Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 48 of 160
Found at i:10523898 original size:27 final size:30
Alignment explanation
Indices: 10523845--10523905 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 30
10523835 AAAATGATTT
10523845 TTATATATTTCAAATATATTTTATAAAATA
1 TTATATATTTCAAATATATTTTATAAAATA
* *
10523875 TTATA-ATTT-AAA-ATATTTTTTAAAATT
1 TTATATATTTCAAATATATTTTATAAAATA
10523902 TTAT
1 TTAT
10523906 TATGATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 17 0.59
28 3 0.10
29 4 0.14
30 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (30 bp):
TTATATATTTCAAATATATTTTATAAAATA
Found at i:10524260 original size:14 final size:14
Alignment explanation
Indices: 10524243--10524273 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10524233 TAATTTTCTT
10524243 TTTTATAAAACATA
1 TTTTATAAAACATA
*
10524257 TTTTATAAAATATA
1 TTTTATAAAACATA
10524271 TTT
1 TTT
10524274 AAAAGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTATAAAACATA
Found at i:10524437 original size:20 final size:20
Alignment explanation
Indices: 10524412--10524456 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
10524402 TTTAAAAAGG
* *
10524412 AATTTAAAATTTTTAAT-TT
1 AATTTTAAATTTTGAATATT
*
10524431 AATTTTAAGTTTTGAATATT
1 AATTTTAAATTTTGAATATT
10524451 AATTTT
1 AATTTT
10524457 CTATTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
AATTTTAAATTTTGAATATT
Found at i:10525177 original size:21 final size:21
Alignment explanation
Indices: 10525151--10525201 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
10525141 TTCGAAATTA
**
10525151 ATAAAATATTATTTTTTTAAT
1 ATAAAATATTATTTTTAAAAT
10525172 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
10525193 AT-AAATATT
1 ATAAAATATT
10525202 TAAATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:10525207 original size:8 final size:8
Alignment explanation
Indices: 10525187--10525238 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
10525177 ATATTATTTT
10525187 TAAA-ATA
1 TAAATATA
*
10525194 TAAATATT
1 TAAATATA
10525202 TAAATATA
1 TAAATATA
*
10525210 TAATTATA
1 TAAATATA
10525218 TAAATATA
1 TAAATATA
* *
10525226 TAATTAAA
1 TAAATATA
10525234 TAAAT
1 TAAAT
10525239 TATTTAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
7 4 0.11
8 33 0.89
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAATATA
Found at i:10525229 original size:16 final size:16
Alignment explanation
Indices: 10525170--10525238 Score: 72
Period size: 16 Copynumber: 4.5 Consensus size: 16
10525160 TATTTTTTTA
*
10525170 ATATAAA-ATATTATT
1 ATATAAATATATAATT
* *
10525185 -TTTAAA-ATATAAAT
1 ATATAAATATATAATT
*
10525199 ATTTAAATATATAATT
1 ATATAAATATATAATT
10525215 ATATAAATATATAATT
1 ATATAAATATATAATT
*
10525231 AAATAAAT
1 ATATAAAT
10525239 TATTTAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
14 11 0.24
15 6 0.13
16 29 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATAAATATATAATT
Found at i:10525250 original size:12 final size:13
Alignment explanation
Indices: 10525193--10525255 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 13
10525183 TTTTTAAAAT
10525193 ATAAA-TATTTAAA
1 ATAAATTATTT-AA
*
10525206 TATATAATTATATAA
1 -ATA-AATTATTTAA
* *
10525221 ATATA-TAATTAA
1 ATAAATTATTTAA
10525233 ATAAATTATTTAA
1 ATAAATTATTTAA
10525246 A-AAATTATTT
1 ATAAATTATTT
10525256 TTTATATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 18 0.45
13 8 0.20
14 6 0.15
15 4 0.10
16 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAATTATTTAA
Found at i:10526341 original size:24 final size:24
Alignment explanation
Indices: 10526314--10526360 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
10526304 AATATTAGTT
*
10526314 TAATTAAAATAAAAAATATAACAC
1 TAATAAAAATAAAAAATATAACAC
*
10526338 TAATAAAAATAATAAATATAACA
1 TAATAAAAATAAAAAATATAACA
10526361 TAAATGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (24 bp):
TAATAAAAATAAAAAATATAACAC
Found at i:10527093 original size:21 final size:21
Alignment explanation
Indices: 10527068--10527109 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10527058 TGCAAATTAC
10527068 AATATTTATATTTAT-TTTTAA
1 AATATTT-TATTTATGTTTTAA
*
10527089 AATATTTTTTTTATGTTTTAA
1 AATATTTTATTTATGTTTTAA
10527110 TAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
AATATTTTATTTATGTTTTAA
Found at i:10527440 original size:2 final size:2
Alignment explanation
Indices: 10527433--10527471 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
10527423 CCTCAAACCT
*
10527433 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10527472 TTAATAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:10529053 original size:4 final size:4
Alignment explanation
Indices: 10529037--10529072 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
10529027 AATCAATATC
*
10529037 TATG TATTG TATG TATG TATG TGTG TATG TATG TAT
1 TATG TA-TG TATG TATG TATG TATG TATG TATG TAT
10529073 ATTCATATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:10532888 original size:29 final size:29
Alignment explanation
Indices: 10532856--10532930 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
10532846 AATTTACAGT
10532856 AAAATCATTAATATAATATTAAAAATT-TA
1 AAAAT-ATTAATATAATATTAAAAATTATA
10532885 AAAA-ATTTCAATATAATA-TAAAAATTATA
1 AAAATA-TT-AATATAATATTAAAAATTATA
*
10532914 AATATATTAAT-TAATAT
1 AAAATATTAATATAATAT
10532931 AATATTTACT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
27 6 0.15
28 13 0.32
29 20 0.50
30 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (29 bp):
AAAATATTAATATAATATTAAAAATTATA
Found at i:10534873 original size:76 final size:76
Alignment explanation
Indices: 10534787--10534938 Score: 259
Period size: 76 Copynumber: 2.0 Consensus size: 76
10534777 AAAGGTATTA
* **
10534787 TTTAAAGCGTATTTTTTAAAAATGCCTCAAAAAATTTGCTAATAAATTTTAAAAGAAATTATTTA
1 TTTAAAGCGTATTTTCTAAAAATGCCTCAAAAAATTCACTAATAAATTTTAAAAGAAATTATTTA
10534852 AGGTATTTTTG
66 AGGTATTTTTG
* *
10534863 TTTAAGGCGTATTTTCTAAAAATGTCTCAAAAAATTCACTAATAAATTTTAAAAGAAATTATTTA
1 TTTAAAGCGTATTTTCTAAAAATGCCTCAAAAAATTCACTAATAAATTTTAAAAGAAATTATTTA
10534928 AGGTATTTTTG
66 AGGTATTTTTG
10534939 GATAAGAAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (76 bp):
TTTAAAGCGTATTTTCTAAAAATGCCTCAAAAAATTCACTAATAAATTTTAAAAGAAATTATTTA
AGGTATTTTTG
Found at i:10534972 original size:76 final size:76
Alignment explanation
Indices: 10534803--10534964 Score: 202
Period size: 76 Copynumber: 2.1 Consensus size: 76
10534793 GCGTATTTTT
* ** **
10534803 TAAAAATGCCTCAAAAAATTTGCTAATAAATTTTAAAAGAAATTATTTAAGGTATTTTTGTTTAA
1 TAAAAATCCCTCAAAAAATTCACTAATAAATTTTAAAAGAAATTATTTAAGGTATTTTTGGATAA
*** *
10534868 GGCGTATTTTC
66 GAAATATTCTC
**
10534879 TAAAAATGTCTCAAAAAATTCACTAATAAATTTTAAAAGAAATTATTTAAGGTATTTTTGGATAA
1 TAAAAATCCCTCAAAAAATTCACTAATAAATTTTAAAAGAAATTATTTAAGGTATTTTTGGATAA
10534944 GAAATA-TCT-
66 GAAATATTCTC
10534953 TAAATAATCCCT
1 TAAA-AATCCCT
10534965 TTTAAAAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
74 4 0.05
75 7 0.09
76 63 0.85
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (76 bp):
TAAAAATCCCTCAAAAAATTCACTAATAAATTTTAAAAGAAATTATTTAAGGTATTTTTGGATAA
GAAATATTCTC
Found at i:10535084 original size:64 final size:63
Alignment explanation
Indices: 10534920--10535093 Score: 294
Period size: 63 Copynumber: 2.7 Consensus size: 63
10534910 TTTAAAAGAA
* * * *
10534920 ATTATTTAAGGTATTTTTGGATAAGAAATATCTTAAATAATCCCTTTTAAAAAAATATTGTGG
1 ATTAATTAAGGTATTTTTGGATAAAAAATATCTTAAATAATCCATTTAAAAAAAATATTGTGG
*
10534983 ATTAATTAAGGTGTTTTTGGATAAAAAATATCTTAAATAATCCATTTAAAAAAAATATTGTGG
1 ATTAATTAAGGTATTTTTGGATAAAAAATATCTTAAATAATCCATTTAAAAAAAATATTGTGG
10535046 ATTAATTAAGGTATTTTTGGATATAAAAATATCTTAAATAATCCATTT
1 ATTAATTAAGGTATTTTTGGATA-AAAAATATCTTAAATAATCCATTT
10535094 GTATTTTTTA
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
63 80 0.77
64 24 0.23
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (63 bp):
ATTAATTAAGGTATTTTTGGATAAAAAATATCTTAAATAATCCATTTAAAAAAAATATTGTGG
Found at i:10536454 original size:12 final size:13
Alignment explanation
Indices: 10536437--10536465 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10536427 GTAAATAAAT
10536437 AAAATAAAA-TAA
1 AAAATAAAAGTAA
10536449 AAAATAAAAGTAA
1 AAAATAAAAGTAA
10536462 AAAA
1 AAAA
10536466 AGGAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAATAAAAGTAA
Found at i:10536669 original size:12 final size:12
Alignment explanation
Indices: 10536654--10536693 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
10536644 AATACATATA
*
10536654 TAAATATAAAAT
1 TAAATATATAAT
*
10536666 TAAATAGATAAT
1 TAAATATATAAT
*
10536678 AAAATATATAAT
1 TAAATATATAAT
10536690 TAAA
1 TAAA
10536694 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (12 bp):
TAAATATATAAT
Found at i:10536671 original size:24 final size:24
Alignment explanation
Indices: 10536644--10536693 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
10536634 AAAGAAATCT
10536644 AATACAT-ATATAAATATAAAATTA
1 AATACATAATA-AAATATAAAATTA
* *
10536668 AATAGATAATAAAATATATAATTA
1 AATACATAATAAAATATAAAATTA
10536692 AA
1 AA
10536694 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
AATACATAATAAAATATAAAATTA
Found at i:10537163 original size:18 final size:18
Alignment explanation
Indices: 10537122--10537169 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
10537112 ATAAAAATGC
* **
10537122 AATAAAAAAGTTTTTTAA
1 AATAAAAAAATTTTAAAA
*
10537140 ATTAAAAAAATTTTAAAA
1 AATAAAAAAATTTTAAAA
10537158 AATAAAAAAATT
