Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 217 of 352
Found at i:71512741 original size:20 final size:20
Alignment explanation
Indices: 71512712--71512806 Score: 142
Period size: 20 Copynumber: 4.8 Consensus size: 20
71512702 TTATGATTAC
*
71512712 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
71512732 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
71512752 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
71512772 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
71512792 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
71512807 TCCCACGTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
18 8 0.11
20 61 0.86
21 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:71512743 original size:11 final size:11
Alignment explanation
Indices: 71512712--71512789 Score: 78
Period size: 11 Copynumber: 7.6 Consensus size: 11
71512702 TTATGATTAC
*
71512712 ATCATGTGCAT
1 ATCATATGCAT
*
71512723 TTCATA--CAT
1 ATCATATGCAT
71512732 ATCATATGCAT
1 ATCATATGCAT
71512743 ATCATA--CAT
1 ATCATATGCAT
*
71512752 ATCATGTGCAT
1 ATCATATGCAT
71512763 ATCATA--CAT
1 ATCATATGCAT
*
71512772 ATCATGTGCAT
1 ATCATATGCAT
71512783 ATCATAT
1 ATCATAT
71512790 CAATCATGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
9 24 0.44
11 30 0.56
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:71512804 original size:9 final size:10
Alignment explanation
Indices: 71512729--71512805 Score: 63
Period size: 9 Copynumber: 7.8 Consensus size: 10
71512719 GCATTTCATA
*
71512729 CATATCATAT
1 CATATCATGT
*
71512739 GCATATCAT-A
1 -CATATCATGT
71512749 CATATCATGT
1 CATATCATGT
*
71512759 GCATATCAT-A
1 -CATATCATGT
71512769 CATATCATGT
1 CATATCATGT
*
71512779 GCATATCATAT
1 -CATATCATGT
71512790 CA-ATCATGT
1 CATATCATGT
71512799 -ATATCAT
1 CATATCAT
71512806 ATCCCACGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
8 1 0.02
9 27 0.49
10 2 0.04
11 25 0.45
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (10 bp):
CATATCATGT
Found at i:71512862 original size:25 final size:25
Alignment explanation
Indices: 71512834--71512881 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
71512824 TTAATTAAAC
* * *
71512834 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
71512859 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
71512882 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:71522880 original size:56 final size:56
Alignment explanation
Indices: 71522794--71522969 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
71522784 ACAAGGGATG
*
71522794 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAAGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
71522850 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
71522906 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
71522962 ATGGGCAA
1 ATGGGCAA
71522970 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:71524322 original size:40 final size:40
Alignment explanation
Indices: 71524091--71524315 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
71524081 TCGAATGATG
* * * *
71524091 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
71524131 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
71524171 TCCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAA
*
71524210 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
71524250 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71524291 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71524316 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.02
39 31 0.19
40 114 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71524322 original size:80 final size:79
Alignment explanation
Indices: 71524091--71524315 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 79
71524081 TCGAATGATG
* * * * * * *
71524091 TCCGGGCTAAGTCCCGAAGGCTTTG-TGCTAAGTGACCATATCTGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTGATGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
* *
71524154 TTGTGCGAGATACTAAT
63 TTGTGCGAGTTACTAAA
*
71524171 TCCGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
71524236 TGCGAGTTACTAAA
66 TGCGAGTTACTAAA
* * *
71524250 TCTGGGTTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCAT
71524313 TTG
63 TTG
71524316 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 61 0.48
80 59 0.47
81 5 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:71524337 original size:119 final size:119
Alignment explanation
Indices: 71524091--71524348 Score: 294
Period size: 119 Copynumber: 2.2 Consensus size: 119
71524081 TCGAATGATG
* *
71524091 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCTGGACTAAGATCCGAAGGCATTT
* *
71524156 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGATACGAGTTACTAAA
* * * **
71524210 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCTGGACTAAGAT-CCGAAGGCAT
* * *
71524273 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGA-ACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCA-TTGATACGAGTTA-CTAAA
* *
71524330 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
71524349 TACGTGATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 28 0.24
121 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCTGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGATACGAGTTACTAAA
Found at i:71529990 original size:55 final size:56
Alignment explanation
Indices: 71529906--71530024 Score: 222
Period size: 55 Copynumber: 2.1 Consensus size: 56
71529896 ACAAGGGATG
71529906 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAAT-AAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
71529961 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
71530017 ATGGGCAA
1 ATGGGCAA
71530025 TAAACTAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 43 0.69
56 19 0.31
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:71531364 original size:119 final size:122
Alignment explanation
Indices: 71531153--71531417 Score: 364
Period size: 119 Copynumber: 2.2 Consensus size: 122
71531143 TCGAATGATG
*
71531153 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
71531217 TGTGCGAGATACTAATTCCGGGCTAAGT-CCGAAGGCA-TTGATGCGAGTTACTA-AA
66 TGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATAA
* * * * **
71531272 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
71531335 TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
65 TTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
71531393 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71531418 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
118 1 0.01
119 72 0.56
120 51 0.40
121 5 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (122 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:71531424 original size:80 final size:79
Alignment explanation
Indices: 71531154--71531450 Score: 345
Period size: 80 Copynumber: 3.7 Consensus size: 79
71531144 CGAATGATGT
* * * * * **
71531154 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* *
71531217 TGTGCGAGATACTAATT
64 TGTGCGAGTTACTAA-A
71531234 CCGGGCTAAGT-CCGAAGGCA-TTGATGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGA-GCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
71531297 GTGCGAGTTACTAAA
65 GTGCGAGTTACTAAA
* *
71531312 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
71531377 GTGCGAGTTACTATAA
65 GTGCGAGTTACTA-AA
* * * * *
71531393 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
71531451 TACGTGATTT
Statistics
Matches: 191, Mismatches: 18, Indels: 17
0.85 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 78 0.41
80 107 0.56
81 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:71531424 original size:120 final size:118
Alignment explanation
Indices: 71531206--71531450 Score: 334
Period size: 120 Copynumber: 2.1 Consensus size: 118
71531196 GGACTAAGAT
*
71531206 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGTCCGAAGGCATTGATGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCGAAGGCATTGATGCGAGTTACTAA
* ** *
71531271 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* *
71531325 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG-TGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGT-CCGAAGGCA-TTGATGCGAGTTACT
* * *
71531389 ATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
64 A-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
71531444 CCGAAGG
1 CCGAAGG
71531451 TACGTGATTT
Statistics
Matches: 112, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
119 52 0.46
120 55 0.49
121 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCGAAGGCATTGATGCGAGTTACTAA
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:71531431 original size:40 final size:40
Alignment explanation
Indices: 71531153--71531417 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
71531143 TCGAATGATG
* * * * *
71531153 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
71531193 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71531233 TCCGGGCTAAGT-CCGAAGGCA-TTGATGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAA
71531272 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
71531312 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
71531352 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
71531393 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
71531418 AACGAGTAGC
Statistics
Matches: 206, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
38 3 0.01
39 33 0.16
40 157 0.76
41 13 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71537127 original size:25 final size:25
Alignment explanation
Indices: 71537069--71537134 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
71537059 CAGCTCACAT
* *
71537069 GAGCTTACCGTTATTCAGCTTGGAG
1 GAGCTTACTGTTATCCAGCTTGGAG
71537094 GAGCTTACTGTTATCCAGCTTGGAG
1 GAGCTTACTGTTATCCAGCTTGGAG
71537119 GAGCTTACTGATTATC
1 GAGCTTACTG-TTATC
71537135 GCTAATATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 33 0.87
26 5 0.13
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (25 bp):
GAGCTTACTGTTATCCAGCTTGGAG
Found at i:71537591 original size:17 final size:17
Alignment explanation
Indices: 71537569--71537610 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
71537559 TACAAGTCAG
*
71537569 ATATAATATACTTTTAA
1 ATATAATATACATTTAA
*
71537586 ATATAA-ACACATTTAA
1 ATATAATATACATTTAA
71537602 ATA-AATATA
1 ATATAATATA
71537611 TATAATAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 2 0.10
16 13 0.62
17 6 0.29
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATAATATACATTTAA
Found at i:71543912 original size:27 final size:26
Alignment explanation
Indices: 71543877--71543988 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
71543867 AGCATGGCTG
* *
71543877 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAAAGCCA
71543903 CCAGATACAGATAATCGTGGCAGAA-CCA
1 CCAGA-ACAGATAAT-GTGGCA-AAGCCA
* *
71543931 CCAGAACAGTTATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAAAGCCA
* *
71543958 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAAAGCCA
71543985 CCAG
1 CCAG
71543989 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
26 7 0.10
27 50 0.68
28 14 0.19
29 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAAAGCCA
Found at i:71543968 original size:54 final size:54
Alignment explanation
Indices: 71543877--71543988 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
71543867 AGCATGGCTG
*
71543877 CCAGAACAGATAATGTGACAAAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCA
* * * * * *
71543931 CCAGAACAGTTATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCA
71543985 CCAG
1 CCAG
71543989 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAACCA
Found at i:71551760 original size:27 final size:26
Alignment explanation
Indices: 71551724--71551836 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
