Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 32 of 132
Found at i:8743163 original size:27 final size:27
Alignment explanation
Indices: 8743133--8743184 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
8743123 TGTAAGAAAG
8743133 TGTCTTAAAGAATGTTGAACTGCTATA
1 TGTCTTAAAGAATGTTGAACTGCTATA
*
8743160 TGTCTTAAAGAATGTTGAATTGCTA
1 TGTCTTAAAGAATGTTGAACTGCTA
8743185 AGAAGATGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
TGTCTTAAAGAATGTTGAACTGCTATA
Found at i:8745141 original size:17 final size:18
Alignment explanation
Indices: 8745121--8745156 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8745111 TAAATGAGTT
8745121 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
8745138 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
8745156 A
1 A
8745157 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:8752442 original size:17 final size:18
Alignment explanation
Indices: 8752422--8752457 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8752412 TAAATGAGTT
8752422 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
8752439 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
8752457 A
1 A
8752458 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:8752831 original size:41 final size:40
Alignment explanation
Indices: 8752785--8752884 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 40
8752775 TTGACCTTGA
** *
8752785 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
8752825 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
8752863 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
8752885 ATTTATTGCT
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.38
39 4 0.09
40 3 0.07
41 11 0.24
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:8759237 original size:2 final size:2
Alignment explanation
Indices: 8759230--8759301 Score: 135
Period size: 2 Copynumber: 35.5 Consensus size: 2
8759220 TTATTAATTA
8759230 AT AT 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 AT AT
8759272 AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
8759302 AAGAATAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 67 0.97
3 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8759391 original size:12 final size:13
Alignment explanation
Indices: 8759361--8759401 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
8759351 AGGTTAAACG
8759361 AAAAG-GAAGGGA
1 AAAAGAGAAGGGA
8759373 GAAAAGAGAA-GGA
1 -AAAAGAGAAGGGA
*
8759386 AAAAGAAAAGGGA
1 AAAAGAGAAGGGA
8759399 AAA
1 AAA
8759402 CTAGAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 8 0.32
13 14 0.56
14 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (13 bp):
AAAAGAGAAGGGA
Found at i:8759789 original size:17 final size:18
Alignment explanation
Indices: 8759769--8759804 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8759759 TAAATGAGTT
8759769 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
8759786 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
8759804 A
1 A
8759805 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:8760178 original size:41 final size:40
Alignment explanation
Indices: 8760132--8760231 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 40
8760122 TTGACCTTGA
** *
8760132 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
8760172 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
8760210 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
8760232 ATTTATTGCT
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.38
39 4 0.09
40 3 0.07
41 11 0.24
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:8767970 original size:16 final size:18
Alignment explanation
Indices: 8767949--8767989 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
8767939 CCTAAAATAG
*
8767949 AAATTTTTTTA-TTTA-A
1 AAATTTTTATAGTTTATA
8767965 AAATTTTTATAGTTTATA
1 AAATTTTTATAGTTTATA
8767983 AAATTTT
1 AAATTTT
8767990 AAATTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 4 0.18
18 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
AAATTTTTATAGTTTATA
Found at i:8768450 original size:23 final size:20
Alignment explanation
Indices: 8768412--8768453 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 20
8768402 TTTTATTCAT
8768412 GTTTGTTTGTTTATTTTTAA
1 GTTTGTTTGTTTATTTTTAA
8768432 GTTTGTTCGTGTTTAATTTTTA
1 GTTTGTT--TGTTT-ATTTTTA
8768454 TTTATTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
22 5 0.26
23 7 0.37
ACGTcount: A:0.14, C:0.02, G:0.17, T:0.67
Consensus pattern (20 bp):
GTTTGTTTGTTTATTTTTAA
Found at i:8768451 original size:22 final size:20
Alignment explanation
Indices: 8768412--8768451 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
8768402 TTTTATTCAT
*
8768412 GTTTGTTTGTTTATTTTTAA
1 GTTTGTTTGTTTAATTTTAA
8768432 GTTTGTTCGTGTTTAATTTT
1 GTTTGTT--TGTTTAATTTT
8768452 TATTTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.12, C:0.03, G:0.17, T:0.68
Consensus pattern (20 bp):
GTTTGTTTGTTTAATTTTAA
Found at i:8769885 original size:20 final size:20
Alignment explanation
Indices: 8769849--8769887 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8769839 ACTTTTTACA
*
8769849 AAAGTAAAAATACAATTTTT
1 AAAGTAAAAATAAAATTTTT
8769869 AAAG-AAAAATCAAAATTTT
1 AAAGTAAAAAT-AAAATTTT
8769888 ATCATCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (20 bp):
AAAGTAAAAATAAAATTTTT
Found at i:8770363 original size:81 final size:81
Alignment explanation
Indices: 8770265--8770427 Score: 326
Period size: 81 Copynumber: 2.0 Consensus size: 81
8770255 TGCTATCGTG
8770265 ACAGAAGGGGTGAAAAAGATAAGAATAGAAGCAATAAATGCAAGGAATTCTTGGCCCTCAACATA
1 ACAGAAGGGGTGAAAAAGATAAGAATAGAAGCAATAAATGCAAGGAATTCTTGGCCCTCAACATA
8770330 AATATATTGTCATATA
66 AATATATTGTCATATA
8770346 ACAGAAGGGGTGAAAAAGATAAGAATAGAAGCAATAAATGCAAGGAATTCTTGGCCCTCAACATA
1 ACAGAAGGGGTGAAAAAGATAAGAATAGAAGCAATAAATGCAAGGAATTCTTGGCCCTCAACATA
8770411 AATATATTGTCATATA
66 AATATATTGTCATATA
8770427 A
1 A
8770428 TTTAGGGTAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (81 bp):
ACAGAAGGGGTGAAAAAGATAAGAATAGAAGCAATAAATGCAAGGAATTCTTGGCCCTCAACATA
AATATATTGTCATATA
Found at i:8770732 original size:2 final size:2
Alignment explanation
Indices: 8770725--8770780 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
8770715 TGGATATTAA
8770725 AT AT 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 AT AT
8770767 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
8770781 TTGAGTATGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8772467 original size:2 final size:2
Alignment explanation
Indices: 8772460--8772520 Score: 108
Period size: 2 Copynumber: 31.5 Consensus size: 2
8772450 TTTAAGAAAT
8772460 TA TA TA TA TA 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 TA TA TA TA TA
8772502 TA TA TA T- TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA T
8772521 TTTGAGAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 55 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8773249 original size:6 final size:6
Alignment explanation
Indices: 8773240--8773331 Score: 82
Period size: 6 Copynumber: 15.2 Consensus size: 6
8773230 ATTTTTAATG
* * **
8773240 TTTAAA TTTAGTA TTTTAA TTTAAA TTTAAA TTTAAA TTT-AA GGTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
8773288 TTTAAA TAATTAAA TTTAAA TTTAAGA --TAAA TTTCAA TTTAAA T
1 TTTAAA T--TTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA T
8773332 CAATTTAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
4 1 0.01
5 6 0.09
6 51 0.74
7 5 0.07
8 6 0.09
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:8773278 original size:31 final size:30
Alignment explanation
Indices: 8773257--8773331 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 30
8773247 TTAGTATTTT
8773257 AATTTAAAT-TTAAATTTAAATTTAAGGTA
1 AATTTAAATATTAAATTTAAATTTAAGGTA
*
8773286 AATTTAAATAATTAAATTTAAATTTAAGATA
1 AATTTAAAT-ATTAAATTTAAATTTAAGGTA
*
8773317 AATTTCAAT-TTAAAT
1 AATTTAAATATTAAAT
8773332 CAATTTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 15 0.36
31 27 0.64
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (30 bp):
AATTTAAATATTAAATTTAAATTTAAGGTA
Found at i:8773287 original size:17 final size:17
Alignment explanation
Indices: 8773267--8773341 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 17
8773257 AATTTAAATT
*
8773267 TAAATTTAAATTTAAGG
1 TAAATTTAAATTTAAGA
*
8773284 TAAATTTAAA--TAA-T
1 TAAATTTAAATTTAAGA
8773298 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAGA
*
8773315 TAAATTTCAATTTAA-A
1 TAAATTTAAATTTAAGA
*
8773331 TCAATTTAAAT
1 TAAATTTAAAT
8773342 CAATTTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
14 10 0.20
15 3 0.06
16 13 0.26
17 24 0.48
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAGA
Found at i:8773306 original size:48 final size:49
Alignment explanation
Indices: 8773254--8773368 Score: 114