1 AATAAAAAAATT
10537170 GAAGAGTGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AATAAAAAAATTTTAAAA
Found at i:10538267 original size:10 final size:10
Alignment explanation
Indices: 10538252--10538296 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
10538242 TAATAAGATT
10538252 TTAAAATTAA
1 TTAAAATTAA
10538262 TTAAAAATT--
1 TT-AAAATTAA
10538271 TTAAAATTAA
1 TTAAAATTAA
*
10538281 TTAAAATTTA
1 TTAAAATTAA
10538291 TTAAAA
1 TTAAAA
10538297 AAATAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 6 0.19
9 2 0.06
10 17 0.55
11 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TTAAAATTAA
Found at i:10538288 original size:18 final size:19
Alignment explanation
Indices: 10538249--10538296 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
10538239 TTTTAATAAG
10538249 ATTTTAAAATTAATTAAAA
1 ATTTTAAAATTAATTAAAA
10538268 ATTTTAAAATTAATTAAAA
1 ATTTTAAAATTAATTAAAA
*
10538287 TTTATTAAAA
1 ATT-TTAAAA
10538297 AAATAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTTAAAATTAATTAAAA
Found at i:10539163 original size:22 final size:21
Alignment explanation
Indices: 10539136--10539195 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
10539126 AAAAATTTTC
10539136 TTTTCTTATATTTTTATTTAA
1 TTTTCTTATATTTTTATTTAA
*
10539157 TTATTCTTA-ATTTATTAGTTAA
1 TT-TTCTTATATTT-TTATTTAA
*
10539179 TTTT-TT-TAATTTTATTT
1 TTTTCTTATATTTTTATTT
10539196 TAACATTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
19 5 0.15
20 5 0.15
21 8 0.24
22 15 0.45
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTCTTATATTTTTATTTAA
Found at i:10539317 original size:24 final size:23
Alignment explanation
Indices: 10539290--10539339 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
10539280 ATAAGTATTT
* *
10539290 TAATATGCATAAATATTATAAAAA
1 TAATATACAAAAATATTA-AAAAA
*
10539314 TAATATATAAAAATATTAAAAAA
1 TAATATACAAAAATATTAAAAAA
10539337 TAA
1 TAA
10539340 AAAAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
TAATATACAAAAATATTAAAAAA
Found at i:10539335 original size:10 final size:11
Alignment explanation
Indices: 10539300--10539338 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 11
10539290 TAATATGCAT
10539300 AAATATTATAA
1 AAATATTATAA
10539311 AAATAATATATAA
1 AAAT-AT-TATAA
10539324 AAATATTA-AA
1 AAATATTATAA
10539334 AAATA
1 AAATA
10539339 AAAAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 7 0.27
11 6 0.23
12 4 0.15
13 9 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATATTATAA
Found at i:10540977 original size:52 final size:52
Alignment explanation
Indices: 10540796--10541005 Score: 179
Period size: 52 Copynumber: 4.2 Consensus size: 52
10540786 AAATTCTCTT
* * * * * *
10540796 TTGAAAGAGGCTTATTTCAGTAGAGGCTCAATAACTTT-AA-AAATTCTATC
1 TTGAAAAAGGCTCATCTAAGTAGAGGCTCAACAACTTTAAAGAAATTTTATC
* * *
10540846 TTGAAAAAAAGCT--TAT-AGCAGAGGCTCAAC-ACTTT--A-AAATTTTATC
1 TTG-AAAAAGGCTCATCTAAGTAGAGGCTCAACAACTTTAAAGAAATTTTATC
* * * *
10540892 TCGAAAAAAGGCTCATCTCATTAGAGGCTCAACAATTTTAAAGAAATTTTCATC
1 TTG-AAAAAGGCTCATCTAAGTAGAGGCTCAACAACTTTAAAGAAATTTT-ATC
* *
10540946 TTGAAAAA-GCTCTTCTAAGTAGAGGCTCAACAACTTTAAAGAAATTCTTATT
1 TTGAAAAAGGCTCATCTAAGTAGAGGCTCAACAACTTTAAAGAAATT-TTATC
10540998 TTGAAAAA
1 TTGAAAAA
10541006 AAAAAAGTCA
Statistics
Matches: 132, Mismatches: 18, Indels: 18
0.79 0.11 0.11
Matches are distributed among these distances:
46 21 0.16
47 5 0.04
48 14 0.11
49 14 0.11
50 7 0.05
51 7 0.05
52 45 0.34
53 14 0.11
54 5 0.04
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (52 bp):
TTGAAAAAGGCTCATCTAAGTAGAGGCTCAACAACTTTAAAGAAATTTTATC
Found at i:10559073 original size:22 final size:20
Alignment explanation
Indices: 10559046--10559104 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
10559036 AAAAATTTTC
10559046 TTTTCTTATATTTTTATTTAA
1 TTTTCTTA-ATTTTTATTTAA
*
10559067 TTATTCTTAATTTATTAGTTAA
1 TT-TTCTTAATTT-TTATTTAA
10559089 TTTT-TTAA-TTTTATTT
1 TTTTCTTAATTTTTATTT
10559105 TAACATTAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 5 0.15
19 2 0.06
20 4 0.12
21 8 0.24
22 15 0.44
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTCTTAATTTTTATTTAA
Found at i:10560287 original size:5 final size:5
Alignment explanation
Indices: 10560279--10560306 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
10560269 TTATTTTTTT
10560279 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
10560307 GGCTTTGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:10560764 original size:49 final size:51
Alignment explanation
Indices: 10560711--10560905 Score: 181
Period size: 52 Copynumber: 3.9 Consensus size: 51
10560701 GGCTTATTTC
*
10560711 AGTAGAGGCTCAATAACTTT-AAAAATTCTCATCTTGAAAAAAGGCTCCT-
1 AGTAGAGGCTCAACAACTTTAAAAAATTCTCATCTTGAAAAAAGGCTCCTA
* * ** *
10560760 AGTAGAGGCTCAAC-ACTTT--AAAATT-TTATATCAAAAAAAGGCTCCTTTC
1 AGTAGAGGCTCAACAACTTTAAAAAATTCTCATCTTGAAAAAAGGCTCC--TA
* *
10560809 AGCAGAGGCTCAACAACTTTAAAAAGATTTTCATCTTG-AAAAA-GCTTCTCTA
1 AGTAGAGGCTCAACAACTTTAAAAA-ATTCTCATCTTGAAAAAAGGC-TC-CTA
* * *
10560861 AGTAGAGGCTCAACAATTTTAAAAAAATTCTTATTTTGAAAAAAG
1 AGTAGAGGCTCAACAACTTT-AAAAAATTCTCATCTTGAAAAAAG
10560906 AAATGTCATT
Statistics
Matches: 117, Mismatches: 16, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
46 16 0.14
47 6 0.05
48 6 0.05
49 26 0.22
50 5 0.04
52 33 0.28
53 20 0.17
54 5 0.04
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (51 bp):
AGTAGAGGCTCAACAACTTTAAAAAATTCTCATCTTGAAAAAAGGCTCCTA
Found at i:10560805 original size:46 final size:49
Alignment explanation
Indices: 10560708--10560832 Score: 139
Period size: 49 Copynumber: 2.5 Consensus size: 49
10560698 AGAGGCTTAT
* * **
10560708 TTCAGTAGAGGCTCAATAACTTTAAAAATTCTCATCTTGAAAAAAGGCTCC
1 TTCAGTAGAGGCTCAA-CACTTT-AAAATTCTCATATCAAAAAAAGGCTCC
*
10560759 -T-AGTAGAGGCTCAACACTTTAAAATT-TTATATCAAAAAAAGGCTCC
1 TTCAGTAGAGGCTCAACACTTTAAAATTCTCATATCAAAAAAAGGCTCC
*
10560805 TTTCAGCAGAGGCTCAACAACTTTAAAA
1 -TTCAGTAGAGGCTCAAC-ACTTTAAAA
10560833 AGATTTTCAT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
46 16 0.25
47 6 0.09
48 6 0.09
49 26 0.41
50 10 0.16
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (49 bp):
TTCAGTAGAGGCTCAACACTTTAAAATTCTCATATCAAAAAAAGGCTCC
Found at i:10572696 original size:22 final size:21
Alignment explanation
Indices: 10572661--10572711 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
10572651 AATGCACACT
10572661 TTTTA-TT-TTTTTATTTAAAA
1 TTTTATTTATTTTTA-TTAAAA
*
10572681 TTTTATTTATTTTTATTAATA
1 TTTTATTTATTTTTATTAAAA
10572702 TTTTCATTTA
1 TTTT-ATTTA
10572712 AAAAAAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 5 0.19
21 11 0.41
22 11 0.41
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATTTATTTTTATTAAAA
Found at i:10580631 original size:5 final size:5
Alignment explanation
Indices: 10580623--10580647 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10580613 TTTTTGTTTT
10580623 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
10580648 AAGGCTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:10583378 original size:18 final size:18
Alignment explanation
Indices: 10583357--10583448 Score: 57
Period size: 18 Copynumber: 5.3 Consensus size: 18
10583347 TTCTTGATGC
10583357 ATTTGAGGTAAATGATAT
1 ATTTGAGGTAAATGATAT
*
10583375 ATTTGAGG---ATGATAC
1 ATTTGAGGTAAATGATAT
* ****
10583390 ATTTGTGGTGGGGGATAT
1 ATTTGAGGTAAATGATAT
*
10583408 ATTT-ATGGTAAATGATAC
1 ATTTGA-GGTAAATGATAT
** *
10583426 ATTTGAGGTGGAGGATAT
1 ATTTGAGGTAAATGATAT
10583444 ATTTG
1 ATTTG
10583449 TAGTGGATAA
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
15 13 0.24
18 40 0.74
19 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.29, T:0.38
Consensus pattern (18 bp):
ATTTGAGGTAAATGATAT
Found at i:10583407 original size:33 final size:35
Alignment explanation
Indices: 10583351--10583448 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 35
10583341 CCTTTGTTCT
* ** *
10583351 TGATGCATTTGAGGTAAATGATATATTTGA-GG-A
1 TGATACATTTGAGGTGGAGGATATATTTGATGGAA
* *
10583384 TGATACATTTGTGGTGGGGGATATATTT-ATGGTAAA
1 TGATACATTTGAGGTGGAGGATATATTTGATGG--AA
10583420 TGATACATTTGAGGTGGAGGATATATTTG
1 TGATACATTTGAGGTGGAGGATATATTTG
10583449 TAGTGGATAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
32 1 0.02
33 24 0.46
36 27 0.52
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.38
Consensus pattern (35 bp):
TGATACATTTGAGGTGGAGGATATATTTGATGGAA
Found at i:10583602 original size:111 final size:111
Alignment explanation
Indices: 10583444--10583665 Score: 327
Period size: 111 Copynumber: 2.0 Consensus size: 111
10583434 TGGAGGATAT
* *
10583444 ATTTGTAGTGGATAATAACCATATAAAGGTGGATAACCATAAAGAGGTTGAAAATTAGATTGTTT
1 ATTTGTAGTGAATAATAACCATATAAAGGTGGATAACCATAAAGAGGTTCAAAATTAGATTGTTT
* *
10583509 TGGTGGATAGTAACGTCCTTGAGTGCTAGCAGATGATTCACTATAC
66 TGGTGGATAGTAACGTCCTTAAGTACTAGCAGATGATTCACTATAC
* * * * *
10583555 ATTTGTGGTGAATAATAACTATATAAAGGTGGATAACCATGAGGAGGTTCAAAATTAGGTTGTTT
1 ATTTGTAGTGAATAATAACCATATAAAGGTGGATAACCATAAAGAGGTTCAAAATTAGATTGTTT
* * * *
10583620 TGGTGGATAGTAATGTTCTTAAGTATTAGTAGATGATTCACTATAC
66 TGGTGGATAGTAACGTCCTTAAGTACTAGCAGATGATTCACTATAC
10583666 TCAAAGTTAC
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 98 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (111 bp):
ATTTGTAGTGAATAATAACCATATAAAGGTGGATAACCATAAAGAGGTTCAAAATTAGATTGTTT
TGGTGGATAGTAACGTCCTTAAGTACTAGCAGATGATTCACTATAC
Found at i:10587782 original size:22 final size:22
Alignment explanation