71551714 CAGCATGACT
*
71551724 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGACAGAGCC
*
71551750 ACCAGATACAGATAATCGTGACAGAACC
1 ACCAGA-ACAGATAAT-GTGACAGAGCC
*
71551778 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCC
* * *
71551805 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGACAGAGCC
71551832 ACCAG
1 ACCAG
71551837 GACGCTTCAT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 7 0.09
27 53 0.69
28 17 0.22
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGACAGAGCC
Found at i:71553299 original size:24 final size:24
Alignment explanation
Indices: 71553267--71553316 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
71553257 ACACAGTTCA
*
71553267 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAACTCCTAAATCCTCT
* *
71553291 CCCTTATCAACTCCTAAATCTTCT
1 CCCTAATCAACTCCTAAATCCTCT
71553315 CC
1 CC
71553317 AGACAGACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.42, G:0.02, T:0.32
Consensus pattern (24 bp):
CCCTAATCAACTCCTAAATCCTCT
Found at i:71556042 original size:50 final size:50
Alignment explanation
Indices: 71555921--71556515 Score: 479
Period size: 50 Copynumber: 11.9 Consensus size: 50
71555911 ATTGTGAGAA
* * * *** *
71555921 CACATGTGTAGTACTATGTACAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* * *
71555973 CACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * ** * * * *
71556023 CGCATGTCTAGTACGAAGTGCAGGCTACTATGCATACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * *
71556074 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
71556124 CACATGTGTAG---TAAGTGTAGGCTACTACATGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * * *
71556171 CGCATGTCTAGTACGAAGTGCAGGCTACTATGCGTACCCGATAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT-AGGT
* * * *
71556222 CACGTGTGTAGTGCTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * *
71556272 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * *
71556322 CGA-ATGTGTAGTACTAAATGCAAGCTATTACGCGTACCCA-ACAACTTCA-AT
1 C-ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGA-TAGTT-AGGT
* * ** *
71556373 CACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
71556423 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTT-GGC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * *
71556472 CGCATGTGTAGCACTAAGTGAAGGCTACTATGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
71556516 CTTCGGTTAC
Statistics
Matches: 424, Mismatches: 103, Indels: 35
0.75 0.18 0.06
Matches are distributed among these distances:
47 40 0.09
49 41 0.10
50 197 0.46
51 109 0.26
52 37 0.09
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:71556101 original size:101 final size:100
Alignment explanation
Indices: 71555967--71556454 Score: 425
Period size: 101 Copynumber: 4.9 Consensus size: 100
71555957 TAAGATGGTT
* * * * *
71555967 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCT
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGT
* * *
71556032 AGTACGAAGTGCAGGCTACTATGCATACCCGACAAC
66 AGTACTAAGTGCAGGCTACTACGCATACCAGA-AAC
* * *
71556068 TTCA-ATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACATGTG
1 TT-AGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTG
* *** * *
71556132 TAG---TAAGTGTAGGCTACTACATGTACCAGATAG
65 TAGTACTAAGTGCAGGCTACTACGCATACCAGAAAC
* * * * * * * * * * *
71556165 TTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCGTACCCGATAACTTCA-ATCACGTGT
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT-AGGTCACATGT
* ** * ***
71556229 GTAGTGCTAAGTGCAGGCTACTACGTGTATCAGATGG
64 GTAGTACTAAGTGCAGGCTACTACGCATACCAGAAAC
* * *
71556266 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATAGTTAGGTCGA-ATGTG
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTC-ACATGTG
* * * *
71556330 TAGTACTAAATGCAAGCTATTACGCGTACCCA-ACAAC
65 TAGTACTAAGTGCAGGCTACTACGCATA-CCAGA-AAC
* ** * *
71556367 TTCA-ATCACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTG
1 TT-AGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTG
71556431 TAGTACTAAGTGCAGGCTACTACG
65 TAGTACTAAGTGCAGGCTACTACG
71556455 TGTATCAGAT
Statistics
Matches: 307, Mismatches: 67, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
96 1 0.00
97 37 0.12
98 33 0.11
99 2 0.01
100 34 0.11
101 198 0.64
102 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (100 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGT
AGTACTAAGTGCAGGCTACTACGCATACCAGAAAC
Found at i:71556381 original size:151 final size:151
Alignment explanation
Indices: 71555925--71556509 Score: 845
Period size: 151 Copynumber: 3.9 Consensus size: 151
71555915 TGAGAACACA
* * * * *
71555925 TGTGTAGTACTATGTACAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTACTAA
71555990 GTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATG
64 GTGTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATG
*
71556055 CATACCCGACAACTTCAATCACG
129 CGTACCCGACAACTTCAATCACG
* *
71556078 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAG---TAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
71556140 GTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCG
66 GTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCG
*
71556205 TACCCGATAACTTCAATCACG
131 TACCCGACAACTTCAATCACG
*
71556226 TGTGTAGTGCTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * * * * * * *
71556291 GTAGGCTACTACGTGTACCAAATAGTTAGGTCGAATGTGTAGTACTAAATGCAAGCTATTACGCG
66 GTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCG
*
71556356 TACCCAACAACTTCAATCACG
131 TACCCGACAACTTCAATCACG
* *
71556377 TGTGTAGTAGTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * * * * * * *
71556442 GCAGGCTACTACGTGTATCAGATTGTT-GGCCGCATGTGTAGCACTAAGTGAAGGCTACTATGCG
66 GTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCG
71556506 TACC
131 TACC
71556510 AGATAGCTTC
Statistics
Matches: 391, Mismatches: 38, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
148 143 0.37
150 33 0.08
151 181 0.46
153 34 0.09
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GTAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTCTAGTACGAAGTGCAGGCTACTATGCG
TACCCGACAACTTCAATCACG
Found at i:71556734 original size:16 final size:15
Alignment explanation
Indices: 71556713--71556742 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
71556703 GAATGGAGTA
71556713 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
71556729 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
71556743 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:71560212 original size:42 final size:41
Alignment explanation
Indices: 71560142--71560261 Score: 102
Period size: 43 Copynumber: 2.8 Consensus size: 41
71560132 GTAACTCAAT
* * *
71560142 ATCGATGCCTCTGTCCCAGATAGAGTCTTACACGAAAT-T-A
1 ATCGAGGCCTGTGTCCCAGACAG-GTCTTACACGAAATCTCA
* * *
71560182 GATACGATGTC-GATGTCCCAGACATGGTCTTATACGTAAATCTCA
1 -AT-CGAGGCCTG-TGTCCCAGACA-GGTCTTACACG-AAATCTCA
71560227 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 ATCGAGGCCTGTGTCCCAGACA-GGTCTTACACGA
71560262 TGTCTCAGAC
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
41 2 0.03
42 26 0.41
43 31 0.48
44 4 0.06
45 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
ATCGAGGCCTGTGTCCCAGACAGGTCTTACACGAAATCTCA
Found at i:71571151 original size:29 final size:29
Alignment explanation
Indices: 71571067--71571156 Score: 121
Period size: 29 Copynumber: 3.2 Consensus size: 29
71571057 TACATACATG
*
71571067 CATATGGCCCACT-GGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
* * *
71571094 TATATGGCCCATTAGGCCCAAAACACATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
*
71571123 CGTATGGCCCATTAGGCCCAAATCTCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
71571152 CATAT
1 CATAT
71571157 TCATGATTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 11 0.21
28 5 0.10
29 36 0.69
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCTCATT
Found at i:71575990 original size:50 final size:51
Alignment explanation
Indices: 71575874--71576009 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 51
71575864 ATTGTGAGAA
* * * ** *
71575874 CACATGTGCAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGATAG-TTTAGGT
*
71575926 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGATAGTTTAGGT
* *
71575976 CGCATGTGTAGTACTAAGTGCAAGCTACTACGTG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG
71576010 CATCATGTGT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
50 38 0.51
52 37 0.49
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGATAGTTTAGGT
Found at i:71576324 original size:16 final size:15
Alignment explanation
Indices: 71576303--71576332 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
71576293 GAATGAAGTA
71576303 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
71576319 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
71576333 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:71578006 original size:25 final size:24
Alignment explanation
Indices: 71577972--71578033 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
71577962 CTCACATGAG
* * *
71577972 CTTACCGTTATTCAGCTCGAAAGAT
1 CTTATCGTTATCCAGCTCG-AAGAA
*
71577997 CTTATCGTTATCCAGCTCGGAGAA
1 CTTATCGTTATCCAGCTCGAAGAA
71578021 CTTATCGATTATC
1 CTTATCG-TTATC
71578034 ACTCGTATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 10 0.31
25 22 0.69
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (24 bp):
CTTATCGTTATCCAGCTCGAAGAA
Found at i:71580588 original size:28 final size:29
Alignment explanation
Indices: 71580533--71580589 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
71580523 TGGGCCGTTA
*
71580533 TGGGCCTCATTGGGCCGAGATGGGTCGTG
1 TGGGCCTCATTGGGCCCAGATGGGTCGTG
*
71580562 TGGGCCTGA-TGGGCCCA-ATGGGCTCGTG
1 TGGGCCTCATTGGGCCCAGATGGG-TCGTG
71580590 GGCCCCACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 12 0.48
29 8 0.32
ACGTcount: A:0.11, C:0.23, G:0.44, T:0.23
Consensus pattern (29 bp):
TGGGCCTCATTGGGCCCAGATGGGTCGTG
Found at i:71581035 original size:28 final size:27
Alignment explanation
Indices: 71581003--71581068 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
71580993 TTGGAGGAAG
*
71581003 TACTG-TATTAGTGGTTTTGCCACGTAAT
1 TACTGCTATTAGTGGCTTTGCCACGT--T
* *
71581031 TACTGCT-CTGGTGGCTTTGCCACGTT
1 TACTGCTATTAGTGGCTTTGCCACGTT
*
71581057 TACTGTTATTAG
1 TACTGCTATTAG
71581069 CAGCTTTGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 7 0.23
27 2 0.07
28 20 0.67
29 1 0.03
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (27 bp):
TACTGCTATTAGTGGCTTTGCCACGTT
Found at i:71583175 original size:55 final size:55
Alignment explanation
Indices: 71583107--71583241 Score: 204
Period size: 55 Copynumber: 2.5 Consensus size: 55
71583097 TGAGCCCTTA
*
71583107 GCCCGTGTG-CAACACTGACTTTA-AAGCACGGCCATGACACATGCCCGTGTGGCCT
1 GCCCGTG-GACAACACTGACTTTAGAA-CACGGCCATGACACACGCCCGTGTGGCCT
71583162 GCCCGTGGACAACACTGACTTTAGAACACGGCCATGACACACGCCCGTGTGGCCT
1 GCCCGTGGACAACACTGACTTTAGAACACGGCCATGACACACGCCCGTGTGGCCT
*
71583217 GCCTGTGGACAACACTTG-CTTTAGA
1 GCCCGTGGACAACAC-TGACTTTAGA
71583242 TTTTAAGTGC
Statistics
Matches: 75, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
54 1 0.01
55 70 0.93
56 4 0.05
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.20
Consensus pattern (55 bp):
GCCCGTGGACAACACTGACTTTAGAACACGGCCATGACACACGCCCGTGTGGCCT
Found at i:71584975 original size:39 final size:40
Alignment explanation
Indices: 71584840--71585063 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
71584830 TTGAATGCTG
* * * * *
71584840 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
71584880 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
71584919 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAG-TACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