Period size: 48 Copynumber: 2.4 Consensus size: 49
8773244 AATTTAGTAT
*
8773254 TTTAATTTAAATTTAAATTTAAATTTAAGGTAAATTTAAAT-AA-TTAAA
1 TTTAATTTAAATTTAAATTTAAATTTAA-ATAAATTTAAATCAATTTAAA
* *
8773302 TTTAAATTTAAGA--TAAATTTCAATTTAAATCAATTTAAATCAATTTAAA
1 TTT-AATTTAA-ATTTAAATTTAAATTTAAATAAATTTAAATCAATTTAAA
* * *
8773351 -ATCATTTAACTTTAAATT
1 TTTAATTTAAATTTAAATT
8773369 AAAAAGTCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
47 16 0.29
48 26 0.47
49 12 0.22
50 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (49 bp):
TTTAATTTAAATTTAAATTTAAATTTAAATAAATTTAAATCAATTTAAA
Found at i:8773327 original size:37 final size:39
Alignment explanation
Indices: 8773257--8773341 Score: 104
Period size: 37 Copynumber: 2.2 Consensus size: 39
8773247 TTAGTATTTT
*
8773257 AATTTAAATTTAAATTTAAATTTAAGGTAAATTTAAAT-
1 AATTTAAATTTAAATTTAAATTAAAGGTAAATTTAAATC
** *
8773295 AA-TTAAATTTAAATTTAAGA-TAAATTTCAATTTAAATC
1 AATTTAAATTTAAATTTAA-ATTAAAGGTAAATTTAAATC
8773333 AATTTAAAT
1 AATTTAAAT
8773342 CAATTTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 29 0.73
38 5 0.12
39 6 0.15
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (39 bp):
AATTTAAATTTAAATTTAAATTAAAGGTAAATTTAAATC
Found at i:8773354 original size:11 final size:10
Alignment explanation
Indices: 8773321--8773359 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
8773311 AAGATAAATT
8773321 TCAATTTAAA
1 TCAATTTAAA
8773331 TCAATTTAAA
1 TCAATTTAAA
8773341 TCAATTTAAAA
1 TCAATTT-AAA
8773352 TC-ATTTAA
1 TCAATTTAA
8773360 CTTTAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 2 0.07
10 21 0.75
11 5 0.18
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (10 bp):
TCAATTTAAA
Found at i:8773777 original size:38 final size:36
Alignment explanation
Indices: 8773726--8774011 Score: 195
Period size: 38 Copynumber: 7.6 Consensus size: 36
8773716 TTATCCAGCT
*
8773726 TTACTTCAATTTCAAGAGAATATGAAATGATCTCGCTC
1 TTACTTCAATTTC-AGAG-ATAAGAAATGATCTCGCTC
*** *
8773764 TTACTTCAATTTCAGAGATAAAGGCTTGATATCCAGCT-
1 TTACTTCAATTTCAGAGAT-AAGAAATGATCT-C-GCTC
* * *
8773802 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
1 TTACTTCAATTTC-AGA-GATAAGAAATGATCTCGCTC
** *
8773840 TTACTTCAATTTCAGAGATAAAGACGTGTTATC-CACTC
1 TTACTTCAATTTCAGAGAT-AAGAAATG--ATCTCGCTC
* * *
8773878 -TACTTCAATTTCAAGAGGATAGGAAATGACCTTGCTC
1 TTACTTCAATTTC-AGA-GATAAGAAATGATCTCGCTC
** *
8773915 TTACTTCAATTTCAGAGATAAAGACGTGTTATC-CACTC
1 TTACTTCAATTTCAGAGAT-AAGAAATG--ATCTCGCTC
* * *
8773953 -TACTTTCAATTTCAAGAGGATAGGAAATGACCTTGCTC
1 TTAC-TTCAATTTC-AGA-GATAAGAAATGATCTCGCTC
8773991 TTACTTCAATTTCAGAGATAA
1 TTACTTCAATTTCAGAGATAA
8774012 AGACGTGTTA
Statistics
Matches: 190, Mismatches: 37, Indels: 44
0.70 0.14 0.16
Matches are distributed among these distances:
36 14 0.07
37 52 0.27
38 87 0.46
39 31 0.16
40 6 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (36 bp):
TTACTTCAATTTCAGAGATAAGAAATGATCTCGCTC
Found at i:8773811 original size:76 final size:75
Alignment explanation
Indices: 8773677--8774185 Score: 643
Period size: 76 Copynumber: 6.9 Consensus size: 75
8773667 TTGGTGTTTT
* ** * * *
8773677 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGA--GATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAG
* *
8773742 AGAATATGAAATG
63 AGGATAGGAAATG
* * * * *
8773755 ATCTCGCTCTTACTTCAATTTCAGAGATAAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAG
*
8773820 GATAGGAAAAG
65 GATAGGAAATG
8773831 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
8773896 ATAGGAAATG
66 ATAGGAAATG
*
8773906 ACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTAC-TTCAATTTCAAGAG
8773971 GATAGGAAATG
65 GATAGGAAATG
*
8773982 ACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTC-A-AGG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
8774045 ---GG--ATG
66 ATAGGAAATG
* *
8774050 A-CGTTGCTCTTACTTCAATTTCAGAGATAAGGACGTGTTATCCACTCTACTTCAATTTCAAGCG
1 ATC-TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAG
* *
8774114 GGT-GG---CG
65 GATAGGAAATG
* * *
8774121 ---TTGCTCTTACTTCAATTTCAGAGATGAAGTCTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAG
8774183 GAT
65 GAT
8774186 GACGTTGTTC
Statistics
Matches: 400, Mismatches: 24, Indels: 23
0.89 0.05 0.05
Matches are distributed among these distances:
67 1 0.00
68 95 0.24
69 23 0.06
70 4 0.01
71 1 0.00
72 2 0.00
73 3 0.01
74 1 0.00
75 87 0.22
76 160 0.40
78 23 0.06
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (75 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
ATAGGAAATG
Found at i:8773961 original size:151 final size:150
Alignment explanation
Indices: 8773677--8774185 Score: 650
Period size: 151 Copynumber: 3.4 Consensus size: 150
8773667 TTGGTGTTTT
* ** * * *
8773677 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTTATCCAGCTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGA--GATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAG
* * * * * * * *
8773742 AGAATATGAAATGATCTCGCTCTTACTTCAATTTCAGAGATAAAGGCTTGATATCCAGCTTTACT
63 AGGATAGGAAATGACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACT
8773807 TCAATTTCAAGAGGATAGGAAAAG
127 TCAATTTCAAGAGGATAGGAAAAG
8773831 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
8773896 ATAGGAAATGACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTTCA
66 ATAGGAAATGACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTAC-TTCA
*
8773961 ATTTCAAGAGGATAGGAAATG
130 ATTTCAAGAGGATAGGAAAAG
*
8773982 ACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTC-A-AGG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
* *
8774045 ---GG--ATGACGTTGCTCTTACTTCAATTTCAGAGATAAGGACGTGTTATCCACTCTACTTCAA
66 ATAGGAAATGACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAA
* * *
8774105 TTTCAAGCGGGT-GG---CG
131 TTTCAAGAGGATAGGAAAAG
* * *
8774121 ---TTGCTCTTACTTCAATTTCAGAGATGAAGTCTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAG
8774183 GAT
65 GAT
8774186 GACGTTGTTC
Statistics
Matches: 325, Mismatches: 24, Indels: 25
0.87 0.06 0.07
Matches are distributed among these distances:
136 37 0.11
137 16 0.05
138 1 0.00
139 4 0.01
142 2 0.01
143 15 0.05
144 51 0.16
146 2 0.01
149 3 0.01
150 6 0.02
151 149 0.46
152 15 0.05
154 24 0.07
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (150 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
ATAGGAAATGACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAA
TTTCAAGAGGATAGGAAAAG
Found at i:8774038 original size:37 final size:37
Alignment explanation
Indices: 8773841--8774109 Score: 206
Period size: 37 Copynumber: 7.4 Consensus size: 37
8773831 ATCTTGCTCT
8773841 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
1 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
* ** *
8773878 TACTTCAATTTCAAGAGGAT-AGGAAATG--A-CCTTGCTC
1 TACTTCAATTTC-AGA-GATAAAGACGTGTTATCC--ACTC
8773915 TTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
1 -TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
* ** *
8773953 TACTTTCAATTTCAAGAGGAT-AGGAAATG--A-CCTTGCTC
1 TAC-TTCAATTTC-AGA-GATAAAGACGTGTTATCC--ACTC
8773991 TTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
1 -TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
*** * * *
8774029 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
*
8774060 TACTTCAATTTCAGAGATAAGGACGTGTTATCCACTC
1 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
8774097 TACTTCAATTTCA
1 TACTTCAATTTCA
8774110 AGCGGGTGGC
Statistics
Matches: 179, Mismatches: 28, Indels: 50
0.70 0.11 0.19
Matches are distributed among these distances:
31 13 0.07
32 10 0.06
33 1 0.01
34 2 0.01
35 3 0.02
36 19 0.11
37 61 0.34
38 47 0.26
39 16 0.09
40 7 0.04
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (37 bp):
TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
Found at i:8774067 original size:31 final size:31
Alignment explanation
Indices: 8774029--8774140 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 31
8774019 TTATCCACTC
8774029 TACTTCAATTTCAAGGGGATGACGTTGCTCT
1 TACTTCAATTTCAAGGGGATGACGTTGCTCT
*** * * *
8774060 TACTTCAATTTCAGAGATAAGGACGTGTTATCCACT
1 TACTTCAATTTCA-AGGGGATGAC--G-T-TGCTCT
*
8774096 CTACTTCAATTTCAAGCGGG-TGGCGTTGCTCT
1 -TACTTCAATTTCAAG-GGGATGACGTTGCTCT
8774128 TACTTCAATTTCA
1 TACTTCAATTTCA
8774141 GAGATGAAGT
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
31 26 0.43
32 10 0.16
33 1 0.02
34 2 0.03
35 1 0.02
36 8 0.13
37 13 0.21
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (31 bp):
TACTTCAATTTCAAGGGGATGACGTTGCTCT
Found at i:8774088 original size:68 final size:68
Alignment explanation
Indices: 8773979--8774254 Score: 404
Period size: 68 Copynumber: 4.1 Consensus size: 68
8773969 AGGATAGGAA
*
8773979 ATGACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAG
1 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAG
8774044 GGG
66 GGG
*
