCTGGTTAGCGAAT
64 AACTGAGTTAGCAAATAACATGACCTACTAATGGCCCAACATATACGCCAATCTGGTTAGCAAAT
* * *
24482985 AACATACCCTACAAGTGGCCAAACATATACGCCAATCTGGTTAGCAAATAATATGCCCTACTGGT
129 AACATACCCTACAAGTGGCCAAACATATACGCCAATCTAGTTAGCAAATAAGATGCCCTACTAGT
24483050 GG
194 GG
* * *
24483052 CCCAACATATACGCCAATCTAGTTAGCAAATGACATGGCCTACCGATGGCTCAACATATACACCA
1 CCCAACATATACGCCAATCTAGTTAGCAAAT-ACATGGCCTACCAACGGCCCAACATATACACCA
* * * * *
24483117 ACCT-AGTTAGCAAATAACATGCCCTATTAATGGCCC-ATATATATGCCAATTTGGTTAGCAAAT
65 A-CTGAGTTAGCAAATAACATGACCTACTAATGGCCCAACATATACGCCAATCTGGTTAGCAAAT
* * *
24483180 AACATACCCTATC-AGTGGCCTAACATATATGCCAATCTAGTTAGCAAATAAGCTGCCCTACTAG
129 AACATACCCTA-CAAGTGGCCAAACATATACGCCAATCTAGTTAGCAAATAAGATGCCCTACTAG
24483244 TGG
193 TGG
* * *
24483247 CCCAACATATATGCCAATCTAGTTAACAAATAACATGCCCTACCA
1 CCCAACATATACGCCAATCTAGTTAGCAAAT-ACATGGCCTACCA
24483292 GTGACCGCCT
Statistics
Matches: 209, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
195 122 0.58
196 83 0.40
197 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (195 bp):
CCCAACATATACGCCAATCTAGTTAGCAAATACATGGCCTACCAACGGCCCAACATATACACCAA
CTGAGTTAGCAAATAACATGACCTACTAATGGCCCAACATATACGCCAATCTGGTTAGCAAATAA
CATACCCTACAAGTGGCCAAACATATACGCCAATCTAGTTAGCAAATAAGATGCCCTACTAGTGG
Found at i:24483973 original size:10 final size:10
Alignment explanation
Indices: 24483945--24483974 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
24483935 TAGTTTTAGG
24483945 TTTAGTTTTC
1 TTTAGTTTTC
24483955 TTTAGGTTTTC
1 TTTA-GTTTTC
24483966 TTTAGTTTT
1 TTTAGTTTT
24483975 TCTCTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:24492895 original size:50 final size:50
Alignment explanation
Indices: 24492820--24492920 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
24492810 TGTGTCAAAT
* * *
24492820 ATCACGTCTGGCTTGCAAAGAAAGGTATAGTTTTTA-CTATAGTTTGTCTG
1 ATCACATCTGGCTTGCAAAGAAAGGTATA-ATTCTACCTATAGTTTGTCTG
* *
24492870 ATCACATCTGGCTTGCAACGAAAGGTATAATTCTACCTTTAGTTTGTCTG
1 ATCACATCTGGCTTGCAAAGAAAGGTATAATTCTACCTATAGTTTGTCTG
24492920 A
1 A
24492921 AGTTAATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
49 4 0.09
50 41 0.91
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (50 bp):
ATCACATCTGGCTTGCAAAGAAAGGTATAATTCTACCTATAGTTTGTCTG
Found at i:24497837 original size:20 final size:20
Alignment explanation
Indices: 24497813--24497861 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
24497803 TGCTACTAAC
* *
24497813 GATTTAAATCTGCTTCAATCT
1 GATTTAAATCCGCTGCAAT-T
24497834 -ATTTAAATCCGCTGCAATT
1 GATTTAAATCCGCTGCAATT
24497853 GATTTAAAT
1 GATTTAAAT
24497862 ATGTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (20 bp):
GATTTAAATCCGCTGCAATT
Found at i:24501741 original size:3 final size:3
Alignment explanation
Indices: 24501735--24501897 Score: 131
Period size: 3 Copynumber: 52.7 Consensus size: 3
24501725 AGTCCTTTTT
* *
24501735 TTA TTA TTC TTG TTA TGTTA TTGA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-T-A TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* *
24501783 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA GGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
24501828 TTA TTA TT- GTA TTA GT- TTA TATA TCTA TTGA CCTT- TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TT-A --TTA TTA T-TA TTA
24501873 TT- TTA TT- TTA TTA TGTA TTA TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TTA TT
24501898 TTAATTCTTT
Statistics
Matches: 133, Mismatches: 12, Indels: 30
0.76 0.07 0.17
Matches are distributed among these distances:
2 10 0.08
3 99 0.74
4 20 0.15
5 2 0.02
6 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:24517429 original size:48 final size:49
Alignment explanation
Indices: 24517338--24517431 Score: 122
Period size: 48 Copynumber: 1.9 Consensus size: 49
24517328 ATTTAAATTT
* *
24517338 AAATTTATTATTAAGTTTTTTAAATAATTTTTGTTTTTATATATTTCTC
1 AAATTCATTATTAAGTTTTTTAAATAATTTATGTTTTTATATATTTCTC
*
24517387 AAATTCATTATT-ATTTTTTTAAA-ATATTTATGTATTTT-TATATTT
1 AAATTCATTATTAAGTTTTTTAAATA-ATTTATGT-TTTTATATATTT
24517432 TTTTAGAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
47 1 0.03
48 24 0.60
49 15 0.38
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (49 bp):
AAATTCATTATTAAGTTTTTTAAATAATTTATGTTTTTATATATTTCTC
Found at i:24519429 original size:16 final size:17
Alignment explanation