Indices: 10587741--10587783 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10587731 AAAACAACAA
*
10587741 AAAATTATTAAATTTAAAATAT
1 AAAATTATTAAATTAAAAATAT
10587763 AAAATTA-TAAATTAATAAATA
1 AAAATTATTAAATTAA-AAATA
10587784 ACAAAATCAA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATTATTAAATTAAAAATAT
Found at i:10588053 original size:27 final size:28
Alignment explanation
Indices: 10588012--10588071 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
10588002 ATAAAAACTA
*
10588012 CCCACCATCAACCT-ACCCTCTAATGCAC
1 CCCACCATCAACCTAACCC-CCAATGCAC
*
10588040 CCCACC-TCACCCTAACCCCCAATGCAC
1 CCCACCATCAACCTAACCCCCAATGCAC
*
10588067 ACCAC
1 CCCAC
10588072 TCCACCCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.28, C:0.55, G:0.03, T:0.13
Consensus pattern (28 bp):
CCCACCATCAACCTAACCCCCAATGCAC
Found at i:10589149 original size:252 final size:253
Alignment explanation
Indices: 10588703--10589209 Score: 775
Period size: 252 Copynumber: 2.0 Consensus size: 253
10588693 ATTATTCCCC
*
10588703 TTTACGCCATTTTTCAATGACCGTTACACAATATACTTGAGTATGATTAAATTTTTCAACCATAT
1 TTTACGCCATTTTTCAATGACCGTTACACAATATACTTGAGTATGATTAAAATTTTCAACCATAT
* * * *
10588768 TTTTCTCGATAGCGATGACAGATGGTAGTGTTACTATAATTTTGTAGTCGTTATTCTGTTATGGC
66 TTTTCTCGATAGCGATGACAGATGGTAGTGCTACTATAATTTTGTAGCCGTTATTCTGCTATAGC
* * * *
10588833 ACTGCTATTTGAATCCCTGGTTCAATATTTTTAATCATTATATTTCACTTAAGAACTAGCCTATT
131 ACTGCTATTTGAATCCCTAGTTCAATATTTTCAATCATTATATTCCACTCAAGAACTAGCCTATT
*
10588898 ATGAAGACATCTTAAAGGTAGTGGAAACCAAAATTACATCTGAAATGAATAACCAACT
196 ATGAAGACATCTTAAAGGTAGTGGAAACCAAAATTACACCTGAAATGAATAACCAACT
* ** * * * *
10588956 TTTACGCCATTTTTCAGTGGTCGTTACACACTAT-TTTGAGTATGATTAAAATTTTCAATCGTAT
1 TTTACGCCATTTTTCAATGACCGTTACACAATATACTTGAGTATGATTAAAATTTTCAACCATAT
* * *
10589020 TTTTTTCGATAGTGATGACAGATGGTAGTGCTACTATAATTTTGTGGCCGTTATTCTGCTATAGC
66 TTTTCTCGATAGCGATGACAGATGGTAGTGCTACTATAATTTTGTAGCCGTTATTCTGCTATAGC
* *
10589085 ACCT-TTATTTGAATCCCTAGTTCAATATTTTCAATCATTATATTCCACTCAAGAACTGGCCTAT
131 A-CTGCTATTTGAATCCCTAGTTCAATATTTTCAATCATTATATTCCACTCAAGAACTAGCCTAT
**
10589149 TATGAAGACATCTTAAAGGTAGTGGAAACCAAAATTATGCCTGAAATGAATAACCAACT
195 TATGAAGACATCTTAAAGGTAGTGGAAACCAAAATTACACCTGAAATGAATAACCAACT
10589208 TT
1 TT
10589210 GACATAATTT
Statistics
Matches: 229, Mismatches: 24, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
252 197 0.86
253 32 0.14
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (253 bp):
TTTACGCCATTTTTCAATGACCGTTACACAATATACTTGAGTATGATTAAAATTTTCAACCATAT
TTTTCTCGATAGCGATGACAGATGGTAGTGCTACTATAATTTTGTAGCCGTTATTCTGCTATAGC
ACTGCTATTTGAATCCCTAGTTCAATATTTTCAATCATTATATTCCACTCAAGAACTAGCCTATT
ATGAAGACATCTTAAAGGTAGTGGAAACCAAAATTACACCTGAAATGAATAACCAACT
Found at i:10605537 original size:24 final size:24
Alignment explanation
Indices: 10605484--10605537 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
10605474 AGGTCCCACA
* *
10605484 TTTTTAATCTATTTTTGATTTTAT
1 TTTTTTATCTATTTTTAATTTTAT
* * *
10605508 TATTTTATCTTTTTTTAATTTTCT
1 TTTTTTATCTATTTTTAATTTTAT
10605532 TTTTTT
1 TTTTTT
10605538 TTTATATTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTTATCTATTTTTAATTTTAT
Found at i:10605853 original size:16 final size:16
Alignment explanation
Indices: 10605832--10605877 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
10605822 TTTTTCCATT
10605832 ATTTTTTTAATATTTA
1 ATTTTTTTAATATTTA
* *
10605848 ATTTTTTTTATATTTTG
1 ATTTTTTTAATA-TTTA
*
10605865 ACTTTTTTAATAT
1 ATTTTTTTAATAT
10605878 GGTTGCTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (16 bp):
ATTTTTTTAATATTTA
Found at i:10606377 original size:35 final size:35
Alignment explanation
Indices: 10606338--10606414 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
10606328 CTAAAAATAA
10606338 ATTTTCTAG-AAA-CCATAACACTTCTCGAAAAATGC
1 ATTTT-TAGAAAAGCCATAACACTTCTCG-AAAATGC
* ** *
10606373 ATTTTTTGAAAAGGTATAACACTTCTTGAAAATGC
1 ATTTTTAGAAAAGCCATAACACTTCTCGAAAATGC
10606408 ATTTTTA
1 ATTTTTA
10606415 TACCTTTTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 2 0.06
35 21 0.60
36 12 0.34
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (35 bp):
ATTTTTAGAAAAGCCATAACACTTCTCGAAAATGC
Found at i:10606916 original size:22 final size:22
Alignment explanation
Indices: 10606890--10606932 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10606880 AATTTTATCA
* *
10606890 AAATCTAATATGCTAATTAGAG
1 AAATCTAATATGATAAGTAGAG
*
10606912 AAATCTATTATGATAAGTAGA
1 AAATCTAATATGATAAGTAGA
10606933 TAAAGATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (22 bp):
AAATCTAATATGATAAGTAGAG
Found at i:10607163 original size:14 final size:14
Alignment explanation
Indices: 10607146--10607175 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10607136 ATTCTAATAA
10607146 AATTTTCTTTTTAT
1 AATTTTCTTTTTAT
*
10607160 AATTTTTTTTTTAT
1 AATTTTCTTTTTAT
10607174 AA
1 AA
10607176 ACTTTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
AATTTTCTTTTTAT
Found at i:10607318 original size:34 final size:35
Alignment explanation
Indices: 10607213--10607332 Score: 111
Period size: 34 Copynumber: 3.5 Consensus size: 35
10607203 TCATTTCCAG
* *
10607213 GAAGTGTTATGACATT-TT-GAAAATACTTTTTTGA
1 GAAGTGTTATGAC-TTCTTAGAAAATGCATTTTTGA
* * * * *
10607247 AAAGTGTTATGATTTCTTGGAAAATGTATTTTCGA
1 GAAGTGTTATGACTTCTTAGAAAATGCATTTTTGA
* *
10607282 GAAGTGTAATGACTTCTTAG-ATATGCATTTTTGA
1 GAAGTGTTATGACTTCTTAGAAAATGCATTTTTGA
* *
10607316 GAAATATTATGACTTCT
1 GAAGTGTTATGACTTCT
10607333 CGAAAGTTTA
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
33 2 0.03
34 38 0.56
35 28 0.41
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.42
Consensus pattern (35 bp):
GAAGTGTTATGACTTCTTAGAAAATGCATTTTTGA
Found at i:10607358 original size:34 final size:34
Alignment explanation
Indices: 10607315--10607379 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
10607305 TGCATTTTTG
* *
10607315 AGAAATATTATGACTTCTCGAAAGTTTATTTCTA
1 AGAAATATTATGACTTATCGAAAGTGTATTTCTA
*
10607349 AGAAGTATTATGACTTATCGAAAGTGTATTT
1 AGAAATATTATGACTTATCGAAAGTGTATTT
10607380 TTTAAAGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.40
Consensus pattern (34 bp):
AGAAATATTATGACTTATCGAAAGTGTATTTCTA
Found at i:10609264 original size:17 final size:17
Alignment explanation
Indices: 10609239--10609272 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10609229 ATCACTATTT
* *
10609239 TTATTTTTTTCAAAAAA
1 TTATATTTTCCAAAAAA
10609256 TTATATTTTCCAAAAAA
1 TTATATTTTCCAAAAAA
10609273 ACTAAAAACA
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:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATATTTTCCAAAAAA
Found at i:10609322 original size:27 final size:29
Alignment explanation
Indices: 10609292--10609359 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 29
10609282 AACAAAATAC
*
10609292 TAAAAATATTTATTTTT-TATTAT-TAAA
1 TAAAAATATTTATTTTTATATTATCAAAA
* * *
10609319 TAAAAACATATAATTTTTATTTTATCAAAA
1 TAAAAATAT-TTATTTTTATATTATCAAAA
10609349 TAAAAATATTT
1 TAAAAATATTT
10609360 GCAAGTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
27 8 0.25
28 7 0.22
29 6 0.19
30 11 0.34
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (29 bp):
TAAAAATATTTATTTTTATATTATCAAAA
Found at i:10614566 original size:12 final size:13
Alignment explanation
Indices: 10614551--10614600 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 13
10614541 GTGTTTTATG
10614551 TCTCTTT-TTTCT
1 TCTCTTTCTTTCT
10614563 TCTCTTTCTTTCT
1 TCTCTTTCTTTCT
*
10614576 TAT-TTTCTTTCT
1 TCTCTTTCTTTCT
*
10614588 T-TCCTT-TTTCT
1 TCTCTTTCTTTCT
10614599 TC
1 TC
10614601 CACTCATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 7 0.21
12 19 0.58
13 7 0.21
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (13 bp):
TCTCTTTCTTTCT
Found at i:10614584 original size:16 final size:15
Alignment explanation
Indices: 10614565--10614599 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
10614555 TTTTTTCTTC
*
10614565 TCTTTCTTTCTTATTT
1 TCTTTCTTTCCT-TTT
10614581 TCTTTCTTTCCTTTT
1 TCTTTCTTTCCTTTT
10614596 TCTT
1 TCTT
10614600 CCACTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
TCTTTCTTTCCTTTT
Found at i:10614721 original size:7 final size:7
Alignment explanation
Indices: 10614701--10614737 Score: 51
Period size: 6 Copynumber: 5.4 Consensus size: 7
10614691 ACAGCCATTC
10614701 TTTCTTT
1 TTTCTTT
10614708 CTTTCTTT
1 -TTTCTTT
10614716 TTTCTTT
1 TTTCTTT
10614723 TTT-TTT
1 TTTCTTT
10614729 TTT-TTT
1 TTTCTTT
10614735 TTT
1 TTT
10614738 GCATTTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.41
7 10 0.34
8 7 0.24
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTCTTT
Found at i:10616041 original size:2 final size:2
Alignment explanation
Indices: 10616036--10616067 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10616026 GGGGGGGGGG
10616036 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10616068 AAGTACTCAA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10616122 original size:45 final size:45
Alignment explanation
Indices: 10616073--10616163 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
10616063 AGAGAAAGTA
10616073 CTCAAAGTTCCCAACTTGTAGAGAGATTATTCACTCTTCCTTGGT
1 CTCAAAGTTCCCAACTTGTAGAGAGATTATTCACTCTTCCTTGGT
10616118 CTCAAAGTTCCCAACTTGTAGAGAGATTATTCACTCTTCCTTGGT
1 CTCAAAGTTCCCAACTTGTAGAGAGATTATTCACTCTTCCTTGGT
10616163 C
1 C
10616164 AACCCCGGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (45 bp):
CTCAAAGTTCCCAACTTGTAGAGAGATTATTCACTCTTCCTTGGT
Found at i:10616286 original size:2 final size:2
