Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 198 of 444
Found at i:55350606 original size:27 final size:27
Alignment explanation
Indices: 55350576--55350724 Score: 199
Period size: 27 Copynumber: 5.5 Consensus size: 27
55350566 GAAGGTTATC
*
55350576 TCGGTAGTTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
55350603 TCGGTATTTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
55350630 TCGGTAATTCTATCCTATGATGGGTATT
1 TCGGTAATTCTACCCTA-CAGGGGTATT
* *
55350658 TCAGTAATTCTACCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
55350685 TCGATAATTCTACCTTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
55350712 TCGGTAATTCTAC
1 TCGGTAATTCTAC
55350725 AACTTATCCA
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.78
28 23 0.22
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:55350634 original size:54 final size:54
Alignment explanation
Indices: 55350551--55350724 Score: 204
Period size: 54 Copynumber: 3.2 Consensus size: 54
55350541 AGGGGCAAAT
* * * * * *
55350551 GGTAATTTTACCCAAGAAGGTTATCTCGGTAGTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
55350605 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTATGATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTA-CAGGGGTATTTC
* * * * *
55350660 AGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
55350714 GGTAATTCTAC
1 GGTAATTCTAC
55350725 AACTTATCCA
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
54 54 0.55
55 45 0.45
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:55356144 original size:28 final size:28
Alignment explanation
Indices: 55356112--55356210 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
55356102 GCAATAAGCC
*
55356112 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
55356140 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
55356168 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
55356197 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55356211 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:55363815 original size:28 final size:28
Alignment explanation
Indices: 55363783--55363881 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
55363773 GCAATAAGCC
*
55363783 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
55363811 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
55363839 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
55363868 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55363882 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:55368690 original size:27 final size:27
Alignment explanation
Indices: 55368660--55368829 Score: 225
Period size: 27 Copynumber: 6.3 Consensus size: 27
55368650 GCAAAACAGG
* *
55368660 AATTTTACCCTACAAGGGTATCTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
55368687 AATTCTACCCTACAGGGGTATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
55368714 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
55368741 AATTCCACCCTACAATGGGTATTTCAGT
1 AATTCTACCCTACAA-GGGTATTTCGGT
* *
55368769 AATTCTACCCTA-TAGGGTATTTCGGC
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
55368795 AATTCTACCTTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
55368822 AATTCTAC
1 AATTCTAC
55368830 AACTTATCCA
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 21 0.17
27 80 0.65
28 22 0.18
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGGT
Found at i:55371656 original size:40 final size:41
Alignment explanation
Indices: 55371569--55371665 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
55371559 TAAATCAGTA
*
55371569 TCGCACACTTAGTGCC-TTCTATAGCCGAAGCTATGCCAAC
1 TCGCACACTTAGTGCCATTCTATAGCCGAAGCTATGCAAAC
* **
55371609 TCACACACTTAGTGCCATT-TATAGCCGAAGCTATATTAAAC
1 TCGCACACTTAGTGCCATTCTATAGCCGAAGCTAT-GCAAAC
55371650 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
55371666 ATCATAGTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 45 0.90
41 5 0.10
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTCTATAGCCGAAGCTATGCAAAC
Found at i:55378261 original size:28 final size:28
Alignment explanation
Indices: 55378221--55378328 Score: 121
Period size: 28 Copynumber: 3.9 Consensus size: 28
55378211 ACATACCTAT
* *
55378221 ATATAGCCCATTAGACCCAATCTCTTTC
1 ATATAGCCCATTAGGCCCAATCACTTTC
*
55378249 ATATGGCCCATTAGGCCCAATCACATTT-
1 ATATAGCCCATTAGGCCCAATCAC-TTTC
* *
55378277 ATGTAGCCCATTAGGCCCAAATCACATTC
1 ATATAGCCCATTAGGCCC-AATCACTTTC
* *
55378306 ATA-CGGCCATTAGGCCCAATCAC
1 ATATAGCCCATTAGGCCCAATCAC
55378329 ATTTACAGTT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
27 6 0.09
28 51 0.75
29 11 0.16
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (28 bp):
ATATAGCCCATTAGGCCCAATCACTTTC
Found at i:55378286 original size:56 final size:56
Alignment explanation
Indices: 55378224--55378333 Score: 168
Period size: 56 Copynumber: 2.0 Consensus size: 56
55378214 TACCTATATA
* * *
55378224 TAGCCCATTAGACCC-AATCTCTTTCATATGGCCCATTAGGCCCAATCACATTTATG
1 TAGCCCATTAGACCCAAATCACATTCATACGG-CCATTAGGCCCAATCACATTTATG
*
55378280 TAGCCCATTAGGCCCAAATCACATTCATACGGCCATTAGGCCCAATCACATTTA
1 TAGCCCATTAGACCCAAATCACATTCATACGGCCATTAGGCCCAATCACATTTA
55378334 CAGTTATGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 36 0.73
57 13 0.27
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (56 bp):
TAGCCCATTAGACCCAAATCACATTCATACGGCCATTAGGCCCAATCACATTTATG
Found at i:55379700 original size:46 final size:46
Alignment explanation
Indices: 55379650--55379822 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
55379640 TGGTTGAGCA
*
55379650 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
55379696 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
55379743 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