8774047 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAGGACGTGTTATCCACTCTACTTCAATTTCAAG
1 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAG
8774112 CGGG
66 -GGG
* * * *
8774116 -TGGCGTTGCTCTTACTTCAATTTCAGAGATGAAGTCTTGTTATCCAACTCTACTTCAATTTCAA
1 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAA
*
8774180 GAGG
65 GGGG
* *
8774184 ATGACGTTG---TT-CTT--ATTTCAAAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG
1 ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAG
8774243 GGG
66 GGG
8774246 ATGACGTTG
1 ATGACGTTG
8774255 AGACCTGCAG
Statistics
Matches: 190, Mismatches: 15, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
62 30 0.16
63 21 0.11
65 3 0.02
66 2 0.01
68 105 0.55
69 29 0.15
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (68 bp):
ATGACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAG
GGG
Found at i:8786280 original size:29 final size:29
Alignment explanation
Indices: 8786245--8786344 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 29
8786235 TTTAAAGGTT
*
8786245 TCGGGGGTAAAATGGTAATTTTCAGTGAAA
1 TCGGGGTTAAAATGGTAATTTT-AGTGAAA
* *
8786275 TCGGGGTTCAAATGG-AATTTTA--GAAGCT
1 TCGGGGTTAAAATGGTAATTTTAGTGAA--A
*
8786303 TCGGAGG-TAAAATGGTAAATTTTGGTGAAA
1 TCGG-GGTTAAAATGGT-AATTTTAGTGAAA
8786333 TCGGGGTTAAAA
1 TCGGGGTTAAAA
8786345 ATGGGATTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
26 3 0.05
28 12 0.21
29 10 0.18
30 28 0.50
32 3 0.05
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (29 bp):
TCGGGGTTAAAATGGTAATTTTAGTGAAA
Found at i:8786315 original size:28 final size:26
Alignment explanation
Indices: 8786224--8786317 Score: 66
Period size: 28 Copynumber: 3.3 Consensus size: 26
8786214 AATTAGGGTT
8786224 TAAAATGGAATTTTA-AAGGTTTCGGGGG
1 TAAAATGGAATTTTAGAA-G-TTC-GGGG
*
8786252 TAAAATGGTAATTTTCAGTGAA-ATCGGGG
1 TAAAATGG-AATTTT-A--GAAGTTCGGGG
*
8786281 TTCAAATGGAATTTTAGAAGCTTCGGAGG
1 -TAAAATGGAATTTTAGAAG-TTCGG-GG
8786310 TAAAATGG
1 TAAAATGG
8786318 TAAATTTTGG
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
26 3 0.06
28 20 0.38
29 18 0.34
30 10 0.19
33 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (26 bp):
TAAAATGGAATTTTAGAAGTTCGGGG
Found at i:8786355 original size:58 final size:58
Alignment explanation
Indices: 8786195--8786353 Score: 187
Period size: 58 Copynumber: 2.7 Consensus size: 58
8786185 ACCCGGGGGC
** * * * *
8786195 AAAATGGTAATTTTGGCAAAATTAGGGTTTAAAATGGAATTTTA-AAGGTTTCGGGGGT
1 AAAATGGTAATTTTGGTGAAA-TCGGGGTTAAAATGGAATTTTAGAAGGCTTCGGAGGT
* *
8786253 AAAATGGTAATTTTCAGTGAAATCGGGGTTCAAATGGAATTTTAGAA-GCTTCGGAGGT
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTAAAATGGAATTTTAGAAGGCTTCGGAGGT
*
8786311 AAAATGGTAAATTTTGGTGAAATCGGGGTTAAAAATGGGATTT
1 AAAATGGT-AATTTTGGTGAAATCGGGGTT-AAAATGGAATTT
8786354 AGGAATTTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
58 64 0.74
59 22 0.26
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (58 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTTAAAATGGAATTTTAGAAGGCTTCGGAGGT
Found at i:8786422 original size:30 final size:30
Alignment explanation
Indices: 8786362--8786472 Score: 152
Period size: 30 Copynumber: 3.7 Consensus size: 30
8786352 TTAGGAATTT
* * * *
8786362 TTTTGGGGTAAAAATATAATTTT-TAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
8786391 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
*
8786421 TTTAAGGGTCAAAATGTAATTTTGGAAAAG
1 TTTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
8786451 TTTTGGGGTCAAAATGCAATTT
1 TTTTAGGGTCAAAATGTAATTT
8786473 CTAGATTGTT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
29 20 0.27
30 53 0.73
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.38
Consensus pattern (30 bp):
TTTTAGGGTCAAAATGTAATTTTGGAAAAG
Found at i:8788379 original size:6 final size:6
Alignment explanation
Indices: 8788370--8788461 Score: 82
Period size: 6 Copynumber: 15.2 Consensus size: 6
8788360 ATTTTTAATG
* * **
8788370 TTTAAA TTTAGTA TTTTAA TTTAAA TTTAAA TTTAAA TTT-AA GGTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
8788418 TTTAAA TAATTAAA TTTAAA TTTAAGA --TAAA TTTCAA TTTAAA T
1 TTTAAA T--TTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA T
8788462 CAATTTAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
4 1 0.01
5 6 0.09
6 51 0.74
7 5 0.07
8 6 0.09
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:8788408 original size:31 final size:30
Alignment explanation
Indices: 8788387--8788461 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 30
8788377 TTAGTATTTT
8788387 AATTTAAAT-TTAAATTTAAATTTAAGGTA
1 AATTTAAATATTAAATTTAAATTTAAGGTA
*
8788416 AATTTAAATAATTAAATTTAAATTTAAGATA
1 AATTTAAAT-ATTAAATTTAAATTTAAGGTA
*
8788447 AATTTCAAT-TTAAAT
1 AATTTAAATATTAAAT
8788462 CAATTTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 15 0.36
31 27 0.64
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (30 bp):
AATTTAAATATTAAATTTAAATTTAAGGTA
Found at i:8788417 original size:17 final size:17
Alignment explanation
Indices: 8788397--8788470 Score: 84
Period size: 17 Copynumber: 4.6 Consensus size: 17
8788387 AATTTAAATT
*
8788397 TAAATTTAAATTTAAGG
1 TAAATTTAAATTTAAGA
*
8788414 TAAATTTAAA--TAA-T
1 TAAATTTAAATTTAAGA
8788428 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAGA
*
8788445 TAAATTTCAATTTAA-A
1 TAAATTTAAATTTAAGA
*
8788461 TCAATTTAAA
1 TAAATTTAAA
8788471 ATCAATTTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
14 10 0.20
15 3 0.06
16 12 0.24
17 24 0.49
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTAAGA
Found at i:8788439 original size:11 final size:11
Alignment explanation
Indices: 8788384--8788492 Score: 57
Period size: 11 Copynumber: 10.0 Consensus size: 11
8788374 AATTTAGTAT
*
8788384 TTTAATTTAAA
1 TTTAAATTAAA
8788395 TTTAAATTTAAA
1 TTTAAA-TTAAA
**
8788407 TTTAAGGTAAA
1 TTTAAATTAAA
8788418 TTTAAA-T-AA
1 TTTAAATTAAA
8788427 -TTAAATTTAAA
1 TTTAAA-TTAAA
8788438 TTTAAGA-TAAA
1 TTTAA-ATTAAA
*
8788449 TTTCAATTTAAA
1 TTT-AAATTAAA
* *
8788461 -TCAATTTAAA
1 TTTAAATTAAA
* * * *
8788471 ATCAATTTAAC
1 TTTAAATTAAA
8788482 TTTAAATTAAA
1 TTTAAATTAAA
8788493 AAGTCCAAGC
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
8 5 0.06
9 2 0.03
10 10 0.13
11 40 0.51
12 20 0.26
13 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:8788468 original size:27 final size:27
Alignment explanation
Indices: 8788436--8788488 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
8788426 ATTAAATTTA
*
8788436 AATTTAAGATAAATTTCAA-TTTAAATC
1 AATTTAAAATAAATTT-AACTTTAAATC
*
8788463 AATTTAAAATCAATTTAACTTTAAAT
1 AATTTAAAATAAATTTAACTTTAAAT
8788489 TAAAAAGTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (27 bp):
AATTTAAAATAAATTTAACTTTAAATC
Found at i:8789060 original size:18 final size:20
Alignment explanation
Indices: 8789022--8789066 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
8789012 GACTTTCCTA
8789022 TTTTCTATTTCTTTCAATTC
1 TTTTCTATTTCTTTCAATTC
*
8789042 TTTT-TATTT-TTTTAATTC
1 TTTTCTATTTCTTTCAATTC
8789060 TGTTTCT
1 T-TTTCT
8789067 TTCATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 9 0.41
19 8 0.36
20 5 0.23
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTCTATTTCTTTCAATTC
Found at i:8789616 original size:37 final size:37
Alignment explanation
Indices: 8789561--8789634 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
8789551 CTGAGGATCA
8789561 AATTAAATTACGCATTTTTCTTTTTTCTTTAGCTGAC
1 AATTAAATTACGCATTTTTCTTTTTTCTTTAGCTGAC
*
8789598 AATTAAATTACGCGTTTTTCTTTTTTCTTTAGCTGAC
1 AATTAAATTACGCATTTTTCTTTTTTCTTTAGCTGAC
8789635 TCCGCTAGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.51
Consensus pattern (37 bp):
AATTAAATTACGCATTTTTCTTTTTTCTTTAGCTGAC
Found at i:8791638 original size:12 final size:12
Alignment explanation
Indices: 8791621--8791676 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 12
8791611 GGCAACCCAA
8791621 TTATTTTTATTT
1 TTATTTTTATTT
8791633 TTATTTTTATTT
1 TTATTTTTATTT
*
8791645 TT-TTCTCTA-TT
1 TTATT-TTTATTT
8791656 TTATTTATTTATTT
1 TTA-TT-TTTATTT
8791670 ATTATTT
1 -TTATTT
8791677 GTCCAGGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
11 6 0.17
12 17 0.47
13 6 0.17
14 4 0.11
15 3 0.08
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:8792708 original size:21 final size:22
Alignment explanation
Indices: 8792674--8792716 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
8792664 TATTTCTTTC
8792674 AATTCTGTTTTCTTTTATTTTT
1 AATTCTGTTTTCTTTTATTTTT
8792696 AATTCTG-TTTCTTTTATTTTT
1 AATTCTGTTTTCTTTTATTTTT
8792717 CCTCAGATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (22 bp):
AATTCTGTTTTCTTTTATTTTT
Found at i:8800226 original size:2 final size:2
Alignment explanation
Indices: 8800219--8800264 Score: 76
Period size: 2 Copynumber: 23.0 Consensus size: 2
8800209 TATTCATTTC
8800219 AT AT AT AT AT AT AT AT AT -T CAT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
