Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 270 of 276
Found at i:89434052 original size:28 final size:29
Alignment explanation
Indices: 89433962--89434049 Score: 106
Period size: 29 Copynumber: 3.1 Consensus size: 29
89433952 CCAATTCATG
* *
89433962 TTCATACGGCCCATCAGGCCCAATTCACA
1 TTCATAAGGCCCATCAGGCCCAAATCACA
* * *
89433991 TTCATATGGCCCATTAGGCCC-AATCTCA
1 TTCATAAGGCCCATCAGGCCCAAATCACA
* *
89434019 TTTATAAGGCCCATCCGGCCCAAATCACA
1 TTCATAAGGCCCATCAGGCCCAAATCACA
89434048 TT
1 TT
89434050 ATATTCATGC
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 22 0.45
29 27 0.55
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.25
Consensus pattern (29 bp):
TTCATAAGGCCCATCAGGCCCAAATCACA
Found at i:89434167 original size:19 final size:19
Alignment explanation
Indices: 89434122--89434158 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
89434112 TGGGCCCAAC
*
89434122 AGCCC-TTCGGGCCCATTT
1 AGCCCATTCCGGCCCATTT
89434140 AGCCCATTCCGGCCCATTT
1 AGCCCATTCCGGCCCATTT
89434159 GGCCTATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.14, C:0.41, G:0.19, T:0.27
Consensus pattern (19 bp):
AGCCCATTCCGGCCCATTT
Found at i:89434286 original size:16 final size:16
Alignment explanation
Indices: 89434265--89434299 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
89434255 GCAGCCAAAC
89434265 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
89434281 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
89434297 TTT
1 TTT
89434300 TAGCATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.20, G:0.23, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:89437806 original size:40 final size:40
Alignment explanation
Indices: 89437751--89438018 Score: 340
Period size: 40 Copynumber: 6.7 Consensus size: 40
89437741 TAATTGAGGA
* * *
89437751 TTATATTCGGGTTAAGTCTCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
89437791 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
89437831 TTATATCCGGGTTAATTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
89437871 TTATATTCGGGTTAGGTCCCGAAGGCATTCGTGCTGGTTA
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * * *
89437911 TTATATCCAGGCTAAGTCCTGAAGGCATTCGTGCCGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * ** * * *
89437951 TTCTATCCAGGCCAAGTTCCGAAGGCACTCGTACTGG-TG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
89437990 TTATATTCGGGCTAAATCCCGAAGGCATT
1 TTATATCCGGGTTAAGTCCCGAAGGCATT
89438019 TGTGTTTGGA
Statistics
Matches: 199, Mismatches: 29, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
39 24 0.12
40 175 0.88
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:89441763 original size:29 final size:28
Alignment explanation
Indices: 89441697--89441836 Score: 158
Period size: 29 Copynumber: 4.9 Consensus size: 28
89441687 TACATACATG
* *
89441697 CATATGGCCCACTAGTCCCAATCTCACTT
1 CATATGGCCCATTAGGCCCAAT-TCACTT
* *
89441726 -ATATGGCCCATTCGGCCGAATTCACGTT
1 CATATGGCCCATTAGGCCCAATTCAC-TT
89441754 CATATGGCCCATTAGGCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAATTCAC-TT
89441783 CATATGGCCCATTAGGCCCAATCTCA-TT
1 CATATGGCCCATTAGGCCCAAT-TCACTT
* ** *
89441811 TATATGGCCCATCCGGCCCAAATCAC
1 CATATGGCCCATTAGGCCCAATTCAC
89441837 ATTATATTTA
Statistics
Matches: 96, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
27 7 0.07
28 39 0.41
29 47 0.49
30 3 0.03
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATTCACTT
Found at i:89441774 original size:57 final size:57
Alignment explanation
Indices: 89441697--89441843 Score: 167
Period size: 57 Copynumber: 2.6 Consensus size: 57
89441687 TACATACATG
* * * *
89441697 CATATGGCCCACTAGTCCCAATCTCAC-TT-ATATGGCCCATTCGGCCGAAT-TCACGTT
1 CATATGGCCCATTAGGCCCAAT-TCACATTCATATGGCCCATTAGGCCCAATCTCA--TT
89441754 CATATGGCCCATTAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATT
1 CATATGGCCCATTAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATT
* ** *
89441811 TATATGGCCCATCCGGCCCAAATCACATT-ATAT
1 CATATGGCCCATTAGGCCCAATTCACATTCATAT
89441844 TTATGCTAAC
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
56 8 0.10
57 49 0.62
58 19 0.24
59 3 0.04
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (57 bp):
CATATGGCCCATTAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATT
Found at i:89447378 original size:40 final size:40
Alignment explanation
Indices: 89447334--89447424 Score: 146
Period size: 40 Copynumber: 2.3 Consensus size: 40
89447324 AATGTGGCAG
* *
89447334 TTAGTGTGCGGTTCGAGATAGCTTTGGCTATGTACGAAAC
1 TTAGTGTGCGATTCGAGATAGCTTCGGCTATGTACGAAAC
* *
89447374 TTAGTGTGCGATTTGAGATAGCTTCGGCTATGTACGACAC
1 TTAGTGTGCGATTCGAGATAGCTTCGGCTATGTACGAAAC
89447414 TTAGTGTGCGA
1 TTAGTGTGCGA
89447425 GATATTGAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (40 bp):
TTAGTGTGCGATTCGAGATAGCTTCGGCTATGTACGAAAC
Found at i:89447459 original size:28 final size:28
Alignment explanation
Indices: 89447411--89447510 Score: 146
Period size: 28 Copynumber: 3.6 Consensus size: 28
89447401 CTATGTACGA
89447411 CACTTAGTGTGCGAGATATTGAGTATGG
1 CACTTAGTGTGCGAGATATTGAGTATGG
* * * *
89447439 CACTTAGTGTGCAAAACATTGAGAATGG
1 CACTTAGTGTGCGAGATATTGAGTATGG
*
89447467 CACTTAGTGTGCGAGATGTTGAGTATGG
1 CACTTAGTGTGCGAGATATTGAGTATGG
*
89447495 AACTTAGTGTGCGAGA
1 CACTTAGTGTGCGAGA
89447511 CGTCGAATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.29
Consensus pattern (28 bp):
CACTTAGTGTGCGAGATATTGAGTATGG
Found at i:89449289 original size:27 final size:27
Alignment explanation
Indices: 89449269--89449409 Score: 192
Period size: 27 Copynumber: 5.2 Consensus size: 27
89449259 GGGTGTCTCA
89449269 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTATAGGGGTATTTCG
* * * *
89449296 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTATAGGGGTATTTCG
* *
89449323 GTAATTCTATCCTATAGGGGTATTTCA
1 GTAATTCTACCCTATAGGGGTATTTCG
*
89449350 ATAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTATAGGGGTATTTCG
* * *
89449377 GTAATTCTACCTTACAAGGGTATTTCG
1 GTAATTCTACCCTATAGGGGTATTTCG
89449404 GTAATT
1 GTAATT
89449410 TTACAACTTA
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (27 bp):
GTAATTCTACCCTATAGGGGTATTTCG
Found at i:89449313 original size:54 final size:54
Alignment explanation
Indices: 89449245--89449406 Score: 191
Period size: 54 Copynumber: 3.0 Consensus size: 54
89449235 CAAAATGCTA
* * * *
89449245 ATTT-TACCCCACAAGGGTGTCTCAGTAATTCTACCCTATAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
* * **
89449298 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTATCCTATAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
* * * * * *
89449352 AATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
89449406 A
1 A
89449407 ATTTTACAAC
Statistics
Matches: 90, Mismatches: 18, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
53 4 0.04
54 86 0.96
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
Found at i:89453966 original size:48 final size:48
Alignment explanation
Indices: 89453783--89453958 Score: 239
Period size: 48 Copynumber: 3.7 Consensus size: 48
89453773 TTAGATCCCA
*
89453783 TGTAAAACCATGTCTGGGACATTGCATCGGCATTGATATGTGTGCCAG
1 TGTAAAACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
* * *
89453831 AGTAAAACCATATCTGGGACATGGCATCGGCATTAATATGTGTGCCAG
1 TGTAAAACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
* * *
89453879 TGTAAGACCATGTCTGGTACATGGCATC-G-ATGATGATATGTGTGCTAG
1 TGTAAAACCATGTCTGGGACATGGCATCGGCAT--TGATATGTGTGCCAG
* *
89453927 TGTAAGACCATGTCTAGGACATGGCATCGGCA
1 TGTAAAACCATGTCTGGGACATGGCATCGGCA
89453959 CCGATATGAG
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
48 107 0.96
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
TGTAAAACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAG
Found at i:89453981 original size:96 final size:96
Alignment explanation
Indices: 89453789--89453999 Score: 221
Period size: 96 Copynumber: 2.2 Consensus size: 96
89453779 CCCATGTAAA
* *
89453789 ACCATGTCTGGGACATTGCATCGGCATTGATATGTGTGCCAGAGTAAAACCATATCTGGGACATG
1 ACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGAGTAAAACCATATCTAGGACATG
** * * *
89453854 GCATCGGCATTAATATGTGTGCCAGTGTAAG
66 GCATCGGCACCAATATGAGTACCAGTATAAG
* * * * *
89453885 ACCATGTCTGGTACATGGCATC-G-ATGATGATATGTGTGCTAGTGTAAGACCATGTCTAGGACA
1 ACCATGTCTGGGACATGGCATCGGCAT--TGATATGTGTGCCAGAGTAAAACCATATCTAGGACA
* **
89453948 TGGCATCGGCACCGATATGAG-ACTTGGTATAAG
64 TGGCATCGGCACCAATATGAGTAC-CAGTATAAG
* *
89453981 ACCATATCTGGGATATGGC
1 ACCATGTCTGGGACATGGC
89454000 GCTGACATGT
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
94 2 0.02
95 2 0.02
96 90 0.96
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (96 bp):
ACCATGTCTGGGACATGGCATCGGCATTGATATGTGTGCCAGAGTAAAACCATATCTAGGACATG
GCATCGGCACCAATATGAGTACCAGTATAAG
Found at i:89457780 original size:43 final size:44
Alignment explanation
Indices: 89457714--89457885 Score: 149
Period size: 43 Copynumber: 4.0 Consensus size: 44
89457704 AGCTCGTACA
* ** *
89457714 ATGCCAA-TGTCCCAAACTTGGTCTTACATGTAATCAGATATCG
1 ATGCCAACTGTCCCAGACAGGGTCTTACATGTAATCACATATCG
* *
89457757 ATGCC-ACTGTCCCAGACAGGGTCTTACATGAAATCAAATAT-G
1 ATGCCAACTGTCCCAGACAGGGTCTTACATGTAATCACATATCG
* * * ** * *
89457799 ATGCCGA-TGTCCCAGACATGATCTTACACATAAATCTCAAATCG
1 ATGCCAACTGTCCCAGACAGGGTCTTACATGT-AATCACATATCG
* *
89457843 ATGCCAAC-GTCCCAGA-TGTGGTCTTACATGTAAACACATATCG
1 ATGCCAACTGTCCCAGACAG-GGTCTTACATGTAATCACATATCG
89457886 GATCCTATGT
Statistics
Matches: 101, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
42 26 0.26
43 51 0.50
44 24 0.24
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACATGTAATCACATATCG
Found at i:89457858 original size:44 final size:40
Alignment explanation
Indices: 89457735--89457858 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 40
89457725 CCAAACTTGG
* *
89457735 TCTTACATGTAATCAGATATCGATGCCACTGTCCCAGACAGGG
1 TCTTACATGAAATCA-A-ATCGATGCCAC-GTCCCAGACAGGA
* * *
89457778 TCTTACATGAAATCAAATATGATGCCGATGTCCCAGACATGA
1 TCTTACATGAAATCAAAT-CGATGCC-ACGTCCCAGACAGGA
89457820 TCTTACACAT-AAATCTCAAATCGATGCCAACGTCCCAGA
1 TCTT--ACATGAAA--TCAAATCGATGCC-ACGTCCCAGA
89457859 TGTGGTCTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
41 2 0.03