Indices: 24519408--24519453 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
24519398 TCGGGTTGAG
24519408 AAAATTATTTAATTAA-
1 AAAATTATTTAATTAAT
*
24519424 AAAATTAATTAATTAATT
1 AAAATTATTTAATTAA-T
24519442 AAAATTAATTTA
1 AAAATT-ATTTA
24519454 TTATGTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 15 0.60
18 6 0.24
19 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATTATTTAATTAAT
Found at i:24534264 original size:25 final size:24
Alignment explanation
Indices: 24534225--24534272 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
24534215 TTGACTCTCA
* * *
24534225 CGAGCTTCTCGTTATATGGTTCTTG
1 CGAGCTTCCCATTAT-TAGTTCTTG
24534250 CGAGCTTCCCATTATTAGTTCTT
1 CGAGCTTCCCATTATTAGTTCTT
24534273 TGGAGCATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (24 bp):
CGAGCTTCCCATTATTAGTTCTTG
Found at i:24539647 original size:245 final size:247
Alignment explanation
Indices: 24539217--24539711 Score: 976
Period size: 245 Copynumber: 2.0 Consensus size: 247
24539207 TTAATATACA
24539217 TTAGATCTCTAATGTTTACTAGAAGTAGAGTTCTATATTACACATACTTCTTATTTTATTTCTTT
1 TTAGATCTCTAATGTTTACTAGAAGTAGAGTTCTATATTACACATACTTCTTATTTTATTTCTTT
24539282 TGTTCTTTGTTCTATTTATTTCATAACAATTATATTTATTATTTATTAATTTTAACATTTACCAA
66 TGTTCTTTGTTCTATTTATTTCATAACAATTATATTTATTATTTATTAATTTTAACATTTACCAA
24539347 TAATAATATAAATTAAAATATATTTTAGAATACAAATAAATATTATAAATTTACATTACATGATA
131 TAATAATATAAATTAAAATATATTTTAGAATACAAATAAATATTATAAATTTACATTACATGATA
24539412 CATAAATAAATAAAATTATCATAAAATTAATTTTTATA-T-TTTAATAAATT
196 CATAAATAAATAAAATTATCATAAAATTAATTTTTATATTATTTAATAAATT
24539462 TTAGATCTCTAATGTTTACTAGAAGTAGAGTTCTATATTACACATACTTCTTATTTTATTTCTTT
1 TTAGATCTCTAATGTTTACTAGAAGTAGAGTTCTATATTACACATACTTCTTATTTTATTTCTTT
24539527 TGTTCTTTGTTCTATTTATTTCATAACAATTATATTTATTATTTATTAATTTTAACATTTACCAA
66 TGTTCTTTGTTCTATTTATTTCATAACAATTATATTTATTATTTATTAATTTTAACATTTACCAA
24539592 TAATAATATAAATTAAAATATATTTTAGAATACAAATAAATATTATAAATTTACATTACATGATA
131 TAATAATATAAATTAAAATATATTTTAGAATACAAATAAATATTATAAATTTACATTACATGATA
24539657 CATAAATAAATAAAATTATCATAAAATTAATTTTTATATTATTTAATAAATT
196 CATAAATAAATAAAATTATCATAAAATTAATTTTTATATTATTTAATAAATT
24539709 TTA
1 TTA
24539712 TTACTTAATT
Statistics
Matches: 248, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
245 233 0.94
246 1 0.00
247 14 0.06
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.47
Consensus pattern (247 bp):
TTAGATCTCTAATGTTTACTAGAAGTAGAGTTCTATATTACACATACTTCTTATTTTATTTCTTT
TGTTCTTTGTTCTATTTATTTCATAACAATTATATTTATTATTTATTAATTTTAACATTTACCAA
TAATAATATAAATTAAAATATATTTTAGAATACAAATAAATATTATAAATTTACATTACATGATA
CATAAATAAATAAAATTATCATAAAATTAATTTTTATATTATTTAATAAATT
Found at i:24548076 original size:15 final size:14
Alignment explanation
Indices: 24548052--24548084 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24548042 TACATTCTAT
24548052 ATGG-AAAAAATGAG
1 ATGGCAAAAAAT-AG
24548066 ATGGCAAAAAATAG
1 ATGGCAAAAAATAG
24548080 ATGGC
1 ATGGC
24548085 GATCAAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.52, C:0.06, G:0.27, T:0.15
Consensus pattern (14 bp):
ATGGCAAAAAATAG
Found at i:24551217 original size:98 final size:98
Alignment explanation
Indices: 24551103--24551330 Score: 411
Period size: 98 Copynumber: 2.3 Consensus size: 98
24551093 AAAAATCATG
* * * *
24551103 AAGGAAATATTTCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
24551168 AAATCTTGGATAAGTGGATGTTCTTTTGAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTGAAGTA
*
24551201 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
24551266 AAATCTTGGATAAGTGGATGTTCTTTTGAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTGAAGTA
24551299 AAGGAAATATTCCGAGTTTGGGATTCTAAAGG
1 AAGGAAATATTCCGAGTTTGGGATTCTAAAGG
24551331 NNNNNNNNNN
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 125 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTGAAGTA
Found at i:24563176 original size:125 final size:125
Alignment explanation
Indices: 24562732--24563737 Score: 1473
Period size: 125 Copynumber: 7.9 Consensus size: 125
24562722 AGATCTTATC
* * * * *
24562732 TCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCA
1 TCCCTAAGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAGCA
* * * * * * * *
24562797 GATTTGAGTCACC-AGCCTTATCTCCCTGAGCAGTAGCGGAG-TAGGTTGAAAATTATAGATCTT