55379789 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55379823 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55379806 original size:93 final size:93
Alignment explanation
Indices: 55379647--55379817 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
55379637 GGATGGTTGA
* * *
55379647 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
55379712 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
55379740 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
55379805 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55379818 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55385985 original size:40 final size:40
Alignment explanation
Indices: 55385940--55386163 Score: 325
Period size: 40 Copynumber: 5.7 Consensus size: 40
55385930 GCTACTTGCT
*
55385940 CAAATGCCTTCGGGACTTAGCCCGGTTACAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
55385980 CAAATGCCTTCGGGACTTAG-CC-GATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
55386018 CAAATGCCTTC-GGAATTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
55386057 CAAATGCATTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
55386097 CAAATGCCTTC-GG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
55386135 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
55386164 CATCCGAATA
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
37 8 0.05
38 58 0.35
39 31 0.19
40 67 0.41
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:55386136 original size:117 final size:118
Alignment explanation
Indices: 55385940--55386163 Score: 339
Period size: 117 Copynumber: 1.9 Consensus size: 118
55385930 GCTACTTGCT
* *
55385940 CAAATGCCTTCGGGACTTAGCCCGGTTACAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGAT
1 CAAATGCATTCGGGACTTAGCCCGGATACAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGAT
*
55386005 ATAGTAACTCGCACAAATGCCTTC-GGAATTAGCCCGGTTATAGTAACTCGCA
66 ATAGTAACTAGCACAAATGCCTTCGGGAATTAGCCCGGTTATAGTAACTCGCA
*
55386057 CAAATGCATTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GG-CTTAGCCCGG
1 CAAATGCATTCGGGACTTAGCCCGGATACAGTAACTCGCACAAATGCCTTCGGGACTTAG-CC-G
* *
55386120 A-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
64 ATA-TAGTAACTAGCACAAATGCCTTCGGGAATTAGCCCGGTTAT
55386164 CATCCGAATA
Statistics
Matches: 97, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
115 5 0.05
116 5 0.05
117 71 0.73
118 16 0.16
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (118 bp):
CAAATGCATTCGGGACTTAGCCCGGATACAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGAT
ATAGTAACTAGCACAAATGCCTTCGGGAATTAGCCCGGTTATAGTAACTCGCA
Found at i:55386159 original size:78 final size:76
Alignment explanation
Indices: 55385917--55386156 Score: 324
Period size: 78 Copynumber: 3.1 Consensus size: 76
55385907 ACCTTCGAAT
* *
55385917 TTAGCCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTACAGTAACTCGCAC
1 TTAGCCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGCCCGGTT--AGTAACTCGCAC
55385981 AAATGCCTTCGGGAC
62 AAATGCCTTCGGGAC
*
55385996 TTAGCC-GATATAGTAACTCGCACAAATGCCTTCGGAATTAGCCCGGTTATAGTAACTCGCACAA
1 TTAGCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGG-T-TAGTAACTCGCACAA
*
55386060 ATGCATTCGGGAC
64 ATGCCTTCGGGAC
* *
55386073 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGG-CTTAGCCCGGAATTAGTCACTAGCACA
1 TTAG-CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGG--TTAGTAACTCGCACA
55386137 AATGCCTTCGGGAC
63 AATGCCTTCGGGAC
55386151 TTAGCC
1 TTAGCC
55386157 CGGTTATCAT
Statistics
Matches: 146, Mismatches: 9, Indels: 14
0.86 0.05 0.08
Matches are distributed among these distances:
77 45 0.31
78 64 0.44
79 37 0.25
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (76 bp):
TTAGCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTAGTAACTCGCACAAAT
GCCTTCGGGAC
Found at i:55392001 original size:17 final size:18
Alignment explanation
Indices: 55391979--55392012 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55391969 TGTCTATTAT
55391979 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
55391996 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
55392013 TCAGCCCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:55393400 original size:16 final size:16
Alignment explanation
Indices: 55393379--55393410 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55393369 AAATTCGAGA
55393379 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
55393395 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
55393411 GTGTTACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.31, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:55395087 original size:16 final size:16
Alignment explanation
Indices: 55395068--55395098 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55395058 TTGTAATGCG
55395068 CCAAAAATCTCGAAAC
1 CCAAAAATCTCGAAAC
*
55395084 CCAAAAATCTTGAAA
1 CCAAAAATCTCGAAA
55395099 TCCCTAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (16 bp):
CCAAAAATCTCGAAAC
Found at i:55396707 original size:29 final size:29
Alignment explanation
Indices: 55396635--55396716 Score: 114
Period size: 29 Copynumber: 2.9 Consensus size: 29
55396625 GAATATGAAT
* *
55396635 GTGA-TTGGGCCTAACGAGCCATATAAAC
1 GTGATTTGGGCCTAATGGGCCATATAAAC
55396663 GTGATTTGGGCCTAATGGGCCATATACAA-
1 GTGATTTGGGCCTAATGGGCCATATA-AAC
*
55396692 GTGATTTGGGCCTAATGGGTCATAT
1 GTGATTTGGGCCTAATGGGCCATAT
55396717 GAATATTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
28 4 0.08
29 43 0.88
30 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
GTGATTTGGGCCTAATGGGCCATATAAAC
Found at i:55407970 original size:49 final size:49
Alignment explanation
Indices: 55407898--55408142 Score: 310
Period size: 49 Copynumber: 4.9 Consensus size: 49
55407888 GCTATTGTGA
55407898 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
55407947 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACATC
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-A-ATT
* * **
55407998 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* **
55408047 AGGTCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACTGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** * * *
55408097 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
55408143 GCTTCGGCTA
Statistics
Matches: 164, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 80 0.49
50 43 0.26
51 41 0.25
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:55408034 original size:28 final size:28
Alignment explanation
Indices: 55408002--55408085 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
55407992 AACATCGATC
55408002 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
55408030 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
55408052 ACGTGTGTAGTACAAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
55408080 ACGTGT
1 ACGTGT
55408086 ACTGGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 1 0.02
24 3 0.07
25 6 0.15
26 3 0.07
27 2 0.05
28 14 0.34
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:55411659 original size:29 final size:28
Alignment explanation
Indices: 55411573--55411678 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
55411563 TTTATCAATA
* * * *
55411573 GCCCTTTAGGCCCAATCTCTTTCATATG
1 GCCCATTAGGCCCAATCACATTAATATG
* * *
55411601 GCCCATTAGGCCCCATCACATTTATGTG
1 GCCCATTAGGCCCAATCACATTAATATG
55411629 GCCCATTAGGCCCAAATCACATTAATATG
1 GCCCATTAGGCCC-AATCACATTAATATG
55411658 G-CCATTAGGCCCAATCACATT
1 GCCCATTAGGCCCAATCACATT
55411679 TACAGTTATG
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.13
28 46 0.68
29 13 0.19
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTAATATG
Found at i:55411663 original size:56 final size:56
Alignment explanation
Indices: 55411573--55411680 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
55411563 TTTATCAATA
* * * * *
55411573 GCCCTTTAGGCCCAATCTCTTTCATATGGCCCATTAGGCCCCATCACATTTATGTG
1 GCCCATTAGGCCCAATCACATTAATATGGCCCATTAGGCCCAATCACATTTATGTG
55411629 GCCCATTAGGCCCAAATCACATTAATATGG-CCATTAGGCCCAATCACATTTA
1 GCCCATTAGGCCC-AATCACATTAATATGGCCCATTAGGCCCAATCACATTTA
55411681 CAGTTATGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 33 0.72
57 13 0.28
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.29
Consensus pattern (56 bp):
GCCCATTAGGCCCAATCACATTAATATGGCCCATTAGGCCCAATCACATTTATGTG
Found at i:55415205 original size:40 final size:40
Alignment explanation
Indices: 55415142--55415241 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
55415132 ATCGGTATCA
*
55415142 CACACTTAGTGCC-TTCATAGCCGAAGCTATG-CCAACTCG
1 CACACTTAGTGCCATTCATAGCCGAAGCTATGTCAAAC-CG
* * *
55415181 CACAGTTAGTGCCATTTATAGCCGAAGCTATGTTAAACCG
1 CACACTTAGTGCCATTCATAGCCGAAGCTATGTCAAACCG
*
55415221 CACACTTAGTGCCAATCATAG
1 CACACTTAGTGCCATTCATAG
55415242 TTGAATAGCA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 12 0.23
40 37 0.71
41 3 0.06
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (40 bp):
CACACTTAGTGCCATTCATAGCCGAAGCTATGTCAAACCG
Found at i:55417008 original size:29 final size:29
Alignment explanation
Indices: 55416947--55417065 Score: 186
Period size: 29 Copynumber: 4.1 Consensus size: 29
55416937 ACATACATGT
* **
55416947 ATATGGCCCACTAGGCCC-AATCTTATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
55416975 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
55417004 GTATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
55417033 AAATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
55417062 ATAT
1 ATAT
55417066 ACATGCTTTC
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 17 0.20
29 66 0.80
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:55417143 original size:17 final size:17
Alignment explanation
Indices: 55417121--55417164 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
55417111 TTATCTATTA
55417121 CGGGCCCACTAGCCCAT
1 CGGGCCCACTAGCCCAT
55417138 CGGGCCCACTAGCCCAT
1 CGGGCCCACTAGCCCAT
55417155 CGGGCCCACT
1 CGGGCCCACT
55417165 TTGCCCATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.16, C:0.48, G:0.25, T:0.11
Consensus pattern (17 bp):
CGGGCCCACTAGCCCAT
Found at i:55420341 original size:47 final size:47
Alignment explanation
Indices: 55420265--55420640 Score: 549
Period size: 47 Copynumber: 8.0 Consensus size: 47
55420255 GATTTTATGC
** * * *
55420265 GATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
55420312 GATGGATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
55420359 GATGAATGTGAACATGCATATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATA--TGTGATAAGGCCGAATGGCCAATGT
*
55420408 GATGAATGTGAACATGCATATGTGTGATAA-GCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
55420454 GATGAATGTGAACATGCATACGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
55420501 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
55420548 GATGAATGTGAACATGCATATATGCGACAAGGCAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * * * * *
55420595 GATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTAATG
1 GATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATG
55420641 CGAAATGTGT
Statistics
Matches: 302, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
46 45 0.15
47 208 0.69
48 3 0.01
49 46 0.15
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:55420503 original size:22 final size:22
Alignment explanation
Indices: 55420476--55420550 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
55420466 CATGCATACG
55420476 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
55420498 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
55420523 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
55420545 TGTGAT
1 TGTGAT
55420551 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:55420512 original size:189 final size:188