71584959 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71584999 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
71585038 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
71585064 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 67 0.43
40 82 0.52
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71584980 original size:79 final size:78
Alignment explanation
Indices: 71584840--71585063 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
71584830 TTGAATGCTG
* * * * *
71584840 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGC-GAGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
71584904 TGTGCGAGATA-CAAA
63 TGTGCGAGATATCAAA
* * *
71584919 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
71584984 GTGCGAGTTATTAAA
64 GTGCGAGATATCAAA
* * * *
71584999 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAG-TACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
71585064 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 10 0.08
79 81 0.66
80 24 0.20
81 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATATCAAA
Found at i:71585081 original size:79 final size:79
Alignment explanation
Indices: 71584920--71585096 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
71584910 AGATACAAAT
* * * *
71584920 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
71584985 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
71584999 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
71585063 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
71585078 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
71585097 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 25 0.30
79 58 0.70
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:71592554 original size:40 final size:40
Alignment explanation
Indices: 71592407--71592662 Score: 238
Period size: 40 Copynumber: 6.5 Consensus size: 40
71592397 TTGAATGCTG
* * * * *
71592407 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGGT-ACTAAA
** * *
71592447 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGGTACTAAA
*
71592486 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGGTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGGTACTAAA
* * *
71592525 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGGTACTAAA
* *
71592565 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGGTACTAAA
* * * ** *
71592604 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGG-AGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGGTA-CTAAA
*
71592644 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
71592663 TACGTGATTT
Statistics
Matches: 178, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
38 21 0.12
39 70 0.39
40 77 0.43
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGGTACTAAA
Found at i:71592591 original size:79 final size:78
Alignment explanation
Indices: 71592407--71592627 Score: 248
Period size: 79 Copynumber: 2.8 Consensus size: 78
71592397 TTGAATGCTG
* * * * * *
71592407 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
* *
71592471 TGTGCGAGATACAAT
64 CGTGCGAGATACAAA
*
71592486 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTC
* *
71592550 GTGCGAGTTATTAAA
65 GTGCGAGATA-CAAA
* * * * *
71592565 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATT
71592628 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.01
78 41 0.34
79 71 0.59
80 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACAAA
Found at i:71592647 original size:79 final size:80
Alignment explanation
Indices: 71592486--71592662 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
71592476 GAGATACAAT
* * *
71592486 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
71592550 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
71592565 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
71592629 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
71592644 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
71592663 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 16 0.19
79 59 0.71
80 8 0.10
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:71600882 original size:39 final size:40
Alignment explanation
Indices: 71600837--71601003 Score: 186
Period size: 40 Copynumber: 4.3 Consensus size: 40
71600827 GCTCCTCGTT
* *
71600837 CAAATGCCTTCGGAGACATAGCCCGG-TTTAGTAACTCACA
1 CAAATGCCTTCGG-GACATAACCCGGATTTAGTAACTCGCA
*
71600877 C-AATGCCTTC-GGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
71600915 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
71600955 CAAAGGCCTTCGGG-CTTAA-CCGGAATT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
71600992 CAAAT-CCTTCGG
1 CAAATGCCTTCGG
71601004 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
36 7 0.06
37 25 0.22
38 21 0.18
39 23 0.20
40 38 0.33
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:71600942 original size:40 final size:39
Alignment explanation
Indices: 71600839--71601056 Score: 180
Period size: 40 Copynumber: 5.6 Consensus size: 39
71600829 TCCTCGTTCA
* * *
71600839 AATGCCTTCGGAGACATAGCCCGG-TTTAGTAACTCACAC
1 AATGCCTTCGG-GACTTAACCCGGATTTAGTAACTCGCAC
* *
71600878 AATGCCTTC-GGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
71600916 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
71600956 AAAGGCCTTCGGG-CTTAA-CCGGAATT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
** * * * *
71600993 AAAT-CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
71601033 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
71601057 CAGCATTCAA
Statistics
Matches: 150, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
35 2 0.01
36 5 0.03
37 29 0.19
38 27 0.18
39 27 0.18
40 57 0.38
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:71600978 original size:78 final size:77
Alignment explanation
Indices: 71600837--71601004 Score: 189
Period size: 78 Copynumber: 2.2 Consensus size: 77
71600827 GCTCCTCGTT
* * *
71600837 CAAATGCCTTCGGAGACATAGCCCGGTTTAGTAACTCACACAATGCCTTCGGACATAACCCGGAT
1 CAAATGCCTTCGGAGACATAACCCGGTTTAGTAACTCACACAAGGCCTTCGGACATAACCCGGAA
71600902 TTAATAACTCGCA
66 TT-ATAACTCGCA
* * * * * *
71600915 CGAATGCCTTCGG-GACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGCTTAA-CCGG
1 CAAATGCCTTCGGAGACATAACCCGG-TTTAGTAACTCACAC-AAGGCCTTCGGACATAACCCGG
* *
71600978 AATTGTATCTCGCA
64 AATTATAACTCGCA
71600992 CAAAT-CCTTCGGA
1 CAAATGCCTTCGGA
71601005 TCTTAGTCCG
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
76 7 0.09
77 22 0.29
78 32 0.43
79 14 0.19
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (77 bp):
CAAATGCCTTCGGAGACATAACCCGGTTTAGTAACTCACACAAGGCCTTCGGACATAACCCGGAA
TTATAACTCGCA
Found at i:71608759 original size:40 final size:39
Alignment explanation
Indices: 71608625--71608845 Score: 230
Period size: 39 Copynumber: 5.6 Consensus size: 39
71608615 TCCTCGTTCA
* * * * *
71608625 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
71608664 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
71608703 GATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
71608742 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
71608782 AAAGGCCTTC-GGATCTT-ATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
71608822 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
71608846 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 95 0.61
40 60 0.39
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:71608805 original size:79 final size:78
Alignment explanation
Indices: 71608628--71608845 Score: 224
Period size: 79 Copynumber: 2.8 Consensus size: 78
71608618 TCGTTCAAAT
* * * * * *
71608628 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATTTAA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAA
* *
71608693 CAACTCGCACGAT
66 CAACTCGCACAAG
71608706 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTA
** *
71608771 GTATCTCGCACAAAG
65 ACAACTCGCAC-AAG
* * * * * * *
71608786 GCCTTC-GGATCTT-ATCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
71608846 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
78 31 0.26
79 72 0.61
80 15 0.13
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAA
CAACTCGCACAAG
Found at i:71616680 original size:40 final size:40
Alignment explanation
Indices: 71616504--71616726 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
71616494 TCCTCGTTCA
* * * * *
71616504 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
71616543 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
71616583 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
71616623 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
71616663 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
71616703 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
71616727 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:71625232 original size:42 final size:41
Alignment explanation
Indices: 71625126--71625267 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 41
71625116 CGATATGTGT
* *
71625126 TTTCGTGTAAGAC-CTCGTCTGGGACGTTGGCATCA-ACTTATGA
1 TTTCATGTAAGACTCT-GTCTGGGAC-ATGGCATCATA-TT-TGA
* * *
71625169 TTTACGTGTAAGACTATGTCTGGGACATCAGCATCATATTTGA
1 TTT-CATGTAAGACTCTGTCTGGGACAT-GGCATCATATTTGA
*
71625212 TTTCATGTAAGACTCTGTCTGGGACAGTGGCATCAATATTTAA
1 TTTCATGTAAGACTCTGTCTGGGACA-TGGCATC-ATATTTGA
*
71625255 TTACATGTAAGAC
1 TTTCATGTAAGAC
71625268 CACGTCTAGG
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
42 26 0.31
43 30 0.35
44 27 0.32
45 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTCATGTAAGACTCTGTCTGGGACATGGCATCATATTTGA
Found at i:71625286 original size:43 final size:43
Alignment explanation
Indices: 71625131--71625287 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
71625121 TGTGTTTTCG
* * * *
71625131 TGTAAGACCTCGTCTGGGACGTTGGCATCAACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCAA-TAT-TTAATTACA
* * * ** * *
71625175 TGTAAGACTATGTCTGGGACATCAGCATC-ATATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAATATTTAATTACA
*
71625217 TGTAAGACTC-TGTCTGGGACAG-TGGCATCAATATTTAATTACA
1 TGTAAGAC-CACGTCTGGGAC-GTTGGCATCAATATTTAATTACA
*
71625260 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
71625288 TGTACAAGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
42 30 0.34
43 35 0.40
44 23 0.26
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATATTTAATTACA
Found at i:71631983 original size:20 final size:20
Alignment explanation
Indices: 71631932--71631984 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
71631922 AATGAAAAAG
* *
71631932 AAATGAGTTGAAACGAGCAA
1 AAATGAGCTCAAACGAGCAA
* *
71631952 AAATCAAGCTCAAACGAGCTA
1 AAAT-GAGCTCAAACGAGCAA
71631973 AAATGAGCTCAA
1 AAATGAGCTCAA
71631985 GTGAGTTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (20 bp):
AAATGAGCTCAAACGAGCAA
Found at i:71636446 original size:42 final size:42
Alignment explanation
Indices: 71636400--71636479 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
71636390 TTATTCGAGC
* *
71636400 CTCATATCGGTGCCATATCTCAGATATGGTCTTACATGAAGT
1 CTCATATCGATGCCATATCTCAGATATGATCTTACATGAAGT
* * *
71636442 CTCATATTGATGTCATATCTTAGATATGATCTTACATG
1 CTCATATCGATGCCATATCTCAGATATGATCTTACATG
71636480 TAATCTTAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (42 bp):
CTCATATCGATGCCATATCTCAGATATGATCTTACATGAAGT
Found at i:71643011 original size:19 final size:19
Alignment explanation
Indices: 71642987--71643025 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
71642977 AGGTCCGAGT
71642987 TCATAATGGATGCGATTCA
1 TCATAATGGATGCGATTCA
71643006 TCATAATGGATGCGATTCA
1 TCATAATGGATGCGATTCA
71643025 T
1 T
71643026 GTAACATCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (19 bp):
TCATAATGGATGCGATTCA
Found at i:71644281 original size:13 final size:13
Alignment explanation
Indices: 71644263--71644310 Score: 96