66 GATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATA-ATTGAAGATTGTAG-----
24562860 A
125 A
* * * * *
24562861 TCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGA-AAATCTTATCTTTCCAAGATAGTGGGAA
1 --TCCCTAAGCAGGAGTGGAGCAGATCGAAGAC-GACGAATCTTATCTTTCCAGGAGAGTGGGAA
* * ** * * *
24562925 GCAGATTTAAGCCACTAAGGCTTGTCTCCCTGAGCGGCAGCAGAG-TAGGTTGAAAATTGTAGAT
63 GCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATA-ATTGAAGATTGTAG--
24562989 CTTA
125 ---A
24562993 TCTCCCTAAGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAG
1 --TCCCTAAGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAG
24563058 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATAATTGAAGATTGTAGA
64 CAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATAATTGAAGATTGTAGA
*
24563120 TCCCTACGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAGCA
1 TCCCTAAGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAGCA
24563185 GATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATAATTGAAGATTGTAGA
66 GATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATAATTGAAGATTGTAGA
*
24563245 TCCCTACGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAGCA
1 TCCCTAAGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAGCA
24563310 GATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATAATTGAAGATTGTAGA
66 GATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATAATTGAAGATTGTAGA
*
24563370 TCCCTACGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAGCA
1 TCCCTAAGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAGCA
24563435 GATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATAATTGAAGATTGTAGA
66 GATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATAATTGAAGATTGTAGA
*
24563495 TCCCTACGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAGCA
1 TCCCTAAGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAGCA
24563560 GATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATAATTGAAGATTGTAGA
66 GATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATAATTGAAGATTGTAGA
* *
24563620 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGATAGTGGGAAGCA
1 TCCCTAAGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAGCA
* * * * * *
24563685 GATTTAAGCCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG-TAGATTGAAG
66 GATTTAAGCCACCAAGCCTTGTCTCCCTG-AGTAGCAGCGGAGATA-ATTGAAG
24563738 CACTAGTTCC
Statistics
Matches: 834, Mismatches: 35, Indels: 17
0.94 0.04 0.02
Matches are distributed among these distances:
125 588 0.71
126 18 0.02
127 1 0.00
131 71 0.09
132 154 0.18
133 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (125 bp):
TCCCTAAGCAGGAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAGGAGAGTGGGAAGCA
GATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGATAATTGAAGATTGTAGA
Found at i:24565772 original size:97 final size:98
Alignment explanation
Indices: 24565654--24565849 Score: 322
Period size: 97 Copynumber: 2.0 Consensus size: 98
24565644 AAAAAAGTCA
* * *
24565654 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
* *
24565719 TTAAATCTTGGATAAGTGG-TGTTCTTTTAAAG
66 TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
* *
24565751 TAAAGGAAGTATTCCGAGTTTGGGATTCTAGAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
24565816 TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
24565849 T
1 T
24565850 TTTATTGTAC
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
97 78 0.86
98 13 0.14
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGACCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGCGGATATTCTTTTAAAG
Found at i:24570239 original size:22 final size:22
Alignment explanation
Indices: 24570213--24570263 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
24570203 GACCACTCGT
*
24570213 GAGACATGAAGGACC-AAGTCTC
1 GAGACATGAA-CACCGAAGTCTC
* *
24570235 GAGACTTGAACCCCGAAGTCTC
1 GAGACATGAACACCGAAGTCTC
24570257 GAGACAT
1 GAGACAT
24570264 ATCATCATCG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.16
Consensus pattern (22 bp):
GAGACATGAACACCGAAGTCTC
Found at i:24577065 original size:9 final size:10
Alignment explanation
Indices: 24577041--24577069 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
24577031 TTTTTATGAA
24577041 CTTTTTAAAG
1 CTTTTTAAAG
24577051 CTTTTTAAAG
1 CTTTTTAAAG
24577061 CTTTTTAAA
1 CTTTTTAAA