Alignment explanation
Indices: 10616279--10616316 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10616269 GGTTATGAAT
10616279 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10616317 TAGTACCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10623905 original size:2 final size:2
Alignment explanation
Indices: 10623900--10623926 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10623890 GAAAGAGGGG
10623900 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
10623927 TCCACATAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10626192 original size:2 final size:2
Alignment explanation
Indices: 10626185--10626222 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10626175 TTTGAAAGGA
10626185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10626223 GAAAAGCACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10629277 original size:2 final size:2
Alignment explanation
Indices: 10629270--10629301 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10629260 TTTTTAGTTG
10629270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10629302 TATCGAGAAT
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):
AT
Found at i:10629550 original size:15 final size:16
Alignment explanation
Indices: 10629523--10629555 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
10629513 AATACATTCT
10629523 AAAAATTTAATTTAAA
1 AAAAATTTAATTTAAA
10629539 AAAAATTT-ATTTAAA
1 AAAAATTTAATTTAAA
10629554 AA
1 AA
10629556 TTTATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAATTTAATTTAAA
Found at i:10629606 original size:13 final size:14
Alignment explanation
Indices: 10629575--10629609 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
10629565 TAATTATTTT
10629575 TTTTATTTTTCACA
1 TTTTATTTTTCACA
10629589 TTTTATTTTTCACA
1 TTTTATTTTTCACA
10629603 -TTTATTT
1 TTTTATTT
10629610 CTAAAAACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTTTCACA
Found at i:10630249 original size:34 final size:34
Alignment explanation
Indices: 10630169--10630269 Score: 103
Period size: 34 Copynumber: 3.0 Consensus size: 34
10630159 AATGCATTTA
* * * ***
10630169 AAAAAATTATAACACTTATCAAAAATGTATTTTC
1 AAAAAATCATAATACTTTTCAAAAAAAAATTTTC
*
10630203 AAAAAATTATAATACTTTTCAAAAAAAAATTTTC
1 AAAAAATCATAATACTTTTCAAAAAAAAATTTTC
* * * *
10630237 AAAAACTCATAATATTTTTTAAAAATAAATTTT
1 AAAAAATCATAATACTTTTCAAAAAAAAATTTT
10630270 TGAAAAAGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.38
Consensus pattern (34 bp):
AAAAAATCATAATACTTTTCAAAAAAAAATTTTC
Found at i:10630368 original size:15 final size:15
Alignment explanation
Indices: 10630339--10630382 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
10630329 ATTAATGTAA
10630339 TAAAAAATTAT-AAT
1 TAAAAAATTATAAAT
10630353 TAAAAAATTATAAAT
1 TAAAAAATTATAAAT
**
10630368 TTTAAAATTAATAAA
1 TAAAAAATT-ATAAA
10630383 AAAATAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 11 0.42
15 10 0.38
16 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAAAATTATAAAT
Found at i:10638139 original size:18 final size:19
Alignment explanation
Indices: 10638118--10638156 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10638108 AAAAAAACTT
*
10638118 ATAAAAT-AAATATAATAA
1 ATAAAATAAAATATAAAAA
10638136 AT-AAATAAAATATAAAAA
1 ATAAAATAAAATATAAAAA
10638154 ATA
1 ATA
10638157 CCAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
ATAAAATAAAATATAAAAA
Found at i:10639084 original size:3 final size:3
Alignment explanation
Indices: 10639076--10639133 Score: 66
Period size: 3 Copynumber: 19.0 Consensus size: 3
10639066 AATCAACCAA
10639076 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AATT AA- AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT
*
10639121 AAAT ATT AAT AAT
1 -AAT AAT AAT AAT
10639134 TGGGCTCATA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
2 4 0.08
3 36 0.73
4 9 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10639398 original size:43 final size:44
Alignment explanation
Indices: 10639350--10639438 Score: 128
Period size: 43 Copynumber: 2.0 Consensus size: 44
10639340 ACTCTTATAG
*
10639350 GCAAAGGCTCACA-AACTTTGAAAAAT-AAATAATGCTCATCTAA
1 GCAAAGGCTCA-ATAACTTTGAAAAATAAAATAAAGCTCATCTAA
* *
10639393 GCAAAGGCTTAATAACTTTGAAAAATAAAATAAAGCTCTTCTAA
1 GCAAAGGCTCAATAACTTTGAAAAATAAAATAAAGCTCATCTAA
10639437 GC
1 GC
10639439 TCCTATAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
42 1 0.02
43 23 0.56
44 17 0.41
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (44 bp):
GCAAAGGCTCAATAACTTTGAAAAATAAAATAAAGCTCATCTAA
Found at i:10641273 original size:52 final size:51
Alignment explanation
Indices: 10641217--10641317 Score: 157
Period size: 52 Copynumber: 2.0 Consensus size: 51
10641207 TTCATTATTA
*
10641217 GGATATTTGACACCCATTCAATTGTTGATTGACCATTGTCCTTTTGTTTTTT
1 GGATATTTGACACCCATTCAATTATTGATTGACCATTGT-CTTTTGTTTTTT
* **
10641269 GGATATTTGATACCCATTCAATTATTGATTGATTATTGTCTTTTGTTTT
1 GGATATTTGACACCCATTCAATTATTGATTGACCATTGTCTTTTGTTTT
10641318 CAAATTCATG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 10 0.22
52 35 0.78
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.50
Consensus pattern (51 bp):
GGATATTTGACACCCATTCAATTATTGATTGACCATTGTCTTTTGTTTTTT
Found at i:10642252 original size:43 final size:43
Alignment explanation
Indices: 10642189--10642425 Score: 171
Period size: 43 Copynumber: 5.5 Consensus size: 43
10642179 ATCAAATATC
* * *
10642189 TCATTCTATTTTTTTCAAAG-TTCTAAGACCTC-GTTGTGGGGGA
1 TCATTTTA-TTTTTTCAAAGTTTCAAAG-CCTCAGTTGTGGGGAA
*
10642232 TCATTTTATTTTTTCAAAAGTTTCAAAGTCTCAGTTGTGGGGAA
1 TCATTTTATTTTTTC-AAAGTTTCAAAGCCTCAGTTGTGGGGAA
* * * ** ** *
10642276 ACATTTTA-TTTTCCAAAGTTTCAAAACCTCAAATACGGGAGAG
1 TCATTTTATTTTTTCAAAGTTTCAAAGCCTCAGTTGTGGG-GAA
* * *
10642319 T-ATTTTA-TTTTTCAAAAGTTTCAAAGCCTTAGTTTTGAAGG-A
1 TCATTTTATTTTTTC-AAAGTTTCAAAGCCTCAGTTGTG-GGGAA
* * * * * *
10642361 GCATTTTATTTTTCCAAATTTTCAAAGTCTCAATTGTGGAGAA
1 TCATTTTATTTTTTCAAAGTTTCAAAGCCTCAGTTGTGGGGAA
*
10642404 GCATTTTATTTTTTCCAAAGTT
1 TCATTTTATTTTTT-CAAAGTT
10642426 GAAGCATTGA
Statistics
Matches: 150, Mismatches: 34, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
42 38 0.25
43 77 0.51
44 35 0.23
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.42
Consensus pattern (43 bp):
TCATTTTATTTTTTCAAAGTTTCAAAGCCTCAGTTGTGGGGAA
Found at i:10642410 original size:86 final size:86
Alignment explanation
Indices: 10642233--10642425 Score: 223
Period size: 85 Copynumber: 2.2 Consensus size: 86
10642223 TGTGGGGGAT
* *
10642233 CATTTTATTTTTTCAAAAGTTTCAAAGTCTCAGTTGTGGGGAAACATTTTATTTTCCAAAGTTTC
1 CATTTTATTTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAGGAAACATTTTATTTTCCAAAGTTTC
10642298 AAAACCTCAAATACGGGAGAG
66 AAAACCTCAAATACGGGAGAG
* * * * *
10642319 TATTTTA-TTTTTCAAAAGTTTCAAAGCCTTAGTTTTGAAGG-AGCATTTTATTTTTCCAAATTT
1 CATTTTATTTTTTCAAAAGTTTCAAAGCCTCAGTTGTG-AGGAAACATTTTA-TTTTCCAAAGTT
** *
10642382 TCAAAGTCTC-AAT-TGTGGAGAAG
64 TCAAAACCTCAAATACG-GGAG-AG
*
10642405 CATTTTATTTTTTCCAAAGTT
1 CATTTTATTTTTTCAAAAGTT
10642426 GAAGCATTGA
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
84 1 0.01
85 42 0.47
86 35 0.39
87 12 0.13
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (86 bp):
CATTTTATTTTTTCAAAAGTTTCAAAGCCTCAGTTGTGAGGAAACATTTTATTTTCCAAAGTTTC
AAAACCTCAAATACGGGAGAG
Found at i:10642810 original size:17 final size:16
Alignment explanation
Indices: 10642782--10642821 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
10642772 GAAAATCTTA
10642782 ATTTTAAATTTGATTTT
1 ATTTT-AATTTGATTTT
10642799 AGTTTTAATTTGATTTT
1 A-TTTTAATTTGATTTT
10642816 ATTTTA
1 ATTTTA
10642822 TTAGTCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 13 0.59
18 4 0.18
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (16 bp):
ATTTTAATTTGATTTT
Found at i:10643425 original size:17 final size:17
Alignment explanation
Indices: 10643397--10643432 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
10643387 CTTATTTTTA
10643397 TATTTATTACATGATATT
1 TATTTATTACATGA-ATT
10643415 TATTT-TTACATGAATT
1 TATTTATTACATGAATT
10643431 TA
1 TA
10643433 CATGACTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 8 0.44
18 5 0.28
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
TATTTATTACATGAATT
Found at i:10643534 original size:21 final size:21
Alignment explanation
Indices: 10643491--10643646 Score: 97
Period size: 21 Copynumber: 7.2 Consensus size: 21
10643481 ATTGCATGTT
**
10643491 ATTAATATATTTATTTCCATG
1 ATTAATATATTTATTTGTATG
*
10643512 ATTAATATATTTATTTGTGTGATTT
1 ATTAATATATTTA-TT-TGT-A-TG
** *
10643537 ATTAATATATTTACATG-ATT
1 ATTAATATATTTATTTGTATG
*
10643557 ATTAATATATTTATTTGTATA
1 ATTAATATATTTATTTGTATG
* *
10643578 ATTATATTTAATTTGA-TTGCATGATT
1 ATTA-ATAT-ATTT-ATTTG--T-ATG
10643604 ATTAATATATTTATTTGTATG
1 ATTAATATATTTATTTGTATG
*
10643625 ATT-ATAT-TTTA-TTGCATG
1 ATTAATATATTTATTTGTATG
10643643 ATTA
1 ATTA
10643647 TTAATGTATT
Statistics
Matches: 109, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
18 9 0.08
19 4 0.04
20 21 0.19
21 25 0.23
22 6 0.06
23 11 0.10
24 9 0.08
25 18 0.17
26 6 0.06
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (21 bp):
ATTAATATATTTATTTGTATG
Found at i:10643607 original size:47 final size:45
Alignment explanation
Indices: 10643512--10643689 Score: 202
Period size: 47 Copynumber: 3.9 Consensus size: 45
10643502 TATTTCCATG
* * *
10643512 ATTAATATATTTATTTGTGTGATT-TATTAATATATTTACATGATT
1 ATTAATATATTTATTTGTATGATTATATTAATTTA-TTGCATGATT
*