42 22 0.33
43 18 0.27
44 19 0.28
45 6 0.09
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (40 bp):
TCTTACATGAAATCAAATCGATGCCACGTCCCAGACAGGA
Found at i:89460715 original size:28 final size:28
Alignment explanation
Indices: 89460675--89460733 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
89460665 ATGATCTAAT
* *
89460675 TTTAGTTAGATTAAAAGTTAAAGCGATG
1 TTTAGCTAGATTAAAAGCTAAAGCGATG
89460703 TTTAGCTAGATTAAAAGCTAAAGCGATG
1 TTTAGCTAGATTAAAAGCTAAAGCGATG
89460731 TTT
1 TTT
89460734 TCATTGCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.36
Consensus pattern (28 bp):
TTTAGCTAGATTAAAAGCTAAAGCGATG
Found at i:89462864 original size:24 final size:24
Alignment explanation
Indices: 89462832--89462931 Score: 155
Period size: 24 Copynumber: 4.0 Consensus size: 24
89462822 CGACATTGTG
*
89462832 CTAAGTGAAATAAGACCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
89462856 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
89462883 GCTAAGTGAAATAAGTCCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
89462908 CTAAGTGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
89462932 TGGGCTAAGT
Statistics
Matches: 71, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
24 45 0.63
25 2 0.03
27 2 0.03
28 22 0.31
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:89462895 original size:52 final size:52
Alignment explanation
Indices: 89462828--89462943 Score: 205
Period size: 52 Copynumber: 2.2 Consensus size: 52
89462818 GATACGACAT
89462828 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
* *
89462880 TGTGCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
*
89462932 TGGGCTAAGTGA
1 TGTGCTAAGTGA
89462944 GAAATTTCCT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAA
Found at i:89462896 original size:28 final size:27
Alignment explanation
Indices: 89462828--89462943 Score: 154
Period size: 24 Copynumber: 4.4 Consensus size: 27
89462818 GATACGACAT
*
89462828 TGTGCTAAGTGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
89462855 --T-CTAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
89462880 TGTGCTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
89462907 --T-CTAAGTGAAATAAGTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
89462931 TTGGGCTAAGTGA
1 -TGTGCTAAGTGA
89462944 GAAATTTCCT
Statistics
Matches: 79, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
24 44 0.56
25 3 0.04
27 2 0.03
28 30 0.38
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:89463033 original size:50 final size:51
Alignment explanation
Indices: 89462967--89463114 Score: 228
Period size: 51 Copynumber: 2.9 Consensus size: 51
89462957 TGAACCTTAG
*
89462967 GAATAAAAATAGCTTTGGACACAAGTGTGGTACTA-ATGAAGGCCACTTCGT
1 GAAT-AAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTCGT
* *
89463018 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTCGT
*
89463069 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
89463115 CATGTATCCG
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
50 30 0.33
51 60 0.67
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTCGT
Found at i:89485521 original size:46 final size:46
Alignment explanation
Indices: 89485454--89485574 Score: 190
Period size: 46 Copynumber: 2.6 Consensus size: 46
89485444 GCCCATAAGC
*
89485454 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCACAAGT
* *
89485500 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGT
*
89485546 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
89485575 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
45 2 0.03
46 69 0.97
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGT
Found at i:89490346 original size:45 final size:45
Alignment explanation
Indices: 89490188--89490541 Score: 348
Period size: 45 Copynumber: 7.7 Consensus size: 45
89490178 TAACTTGCCA
* *
89490188 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAAATGTCG-AGGCCG
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCATA-GT-GAACGCCG
* * * **
89490236 ATGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCGTCTCAATACCG
1 ATGCCATGT-CC-AACATGGTCTTACACTGGCTCATAG--TGAACGCCG
*
89490284 AGGCCATGTCCAACATGGTCTTACACTGGCTCATAGTGAACGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTGAACGCCG
*
89490329 ATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTGAATGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTGAACGCCG
* *** *
89490374 ATGCCATGCCCAACATGGTCTTACACTGGCTCTCATAACCAATGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGG--CTCATAGTGAACGCCG
*
89490421 ATGCCATGTCCAACATGGTCTTAGACTGGCTC-TCA-T-AACATAG-CG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCAT-AGTGAAC---GCCG
89490466 ATGCCATGTCCAACATGGTCTTACACTGGCTC-TCA-T-AACATAGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCAT-AGTGAAC---GCCG
89490512 ATGCCATGTCCAACATGGTCTTACACTGGC
1 ATGCCATGTCCAACATGGTCTTACACTGGC
89490542 ATACGAAATG
Statistics
Matches: 271, Mismatches: 23, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
43 2 0.01
44 1 0.00
45 125 0.46
46 54 0.20
47 44 0.16
48 44 0.16
49 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (45 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTGAACGCCG
Found at i:89490439 original size:92 final size:91
Alignment explanation
Indices: 89490183--89490541 Score: 399
Period size: 92 Copynumber: 3.9 Consensus size: 91
89490173 GAAGGTAACT
* ** * * *
89490183 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCAAAT-GTCGAGGCCGATGCCATGTCC
1 TGCCGATGCCATG-CCCA-ACATGGTCTTACACTGGCTCTCATAATCAATGCCGATGCCATGT-C
* * *
89490247 CAAACATGGTCTTACACTAGCTCTCGTCTCAA
63 C-AACATGGTCTTACACTGGCTCTAG--TAAA
* * * * * *
89490279 TACCGAGGCCATGTCCAACATGGTCTTACACTGG--CTCATAGTGAACGCCGATGCCATGTCCAA
1 TGCCGATGCCATGCCCAACATGGTCTTACACTGGCTCTCATAATCAATGCCGATGCCATGTCCAA
*
89490342 CATGGTCTTACACTGGCTCATAGTGAA
66 CATGGTCTTACACTGGCTC-TAGTAAA
*
89490369 TGCCGATGCCATGCCCAACATGGTCTTACACTGGCTCTCATAACCAATGCCGATGCCATGTCCAA
1 TGCCGATGCCATGCCCAACATGGTCTTACACTGGCTCTCATAATCAATGCCGATGCCATGTCCAA
*
89490434 CATGGTCTTAGACTGGCTCTCA-TAACA
66 CATGGTCTTACACTGGCTCT-AGTAA-A
*
89490461 TAG-CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAA-C-ATAGCCGATGCCATGTCC
1 T-GCCGATGCCATGCCCAACATGGTCTTACACTGGCTCTCATAATCAAT-GCCGATGCCATGTCC
89490523 AACATGGTCTTACACTGGC
64 AACATGGTCTTACACTGGC
89490542 ATACGAAATG
Statistics
Matches: 232, Mismatches: 23, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
90 36 0.16
91 57 0.25
92 92 0.40
93 17 0.07
94 17 0.07
95 3 0.01
96 10 0.04
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (91 bp):
TGCCGATGCCATGCCCAACATGGTCTTACACTGGCTCTCATAATCAATGCCGATGCCATGTCCAA
CATGGTCTTACACTGGCTCTAGTAAA
Found at i:89490439 original size:137 final size:134
Alignment explanation
Indices: 89490188--89490541 Score: 432
Period size: 137 Copynumber: 2.6 Consensus size: 134
89490178 TAACTTGCCA
* *
89490188 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAAATGTCG-AGGCCGATGCCATGTCCCAAAC
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCATA-GT-GAATGCCGATGCCATG-CCC-AAC
* *
89490252 ATGGTCTTACACTAGCTCTCGTCTCAATACCGAGGCCATGTCCAACATGGTCTTACACTGGCTCA
60 ATGGTCTTACACTGGCTCTCATCTCAATACCGAGGCCATGTCCAACATGGTCTTACACTGGCTC-
89490317 T-AGTGAAC-GCCG
124 TCA-T-AACAG-CG
89490329 ATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTGAATGCCGATGCCATGCCCAACATGGTC
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTGAATGCCGATGCCATGCCCAACATGGTC
* * *
89490394 TTACACTGGCTCTCATAAC-CAATGCCGATGCCATGTCCAACATGGTCTTAGACTGGCTCTCATA
66 TTACACTGGCTCTCAT--CTCAATACCGAGGCCATGTCCAACATGGTCTTACACTGGCTCTCATA
89490458 ACATAGCG
129 AC--AGCG
* *
89490466 ATGCCATGTCCAACATGGTCTTACACTGGCTC-TCA-TAACATAGCCGATGCCATGTCCAACATG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCAT-AGTGA-AT-GCCGATGCCATGCCCAACATG
89490529 GTCTTACACTGGC
63 GTCTTACACTGGC
89490542 ATACGAAATG
Statistics
Matches: 194, Mismatches: 9, Indels: 23
0.86 0.04 0.10
Matches are distributed among these distances:
135 3 0.02
136 28 0.14
137 79 0.41
138 50 0.26
139 22 0.11
140 3 0.02
141 9 0.05
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (134 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTGAATGCCGATGCCATGCCCAACATGGTC
TTACACTGGCTCTCATCTCAATACCGAGGCCATGTCCAACATGGTCTTACACTGGCTCTCATAAC
AGCG
Found at i:89490562 original size:92 final size:86
Alignment explanation
Indices: 89490188--89490591 Score: 341
Period size: 92 Copynumber: 4.4 Consensus size: 86
89490178 TAACTTGCCA
** ** *
89490188 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAAATGTCGAGGCCGATGCCATGTCCCAAACA
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATAAC-AAGCCGATGCCATGT-CC-AACA
**
89490253 TGGTCTTACACTAGCTCTCGTCTC-AA-TACCG
61 TGGTCTTACACT-G-----G-CTCAAAGTGGCG
*
89490284 AGGCCATGTCCAACATGGTCTTACACTGGCTCAT-AGTGAAC--GCCGATGCCATGTCCAACATG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTC-TCA-T-AACAAGCCGATGCCATGTCCAACATG
*
89490346 GTCTTACACTGGCTCATAGTGAATGCCG
63 GTCTTACACTGGCTCAAAGTG---G-CG
*
89490374 ATGCCATGCCCAACATGGTCTTACACTGGCTCTCATAACCAATGCCGATGCCATGTCCAACATGG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAA-CAA-GCCGATGCCATGTCCAACATGG
* * *
89490439 TCTTAGACTGGCTCTCATAACATAGCG
64 TCTTACACTGG--CTCA-AA-GTGGCG
89490466 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACATAGCCGATGCCATGTCCAACATGGT
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACA-AGCCGATGCCATGTCCAACATGGT
*
89490531 CTTACACTGGCATACGAAATGTGGTCA
65 CTTACACTGGC-T-C-AAA-GTGG-CG
*
89490558 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTC
89490592 ACATGTCACC
Statistics
Matches: 263, Mismatches: 20, Indels: 52
0.79 0.06 0.16
Matches are distributed among these distances:
84 3 0.01
85 2 0.01
86 1 0.00
88 2 0.01
89 4 0.02
90 35 0.13
91 55 0.21
92 85 0.32
93 17 0.06
94 44 0.17
95 5 0.02
96 10 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (86 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACAAGCCGATGCCATGTCCAACATGGTC
TTACACTGGCTCAAAGTGGCG
Found at i:89490562 original size:137 final size:134
Alignment explanation
Indices: 89490188--89490592 Score: 369
Period size: 137 Copynumber: 2.9 Consensus size: 134
89490178 TAACTTGCCA
* ** *