Period size: 13 Copynumber: 3.7 Consensus size: 13
71644253 AGCACATAGG
71644263 CGTGTGCCTTGGC
1 CGTGTGCCTTGGC
71644276 CGTGTGCCTTGGC
1 CGTGTGCCTTGGC
71644289 CGTGTGCCTTGGC
1 CGTGTGCCTTGGC
71644302 CGTGTGCCT
1 CGTGTGCCT
71644311 CTAAATGAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.00, C:0.31, G:0.38, T:0.31
Consensus pattern (13 bp):
CGTGTGCCTTGGC
Found at i:71649969 original size:208 final size:208
Alignment explanation
Indices: 71649611--71650581 Score: 968
Period size: 208 Copynumber: 4.6 Consensus size: 208
71649601 AAATCGCAAA
* * * ** * *
71649611 CCTTAATAATATCAGTTGTTAACGTAATTCAGCGAGCTGTTAGAAGTT-ACGATCTTAAATCAA-
1 CCTTAATAATATCAGCTGTGAACATAGGTCAGTGAGCTGTTAGGAGTTGA-GATCTTAAATCAAC
** *
71649674 AGAACTCAAATAATTTGAAGTTGCGATCTTAAATCAACTAGCCTTAATAATACCAACTATGAACG
65 A-AACTCAAATAATCGGAAGTTGCGATCTTAAATCAACTAGCCTTAATAATACCAACTATGAACA
* * *
71649739 TAGGTCAGCAAGTTGTTAGGAGTTGTGATATTAAATTAGCAAACTCAAATAATTGGAGGCTACGA
129 TAGGTCAGTAAGTTGTTAGGAGTTGTGATATTAAATCAGCAAACTCAAATAATTGAAGGCTACGA
71649804 TATTAAATCAACTAG
194 TATTAAATCAACTAG
*
71649819 CCTTAATAATATCAGCTGTGAACATAGGTCAGTGAGCTGTTAAGAGTTGAGATC-TAATATCAAC
1 CCTTAATAATATCAGCTGTGAACATAGGTCAGTGAGCTGTTAGGAGTTGAGATCTTAA-ATCAAC
* * **
71649883 GAACTCAAATAATTGGAAGTTGCGATCTTAAATCAACTAGCCTTAATAATACCAACTATGAATGT
65 AAACTCAAATAATCGGAAGTTGCGATCTTAAATCAACTAGCCTTAATAATACCAACTATGAACAT
* * * **
71649948 AGGTCAGTGAGTTGTTAGGAGTTGTGATATTAAATTAGCAAACTCAAATAATTGGAGGCTGTGAT
130 AGGTCAGTAAGTTGTTAGGAGTTGTGATATTAAATCAGCAAACTCAAATAATTGAAGGCTACGAT
*
71650013 ATTAAATTAACTAG
195 ATTAAATCAACTAG
* *
71650027 CCTTAATAATATCAGCTGTGAACATAGGACAGTGAGCTGTTAGGAGTTGCGATCTTAAATCAACA
1 CCTTAATAATATCAGCTGTGAACATAGGTCAGTGAGCTGTTAGGAGTTGAGATCTTAAATCAACA
* * * * *
71650092 AACTCAAATAATAGGATGTTGTGATTTTAAATCAACTACCCTTAATAATATCAGCTGTGATAATA
66 AACTCAAATAATCGGAAGTTGCGATCTTAAATCAACTAGCCTTAATAATA-C--C----------
* * * * *
71650157 ATATCAGCTGTGAACATAGGTCA-TCAAGCTGCTCAGGAGTTGTGATTTTAAATCAGCTAACTCA
118 --A--A-CTATGAACATAGGTCAGT-AAGTTG-TTAGGAGTTGTGATATTAAATCAGCAAACTCA
* * * * * *
71650221 AATAATCGAAAGTTGCGATCTTAAATCACCTAG
176 AATAATTGAAGGCTACGATATTAAATCAACTAG
* ** *
71650254 CCTTAATAATATCAACTGTGAACATAGGTCA-TCGAGCTGTTTAGGAGTTGTTATCTTAAATCAG
1 CCTTAATAATATCAGCTGTGAACATAGGTCAGT-GAGCTG-TTAGGAGTTGAGATCTTAAATCAA
* * * * ** *
71650318 CTAACTCAAATAATCGGAGGCTGCGATCTTAAATCAACTAGCCTTAATAATATCAGTTGTGAACA
64 CAAACTCAAATAATCGGAAGTTGCGATCTTAAATCAACTAGCCTTAATAATACCAACTATGAACA
* * * * * * * * *
71650383 TAGGTTATTGAGCTAT-TTAGGAGTTGCGATCTTAAATCAACGAACTCGAATAATTGAAGGCTAT
129 TAGGTCAGTAAG-T-TGTTAGGAGTTGTGATATTAAATCAGCAAACTCAAATAATTGAAGGCTAC
* *
71650447 GATCTTAAATCAGCTAG
192 GATATTAAATCAACTAG
* ** * * *
71650464 CCTTAATAATATTAATTATGAACGTAGGTCAATGAGCTGTTAGGAGTT-ACGATCTTAAAT-AAG
1 CCTTAATAATATCAGCTGTGAACATAGGTCAGTGAGCTGTTAGGAGTTGA-GATCTTAAATCAA-
* * *
71650527 CAAACTCAAATAATCAGAGGTAGCGATCTTAAATCAACTAGCCTTAATAATACCA
64 CAAACTCAAATAATCGGAAGTTGCGATCTTAAATCAACTAGCCTTAATAATACCA
71650582 GTTGTTAACA
Statistics
Matches: 647, Mismatches: 84, Indels: 63
0.81 0.11 0.08
Matches are distributed among these distances:
207 3 0.00
208 288 0.45
209 73 0.11
210 102 0.16
211 3 0.00
212 1 0.00
213 1 0.00
223 1 0.00
225 3 0.00
226 18 0.03
227 88 0.14
228 66 0.10
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (208 bp):
CCTTAATAATATCAGCTGTGAACATAGGTCAGTGAGCTGTTAGGAGTTGAGATCTTAAATCAACA
AACTCAAATAATCGGAAGTTGCGATCTTAAATCAACTAGCCTTAATAATACCAACTATGAACATA
GGTCAGTAAGTTGTTAGGAGTTGTGATATTAAATCAGCAAACTCAAATAATTGAAGGCTACGATA
TTAAATCAACTAG
Found at i:71650142 original size:104 final size:104
Alignment explanation
Indices: 71649611--71650151 Score: 627
Period size: 104 Copynumber: 5.2 Consensus size: 104
71649601 AAATCGCAAA
* * ** * * *
71649611 CCTTAATAATATCAGTTGTTAACGTAATTCAGCGAGCTGTTAGAAGTTACGATCTTAAATCAA-A
1 CCTTAATAATATCAGCTGTGAACGTAGGTCAGTGAGCTGTTAGGAGTTGCGATCTTAAATCAACA
* *
71649675 GAACTCAAATAATTTGAAGTTGCGATCTTAAATCAACTAG
66 -AACTCAAATAATTGGAAGTTGCGATATTAAATCAACTAG
* * * ** * * * * *
71649715 CCTTAATAATACCAACTATGAACGTAGGTCAGCAAGTTGTTAGGAGTTGTGATATTAAATTAGCA
1 CCTTAATAATATCAGCTGTGAACGTAGGTCAGTGAGCTGTTAGGAGTTGCGATCTTAAATCAACA
* * *
71649780 AACTCAAATAATTGGAGGCTACGATATTAAATCAACTAG
66 AACTCAAATAATTGGAAGTTGCGATATTAAATCAACTAG
* * *
71649819 CCTTAATAATATCAGCTGTGAACATAGGTCAGTGAGCTGTTAAGAGTTGAGATC-TAATATCAAC
1 CCTTAATAATATCAGCTGTGAACGTAGGTCAGTGAGCTGTTAGGAGTTGCGATCTTAA-ATCAAC
* *
71649883 GAACTCAAATAATTGGAAGTTGCGATCTTAAATCAACTAG
65 AAACTCAAATAATTGGAAGTTGCGATATTAAATCAACTAG
* * * * * * * * *
71649923 CCTTAATAATACCAACTATGAATGTAGGTCAGTGAGTTGTTAGGAGTTGTGATATTAAATTAGCA
1 CCTTAATAATATCAGCTGTGAACGTAGGTCAGTGAGCTGTTAGGAGTTGCGATCTTAAATCAACA
* * * *
71649988 AACTCAAATAATTGGAGGCTGTGATATTAAATTAACTAG
66 AACTCAAATAATTGGAAGTTGCGATATTAAATCAACTAG
* *
71650027 CCTTAATAATATCAGCTGTGAACATAGGACAGTGAGCTGTTAGGAGTTGCGATCTTAAATCAACA
1 CCTTAATAATATCAGCTGTGAACGTAGGTCAGTGAGCTGTTAGGAGTTGCGATCTTAAATCAACA
* * * * *
71650092 AACTCAAATAATAGGATGTTGTGATTTTAAATCAACTAC
66 AACTCAAATAATTGGAAGTTGCGATATTAAATCAACTAG
71650131 CCTTAATAATATCAGCTGTGA
1 CCTTAATAATATCAGCTGTGA
71650152 TAATAATATC
Statistics
Matches: 363, Mismatches: 71, Indels: 6
0.82 0.16 0.01
Matches are distributed among these distances:
103 3 0.01
104 356 0.98
105 4 0.01
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (104 bp):
CCTTAATAATATCAGCTGTGAACGTAGGTCAGTGAGCTGTTAGGAGTTGCGATCTTAAATCAACA
AACTCAAATAATTGGAAGTTGCGATATTAAATCAACTAG
Found at i:71650157 original size:18 final size:18
Alignment explanation
Indices: 71650134--71650169 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
71650124 CAACTACCCT
71650134 TAATAATATCAGCTGTGA
1 TAATAATATCAGCTGTGA
71650152 TAATAATATCAGCTGTGA
1 TAATAATATCAGCTGTGA
71650170 ACATAGGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (18 bp):
TAATAATATCAGCTGTGA
Found at i:71650248 original size:123 final size:122
Alignment explanation
Indices: 71650030--71650274 Score: 330
Period size: 123 Copynumber: 2.0 Consensus size: 122
71650020 TAACTAGCCT
* *
71650030 TAATAATATCAGCTGTGAACATAGGACAGTGAGCTGTTAGGAGTTGCGATCTTAAATCAACAAAC
1 TAATAATATCAGCTGTGAACATAGGACAGTAAGCTGTCAGGAGTTGCGATCTTAAATCAACAAAC
* * * * *
71650095 TCAAATAATAGGATGTTGTGATTTTAAATCAACTACCCTTAATAATATCAGCTGTGA
66 TCAAATAATAGAAAGTTGCGATCTTAAATCAACTACCCTTAATAATATCAACTGTGA
* * * * *
71650152 TAATAATATCAGCTGTGAACATAGGTCA-TCAAGCTGCTCAGGAGTTGTGATTTTAAATCAGCTA
1 TAATAATATCAGCTGTGAACATAGGACAGT-AAGCTG-TCAGGAGTTGCGATCTTAAATCAACAA
* * *
71650216 ACTCAAATAATCGAAAGTTGCGATCTTAAATCACCTAGCCTTAATAATATCAACTGTGA
64 ACTCAAATAATAGAAAGTTGCGATCTTAAATCAACTACCCTTAATAATATCAACTGTGA
71650275 ACATAGGTCA
Statistics
Matches: 106, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
121 1 0.01
122 32 0.30
123 73 0.69
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (122 bp):
TAATAATATCAGCTGTGAACATAGGACAGTAAGCTGTCAGGAGTTGCGATCTTAAATCAACAAAC
TCAAATAATAGAAAGTTGCGATCTTAAATCAACTACCCTTAATAATATCAACTGTGA
Found at i:71650343 original size:105 final size:105
Alignment explanation
Indices: 71650152--71650636 Score: 609
Period size: 105 Copynumber: 4.6 Consensus size: 105
71650142 TCAGCTGTGA
* * * * * *
71650152 TAATAATATCAGCTGTGAACATAGGTCATCAAGCTGCTCAGGAGTTGTGATTTTAAATCAGCTAA
1 TAATAATATCAGTTGTGAACATAGGTCATCGAGCTGTTTAGGAGTTGCGATCTTAAATCAGCTAA
* * *
71650217 CTCAAATAATCGAAAGTTGCGATCTTAAATCACCTAGCCT
66 CTCAAATAATCGAAGGCTGCGATCTTAAATCAACTAGCCT
** **
71650257 TAATAATATCAACTGTGAACATAGGTCATCGAGCTGTTTAGGAGTTGTTATCTTAAATCAGCTAA
1 TAATAATATCAGTTGTGAACATAGGTCATCGAGCTGTTTAGGAGTTGCGATCTTAAATCAGCTAA
*
71650322 CTCAAATAATCGGAGGCTGCGATCTTAAATCAACTAGCCT
66 CTCAAATAATCGAAGGCTGCGATCTTAAATCAACTAGCCT
* * * * *
71650362 TAATAATATCAGTTGTGAACATAGGTTATTGAGCTATTTAGGAGTTGCGATCTTAAATCAACGAA
1 TAATAATATCAGTTGTGAACATAGGTCATCGAGCTGTTTAGGAGTTGCGATCTTAAATCAGCTAA
* * ** *
71650427 CTCGAATAATTGAAGGCTATGATCTTAAATCAGCTAGCCT
66 CTCAAATAATCGAAGGCTGCGATCTTAAATCAACTAGCCT
* * * * * * *
71650467 TAATAATATTAATTATGAACGTAGGTCAAT-GAGCTG-TTAGGAGTTACGATCTTAAATAAGCAA
1 TAATAATATCAGTTGTGAACATAGGTC-ATCGAGCTGTTTAGGAGTTGCGATCTTAAATCAGCTA
71650530 ACTCAAATAATC-AGAGG-TAGCGATCTTAAATCAACTAGCCT
65 ACTCAAATAATCGA-AGGCT-GCGATCTTAAATCAACTAGCCT
* * *
71650571 TAATAATACCAGTTGTTAACATAGGTCATCGAGCTGTTTAAGAGTTGCGATCTTAAATCAGCTAA
1 TAATAATATCAGTTGTGAACATAGGTCATCGAGCTGTTTAGGAGTTGCGATCTTAAATCAGCTAA
71650636 C
66 C
71650637 CTTAATAATA
Statistics
Matches: 325, Mismatches: 50, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
103 4 0.01
104 82 0.25
105 237 0.73
106 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (105 bp):
TAATAATATCAGTTGTGAACATAGGTCATCGAGCTGTTTAGGAGTTGCGATCTTAAATCAGCTAA
CTCAAATAATCGAAGGCTGCGATCTTAAATCAACTAGCCT
Found at i:71650668 original size:68 final size:68
Alignment explanation
Indices: 71650549--71650701 Score: 186
Period size: 68 Copynumber: 2.3 Consensus size: 68
71650539 ATCAGAGGTA
* ** * * * * *
71650549 GCGATCTTAAATCAACTAGCCTTAATAATACCAGTTGTTAACATAGGTCATCGAGCTGTTTAAGA
1 GCGATCTTAAATCAACTAACCTTAATAATACCAACTGTGAACATAGATCATCAAGCTATGTAAGA
71650614 GTT
66 GTT
* * *
71650617 GCGATCTTAAATCAGCTAACCTTAATAATATCAACTGTGAACGTAGATCATCAAGCTATGTAAGA
1 GCGATCTTAAATCAACTAACCTTAATAATACCAACTGTGAACATAGATCATCAAGCTATGTAAGA
71650682 GTT
66 GTT
71650685 --G-TCTTAAATCAACTAAC
1 GCGATCTTAAATCAACTAAC
71650702 TCAAATAATT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
65 15 0.21
66 1 0.01
68 57 0.78
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (68 bp):
GCGATCTTAAATCAACTAACCTTAATAATACCAACTGTGAACATAGATCATCAAGCTATGTAAGA
GTT
Found at i:71656942 original size:16 final size:16
Alignment explanation
Indices: 71656923--71656955 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
71656913 TCGCTTTTTA
71656923 TTTTCTTCCTCTTTTCT
1 TTTTC-TCCTCTTTTCT
71656940 TTTTCTCCTCTTTTCT
1 TTTTCTCCTCTTTTCT
71656956 CTTGTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTCCTCTTTTCT
Found at i:71661475 original size:18 final size:19
Alignment explanation
Indices: 71661447--71661482 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
71661437 AAAATAATTT
*
71661447 TTTTCAAATTTTAAAATAA
1 TTTTCAAATTTAAAAATAA
71661466 TTTT-AAATTTAAAAATA
1 TTTTCAAATTTAAAAATA
71661483 TATAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTCAAATTTAAAAATAA
Found at i:71661488 original size:10 final size:10
Alignment explanation
Indices: 71661475--71661509 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
71661465 ATTTTAAATT
71661475 TAAAAATATA
1 TAAAAATATA
*
71661485 TAAAAAT-TC
1 TAAAAATATA
71661494 TAAAAATATA
1 TAAAAATATA
71661504 TAAAAA
1 TAAAAA
71661510 AAAGTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (10 bp):
TAAAAATATA
Found at i:71661499 original size:19 final size:18
Alignment explanation
Indices: 71661470--71661509 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
71661460 AAATAATTTT
71661470 AAATTTAAAAATATATAA
1 AAATTTAAAAATATATAA
71661488 AAATTCTAAAAATATATAA
1 AAATT-TAAAAATATATAA
71661507 AAA
1 AAA
71661510 AAAGTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATTTAAAAATATATAA
Found at i:71675254 original size:45 final size:45
Alignment explanation
Indices: 71675184--71675401 Score: 194
Period size: 45 Copynumber: 4.8 Consensus size: 45
71675174 CATTGATTTG
*
71675184 AGAAACGAGAAAGACCAT-GATTGAAAGATATTATGGCATTATACC
1 AGAAACGAGAAAGACCATAG-TTGAAAGATACTATGGCATTATACC
* * * *
71675229 CGAAATGAGAAAGACAATAGTTGAAAGATACTATGGCATTAAACC
1 AGAAACGAGAAAGACCATAGTTGAAAGATACTATGGCATTATACC
* * * * *
71675274 AG-AACGGGTAAGACCCTAGTTGAAAGATACTACGGCACTATACC
1 AGAAACGAGAAAGACCATAGTTGAAAGATACTATGGCATTATACC
* * * * **
71675318 TGAAGATGA-ATAATACCATAGTTGAAAGATACTATGGCATTAAAGG
1 AGAA-ACGAGA-AAGACCATAGTTGAAAGATACTATGGCATTATACC
* *
71675364 TG-AATGA-ATCAAGACCATAGTTGAAAGATACTATGGCA