10643557 ATTAATATATTTATTTGTATAATTATATTTAATTTGATTGCATGATT
1 ATTAATATATTTATTTGTATGATTATA-TTAATTT-ATTGCATGATT
10643604 ATTAATATATTTATTTGTATGATTATA-T--TTTATTGCATGATT
1 ATTAATATATTTATTTGTATGATTATATTAATTTATTGCATGATT
* * * *
10643646 ATTAATGTATTTAATTGCATGATTATTAGTATATTTATTTGCAT
1 ATTAATATATTTATTTGTATGATTA-TATTA-ATTTA-TTGCAT
10643690 ATTTATTTGC
Statistics
Matches: 116, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
42 33 0.28
43 5 0.04
44 1 0.01
45 23 0.20
46 2 0.02
47 45 0.39
48 7 0.06
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (45 bp):
ATTAATATATTTATTTGTATGATTATATTAATTTATTGCATGATT
Found at i:10643608 original size:113 final size:110
Alignment explanation
Indices: 10643481--10643695 Score: 281
Period size: 113 Copynumber: 1.9 Consensus size: 110
10643471 TATGTGTGCA
**
10643481 ATTGCATGTTATTAATATATTTATTTCCATGATTAATATATTTATTTGTGTGATTTATTAATATA
1 ATTGCATGTTATTAATATATTTATTTCCATGATT-ATAT-TTTA-TTGCATGA-TTATTAATATA
*
10643546 TTT-A-CATGATTATTAATATATTTATTTGTATAATTATATTTAATTTG
62 TTTAATCATGATTATTAATATATTTATTTGCATAATTATATTTAATTTG
** *
10643593 ATTGCATGATTATTAATATATTTATTTGTATGATTATATTTTATTGCATGATTATTAATGTATTT
1 ATTGCATG-TTATTAATATATTTATTTCCATGATTATATTTTATTGCATGATTATTAATATATTT
* *
10643658 AATTGCATGATTATTAGTATATTTATTTGCATATTTAT
65 AA-T-CATGATTATTAATATATTTATTTGCATAATTAT
10643696 TTGCATGATA
Statistics
Matches: 90, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
109 13 0.14
110 7 0.08
111 4 0.04
112 12 0.13
113 54 0.60
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (110 bp):
ATTGCATGTTATTAATATATTTATTTCCATGATTATATTTTATTGCATGATTATTAATATATTTA
ATCATGATTATTAATATATTTATTTGCATAATTATATTTAATTTG
Found at i:10643632 original size:18 final size:18
Alignment explanation
Indices: 10643608--10643647 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
10643598 ATGATTATTA
*
10643608 ATATATTTATTTGTATGATT
1 ATAT-TTTA-TTGCATGATT
10643628 ATATTTTATTGCATGATT
1 ATATTTTATTGCATGATT
10643646 AT
1 AT
10643648 TAATGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 4 0.21
20 4 0.21
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (18 bp):
ATATTTTATTGCATGATT
Found at i:10643691 original size:12 final size:12
Alignment explanation
Indices: 10643653--10643701 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
10643643 ATTATTAATG
*
10643653 TATTTAATTGCA
1 TATTTATTTGCA
* *
10643665 TGA-TTATTAGTA
1 T-ATTTATTTGCA
10643677 TATTTATTTGCA
1 TATTTATTTGCA
10643689 TATTTATTTGCA
1 TATTTATTTGCA
10643701 T
1 T
10643702 GATAATACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 1 0.03
12 28 0.93
13 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (12 bp):
TATTTATTTGCA
Found at i:10643696 original size:24 final size:24
Alignment explanation
Indices: 10643482--10643689 Score: 180
Period size: 24 Copynumber: 9.2 Consensus size: 24
10643472 ATGTGTGCAA
10643482 TTGCATG-TTATTAATATATTTAT
1 TTGCATGATTATTAATATATTTAT
*
10643505 TTCCATG---ATTAATATATTTAT
1 TTGCATGATTATTAATATATTTAT
**
10643526 TTGTGTGATTTATTAATATATTTA-
1 TTGCATGA-TTATTAATATATTTAT
10643550 ---CATGATTATTAATATATTTAT
1 TTGCATGATTATTAATATATTTAT
* * *
10643571 TTGTATAATTA-T-ATTTAATTTGA-
1 TTGCATGATTATTAATAT-ATTT-AT
10643594 TTGCATGATTATTAATATATTTAT
1 TTGCATGATTATTAATATATTTAT
*
10643618 TTG--T-ATGATT-ATAT-TTTA-
1 TTGCATGATTATTAATATATTTAT
* *
10643636 TTGCATGATTATTAATGTATTTAA
1 TTGCATGATTATTAATATATTTAT
*
10643660 TTGCATGATTATTAGTATATTTAT
1 TTGCATGATTATTAATATATTTAT
10643684 TTGCAT
1 TTGCAT
10643690 ATTTATTTGC
Statistics
Matches: 148, Mismatches: 18, Indels: 37
0.73 0.09 0.18
Matches are distributed among these distances:
18 3 0.02
19 4 0.03
20 20 0.14
21 31 0.21
22 7 0.05
23 25 0.17
24 42 0.28
25 16 0.11
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.55
Consensus pattern (24 bp):
TTGCATGATTATTAATATATTTAT
Found at i:10643783 original size:59 final size:58
Alignment explanation
Indices: 10643696--10643830 Score: 189
Period size: 59 Copynumber: 2.3 Consensus size: 58
10643686 GCATATTTAT
* * *
10643696 TTGCATGATAATACATTTAATTGCATAATTAGTAATATATTTGCAAGGTATTTTATTTTTA
1 TTGCATGAT--TATATTTAATTGCATAATTACTAATATATTTGCAAGGTATTTTA-TATTA
* * *
10643757 TTGCATGGTTATATTTAGTTGCATAATTACTAATATATTTGCATGGTATTTTATATTA
1 TTGCATGATTATATTTAATTGCATAATTACTAATATATTTGCAAGGTATTTTATATTA
10643815 TTGCATGATTATATTT
1 TTGCATGATTATATTT
10643831 GCATGAATGG
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 19 0.28
59 40 0.60
61 8 0.12
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.50
Consensus pattern (58 bp):
TTGCATGATTATATTTAATTGCATAATTACTAATATATTTGCAAGGTATTTTATATTA
Found at i:10643854 original size:58 final size:59
Alignment explanation
Indices: 10643720--10643884 Score: 181
Period size: 58 Copynumber: 2.8 Consensus size: 59
10643710 ATTTAATTGC
* * * * * *
10643720 ATAATTAGTAATATATTTGCAAGGTATTTTATTTTTATTGCATGGTTATATTTAGTTGC
1 ATAATTACTAATATATTTGCATGGTATTTTATTATTATTGCATGATTATATTTAGATGA
10643779 ATAATTACTAATATATTTGCATGGTATTTTA-TATTATTGCATGATTATATTT-GCATGA
1 ATAATTACTAATATATTTGCATGGTATTTTATTATTATTGCATGATTATATTTAG-ATGA
** * * * *
10643837 ATGGTTATTAATTTATTTACATGATTATTATTATTATTATTGCATGAT
1 ATAATTACTAATATATTTGCATG-GTATT-TTATTATTATTGCATGAT
10643885 AATTAATATA
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
57 1 0.01
58 39 0.43
59 33 0.37
60 3 0.03
61 14 0.16
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (59 bp):
ATAATTACTAATATATTTGCATGGTATTTTATTATTATTGCATGATTATATTTAGATGA
Found at i:10643864 original size:20 final size:20
Alignment explanation
Indices: 10643499--10643903 Score: 101
Period size: 20 Copynumber: 19.7 Consensus size: 20
10643489 TTATTAATAT
* *
10643499 ATTTATTTCCATGATTAATA
1 ATTTATTTGCATGATTATTA
**
10643519 TATTTATTTGTGTGATTTATTA
1 -ATTTATTTGCATGA-TTATTA
* *
10643541 ATATATTTACATGATTATTAATA
1 ATTTATTTGCATGATTA-T--TA
* *
10643564 TATTTATTTGTATAATTATATTTA
1 -ATTTATTTGCATGA-T-TA-TTA
10643588 ATTTGA-TTGCATGATTATTAATA
1 ATTT-ATTTGCATGATTA-T--TA
*
10643611 TATTTATTTGTATGATTA-TA
1 -ATTTATTTGCATGATTATTA
*
10643631 TTTTA-TTGCATGATTATTAA
1 ATTTATTTGCATGATTATT-A
*
10643651 TGTATTTAATTGCATGATTATTA
1 ---ATTTATTTGCATGATTATTA
* *
10643674 GTATATTT--AT--TTGCA-T-
1 ATTTATTTGCATGATT--ATTA
*
10643690 ATTTATTTGCATGA-TAATA
1 ATTTATTTGCATGATTATTA
* * *
10643709 CATTTAATTGCATAATTAGTA
1 -ATTTATTTGCATGATTATTA
* *
10643730 ATATATTTGCAAGGTATT-TT-
1 ATTTATTTGC-ATG-ATTATTA
* *
10643750 ATTTTTATTGCATGGTTA-T-
1 ATTTAT-TTGCATGATTATTA
* * *
10643769 ATTTAGTTGCATAATTACTA
1 ATTTATTTGCATGATTATTA
*
10643789 ATATATTTGCATGGTATT-TT-
1 ATTTATTTGCAT-G-ATTATTA
10643809 ATATTA-TTGCATGATTA-T-
1 AT-TTATTTGCATGATTATTA
*** * *
10643827 ATTTGCATGAATGGTTATTA
1 ATTTATTTGCATGATTATTA
*
10643847 ATTTATTTACATGATTATTA
1 ATTTATTTGCATGATTATTA
* *
10643867 TTATTATTATTGCATGATAATTA
1 AT-TTA-T-TTGCATGATTATTA
*
10643890 ATATATTTGCATGA
1 ATTTATTTGCATGA
10643904 CATTCTTGCA
Statistics
Matches: 281, Mismatches: 59, Indels: 89
0.66 0.14 0.21
Matches are distributed among these distances:
16 8 0.03
17 4 0.01
18 39 0.14
19 16 0.06
20 78 0.28
21 43 0.15
22 15 0.05
23 33 0.12
24 40 0.14
25 1 0.00
26 4 0.01
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (20 bp):
ATTTATTTGCATGATTATTA
Found at i:10648914 original size:15 final size:16
Alignment explanation
Indices: 10648887--10648916 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10648877 GACTATGTTC
10648887 TGTTTTGTGATTTTTT
1 TGTTTTGTGATTTTTT
10648903 TGTTTT-TGATTTTT
1 TGTTTTGTGATTTTT
10648917 GGCTGGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.77
Consensus pattern (16 bp):
TGTTTTGTGATTTTTT
Found at i:10650467 original size:18 final size:19
Alignment explanation
Indices: 10650430--10650468 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
10650420 TAATGAAAGG
10650430 TTATAATTGAAAAATATTA
1 TTATAATTGAAAAATATTA
* *
10650449 TTATAA-TGAATAATTTTA
1 TTATAATTGAAAAATATTA
10650467 TT
1 TT
10650469 TCTTTTTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTATAATTGAAAAATATTA
Found at i:10650839 original size:16 final size:16
Alignment explanation
Indices: 10650818--10650852 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10650808 CTACCAGCCA
*
10650818 TTTCCTTTGATTTTAG
1 TTTCCTTTAATTTTAG
*
10650834 TTTCCTTTAATTTTTG
1 TTTCCTTTAATTTTAG
10650850 TTT
1 TTT
10650853 GTTTCCTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.69
Consensus pattern (16 bp):
TTTCCTTTAATTTTAG
Found at i:10651257 original size:37 final size:38
Alignment explanation
Indices: 10651210--10651383 Score: 171
Period size: 37 Copynumber: 4.7 Consensus size: 38
10651200 GTTTTCCCTG
*
10651210 AACAGAGGTTTTGAAACTTTGAAAATAGCTC-CCTTTA
1 AACAGAGGTTTTGAAACTTTGAAAATAGCTCTCCCTTA
* *
10651247 AACAGTGGTTTTGAAACTTTGAAGATAGCT-TCTCC-TA
1 AACAGAGGTTTTGAAACTTTGAAAATAGCTCTC-CCTTA
* * *
10651284 AACAGAGGCTTTGAAA-TCTTGAAGATAGCTCTCCC-CA
1 AACAGAGGTTTTGAAACT-TTGAAAATAGCTCTCCCTTA
* * * *
10651321 AATACAGGTTTTAAAACTTTGAAAATAACTC-CCCTTA
1 AACAGAGGTTTTGAAACTTTGAAAATAGCTCTCCCTTA
* * *
10651358 AACAGAGGCTTTAAAACTTTTAAAAT
1 AACAGAGGTTTTGAAACTTTGAAAAT
10651384 TTTAAAATGG
Statistics
Matches: 114, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
36 4 0.04
37 106 0.93
38 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (38 bp):
AACAGAGGTTTTGAAACTTTGAAAATAGCTCTCCCTTA
Found at i:10651564 original size:83 final size:83
Alignment explanation
Indices: 10651423--10651580 Score: 244
Period size: 83 Copynumber: 1.9 Consensus size: 83
10651413 AATTATGCTT