89490188 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAAATGTCGAGGCCGATGCCATGTCCCAAACA
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCATA-GTAAATGCCGATGCCATG-CCC-AACA
* ** * * * *
89490253 TGGTCTTACACTAGCTC-TCGTCTCAATACCGAGGCCATGTCCAACATGGTCTTACACTGGCTCA
61 TGGTCTTACACTGGC-CAT-AAC-AAATGCCAATGCCATGTCCAACATGGTCTTACACTGGCTCA
89490317 TAGTGAACGCCG
123 TAGTGAACGCCG
*
89490329 ATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTGAATGCCGATGCCATGCCCAACATGGTC
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTAAATGCCGATGCCATGCCCAACATGGTC
* * *
89490394 TTACACTGGCTCTCATAACCAATGCCGATGCCATGTCCAACATGGTCTTAGACTGGCTC-TCA-T
66 TTACACTGG--C-CATAACAAATGCCAATGCCATGTCCAACATGGTCTTACACTGGCTCAT-AGT
89490457 -AACATAG-CG
127 GAAC---GCCG
*
89490466 ATGCCATGTCCAACATGGTCTTACACTGGCTC-TCA-TAACATAGCCGATGCCATGTCCAACATG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCAT-AGTAA-AT-GCCGATGCCATGCCCAACATG
* *
89490529 GTCTTACACTGG-CAT-ACGAAATGTGGTCAATGCCATGTCCCAGACATGGTCTTACACTAGCTC
63 GTCTTACACTGGCCATAAC-AAA--T-GCCAATGCCATGT-CCA-ACATGGTCTTACACTGGCTC
89490592 A
122 A
89490593 CATGTCACCC
Statistics
Matches: 230, Mismatches: 17, Indels: 35
0.82 0.06 0.12
Matches are distributed among these distances:
133 2 0.01
134 5 0.02
135 3 0.01
136 23 0.10
137 89 0.39
138 55 0.24
139 41 0.18
140 3 0.01
141 9 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (134 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTAAATGCCGATGCCATGCCCAACATGGTC
TTACACTGGCCATAACAAATGCCAATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTGAAC
GCCG
Found at i:89496593 original size:47 final size:46
Alignment explanation
Indices: 89496391--89496697 Score: 284
Period size: 46 Copynumber: 6.6 Consensus size: 46
89496381 TGAATTGCCA
* * ** * * *
89496391 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATGTCGATGCCA
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATAACCAAGCCG
* * *
89496439 ATGCTATGTCCCAGACATGGTCTTACACTAGCTCTCAT--CTCAATACCG
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATAAC-CAA-GCCG
* * *
89496487 A-GACCATGTCCAACATGGTCTTACACTGG--CTCACAATCAACGCTG
1 ATG-CCATGTCCAACATGGTCTTACACTGGCTCTCATAACCAA-GCCG
* ** *
89496532 ATGCCATGTCCAACATGGTCTTACACCGATTCTAATAACCAACGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACCAA-GCCG
**
89496579 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACGTAGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACCAAGCCG
*
89496625 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAA-CATAGCTG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACCA-AGCCG
* *
89496671 ATGCCATGGCCAACAAGGTCTTACACT
1 ATGCCATGTCCAACATGGTCTTACACT
89496698 AGTATACAAA
Statistics
Matches: 218, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
44 4 0.02
45 30 0.14
46 89 0.41
47 53 0.24
48 42 0.19
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACCAAGCCG
Found at i:89496605 original size:138 final size:141
Alignment explanation
Indices: 89496439--89496748 Score: 377
Period size: 138 Copynumber: 2.2 Consensus size: 141
89496429 GTCGATGCCA
* **
89496439 ATGCTATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATA-CCGA-GACCATGTCCAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAC-ATAGCCGATG-CCATGTCCAACA
* * *
89496502 TGGTCTTACACTGGCTCACA-ATCA-ACGCTGATGCCATGTCCAACATGGTCTTACACCGATTCT
64 TGGTCTTACACTGGCTCACATAACATA-GCTGATGCCATGGCCAACAAGGTCTTACACCGATTCT
89496565 AATAACCAACGCCG
128 AATAACCAACGCCG
* *
89496579 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTCTCATAACGTAGCCGATGCCATGTCCAACATG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCAACATG
* * *
89496642 GTCTTACACTGGCTCTCATAACATAGCTGATGCCATGGCCAACAAGGTCTTACACTAGTATAC-A
66 GTCTTACACTGGCTCACATAACATAGCTGATGCCATGGCCAACAAGGTCTTACAC-CG-ATTCTA
*** *
89496706 A-AA-TGTCGCTG
129 ATAACCAACGCCG
89496717 ATGCCATGTCCCAGACATGGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
89496749 GCACAGGTCA
Statistics
Matches: 146, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
137 2 0.01
138 72 0.49
139 40 0.27
140 29 0.20
141 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (141 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATAGCCGATGCCATGTCCAACATG
GTCTTACACTGGCTCACATAACATAGCTGATGCCATGGCCAACAAGGTCTTACACCGATTCTAAT
AACCAACGCCG
Found at i:89496717 original size:46 final size:46
Alignment explanation
Indices: 89496439--89496748 Score: 265
Period size: 46 Copynumber: 6.7 Consensus size: 46
89496429 GTCGATGCCA
* ** * *
89496439 ATGCTATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATA-CCG
1 ATGCCATGT-CCA-ACATGGTCTTACACTAGCTCTCATAAC-GTAGCTG
* *
89496487 A-GACCATGTCCAACATGGTCTTACACTGGCTCACAATCAAC---GCTG
1 ATG-CCATGTCCAACATGGTCTTACACTAGCTCTC-AT-AACGTAGCTG
* * * ** *
89496532 ATGCCATGTCCAACATGGTCTTACAC-CGATTCTAATAACCAACGCCG
1 ATGCCATGTCCAACATGGTCTTACACTAG-CTCTCATAACGTA-GCTG
* *
89496579 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACGTAGCCG
1 ATGCCATGTCCAACATGGTCTTACACTAGCTCTCATAACGTAGCTG
* *
89496625 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCATAACATAGCTG
1 ATGCCATGTCCAACATGGTCTTACACTAGCTCTCATAACGTAGCTG
* * * * * *
89496671 ATGCCATGGCCAACAAGGTCTTACACTAG-TATACAAAATGTCGCTG
1 ATGCCATGTCCAACATGGTCTTACACTAGCTCT-CATAACGTAGCTG
89496717 ATGCCATGTCCCAGACATGGTCTTACACTAGC
1 ATGCCATGT-CCA-ACATGGTCTTACACTAGC
89496749 GCACAGGTCA
Statistics
Matches: 219, Mismatches: 28, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
43 3 0.01
44 3 0.01
45 30 0.14
46 112 0.51
47 47 0.21
48 24 0.11
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (46 bp):
ATGCCATGTCCAACATGGTCTTACACTAGCTCTCATAACGTAGCTG
Found at i:89499001 original size:13 final size:13
Alignment explanation
Indices: 89498983--89499008 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89498973 TATCTGATTT
89498983 GCCATAGCCTATC
1 GCCATAGCCTATC
89498996 GCCATAGCCTATC
1 GCCATAGCCTATC
89499009 TATGGTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (13 bp):
GCCATAGCCTATC
Found at i:89501435 original size:22 final size:22
Alignment explanation
Indices: 89501407--89501451 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
89501397 CTTCAAGTAG
89501407 TTTGGAGAACCCATTGAAAGCA
1 TTTGGAGAACCCATTGAAAGCA
*
89501429 TTTGGAGAACCTATTGAAAGCA
1 TTTGGAGAACCCATTGAAAGCA
89501451 T
1 T
89501452 ATATGGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (22 bp):
TTTGGAGAACCCATTGAAAGCA
Found at i:89502659 original size:67 final size:67
Alignment explanation
Indices: 89502551--89502813 Score: 517
Period size: 67 Copynumber: 3.9 Consensus size: 67
89502541 ACTCAACTTA
89502551 GAAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGACAATGTTGATAA
1 GAAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGACAATGTTGATAA
89502616 TT
66 TT
89502618 GAAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGACAATGTTGATAA
1 GAAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGACAATGTTGATAA
89502683 TT
66 TT
89502685 GAAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGACAATGTTGATAA
1 GAAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGACAATGTTGATAA
89502750 TT
66 TT
*
89502752 GAAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGAAAATGTTGA
1 GAAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGACAATGTTGA
89502814 CAATCTAAAT
Statistics
Matches: 195, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 195 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (67 bp):
GAAGACGATCCATTAGAGCGTATCTTGGCATCAGATCCACCAAGTAACAATGACAATGTTGATAA
TT
Found at i:89505045 original size:22 final size:22
Alignment explanation
Indices: 89505003--89505047 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
89504993 ACCTTAGAAG
*
89505003 AGATGGAGACCTAGAGATGTCC
1 AGATGGAGACCGAGAGATGTCC
*
89505025 AGATGGAGCCCGAGA-ACTGTCC
1 AGATGGAGACCGAGAGA-TGTCC
89505047 A
1 A
89505048 TTTACCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.16
Consensus pattern (22 bp):
AGATGGAGACCGAGAGATGTCC
Found at i:89514762 original size:37 final size:37
Alignment explanation
Indices: 89514712--89514790 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
89514702 TTATTACGAA
* * *
89514712 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
89514749 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
89514786 GTCTT
1 GTCTT
89514791 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:89515011 original size:47 final size:47
Alignment explanation
Indices: 89514909--89515167 Score: 383
Period size: 47 Copynumber: 5.5 Consensus size: 47
89514899 CCCTTCGGGA
* * * * * * * *
89514909 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
89514956 CCTGTCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89515003 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89515050 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89515097 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
89515146 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
89515168 TTGGCTGAAT
Statistics
Matches: 192, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 146 0.76
49 46 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89530311 original size:56 final size:55
Alignment explanation
Indices: 89530222--89530387 Score: 242
Period size: 56 Copynumber: 3.0 Consensus size: 55
89530212 TCTTACATGT
* * *
89530222 AATCACATATCAATGCCAACGTATTAAACGTGGTTTTACTCGCACACATATATCAG
1 AATCACATATCGATG-CAACGTATTAAATGTGGTCTTACTCGCACACATATATCAG
* * * *
89530278 AATCACATATCGATGCGAACGTAATAAATGTGGTCTTGCTCGCACACATATACCGG
1 AATCACATATCGATGC-AACGTATTAAATGTGGTCTTACTCGCACACATATATCAG
*
89530334 AATCACATATCGATGCCACGTATTAAATGTGGTCTTACTCGCACACATATATCA
1 AATCACATATCGATGCAACGTATTAAATGTGGTCTTACTCGCACACATATATCA
89530388 ATGCCATGGT
Statistics
Matches: 97, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
55 34 0.35
56 63 0.65
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (55 bp):
AATCACATATCGATGCAACGTATTAAATGTGGTCTTACTCGCACACATATATCAG
Found at i:89533299 original size:30 final size:30
Alignment explanation
Indices: 89533265--89533361 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
89533255 AGCTCACTCC
89533265 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