1 AGAAACGAGA--AAGACCATAGTTGAAAGATACTATGGCA
71675402 CCACCTTGAG
Statistics
Matches: 141, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
44 40 0.28
45 68 0.48
46 33 0.23
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.22
Consensus pattern (45 bp):
AGAAACGAGAAAGACCATAGTTGAAAGATACTATGGCATTATACC
Found at i:71675356 original size:90 final size:90
Alignment explanation
Indices: 71675194--71675402 Score: 253
Period size: 90 Copynumber: 2.3 Consensus size: 90
71675184 AGAAACGAGA
* *
71675194 AAGACCAT-GATTGAAAGATATTATGGCATTATACCCGAAATGAGAAAGACAATAGTTGAAAGAT
1 AAGACCATAG-TTGAAAGATACTATGGCACTATACCCGAAATGAGAAAGACAATAGTTGAAAGAT
**
71675258 ACTATGGCATTAAACCAGAACGGGT-
65 ACTATGGCATTAAACCAGAACGAATC
* * * * *
71675283 AAGACCCTAGTTGAAAGATACTACGGCACTATACCTGAAGATGA-ATAATACCATAGTTGAAAGA
1 AAGACCATAGTTGAAAGATACTATGGCACTATACCCGAA-ATGAGA-AAGACAATAGTTGAAAGA
*** *
71675347 TACTATGGCATTAAAGGTGAATGAATC
64 TACTATGGCATTAAACCAGAACGAATC
71675374 AAGACCATAGTTGAAAGATACTATGGCAC
1 AAGACCATAGTTGAAAGATACTATGGCAC
71675403 CACCTTGAGA
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
89 33 0.33
90 41 0.41
91 27 0.27
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.23
Consensus pattern (90 bp):
AAGACCATAGTTGAAAGATACTATGGCACTATACCCGAAATGAGAAAGACAATAGTTGAAAGATA
CTATGGCATTAAACCAGAACGAATC
Found at i:71675432 original size:90 final size:89
Alignment explanation
Indices: 71675239--71675447 Score: 224
Period size: 90 Copynumber: 2.3 Consensus size: 89
71675229 CGAAATGAGA
* ** *
71675239 AAGACAATAGTTGAAAGATACTATGGCATTAAACCAGAACGGGTAAGACCCTAGTTGAAAGATAC
1 AAGACCATAGTTGAAAGATACTATGGCATTAAACCAGAACGAATAAGACCATAGTTGAAAGATAC
*
71675304 TACGGCACTATACCTGAAGATGAAT
66 TACGGCAC-ACACCTGAAGATGAAT
* *** *
71675329 AATACCATAGTTGAAAGATACTATGGCATTAAAGGTGAATGAATCAAGACCATAGTTGAAAGATA
1 AAGACCATAGTTGAAAGATACTATGGCATTAAACCAGAACGAAT-AAGACCATAGTTGAAAGATA
* **
71675394 CTATGGCAC-CACCTTG-AGATTGTGT
65 CTACGGCACACACC-TGAAGA-TGAAT
* * *
71675419 AAGACCCTGGTTGAAAGATACCATGGCAT
1 AAGACCATAGTTGAAAGATACTATGGCAT
71675448 CTTCTGAACA
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
89 6 0.06
90 66 0.67
91 27 0.27
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (89 bp):
AAGACCATAGTTGAAAGATACTATGGCATTAAACCAGAACGAATAAGACCATAGTTGAAAGATAC
TACGGCACACACCTGAAGATGAAT
Found at i:71680563 original size:29 final size:30
Alignment explanation
Indices: 71680516--71680583 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
71680506 TGGCCCAAAA
* *
71680516 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
71680546 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
71680576 GCAAATAT
1 GTAAATAT
71680584 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:71682770 original size:46 final size:46
Alignment explanation
Indices: 71682705--71682967 Score: 377
Period size: 46 Copynumber: 5.7 Consensus size: 46
71682695 GTGTGCTCTC
**
71682705 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CA
** *
71682751 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
71682797 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
71682843 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
71682889 TGATAAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
71682935 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGA
71682968 CATTATGGCA
Statistics
Matches: 201, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 2 0.01
46 199 0.99
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:71683284 original size:16 final size:17
Alignment explanation
Indices: 71683263--71683295 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71683253 ATGATGGAGC
71683263 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
71683279 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
71683296 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:71689496 original size:5 final size:5
Alignment explanation
Indices: 71689486--71689521 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
71689476 AGGATATATC
71689486 TTTTA TTTTA TTTTA TTTTA -TTTA -TTTA -TTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
71689522 TGTCAATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 12 0.40
5 18 0.60
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:71693614 original size:20 final size:21
Alignment explanation
Indices: 71693589--71693634 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
71693579 TAAAATATAA
71693589 ATTTTGGAATTTTT-ATAAA-T
1 ATTTTGGAATTTTTGA-AAATT
71693609 ATTTT-GAATTTTTGAAAATT
1 ATTTTGGAATTTTTGAAAATT
71693629 ATTTTG
1 ATTTTG
71693635 ATTTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.57
Consensus pattern (21 bp):
ATTTTGGAATTTTTGAAAATT
Found at i:71693635 original size:20 final size:19
Alignment explanation
Indices: 71693584--71693640 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
71693574 TTTTTTAAAA
*
71693584 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
71693602 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
71693621 TGA-AAATTATTTTG-ATTTT
1 T-ATAAA-TATTTTGAATTTT
71693640 T
1 T
71693641 TTTAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 7 0.20
19 20 0.57
20 8 0.23
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:71695758 original size:171 final size:171
Alignment explanation
Indices: 71695469--71695807 Score: 615
Period size: 171 Copynumber: 2.0 Consensus size: 171
71695459 ATTGCCAACA
*
71695469 GCAATGGCATCGTCGAGGGTGATGGGGCCACTGTCAAGTCACTGAGCAATATTGTGAATGAGTGC
1 GCAATGGCATCGTCGAGGGTGATGGGGCCACTGTCAAGTCACTAAGCAATATTGTGAATGAGTGC
** * * *
71695534 ATCGTGGTGTTACCGTATCCTCCAGACCTGCATAATAATTTTTGACGTTCAATGCAAAATATGGT
66 ATCACGGTGTTAACGTATCCTCCAGACCTGCATAATAATTTTCGACATTCAATGCAAAATATGGT
*
71695599 AGAAATGATGCTGAAACATAATTCAAATATTGATTGGGATG
131 AGAAATGATGCTGAAACATAATTCAAATATCGATTGGGATG
71695640 GCAATGGCATCGTCGAGGGTGATGGGGCCACTGTCAAGTCACTAAGCAATATTGTGAATGAGTGC
1 GCAATGGCATCGTCGAGGGTGATGGGGCCACTGTCAAGTCACTAAGCAATATTGTGAATGAGTGC
71695705 ATCACGGTGTTAACGTATCCTCCAGACCTGCATAATAATTTTCGACATTCAATGCAAAATATGGT
66 ATCACGGTGTTAACGTATCCTCCAGACCTGCATAATAATTTTCGACATTCAATGCAAAATATGGT
71695770 AGAAATGATGCTGAAACATAATTCAAATATCGATTGGG
131 AGAAATGATGCTGAAACATAATTCAAATATCGATTGGG
71695808 GTTTCATGGG
Statistics
Matches: 161, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
171 161 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (171 bp):
GCAATGGCATCGTCGAGGGTGATGGGGCCACTGTCAAGTCACTAAGCAATATTGTGAATGAGTGC
ATCACGGTGTTAACGTATCCTCCAGACCTGCATAATAATTTTCGACATTCAATGCAAAATATGGT
AGAAATGATGCTGAAACATAATTCAAATATCGATTGGGATG
Found at i:71698025 original size:40 final size:40
Alignment explanation
Indices: 71697970--71698312 Score: 578
Period size: 40 Copynumber: 8.6 Consensus size: 40
71697960 ATTTGAATAC
71697970 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
71698010 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
71698050 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
71698090 ATCCGGGCTAAGACTCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
71698130 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
71698170 ATACGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
71698210 ATCCGGGCTACGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
71698250 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
71698290 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
71698313 ATTGAGCTTG
Statistics
Matches: 286, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 286 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:71704686 original size:222 final size:222
Alignment explanation
Indices: 71704293--71704736 Score: 798
Period size: 222 Copynumber: 2.0 Consensus size: 222
71704283 TTTATTTAAG
*
71704293 CTAGGATGATTATTTTGATTGAATAATATTTATTTGATTCATGCTTATAATATTTGTGCCTTAGT
1 CTAGGATGATTATTTTGATTGAATAATATTTATTTGATTCATGCTTATAATATTTGTGCCTAAGT
* * *
71704358 CGATCATGTTTTCAATTAAAATCAAGTCTGTATTTTGTTCGTATGTGATTGAAATGCACCTGAAT
66 CGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCGTTCGTACGTGATTGAAATGCACCTAAAT
*
71704423 TAGCTGAGCGATCCTAACCAAACGACGGCTAATGAACACATAATTGAAATGTGCATGCTCAATTT
131 TAGCTGAGCGATCCTAACCAAACGACAGCTAATGAACACATAATTGAAATGTGCATGCTCAATTT
*
71704488 AGATCTTAACCCGATTAAATTGCAAGT
196 AGATCCTAACCCGATTAAATTGCAAGT
71704515 CTAGGATGATTATTTTGATTGAATAATATTTATTTGATTCATGCTTATAATATTTGTGCCTAAGT
1 CTAGGATGATTATTTTGATTGAATAATATTTATTTGATTCATGCTTATAATATTTGTGCCTAAGT
71704580 CGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCGTTCGTACGTGATTGAAATGCACCTAAAT
66 CGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCGTTCGTACGTGATTGAAATGCACCTAAAT
* * * *
71704645 TAGCTGAGTGATCCTAACCAGATGACAGCTAATGGACACATAATTGAAATGTGCATGCTCAATTT
131 TAGCTGAGCGATCCTAACCAAACGACAGCTAATGAACACATAATTGAAATGTGCATGCTCAATTT
71704710 AGATCCTAACCCGATTAAATTGCAAGT
196 AGATCCTAACCCGATTAAATTGCAAGT
71704737 TGCATAACAA
Statistics
Matches: 212, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
222 212 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (222 bp):
CTAGGATGATTATTTTGATTGAATAATATTTATTTGATTCATGCTTATAATATTTGTGCCTAAGT
CGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCGTTCGTACGTGATTGAAATGCACCTAAAT
TAGCTGAGCGATCCTAACCAAACGACAGCTAATGAACACATAATTGAAATGTGCATGCTCAATTT
AGATCCTAACCCGATTAAATTGCAAGT
Found at i:71710990 original size:40 final size:40
Alignment explanation
Indices: 71710923--71711144 Score: 365
Period size: 40 Copynumber: 5.6 Consensus size: 40
71710913 ATTTGAATAC
71710923 ATCCGGGCTAAGA-CCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
71710962 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
71711002 ATACGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
71711042 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
71711082 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
71711122 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
71711145 ATTGAGCTTG
Statistics
Matches: 171, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.08
40 158 0.92
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:71711163 original size:120 final size:119
Alignment explanation
Indices: 71710923--71711171 Score: 374
Period size: 120 Copynumber: 2.1 Consensus size: 119
71710913 ATTTGAATAC
* *
71710923 ATCCGGGCTAAGACCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTT
1 ATCCGGGCTAAGACCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTC
* * * *
71710988 GTGCGAGTTGATATATACGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
66 GTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATAT
71711042 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGA-CCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * ** *
71711107 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTAT
65 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATAT
71711162 ATCC-GGCTAA
1 ATCCGGGCTAA
71711172 ATTCCAAAGA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 19 0.16
120 98 0.84
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (119 bp):
ATCCGGGCTAAGACCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTC
GTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATAT
Found at i:71719379 original size:40 final size:40
Alignment explanation
Indices: 71719324--71719546 Score: 365
Period size: 40 Copynumber: 5.6 Consensus size: 40
71719314 ATTTGAATAC
71719324 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
71719364 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
71719404 ATACGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
71719444 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * * *
71719484 ATCCGGGCTAAGACTCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
71719524 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
71719547 ATTGAGCTTG
Statistics