8800261 AT AT
1 AT AT
8800265 TCGATTAAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 40 0.95
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8800553 original size:72 final size:72
Alignment explanation
Indices: 8800424--8800734 Score: 331
Period size: 72 Copynumber: 4.3 Consensus size: 72
8800414 ACGCAAGTTC
* * * *
8800424 AATATGC--TTACTCTCGCCAGCTAATGTACGTTTACGCTCGTCAGCTAATGTACGTTTACACTC
1 AATATGCGTTTACGCTCGCCAGCTAATGTACATTTACGCTCGTCAGCTAATGTACATTTACGCTC
8800487 GTCAGCT
66 GTCAGCT
* * * *
8800494 AATATGCGTTTATGCTCGCTAGCTATTGTACATTTACGCTCGTCAGCTAATGTACGTTTACGCTC
1 AATATGCGTTTACGCTCGCCAGCTAATGTACATTTACGCTCGTCAGCTAATGTACATTTACGCTC
*
8800559 GTCATCT
66 GTCAGCT
* * * * * *
8800566 AATATGCGTTTACGCTCGCCAGCTACTGTACGTTTATGCTCGTCAACTAATATGCATTTACGCTC
1 AATATGCGTTTACGCTCGCCAGCTAATGTACATTTACGCTCGTCAGCTAATGTACATTTACGCTC
* **
8800631 GCCAATT
66 GTCAGCT
* * * * ** * * *
8800638 ACTGTACGTTTACACTCGTAAGCTAATATGCATTTACGCTC-TCTAGCTACTGTACATTTACGCT
1 AATATGCGTTTACGCTCGCCAGCTAATGTACATTTACGCTCGTC-AGCTAATGTACATTTACGCT
*
8800702 CATCAGCT
65 CGTCAGCT
*
8800710 AATATGCGTTTACGCTCACCAGCTA
1 AATATGCGTTTACGCTCGCCAGCTA
8800735 TTCAGATAAA
Statistics
Matches: 193, Mismatches: 45, Indels: 4
0.80 0.19 0.02
Matches are distributed among these distances:
70 7 0.04
71 2 0.01
72 184 0.95
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (72 bp):
AATATGCGTTTACGCTCGCCAGCTAATGTACATTTACGCTCGTCAGCTAATGTACATTTACGCTC
GTCAGCT
Found at i:8800734 original size:24 final size:24
Alignment explanation
Indices: 8800431--8800726 Score: 272
Period size: 24 Copynumber: 12.3 Consensus size: 24
8800421 TTCAATATGC
* *
8800431 TTACTCTCGCCAGCTAATGTACGT
1 TTACGCTCGTCAGCTAATGTACGT
8800455 TTACGCTCGTCAGCTAATGTACGT
1 TTACGCTCGTCAGCTAATGTACGT
* * *
8800479 TTACACTCGTCAGCTAATATGCGT
1 TTACGCTCGTCAGCTAATGTACGT
* * *
8800503 TTATGCTCG-CTAGCTATTGTACAT
1 TTACGCTCGTC-AGCTAATGTACGT
8800527 TTACGCTCGTCAGCTAATGTACGT
1 TTACGCTCGTCAGCTAATGTACGT
* * *
8800551 TTACGCTCGTCATCTAATATGCGT
1 TTACGCTCGTCAGCTAATGTACGT
* *
8800575 TTACGCTCGCCAGCTACTGTACGT
1 TTACGCTCGTCAGCTAATGTACGT
* * * * *
8800599 TTATGCTCGTCAACTAATATGCAT
1 TTACGCTCGTCAGCTAATGTACGT
* ** *
8800623 TTACGCTCGCCAATTACTGTACGT
1 TTACGCTCGTCAGCTAATGTACGT
* * * * *
8800647 TTACACTCGTAAGCTAATATGCAT
1 TTACGCTCGTCAGCTAATGTACGT
* *
8800671 TTACGCTC-TCTAGCTACTGTACAT
1 TTACGCTCGTC-AGCTAATGTACGT
* * *
8800695 TTACGCTCATCAGCTAATATGCGT
1 TTACGCTCGTCAGCTAATGTACGT
8800719 TTACGCTC
1 TTACGCTC
8800727 ACCAGCTATT
Statistics
Matches: 214, Mismatches: 54, Indels: 8
0.78 0.20 0.03
Matches are distributed among these distances:
23 2 0.01
24 209 0.98
25 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (24 bp):
TTACGCTCGTCAGCTAATGTACGT
Found at i:8802053 original size:55 final size:53
Alignment explanation
Indices: 8801940--8802113 Score: 195
Period size: 55 Copynumber: 3.2 Consensus size: 53
8801930 CTTTTCGATC
* *
8801940 GCACACGGGCTGACACACGGGGGTGTGTCTAGGGTATGTGTCTATACTGTTTGGAG
1 GCACAC-GGCTGGCACAC-GGGGTGTGTC-AGGGTGTGTGTCTATACTGTTTGGAG
*
8801996 GCACACGGACTGGCACACGGAGGTGTGTCAGGGTGTGTGCCTATACTGTTTGGAG
1 GCACACGG-CTGGCACACGG-GGTGTGTCAGGGTGTGTGTCTATACTGTTTGGAG
* * * * * *
8802051 GCACACAGGTTTGTACACGGGCGTGTGTCAAGGTGTGTGTCTATATTGCTTGGAG
1 GCACAC-GGCTGGCACACGGG-GTGTGTCAGGGTGTGTGTCTATACTGTTTGGAG
*
8802106 GCTCACGG
1 GCACACGG
8802114 GCGTGTGTCA
Statistics
Matches: 103, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
54 3 0.03
55 76 0.74
56 24 0.23
ACGTcount: A:0.18, C:0.19, G:0.37, T:0.26
Consensus pattern (53 bp):
GCACACGGCTGGCACACGGGGTGTGTCAGGGTGTGTGTCTATACTGTTTGGAG
Found at i:8802831 original size:40 final size:39
Alignment explanation
Indices: 8802786--8802894 Score: 103
Period size: 39 Copynumber: 2.7 Consensus size: 39
8802776 GAGAATATTT
* **
8802786 ACTGAACTGACACTGACACTGTTAACACTGCAAAATTTTA
1 ACTGAACTGACAGTGACACT-TTAACACTGCAAAATTACA
* * * * *
8802826 ACTGAACCGGCAGTGACACTATAAAACTGCAAGATTACA
1 ACTGAACTGACAGTGACACTTTAACACTGCAAAATTACA
*
8802865 ACTGAACT-AGCAGTGACACTATAAACACTG
1 ACTGAACTGA-CAGTGACACT-TTAACACTG
8802895 TGACGTGTCA
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
39 31 0.57
40 23 0.43
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (39 bp):
ACTGAACTGACAGTGACACTTTAACACTGCAAAATTACA
Found at i:8803043 original size:29 final size:29
Alignment explanation
Indices: 8802995--8803075 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
8802985 GTTTGCATCT
* *
8802995 GTAATTGTATTTGT-AGCATGTCTGCTTCC
1 GTAACTGTATTTGTGA-CATGACTGCTTCC
* **
8803024 GTAACTGTATTTGTGACATGACTGTTTTT
1 GTAACTGTATTTGTGACATGACTGCTTCC
* *
8803053 GTAACTGTATCTATGACATGACT
1 GTAACTGTATTTGTGACATGACT
8803076 ATATCTGTGG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 43 0.98
30 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (29 bp):
GTAACTGTATTTGTGACATGACTGCTTCC
Found at i:8803443 original size:26 final size:26
Alignment explanation
Indices: 8803414--8803466 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
8803404 TATCTATTCA
8803414 GGTAGATATCTGACTTGGAATAGAAC
1 GGTAGATATCTGACTTGGAATAGAAC
8803440 GGTAGATATCTGACTTGGAATAGAAC
1 GGTAGATATCTGACTTGGAATAGAAC
8803466 G
1 G
8803467 ATGTACGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (26 bp):
GGTAGATATCTGACTTGGAATAGAAC
Found at i:8804846 original size:29 final size:28
Alignment explanation
Indices: 8804831--8804898 Score: 118
Period size: 29 Copynumber: 2.4 Consensus size: 28
8804821 TAACATCATT
8804831 TTATATTTATGTATTGCATACATAAATAA
1 TTATATTTATGTATTGCATA-ATAAATAA
8804860 TTATATTTATGTATTGCATACATAAATAA
1 TTATATTTATGTATTGCATA-ATAAATAA
8804889 TTATATTTAT
1 TTATATTTAT
8804899 TCAATATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (28 bp):
TTATATTTATGTATTGCATAATAAATAA
Found at i:8831111 original size:17 final size:18
Alignment explanation
Indices: 8831084--8831117 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
8831074 GCTTCAGGGA
8831084 ATATGCCAAAATCTTCAC
1 ATATGCCAAAATCTTCAC
8831102 ATAT-CCAAAATCTTCA
1 ATATGCCAAAATCTTCA
8831118 TAATTGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.29
Consensus pattern (18 bp):
ATATGCCAAAATCTTCAC
Found at i:8835780 original size:21 final size:22
Alignment explanation
Indices: 8835756--8835796 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
8835746 TACAACAAAA
8835756 TAAAAATTATATTAT-AAATCC
1 TAAAAATTATATTATGAAATCC
8835777 TAAAAATTATATTATGAAAT
1 TAAAAATTATATTATGAAAT
8835797 ATAATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAAATTATATTATGAAATCC
Found at i:8837615 original size:31 final size:31
Alignment explanation
Indices: 8837577--8837641 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
8837567 TACAATGACA
* *
8837577 TGCACCTATGCTACTCGAACTAGAGGGGGAC
1 TGCACCTATGCTACTCAAACTACAGGGGGAC
*
8837608 TGCACCTATGCTACTCAAACTACAGTGGGAC
1 TGCACCTATGCTACTCAAACTACAGGGGGAC
8837639 TGC
1 TGC
8837642 CAGATACGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.22
Consensus pattern (31 bp):
TGCACCTATGCTACTCAAACTACAGGGGGAC
Found at i:8841948 original size:22 final size:21
Alignment explanation
Indices: 8841921--8841979 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 21
8841911 GACATCTCCA
8841921 TTTTCTTCTCTTCTTTTCTTCT
1 TTTTCTTCTCTTCTTTTCTT-T
8841943 TTTTC-TCTTCTTCTTTTTCTTT
1 TTTTCTTC-TCTTC-TTTTCTTT
*
8841965 TTTTTTTCTCTTCTT
1 TTTTCTTCTCTTCTT
8841980 AAACCCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 4 0.12
22 20 0.61
23 9 0.27
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTCTTCTCTTCTTTTCTTT
Found at i:8841950 original size:19 final size:20
Alignment explanation
Indices: 8841926--8841979 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
8841916 CTCCATTTTC
8841926 TTCTCTTCTT-TTCTTCTTT
1 TTCTCTTCTTCTTCTTCTTT
*
8841945 TTCTCTTCTTCTTTTTCTTT
1 TTCTCTTCTTCTTCTTCTTT
* *
8841965 TTTTTTTC-TCTTCTT
1 TTCTCTTCTTCTTCTT
8841980 AAACCCTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (20 bp):
TTCTCTTCTTCTTCTTCTTT
Found at i:8841953 original size:14 final size:14
Alignment explanation
Indices: 8841931--8841979 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
8841921 TTTTCTTCTC
*
8841931 TTCTTTTCTTCTTT
1 TTCTCTTCTTCTTT
8841945 TTCTCTTCTTCTTT
1 TTCTCTTCTTCTTT
8841959 TTCT-TT-TT-TTT
1 TTCTCTTCTTCTTT
8841970 TTCTCTTCTT
1 TTCTCTTCTT
8841980 AAACCCTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
11 7 0.22
12 4 0.12
13 4 0.12
14 17 0.53
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTCTTCTTCTTT
Found at i:8843561 original size:28 final size:25
Alignment explanation
Indices: 8843518--8843575 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 25
8843508 AAGATAACTG
8843518 TATAAAAATTTTAATATATAAAA-AA
1 TATAAAAATTTTAATAT-TAAAATAA
8843543 TATATAAAATTATTAAATATTAAAATAA
1 TATA-AAAATT-TT-AATATTAAAATAA
8843571 TATAA
1 TATAA