89533295 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
89533325 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
89533355 TAGCTCA
1 TAGCTCA
89533362 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:89535089 original size:11 final size:11
Alignment explanation
Indices: 89535075--89535130 Score: 60
Period size: 11 Copynumber: 5.1 Consensus size: 11
89535065 GAAGAAATTC
89535075 AAAAAAAATCG
1 AAAAAAAATCG
89535086 AAAAAAAATC-
1 AAAAAAAATCG
**
89535096 AAAAAAAAAGG
1 AAAAAAAATCG
* *
89535107 AAAAAAAGTGG
1 AAAAAAAATCG
89535118 AAAAAAAAATCG
1 -AAAAAAAATCG
89535130 A
1 A
89535131 GTTAAAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
10 8 0.22
11 20 0.54
12 9 0.24
ACGTcount: A:0.75, C:0.05, G:0.12, T:0.07
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:89535097 original size:21 final size:21
Alignment explanation
Indices: 89535073--89535113 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89535063 GAGAAGAAAT
*
89535073 TCAAAAAAAATCGAAAAAAAA
1 TCAAAAAAAAACGAAAAAAAA
*
89535094 TCAAAAAAAAAGGAAAAAAA
1 TCAAAAAAAAACGAAAAAAA
89535114 GTGGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (21 bp):
TCAAAAAAAAACGAAAAAAAA
Found at i:89536095 original size:37 final size:37
Alignment explanation
Indices: 89536044--89536114 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
89536034 CATTCTTGTA
89536044 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
89536081 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
89536115 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:89536114 original size:6 final size:6
Alignment explanation
Indices: 89536054--89536103 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
89536044 AAGAGAAAAC
*
89536054 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
89536103 A
1 A
89536104 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:89536196 original size:11 final size:12
Alignment explanation
Indices: 89536164--89536194 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
89536154 TTGAGAGAAC
89536164 TTGAAAAAGCCT
1 TTGAAAAAGCCT
89536176 TTGAAAAAGCCT
1 TTGAAAAAGCCT
89536188 TTGAAAA
1 TTGAAAA
89536195 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:89538409 original size:30 final size:30
Alignment explanation
Indices: 89538375--89538471 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
89538365 AGCTCACTCC
89538375 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
89538405 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
89538435 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
89538465 TAGCTCA
1 TAGCTCA
89538472 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:89541211 original size:10 final size:10
Alignment explanation
Indices: 89541198--89541233 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
89541188 AGTTTCCATC
89541198 AGCTCGTTTG
1 AGCTCGTTTG
* *
89541208 AGCTCGATTC
1 AGCTCGTTTG
89541218 AGCTCGTTTG
1 AGCTCGTTTG
89541228 AGCTCG
1 AGCTCG
89541234 AATTTAGCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.14, C:0.25, G:0.28, T:0.33
Consensus pattern (10 bp):
AGCTCGTTTG
Found at i:89541221 original size:20 final size:21
Alignment explanation
Indices: 89541196--89541253 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
89541186 TCAGTTTCCA
89541196 TCAGCTCGTTTGAGCTCG-AT
1 TCAGCTCGTTTGAGCTCGAAT
89541216 TCAGCTCGTTTGAGCTCGAAT
1 TCAGCTCGTTTGAGCTCGAAT
* * *
89541237 TTAGCTCATTTCAGCTC
1 TCAGCTCGTTTGAGCTC
89541254 ATTTCTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (21 bp):
TCAGCTCGTTTGAGCTCGAAT
Found at i:89543660 original size:12 final size:11
Alignment explanation
Indices: 89543640--89543682 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
89543630 TGAATGTGAA
89543640 AAAAG-AAAAG
1 AAAAGAAAAAG
89543650 AAAATGAAAAAG
1 AAAA-GAAAAAG
89543662 AAAAGAAAAA-
1 AAAAGAAAAAG
89543672 AATAAGAAAAA
1 AA-AAGAAAAA
89543683 AAATGCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.20
11 15 0.50
12 9 0.30
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:89543665 original size:22 final size:21
Alignment explanation
Indices: 89543640--89543728 Score: 67
Period size: 22 Copynumber: 4.2 Consensus size: 21
89543630 TGAATGTGAA
89543640 AAAAGAAAAGAAAATGAAAAAG
1 AAAAGAAAA-AAAATGAAAAAG
*
89543662 AAAAGAAAAAAATAAGAAAAA-
1 AAAAGAAAAAAA-ATGAAAAAG
* * * *
89543683 AAATGCAAAAATA-GCAAAAG
1 AAAAGAAAAAAAATGAAAAAG
*
89543703 AAAA-AAAACAAAGTGAGAAAAG
1 AAAAGAAAA-AAAATGA-AAAAG
89543725 AAAA
1 AAAA
89543729 AGAAGAGCAA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
19 8 0.15
20 6 0.12
21 13 0.25
22 25 0.48
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (21 bp):
AAAAGAAAAAAAATGAAAAAG
Found at i:89546726 original size:21 final size:20
Alignment explanation
Indices: 89546678--89546735 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
89546668 TCAGTTTCCA
* *
89546678 TCAGCTCGCTTGAGCTTGAT
1 TCAGCTCGTTTGAGCTCGAT
89546698 TCAGCTCGTTTGAGCTCGAAT
1 TCAGCTCGTTTGAGCTCG-AT
* *
89546719 TTAGCTCGTTTCAGCTC
1 TCAGCTCGTTTGAGCTC
89546736 ATTTCTTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (20 bp):
TCAGCTCGTTTGAGCTCGAT
Found at i:89548011 original size:21 final size:21
Alignment explanation
Indices: 89547985--89548047 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
89547975 TTGGTATTTG
89547985 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
89548006 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
89548027 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
89548048 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:89551008 original size:22 final size:22
Alignment explanation
Indices: 89550982--89551044 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
89550972 AAATACGTTG
*
89550982 GGCACATAGCCATAATCAGGTT
1 GGCACAAAGCCATAATCAGGTT
* *
89551004 GGCACAGAGCCAT-ATGTAGGTT
1 GGCACAAAGCCATAAT-CAGGTT
*
89551026 GGCGCAAAGCCATAATCAG
1 GGCACAAAGCCATAATCAG
89551045 AATAATTGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTT
Found at i:89551309 original size:41 final size:41
Alignment explanation
Indices: 89551187--89551302 Score: 178
Period size: 41 Copynumber: 2.8 Consensus size: 41
89551177 AAAAGCCACC
* *
89551187 GGTGGATCCACGGTCGTCAAGCAACCATACGATCCTTAATT
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
*
89551228 GGTGGATCCACGGTTGTCAAGCAACCATGCGATCCTCAATT
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
* * *
89551269 GGTGGATCCACGATCATCAATCAACCATGCGATC
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATC
89551303 TCCAATTTCC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
Found at i:89551596 original size:27 final size:27
Alignment explanation
Indices: 89551564--89551959 Score: 314
Period size: 27 Copynumber: 14.7 Consensus size: 27
89551554 TTTGTAAATC
* *
89551564 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * * *
89551591 TGCAAA-CTAATGGTATTGCTGTAATTT
1 TACAAATC-AAGGGTATTTCGGTAATTT
** *
89551618 TTGAAAGTCAAGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCGGTAATTT
** **
89551646 TGTAAATCAAGGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
*
89551673 TCCAAATCAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* *
89551700 TCCAAATCAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
**
89551727 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * * * *
89551754 TATAAGTCGAGGGTATTTTGATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
** * * * *
89551781 TACAGGTCGAGAGTATTTTGTTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
89551808 CACAAAT-TAGGAGTATTTTGGTAATTT
1 TACAAATCAAGG-GTATTTCGGTAATTT
* * *
89551835 TACAAACCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
*
89551862 TACAAA-CTAAGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTCGGTAATTT
* * *
89551889 TACTAATCGAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * **
89551916 TATAAACCAAGGGTA-TTCAATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
** *
89551942 TGTAAACCAAGGGTATTT
1 TACAAATCAAGGGTATTT
89551960 TAGTAATTCT
Statistics
Matches: 310, Mismatches: 51, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
26 26 0.08
27 259 0.84
28 24 0.08
29 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGGTAATTT
Found at i:89551752 original size:81 final size:81
Alignment explanation
Indices: 89551564--89551967 Score: 348
Period size: 81 Copynumber: 5.0 Consensus size: 81
89551554 TTTGTAAATC
* * * * * * * * **
89551564 TACAAACCAAGGGTATTTCGATAATTTTGCAAACTAATGGTATTGCTGTAATTTTTGAAAGTCAA
1 TACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTACAAA-TCAA
89551629 GGGTATTTCT-GTAATTT
65 GGGTATTT-TGGTAATTT
** * ** * * *
89551646 TGTAAATCAAGGGTATTTCTATAATTTTCCAAATCAAGGGTATTTCGGTAATTTTCCAAATCAAG
1 TACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTACAAATCAAG
89551711 GGTATTTTGGTAATTT
66 GGTATTTTGGTAATTT
* * ** * * * ** *
89551727 TACAAATTGAGGGTATTTCGGTAATTTTATAAGTCGAGGGTATTTTGATAATTTTACAGGTCGAG
1 TACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTACAAATCAAG
* *
89551792 AGTATTTTGTTAATTT
66 GGTATTTTGGTAATTT
* * * * *
89551808 CACAAAT-TAGGAGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAA-CTA
1 TACAAATCGAGG-GTATTTCGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTACAAATC-A
89551871 AGGGTATTTTGGTAATTT
64 AGGGTATTTTGGTAATTT
* * * ** ** *
89551889 TACTAATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTA-TTCAATAATTTTGTAAACCAAG
1 TACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTACAAATCAAG
*
89551953 GGTATTTTAGTAATT
66 GGTATTTTGGTAATT
89551968 CTACCCTACA
Statistics
Matches: 262, Mismatches: 55, Indels: 12
0.80 0.17 0.04
Matches are distributed among these distances:
80 34 0.13
81 177 0.68
82 51 0.19
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (81 bp):
TACAAATCGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTACAAATCAAG
GGTATTTTGGTAATTT
Found at i:89551980 original size:26 final size:26
Alignment explanation
Indices: 89551951--89552019 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 26
89551941 TTGTAAACCA
89551951 AGGGTATTTTAGTAATTCTACCCTAC
1 AGGGTATTTTAGTAATTCTACCCTAC
* **
89551977 AGGGGCATTTTAGTAATTCTATGCTAC