Matches: 170, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 170 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:71719565 original size:120 final size:120
Alignment explanation
Indices: 71719324--71719573 Score: 376
Period size: 120 Copynumber: 2.1 Consensus size: 120
71719314 ATTTGAATAC
*
71719324 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * * *
71719389 TGTGCGAGTTGATATATACGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATAT
*
71719444 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACTCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * ** *
71719509 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTAT
66 CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATAT
71719564 ATCC-GGCTAA
1 ATCCGGGCTAA
71719574 ATTCCAAAGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
119 6 0.05
120 111 0.95
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (120 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
CGTGCGAGTTGATATACACGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATAT
Found at i:71722124 original size:119 final size:120
Alignment explanation
Indices: 71721942--71722164 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
71721932 TACTCGTTCA
* *
71721942 AATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
71722007 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATC
* * **
71722062 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
71722124 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
71722165 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.74
120 19 0.21
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATC
Found at i:71722164 original size:40 final size:40
Alignment explanation
Indices: 71721921--71722164 Score: 275
Period size: 40 Copynumber: 6.1 Consensus size: 40
71721911 CGGAATTTAA
** * *
71721921 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71721961 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71722001 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71722041 CCGGATTTAGTAACTCGCATC-AATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCA-CAAATGCCTTCGGGACTTAGC
* *
71722080 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
71722120 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
71722160 CCGGA
1 CCGGA
71722165 CATCATTCGA
Statistics
Matches: 178, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
38 3 0.02
39 31 0.17
40 131 0.74
41 13 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:71723359 original size:56 final size:56
Alignment explanation
Indices: 71723292--71723411 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
71723282 TATTAGTTTA
71723292 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
71723348 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
71723404 TTGCCCAT
1 TTGCCCAT
71723412 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:71730035 original size:33 final size:33
Alignment explanation
Indices: 71730009--71730161 Score: 243
Period size: 33 Copynumber: 4.6 Consensus size: 33
71729999 CCTTTCCAAG
*
71730009 TGGTACACACAAAGTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
*
71730042 TGGTATACACAAAGTATACCTTTCCTTTTTATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
* * *
71730075 TGATATACACAAAGTATACATTCCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
* *
71730108 TGGTATACATAAATTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
71730141 TGGTATACACAAAGTATACCT
1 TGGTATACACAAAGTATACCT
71730162 AACATTTCCA
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 107 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTTTCCTTTTCATA
Found at i:71730206 original size:32 final size:33
Alignment explanation
Indices: 71730147--71730211 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
71730137 CATATGGTAT
*
71730147 ACACAAAGTATACCTAACATTTCCAAG-TGTAC
1 ACACAAAGTATACATAACATTTCCAAGTTGTAC
* * * *
71730179 ACACAAAGTGTACATAGCCTTTTCAAGTTGTAC
1 ACACAAAGTATACATAACATTTCCAAGTTGTAC
71730212 CATTTGGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (33 bp):
ACACAAAGTATACATAACATTTCCAAGTTGTAC
Found at i:71737719 original size:99 final size:99
Alignment explanation
Indices: 71737581--71737804 Score: 353
Period size: 99 Copynumber: 2.3 Consensus size: 99
71737571 GAGGTGTACA
* * *
71737581 TTCCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGTATACC
1 TTCCTTTTCAAGTGATATACACAAAGTATACCTTCCCTTTTCATATGGTATACACAAAGTATACA
71737646 TTTCCTTTTCATATGATATACACAAAGTATACCT
66 TTTCCTTTTCATATGATATACACAAAGTATACCT
71737680 TTCCTTTTCATA-TGATATACACAAAGTATACCTTCCCTTTTCATATGGTATACACAAAGTATAC
1 TTCCTTTTCA-AGTGATATACACAAAGTATACCTTCCCTTTTCATATGGTATACACAAAGTATAC
*
71737744 ATTTCCTTTTCATATGGTATACACAAAGTATACCT
65 ATTTCCTTTTCATATGATATACACAAAGTATACCT
** * *
71737779 AACCTTTCCAAGTG-TACACACAAAGT
1 TTCCTTTTCAAGTGATATACACAAAGT
71737805 GTACATAGCC
Statistics
Matches: 115, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
98 12 0.10
99 102 0.89
100 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.37
Consensus pattern (99 bp):
TTCCTTTTCAAGTGATATACACAAAGTATACCTTCCCTTTTCATATGGTATACACAAAGTATACA
TTTCCTTTTCATATGATATACACAAAGTATACCT
Found at i:71737785 original size:33 final size:33
Alignment explanation
Indices: 71737581--71737778 Score: 344
Period size: 33 Copynumber: 6.0 Consensus size: 33
71737571 GAGGTGTACA
71737581 TTCCTTTTCA-AGTGGTATACACAAAGTATACCT
1 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
71737614 TTCCTTTTCATATGGTATACACAAAGTATACCT
1 TTCCTTTTCATATGGTATACACAAAGTATACCT
*
71737647 TTCCTTTTCATATGATATACACAAAGTATACCT
1 TTCCTTTTCATATGGTATACACAAAGTATACCT
*
71737680 TTCCTTTTCATATGATATACACAAAGTATACCT
1 TTCCTTTTCATATGGTATACACAAAGTATACCT
* *
71737713 TCCCTTTTCATATGGTATACACAAAGTATACAT
1 TTCCTTTTCATATGGTATACACAAAGTATACCT
71737746 TTCCTTTTCATATGGTATACACAAAGTATACCT
1 TTCCTTTTCATATGGTATACACAAAGTATACCT
71737779 AACCTTTCCA
Statistics
Matches: 158, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
33 157 0.99
34 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (33 bp):
TTCCTTTTCATATGGTATACACAAAGTATACCT
Found at i:71737785 original size:66 final size:65
Alignment explanation
Indices: 71737583--71737820 Score: 325
Period size: 66 Copynumber: 3.6 Consensus size: 65
71737573 GGTGTACATT
*
71737583 CCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGTATACCTT
1 CCTTTTCAA-TGGTATACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTT
*
71737648 T
65 A
* * *
71737649 CCTTTTCATATGATATACACAAAGTATACCTTTCCTTTTCATATGATATACACAAAGTATACCTT
1 CCTTTTCA-ATGGTATACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTT
*
71737714 C
65 A
*
71737715 CCTTTTCATATGGTATACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTA
1 CCTTTTCA-ATGGTATACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTT
71737780 A
65 A
* * * **
71737781 CCTTTCCAA-GTGTACACACAAAGTGTACATAGCCTTTTCA
1 CCTTTTCAATG-GTATACACAAAGTATACATTTCCTTTTCA
71737821 AGTTGTACCA
Statistics
Matches: 157, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
64 1 0.01
65 26 0.17
66 129 0.82
67 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
CCTTTTCAATGGTATACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTTA
Found at i:71737817 original size:32 final size:33
Alignment explanation
Indices: 71737731--71737828 Score: 92
Period size: 32 Copynumber: 3.0 Consensus size: 33
71737721 CATATGGTAT
** * * *
71737731 ACACAAAGTATACATTTCCTTTTCATA-TGGTAT
1 ACACAAAGTATACATAACCTTTCCA-AGTTGTAC
*
71737764 ACACAAAGTATACCTAACCTTTCCAAG-TGTAC
1 ACACAAAGTATACATAACCTTTCCAAGTTGTAC
* * *
71737796 ACACAAAGTGTACATAGCCTTTTCAAGTTGTAC
1 ACACAAAGTATACATAACCTTTCCAAGTTGTAC
71737829 CATTTGGGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
32 27 0.51
33 26 0.49
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (33 bp):
ACACAAAGTATACATAACCTTTCCAAGTTGTAC
Found at i:71738058 original size:23 final size:23
Alignment explanation
Indices: 71738028--71738071 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
71738018 TATAAGTCAC
71738028 AAATCAATAATTGTTCATTACAT
1 AAATCAATAATTGTTCATTACAT
71738051 AAATCAATAATTGTTCATTAC
1 AAATCAATAATTGTTCATTAC
71738072 GTGTACTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (23 bp):
AAATCAATAATTGTTCATTACAT
Found at i:71740109 original size:49 final size:49
Alignment explanation
Indices: 71740049--71740261 Score: 199
Period size: 49 Copynumber: 4.5 Consensus size: 49
71740039 GTTGATATCG
71740049 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGCCA
* * * * * *
71740098 TGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGATGTCAATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGCCA
* * * * * *
71740147 TGTCCCAGATAGGTCTTACACTGAC--ACACA-A-C-AAGCTGACGCCA
1 TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGCCA
* ** *
71740191 TGTCCCAGACAGGTTTTACACT-AGCTTGT-ATATCCCGAGGCCGGTG-CA
1 TGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGCCGATGCCA
*
71740239 TGTCCCAGACATGTCTTACACTG
1 TGTCCCAGACAGGTCTTACACTG
71740262 GCTCACATAC
Statistics
Matches: 129, Mismatches: 27, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
43 1 0.01
44 28 0.22
45 1 0.01
46 3 0.02
47 2 0.02
48 23 0.18
49 71 0.55
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGCCA
Found at i:71752367 original size:33 final size:33
Alignment explanation
Indices: 71752337--71752730 Score: 470
Period size: 33 Copynumber: 12.0 Consensus size: 33
71752327 ATGGTACAAC
* * *
71752337 TTGAAAAGGTTATGTACACTTTGTGTGTA-CAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
* * *
71752369 TTGGAAAGGTTAGGCATAATTTGTGTATACCAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
* *
71752402 ATGAAAAGGTTAGGTATACTTTGTTTATACCAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
** * * *
71752435 TTGAAAAGGAAATGTATACTTTATGTATACAAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
*
71752468 ATGAAAAGGTTAGG--TACTTTGTGTATACCAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
**** *
71752499 TTGAAAAAAAAAGGTATACTTAGTGTATACCAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
* *
71752532 ATGAAAAGGTTAGGTATACTTTGTGTGTACCAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
**
71752565 TTGAAAAGGAAAGGTATACTTTGTGTATACCAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
*
71752598 ATGAAAAGGTTAGGTATACTTTGTGTATACCAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
** *
71752631 TTGAAAAGGAAAGGTATACTTTGTGTCTACCAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
*
71752664 ATGAAAAGGTTAGGTATACTTTGTGTATACCAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
*** * *
71752697 TTGAAAAGAAAAAGTATACTTTGTGTGTACCAT
1 TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
71752730 T
1 T
71752731 CGGAAAGAAA
Statistics
Matches: 301, Mismatches: 58, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
31 24 0.08
32 23 0.08
33 254 0.84
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (33 bp):
TTGAAAAGGTTAGGTATACTTTGTGTATACCAT
Found at i:71752464 original size:66 final size:66
Alignment explanation
Indices: 71752338--71752729 Score: 583
Period size: 66 Copynumber: 6.0 Consensus size: 66
71752328 TGGTACAACT
* * * * ** * *
71752338 TGAAAAGGTTATGTACACTTTGTGTGTA-CATTTGGAAAGGTTAGGCATAATTTGTGTATACCAT
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTGTGTATACCAT
71752402 A
66 A
* * * *
71752403 TGAAAAGGTTAGGTATACTTTGTTTATACCATTTGAAAAGGAAATGTATACTTTATGTATACAAT
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTGTGTATACCAT
71752468 A
66 A
** *
71752469 TGAAAAGGTTAGG--TACTTTGTGTATACCATTTGAAAAAAAAAGGTATACTTAGTGTATACCAT
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTGTGTATACCAT
71752532 A
66 A
*
71752533 TGAAAAGGTTAGGTATACTTTGTGTGTACCATTTGAAAAGGAAAGGTATACTTTGTGTATACCAT
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTGTGTATACCAT
71752598 A