24577070 TTTGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (10 bp):
CTTTTTAAAG
Found at i:24577298 original size:24 final size:24
Alignment explanation
Indices: 24577271--24577317 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24577261 TTCATTATAA
* *
24577271 TCAACATTTTACTTTTCATCTTCC
1 TCAACATTTCACCTTTCATCTTCC
*
24577295 TCAACCTTTCACCTTTCATCTTC
1 TCAACATTTCACCTTTCATCTTC
24577318 TTATAACCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (24 bp):
TCAACATTTCACCTTTCATCTTCC
Found at i:24577424 original size:2 final size:2
Alignment explanation
Indices: 24577419--24577450 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24577409 AATCTCTCTC
24577419 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24577451 GGAGTATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24578710 original size:39 final size:39
Alignment explanation
Indices: 24578667--24578744 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
24578657 GAATCATTAG
*
24578667 AATCAATGTCTACTTGATATTTTCTTGGGGATGATATCT
1 AATCAATGTCTACTTGATATTTGCTTGGGGATGATATCT
24578706 AATCAATGTCTACTTGATATTTGCTTGGGGATGATATCT
1 AATCAATGTCTACTTGATATTTGCTTGGGGATGATATCT
24578745 TTCTCTTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (39 bp):
AATCAATGTCTACTTGATATTTGCTTGGGGATGATATCT
Found at i:24585802 original size:19 final size:19
Alignment explanation
Indices: 24585778--24585819 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
24585768 TGCATCACTA
24585778 TAGACCACAAATTCTTTAC
1 TAGACCACAAATTCTTTAC
24585797 TAGACCACAAATTCTTTAC
1 TAGACCACAAATTCTTTAC
24585816 TAGA
1 TAGA
24585820 TTTAGACTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (19 bp):
TAGACCACAAATTCTTTAC
Found at i:24588081 original size:24 final size:25
Alignment explanation
Indices: 24588054--24588104 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
24588044 TTCATTATAA
* *
24588054 TCAACCTTTCACTTTTCATC-TTCT
1 TCAACCTTTCACCTTTCACCTTTCT
24588078 TCAACCTTTCACCTTTCACCTTTCT
1 TCAACCTTTCACCTTTCACCTTTCT
24588103 TC
1 TC
24588105 TTCTTGTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.16, C:0.37, G:0.00, T:0.47
Consensus pattern (25 bp):
TCAACCTTTCACCTTTCACCTTTCT
Found at i:24588948 original size:23 final size:23
Alignment explanation
Indices: 24588922--24588970 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
24588912 AAGTATTTTA
*
24588922 AAATGATCTCATGCCTTGTAATG
1 AAATGATCTCATGCCTTCTAATG
24588945 AAATGATCTCATGCCTTCTAATG
1 AAATGATCTCATGCCTTCTAATG
24588968 AAA
1 AAA
24588971 AAGGTTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (23 bp):
AAATGATCTCATGCCTTCTAATG
Found at i:24589852 original size:19 final size:19
Alignment explanation
Indices: 24589828--24589870 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
24589818 ATGTTTAAAC
24589828 CTTTATAGTTGTAAAGTTA
1 CTTTATAGTTGTAAAGTTA
24589847 CTTTATAGTTGTAAAGTTA
1 CTTTATAGTTGTAAAGTTA
24589866 CTTTA
1 CTTTA
24589871 ATCTGACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (19 bp):
CTTTATAGTTGTAAAGTTA
Found at i:24592726 original size:7 final size:7
Alignment explanation
Indices: 24592714--24592748 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
24592704 ATTATAATCA
24592714 ACCTTTC
1 ACCTTTC
24592721 ACCTTTC
1 ACCTTTC
24592728 ACCTTTC
1 ACCTTTC
24592735 ACCTTTC
1 ACCTTTC
24592742 ACCTTTC
1 ACCTTTC
24592749 TTCTTCTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (7 bp):
ACCTTTC
Found at i:24594093 original size:566 final size:568
Alignment explanation
Indices: 24593021--24594155 Score: 2256
Period size: 566 Copynumber: 2.0 Consensus size: 568
24593011 AAATATGTTG
24593021 AGGAACTTATTATGAAATATTGAATATATTATATAATTTTTTTAAATGTTGGAGGATTTATTAAA
1 AGGAACTTATTATGAAATATTGAATATATTATATAATTTTTTTAAATGTTGGAGGATTTATTAAA
24593086 AGAAATTTAAAAAGGTAGAAAAATTATTGAATATAACTAAATTGAAAGGACTTTTAATGAAATAT
66 AGAAATTTAAAAAGGTAGAAAAATTATTGAATATAACTAAATTGAAAGGACTTTTAATGAAATAT
24593151 AATTTGAAAAACACCATTAAAATTATATAAAAAATAAATAGGGTTTATGTTGAAAATTTTCCCTC
131 AATTTGAAAAACACCATTAAAATTATATAAAAAATAAATAGGGTTTATGTTGAAAATTTTCCCTC
24593216 ACAAATGATTTCTTTGTTTTCTTTAAATTTTTATAACGTGAACACATTAAAATTTAAAAATTTTG
196 ACAAATGATTTCTTTGTTTTCTTTAAATTTTTATAACGTGAACACATTAAAATTTAAAAATTTTG
24593281 TAATATAATATATATATATATATATGAAATATTTTAAATTAAACTTTGGCTTTATTAGGTAGGCT
261 TAATATAATATATATATATATATATGAAATATTTTAAATTAAACTTTGGCTTTATTAGGTAGGCT