8843576 TATAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 4 0.14
26 6 0.21
27 8 0.28
28 11 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TATAAAAATTTTAATATTAAAATAA
Found at i:8843567 original size:26 final size:25
Alignment explanation
Indices: 8843518--8843575 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
8843508 AAGATAACTG
8843518 TATA-AAAATTTTAATATATAAAAAA
1 TATATAAAATTTTAATATAT-AAAAA
*
8843543 TATATAAAATTATTAA-ATATTAAAA
1 TATATAAAATT-TTAATATATAAAAA
8843568 TAATATAA
1 T-ATATAA
8843576 TATAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 9 0.31
26 16 0.55
27 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TATATAAAATTTTAATATATAAAAA
Found at i:8843912 original size:11 final size:11
Alignment explanation
Indices: 8843893--8843976 Score: 52
Period size: 11 Copynumber: 8.0 Consensus size: 11
8843883 TTTATCTTGC
*
8843893 ATTACAATATT
1 ATTATAATATT
8843904 ATTAT-A-A-T
1 ATTATAATATT
*
8843912 ATT-TAATTTT
1 ATTATAATATT
* *
8843922 ATGATCACTATT
1 ATTAT-AATATT
8843934 ATT-TAATATT
1 ATTATAATATT
** * *
8843944 ACAATATTACT
1 ATTATAATATT
8843955 ATTATAATATT
1 ATTATAATATT
8843966 ATTATAATATT
1 ATTATAATATT
8843977 TAATTTCATC
Statistics
Matches: 52, Mismatches: 15, Indels: 12
0.66 0.19 0.15
Matches are distributed among these distances:
7 1 0.02
8 5 0.10
9 1 0.02
10 10 0.19
11 29 0.56
12 6 0.12
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (11 bp):
ATTATAATATT
Found at i:8844745 original size:21 final size:20
Alignment explanation
Indices: 8844700--8844747 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
8844690 ATATGAATCG
*
8844700 TTTAGAATTCATTAGGAAAAT
1 TTTAAAATTCATTA-GAAAAT
8844721 TTTAAAATTCATTA-AAATAT
1 TTTAAAATTCATTAGAAA-AT
8844741 ATTTAAA
1 -TTTAAA
8844748 TAAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 19 0.79
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (20 bp):
TTTAAAATTCATTAGAAAAT
Found at i:8847840 original size:28 final size:28
Alignment explanation
Indices: 8847808--8847889 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
8847798 ATAGTAAACT
* *
8847808 GTTCGGTTCTAGTCGATCAAAGTCAAAG
1 GTTCGATTCTGGTCGATCAAAGTCAAAG
*
8847836 GTTCGATT-TGGGTC-AGTCAAAGTCAACG
1 GTTCGATTCT-GGTCGA-TCAAAGTCAAAG
* *
8847864 GTTCAATTCGGGTCGATCAAAGTCAA
1 GTTCGATTCTGGTCGATCAAAGTCAA
8847890 TGGGTTGGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
27 2 0.04
28 42 0.93
29 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (28 bp):
GTTCGATTCTGGTCGATCAAAGTCAAAG
Found at i:8854985 original size:20 final size:21
Alignment explanation
Indices: 8854948--8854986 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8854938 TTATGGTTAA
*
8854948 AAAATATTTATTATATTTATT
1 AAAATATTTATAATATTTATT
8854969 AAAATATTT-TAATATTTA
1 AAAATATTTATAATATTTA
8854987 AAACGTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AAAATATTTATAATATTTATT
Found at i:8856141 original size:3 final size:3
Alignment explanation
Indices: 8856133--8856168 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
8856123 GATTGAAATC
8856133 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8856169 GGAATAAATG
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8857788 original size:13 final size:14
Alignment explanation
Indices: 8857769--8857801 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8857759 ATCTTCATAT
8857769 ATATTTT-TTAAAA
1 ATATTTTATTAAAA
*
8857782 TTATTTTATTAAAA
1 ATATTTTATTAAAA
8857796 ATATTT
1 ATATTT
8857802 ATAATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTTTATTAAAA
Found at i:8866470 original size:14 final size:14
Alignment explanation
Indices: 8866451--8866485 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
8866441 TTTGATATTT
8866451 TGAAATTATATACG
1 TGAAATTATATACG
8866465 TGAAATTATATACG
1 TGAAATTATATACG
8866479 TGAAATT
1 TGAAATT
8866486 TCATGTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (14 bp):
TGAAATTATATACG
Found at i:8870784 original size:28 final size:27
Alignment explanation
Indices: 8870761--8870812 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
8870751 ACTTTTGGAT
8870761 ACTCG-GGGGCAAAATGGTAATTTTGG
1 ACTCGAGGGGCAAAATGGTAATTTTGG
8870787 ACTCGTAGGGGCAAAATGGTAATTTT
1 ACTCG-AGGGGCAAAATGGTAATTTT
8870813 CGGTAAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 5 0.21
28 19 0.79
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (27 bp):
ACTCGAGGGGCAAAATGGTAATTTTGG
Found at i:8870841 original size:30 final size:29
Alignment explanation
Indices: 8870793--8870960 Score: 87
Period size: 30 Copynumber: 5.7 Consensus size: 29
8870783 TTGGACTCGT
* * *
8870793 AGGGGCAAAATGGTAATTTTCGGTAAAATC
1 AGGGTCAAAAAGGGAATTTT-GGTAAAATC
*
8870823 AGGGTCAAAAAGGGAATTTTGG-AAAATTTG
1 AGGGTCAAAAAGGGAATTTTGGTAAAA--TC
*
8870853 AGGGT-AAAATA-GTAATATTTGGTAAAATC
1 AGGGTCAAAA-AGGGAAT-TTTGGTAAAATC
* * * *
8870882 -GAGGTCGAAAATGGAATTTTGG-AAAGCTT
1 AG-GGTCAAAAAGGGAATTTTGGTAAA-ATC
* *
8870911 AGGGGT-AAAATGGTAATTTTTGGTAAAATC
1 A-GGGTCAAAAAGGGAA-TTTTGGTAAAATC
* * *
8870941 GGGGTTAAAAATGGAATTTT
1 AGGGTCAAAAAGGGAATTTT
8870961 AGAAAGTTTA
Statistics
Matches: 104, Mismatches: 20, Indels: 29
0.68 0.13 0.19
Matches are distributed among these distances:
28 8 0.08
29 35 0.34
30 53 0.51
31 8 0.08
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (29 bp):
AGGGTCAAAAAGGGAATTTTGGTAAAATC
Found at i:8871039 original size:58 final size:58
Alignment explanation
Indices: 8870792--8871167 Score: 529
Period size: 59 Copynumber: 6.4 Consensus size: 58
8870782 TTTGGACTCG
* * * * * *
8870792 TAGGGGCAAAATGGTAATTTTCGGTAAAATCAGGGTCAAAAAGGGAATTTTGGAAAATT
1 TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGT-TAAAATGGAATTTTGGAAAGTT
* * * * *
8870851 T-GAGGGTAAAATAGTAATATTTGGTAAAATCGAGGTCGAAAATGGAATTTTGGAAAGCT
1 TAG-GGGTAAAATGGTAATTTTTGGTAAAATCGGGGT-TAAAATGGAATTTTGGAAAGTT
*
8870910 TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTT
1 TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTT-AAAATGGAATTTTGGAAAGTT
* * *
8870969 TAGGGGTGAAATGGTAATTTTTGATGAAATCGGGGTTAAAATGGAATTTTGGAAAGTT
1 TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAATGGAATTTTGGAAAGTT
* *
8871027 TAGGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTAAAATGGAATTTTGGAAAGTT
1 TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAATGGAATTTTGGAAAGTT
*
8871085 TAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
1 TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTT-AAAATGGAATTTTGGAAAGTT
*
8871144 TAAGGGTAAAATGGTAATTTTTGG
1 TAGGGGTAAAATGGTAATTTTTGG
8871168 ACCATCCAGG
Statistics
Matches: 288, Mismatches: 25, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
58 112 0.39
59 175 0.61
60 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (58 bp):
TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAATGGAATTTTGGAAAGTT
Found at i:8871048 original size:117 final size:117
Alignment explanation
Indices: 8870792--8871167 Score: 549
Period size: 117 Copynumber: 3.2 Consensus size: 117
8870782 TTTGGACTCG
* * * * * *
8870792 TAGGGGCAAAATGGTAATTTTCGGTAAAATCAGGGTCAAAAAGGGAATTTTGGAAAATTT-GAGG
1 TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG-GG
* * * * * *
8870856 GTAAAATAGTAATATTTGGTAAAATCGAGGTCGAAAATGGAATTTTGGAAAGCT
65 GTAAAATGGTAATTTTTGGTGAAATCGGGGT-TAAAATGGAATTTTGGAAAGTT
*
8870910 TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGG
1 TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGG
* *
8870975 TGAAATGGTAATTTTTGATGAAATCGGGGTTAAAATGGAATTTTGGAAAGTT
66 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTT
* *
8871027 TAGGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTT-AAAATGGAATTTTGGAAAGTTTAGGGG
1 TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGG
8871091 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
66 TAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTT
*
8871144 TAAGGGTAAAATGGTAATTTTTGG
1 TAGGGGTAAAATGGTAATTTTTGG
8871168 ACCATCCAGG
Statistics
Matches: 235, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
116 55 0.23
117 99 0.42
118 80 0.34
119 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (117 bp):
TAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGG
TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTT
Found at i:8872167 original size:14 final size:14
Alignment explanation
Indices: 8872148--8872190 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8872138 TTCTTTTTAC
8872148 TATTTTATTATTAA
1 TATTTTATTATTAA
* *
8872162 TATTTTATTAATAT
1 TATTTTATTATTAA
*
8872176 TA-TTTAATATTAA
1 TATTTTATTATTAA
8872189 TA
1 TA
8872191 AATATTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTTTATTATTAA
Found at i:8872194 original size:20 final size:21
Alignment explanation
Indices: 8872153--8872198 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
8872143 TTTACTATTT
* *
8872153 TATTA-TTAATATTTTATTAA