66 A
*
71752599 TGAAAAGGTTAGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTGTGTCTACCAT
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTGTGTATACCAT
71752664 A
66 A
* * *
71752665 TGAAAAGGTTAGGTATACTTTGTGTATACCATTTGAAAAGAAAAAGTATACTTTGTGTGTACCAT
1 TGAAAAGGTTAGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTGTGTATACCAT
71752730 TCGGAAAGAA
Statistics
Matches: 296, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
64 57 0.19
65 24 0.08
66 215 0.73
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (66 bp):
TGAAAAGGTTAGGTATACTTTGTGTATACCATTTGAAAAGGAAAGGTATACTTTGTGTATACCAT
A
Found at i:71765219 original size:47 final size:47
Alignment explanation
Indices: 71765160--71765882 Score: 1187
Period size: 47 Copynumber: 15.4 Consensus size: 47
71765150 GATGTACAAG
* * *
71765160 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
71765207 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
71765254 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
71765301 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * *
71765348 GTGTATATATGAGATAAGACCTAATGACCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
71765395 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
71765442 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
71765489 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
71765536 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
71765583 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
71765630 GTGTATATATGTGATAAGGCC-AAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAA-TGGCCAATGTGATGAATGTGAAA
71765677 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
71765724 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
71765771 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
71765818 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
71765865 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
71765883 TCCCGAAGGG
Statistics
Matches: 631, Mismatches: 43, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 2 0.00
47 627 0.99
48 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:71765496 original size:188 final size:188
Alignment explanation
Indices: 71765160--71765882 Score: 1329
Period size: 188 Copynumber: 3.8 Consensus size: 188
71765150 GATGTACAAG
* * *
71765160 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
71765225 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGA
71765290 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
131 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
71765348 GTGTATATATGAGATAAGACCTAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
71765413 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGA
71765478 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
131 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
71765536 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
71765601 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAGTGGCCAACGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGA
71765666 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
131 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
71765724 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTATATATGTGATAAG
1 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * * *
71765789 GCCGAATGGCCAATGTGATGGATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGA
* *
71765854 TGGATGTGAAAGTGTATAAATGTGATAAG
131 TGAATGTGAAAGTGTATATATGTGATAAG
71765883 TCCCGAAGGG
Statistics
Matches: 520, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
188 520 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (188 bp):
GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGA
TGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:71771410 original size:20 final size:21
Alignment explanation
Indices: 71771381--71771427 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
71771371 TCTATATAAT
71771381 AATT-AAATACAATCT-ATTA
1 AATTCAAATACAATCTAATTA
* *
71771400 AATTCAAATACATTCTAATTC
1 AATTCAAATACAATCTAATTA
71771421 AATTCAA
1 AATTCAA
71771428 GGAATATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 10 0.42
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (21 bp):
AATTCAAATACAATCTAATTA
Found at i:71779286 original size:42 final size:43
Alignment explanation
Indices: 71779192--71779301 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 43
71779182 CAATGCCGAC
* * *
71779192 GTCCTAGACATGGTCTTACATGTAATTCAGTATCGATGCCTCT
1 GTCCTAGACAGGGTCTTACACGTAATTCAGTATCGATGCCTAT
*
71779235 ATCCTAGACAGGGTCTTACACG-AATTCAG-ATACGATG-CTGAT
1 GTCCTAGACAGGGTCTTACACGTAATTCAGTAT-CGATGCCT-AT
*
71779277 GTCCCAGACAGGGTCTTACACGTAA
1 GTCCTAGACAGGGTCTTACACGTAA
71779302 ATTTCAAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
41 4 0.07
42 33 0.57
43 21 0.36
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
GTCCTAGACAGGGTCTTACACGTAATTCAGTATCGATGCCTAT
Found at i:71781033 original size:49 final size:50
Alignment explanation
Indices: 71780961--71781088 Score: 174
Period size: 49 Copynumber: 2.6 Consensus size: 50
71780951 AAGTTGCCGC
*
71780961 TGCCATGTCCCAAACATGGTCTTACACTGGCTATC-TCCAT-CGAGGCTGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCTATCATCCATACG-GGCTGA
* **
71781010 TGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATGTATACGGGCTGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCTATCATCCATACGGGCTGA
*
71781060 TG-CATGTCCCAGACAT-GTCTTACACTAGC
1 TGCCATGTCCCAAACATGGTCTTACACTAGC
71781089 ACGAAACTTA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
48 13 0.18
49 46 0.64
50 11 0.15
51 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCATGTCCCAAACATGGTCTTACACTAGCTATCATCCATACGGGCTGA
Found at i:71781650 original size:30 final size:30
Alignment explanation
Indices: 71781614--71781670 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
71781604 AATTTACATA
71781614 TTTGATAAAATGACCATTTTACCCCTAGAC
1 TTTGATAAAATGACCATTTTACCCCTAGAC
71781644 TTTGATAAAATGACCATTTTACCCCTA
1 TTTGATAAAATGACCATTTTACCCCTA
71781671 TGCTCGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (30 bp):
TTTGATAAAATGACCATTTTACCCCTAGAC
Found at i:71791069 original size:19 final size:19
Alignment explanation
Indices: 71791045--71791122 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
71791035 AATCATATCT
71791045 TCTAAGATTACATATCTTA
1 TCTAAGATTACATATCTTA
**
71791064 TCTAAGA-TATGTAATCTTA
1 TCTAAGATTACAT-ATCTTA
*
71791083 --TAA-AATA-ATATCTTA
1 TCTAAGATTACATATCTTA
*
71791098 --TAAGATTACATATCATA
1 TCTAAGATTACATATCTTA
71791115 TCTAAGAT
1 TCTAAGAT
71791123 CTCTAAGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 9 0.19
16 5 0.10
17 12 0.25
18 3 0.06
19 19 0.40
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCTTA
Found at i:71791085 original size:51 final size:51
Alignment explanation
Indices: 71791022--71791154 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
71791012 CAATCAAATC
* * *
71791022 TCTAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
71791073 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
*
71791124 TCTAAGATTATAAAATCATATCTTTTAAGAT
1 TCTAAGATTATAAAATCATATCTTATAAGAT
71791155 CATGTTTCCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:71796269 original size:19 final size:19
Alignment explanation
Indices: 71796245--71796322 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
71796235 AATCATATCT
71796245 TCTAAGATTACATATCTTA
1 TCTAAGATTACATATCTTA
**
71796264 TCTAAGA-TATGTAATCTTA
1 TCTAAGATTACAT-ATCTTA
*
71796283 --TAA-AATA-ATATCTTA
1 TCTAAGATTACATATCTTA
*
71796298 --TAAGATTACATATCATA
1 TCTAAGATTACATATCTTA
71796315 TCTAAGAT
1 TCTAAGAT
71796323 CTCTAAGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 9 0.19
16 5 0.10
17 12 0.25
18 3 0.06
19 19 0.40
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCTTA
Found at i:71796285 original size:51 final size:51
Alignment explanation
Indices: 71796222--71796354 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
71796212 CAATCAAATC
* * *
71796222 TCTAAGAATATAAAATCATATCTTCTAAGATTACATATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
71796273 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
*
71796324 TCTAAGATTATAAAATCATATCTTTTAAGAT
1 TCTAAGATTATAAAATCATATCTTATAAGAT
71796355 CATGTTTCCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:71797386 original size:11 final size:12
Alignment explanation
Indices: 71797359--71797384 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
71797349 GAGCTGTAGC
71797359 AAACTAAATTAA
1 AAACTAAATTAA
71797371 AAACTAAATTAA
1 AAACTAAATTAA
71797383 AA
1 AA
71797385 CTTAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAACTAAATTAA
Found at i:71799596 original size:16 final size:15
Alignment explanation
Indices: 71799570--71799622 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 15
71799560 TTTAAAGTGT
71799570 AAATTTAAAAATAAA
1 AAATTTAAAAATAAA
71799585 AAATTATAAAAATAATTAA
1 AAATT-TAAAAAT-A--AA
71799604 GTAAATTTAAAAATAAA
1 --AAATTTAAAAATAAA
71799621 AA
1 AA
71799623 TCCTATAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
15 7 0.22
16 7 0.22
17 3 0.09
19 3 0.09
20 7 0.22
21 5 0.16
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
AAATTTAAAAATAAA
Found at i:71815069 original size:3 final size:3
Alignment explanation
Indices: 71815006--71815060 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
71814996 TTTGTTAACT
* *
71815006 TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TCA TCT- TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
71815050 TTA TTA GTA TT
1 TTA TTA TTA TT
71815061 GGTATTATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:71815141 original size:22 final size:23
Alignment explanation
Indices: 71815094--71815142 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
71815084 ATCTCTATTC
*
71815094 ATATATACTTATGTATTTTCAAAT
1 ATATATACTTATGTATTATC-AAT
71815118 ATATATATCTTAT-TATTATC-AT
1 ATATATA-CTTATGTATTATCAAT
71815140 ATA
1 ATA
71815143 AGTGCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATACTTATGTATTATCAAT
Found at i:71815268 original size:36 final size:36
Alignment explanation
Indices: 71815189--71815268 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
71815179 AATTTGTTTA
* *
71815189 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
71815225 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
71815261 ATATATAT
1 ATATATAT
71815269 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:71826559 original size:1 final size:1
Alignment explanation
Indices: 71826553--71826578 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
71826543 TTTGCTTCCT
71826553 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
71826579 CTTTGGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:71828014 original size:86 final size:88
Alignment explanation
Indices: 71827819--71828073 Score: 313
Period size: 86 Copynumber: 2.9 Consensus size: 88
71827809 CAGATCAATG
* * *
71827819 AAGACAAAGGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTC
1 AAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-ACACAAAGCCTTGCCTC
** * * * *
71827883 TTTCGGTTG-TGATAGAGCTGGTTG
65 CATCGGTTGCAG-TGGAGCTAGTTA
* *
71827907 AAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAA-ACAAAGCCTTGCATCC
1 AAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTCC
*
71827971 ATCGATTGCAGTGGAGCTAGTTA
66 ATCGGTTGCAGTGGAGCTAGTTA
** *
71827994 AAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC-AAAGACAAAGCCTTGCCTCC
1 AAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTCC
*
71828057 ATCGGTTGCATTGGAGC
66 ATCGGTTGCAGTGGAGC
71828074 AGATTGAAGC
Statistics
Matches: 146, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
85 3 0.02
86 71 0.49
87 28 0.19