**
10651423 AGAGGTCTTACAAATCTCAACATCTTTGAATGCTTGTCCCAATCAAAGGCATTAAAACTTTGAAA
1 AGAGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCCCAATCAAAGGCATTAAAACTTTGAAA
*
10651488 TTTTAAAATGTTCTACCC
66 ATTTAAAATGTTCTACCC
* ** * *
10651506 AGAGGTCTTATAAATCTTGACATCTTTGAATGCTCCTCCCAATCAAAGGCTTTGAAACTTTGAAA
1 AGAGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCCCAATCAAAGGCATTAAAACTTTGAAA
10651571 ATTTAAAATG
66 ATTTAAAATG
10651581 GTTTGCCTAG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (83 bp):
AGAGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCCCAATCAAAGGCATTAAAACTTTGAAA
ATTTAAAATGTTCTACCC
Found at i:10651583 original size:188 final size:190
Alignment explanation
Indices: 10651361--10651806 Score: 526
Period size: 188 Copynumber: 2.3 Consensus size: 190
10651351 CCCCTTAAAC
* * * *
10651361 AGAGGCTTTAAAACTTTTAAAATTTTAAAATGGTTTGCTCAAAAGTCTTAGAAATTATGCT-TAG
1 AGAGGCTTTGAAACTTTGAAAA-TTTAAAATGGTTTGC-CAAAAGTCTTGGAGATTATGCTAT-G
* * *
10651425 AGGTCTTACAAATCTCA-ACATCTTTGAATGCTTGTCCCAATCAAAGGCATTAAAACTTTGAAAT
63 AAGTCTTACAAATCT-AGACATCTTTGAATGCTTGTCCCAATCAAAGGCATTAAAACTTTAAAAA
* *
10651489 TTTAAAAT-G-TTC-TACCCAGAGGTCTTATAAATCTTGACATCTTTGAATGCTCCTCCCAATCA
127 TTTAAAATGGTTTCTTACCCAGAGGTCTTACAAATCTTGACATCTTTGAATACTCCTCCCAAT-A
* *
10651551 A-AGGCTTTGAAACTTTGAAAATTTAAAATGGTTTGCCTAGATGTCTTGGAGATTATGCTATGAA
1 AGAGGCTTTGAAACTTTGAAAATTTAAAATGGTTTGCC-AAAAGTCTTGGAGATTATGCTATGAA
* * * *
10651615 GTCTTACAAATCTAGACATCTTTGAATGCTTTTTCCAATCAAATGCATTGAAACTTTAAAAATTT
65 GTCTTACAAATCTAGACATCTTTGAATGCTTGTCCCAATCAAAGGCATTAAAACTTTAAAAATTT
* * *
10651680 AAAATGGTTTCTTGGAGATTATACCTAGAGGTCTTACAAATCTTGACATCTTTGAATATTTCTCC
130 AAAATGGTTTC--------T-TACCCAGAGGTCTTACAAATCTTGACATCTTTGAATACTCCTCC
10651745 CAATA
186 CAATA
* *
10651750 AGAGGCATTGAAACTTTGAAATTTTAAAATGGTTTGCCCAAAAGTCTTGGAGATTAT
1 AGAGGCTTTGAAACTTTGAAAATTTAAAATGGTTTG-CCAAAAGTCTTGGAGATTAT
10651807 CCTAAAAATC
Statistics
Matches: 217, Mismatches: 22, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
187 2 0.01
188 96 0.44
189 20 0.09
190 4 0.02
199 2 0.01
200 91 0.42
201 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (190 bp):
AGAGGCTTTGAAACTTTGAAAATTTAAAATGGTTTGCCAAAAGTCTTGGAGATTATGCTATGAAG
TCTTACAAATCTAGACATCTTTGAATGCTTGTCCCAATCAAAGGCATTAAAACTTTAAAAATTTA
AAATGGTTTCTTACCCAGAGGTCTTACAAATCTTGACATCTTTGAATACTCCTCCCAATA
Found at i:10651597 original size:83 final size:83
Alignment explanation
Indices: 10651422--10651597 Score: 237
Period size: 83 Copynumber: 2.1 Consensus size: 83
10651412 AAATTATGCT
**
10651422 TAGAGGTCTTACAAATCTCAACATCTTTGAATGCTTGTCCCAATCAAAGGCATTAAAACTTTGAA
1 TAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCCCAATCAAAGGCATTAAAACTTTGAA
*
10651487 ATTTTAAAATGTTCTACC
66 AATTTAAAATGTTCTACC
* * ** * *
10651505 CAGAGGTCTTATAAATCTTGACATCTTTGAATGCTCCTCCCAATCAAAGGCTTTGAAACTTTGAA
1 TAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCCCAATCAAAGGCATTAAAACTTTGAA
*
10651570 AATTTAAAATGGTT-TGCC
66 AATTTAAAAT-GTTCTACC
*
10651588 TAGATGTCTT
1 TAGAGGTCTT
10651598 GGAGATTATG
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
83 77 0.96
84 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (83 bp):
TAGAGGTCTTACAAATCTCAACATCTTTGAATGCTCCTCCCAATCAAAGGCATTAAAACTTTGAA
AATTTAAAATGTTCTACC
Found at i:10651730 original size:95 final size:95
Alignment explanation
Indices: 10651594--10651784 Score: 262
Period size: 95 Copynumber: 2.0 Consensus size: 95
10651584 TGCCTAGATG
* * *
10651594 TCTTGGAGATTATGCTATGAAGTCTTACAAATCTAGACATCTTTGAATGCTTT-TTCCAATCAA-
1 TCTTGGAGATTATCCTATGAAGTCTTACAAATCTAGACATCTTTGAAT-ATTTCTCCCAAT-AAG
*
10651657 ATGCATTGAAACTTTAAAAATTTAAAATGGTT
64 AGGCATTGAAACTTTAAAAATTTAAAATGGTT
* *
10651689 TCTTGGAGATTATACCTA-GAGGTCTTACAAATCTTGACATCTTTGAATATTTCTCCCAATAAGA
1 TCTTGGAGATTAT-CCTATGAAGTCTTACAAATCTAGACATCTTTGAATATTTCTCCCAATAAGA
* *
10651753 GGCATTGAAACTTTGAAATTTTAAAATGGTT
65 GGCATTGAAACTTTAAAAATTTAAAATGGTT
10651784 T
1 T
10651785 GCCCAAAAGT
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
94 5 0.06
95 77 0.91
96 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.38
Consensus pattern (95 bp):
TCTTGGAGATTATCCTATGAAGTCTTACAAATCTAGACATCTTTGAATATTTCTCCCAATAAGAG
GCATTGAAACTTTAAAAATTTAAAATGGTT
Found at i:10651969 original size:286 final size:283
Alignment explanation
Indices: 10651422--10651975 Score: 677
Period size: 286 Copynumber: 1.9 Consensus size: 283
10651412 AAATTATGCT
* *
10651422 TAGAGGTCTTACAAATCTCAACATCTTTGAATGCTTGTCCCAATCAAAGGCATTAAAACTTTGAA
1 TAGAGGTCTTACAAATCTCAACATCTTTGAATACTTCTCCCAATCAAAGGCATTAAAACTTTGAA
* * * ** *
10651487 ATTTTAAAATGTTCTACCCAGAGGTCTTATAAATCTTGACATCTTTGAATGCTCCTCCCAATCAA
66 ATTTTAAAATGTTCTACCCAAAAGTCTTAGAAATCTAAAAATCTTTGAATGCTCCTCCCAATCAA
* * * * * * *
10651552 AGGCTTTGAAACTTTGAAAATTTAAAATGGTTTGCCTAGATGTCTTGGAGATTATGCTATGAAGT
131 AGGCATTGAAACTTTAAAAATTTAAAATGGTTTGCCTAGAGGTCTTAGAGATTATACCAGGAAGT
* * * *
10651617 CTTACAAATCTAGACATCTTTGAATGCTTTTTCCAATCAAATGCATTGAAACTTTAAAAATTTAA
196 CTTACAAATCTAGACATCTTTAAATGCTTCTTCCAATCAAAGGCATTAAAACTTTAAAAATTTAA
10651682 AATGGTTTCTTGGAGATTATACC
261 AATGGTTTCTTGGAGATTATACC
** * *
10651705 TAGAGGTCTTACAAATCTTGACATCTTTGAATATTTCTCCCAAT-AAGAGGCATTGAAACTTTGA
1 TAGAGGTCTTACAAATCTCAACATCTTTGAATACTTCTCCCAATCAA-AGGCATTAAAACTTTGA
* * **
10651769 AATTTTAAAATGGTT-TGCCCAAAAGTCTTGGAGATTATCCTAAAAATCTTTGAATGCTCCTCGT
65 AATTTTAAAAT-GTTCTACCCAAAAGTCTT--AGA-AAT-CTAAAAATCTTTGAATGCTCCTCCC
* * * * *
10651833 AAT-AAAGGCATTGAAATTTTAAAAATTTTAAATGTTTTGCCTGGAGGTCTTAGAGATTATACCC
125 AATCAAAGGCATTGAAACTTTAAAAATTTAAAATGGTTTGCCTAGAGGTCTTAGAGATTATACCA
* * * *
10651897 GGAGGTTTTACAAATCTCA-ACATCTTTAAATTCTTCTTCCAAT-AAGAGGCATTAAAACTTTGA
190 GGAAGTCTTACAAATCT-AGACATCTTTAAATGCTTCTTCCAATCAA-AGGCATTAAAACTTTAA
10651960 AAATTTAAAATGGTTT
253 AAATTTAAAATGGTTT
10651976 GCCTGAAGGT
Statistics
Matches: 227, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
282 2 0.01
283 77 0.34
284 3 0.01
285 4 0.02
286 117 0.52
287 24 0.11
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (283 bp):
TAGAGGTCTTACAAATCTCAACATCTTTGAATACTTCTCCCAATCAAAGGCATTAAAACTTTGAA
ATTTTAAAATGTTCTACCCAAAAGTCTTAGAAATCTAAAAATCTTTGAATGCTCCTCCCAATCAA
AGGCATTGAAACTTTAAAAATTTAAAATGGTTTGCCTAGAGGTCTTAGAGATTATACCAGGAAGT
CTTACAAATCTAGACATCTTTAAATGCTTCTTCCAATCAAAGGCATTAAAACTTTAAAAATTTAA
AATGGTTTCTTGGAGATTATACC
Found at i:10652456 original size:15 final size:15
Alignment explanation
Indices: 10652436--10652476 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10652426 ATACAAGTGT
*
10652436 AAATGCAAATGGTGC
1 AAATGCAAATGATGC
*
10652451 AAATGCAAGTGATGC
1 AAATGCAAATGATGC
*
10652466 AAATGCGAATG
1 AAATGCAAATG
10652477 TCTTTCTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (15 bp):
AAATGCAAATGATGC
Found at i:10652515 original size:38 final size:38
Alignment explanation
Indices: 10652463--10652549 Score: 138
Period size: 38 Copynumber: 2.3 Consensus size: 38
10652453 ATGCAAGTGA
* * *
10652463 TGCAAATGCGAATGTCTTTCTCATGGTGCATATGCAAG
1 TGCAAATGCAAATGTCTTTCTCATGATGCACATGCAAG
10652501 TGCAAATGCAAATGTCTTTCTCATGATGCACATGCAAG
1 TGCAAATGCAAATGTCTTTCTCATGATGCACATGCAAG
*
10652539 TGCGAATGCAA
1 TGCAAATGCAA
10652550 GTGATGCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (38 bp):
TGCAAATGCAAATGTCTTTCTCATGATGCACATGCAAG
Found at i:10652596 original size:43 final size:44
Alignment explanation
Indices: 10652544--10652627 Score: 143
Period size: 43 Copynumber: 1.9 Consensus size: 44
10652534 GCAAGTGCGA
* *
10652544 ATGCAAGTGATGCAAATGTGAATGT-TTTTTTTTTGTGATGCAG
1 ATGCAAGTGATACAAATGTGAATATCTTTTTTTTTGTGATGCAG
10652587 ATGCAAGTGATACAAATGTGAATATCTTTTTTTTTGTGATG
1 ATGCAAGTGATACAAATGTGAATATCTTTTTTTTTGTGATG
10652628 TAAATGTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 23 0.61
44 15 0.39
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (44 bp):
ATGCAAGTGATACAAATGTGAATATCTTTTTTTTTGTGATGCAG
Found at i:10652650 original size:131 final size:130
Alignment explanation
Indices: 10652505--10652739 Score: 371
Period size: 131 Copynumber: 1.8 Consensus size: 130
10652495 TGCAAGTGCA
* **
10652505 AATGCAAATGTCTTTCTCATGATGCACATGCAAGTGCGAATGCAAGTGATGCAAATGTGAATGTT
1 AATGCAAATGTCTTTCTCATGATGCACATGCAAGTGCAAATGCAAGTGATGCAAATACGAATG-T
* * *
10652570 TTTTTTTTGTGATGCAGATGCAAGTGATACAAATGTGAATATCTTTTTTTTTGTGATGTAAATGT
65 CTTTTTTTGTGATGCAGATACAAGTGATACAAATGAGAATATCTTTTTTTTTGTGATGTAAATGT
10652635 G
130 G
* *
10652636 AATGCAAATTTCTTTCTCATGATGCACATTCAAGTGCAAATGCAAGTGATGCAAATACGAATGTC
1 AATGCAAATGTCTTTCTCATGATGCACATGCAAGTGCAAATGCAAGTGATGCAAATACGAATGTC
* *
10652701 TTTTTTTGTGATGTAGATACAAGTGATGCAAATGAGAAT
66 TTTTTTTGTGATGCAGATACAAGTGATACAAATGAGAAT
10652740 GCAAATGTGA
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
130 36 0.38
131 58 0.62
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (130 bp):
AATGCAAATGTCTTTCTCATGATGCACATGCAAGTGCAAATGCAAGTGATGCAAATACGAATGTC
TTTTTTTGTGATGCAGATACAAGTGATACAAATGAGAATATCTTTTTTTTTGTGATGTAAATGTG
Found at i:10652759 original size:12 final size:12
Alignment explanation
Indices: 10652726--10652759 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10652716 GATACAAGTG
*
10652726 ATGCAAATGAGA
1 ATGCAAATGTGA
10652738 ATGCAAATGTGA
1 ATGCAAATGTGA
*
10652750 ATGTAAATGT
1 ATGCAAATGT
10652760 CTTTCTCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (12 bp):
ATGCAAATGTGA
Found at i:10653483 original size:22 final size:22
Alignment explanation
Indices: 10653459--10653596 Score: 179