Alignment explanation
Indices: 55420290--55420640 Score: 562
Period size: 189 Copynumber: 1.9 Consensus size: 188
55420280 GTATATATGA
*
55420290 GATAAGGCCGAATGGCAAATGTGATGGATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 GATAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
55420355 ATGTGATGAATGTGAACATGCATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GA
66 ATGTGATGAATGTGAACATGCATATA--TGCGACAAGGCAGAATGGCCAATGTGATGAACGTGGA
*
55420419 ACATGCATATGTGTGAT-AAGCCGAATGGCCAATGTGATGAATGTGAACATGCATACGTGT
129 A-ATGCATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAACATGCATACGTGT
*
55420479 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 GATAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
55420544 ATGTGATGAATGTGAACATGCATATATGCGACAAGGCAGAATGGCCAATGTGATGAACGTGGAAG
66 ATGTGATGAATGTGAACATGCATATATGCGACAAGGCAGAATGGCCAATGTGATGAACGTGGAAA
* * *
55420609 TGTATATATGTGGTAAAGCCGAATGGCTAATG
131 TGCATATATGTGATAAAGCCGAATGGCCAATG
55420641 CGAAATGTGT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
187 41 0.28
188 19 0.13
189 89 0.60
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (188 bp):
GATAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
ATGTGATGAATGTGAACATGCATATATGCGACAAGGCAGAATGGCCAATGTGATGAACGTGGAAA
TGCATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAACATGCATACGTGT
Found at i:55420672 original size:46 final size:46
Alignment explanation
Indices: 55420620--55420750 Score: 190
Period size: 46 Copynumber: 2.8 Consensus size: 46
55420610 GTATATATGT
55420620 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGAAATGA
1 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGAAATGA
* * * *
55420666 GGTAAAGCCGAATGGCTAATGCAAAATGTGTATAAGATGGACATGT
1 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGAAATGA
* * * *
55420712 GGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
55420751 TGTATATATA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.37, C:0.09, G:0.31, T:0.24
Consensus pattern (46 bp):
GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGAAATGA
Found at i:55426247 original size:17 final size:18
Alignment explanation
Indices: 55426205--55426253 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
55426195 AGTTGAAAAG
55426205 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
55426224 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
55426241 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
55426254 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:55427142 original size:40 final size:40
Alignment explanation
Indices: 55427076--55427242 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
55427066 AAATTGAATG
* * *
55427076 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
55427115 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
55427155 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
55427195 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
55427235 ATATCCGG
1 ATATCCGG
55427243 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:55438503 original size:17 final size:18
Alignment explanation
Indices: 55438461--55438509 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
55438451 AGTTGAAAAG
55438461 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
55438480 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
55438497 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
55438510 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:55439396 original size:40 final size:40
Alignment explanation
Indices: 55439330--55439496 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
55439320 AAATTGAATG
* * *
55439330 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
55439369 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
55439409 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
55439449 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
55439489 ATATCCGG
1 ATATCCGG
55439497 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:55441694 original size:42 final size:42
Alignment explanation
Indices: 55441589--55441800 Score: 212
Period size: 42 Copynumber: 5.0 Consensus size: 42
55441579 TTTTGATATG
* * *
55441589 TGATTTCGTGTAAGACCACGTGTAGGACGTTGGCATCG-ATT
1 TGATTTCGTGTAAGACCATGTCTAGGACATTGGCATCGTATT
* * *
55441630 TGAGATTTACGTATAAGACCATGTATATGACATTGGCATCGTATT
1 T--GATTT-CGTGTAAGACCATGTCTAGGACATTGGCATCGTATT
* * *
55441675 TGATTTCGTGTAAGACCATGTTTGGGACATCGGCATCGTATT
1 TGATTTCGTGTAAGACCATGTCTAGGACATTGGCATCGTATT
* * *
55441717 TGATTTCGTGTAAGACCCTGTCT-GCGACAATGGCATCGATACT
1 TGATTTCGTGTAAGACCATGTCTAG-GACATTGGCATCG-TATT
* * * * *
55441760 TGATTACATATAAGACCACGTCTAGGACGTTGGCATCGTAT
1 TGATTTCGTGTAAGACCATGTCTAGGACATTGGCATCGTAT
55441801 GAGCTTTTCG
Statistics
Matches: 141, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.01
42 65 0.46
43 42 0.30
44 28 0.20
45 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTAGGACATTGGCATCGTATT
Found at i:55441795 original size:85 final size:86
Alignment explanation
Indices: 55441599--55441800 Score: 221
Period size: 85 Copynumber: 2.4 Consensus size: 86
55441589 TGATTTCGTG
* * *
55441599 TAAGACCACGTGTAGGACGTTGGCATCG-ATTTGAGATTTACGTATAAGACCATGTATATGACAT
1 TAAGACCACGTCTAGGACGTTGGCATCGTATTT-AGATTTACGTATAAGACCATGTATACGACAA
* * * *
55441663 TGGCATCGTATTTGATTTCGTG
65 TGGCATCGTACTTGATTACATA
* * * * * * * * *
55441685 TAAGACCATGTTTGGGACATCGGCATCGTATTT-GATTT-CGTGTAAGACCCTGTCTGCGACAAT
1 TAAGACCACGTCTAGGACGTTGGCATCGTATTTAGATTTACGTATAAGACCATGTATACGACAAT
55441748 GGCATCGATACTTGATTACATA
66 GGCATCG-TACTTGATTACATA
55441770 TAAGACCACGTCTAGGACGTTGGCATCGTAT
1 TAAGACCACGTCTAGGACGTTGGCATCGTAT
55441801 GAGCTTTTCG
Statistics
Matches: 94, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