88 44 0.30
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (88 bp):
AAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTCC
ATCGGTTGCAGTGGAGCTAGTTA
Found at i:71828091 original size:86 final size:84
Alignment explanation
Indices: 71827828--71828127 Score: 300
Period size: 86 Copynumber: 3.5 Consensus size: 84
71827818 GAAGACAAAG
* * * * **
71827828 GATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTGT
1 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACA-AAGCCTTGCCTCCATCGGTTG-
* * * *
71827893 GATAGAGCTGGTTGAAGACAAAA
64 CATGGAGC-AGTTGAAG-CAAGA
* * *
71827916 GATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAA-ACAAAGCCTTGCATCCATCGATTGC
1 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC-AAAGACAAAGCCTTGCCTCCATCGGTTGC
*
71827980 AGTGGAGCTAGTTAAAG-AAGCA
65 A-TGGAGC-AGTTGAAGCAAG-A
71828002 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTCCATCGGTTGCA
1 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTCCATCGGTTGCA
*
71828067 TTGGAGCAGATTGAAGCCAGA
66 -TGGAGCAG-TTGAAGCAAGA
** * * *
71828088 GATCTTATCTCCCTGAGATT-ACAGCGGAGCAGATCAAAGA
1 GATCTTGCCTTCCTG-CATTAACAGCGAAGCAGATCAAAGA
71828128 TAGTAATCCT
Statistics
Matches: 180, Mismatches: 25, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
85 7 0.04
86 103 0.57
87 33 0.18
88 35 0.19
89 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (84 bp):
GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTCCATCGGTTGCA
TGGAGCAGTTGAAGCAAGA
Found at i:71828324 original size:44 final size:43
Alignment explanation
Indices: 71828068--71828373 Score: 195
Period size: 44 Copynumber: 7.1 Consensus size: 43
71828058 TCGGTTGCAT
71828068 TGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAG
1 TGGAGCAGATTGAAG-CAGAGATCTTATCTCCCTGAGATTACAG
* ** * * * *
71828112 CGGAGCAGATCAAAG-ATAGTAATCCTATCTCCTTGAGATTACAA
1 TGGAGCAGATTGAAGCAGAG--ATCTTATCTCCCTGAGATTACAG
* *
71828156 TGGAGCGGATT-AA--AG-GATCTTATCTCTCTGA-AGTTACAG
1 TGGAGCAGATTGAAGCAGAGATCTTATCTCCCTGAGA-TTACAG
* * * * *
71828195 TAGAGAAGA-TCACATCAG-G-TCTTATCTTCCTGAGATTACAG
1 TGGAGCAGATTGA-AGCAGAGATCTTATCTCCCTGAGATTACAG
* ** * *
71828236 TGGAGTAGACCGAAGAATTGCAGATCTTATCCCCCTGA-AGTTACAG
1 TGGAGCAGATTGAAGCA--G-AGATCTTATCTCCCTGAGA-TTACAG
*
71828282 TGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCGAGATTACAG
1 TGGAGCAGATTGAAG-CAGAGATCTTATCTCCCTGAGATTACAG
* * ** *
71828326 CGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGA-AGTTACAG
1 TGGAGCAGATTGAAG-CAGAGATCTTATCTCCCTGAGA-TTACAG
71828369 TGGAG
1 TGGAG
71828374 TGGGTTAAAA
Statistics
Matches: 202, Mismatches: 42, Indels: 37
0.72 0.15 0.13
Matches are distributed among these distances:
38 2 0.01
39 24 0.12
40 1 0.00
41 28 0.14
42 10 0.05
43 26 0.13
44 76 0.38
45 4 0.02
46 30 0.15
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (43 bp):
TGGAGCAGATTGAAGCAGAGATCTTATCTCCCTGAGATTACAG
Found at i:71829869 original size:3 final size:3
Alignment explanation
Indices: 71829808--71829860 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
71829798 TTTGTTAACT
* *
71829808 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
71829853 TTA GTA TT
1 TTA TTA TT
71829861 GGTATTATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:71829941 original size:22 final size:23
Alignment explanation
Indices: 71829894--71829942 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
71829884 ATCTCTATTC
*
71829894 ATATATACTTATGTATTTTCAAAT
1 ATATATACTTATGTATTATC-AAT
71829918 ATATATATCTTAT-TATTATC-AT
1 ATATATA-CTTATGTATTATCAAT
71829940 ATA
1 ATA
71829943 AGTGCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATACTTATGTATTATCAAT
Found at i:71830068 original size:36 final size:36
Alignment explanation
Indices: 71829989--71830068 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
71829979 AATTTGTTTA
* *
71829989 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
71830025 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
71830061 ATATATAT
1 ATATATAT
71830069 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:71833050 original size:41 final size:41
Alignment explanation
Indices: 71833003--71833083 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
71832993 ATATTTTATT
*
71833003 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGCTTATTAGAATAAGGGAATTATTTTCC
71833044 TTATCTTTTAGTAGCTTATTAGAATAAGGGAATTATTTTC
1 TTATCTTTTAGTAGCTTATTAGAATAAGGGAATTATTTTC
71833084 TCAATTAGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTAGCTTATTAGAATAAGGGAATTATTTTCC
Found at i:71837241 original size:15 final size:14
Alignment explanation
Indices: 71837208--71837241 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
71837198 GAAATAAGTC
71837208 ATTTTTTAAAAATT
1 ATTTTTTAAAAATT
*
71837222 ATTTTCTAAAAATT
1 ATTTTTTAAAAATT
71837236 ATTTTT
1 ATTTTT
71837242 AATGAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTTTAAAAATT
Found at i:71841961 original size:31 final size:30
Alignment explanation
Indices: 71841898--71841962 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
71841888 TACTCTATTA
* *
71841898 TTTTTATAATTTTTTAAGAATTAAATTAAAT
1 TTTTTATAA-TTTTTAAGAATCAAAATAAAT
71841929 TTTTTATAA-TTTTAAGAGATCAAAATATAAT
1 TTTTTATAATTTTTAAGA-ATCAAAATA-AAT
71841960 TTT
1 TTT
71841963 AACTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 8 0.27
30 7 0.23
31 15 0.50
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (30 bp):
TTTTTATAATTTTTAAGAATCAAAATAAAT
Found at i:71854812 original size:60 final size:61
Alignment explanation
Indices: 71854740--71854883 Score: 209
Period size: 60 Copynumber: 2.3 Consensus size: 61
71854730 ATGATTATTA
* * *
71854740 TTATTAAATTTTAATAGAATTATTATTTAATATAATTT-AATAAAAATAAAAATAAATAAT
1 TTATTATATTTTAATATAATTATTATTAAATATAATTTAAATAAAAATAAAAATAAATAAT
* *
71854800 TTATTATATTTTAATATAATTATTATTAAATATAATTTAAATAAAAATAGAAATATATAAT
1 TTATTATATTTTAATATAATTATTATTAAATATAATTTAAATAAAAATAAAAATAAATAAT
*
71854861 TTAATATTATTCTTAATATAATT
1 TTATTA-TATT-TTAATATAATT
71854884 TGGTTCATCT
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
60 35 0.47
61 25 0.33
62 4 0.05
63 11 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (61 bp):
TTATTATATTTTAATATAATTATTATTAAATATAATTTAAATAAAAATAAAAATAAATAAT
Found at i:71861601 original size:4 final size:4
Alignment explanation
Indices: 71861592--71861649 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
71861582 TGATTTTTAA
* * * * * *
71861592 AAAT AAAT AAAG AAAT -GAT AAAT AAAT AGAT AAAC AAAC AAAC AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
71861639 AAAT AAAT AAA
1 AAAT AAAT AAA
71861650 ACAATTTGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
3 2 0.04
4 43 0.96
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:71865407 original size:14 final size:15
Alignment explanation
Indices: 71865368--71865408 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
71865358 TGAAAAATAT
*
71865368 AAAATACATAATTTC
1 AAAAGACATAATTTC
*
71865383 AAAAGATATAATTTC
1 AAAAGACATAATTTC
71865398 -AAAGACATAAT
1 AAAAGACATAAT
71865409 AGTTAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAGACATAATTTC
Found at i:71866874 original size:96 final size:95
Alignment explanation
Indices: 71866710--71867039 Score: 367
Period size: 96 Copynumber: 3.4 Consensus size: 95
71866700 GACAATTAGG
* * * *
71866710 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGACATCTACCACATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCAT-TGCCACATTATGAGAGCTAGTG
* ***
71866775 TAAGGCCATGTCTGGGACATGGCATTGGCGT
65 TAAGGCCATGTTTGGGACATGGCATCAACGT
* * * *
71866806 TGATATGTGTACTAATGTAAGACAATGTTTGGGACATGGCATTGGCCACATTATGAGAGCTAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATT-GCCACATTATGAGAGCTAGTG
* *
71866871 TAAGGCCATGTTTGGGACAAGGAATCAACGT
65 TAAGGCCATGTTTGGGACATGGCATCAACGT
* *
71866902 TGATATGTGTGCTAGTGTAAAACCATGTCTGGGACATGGCATTG--ACATTGAGACGAGAGCTAG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGCCACATT---ATGAGAGCTAG
* * ** *
71866965 TGTAAGACCATGTTTGGGTCATGGCATCGGCCT
63 TGTAAGGCCATGTTTGGGACATGGCATCAACGT
* * * * *
71866998 CGACATGTGAGCCAGTGTAAGACCATGTCTGGGATATGGCAT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCAT
71867040 CGGCAATTTA
Statistics
Matches: 197, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
93 5 0.03
95 2 0.01
96 190 0.96
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (95 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGCCACATTATGAGAGCTAGTGT
AAGGCCATGTTTGGGACATGGCATCAACGT
Found at i:71866980 original size:144 final size:144
Alignment explanation
Indices: 71866771--71867031 Score: 337
Period size: 144 Copynumber: 1.8 Consensus size: 144
71866761 TATGAGAGCC
** * * * * *
71866771 AGTGTAAGGCCATGTCTGGGACATGGCATTGGCGTTGATATGTGTACTAATGTAAGACAATGTTT
1 AGTGTAAAACCATGTCTGGGACATGGCATTGACATTGAGACGAGTACTAATGTAAGACAATGTTT
* * * * *
71866836 GGGACATGGCATTGGCCAC-ATTATGAGAGCTAGTGTAAGGCCATGTTTGGGACAAGGAATCAAC
66 GGGACATGGCATCGGCCACGA-CATGAGAGCCAGTGTAAGACCATGTCTGGGACAAGGAATCAAC
71866900 GTTGATATGTGTGCT
130 GTTGATATGTGTGCT
* *
71866915 AGTGTAAAACCATGTCTGGGACATGGCATTGACATTGAGACGAG-AGCTAGTGTAAGACCATGTT
1 AGTGTAAAACCATGTCTGGGACATGGCATTGACATTGAGACGAGTA-CTAATGTAAGACAATGTT
* * *
71866979 TGGGTCATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTGGGA
65 TGGGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGACCATGTCTGGGA
71867032 TATGGCATCG
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
143 1 0.01
144 96 0.98
145 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (144 bp):
AGTGTAAAACCATGTCTGGGACATGGCATTGACATTGAGACGAGTACTAATGTAAGACAATGTTT
GGGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGACCATGTCTGGGACAAGGAATCAACG
TTGATATGTGTGCT
Found at i:71867040 original size:48 final size:48
Alignment explanation
Indices: 71866710--71867043 Score: 260
Period size: 48 Copynumber: 7.0 Consensus size: 48
71866700 GACAATTAGG
* * * **
71866710 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGACATCTACC-
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
** * * * * *
71866757 ACATTATGAGAGCCAGTGTAAGGCCATGTCTGGGACATGGCATTGGCGT
1 TGA-TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * *
71866806 TGATATGTGTA-CTAATGTAAGACAATGTTTGGGACATGGCATTGGCC-
1 TGATATGTG-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
** * * * * * ** *
71866853 ACATTATGAGAGCTAGTGTAAGGCCATGTTTGGGACAAGGAATCAACGT
1 TGA-TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * * *
71866902 TGATATGTGTGCTAGTGTAAAACCATGTCTGGGACATGGCATTGACAT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * * *
71866950 TGAGACGAGAGCTAGTGTAAGACCATGTTTGGGTCATGGCATCGGCCT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
* * * *
71866998 CGACATGTGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGC
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
71867044 AATTTACCTA
Statistics
Matches: 218, Mismatches: 63, Indels: 11
0.75 0.22 0.04
Matches are distributed among these distances:
47 3 0.01
48 212 0.97
49 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (48 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT
Found at i:71868652 original size:78 final size:82
Alignment explanation
Indices: 71868530--71868713 Score: 229
Period size: 78 Copynumber: 2.3 Consensus size: 82
71868520 GCTACTCGTT
* *
71868530 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
71868593 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
71868610 CAAATGCCTTC-GG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
71868672 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
71868689 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71868714 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
77 3 0.03
78 52 0.58
79 13 0.14
80 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Done.