Period size: 22 Copynumber: 6.3 Consensus size: 22
10653449 AATTAATCCA
* * *
10653459 GGCTTATGTGTCAACTAATCTA
1 GGCTTATGTGCCAGCTAATCTG
* *
10653481 GGCTTATGTACTAGCTAAAT-TG
1 GGCTTATGTGCCAGCT-AATCTG
*
10653503 AGCTTATGTGCCAGCTAATCTG
1 GGCTTATGTGCCAGCTAATCTG
*
10653525 GGTTTATGTGCCAGCTAATCTG
1 GGCTTATGTGCCAGCTAATCTG
*
10653547 GGCTTATGTGCCAGCTAATATG
1 GGCTTATGTGCCAGCTAATCTG
*
10653569 GGCTTATGTGCCAACTAATCTG
1 GGCTTATGTGCCAGCTAATCTG
10653591 GGCTTA
1 GGCTTA
10653597 AAACTTTATT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
21 3 0.03
22 94 0.94
23 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (22 bp):
GGCTTATGTGCCAGCTAATCTG
Found at i:10654568 original size:22 final size:20
Alignment explanation
Indices: 10654536--10654608 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 20
10654526 CACATATTCA
*
10654536 TTTCTTGTCCTTTTTTTTTAT
1 TTTCTTTTCCTTTTTTTTT-T
10654557 TCTTCTTTTCCTTTCATTTTTTT
1 T-TTCTTTTCCTTT--TTTTTTT
*
10654580 TTTCTTTGCCATTCTTTTTTTT
1 TTTCTTTTCC-TT-TTTTTTTT
10654602 TTT-TTTT
1 TTTCTTTT
10654609 GCATCCTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
21 4 0.09
22 29 0.66
23 4 0.09
24 7 0.16
ACGTcount: A:0.04, C:0.16, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTCTTTTCCTTTTTTTTTT
Found at i:10654617 original size:21 final size:22
Alignment explanation
Indices: 10654573--10654617 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
10654563 TTTCCTTTCA
*
10654573 TTTTTTTTTTCTTTGCCATTCT
1 TTTTTTTTTTCTTTGCCATCCT
*
10654595 TTTTTTTTTTTTTTG-CATCCT
1 TTTTTTTTTTCTTTGCCATCCT
10654616 TT
1 TT
10654618 CATTGAGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTTTTTTCTTTGCCATCCT
Found at i:10657444 original size:2 final size:2
Alignment explanation
Indices: 10657437--10657472 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10657427 TTTGAAAGGA
10657437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10657473 GAAAAGCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10660541 original size:2 final size:2
Alignment explanation
Indices: 10660529--10660559 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
10660519 ATTTTAGTTG
10660529 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
10660560 TATCTGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10660864 original size:14 final size:14
Alignment explanation
Indices: 10660842--10660876 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
10660832 TAATTATTTT
10660842 TTTTATTTTTCACA
1 TTTTATTTTTCACA
*
10660856 TTTTGTTTTTCACA
1 TTTTATTTTTCACA
10660870 -TTTATTT
1 TTTTATTT
10660877 CTAAAAACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.17, C:0.11, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTTATTTTTCACA
Found at i:10661481 original size:34 final size:33
Alignment explanation
Indices: 10661441--10661539 Score: 92
Period size: 34 Copynumber: 3.0 Consensus size: 33
10661431 TGCATTTAAA
* *
10661441 AAAAATTCTAATACTTATCGAAAATATATTTTC
1 AAAAATTCTAATACTTTTCGAAAATAAATTTTC
* * * *
10661474 AAGAAATTATAACACTTTTCAAAAATACA-TTTC
1 AA-AAATTCTAATACTTTTCGAAAATAAATTTTC
* * *
10661507 AAAAACTCATAATATTTTTTGAAAATAAATTTT
1 AAAAATTC-TAATACTTTTCGAAAATAAATTTT
10661540 TGAAAAAGTG
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
32 4 0.08
33 23 0.45
34 24 0.47
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.38
Consensus pattern (33 bp):
AAAAATTCTAATACTTTTCGAAAATAAATTTTC
Found at i:10661629 original size:15 final size:14
Alignment explanation
Indices: 10661606--10661636 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10661596 TAAATTAATG
*
10661606 TAATAAAAAAATTA
1 TAATTAAAAAATTA
10661620 TAATTAAAAAATTA
1 TAATTAAAAAATTA
10661634 TAA
1 TAA
10661637 ATTTTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAATTAAAAAATTA
Found at i:10661639 original size:15 final size:15
Alignment explanation
Indices: 10661611--10661653 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
10661601 TAATGTAATA
10661611 AAAAAATTAT-AATT
1 AAAAAATTATAAATT
10661625 AAAAAATTATAAATT
1 AAAAAATTATAAATT
**
10661640 TTAAAATTAATAAA
1 AAAAAATT-ATAAA
10661654 AAACTATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 10 0.40
15 10 0.40
16 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAAAATTATAAATT
Found at i:10661902 original size:34 final size:33
Alignment explanation
Indices: 10661858--10661935 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
10661848 TCGTTTTCAA
*
10661858 AAATCTATTTTCAAGAATA-TAATATAATTTTT-G
1 AAATTTATTTTCAA-AATATTAA-ATAATTTTTCG
*
10661891 CAAATTTATTTTTGAAAATATTAAATAATTTTTCG
1 -AAATTTA-TTTTCAAAATATTAAATAATTTTTCG
10661926 AAATTTATTT
1 AAATTTATTT
10661936 CTAAAGATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
33 3 0.08
34 26 0.67
35 10 0.26
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (33 bp):
AAATTTATTTTCAAAATATTAAATAATTTTTCG
Found at i:10669294 original size:4 final size:4
Alignment explanation
Indices: 10669287--10669334 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
10669277 AAAAATTATA
* *
10669287 AAAT AAAT ATAAT AACT AAAT AAAT AAAT AAAT AAA- ATAT AAA- AAAT
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
10669334 A
1 A
10669335 CCAAAAATCG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
3 5 0.14
4 28 0.76
5 4 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:10670232 original size:20 final size:19
Alignment explanation
Indices: 10670185--10670233 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
10670175 ATCTTAATAG
*
10670185 AAAAGATAAATCAAATAAA
1 AAAAGAAAAATCAAATAAA
10670204 AAAATGAAAAATCAAATATAA
1 AAAA-GAAAAATCAAATA-AA
*
10670225 ACAAGAAAA
1 AAAAGAAAA
10670234 CCAATAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 17 0.65
21 5 0.19
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.14
Consensus pattern (19 bp):
AAAAGAAAAATCAAATAAA
Found at i:10670292 original size:6 final size:6
Alignment explanation
Indices: 10670283--10670317 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
10670273 ATAACAATAA
10670283 TAAAAT TAAAAT T-AAAT TAAAAT TAAAAT TAAAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
10670318 AAATAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TAAAAT
Found at i:10670301 original size:11 final size:11
Alignment explanation
Indices: 10670285--10670321 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
10670275 AACAATAATA
10670285 AAATTAAAATT
1 AAATTAAAATT
10670296 AAATTAAAATT
1 AAATTAAAATT
10670307 AAAATTAAAA-T
1 -AAATTAAAATT
10670318 AAAT
1 AAAT
10670322 AAATATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 12 0.48
12 9 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:10670305 original size:17 final size:17
Alignment explanation
Indices: 10670281--10670320 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
10670271 TAATAACAAT
10670281 AATAAAATTAAAATTAA
1 AATAAAATTAAAATTAA
*
10670298 ATTAAAATTAAAATTAA
1 AATAAAATTAAAATTAA
10670315 AATAAA
1 AATAAA
10670321 TAAATATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AATAAAATTAAAATTAA
Found at i:10670596 original size:43 final size:44
Alignment explanation
Indices: 10670548--10670727 Score: 127
Period size: 43 Copynumber: 3.9 Consensus size: 44
10670538 AGAACTCTTA
*
10670548 TAAGCAAAGGCTCACA-AACTTTGAAAAGT-AAATAAAGCTCCTC
1 TAAGCAAAGGCTCA-ATAACTTTGAAAAATAAAATAAAGCTCCTC
*
10670591 TAAGCAAAGGCTTAATAACTTTGAAAAATAAAATAAAGTTCTTCTAAGCTCTTC
1 TAAGCAAAGGCTCAATAACTTTGAAAAATAAAATAAAG-----CT---C-C-TC
* * * * *
10670645 TAAGTAGAGGCTTAATAACTTTGAAAAAT-AAATAAAGCACATC
1 TAAGCAAAGGCTCAATAACTTTGAAAAATAAAATAAAGCTCCTC
* *
10670688 TAAGTAAATGG-TCAATGACTTTTGAAAAAT-AAATAAAGCT
1 TAAGCAAA-GGCTCAATAAC-TTTGAAAAATAAAATAAAGCT
10670728 TCTCGACAAT
Statistics
Matches: 113, Mismatches: 10, Indels: 27
0.75 0.07 0.18
Matches are distributed among these distances:
42 1 0.01
43 40 0.35
44 29 0.26
45 1 0.01
48 1 0.01
49 2 0.02
52 1 0.01
53 9 0.08
54 29 0.26
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (44 bp):
TAAGCAAAGGCTCAATAACTTTGAAAAATAAAATAAAGCTCCTC
Found at i:10676746 original size:15 final size:15
Alignment explanation
Indices: 10676721--10676766 Score: 74
Period size: 15 Copynumber: 3.0 Consensus size: 15
10676711 TGATCGAAAG
10676721 GAATACTTGAATTGAA
1 GAAT-CTTGAATTGAA
10676737 GAATCTTGAATTGAA
1 GAATCTTGAATTGAA
*
10676752 GAATCATGAATTGAA
1 GAATCTTGAATTGAA
10676767 CTAAGGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 25 0.86
16 4 0.14
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (15 bp):
GAATCTTGAATTGAA
Found at i:10678203 original size:44 final size:43
Alignment explanation
Indices: 10678108--10678344 Score: 214
Period size: 43 Copynumber: 5.5 Consensus size: 43
10678098 TCAAATATCT
* *
10678108 CATTTTATTTTTTTCAAAG-TTCTAAAGCCTC-ATTGTGGGGGAT
1 CATTTTA-TTTTTTCAAAGTTTC-AAAGCCTCAATTGTGGGGAAG
* * *
10678151 CATTTTATTTTTCCAAAAGTTTCAAAGCCTCAGTTGTGGGGAAA
1 CATTTTATTTTTTC-AAAGTTTCAAAGCCTCAATTGTGGGGAAG
** *
10678195 CATTTTATTTTTTCAAAGTTTCAAAATCTCAAATGT-GGGAGAG
1 CATTTTATTTTTTCAAAGTTTCAAAGCCTCAATTGTGGGGA-AG
* * * ** *
10678238 TATTTTA-TTTTTCAAAAGTTTCAAAGCCTTAGTTGTGAATG-AT
1 CATTTTATTTTTTC-AAAGTTTCAAAGCCTCAATTGTG-GGGAAG
* * * *
10678281 CATTTTATTTTTTCAAATTTTCAAAGTCTCAATTTTGGAGAAG
1 CATTTTATTTTTTCAAAGTTTCAAAGCCTCAATTGTGGGGAAG
10678324 CATTTTATTTTTTCCAAAGTT
1 CATTTTATTTTTT-CAAAGTT
10678345 GAAGCATTGA
Statistics
Matches: 155, Mismatches: 29, Indels: 19
0.76 0.14 0.09
Matches are distributed among these distances:
42 17 0.11