84 26 0.28
85 41 0.44
86 23 0.24
87 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (86 bp):
TAAGACCACGTCTAGGACGTTGGCATCGTATTTAGATTTACGTATAAGACCATGTATACGACAAT
GGCATCGTACTTGATTACATA
Found at i:55442501 original size:23 final size:22
Alignment explanation
Indices: 55442471--55442515 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
55442461 GGTTATAAAC
55442471 CTTATGTTTTGGTATGACTTTGG
1 CTTATGTTTTGGTATG-CTTTGG
55442494 CTTATGTTTTGGTATGCTTTGG
1 CTTATGTTTTGGTATGCTTTGG
55442516 TATGGATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.11, C:0.09, G:0.27, T:0.53
Consensus pattern (22 bp):
CTTATGTTTTGGTATGCTTTGG
Found at i:55444298 original size:40 final size:40
Alignment explanation
Indices: 55444217--55444513 Score: 422
Period size: 40 Copynumber: 7.5 Consensus size: 40
55444207 AAGCCAAGTA
* * * *
55444217 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
55444255 CCTTCGGGACATAGCCCGGATATTGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55444295 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55444335 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55444375 CCGTCGGGACTTATCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55444415 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
55444455 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
55444495 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55444514 TTATCATCCA
Statistics
Matches: 235, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
38 12 0.05
39 16 0.07
40 207 0.88
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55460397 original size:32 final size:32
Alignment explanation
Indices: 55460361--55460425 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
55460351 ATACAACTAT
*
55460361 TTTCATTTAGATTTTTTACAAGTGTATAATCA
1 TTTCATTTAGATTATTTACAAGTGTATAATCA
55460393 TTTCATTTAGATTATTTACAAGTGTATAATCA
1 TTTCATTTAGATTATTTACAAGTGTATAATCA
55460425 T
1 T
55460426 GCTTTCTCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.49
Consensus pattern (32 bp):
TTTCATTTAGATTATTTACAAGTGTATAATCA
Found at i:55470620 original size:18 final size:19
Alignment explanation
Indices: 55470597--55470633 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
55470587 GATATGATAC
55470597 TAAAAT-TATTAAAAAAAT
1 TAAAATATATTAAAAAAAT
55470615 TAAAATATATTAAAAAAAT
1 TAAAATATATTAAAAAAAT
55470634 CAGAGAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATATATTAAAAAAAT
Found at i:55470979 original size:35 final size:37
Alignment explanation
Indices: 55470916--55470994 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
55470906 ATTACAAAAT
55470916 CATAT-AT-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
55470952 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
55470987 CATATCAT
1 CATATCAT
55470995 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 21 0.52
36 9 0.22
37 10 0.25
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:55470992 original size:14 final size:15
Alignment explanation
Indices: 55470937--55470992 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
55470927 AGATTGCATA
55470937 TCATATCTAAGATTG
1 TCATATCTAAGATTG
55470952 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
55470970 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
55470987 -CATATC
1 TCATATC
55470993 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:55471002 original size:17 final size:19
Alignment explanation
Indices: 55470923--55470994 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
55470913 AATCATATAT
55470923 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
55470942 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
55470960 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
55470977 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
55470995 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:55474356 original size:53 final size:54
Alignment explanation
Indices: 55474275--55474792 Score: 365
Period size: 55 Copynumber: 9.9 Consensus size: 54
55474265 TTTTCTTTTT
* * * *
55474275 GAACTTACCATTGCCATGTCTTGACATGGTCTTCCGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * * * *
55474328 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTTCCTTATG
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATC-CTTGCCTTATA
*
55474382 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
55474436 GAACTCTCCAATGCCATGACTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAA
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-A
* * * *
55474491 TAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * * * ** * **
55474545 GAACTTATCAATGACATGCCTTGGCACAGTCTTACATGATATCCTTATC-T-T-
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
*** *
55474596 --AC-CA--AATGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTATA
1 GAACTCACCAATGCCATG-TCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * * * * **
55474646 GAACTTATCAATGCCATGCCTTGGCATGGTTTTACATGATATCCTTATC-T-T-
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *** *
55474697 --AC-CA--AATGTCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTATA
1 GAACTCACCAATGCCATG-TCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * * ** *
55474747 GAAGTTATCAATGCCATGCCTTGGTATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
55474793 ATCTTACCAA
Statistics
Matches: 361, Mismatches: 78, Indels: 51
0.74 0.16 0.10
Matches are distributed among these distances:
46 16 0.04
47 45 0.12
48 4 0.01
49 6 0.02
52 8 0.02
53 90 0.25
54 86 0.24
55 103 0.29
56 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:55474626 original size:47 final size:47
Alignment explanation
Indices: 55474573--55474845 Score: 185
Period size: 47 Copynumber: 5.5 Consensus size: 47
55474563 CCTTGGCACA
55474573 GTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATG
1 GTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATG
* * * ***
55474620 GTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATG--CCTTGGCATG
1 GTCTTACATGATATCCTTATC-T-T---AC-CA--AATGCCATGTTCC-AAACATG
* *
55474674 GTTTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAACATG
1 GTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATG
* * ** ****
55474721 GTCTTACATGGTATCCTTGTCTTATAGAAGTTATCAATGCCATG--CCTTGGTATG
1 GTCTTACATGATATCCTTATC-T-T---A-CCA--AATGCCATGTTCC-AAACATG
55474775 GTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATG
1 GTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATG
* * *
55474822 GTCTTACATGGTATGCTTGTCTTA
1 GTCTTACATGATATCCTTATCTTA
55474846 GTGCTAATGC
Statistics
Matches: 169, Mismatches: 35, Indels: 44
0.68 0.14 0.18
Matches are distributed among these distances:
46 17 0.10
47 65 0.38
48 8 0.05
49 5 0.03
52 5 0.03
53 8 0.05
54 44 0.26
55 17 0.10
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (47 bp):
GTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATG
Found at i:55474637 original size:101 final size:101
Alignment explanation
Indices: 55474298--55474845 Score: 611
Period size: 101 Copynumber: 5.3 Consensus size: 101
55474288 CCATGTCTTG
* * * *
55474298 ACATGGTCTTCCGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
* * * ***
55474362 CATGGGACATTTTCCTTATGGTAACTCATCAATGCCATG-TCTTG
66 CAT--G--A-TATCCTTAT-CTTAC-CA--AATGCCATGTTCCAA
* *
55474406 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCT-CCAATGCCATGACTTGGCATGGTCTT
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACT-TATCAATGCCATGCCTTGGCATGGTCTT
* * * ***
55474469 ACATGGGACCTTTGCCTTATAATAACTCATCAATGCCATG-TCTTG
65 ACAT--GA--TAT-CCTTAT-CTTAC-CA--AATGCCATGTTCCAA
* * * **
55474514 ACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGACATGCCTTGGCACAGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
55474579 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
* *
55474615 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTTTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
*
55474680 CATGATATCCTTATCTTACCAAATGTCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
* * *
55474716 ACATGGTCTTACATGGTATCCTTGTCTTATAGAAGTTATCAATGCCATGCCTTGGTATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
55474781 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
66 CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
* *
55474817 ACATGGTCTTACATGGTATGCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTA
55474846 GTGCTAATGC
Statistics
Matches: 401, Mismatches: 33, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
100 9 0.02
101 220 0.55
102 2 0.00
103 3 0.01
104 6 0.01
105 2 0.00
106 1 0.00
107 5 0.01
108 123 0.31
109 30 0.07
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (101 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
Found at i:55474675 original size:54 final size:53
Alignment explanation
Indices: 55474286--55474798 Score: 283
Period size: 54 Copynumber: 9.8 Consensus size: 53
55474276 AACTTACCAT
* * * * * ** * *
55474286 TGCCATGTCTTGACATGGTCTTCCGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTATAGAA-TTATCAA
** * * * *
55474339 TGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTTCCTTATGGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTAT-CTTATAG-AA-TTATCAA
* * * ** * *
55474394 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCTCCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTATAGAATTAT-CAA
* ** * *
55474447 TGCCATGACTTGGCATGGTCTTACATGGGA-CCTT-TGCCTTATAATAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTAT--CTTAT-AGAA-TTATCAA
* * * **
55474502 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTATAGAA-TTATCAA
* ** **
55474556 TGACATGCCTTGGCACAGTCTTACATGATATCCTTATC-T-T---ACCA--AA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTATAGAATTATCAA
*** * *
55474602 TGCCATGTTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAA
1 TGCCATG--CCTTGGCATGGTCTTACATGATATCCTTATCTTATAGAA-TTATCAA
* * *
55474657 TGCCATGCCTTGGCATGGTTTTACATGATATCCTTATCTTACCA-AA-TGTC-A
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTA-TAGAATTATCAA
* *** * *
55474708 TG---TTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATAGAAGTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTATAGAA-TTATCAA
*
55474758 TGCCATGCCTTGGTATGGTCTTACATGATATCCTTATCTTA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTA
55474799 CCAAATGCCA
Statistics
Matches: 350, Mismatches: 78, Indels: 63
0.71 0.16 0.13
Matches are distributed among these distances:
46 9 0.03
47 48 0.14
48 7 0.02
49 5 0.01
50 3 0.01
51 3 0.01
52 13 0.04
53 74 0.21
54 94 0.27
55 86 0.25
56 8 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTATAGAATTATCAA
Found at i:55492305 original size:20 final size:20
Alignment explanation
Indices: 55492280--55492317 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55492270 GTTTATTCAC
*
55492280 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
55492300 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
55492318 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:55493978 original size:28 final size:28
Alignment explanation
Indices: 55493946--55494014 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
55493936 GCGTAGATCA
55493946 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
55493974 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
55494002 CGATA-TACCCCTA
1 CGAAATTACCCCTA
55494015 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:55496562 original size:15 final size:15
Alignment explanation
Indices: 55496544--55496579 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
55496534 TAAATCAATA
55496544 GTTTTAAAATAAAAT
1 GTTTTAAAATAAAAT