1 TATTATTTAATATTTAATAAA
8872173 TATTATTTAATA-TTAATAAA
1 TATTATTTAATATTTAATAAA
8872193 TATTAT
1 TATTAT
8872199 AATTGCTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTATTTAATATTTAATAAA
Found at i:8872237 original size:25 final size:24
Alignment explanation
Indices: 8872193--8872240 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
8872183 TATTAATAAA
8872193 TATTATAATTGCTATCAATATTAC
1 TATTATAATTGCTATCAATATTAC
*
8872217 TATTATTAATTTGTTAT-AATATTA
1 TATTA-TAA-TTGCTATCAATATTA
8872241 AATATTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 10 0.48
26 6 0.29
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TATTATAATTGCTATCAATATTAC
Found at i:8872913 original size:13 final size:13
Alignment explanation
Indices: 8872897--8872921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8872887 CAATTGAGCT
8872897 TGTAAATTGGACA
1 TGTAAATTGGACA
8872910 TGTAAATTGGAC
1 TGTAAATTGGAC
8872922 TTTATTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (13 bp):
TGTAAATTGGACA
Found at i:8872983 original size:17 final size:16
Alignment explanation
Indices: 8872963--8873015 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
8872953 AAATCATTTT
*
8872963 AATTCAAATTTAACATA
1 AATTTAAATTTAA-ATA
* *
8872980 AATTTAACTTCTAAATG
1 AATTTAAATT-TAAATA
8872997 AATTTAAATTTAAAATA
1 AATTTAAATTT-AAATA
8873014 AA
1 AA
8873016 CTAAGATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 1 0.03
17 25 0.86
18 3 0.10
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (16 bp):
AATTTAAATTTAAATA
Found at i:8876921 original size:6 final size:6
Alignment explanation
Indices: 8876910--8876943 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
8876900 CATGTGAATT
8876910 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
8876944 TTATTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAC
Found at i:8877856 original size:15 final size:15
Alignment explanation
Indices: 8877836--8877898 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
8877826 AAAATATTTG
8877836 AAATATTTTAATATA
1 AAATATTTTAATATA
*
8877851 AAATATTTT-ATTTCA
1 AAATATTTTAATAT-A
*
8877866 AAATATAATTTAAAATA
1 AAATAT--TTTAATATA
8877883 AAATATTTTAATATA
1 AAATATTTTAATATA
8877898 A
1 A
8877899 TTAATATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 3 0.08
15 25 0.62
17 10 0.25
18 2 0.05
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATTTTAATATA
Found at i:8877925 original size:56 final size:56
Alignment explanation
Indices: 8877821--8877927 Score: 130
Period size: 56 Copynumber: 1.9 Consensus size: 56
8877811 AAACAATATA
* * *
8877821 AAAATAAAATATTTGAAATATTTTAATATAAAATATTTTATTTCAAAATATAATTT
1 AAAATAAAATATTTGAAATATATTAATATAAAATACTATATTTCAAAATATAATTT
*
8877877 AAAATAAAATATTT-TAATATAATTAATATAAAAATAACTATA-TT-AAAATAT
1 AAAATAAAATATTTGAAATAT-ATTAATAT-AAAAT-ACTATATTTCAAAATAT
8877928 GATTAAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
55 5 0.11
56 28 0.64
57 7 0.16
58 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (56 bp):
AAAATAAAATATTTGAAATATATTAATATAAAATACTATATTTCAAAATATAATTT
Found at i:8894902 original size:17 final size:17
Alignment explanation
Indices: 8894882--8894914 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8894872 TTAAATTTAA
8894882 AATTTTA-AATAAAAATT
1 AATTTTATAA-AAAAATT
8894899 AATTTTATAAAAAAAT
1 AATTTTATAAAAAAAT
8894915 ATTCTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTTTATAAAAAAATT
Found at i:8896687 original size:24 final size:24
Alignment explanation
Indices: 8896638--8896693 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
8896628 TGTTGGTTTC
* *
8896638 AAATGAAA-ACAATGCAATTGTTGA
1 AAAT-AAAGACAATGCAAATGTGGA
* *
8896662 AACTAAAGACAATGGAAATGTGGA
1 AAATAAAGACAATGCAAATGTGGA
8896686 AAATAAAG
1 AAATAAAG
8896694 TCTCACTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.54, C:0.07, G:0.20, T:0.20
Consensus pattern (24 bp):
AAATAAAGACAATGCAAATGTGGA
Found at i:8901682 original size:24 final size:24
Alignment explanation
Indices: 8901649--8901704 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
8901639 TTCAAGGAGA
* *
8901649 CTTTATTTTCAACATTTCCATTGT
1 CTTTAATTTCAACAATTCCATTGT
*
8901673 CTTTAATTTCAACAATTGCATTGT
1 CTTTAATTTCAACAATTCCATTGT
*
8901697 -TTTCATTT
1 CTTTAATTT
8901705 GAAACCAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.54
Consensus pattern (24 bp):
CTTTAATTTCAACAATTCCATTGT
Found at i:8908799 original size:23 final size:23
Alignment explanation
Indices: 8908773--8908835 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
8908763 TACGATTTTT
* * *
8908773 TCTGCTTTTATGGCGCGGTTATG
1 TCTGCTTCTATAGCACGGTTATG
*
8908796 TCTGCTTCTATAGCATGGTTATG
1 TCTGCTTCTATAGCACGGTTATG
8908819 TCTGCTTCTATAGCACG
1 TCTGCTTCTATAGCACG
8908836 TTAGTTTGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.41
Consensus pattern (23 bp):
TCTGCTTCTATAGCACGGTTATG
Found at i:8909611 original size:17 final size:17
Alignment explanation
Indices: 8909562--8909643 Score: 67
Period size: 17 Copynumber: 5.4 Consensus size: 17
8909552 ACGATTACAA
*
8909562 ATACAGTCATGTCACAT
1 ATACAGTCATGTCACAG
8909579 ATACA---AT-T-ACAG
1 ATACAGTCATGTCACAG
*
8909591 ATACAGTCATGTCAGAG
1 ATACAGTCATGTCACAG
8909608 ATACAG---T-T-ACAG
1 ATACAGTCATGTCACAG
*
8909620 ATACAGTCATGTCATAG
1 ATACAGTCATGTCACAG
8909637 ATACAGT
1 ATACAGT
8909644 TACGGATGCA
Statistics
Matches: 51, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
12 17 0.33
13 2 0.04
14 3 0.06
15 3 0.06
16 2 0.04
17 24 0.47
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (17 bp):
ATACAGTCATGTCACAG
Found at i:8909659 original size:29 final size:29
Alignment explanation
Indices: 8909548--8909646 Score: 137
Period size: 29 Copynumber: 3.4 Consensus size: 29
8909538 AAAATTATAT
*
8909548 AGATAC-GATTACAAATACAGTCATGTCAC
1 AGATACAG-TTACAGATACAGTCATGTCAC
* * *
8909577 ATATACAATTACAGATACAGTCATGTCAG
1 AGATACAGTTACAGATACAGTCATGTCAC
*
8909606 AGATACAGTTACAGATACAGTCATGTCAT
1 AGATACAGTTACAGATACAGTCATGTCAC
8909635 AGATACAGTTAC
1 AGATACAGTTAC
8909647 GGATGCAGAC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (29 bp):
AGATACAGTTACAGATACAGTCATGTCAC
Found at i:8909662 original size:23 final size:23
Alignment explanation
Indices: 8909636--8909686 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
8909626 TCATGTCATA
**
8909636 GATACAGTTACGGATGCAGACAT
1 GATACAGTTACAAATGCAGACAT
*
8909659 GATACAGTTACAAATGCAGACGT
1 GATACAGTTACAAATGCAGACAT
8909682 GATAC
1 GATAC
8909687 CCCAATCCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (23 bp):
GATACAGTTACAAATGCAGACAT
Found at i:8909841 original size:40 final size:40
Alignment explanation
Indices: 8909749--8909850 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 40
8909739 GTATGACACG
* * * *
8909749 TTGCAATGTTTAAAATGTCACTGCCAGTTCAGTGGTAACC
1 TTGCAGTGTTTACAATGTCACTGCCAGTTCAGTGATAACA
* * * * * *
8909789 TTGTAGTATTTACAATGTCATTGCCGGTTCAGTTATAATA
1 TTGCAGTGTTTACAATGTCACTGCCAGTTCAGTGATAACA
*
8909829 TTGCAGTGTTTACAGTGTCACT
1 TTGCAGTGTTTACAATGTCACT
8909851 ACCAACTCAG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (40 bp):
TTGCAGTGTTTACAATGTCACTGCCAGTTCAGTGATAACA
Found at i:8914384 original size:31 final size:30
Alignment explanation
Indices: 8914348--8914416 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
8914338 CCAAGAGGAT
*
8914348 TGTTTTGTCAC-TTTTCGATAACTTTAGTGAC
1 TGTTTTGTCACATTTTC-A-AACTTGAGTGAC
* *
8914379 TGTTTTATCACATTTTCAAAGTTGAGTGAC
1 TGTTTTGTCACATTTTCAAACTTGAGTGAC
*
8914409 TATTTTGT
1 TGTTTTGT
8914417 TAAATGTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 16 0.50
31 11 0.34
32 5 0.16
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (30 bp):
TGTTTTGTCACATTTTCAAACTTGAGTGAC
Found at i:8914692 original size:21 final size:21
Alignment explanation
Indices: 8914668--8914707 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8914658 AAAGATAAAT
* *
8914668 TAGTTTTTCTTGTAAAAACTC
1 TAGTTTTTCCTATAAAAACTC
8914689 TAGTTTTTCCTATAAAAAC
1 TAGTTTTTCCTATAAAAAC
8914708 CCACGTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (21 bp):
TAGTTTTTCCTATAAAAACTC
Found at i:8919742 original size:14 final size:14
Alignment explanation
Indices: 8919723--8919761 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
8919713 TAAAAAAAAT
8919723 AAATTATTTTCCAA
1 AAATTATTTTCCAA
*
8919737 AAATTATTTTTCAA
1 AAATTATTTTCCAA
*
8919751 AAATCATTTTC
1 AAATTATTTTC
8919762 AGTAAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATTATTTTCCAA
Found at i:8928653 original size:22 final size:22
Alignment explanation
Indices: 8928623--8928674 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
8928613 GATTTAAAAT
*
8928623 TTTAAATATATTTT-TAATTATA
1 TTTAAATAT-TTTTATAATTAAA
*
8928645 TTTACATATTTTTATAATTAAA
1 TTTAAATATTTTTATAATTAAA
8928667 TTTAAATA
1 TTTAAATA
8928675 AATAAATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAAATATTTTTATAATTAAA
Found at i:8931237 original size:16 final size:16
Alignment explanation
Indices: 8931216--8931246 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8931206 TCACACTATT
*
8931216 TTTTTTTAAAAAATTA
1 TTTTTTCAAAAAATTA
8931232 TTTTTTCAAAAAATT
1 TTTTTTCAAAAAATT
8931247 CAAACATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTTTCAAAAAATTA
Found at i:8934643 original size:21 final size:21
Alignment explanation
Indices: 8934601--8934643 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
8934591 TATGAAAAGA
* *
8934601 ACTACCGATACTTCGTATGTT
1 ACTACCGATACATCGTAAGTT
8934622 ACTACCGATACAAT-GTAAGTT
1 ACTACCGATAC-ATCGTAAGTT
8934643 A
1 A
8934644 GTAACCAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (21 bp):
ACTACCGATACATCGTAAGTT
Found at i:8936640 original size:8 final size:7
Alignment explanation
Indices: 8936613--8936650 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
8936603 TTACCTTGTA
8936613 AATA-TT
1 AATATTT
8936619 AATTATTT
1 AA-TATTT
8936627 AATATTT
1 AATATTT
8936634 AAGTATTT
1 AA-TATTT
8936642 AATATTT
1 AATATTT
8936649 AA
1 AA
8936651 GGTCTTACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 2 0.07
7 16 0.55
8 11 0.38
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (7 bp):
AATATTT
Found at i:8936640 original size:15 final size:15
Alignment explanation
Indices: 8936613--8936651 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
8936603 TTACCTTGTA
*
8936613 AATA-TTAATTATTT
1 AATATTTAAGTATTT
8936627 AATATTTAAGTATTT
1 AATATTTAAGTATTT
8936642 AATATTTAAG
1 AATATTTAAG
8936652 GTCTTACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
AATATTTAAGTATTT
Found at i:8937599 original size:30 final size:30
Alignment explanation
Indices: 8937563--8937629 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
8937553 TTTCGATGGT
* * *
8937563 TGTCGATTGCGTGCGATAGGATGCAATGAC
1 TGTCGATTGCATGCGATAGAATGCAATCAC
*
8937593 TGTCGATTGCATGCGATAGAATGCGATCAC
1 TGTCGATTGCATGCGATAGAATGCAATCAC
8937623 TGTCGAT
1 TGTCGAT
8937630 GCAAACGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (30 bp):
TGTCGATTGCATGCGATAGAATGCAATCAC
Found at i:8938526 original size:11 final size:10
Alignment explanation
Indices: 8938505--8938544 Score: 62
Period size: 10 Copynumber: 3.8 Consensus size: 10
8938495 TCAACAATCA
8938505 TTTTTAAATT
1 TTTTTAAATT
8938515 TTTTTAATATTT
1 TTTTTAA-A-TT
8938527 TTTTTAAATT
1 TTTTTAAATT
8938537 TTTTTAAA
1 TTTTTAAA
8938545 ATTTGGGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 17 0.61
11 2 0.07
12 9 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:8938533 original size:22 final size:22
Alignment explanation
Indices: 8938505--8938548 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8938495 TCAACAATCA
*
8938505 TTTTTAAATTTTTTTAATATTT
1 TTTTTAAATTTTTTTAAAATTT
8938527 TTTTTAAATTTTTTTAAAATTT
1 TTTTTAAATTTTTTTAAAATTT
8938549 GGGTCAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTAAATTTTTTTAAAATTT
Found at i:8938546 original size:11 final size:11
Alignment explanation
Indices: 8938505--8938548 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
8938495 TCAACAATCA
8938505 TTTTT-AAATT
1 TTTTTAAAATT
*
8938515 TTTTTAATATT
1 TTTTTAAAATT
*
8938526 TTTTTTAAATT
1 TTTTTAAAATT
8938537 TTTTTAAAATT
1 TTTTTAAAATT
8938548 T
1 T
8938549 GGGTCAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 5 0.17
11 24 0.83
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAAAATT
Found at i:8942059 original size:21 final size:21
Alignment explanation
Indices: 8942026--8942065 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8942016 AAAATTTTAT
8942026 TTAATTTTAATTTACAACTCA
1 TTAATTTTAATTTACAACTCA
*
8942047 TTAATATTT-ATTTATAACT
1 TTAAT-TTTAATTTACAACT
8942066 TGTCAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAATTTTAATTTACAACTCA
Found at i:8944201 original size:18 final size:18
Alignment explanation
Indices: 8944178--8944216 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
8944168 AGAGTAGACG
8944178 TTTATCACCAACGTAATT
1 TTTATCACCAACGTAATT
* *
8944196 TTTATCACCAATGTAGTT
1 TTTATCACCAACGTAATT
8944214 TTT
1 TTT
8944217 CTAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (18 bp):
TTTATCACCAACGTAATT
Found at i:8946302 original size:149 final size:146
Alignment explanation
Indices: 8946123--8946623 Score: 562
Period size: 152 Copynumber: 3.4 Consensus size: 146
8946113 TGATTAAAAT
* * * * * *
8946123 AAAATCACTACTTTACTTCAAATTCAAAATTTTTATTTTGAAATAGTTAAAAAAATCGAAACTTC
1 AAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTA
*
8946188 GTTTAAAAATTTAAACTTTTT-TTTAAAATCACTAAAAAACATATTTTTATTTTCTAAAAAATCT
66 GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTT-T-AAAAATCT
**
8946252 AAACTTTAAATTTTTTAATA
129 AAA-TTT-CCTTTTTTAATA
* ***
8946272 AAAATCACCACTTTACTTAAAAATCTAAATTTTTATTTCGAAATAGTTAAAAAAATCAAAAAAAA
1 AAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTA
* * * * *
8946337 TTTTAAAAATTTAAACTTTTTCTTTAAAATTATTAAAAAATATATATTTTTGTTTTTAAAAATCT
66 GTTTAAAAATTTAAACTTTTTCTTTAAAATAACT-AAAAA-ACATATTTTTATTTTTAAAAATCT
**
8946402 AAATTTTTCCTTTTTTTTTAA
129 AAA--TTTCCTTTTTTAAT-A
* * *
8946423 GAAAATCATTATTTTACTTAAAAAT-TCAAATTTTTATTTCG-AATAATTAAAAAAAATCAAAAC
1 -AAAATCACTACTTTACTTAAAAATCT-AAATTTTTATTTCGAAATAGTT-AAAAAAATCAAAAC
* *
8946486 TTTGTTTAAAAATTTTAAA-TTTTTCTTTAAAATAACTAAAAAACATATTTATATTTTTAAAAAT
63 TTAGTTTAAAAA-TTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAAT
* * *
8946550 TTAAATTTCCTCTTTTAAAA
127 CTAAATTTCCTTTTTTAATA
* * *
8946570 AAAATCACTATTTTTCTTAAAAATC-AAATTTTTATTTCGAAATTATTTAAAAAA
1 AAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAAA-TAGTTAAAAAA
8946624 CCAAAATTTT
Statistics
Matches: 298, Mismatches: 42, Indels: 27
0.81 0.11 0.07
Matches are distributed among these distances:
145 14 0.05
146 30 0.10
147 5 0.02
148 10 0.03
149 75 0.25
150 51 0.17
151 22 0.07
152 85 0.29
153 6 0.02
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (146 bp):
AAAATCACTACTTTACTTAAAAATCTAAATTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTA
GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATCTAA
ATTTCCTTTTTTAATA
Found at i:8946415 original size:22 final size:22
Alignment explanation
Indices: 8946372--8946415 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8946362 AAAATTATTA
* **
8946372 AAAAATATATATTTTTGTTTTT
1 AAAAATATAAATTTTTCCTTTT
*
8946394 AAAAATCTAAATTTTTCCTTTT
1 AAAAATATAAATTTTTCCTTTT
8946416 TTTTTAAGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (22 bp):
AAAAATATAAATTTTTCCTTTT
Found at i:8947067 original size:3 final size:3
Alignment explanation
Indices: 8947059--8947127 Score: 66
Period size: 3 Copynumber: 22.7 Consensus size: 3
8947049 AAACCCTCAA
* * * *
8947059 AAT AAT AAT AAT AAT AATT AAT ACT AAT ACT AAT ACT AAT ACT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
** *
8947105 AAT AAT AGC AAT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
8947128 ATTGGGTCCT
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8948071 original size:29 final size:28
Alignment explanation
Indices: 8948012--8948072 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
8948002 AATTTCTTAC
* *
8948012 ATATTACATATGTATTATTATTATTATT
1 ATATAACATATGTATTATTATTATTAGT
*
8948040 ATATAACATTATGTTTTATTATTTATT-GT
1 ATATAACA-TATGTATTATTA-TTATTAGT
8948069 ATAT
1 ATAT
8948073 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.25
29 16 0.57
30 5 0.18
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (28 bp):
ATATAACATATGTATTATTATTATTAGT
Found at i:8949873 original size:26 final size:26
Alignment explanation
Indices: 8949857--8949969 Score: 147
Period size: 26 Copynumber: 4.3 Consensus size: 26
8949847 CCCACTCAAG
*
8949857 ATATCGCTCTTACGAGCCAGTCCAGT
1 ATATCGCTTTTACGAGCCAGTCCAGT
*
8949883 ATATTGCTTTTACGAGCCAGTCCAGT
1 ATATCGCTTTTACGAGCCAGTCCAGT
*
8949909 ATATCGCTTTTACGAGCCAGTTCAGT
1 ATATCGCTTTTACGAGCCAGTCCAGT
** * *
8949935 ATATCGCTCCTACAAGCCAGAT-TAGT
1 ATATCGCTTTTACGAGCCAG-TCCAGT
8949961 ATATCGCTT
1 ATATCGCTT
8949970 CAAAGTCTTC
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 76 0.99
27 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (26 bp):
ATATCGCTTTTACGAGCCAGTCCAGT
Found at i:8951618 original size:16 final size:18
Alignment explanation
Indices: 8951597--8951638 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 18
8951587 CCACTCTTTT
8951597 AAATTTTATATT-ATC-A
1 AAATTTTATATTAATCTA
8951613 AAA-TTTATATTAATCTA
1 AAATTTTATATTAATCTA
8951630 AATATTTTA
1 AA-ATTTTA
8951639 AATAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.36
16 6 0.27
17 3 0.14
18 1 0.05
19 4 0.18
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTTTATATTAATCTA
Found at i:8957564 original size:19 final size:19
Alignment explanation
Indices: 8957542--8957588 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