1 A-GGGTATTTTAGTAATTCTACCCTAC
89552004 AGGGTATTTTAGTAAT
1 AGGGTATTTTAGTAAT
89552020 ACTAGTGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 15 0.39
27 23 0.61
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (26 bp):
AGGGTATTTTAGTAATTCTACCCTAC
Found at i:89555967 original size:4 final size:4
Alignment explanation
Indices: 89555958--89555991 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
89555948 AAGTTTTATT
89555958 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
89555992 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:89555999 original size:22 final size:22
Alignment explanation
Indices: 89555941--89556000 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
89555931 AAGTGGCCCA
*
89555941 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
89555965 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
89555986 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
89556001 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:89570400 original size:33 final size:33
Alignment explanation
Indices: 89570362--89570424 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
89570352 GATTACTCAC
89570362 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
89570395 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
89570425 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:89570451 original size:21 final size:21
Alignment explanation
Indices: 89570422--89570558 Score: 51
Period size: 21 Copynumber: 6.7 Consensus size: 21
89570412 CAAGCTCTCT
*
89570422 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
89570443 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
89570464 TTCATTTTCTTTTTCTCTCACTTT-
1 TTCATTTTC-TTTT-T-TC-CTTTC
*
89570488 TTCAATTTC-TTTTT-CTTT-
1 TTCATTTTCTTTTTTCCTTTC
* *
89570506 TGCAATTTC-TTTTT-CTTT-
1 TTCATTTTCTTTTTTCCTTTC
*
89570524 TTCGTTTTCTTTTTGT--TTTC
1 TTCATTTTCTTTTT-TCCTTTC
*
89570544 TTTCAATTTCTTTTT
1 -TTCATTTTCTTTTT
89570559 CAATCTCTTT
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
18 27 0.30
19 7 0.08
20 5 0.05
21 33 0.36
22 5 0.05
23 1 0.01
24 10 0.11
25 3 0.03
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:89570470 original size:14 final size:14
Alignment explanation
Indices: 89570421--89570477 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
89570411 TCAAGCTCTC
89570421 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
89570434 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
89570448 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
89570462 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
89570476 TT
1 TT
89570478 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:89570499 original size:12 final size:12
Alignment explanation
Indices: 89570442--89570571 Score: 61
Period size: 12 Copynumber: 10.8 Consensus size: 12
89570432 TTTTTCGCTT
89570442 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
89570454 TTTTCTTTTCTTCAT
1 -TTTC-TTT-TTCAA
**
89570469 TTTCTTTTTCTC
1 TTTCTTTTTCAA
**
89570481 TCACTTTTTCAA
1 TTTCTTTTTCAA
*
89570493 TTTCTTTTTC-T
1 TTTCTTTTTCAA
** **
89570504 TTTGCAATTTCTT
1 TTT-CTTTTTCAA
**
89570517 TTTCTTTTTCGT
1 TTTCTTTTTCAA
*
89570529 TTTCTTTTT--G
1 TTTCTTTTTCAA
*
89570539 TTT-TCTTTCAA
1 TTTCTTTTTCAA
89570550 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
89570562 TCTCTTTTTC
1 TTTCTTTTTC
89570572 CTTTTCTCGC
Statistics
Matches: 90, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
9 4 0.04
10 3 0.03
11 6 0.07
12 55 0.61
13 11 0.12
14 7 0.08
15 4 0.04
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:89570537 original size:18 final size:18
Alignment explanation
Indices: 89570439--89570577 Score: 95
Period size: 18 Copynumber: 7.7 Consensus size: 18
89570429 TCTTTTTTCG
89570439 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
89570458 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* ** *
89570478 CTCTCACTTTTTCAATTT
1 CTTTTTCTTTTTCATTTT
* *
89570496 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
89570514 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
89570532 CTTTTT-GTTTTC--TTT
1 CTTTTTCTTTTTCATTTT
** * *
89570547 CAATTTCTTTTTCAATCT
1 CTTTTTCTTTTTCATTTT
*
89570565 CTTTTTCCTTTTC
1 CTTTTTCTTTTTC
89570578 TCGCTCAATG
Statistics
Matches: 92, Mismatches: 23, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
15 7 0.08
16 5 0.05
17 5 0.05
18 56 0.61
19 3 0.03
20 8 0.09
21 8 0.09
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.69
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:89570559 original size:6 final size:6
Alignment explanation
Indices: 89570439--89570546 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
89570429 TCTTTTTTCG
* * * **
89570439 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
89570490 CAATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
89570538 -GTTTT CTTT
1 CTTTTT CTTT
89570547 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.07, C:0.19, G:0.03, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:89571579 original size:11 final size:10
Alignment explanation
Indices: 89571563--89571602 Score: 62
Period size: 11 Copynumber: 3.8 Consensus size: 10
89571553 AGACTTTTCA
89571563 CTTTTTTTGTT
1 CTTTTTTT-TT
89571574 CTTTTTTTTT
1 CTTTTTTTTT
89571584 ACTTTTTTTTT
1 -CTTTTTTTTT
89571595 CTTTTTTT
1 CTTTTTTT
89571603 GCTCACTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.36
11 18 0.64
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:89571582 original size:22 final size:21
Alignment explanation
Indices: 89571557--89571622 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
89571547 CTCGCAAGAC
89571557 TTTTCACTTTTTTTGTTCTTTT
1 TTTTCACTTTTTTT-TTCTTTT
*
89571579 TTTTTACTTTTTTTTTCTTTT
1 TTTTCACTTTTTTTTTCTTTT
*
89571600 TTTGCTCACTTCTTTTTT-TTTT
1 TTT--TCACTTTTTTTTTCTTTT
89571622 T
1 T
89571623 GAATTTCGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 10 0.26
22 18 0.46
23 11 0.28
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.79
Consensus pattern (21 bp):
TTTTCACTTTTTTTTTCTTTT
Found at i:89574958 original size:86 final size:86
Alignment explanation
Indices: 89574848--89575022 Score: 350
Period size: 86 Copynumber: 2.0 Consensus size: 86
89574838 GAAAGGTAAT
89574848 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
89574913 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
89574934 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
1 GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
89574999 TTCGAAAGGGGGTTAGCAAAA
66 TTCGAAAGGGGGTTAGCAAAA
89575020 GAA
1 GAA
89575023 TTCCTCTCTT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (86 bp):
GAAGTTGGAACCAATCCGTGGATGGAATCTTGCAAACCTGAAACAAAGAAAAATCACAAGGTAAT
TTCGAAAGGGGGTTAGCAAAA
Found at i:89575135 original size:6 final size:6
Alignment explanation
Indices: 89575126--89575229 Score: 73
Period size: 6 Copynumber: 16.8 Consensus size: 6
89575116 TCTTTTTTCG
* * * **
89575126 CTTTTT CTTTTT CAATTTT CATTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
89575177 CAATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
89575225 GTTTT
1 CTTTT
89575230 CTAAAACACT
Statistics
Matches: 73, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
6 60 0.82
7 10 0.14
8 3 0.04
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (6 bp):
CTTTTT
Found at i:89575138 original size:21 final size:21
Alignment explanation
Indices: 89575109--89575164 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
89575099 CAAGCTCTCT
* *
89575109 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-ATTTC
* **
89575130 TTCTTTTTCAATTTTCATTTC
1 TTCATTTTCTTTTTTCATTTC
89575151 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
89575165 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.70
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCATTTC
Found at i:89575192 original size:18 final size:18
Alignment explanation
Indices: 89575126--89575229 Score: 91
Period size: 18 Copynumber: 5.6 Consensus size: 18
89575116 TCTTTTTTCG
89575126 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTCAA-TTT
* **
89575145 CATTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCAATTT
* **
89575165 CTCTCACTTTTTCAATTT
1 CTTTTTCTTTTTCAATTT
*
89575183 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCAATTT
**
89575201 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCAATTT
*
89575219 CTTTTTGTTTT
1 CTTTTTCTTTT
89575230 CTAAAACACT
Statistics
Matches: 66, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
18 48 0.73
19 3 0.05
20 7 0.11
21 8 0.12
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.70
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTT
Found at i:89575228 original size:11 final size:12
Alignment explanation
Indices: 89575114--89575231 Score: 62
Period size: 12 Copynumber: 9.4 Consensus size: 12
89575104 TCTCTTTCAA
89575114 TTTCTTTTTTCGCTT
1 TTTC-TTTTTCG--T
*
89575129 TTTCTTTTTCAAT
1 TTTCTTTTTC-GT
*
89575142 TTTCATTTCTTCAT
1 TTTC-TTT-TTCGT
89575156 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** **
89575167 CTCACTTTTTCAA
1 -TTTCTTTTTCGT
89575180 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** *
89575191 TTTGCAATTTCTT
1 TTT-CTTTTTCGT
89575204 TTTCTTTTTCGT
1 TTTCTTTTTCGT
89575216 TTTCTTTTT-GT
1 TTTCTTTTTCGT
89575227 TTTCT
1 TTTCT
89575232 AAAACACTTA
Statistics
Matches: 84, Mismatches: 12, Indels: 18
0.74 0.11 0.16
Matches are distributed among these distances:
11 11 0.13
12 39 0.46
13 12 0.14
14 15 0.18
15 7 0.08
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTCTTTTTCGT
Found at i:89575404 original size:20 final size:20
Alignment explanation
Indices: 89575381--89575427 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
89575371 GGGTTAAGAT
*
89575381 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
89575401 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
89575421 TGAGCTG
1 TGAGCTG
89575428 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:89580555 original size:39 final size:38
Alignment explanation
Indices: 89580500--89580577 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 38
89580490 ACTCATCTCC