*
55496559 GTTTTCAAATAAAAT
1 GTTTTAAAATAAAAT
*
55496574 CTTTTA
1 GTTTTA
55496580 TTTTCGGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (15 bp):
GTTTTAAAATAAAAT
Found at i:55501524 original size:20 final size:20
Alignment explanation
Indices: 55501499--55501536 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55501489 GTTTATTCGC
*
55501499 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
55501519 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
55501537 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:55503196 original size:28 final size:28
Alignment explanation
Indices: 55503164--55503232 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
55503154 GCGTAGATCA
55503164 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
55503192 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
55503220 CGATA-TACCCCTA
1 CGAAATTACCCCTA
55503233 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:55505757 original size:40 final size:41
Alignment explanation
Indices: 55505699--55505962 Score: 337
Period size: 40 Copynumber: 6.6 Consensus size: 41
55505689 TATTCGAATG
* *
55505699 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGATTA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTA
* * *
55505740 AT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTA
** *
55505780 AT-TCCGGGCTAAGTCCCGAAGGCATTGGTG-TGAGTTACTA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACTA
* *
55505820 AT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACTA
*
55505859 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGAC-A
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTA
*
55505899 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGAC-A
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTA
*
55505939 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
55505963 CTTGTGCGAG
Statistics
Matches: 204, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
39 4 0.02
40 197 0.97
41 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTA
Found at i:55505918 original size:120 final size:119
Alignment explanation
Indices: 55505699--55505998 Score: 344
Period size: 120 Copynumber: 2.5 Consensus size: 119
55505689 TATTCGAATG
* * *
55505699 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAG-TGAT-TAATTCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGATAT-A-TCCGGGCTAAGACCCGAAGG
* * * * *
55505762 CATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTGGTG-TGAGTTACTA
63 CATTTATGCGAGTGACTAATTCCGGGCTAAGACCCGAAGGCATTGATGCT-AGTGAC-A
*
55505820 AT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCA
* *
55505884 TTTATGCTAGTGAC-AATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACA
65 TTTATGCGAGTGACTAAT-TCCGGGCTAAGACCCGAAGGCATTGATGCTAGTGACA
* * * *
55505939 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTGATATATCCGGGCTAAGA-CCCGAAG
55505999 ATACTTGGGT
Statistics
Matches: 157, Mismatches: 16, Indels: 15
0.84 0.09 0.08
Matches are distributed among these distances:
117 1 0.01
118 13 0.08
119 24 0.15
120 111 0.71
121 7 0.04
122 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
TTATGCGAGTGACTAATTCCGGGCTAAGACCCGAAGGCATTGATGCTAGTGACA
Found at i:55513750 original size:43 final size:43
Alignment explanation
Indices: 55513682--55513853 Score: 127
Period size: 43 Copynumber: 4.0 Consensus size: 43
55513672 AACTCGTACA
* * * * *
55513682 ATGCCAACGTCCTAGACATGATCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAATATCG
* * ** *
55513725 ATGCCATTGTCCCAGATAGGGTCTTACACAAAATCATATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAATATCG
* * *
55513767 ATGCTAATGTCCTAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGT-AATCA-AATATCG
* * * *
55513811 ATGCTAACGTCCCAGAC-GTAGTCTTACACGATAA-CACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACG-TAATCAAATATCG
55513854 GAATCCTATG
Statistics
Matches: 100, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
42 27 0.27
43 42 0.42
44 30 0.30
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAATATCG
Found at i:55521128 original size:21 final size:22
Alignment explanation
Indices: 55521084--55521134 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
55521074 TTACTTGCAT
55521084 TTAAACACATTAAATTGAACTTA
1 TTAAACACATTAAA-TGAACTTA
* *
55521107 TTAAACACATTTAA-GCACTTA
1 TTAAACACATTAAATGAACTTA
*
55521128 TTGAACA
1 TTAAACA
55521135 TGCACTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
23 13 0.52
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (22 bp):
TTAAACACATTAAATGAACTTA
Found at i:55524402 original size:24 final size:24
Alignment explanation
Indices: 55524369--55524425 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
55524359 CTCTATCTAC
* *
55524369 TTTTTCCTTTCTGTTTTTCAAT-T
1 TTTTTTCTTTCTCTTTTTCAATCT
* *
55524392 TTTTTGTCTTTTTCTTTTTCACTCT
1 TTTTT-TCTTTCTCTTTTTCAATCT
55524417 TTTTTTCTT
1 TTTTTTCTT
55524426 GCACTTATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 5 0.18
24 17 0.61
25 6 0.21
ACGTcount: A:0.05, C:0.18, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTTTCTTTCTCTTTTTCAATCT
Found at i:55527600 original size:21 final size:21
Alignment explanation
Indices: 55527574--55527616 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
55527564 AAATATTATA
55527574 AAAATATTTTTAAGACCTTTG
1 AAAATATTTTTAAGACCTTTG
*
55527595 AAAATATTTTTATGACCTTTG
1 AAAATATTTTTAAGACCTTTG
55527616 A
1 A
55527617 TTTGTCGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (21 bp):
AAAATATTTTTAAGACCTTTG
Found at i:55530662 original size:40 final size:40
Alignment explanation
Indices: 55530603--55530810 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
55530593 CAATTGAATG
* * * *
55530603 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