8957532 TTTTAATTTT
*
8957542 TTTTTATATATTTTTAGAA
1 TTTTTATAAATTTTTAGAA
* *
8957561 TTTTTTTAAATTTTTATAA
1 TTTTTATAAATTTTTAGAA
8957580 TTTTT-TAAA
1 TTTTTATAAA
8957589 AATATAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTATAAATTTTTAGAA
Found at i:8957585 original size:10 final size:10
Alignment explanation
Indices: 8957541--8957586 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
8957531 ATTTTAATTT
8957541 TTTTTTAT-A
1 TTTTTTATAA
*
8957550 TATTTTTAGAA
1 T-TTTTTATAA
8957561 TTTTTT-TAA
1 TTTTTTATAA
*
8957570 ATTTTTATAA
1 TTTTTTATAA
8957580 TTTTTTA
1 TTTTTTA
8957587 AAAATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
9 8 0.27
10 20 0.67
11 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:8958885 original size:30 final size:30
Alignment explanation
Indices: 8958849--8958916 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
8958839 AAAAGTATAA
*
8958849 ATTTTTAAAAGATTAAATTAAAATTTTATT
1 ATTTTTAAAAGATTAAAATAAAATTTTATT
** * *
8958879 ATTTTTAGGAGGTTAAAATATAATTTTATT
1 ATTTTTAAAAGATTAAAATAAAATTTTATT
8958909 -TTTATTAA
1 ATTT-TTAA
8958917 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (30 bp):
ATTTTTAAAAGATTAAAATAAAATTTTATT
Found at i:8959528 original size:39 final size:39
Alignment explanation
Indices: 8959485--8959564 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 39
8959475 TTTTTATACT
*
8959485 TTTTTAATAATTTTAATTTTTTAAAATTTTCAAAAA-TAA
1 TTTTTAATAATTTGAA-TTTTTAAAATTTTCAAAAATTAA
* ** *
8959524 TTTTTATTTGTTTGAATTTTTAAAATTTTTAAAAATTAA
1 TTTTTAATAATTTGAATTTTTAAAATTTTCAAAAATTAA
8959563 TT
1 TT
8959565 AAATGTTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 18 0.51
39 17 0.49
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (39 bp):
TTTTTAATAATTTGAATTTTTAAAATTTTCAAAAATTAA
Found at i:8960515 original size:31 final size:32
Alignment explanation
Indices: 8960437--8960517 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
8960427 GACCAAAACA
*
8960437 TTTTTTTTTC-AACTTTTAAGGGGTGCCAAAT
1 TTTTTTTTTCTAATTTTTAAGGGGTGCCAAAT
* * *
8960468 GTTTTTTTT-TAGTTTTTAA-GGGT-CTAAAT
1 TTTTTTTTTCTAATTTTTAAGGGGTGCCAAAT
8960497 TTTTTTTTTACTAATTTTTAA
1 TTTTTTTTT-CTAATTTTTAA
8960518 AGAACTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
29 13 0.32
30 4 0.10
31 24 0.59
ACGTcount: A:0.22, C:0.07, G:0.12, T:0.58
Consensus pattern (32 bp):
TTTTTTTTTCTAATTTTTAAGGGGTGCCAAAT
Found at i:8965317 original size:19 final size:20
Alignment explanation
Indices: 8965261--8965317 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
8965251 TAATTTTTTT
8965261 ATAATTATTTATTAATTTTAA
1 ATAATTATTTA-TAATTTTAA
* * *
8965282 ATAATTCTTCA-ATTTTTAA
1 ATAATTATTTATAATTTTAA
*
8965301 ATAATT-TTTATAGTTTT
1 ATAATTATTTATAATTTT
8965318 CTATATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.10
19 18 0.60
21 9 0.30
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
ATAATTATTTATAATTTTAA
Found at i:8965364 original size:20 final size:20
Alignment explanation
Indices: 8965304--8965377 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
8965294 TTTTTAAATA
* *
8965304 ATTTTTATAGTTTTCTATAT
1 ATTTTTATAATTTTCTATTT
* * *
8965324 ATATTTAAAAATTATTTTATTT
1 AT-TTTTATAATT-TTCTATTT
8965346 ATTTTTATAATTTTCTA-TT
1 ATTTTTATAATTTTCTATTT
8965365 ATTTTTATTAATT
1 ATTTTTA-TAATT
8965378 GTTAAGAACC
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 9 0.21
20 11 0.26
21 15 0.35
22 8 0.19
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (20 bp):
ATTTTTATAATTTTCTATTT
Found at i:8968202 original size:15 final size:14
Alignment explanation
Indices: 8968184--8968217 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
8968174 ATGTTATTAT
*
8968184 TTTATTTTATATTTG
1 TTTATTTTAT-TTTC
8968199 TTTATTTTATTTTC
1 TTTATTTTATTTTC
8968213 TTTAT
1 TTTAT
8968218 CAACTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTATTTTATTTTC
Found at i:8969149 original size:6 final size:6
Alignment explanation
Indices: 8969138--8969168 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
8969128 CAAAATTATT
8969138 TATAAA TATAAA TATAAA TATATAA TATAAA
1 TATAAA TATAAA TATAAA TATA-AA TATAAA
8969169 GTCTATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TATAAA
Found at i:8969175 original size:14 final size:13
Alignment explanation
Indices: 8969138--8969181 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
8969128 CAAAATTATT
8969138 TATAAATATA-AA
1 TATAAATATATAA
8969150 TATAAATATATAA
1 TATAAATATATAA
*
8969163 TATAAAGTCTATAA
1 TATAAA-TATATAA
8969177 T-TAAA
1 TATAAA
8969182 ATAAAATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 10 0.34
13 12 0.41
14 7 0.24
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
TATAAATATATAA
Found at i:8971247 original size:23 final size:22
Alignment explanation
Indices: 8971221--8971364 Score: 110
Period size: 23 Copynumber: 5.9 Consensus size: 22
8971211 TTACCGTTCA
8971221 GCACTGTGTGTGCTTACTGTTTC
1 GCACT-TGTGTGCTTACTGTTTC
8971244 GCACTTTGTGTGCTTACTGTTTC
1 GCAC-TTGTGTGCTTACTGTTTC
*
8971267 GCACTTCGTGTGCCTACTGATTT-
1 GCACTT-GTGTGCTTACTG-TTTC
* * *
8971290 GCGCTATGTGCGCCTACTGTTTCCCC
1 GCACT-TGTGTGCTTACTGTTT---C
8971316 AGCACTTGTGTGTGCTTACTGTTTCCCC
1 -GCAC-T-TGTGTGCTTACTGTTT---C
8971344 AGCACTTGTGTGCTTACTGTT
1 -GCACTTGTGTGCTTACTGTT
8971365 AAGTGCTTCG
Statistics
Matches: 104, Mismatches: 7, Indels: 17
0.81 0.05 0.13
Matches are distributed among these distances:
22 5 0.05
23 51 0.49
24 5 0.05
26 15 0.14
27 4 0.04
28 24 0.23
ACGTcount: A:0.10, C:0.26, G:0.23, T:0.40
Consensus pattern (22 bp):
GCACTTGTGTGCTTACTGTTTC
Found at i:8971278 original size:46 final size:49
Alignment explanation
Indices: 8971219--8971364 Score: 124
Period size: 46 Copynumber: 3.0 Consensus size: 49
8971209 GCTTACCGTT
*
8971219 CAGCAC-TGTGTGTGCTTACTGTTTCGCACTTTGTGTGCTTACTGTTT-
1 CAGCACTTGCGTGTGCTTACTGTTTCGCACTTTGTGTGCTTACTGTTTC
* * * * *
8971266 C-GCACTT-CGTGTGCCTACTGATTT-GCGCTATGTGCGCCTACTGTTTCCC
1 CAGCACTTGCGTGTGCTTACTG-TTTCGCACTTTGTGTGCTTACTGTTT--C
*
8971315 CAGCACTTGTGTGTGCTTACTGTTTCCCCAGCAC-TTGTGTGCTTACTGTT
1 CAGCACTTGCGTGTGCTTACTGTTT---C-GCACTTTGTGTGCTTACTGTT
8971365 AAGTGCTTCG
Statistics
Matches: 75, Mismatches: 12, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
46 33 0.44
47 5 0.07
49 1 0.01
50 9 0.12
51 11 0.15
54 13 0.17
55 3 0.04
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.40
Consensus pattern (49 bp):
CAGCACTTGCGTGTGCTTACTGTTTCGCACTTTGTGTGCTTACTGTTTC
Found at i:8971360 original size:26 final size:28
Alignment explanation
Indices: 8971304--8971364 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
8971294 TATGTGCGCC
8971304 TACTGTTTCCCCAGCACTTGTGTGTGCT
1 TACTGTTTCCCCAGCACTTGTGTGTGCT
8971332 TACTGTTTCCCCAGCAC-T-TGTGTGCT
1 TACTGTTTCCCCAGCACTTGTGTGTGCT
8971358 TACTGTT
1 TACTGTT
8971365 AAGTGCTTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 15 0.45
27 1 0.03
28 17 0.52
ACGTcount: A:0.11, C:0.28, G:0.20, T:0.41
Consensus pattern (28 bp):
TACTGTTTCCCCAGCACTTGTGTGTGCT
Found at i:8972957 original size:13 final size:13
Alignment explanation
Indices: 8972939--8972992 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
8972929 TTCTCGAAAA
8972939 AAAGTCAACGATC
1 AAAGTCAACGATC
8972952 AAAGTCAAC-AGTC
1 AAAGTCAACGA-TC
8972965 AACTA-TCAACG-TC
1 AA--AGTCAACGATC
*
8972978 AAAGTCAACGGTC
1 AAAGTCAACGATC
8972991 AA
1 AA
8972993 CGGGTCGACT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
11 1 0.03
12 7 0.20
13 21 0.60
14 5 0.14
15 1 0.03
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.17
Consensus pattern (13 bp):
AAAGTCAACGATC
Found at i:8972981 original size:26 final size:27
Alignment explanation
Indices: 8972943--8972993 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
8972933 CGAAAAAAAG
8972943 TCAACGATCAAAGTCAACAGTCAACTA
1 TCAACGATCAAAGTCAACAGTCAACTA
*
8972970 TCAACG-TCAAAGTCAACGGTCAAC
1 TCAACGATCAAAGTCAACAGTCAAC
8972994 GGGTCGACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.18
Consensus pattern (27 bp):
TCAACGATCAAAGTCAACAGTCAACTA
Found at i:8978830 original size:6 final size:6
Alignment explanation
Indices: 8978819--8978848 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
8978809 AAAATCATTC
8978819 ATAAAT ATAAAT ATAAAT ATATAAT ATAAA
1 ATAAAT ATAAAT ATAAAT ATA-AAT ATAAA
8978849 ATCTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:8978836 original size:12 final size:13
Alignment explanation
Indices: 8978819--8978861 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
8978809 AAAATCATTC
8978819 ATAAATATA-AAT
1 ATAAATATATAAT
8978831 ATAAATATATAAT
1 ATAAATATATAAT
*
8978844 ATAAAATCTATAAT
1 AT-AAATATATAAT
8978858 -TAAA
1 ATAAA
8978862 ATAACATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 12 0.43
13 6 0.21
14 10 0.36
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAAATATATAAT
Done.