24593346 TCCTTCGCACCCATTTTGCCTTGGTTTTCAATCTCATTGCAACACAGCTACACTGAATAGAGATT
326 TCCTTCGCACCCATTTTGCCTTGGTTTTCAATCTCATTGCAACACAGCTACACTGAATAGAGATT
24593411 TCTTGAATTGGTTTTCTAAAATACAAAGTCAATTTCACTTTTACCCTTTCCTAACTTTCAAAAAA
391 TCTTGAATTGGTTTTCTAAAATACAAAGTCAATTTCACTTTTACCCTTTCCTAACTTTCAAAAAA
24593476 TACTTTTTTTTTCAACTCTCAAACAATATTATTATTGTTTTTATTATATTGTGCTTCAATATTAA
456 TACTTTTTTTTTCAACTCTCAAACAATATTATTATTGTTTTTATTATATTGTGCTTCAATATTAA
24593541 TTATTATTTAAAATATAATTATTTTATATATTTTA-T-ATTAATATAT
521 TTATTATTTAAAATATAATTATTTTATATATTTTATTAATTAATATAT
24593587 AGGAACTTATTATGAAATATTGAATATATTATATAATTTTTTTAAATGTTGGAGGATTTATTAAA
1 AGGAACTTATTATGAAATATTGAATATATTATATAATTTTTTTAAATGTTGGAGGATTTATTAAA
24593652 AGAAATTTAAAAAGGTAGAAAAATTATTGAATATAACTAAATTGAAAGGACTTTTAATGAAATAT
66 AGAAATTTAAAAAGGTAGAAAAATTATTGAATATAACTAAATTGAAAGGACTTTTAATGAAATAT
24593717 AATTTGAAAAACACCATTAAAATTATATAAAAAATAAATAGGGTTTATGTTGAAAATTTTCCCTC
131 AATTTGAAAAACACCATTAAAATTATATAAAAAATAAATAGGGTTTATGTTGAAAATTTTCCCTC
24593782 ACAAATGATTTCTTTGTTTTCTTTAAATTTTTATAACGTGAACACATTAAAATTTAAAAATTTTG
196 ACAAATGATTTCTTTGTTTTCTTTAAATTTTTATAACGTGAACACATTAAAATTTAAAAATTTTG
24593847 TAATATAATATATATATATATATATGAAATATTTTAAATTAAACTTTGGCTTTATTAGGTAGGCT
261 TAATATAATATATATATATATATATGAAATATTTTAAATTAAACTTTGGCTTTATTAGGTAGGCT
24593912 TCCTTCGCACCCATTTTGCCTTGGTTTTCAATCTCATTGCAACACAGCTACACTGAATAGAGATT
326 TCCTTCGCACCCATTTTGCCTTGGTTTTCAATCTCATTGCAACACAGCTACACTGAATAGAGATT
24593977 TCTTGAATTGGTTTTCTAAAATACAAAGTCAATTTCACTTTTACCCTTTCCTAACTTTCAAAAAA
391 TCTTGAATTGGTTTTCTAAAATACAAAGTCAATTTCACTTTTACCCTTTCCTAACTTTCAAAAAA
24594042 TACTTTTTTTTTCAACTCTCAAACAATATTATTATTGTTTTTATTATATTGTGCTTCAATATTAA
456 TACTTTTTTTTTCAACTCTCAAACAATATTATTATTGTTTTTATTATATTGTGCTTCAATATTAA
24594107 TTATTATTTAAAATATAATTATTTTATATATTTTATTAATTAATATAT
521 TTATTATTTAAAATATAATTATTTTATATATTTTATTAATTAATATAT
24594155 A
1 A
24594156 TTACTTTTTT
Statistics
Matches: 567, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
566 555 0.98
567 1 0.00
568 11 0.02
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.42
Consensus pattern (568 bp):
AGGAACTTATTATGAAATATTGAATATATTATATAATTTTTTTAAATGTTGGAGGATTTATTAAA
AGAAATTTAAAAAGGTAGAAAAATTATTGAATATAACTAAATTGAAAGGACTTTTAATGAAATAT
AATTTGAAAAACACCATTAAAATTATATAAAAAATAAATAGGGTTTATGTTGAAAATTTTCCCTC
ACAAATGATTTCTTTGTTTTCTTTAAATTTTTATAACGTGAACACATTAAAATTTAAAAATTTTG
TAATATAATATATATATATATATATGAAATATTTTAAATTAAACTTTGGCTTTATTAGGTAGGCT
TCCTTCGCACCCATTTTGCCTTGGTTTTCAATCTCATTGCAACACAGCTACACTGAATAGAGATT
TCTTGAATTGGTTTTCTAAAATACAAAGTCAATTTCACTTTTACCCTTTCCTAACTTTCAAAAAA
TACTTTTTTTTTCAACTCTCAAACAATATTATTATTGTTTTTATTATATTGTGCTTCAATATTAA
TTATTATTTAAAATATAATTATTTTATATATTTTATTAATTAATATAT
Found at i:24610826 original size:14 final size:14
Alignment explanation
Indices: 24610795--24610841 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
24610785 AAAAATTACA
* *
24610795 AAAAATTTAATAAAT
1 AAAAATCTAA-AACT
24610810 AAAAATCTAAAACT
1 AAAAATCTAAAACT
*
24610824 AAAAGTCTAAAACT
1 AAAAATCTAAAACT
24610838 AAAA
1 AAAA
24610842 CACAATAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 20 0.69
15 9 0.31
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (14 bp):
AAAAATCTAAAACT
Found at i:24614806 original size:17 final size:17
Alignment explanation
Indices: 24614784--24614817 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24614774 GTGATTCAAC
24614784 ACTTTAAATCAGTTAAT
1 ACTTTAAATCAGTTAAT
* *
24614801 ACTTTAATTCGGTTAAT
1 ACTTTAAATCAGTTAAT
24614818 TCGGTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (17 bp):
ACTTTAAATCAGTTAAT
Found at i:24614816 original size:9 final size:9
Alignment explanation
Indices: 24614804--24614836 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
24614794 AGTTAATACT
24614804 TTAATTCGG
1 TTAATTCGG
24614813 TTAATTCGG
1 TTAATTCGG
*
24614822 TTAATTCAG
1 TTAATTCGG
24614831 TTAATT
1 TTAATT
24614837 TTTATACTTA
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:0.27, C:0.09, G:0.15, T:0.48
Consensus pattern (9 bp):
TTAATTCGG
Found at i:24619838 original size:17 final size:17
Alignment explanation
Indices: 24619816--24619853 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
24619806 AATTTCATCC
*
24619816 TTTACGGTAAGTTAAAG
1 TTTACGGTAAGTCAAAG
*
24619833 TTTACGTTAAGTCAAAG
1 TTTACGGTAAGTCAAAG