*
89580500 CTCACGCATCCGTATTTGGTGATAACCGCTCTTAAGGT
1 CTCACGCATCCGTATTTGGTGATAACCGCTCCTAAGGT
89580538 CNTCACGCATCCGTATTTGGTGATAACCGCTCCTAAGGT
1 C-TCACGCATCCGTATTTGGTGATAACCGCTCCTAAGGT
89580577 C
1 C
89580578 GATTTTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 1 0.03
39 37 0.97
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (38 bp):
CTCACGCATCCGTATTTGGTGATAACCGCTCCTAAGGT
Found at i:89582091 original size:42 final size:42
Alignment explanation
Indices: 89582028--89582112 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
89582018 AAGAAGTATT
89582028 AGGGAAAGAACGGAACATACCTTTTCTCTTTAATTGTTTTTC
1 AGGGAAAGAACGGAACATACCTTTTCTCTTTAATTGTTTTTC
*
89582070 AGGGAAAGAACGGAACGTACCTTTTCTCTTTAATTGTTTTTC
1 AGGGAAAGAACGGAACATACCTTTTCTCTTTAATTGTTTTTC
89582112 A
1 A
89582113 ACCTTTATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (42 bp):
AGGGAAAGAACGGAACATACCTTTTCTCTTTAATTGTTTTTC
Found at i:89586649 original size:13 final size:13
Alignment explanation
Indices: 89586631--89586703 Score: 69
Period size: 13 Copynumber: 5.5 Consensus size: 13
89586621 TTGGAGTAAC
89586631 AAAAAAAA-TC-A
1 AAAAAAAATTCAA
89586642 AAAAAAAATTCGAA
1 AAAAAAAATTC-AA
*
89586656 AAAAAAATTGATTGAA
1 AAAAAAA---ATTCAA
89586672 AAAAAAAATTCAA
1 AAAAAAAATTCAA
* *
89586685 AAAAAAAAGTGAA
1 AAAAAAAATTCAA
89586698 AAAAAA
1 AAAAAA
89586704 TCGAGCAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
11 8 0.15
12 2 0.04
13 22 0.42
14 8 0.15
16 9 0.17
17 3 0.06
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:89586745 original size:30 final size:28
Alignment explanation
Indices: 89586683--89586755 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
89586673 AAAAAAATTC
*
89586683 AAAAAAAAAAGTGAAAAAAAATCGAGCA
1 AAAAAAAAAAGTGAAAAAAAATCAAGCA
*
89586711 AAAAAAAAAGGTGACCAAAAAAATCAAG--
1 AAAAAAAAAAGTGA--AAAAAAATCAAGCA
**
89586739 TTAAAAAAAAGTGAAAA
1 AAAAAAAAAAGTGAAAA
89586756 GTCTTGCGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
28 24 0.63
30 11 0.29
ACGTcount: A:0.70, C:0.07, G:0.14, T:0.10
Consensus pattern (28 bp):
AAAAAAAAAAGTGAAAAAAAATCAAGCA
Found at i:89587645 original size:18 final size:18
Alignment explanation
Indices: 89587624--89587658 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
89587614 AGAAAAGAAA
89587624 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
89587642 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
89587659 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:89589746 original size:10 final size:10
Alignment explanation
Indices: 89589730--89589787 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
89589720 CAACTCCGAC
89589730 CAGCTCAATT
1 CAGCTCAATT
* *
89589740 GAGCTCATTT
1 CAGCTCAATT
89589750 CAGCTCAA-T
1 CAGCTCAATT
89589759 CGAGCTCAATT
1 C-AGCTCAATT
*
89589770 TAGCTACAATT
1 CAGCT-CAATT
89589781 CAGCTCA
1 CAGCTCA
89589788 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:89589753 original size:20 final size:20
Alignment explanation
Indices: 89589730--89589790 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
89589720 CAACTCCGAC
89589730 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
89589750 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
89589771 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
89589791 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:89591272 original size:22 final size:22
Alignment explanation
Indices: 89591229--89591272 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
89591219 TTTTGAACCA
*
89591229 TTACCATTTCGTACTAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
89591251 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
89591273 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.36
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:89593863 original size:19 final size:19
Alignment explanation
Indices: 89593802--89593865 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
89593792 CAAATGAGAG
89593802 AAAAAGAAAAGAGCGAAAAT-A
1 AAAAAGAAAAGA---AAAATCA
* *
89593823 CAAAAGAAAAGAAAAATGA
1 AAAAAGAAAAGAAAAATCA
*
89593842 AAAAAGAAAAGAAAATTCA
1 AAAAAGAAAAGAAAAATCA
89593861 AAAAA
1 AAAAA
89593866 AGAGAATGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 5 0.13
19 22 0.58
21 11 0.29
ACGTcount: A:0.75, C:0.05, G:0.14, T:0.06
Consensus pattern (19 bp):
AAAAAGAAAAGAAAAATCA
Found at i:89598169 original size:22 final size:22
Alignment explanation
Indices: 89598141--89598184 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
89598131 TTTTGAACCA
89598141 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
89598163 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
89598185 AAATACCATT
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:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:89607815 original size:20 final size:20
Alignment explanation
Indices: 89607768--89607815 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
89607758 AGTAAGCTCG
89607768 GTTGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
****
89607788 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
89607808 GTTGAGCT
1 GTTGAGCT
89607816 GGACGGTGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAATGAGCTGA
Found at i:89609487 original size:11 final size:12
Alignment explanation
Indices: 89609457--89609488 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
89609447 TTTCACTCTT
89609457 CTCTTTTTCAAA
1 CTCTTTTTCAAA
89609469 CTCTTTTTCAAA
1 CTCTTTTTCAAA
*
89609481 TTCTTTTT
1 CTCTTTTT
89609489 TCGCTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTTTTTCAAA
Found at i:89609503 original size:6 final size:6
Alignment explanation
Indices: 89609492--89609605 Score: 88
Period size: 6 Copynumber: 18.7 Consensus size: 6
89609482 TCTTTTTTCG
* * * **
89609492 CTTTTT CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA
1 CTTTTT CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT
* ** *
89609543 CTTTTT -TTATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT
1 CTTTTT CTT-TTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
89609591 CTTTTT -GTTTT CTTT
1 CTTTTT CTTTTT CTTT
89609606 CAATTTCTCT
Statistics
Matches: 82, Mismatches: 21, Indels: 10
0.73 0.19 0.09
Matches are distributed among these distances:
5 6 0.07
6 62 0.76
7 11 0.13
8 3 0.04
ACGTcount: A:0.06, C:0.18, G:0.03, T:0.74
Consensus pattern (6 bp):
CTTTTT
Found at i:89609507 original size:33 final size:33
Alignment explanation
Indices: 89609470--89609538 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
89609460 TTTTTCAAAC
*
89609470 TCTTTTTCAAATTCTT-TTTTC-GCTTTTTCTTTT
1 TCTTTTTC-AATT-TTCTTTTCTGCATTTTCTTTT
*
89609503 TCTTTTTCAATTTTCTTTTCTTCATTTTCTTTT
1 TCTTTTTCAATTTTCTTTTCTGCATTTTCTTTT
89609536 TCT
1 TCT
89609539 CTCACTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 2 0.06
32 9 0.28
33 21 0.66
ACGTcount: A:0.09, C:0.19, G:0.01, T:0.71
Consensus pattern (33 bp):
TCTTTTTCAATTTTCTTTTCTGCATTTTCTTTT
Found at i:89609529 original size:14 final size:13
Alignment explanation
Indices: 89609493--89609536 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
89609483 CTTTTTTCGC
*
89609493 TTTTTCTTTTTC-
1 TTTTTCATTTTCT
89609505 TTTTTCAATTTTCT
1 TTTTTC-ATTTTCT
89609519 TTTCTTCATTTTCT
1 TTT-TTCATTTTCT
89609533 TTTT
1 TTTT
89609537 CTCTCACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.21
13 6 0.21
14 13 0.46
15 3 0.11
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCATTTTCT
Found at i:89620561 original size:56 final size:54
Alignment explanation
Indices: 89620454--89620612 Score: 187
Period size: 56 Copynumber: 2.9 Consensus size: 54
89620444 TTTGATGACA
* * * *
89620454 TGATACATGCTAGGTCCGAGAGCTTGTGTAGCCCCGTTGAGAGGCAT-GTAATTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGGT-A--ATG
* *
89620510 TGGTACACGCTAGGTCCGGGAGCTTATGTA-CCCTGTTGAGAGGCGTGGTAATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGGTAATG
* *
89620563 TGATGCATGCTAGGTCCGGGTGCTCATATGTAGCCCTGTTGAGAGGCGTG
1 TGATACATGCTAGGTCCGGGAGCT--TATGTAGCCCTGTTGAGAGGCGTG
89620613 CTATTTCATG
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
53 23 0.26
55 21 0.24
56 45 0.51
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (54 bp):
TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGGTAATG
Found at i:89628827 original size:34 final size:31
Alignment explanation
Indices: 89628763--89628827 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 31
89628753 AATGTTGAAG
*
89628763 AGTCTTCCAATGTGAACAAGGTGAACCGAAT
1 AGTCTTCCAATGTGAACAAGGTGAAACGAAT
89628794 AGTCTTGCC-ATGTGAACATAGGTGTGAAACGAAT
1 AGTCTT-CCAATGTGAACA-A-G-GTGAAACGAAT
89628828 TAAGGAGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 15 0.52
32 3 0.10
33 1 0.03
34 10 0.34
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (31 bp):
AGTCTTCCAATGTGAACAAGGTGAAACGAAT
Found at i:89631921 original size:29 final size:29
Alignment explanation
Indices: 89631888--89631960 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
89631878 TTAGATATTA
* *
89631888 TTAAATATGTCCTAATTAGTTTAGGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
89631917 TTAAATATGTCCTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAAGTGTT
89631946 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
89631961 ACTAATACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAAGTGTT
Found at i:89637459 original size:19 final size:19
Alignment explanation
Indices: 89637398--89637461 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
89637388 CAAATGAGAG
89637398 AAAAAGAAAAGAGCGAAAAT-A
1 AAAAAGAAAAGA---AAAATCA
* *
89637419 CAAAAGAAAAGAAAAATGA
1 AAAAAGAAAAGAAAAATCA
*
89637438 AAAAAGAAAAGAAAATTCA
1 AAAAAGAAAAGAAAAATCA
89637457 AAAAA
1 AAAAA
89637462 AGAGAATGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 5 0.13
19 22 0.58
21 11 0.29
ACGTcount: A:0.75, C:0.05, G:0.14, T:0.06
Consensus pattern (19 bp):
AAAAAGAAAAGAAAAATCA
Found at i:89646744 original size:12 final size:12
Alignment explanation
Indices: 89646729--89646759 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
89646719 TTCTTTTTGC
89646729 TTTTCAAAGGCT
1 TTTTCAAAGGCT
89646741 TTTTCAAAGGCT
1 TTTTCAAAGGCT