43 100 0.65
44 37 0.24
45 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (43 bp):
CATTTTATTTTTTCAAAGTTTCAAAGCCTCAATTGTGGGGAAG
Found at i:10678206 original size:86 final size:87
Alignment explanation
Indices: 10678108--10678341 Score: 271
Period size: 86 Copynumber: 2.7 Consensus size: 87
10678098 TCAAATATCT
*
10678108 CATTTTATTTTTTTCAAAG-TTCTAAAGCCTC-ATTGTGGGGGATCATTTTATTTTTCCAAAAGT
1 CATTTTA-TTTTTTCAAAGTTTC-AAAGTCTCAATTGTGGGGGATCATTTTATTTTTCCAAAAGT
*
10678171 TTCAAAGCCTCAGTTGTG-GGGAAA
64 TTCAAAGCCTCAGTTGTGAAGG-AA
* * *
10678195 CATTTTATTTTTTCAAAGTTTCAAAATCTCAAATGTGGGAGAGT-ATTTTATTTTT-CAAAAGTT
1 CATTTTATTTTTTCAAAGTTTCAAAGTCTCAATTGTGGGGGA-TCATTTTATTTTTCCAAAAGTT
* * *
10678258 TCAAAGCCTTAGTTGTGAATGAT
65 TCAAAGCCTCAGTTGTGAAGGAA
* * * * *
10678281 CATTTTATTTTTTCAAATTTTCAAAGTCTCAATTTTGGAGAAGCATTTTATTTTTTCCAAA
1 CATTTTATTTTTTCAAAGTTTCAAAGTCTCAATTGTGGGGGATCATTTTA-TTTTTCCAAA
10678342 GTTGAAGCAT
Statistics
Matches: 124, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
86 83 0.67
87 36 0.29
88 5 0.04
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (87 bp):
CATTTTATTTTTTCAAAGTTTCAAAGTCTCAATTGTGGGGGATCATTTTATTTTTCCAAAAGTTT
CAAAGCCTCAGTTGTGAAGGAA
Found at i:10678729 original size:17 final size:17
Alignment explanation
Indices: 10678699--10678738 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
10678689 GAAAATCTTA
10678699 ATTTTAATTTTGATTTT
1 ATTTTAATTTTGATTTT
10678716 AGTTTTAA-TTTGATTTT
1 A-TTTTAATTTTGATTTT
10678733 ATTTTA
1 ATTTTA
10678739 TTGGTCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 11 0.50
18 6 0.27
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (17 bp):
ATTTTAATTTTGATTTT
Found at i:10679533 original size:24 final size:24
Alignment explanation
Indices: 10679387--10679601 Score: 142
Period size: 24 Copynumber: 9.5 Consensus size: 24
10679377 ATGTGTGTAA
10679387 TTGCATG-TTATTAATATATTTAT
1 TTGCATGATTATTAATATATTTAT
*
10679410 TTCCATG---ATTAATATATTTAT
1 TTGCATGATTATTAATATATTTAT
**
10679431 TTGTGTGATTTATTAATATATTTA-
1 TTGCATGA-TTATTAATATATTTAT
*
10679455 ---CATGATTATTAACATATTTAT
1 TTGCATGATTATTAATATATTTAT
* * *
10679476 TTGTATAATTA-T-ATTTAATTTGA-
1 TTGCATGATTATTAATAT-ATTT-AT
* *
10679499 TTGCAAGATTATTAATATATGTAT
1 TTGCATGATTATTAATATATTTAT
*
10679523 TTG--T-ATGATT-ATAT-TTTA-
1 TTGCATGATTATTAATATATTTAT
*
10679541 TTGCATGATTATTAATGTATTTGA-
1 TTGCATGATTATTAATATATTT-AT
*
10679565 TTGCATGATTATTAATATATTTAA
1 TTGCATGATTATTAATATATTTAT
* *
10679589 TTACATGTTTATT
1 TTGCATGATTATT
10679602 TGCATGATAA
Statistics
Matches: 148, Mismatches: 24, Indels: 39
0.70 0.11 0.18
Matches are distributed among these distances:
18 3 0.02
19 3 0.02
20 19 0.13
21 31 0.21
22 5 0.03
23 24 0.16
24 47 0.32
25 16 0.11
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (24 bp):
TTGCATGATTATTAATATATTTAT
Found at i:10679573 original size:42 final size:42
Alignment explanation
Indices: 10679493--10679576 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
10679483 ATTATATTTA
*
10679493 ATTTGATTGCAAGATTATTAATATATGTATTTGTATGATTAT
1 ATTTGATTGCAAGATTATTAATATATGTATTTGCATGATTAT
* * * *
10679535 ATTTTATTGCATGATTATTAATGTATTTGA-TTGCATGATTAT
1 ATTTGATTGCAAGATTATTAATATATGT-ATTTGCATGATTAT
10679577 TAATATATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (42 bp):
ATTTGATTGCAAGATTATTAATATATGTATTTGCATGATTAT
Found at i:10679696 original size:59 final size:58
Alignment explanation
Indices: 10679601--10679735 Score: 189
Period size: 59 Copynumber: 2.3 Consensus size: 58
10679591 ACATGTTTAT
* * *
10679601 TTGCATGATAATACATTTAATTGCATAATTAGTAATATATTTGCAAGGTATTTTATTTTTA
1 TTGCATGAT--TATATTTAATTGCATAATTACTAATATATTTGCAAGGTATTTTA-TATTA
* * *
10679662 TTGCATGGTTATATTTAGTTGCATAATTACTAATATATTTGCATGGTATTTTATATTA
1 TTGCATGATTATATTTAATTGCATAATTACTAATATATTTGCAAGGTATTTTATATTA
10679720 TTGCATGATTATATTT
1 TTGCATGATTATATTT
10679736 GCATGAATGG
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 19 0.28
59 40 0.60
61 8 0.12
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.50
Consensus pattern (58 bp):
TTGCATGATTATATTTAATTGCATAATTACTAATATATTTGCAAGGTATTTTATATTA
Found at i:10679759 original size:58 final size:59
Alignment explanation
Indices: 10679625--10679786 Score: 179
Period size: 58 Copynumber: 2.8 Consensus size: 59
10679615 ATTTAATTGC
* * * * * *
10679625 ATAATTAGTAATATATTTGCAAGGTATTTTATTTTTATTGCATGGTTATATTTAGTTGC
1 ATAATTACTAATATATTTGCATGGTATTTTATTATTATTGCATGATTATATTTAGATGA
10679684 ATAATTACTAATATATTTGCATGGTATTTTA-TATTATTGCATGATTATATTT-GCATGA
1 ATAATTACTAATATATTTGCATGGTATTTTATTATTATTGCATGATTATATTTAG-ATGA
** * * *
10679742 ATGGTTATTAATTTATTTACAT-G-ATTATTATTATTATTGCATGAT
1 ATAATTACTAATATATTTGCATGGTATT-TTATTATTATTGCATGAT
10679787 AATTAATATA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
56 3 0.03
57 5 0.06
58 52 0.58
59 29 0.33
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.51
Consensus pattern (59 bp):
ATAATTACTAATATATTTGCATGGTATTTTATTATTATTGCATGATTATATTTAGATGA
Found at i:10679769 original size:20 final size:20
Alignment explanation
Indices: 10679404--10679805 Score: 104
Period size: 20 Copynumber: 19.7 Consensus size: 20
10679394 TTATTAATAT
* *
10679404 ATTTATTTCCATGATTAATA
1 ATTTATTTGCATGATTATTA
**
10679424 TATTTATTTGTGTGATTTATTA
1 -ATTTATTTGCATGA-TTATTA
* *
10679446 ATATATTTACATGATTATTAACA
1 ATTTATTTGCATGATTATT---A
* *
10679469 TATTTATTTGTATAATTATATTTA
1 -ATTTATTTGCATGA-T-TA-TTA
*
10679493 ATTTGA-TTGCAAGATTATTAA
1 ATTT-ATTTGCATGATTATT-A
*
10679514 TATATGTATTTGTATGATTA-TA
1 -AT-T-TATTTGCATGATTATTA
*
10679536 TTTTA-TTGCATGATTATTA
1 ATTTATTTGCATGATTATTA
*
10679555 ATGTATTTGATTGCATGATTATTA
1 AT-T-TAT--TTGCATGATTATTA
* *
10679579 ATATATTT--A--ATTA-CA
1 ATTTATTTGCATGATTATTA
* *
10679594 TGTTTATTTGCATGA-TAATA
1 -ATTTATTTGCATGATTATTA
* * *
10679614 CATTTAATTGCATAATTAGTA
1 -ATTTATTTGCATGATTATTA
* *
10679635 ATATATTTGCAAGGTATT-TT-
1 ATTTATTTGC-ATG-ATTATTA
* *
10679655 ATTTTTATTGCATGGTTA-T-
1 ATTTAT-TTGCATGATTATTA
* * *
10679674 ATTTAGTTGCATAATTACTA
1 ATTTATTTGCATGATTATTA
*
10679694 ATATATTTGCATGGTATT-TT-
1 ATTTATTTGCAT-G-ATTATTA
10679714 ATATTA-TTGCATGATTA-T-
1 AT-TTATTTGCATGATTATTA
*** * *
10679732 ATTTGCATGAATGGTTATTA
1 ATTTATTTGCATGATTATTA
*
10679752 ATTTATTTACATGATTATTA
1 ATTTATTTGCATGATTATTA
* *
10679772 TTATTA-TTGCATGATAATTA
1 AT-TTATTTGCATGATTATTA
*
10679792 ATATATTTGCATGA
1 ATTTATTTGCATGA
10679806 CATTCTTGCA
Statistics
Matches: 274, Mismatches: 65, Indels: 85
0.65 0.15 0.20
Matches are distributed among these distances:
15 1 0.00
16 10 0.04
17 2 0.01
18 35 0.13
19 19 0.07
20 92 0.34
21 42 0.15
22 17 0.06
23 13 0.05
24 38 0.14
25 1 0.00
26 2 0.01
27 2 0.01
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (20 bp):
ATTTATTTGCATGATTATTA
Found at i:10684817 original size:15 final size:16
Alignment explanation
Indices: 10684790--10684819 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10684780 GACTATGTTC
10684790 TGTTTTGTGATTTTTT
1 TGTTTTGTGATTTTTT
10684806 TGTTTT-TGATTTTT
1 TGTTTTGTGATTTTT
10684820 GGCTGGGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.77
Consensus pattern (16 bp):
TGTTTTGTGATTTTTT
Found at i:10686483 original size:15 final size:15
Alignment explanation
Indices: 10686465--10686503 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
10686455 TTTTACAAAA
10686465 TTTTCTTTTCCATTC
1 TTTTCTTTTCCATTC
* *
10686480 TTTTCCTTTCCTTTC
1 TTTTCTTTTCCATTC
*
10686495 ATTTCTTTT
1 TTTTCTTTT
10686504 ATTAATATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTCTTTTCCATTC
Found at i:10686766 original size:3 final size:3
Alignment explanation
Indices: 10686760--10686795 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10686750 TTTTTTTTCT
10686760 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10686796 AATTATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10687199 original size:37 final size:37
Alignment explanation
Indices: 10687115--10687245 Score: 142
Period size: 37 Copynumber: 3.5 Consensus size: 37
10687105 TTCCCCGAAC
* * *
10687115 AGAGGCTTTGAAACTTTGAAAATAGC-TCCCTCTAAAC
1 AGAGGCTTTGAAACTTTGAAGATAGCTTCTCT-TAAAT
* *
10687152 ATAGGTTTTGAAACTTTGAAGATAGCTTCTCTTAAAT
1 AGAGGCTTTGAAACTTTGAAGATAGCTTCTCTTAAAT
**
10687189 AGAGGCTTTGAAA-TCTTGAAGATAGCTT-TCCCCAAAT
1 AGAGGCTTTGAAACT-TTGAAGATAGCTTCT-CTTAAAT
*
10687226 AGAGGCTTTAAAACTTTGAA
1 AGAGGCTTTGAAACTTTGAA
10687246 AATTTTAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
36 2 0.03
37 73 0.91
38 5 0.06
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (37 bp):
AGAGGCTTTGAAACTTTGAAGATAGCTTCTCTTAAAT
Found at i:10687427 original size:83 final size:83
Alignment explanation
Indices: 10687288--10687462 Score: 262
Period size: 83 Copynumber: 2.1 Consensus size: 83
10687278 AATTATGCCT
* *
10687288 AGAGGTCTTATAAATCTCAACATCTTTGAATGCTCGTCCTAATCAAAGGCATTGAAACTTTGAAA
1 AGAGGTCTTATAAATCTCAACATCTTTAAATGCTCGTCCCAATCAAAGGCATTGAAACTTTGAAA
10687353 ATTTAAAAT-GTTCTACCC
66 ATTTAAAATGGTT-TACCC
** * *
10687371 AGAGGTCTTATAAATCTTGACATCTTTAAATGCTCTTCCCAATCAAAGGCTTTGAAACTTTGAAA
1 AGAGGTCTTATAAATCTCAACATCTTTAAATGCTCGTCCCAATCAAAGGCATTGAAACTTTGAAA
*
10687436 ATTTAAAATGGTTTACCT
66 ATTTAAAATGGTTTACCC
*
10687454 AGATGTCTT
1 AGAGGTCTT
10687463 GGAGATTATG
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
83 80 0.96
84 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.35
Consensus pattern (83 bp):
AGAGGTCTTATAAATCTCAACATCTTTAAATGCTCGTCCCAATCAAAGGCATTGAAACTTTGAAA
ATTTAAAATGGTTTACCC
Done.