24619850 TTTA
1 TTTA
24619854 AGTTTATTAC
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:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (17 bp):
TTTACGGTAAGTCAAAG
Found at i:24622721 original size:15 final size:15
Alignment explanation
Indices: 24622701--24622731 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24622691 GCTTTATCCT
24622701 CCATTAAACCACTTG
1 CCATTAAACCACTTG
*
24622716 CCATTAGACCACTTG
1 CCATTAAACCACTTG
24622731 C
1 C
24622732 TTTTAAGCAA
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:0.29, C:0.35, G:0.10, T:0.26
Consensus pattern (15 bp):
CCATTAAACCACTTG
Found at i:24623411 original size:128 final size:128
Alignment explanation
Indices: 24623266--24623548 Score: 566
Period size: 128 Copynumber: 2.2 Consensus size: 128
24623256 CGGTTATTTT
24623266 TCATTAAAATCATTATAATATGTTTTAATCAAAATTTATGAAATATTTTTTTAATATTTAAAAAA
1 TCATTAAAATCATTATAATATGTTTTAATCAAAATTTATGAAATATTTTTTTAATATTTAAAAAA
24623331 TAATAAAAATTTATGAATAAAAATTACCTTAATACACATTTTTAGTAATATATTTTTTTTAAA
66 TAATAAAAATTTATGAATAAAAATTACCTTAATACACATTTTTAGTAATATATTTTTTTTAAA
24623394 TCATTAAAATCATTATAATATGTTTTAATCAAAATTTATGAAATATTTTTTTAATATTTAAAAAA
1 TCATTAAAATCATTATAATATGTTTTAATCAAAATTTATGAAATATTTTTTTAATATTTAAAAAA
24623459 TAATAAAAATTTATGAATAAAAATTACCTTAATACACATTTTTAGTAATATATTTTTTTTAAA
66 TAATAAAAATTTATGAATAAAAATTACCTTAATACACATTTTTAGTAATATATTTTTTTTAAA
24623522 TCATTAAAATCATTATAATATGTTTTA
1 TCATTAAAATCATTATAATATGTTTTA
24623549 TAAAATAATA
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 155 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (128 bp):
TCATTAAAATCATTATAATATGTTTTAATCAAAATTTATGAAATATTTTTTTAATATTTAAAAAA
TAATAAAAATTTATGAATAAAAATTACCTTAATACACATTTTTAGTAATATATTTTTTTTAAA
Found at i:24625158 original size:21 final size:21
Alignment explanation
Indices: 24625132--24625172 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
24625122 GCTCATGTTC
*
24625132 TTTAGCGGCTCTTAAAAAAAT
1 TTTAGCGGCGCTTAAAAAAAT
24625153 TTTAGCGGCGCTTAAAAAAA
1 TTTAGCGGCGCTTAAAAAAA
24625173 AACGCCGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (21 bp):
TTTAGCGGCGCTTAAAAAAAT
Found at i:24625275 original size:42 final size:42
Alignment explanation
Indices: 24625216--24625295 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
24625206 AGCGCTTGTA
24625216 CAACAAACGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
1 CAACAAACGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
* ** *
24625258 CAACAAACGCCGCTAAAGTACATGTTCTTTAGCGGCGC
1 CAACAAACGCCGCTAAAGAACATGAGCTATAGCGGCGC
24625296 TTTCTTCACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.29, G:0.21, T:0.15
Consensus pattern (42 bp):
CAACAAACGCCGCTAAAGAACATGAGCTATAGCGGCGCAAAC
Found at i:24625317 original size:43 final size:43
Alignment explanation
Indices: 24625260--24625359 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
24625250 GCGCAAACCA
* *
24625260 ACAAACGCCGCTAAAGTACATGTTCTTTAGCGGCGCTTTCTTC-
1 ACAAACGCCGCTAAAG-AAATGTTCTTTAGCGGCGCTTTATTCT
* * *
24625303 ACAAATGCCGCTAAAAGAAATGTTCTTTAGCGGTGTTTTATTCT
1 ACAAACGCCGCT-AAAGAAATGTTCTTTAGCGGCGCTTTATTCT
24625347 ACAAACGCCGCTA
1 ACAAACGCCGCTA
24625360 TAAAACATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
43 34 0.69
44 15 0.31
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAAATGTTCTTTAGCGGCGCTTTATTCT
Found at i:24628617 original size:13 final size:12
Alignment explanation
Indices: 24628590--24628628 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
24628580 CTAAATAAAC
24628590 TTCATTCAGAAA
1 TTCATTCAGAAA
24628602 TTCATTCAGAAAA
1 TTCATTCAG-AAA
*
24628615 TTCATTCAGCAA
1 TTCATTCAGAAA
24628627 TT
1 TT
24628629 TGTATGTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (12 bp):
TTCATTCAGAAA
Found at i:24629731 original size:20 final size:20
Alignment explanation
Indices: 24629706--24629743 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24629696 AGTAATGCAT
*
24629706 TTTTAAAAAATAATTACACA
1 TTTTAAAAAATAAATACACA
24629726 TTTTAAAAAATAAATACA
1 TTTTAAAAAATAAATACA
24629744 TCAATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAATAAATACACA
Found at i:24629975 original size:15 final size:16
Alignment explanation
Indices: 24629945--24629980 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
24629935 TTTTTTTAAA
*
24629945 ATATTAATTTATATTT