89646753 TTTTCAA
1 TTTTCAA
89646760 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:89646849 original size:21 final size:21
Alignment explanation
Indices: 89646825--89646875 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
89646815 TTTTATTTCG
89646825 TTTTCTTTATCTTCT-TTTGCT
1 TTTTCTTTATCTTCTCTTTG-T
*
89646846 TTTTCTTT-TCTTTTCTTTGT
1 TTTTCTTTATCTTCTCTTTGT
89646866 TTTCTCTTTA
1 TTT-TCTTTA
89646876 CAAGAATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTCTTTATCTTCTCTTTGT
Found at i:89646852 original size:15 final size:14
Alignment explanation
Indices: 89646807--89646863 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 14
89646797 CTCTTGCCTC
*
89646807 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
*
89646822 TCGTTTTCTTTATCT
1 TC-TTTTCTTTTTCT
89646837 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
89646854 TCTTTTCTTT
1 TCTTTTCTTT
89646864 GTTTTCTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
14 4 0.11
15 11 0.31
16 13 0.37
17 7 0.20
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.75
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:89655016 original size:94 final size:94
Alignment explanation
Indices: 89654853--89655039 Score: 347
Period size: 94 Copynumber: 2.0 Consensus size: 94
89654843 TTTGGGTTCG
* *
89654853 TGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGATCCAATGTGTTTTGGCTG
1 TGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGATCCAATGCGTTTTGGCTA
89654918 CAAGAATTGGTTTCTTGGACCAAGATTTT
66 CAAGAATTGGTTTCTTGGACCAAGATTTT
89654947 TGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGATCCAATGCGTTTTGGCTA
1 TGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGATCCAATGCGTTTTGGCTA
*
89655012 CAAGATTTGGTTTCTTGGACCAAGATTT
66 CAAGAATTGGTTTCTTGGACCAAGATTT
89655040 CCAAGATTTG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (94 bp):
TGATCCATCTCCTACCAAAATTGGGTCGTTGACGCTCGTAATGGAGATCCAATGCGTTTTGGCTA
CAAGAATTGGTTTCTTGGACCAAGATTTT
Found at i:89657524 original size:179 final size:179
Alignment explanation
Indices: 89657221--89657574 Score: 550
Period size: 179 Copynumber: 2.0 Consensus size: 179
89657211 GGTAGGTGAT
89657221 GTGAGCACGCCCGGGGCATCCTCGAATGCAAATCAAGAACTAATTGAGCTTCCAAAAGGCCCCAT
1 GTGAGCACGCCCGGGGCATCCTCGAATGCAAATCAAGAACTAATTGAGCTTCCAAAAGGCCCCAT
* * ** *
89657286 GACTCGAGCTCGAACCAAGCAAATTCAAGATGCTTTATCAGCCTTGGTGTTGCGCATTTGGGATG
66 GAATCGAGCTCGAACCAAGCAAATTCAAGATGCTTTATCAGCATTGGTGTTAAGCATTTGGGATC
*
89657351 ATAACAAGGTCCAAGACGTTGG-GCGAGCTAAGGACAATGCCTTGATGAC
131 ACAACAAGGTCCAAGACGTTGGAG-GAGCTAAGGACAATGCCTTGATGAC
* *
89657400 GTGAGCACGCCTGGGGCATCCTCGAATGCAAATCATGAA-TCAATTGAGCTTCCAAAAGGCCCCA
1 GTGAGCACGCCCGGGGCATCCTCGAATGCAAATCAAGAACT-AATTGAGCTTCCAAAAGGCCCCA
* * *
89657464 TGAATCGAGCTCGAACCAAGCGAATTCAAGATGCTTTATCCGTATTGGTGTTAAGCATTTGGGAT
65 TGAATCGAGCTCGAACCAAGCAAATTCAAGATGCTTTATCAGCATTGGTGTTAAGCATTTGGGAT
* * *
89657529 CACAACAAGGTTCATGACGTTGGAGGAGCTAAGGACACTGCCTTGA
130 CACAACAAGGTCCAAGACGTTGGAGGAGCTAAGGACAATGCCTTGA
89657575 AGACTCCGTG
Statistics
Matches: 159, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
178 1 0.01
179 157 0.99
180 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (179 bp):
GTGAGCACGCCCGGGGCATCCTCGAATGCAAATCAAGAACTAATTGAGCTTCCAAAAGGCCCCAT
GAATCGAGCTCGAACCAAGCAAATTCAAGATGCTTTATCAGCATTGGTGTTAAGCATTTGGGATC
ACAACAAGGTCCAAGACGTTGGAGGAGCTAAGGACAATGCCTTGATGAC
Found at i:89658005 original size:30 final size:30
Alignment explanation
Indices: 89657971--89658067 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
89657961 AGCTCACTCC
89657971 TAGCTCATA-TTCAGCTTACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTTACGAGCTAAACCT
* * * *
89658001 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTTACGAGCTAAACCT
* * * *
89658031 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTTACGAGCTAAACCT
89658061 TAGCTCA
1 TAGCTCA
89658068 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTTACGAGCTAAACCT
Found at i:89660847 original size:20 final size:21
Alignment explanation
Indices: 89660824--89660873 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
89660814 AGCTCTAATC
*
89660824 AGCTCGTTTGAGCTC-GATTT
1 AGCTCGTTTGAGCTCAAATTT
* *
89660844 AGCTTGCTTGAGCTCAAATTT
1 AGCTCGTTTGAGCTCAAATTT
89660865 AGCTCGTTT
1 AGCTCGTTT
89660874 TATCAGCTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (21 bp):
AGCTCGTTTGAGCTCAAATTT
Found at i:89661118 original size:13 final size:13
Alignment explanation
Indices: 89661100--89661134 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
89661090 ATTATATGAA
89661100 TAATTAT-TCTATT
1 TAATTATGT-TATT
89661113 TAATTATGTTATT
1 TAATTATGTTATT
89661126 TAATTATGT
1 TAATTATGT
89661135 AGGTGATACG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 20 0.95
14 1 0.05
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (13 bp):
TAATTATGTTATT
Found at i:89661973 original size:22 final size:23
Alignment explanation
Indices: 89661948--89662007 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
89661938 TGGACTGAAT
89661948 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
89661970 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
89661992 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
89662008 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:89661975 original size:4 final size:4
Alignment explanation
Indices: 89661957--89661990 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
89661947 TATAAAAATT
89661957 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
89661991 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:89663396 original size:23 final size:22
Alignment explanation
Indices: 89663344--89663396 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
89663334 TCCACGTCTT
*
89663344 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
89663366 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
89663389 TTTCTTTT
1 TTTCTTTT
89663397 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:89667250 original size:13 final size:13
Alignment explanation
Indices: 89667232--89667258 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89667222 GCTCGGCAGG
89667232 GACACGCCCGTGT
1 GACACGCCCGTGT
89667245 GACACGCCCGTGT
1 GACACGCCCGTGT
89667258 G
1 G
89667259 CGTCGTGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:89679681 original size:57 final size:57
Alignment explanation
Indices: 89679612--89679727 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 57
89679602 CGGGATAGGG
*
89679612 TTCGAGGTATTACCAGGACTTTTCATTTTGAAACGTACCAAATTGGGTCACCAAGTT
1 TTCGAGGTATTACCAGGACTCTTCATTTTGAAACGTACCAAATTGGGTCACCAAGTT
* * *
89679669 TTCGAGGTATTACTAGGACTCTTCATTTTGAAACGTACCAATTTGGGTTACCAAGTT
1 TTCGAGGTATTACCAGGACTCTTCATTTTGAAACGTACCAAATTGGGTCACCAAGTT
89679726 TT
1 TT
89679728 ACTCAAATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (57 bp):
TTCGAGGTATTACCAGGACTCTTCATTTTGAAACGTACCAAATTGGGTCACCAAGTT
Found at i:89686771 original size:16 final size:17
Alignment explanation
Indices: 89686739--89686771 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
89686729 ATTAAAATGA
*
89686739 GTATAAATTATATGTAT
1 GTATAAATTACATGTAT
89686756 GTATAAA-TACATGTAT
1 GTATAAATTACATGTAT
89686772 TCGGCTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (17 bp):
GTATAAATTACATGTAT
Found at i:89693079 original size:30 final size:30
Alignment explanation
Indices: 89693033--89693148 Score: 151
Period size: 30 Copynumber: 3.9 Consensus size: 30
89693023 TTGATGATCG
*
89693033 TCGACCAATAAAAAGGGATAGCTTCGACTA
1 TCGACCAATGAAAAGGGATAGCTTCGACTA
* * *
89693063 TCGATCAATGAAAAGGGATAGCTTCTAGTA
1 TCGACCAATGAAAAGGGATAGCTTCGACTA
* *
89693093 TCGACCAATGAAAAGAGATAGCTTCAACTA
1 TCGACCAATGAAAAGGGATAGCTTCGACTA
* * *
89693123 TCGAACTACGAAAAGGGATAGCTTCG
1 TCGACCAATGAAAAGGGATAGCTTCG
89693149 CCTGTCAAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (30 bp):
TCGACCAATGAAAAGGGATAGCTTCGACTA
Found at i:89693126 original size:60 final size:60
Alignment explanation
Indices: 89693033--89693147 Score: 176
Period size: 60 Copynumber: 1.9 Consensus size: 60
89693023 TTGATGATCG
* * * *
89693033 TCGACCAATAAAAAGGGATAGCTTCGACTATCGATCAATGAAAAGGGATAGCTTCTAGTA
1 TCGACCAATAAAAAGAGATAGCTTCAACTATCGAACAACGAAAAGGGATAGCTTCTAGTA
* *
89693093 TCGACCAATGAAAAGAGATAGCTTCAACTATCGAACTACGAAAAGGGATAGCTTC
1 TCGACCAATAAAAAGAGATAGCTTCAACTATCGAACAACGAAAAGGGATAGCTTC
89693148 GCCTGTCAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (60 bp):
TCGACCAATAAAAAGAGATAGCTTCAACTATCGAACAACGAAAAGGGATAGCTTCTAGTA
Found at i:89693166 original size:30 final size:30
Alignment explanation
Indices: 89693043--89693173 Score: 118
Period size: 30 Copynumber: 4.4 Consensus size: 30
89693033 TCGACCAATA
* * * *
89693043 AAAAGGGATAGCTTCGACTATCGATCAATG
1 AAAAGGGATAGCTTCAACTATCAAACTATG
* * * * *
89693073 AAAAGGGATAGCTTCTAGTATCGACCAATG
1 AAAAGGGATAGCTTCAACTATCAAACTATG
* * *
89693103 AAAAGAGATAGCTTCAACTATCGAACTACG
1 AAAAGGGATAGCTTCAACTATCAAACTATG
** * *
89693133 AAAAGGGATAGCTTCGCCTGTCAAATTATG
1 AAAAGGGATAGCTTCAACTATCAAACTATG
89693163 AAAAGGGATAG
1 AAAAGGGATAG
89693174 TGACAACCAT
Statistics
Matches: 85, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (30 bp):
AAAAGGGATAGCTTCAACTATCAAACTATG
Found at i:89693257 original size:29 final size:30
Alignment explanation
Indices: 89693153--89693252 Score: 123
Period size: 29 Copynumber: 3.4 Consensus size: 30
89693143 GCTTCGCCTG
* * *
89693153 TCAAATTATGAAAAGGGATAGTGACAACCA
1 TCAAAATATGAAAAGGGATGGTGACGACCA
* *
89693183 TCAATA-ATGAAAAGGAATGGTGACGACCA
1 TCAAAATATGAAAAGGGATGGTGACGACCA
* *
89693212 TC-AACTATGACAAGGGATGGTGACGACCA
1 TCAAAATATGAAAAGGGATGGTGACGACCA
89693241 TCAAAATATGAA
1 TCAAAATATGAA
89693253 GGGGACAGCT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
28 1 0.02
29 45 0.79
30 11 0.19
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (30 bp):
TCAAAATATGAAAAGGGATGGTGACGACCA
Found at i:89695738 original size:63 final size:63
Alignment explanation
Indices: 89695665--89696543 Score: 1758
Period size: 63 Copynumber: 14.0 Consensus size: 63
89695655 TCAAGTCAAA
89695665 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89695728 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89695791 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89695854 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89695917 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89695980 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89696043 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89696106 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89696169 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89696232 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89696295 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89696358 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89696421 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
89696484 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTT
1 AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTT
89696544 TGTGATTTAA
Statistics
Matches: 816, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 816 1.00
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.53
Consensus pattern (63 bp):
AAAATATTTTGAAATTAGTTTTTGTGTTTATTTTGTGTAAATTTATATCTGTGAAATTTTCAC
Found at i:89698070 original size:16 final size:17
Alignment explanation
Indices: 89698038--89698070 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
89698028 ATTAAAATGA
*
89698038 GTATAAATTATATGTAT
1 GTATAAATTACATGTAT
89698055 GTATAAA-TACATGTAT
1 GTATAAATTACATGTAT
89698071 TCGGCTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (17 bp):
GTATAAATTACATGTAT
Found at i:89702299 original size:46 final size:46
Alignment explanation
Indices: 89702244--89702416 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
89702234 TGGTTGAGCA
* *
89702244 TCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
89702290 TCCGGACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
89702335 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
89702383 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
89702417 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 58 0.57
47 27 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:89702400 original size:93 final size:93
Alignment explanation
Indices: 89702241--89702411 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
89702231 GGATGGTTGA
* * * *
89702241 GCATCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAATGTCCGGACTCGTTGAGT
1 GCATCCAAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCAAACGCCCGGACTCGTTGAGT
89702306 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
89702334 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCC-GAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCAAACGCCCGGA-CTCGTTGAG
89702398 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
89702412 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCAAACGCCCGGACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:89705901 original size:40 final size:40
Alignment explanation
Indices: 89705844--89706108 Score: 334
Period size: 40 Copynumber: 6.5 Consensus size: 40
89705834 TATTCGGATG
* * *
89705844 ATATCTGGGCTACGTCCCGAAGGCATTTGTACAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
89705884 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
89705924 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
89705967 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
89706007 ATATCCAGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
89706047 ATATCTGGGCTAAGACCCGAAGGCATTTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCAAGTTACT
*
89706088 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
89706109 ATACTTGGGT
Statistics
Matches: 198, Mismatches: 23, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
40 145 0.73
41 16 0.08
43 37 0.19
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:89705993 original size:83 final size:81
Alignment explanation
Indices: 89705844--89706108 Score: 331
Period size: 83 Copynumber: 3.3 Consensus size: 81
89705834 TATTCGGATG
* * * *
89705844 ATATCTGGGCTACGTCCCGAAGGCATTTGTACA-AGTTACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCATAGTTGCTATATCCGGGCTAAGTCCCGAAGGC
89705908 ATTTGTGCAAGTTACT
66 ATTTGTGCAAGTTACT
*
89705924 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A-TAGTTGCTATATCCGGGCTAAGTCCCGAAG
* *
89705989 GCATTTGTGCTAGTGACT
64 GCATTTGTGCAAGTTACT
* ** * *
89706007 ATATCCAGGCTAAGTCCCGAAGGCATTCATGC-TAG-TGACTATATCTGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCATAGTTG-CTATATCCGGGCTAAGTCCCGAAGG
* *
89706070 CATTTTGTGCGAGTTGCT
65 CA-TTTGTGCAAGTTACT
*
89706088 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
89706109 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.01
80 70 0.43
81 19 0.12
83 72 0.44
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCATAGTTGCTATATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCAAGTTACT
Found at i:89706069 original size:123 final size:121
Alignment explanation
Indices: 89705850--89706108 Score: 360
Period size: 123 Copynumber: 2.1 Consensus size: 121
89705840 GATGATATCT
* * * **
89705850 GGGCTACGTCCCGAAGGCATTTGTACAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTACAAGTGACTATATCCAGGCTAAGTCCCGAAGGCATTCATG
* *
89705915 CAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTAGTTGCTATACCC
66 CAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTTGTGC--G-AGTTGCTATACCC
* *
89705973 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGCATTCATG
1 GGGCTAAGTCCCGAAGGCATTTGTACAAGTGACTATATCCAGGCTAAGTCCCGAAGGCATTCATG
* * *
89706038 CTAGTGACTATATCTGGGCTAAGACCCGAAGGCATTTTGTGCGAGTTGCTATATCC
66 CAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTTGTGCGAGTTGCTATACCC
*
89706094 -GGCTAAATCCCGAAG
1 GGGCTAAGTCCCGAAG
89706109 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
120 14 0.11
121 12 0.10
122 1 0.01
123 88 0.72
124 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (121 bp):
GGGCTAAGTCCCGAAGGCATTTGTACAAGTGACTATATCCAGGCTAAGTCCCGAAGGCATTCATG
CAAGTGACTATATCCGGGCTAAGACCCGAAGGCATTTTGTGCGAGTTGCTATACCC
Found at i:89712551 original size:39 final size:40
Alignment explanation
Indices: 89712410--89712551 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
89712400 TATTCAGATG
* *
89712410 ATAACCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
89712450 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
89712490 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTA-CT
**
89712530 ATATTC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAATCCCGAAGG
89712552 TACTTGGTTT
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 18 0.19
40 78 0.81
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:89715238 original size:64 final size:64
Alignment explanation
Indices: 89715165--89715294 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
89715155 TTGGAATATT
*
89715165 AGTGAGGAGGTCTTAAATAGCAATTTGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGA
1 AGTGAGGAGGTCTTAAATAGAAATTTGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGA
89715229 AGTGAGGAGGTCTTAAATAGAAATTTGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGA
1 AGTGAGGAGGTCTTAAATAGAAATTTGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGA
89715293 AG
1 AG
89715295 GAATTTTTGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (64 bp):
AGTGAGGAGGTCTTAAATAGAAATTTGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGA
Found at i:89715681 original size:46 final size:46
Alignment explanation
Indices: 89715631--89715803 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
89715621 TGGTTGAGCA
89715631 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
89715677 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
89715722 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
89715770 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
89715804 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.56
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:89715787 original size:93 final size:93
Alignment explanation
Indices: 89715628--89715798 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
89715618 GGATGGTTGA
*
89715628 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
*
89715693 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* *
89715721 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
89715786 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
89715799 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:89732727 original size:27 final size:27
Alignment explanation
Indices: 89732696--89732873 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
89732686 TAAATTGTAC
89732696 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
89732723 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89732749 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
89732777 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
89732805 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89732832 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
89732859 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89732874 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:89732810 original size:82 final size:81
Alignment explanation
Indices: 89732697--89732852 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89732687 AAATTGTACA
* *
89732697 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
89732761 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
89732778 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
89732843 TGCGAGTTGA
65 TGCGAATTGA
89732853 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:89732864 original size:82 final size:81
Alignment explanation
Indices: 89732693--89732873 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
89732683 GATTAAATTG
* *
89732693 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
89732758 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
89732774 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
89732838 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
89732856 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
89732874 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Done.