1 ATATTAATTTACATTT
24629961 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
24629976 ATATT
1 ATATT
24629981 CTTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:24630142 original size:7 final size:7
Alignment explanation
Indices: 24630132--24630181 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
24630122 TCCCAAACTA
24630132 TAAACCC
1 TAAACCC
24630139 TAAACCC
1 TAAACCC
* *
24630146 TAAATCG
1 TAAACCC
*
24630153 TAAACCT
1 TAAACCC
*
24630160 TAAATCC
1 TAAACCC
24630167 TAAACCC
1 TAAACCC
24630174 TAAACCC
1 TAAACCC
24630181 T
1 T
24630182 CAATTAATCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.42, C:0.34, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:24630142 original size:21 final size:21
Alignment explanation
Indices: 24630118--24630181 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
24630108 CCGTAAATCA
24630118 TAAATCCCAAACTATAAACCC
1 TAAATCCCAAACTATAAACCC
* *
24630139 TAAA-CCCTAAA-TCGTAAACCT
1 TAAATCCC-AAACT-ATAAACCC
* **
24630160 TAAATCCTAAACCCTAAACCC
1 TAAATCCCAAACTATAAACCC
24630181 T
1 T
24630182 CAATTAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 4 0.12
21 27 0.82
22 2 0.06
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAATCCCAAACTATAAACCC
Found at i:24630149 original size:28 final size:28
Alignment explanation
Indices: 24630118--24630177 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
24630108 CCGTAAATCA
24630118 TAAATCCCAAA-CTATAAACCCTAAACCC
1 TAAATCCCAAACCT-TAAACCCTAAACCC
** *
24630146 TAAATCGTAAACCTTAAATCCTAAACCC
1 TAAATCCCAAACCTTAAACCCTAAACCC
24630174 TAAA
1 TAAA
24630178 CCCTCAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.22
Consensus pattern (28 bp):
TAAATCCCAAACCTTAAACCCTAAACCC
Found at i:24630276 original size:21 final size:22
Alignment explanation
Indices: 24630258--24630300 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24630248 ACCGTAAATC
24630258 TTAAACCC-TAAACCATAAACA
1 TTAAACCCGTAAACCATAAACA
*
24630279 TTAAACCCGTAAACCACAAACA
1 TTAAACCCGTAAACCATAAACA
24630301 ATAACCACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.51, C:0.30, G:0.02, T:0.16
Consensus pattern (22 bp):
TTAAACCCGTAAACCATAAACA
Found at i:24630384 original size:13 final size:13
Alignment explanation
Indices: 24630353--24630389 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
24630343 ACCCTAAAGT
24630353 CTAAACCATAAATC
1 CTAAACCAT-AATC
*
24630367 ATAAACCATAATC
1 CTAAACCATAATC
24630380 CTAAACCATA
1 CTAAACCATA
24630390 TCTTTGGGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (13 bp):
CTAAACCATAATC
Found at i:24631193 original size:113 final size:114
Alignment explanation
Indices: 24631045--24631551 Score: 578
Period size: 115 Copynumber: 4.4 Consensus size: 114
24631035 CTATTGGCTC
* * * * * *
24631045 TATAGCTGAAGACCAAATGTTGCGTTTCGATTAAGATATTTTGCGGTGCTTTTTATATTA-CGCC
1 TATACCTGAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTAGCGCC
* * *
24631109 GCTAATACTGTGATTTAGCGGCGAGTTTCATAAGCGCCACTAATTATAA
66 GCTAATACTGTGCTTTAGCGGCGATTTTCATAAGCGCCACTAATTCTAA
* * *
24631158 TATGCCTGAAGACCAAACGCTGTGTTTTGGTTAAGATATTTTGCGGCGCTTTTTAT-TTAGCACC
1 TATACCTGAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTAGCGCC
* * ***
24631222 GCTAATACTGTGCTTTAGCGGCGTTTTTCATAAACGCCACTAATTCCGG
66 GCTAATACTGTGCTTTAGCGGCGATTTTCATAAGCGCCACTAATTCTAA
* * * * * *
24631271 TATACCTCAAGACAAAAACGCTGCATTTTTTGTTAAGATATTTTTCGGCGCTTTTTTTA-TAGCG
1 TATACCTGAAGAC-CAAACGCTGC-GTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTAGCG
* *
24631335 CCGCTAATACTGTGCTTTAGCGGC-ATTTTTCGTAAGCGCCACTAATTCTGA
64 CCGCTAATACTGTGCTTTAGCGGCGA-TTTTCATAAGCGCCACTAATTCTAA
* * * *
24631386 TATACCTTAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCGGTGCTTTTTATATT-GCGC
1 TATACCTGAAGACC-AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTAGCGC
* *
24631450 CGCTAATACTGTGCTTTAGCGGTGTTTTTGCATAAGCGCCACTAATTCTAA
65 CGCTAATACTGTGCTTTAGCGGCGATTTT-CATAAGCGCCACTAATTCTAA
* ** * *
24631501 TATACCTCAAG-CTCCTACGCTGCGTTTTGTTTAACAT-TTTCTGCGGCGCTT
1 TATACCTGAAGAC-CAAACGCTGCGTTTTGGTTAAGATATTT-TGCGGCGCTT
24631552 ACAAATAAAC
Statistics
Matches: 332, Mismatches: 51, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
112 3 0.01
113 106 0.32
114 94 0.28
115 129 0.39
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (114 bp):
TATACCTGAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATATTAGCGCC
GCTAATACTGTGCTTTAGCGGCGATTTTCATAAGCGCCACTAATTCTAA
Found at i:24631339 original size:228 final size:230
Alignment explanation
Indices: 24631075--24631511 Score: 632
Period size: 228 Copynumber: 1.9 Consensus size: 230
24631065 TGCGTTTCGA
*
24631075 TTAAGATATTTTGCGGTGCTTTTTATATTACGCCGCTAATACTGTGATTTAGCGGCGA-GTTTCA
1 TTAAGATATTTTGCGGCGCTTTTTATATTACGCCGCTAATACTGTGATTTAGCGGC-ATGTTTCA
* * **
24631139 TAAGCGCCACTAATTATAATATGCCTGAAGACC-AAACGCTGTGTTTTGGTTAAGATATTTTGCG
65 TAAGCGCCACTAATTATAATATACCTGAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCG
24631203 GCGCTTTTTAT-TTAGCACCGCTAATACTGTGCTTTAGCGGCGTTTTT-CATAAACGCCACTAAT
130 GCGCTTTTTATATT-GCACCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAACGCCACTAAT
**
24631266 TCCGGTATACCTCAAGACAAAAACGCTGCATTTTTTG
194 TCCAATATACCTCAAGACAAAAACGCTGCATTTTTTG
* * * * *
24631303 TTAAGATATTTTTCGGCGCTTTTTTTA-TAGCGCCGCTAATACTGTGCTTTAGCGGCATTTTTCG
1 TTAAGATATTTTGCGGCGCTTTTTATATTA-CGCCGCTAATACTGTGATTTAGCGGCATGTTTCA
* * *
24631367 TAAGCGCCACTAATTCTGATATACCTTAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCG
65 TAAGCGCCACTAATTATAATATACCTGAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCG
* * * *
24631432 GTGCTTTTTATATTGCGCCGCTAATACTGTGCTTTAGCGGTGTTTTTGCATAAGCGCCACTAATT
130 GCGCTTTTTATATTGCACCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAACGCCACTAATT
*
24631497 CTAATATACCTCAAG
195 CCAATATACCTCAAG
24631512 CTCCTACGCT
Statistics
Matches: 184, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
227 3 0.02
228 82 0.45
229 69 0.38
230 30 0.16
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (230 bp):
TTAAGATATTTTGCGGCGCTTTTTATATTACGCCGCTAATACTGTGATTTAGCGGCATGTTTCAT
AAGCGCCACTAATTATAATATACCTGAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCGG
CGCTTTTTATATTGCACCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAACGCCACTAATTC
CAATATACCTCAAGACAAAAACGCTGCATTTTTTG
Found at i:24631567 original size:228 final size:228
Alignment explanation
Indices: 24631075--24631570 Score: 572
Period size: 228 Copynumber: 2.2 Consensus size: 228
24631065 TGCGTTTCGA
* * *** *
24631075 TTAAGATATTTTGCGGTGCTTTTTATATTACGCCGCTAATACTGTGATTTAGCGGCGAGTTTCAT
1 TTAACATATTTTGCGGCGCTTCAAATATAACGCCGCTAATACTGTGATTTAGCGGCGAGTTTCAT
* * **
24631140 AAGCGCCACTAATTATAATATGCCTGAAGACCAAACGCTGTGTTTTGGTTAAGATATTTTGCGGC
66 AAGCGCCACTAATTATAATATACCTGAAGACCAAACGCAGCATTTTGGTTAAGATATTTTGCGGC
*
24631205 GCTTTTTATTTAGCACCGCTAATACTGTGCTTTAGCGGCGTTTTTCATAAACGCCACTAATTCCG
131 GCTTTTTATTTAGCACCGCTAATACTGTGCTTTAGCGGCGTTTTTCATAAACGCCACTAATTCCA
* *
24631270 GTATACCTCAAGACAAAAACGCTGCATTTTTTG
196 ATATACCTCAAGACAAAAACGCTGCATTTTGTG
* * **** * * * *
24631303 TTAAGATATTTTTCGGCGCTTTTTTTATAGCGCCGCTAATACTGTGCTTTAGCGGC-ATTTTTCG
1 TTAACATATTTTGCGGCGCTTCAAATATAACGCCGCTAATACTGTGATTTAGCGGCGA-GTTTCA
* * *
24631367 TAAGCGCCACTAATTCTGATATACCTTAAGACCAAAACGCAGCATTTTGGTTAAGATATTTTGCG
65 TAAGCGCCACTAATTATAATATACCTGAAGACC-AAACGCAGCATTTTGGTTAAGATATTTTGCG
* * * *
24631432 GTGCTTTTTATATT-GCGCCGCTAATACTGTGCTTTAGCGGTGTTTTTGCATAAGCGCCACTAAT
129 GCGCTTTTTAT-TTAGCACCGCTAATACTGTGCTTTAGCGGCGTTTTT-CATAAACGCCACTAAT
* **** *
24631496 TCTAATATACCTCAAG-CTCCTACGCTGCGTTTTGT-
192 TCCAATATACCTCAAGACAAAAACGCTGCATTTTGTG
24631531 TTAACAT-TTTCTGCGGCGCTTACAAATA-AACGCCGCTAAT
1 TTAACATATTT-TGCGGCGCTT-CAAATATAACGCCGCTAAT
24631571 TGTGCTCTAT
Statistics
Matches: 227, Mismatches: 35, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
227 4 0.02
228 109 0.48
229 84 0.37
230 30 0.13
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (228 bp):
TTAACATATTTTGCGGCGCTTCAAATATAACGCCGCTAATACTGTGATTTAGCGGCGAGTTTCAT
AAGCGCCACTAATTATAATATACCTGAAGACCAAACGCAGCATTTTGGTTAAGATATTTTGCGGC
GCTTTTTATTTAGCACCGCTAATACTGTGCTTTAGCGGCGTTTTTCATAAACGCCACTAATTCCA
ATATACCTCAAGACAAAAACGCTGCATTTTGTG
Found at i:24635420 original size:31 final size:31
Alignment explanation
Indices: 24635385--24635450 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
24635375 TTTTGAGTTA
* * * * *
24635385 AATTTGGCCCTCAACTTTTTAAAAAGAGTCG
1 AATTTGACCATCAACCTTTCAAAAAAAGTCG
24635416 AATTTGACCATCAACCTTTCAAAAAAAGTCG
1 AATTTGACCATCAACCTTTCAAAAAAAGTCG
24635447 AATT
1 AATT
24635451 GTTATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (31 bp):
AATTTGACCATCAACCTTTCAAAAAAAGTCG
Done.