55530643 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
55530683 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
55530723 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
55530763 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
55530803 ATATCCGG
1 ATATCCGG
55530811 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:55530741 original size:80 final size:80
Alignment explanation
Indices: 55530605--55530810 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
55530595 ATTGAATGAT
* * ** * * *
55530605 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
55530669 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
55530685 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
55530750 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
55530765 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
55530811 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:55538725 original size:40 final size:40
Alignment explanation
Indices: 55538600--55538806 Score: 204
Period size: 40 Copynumber: 5.2 Consensus size: 40
55538590 CAATTGAATG
* * ** * **
55538600 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * **
55538640 ATATCCGGGTTAAGA-CCGAAGGCCATT-GTGCTAG-TGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTTG-TT
*
55538679 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * * *
55538719 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * *
55538759 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
55538799 ATATCCGG
1 ATATCCGG
55538807 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
39 29 0.21
40 107 0.78
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
Found at i:55542630 original size:40 final size:40
Alignment explanation
Indices: 55542585--55542791 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
55542575 CGGAATATAA
* *
55542585 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAAC-TCGCACAAATGCCTTCGGGCCTTAGC
* *
55542625 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGCCTTAGC
* *
55542665 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGCCTTAGC
** * * * *
55542705 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGCCTTAGC
** * * *
55542745 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATAACTC-GCACAAATGCCTTCGGGCCTTAGC
55542784 CCGGATAT
1 CCGGATAT
55542792 CATTCAATTT
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 14 0.10
40 132 0.90
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATAACTCGCACAAATGCCTTCGGGCCTTAGC
Found at i:55543640 original size:17 final size:19
Alignment explanation
Indices: 55543617--55543662 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
55543607 AAGAAGCATG
55543617 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
55543635 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
55543653 AATCATGCTC
1 AATCATGCTC
55543663 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:55546185 original size:46 final size:46
Alignment explanation
Indices: 55546135--55546307 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
55546125 TGGTTGAGCA
*
55546135 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
55546181 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
55546228 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
55546274 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55546308 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55546291 original size:93 final size:93
Alignment explanation
Indices: 55546132--55546302 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
55546122 GGATGGTTGA
* *
55546132 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55546197 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
55546225 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55546290 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55546303 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55553724 original size:46 final size:46
Alignment explanation
Indices: 55553674--55553846 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
55553664 TGGTTGAGCA
*
55553674 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
55553720 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
55553767 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
55553813 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55553847 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55553830 original size:93 final size:93
Alignment explanation
Indices: 55553671--55553841 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
55553661 GGATGGTTGA
* *
55553671 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55553736 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
55553764 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55553829 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55553842 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55554107 original size:19 final size:20
Alignment explanation
Indices: 55554070--55554107 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
55554060 ATAAGGTGGT
55554070 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
55554090 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
55554108 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:55560728 original size:9 final size:9
Alignment explanation
Indices: 55560702--55560770 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
55560692 AGCATTTAAC
55560702 AAACACATT
1 AAACACATT
55560711 AAGAACACATT
1 -A-AACACATT
* *
55560722 TAACACACT
1 AAACACATT
*
55560731 AAATACATT
1 AAACACATT
55560740 AAACACATT
1 AAACACATT
** *
55560749 AATTACTTT
1 AAACACATT
*
55560758 AAACACATG
1 AAACACATT
55560767 AAAC
1 AAAC
55560771 TTAATTAACT
Statistics
Matches: 45, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
9 36 0.80
10 1 0.02
11 8 0.18
ACGTcount: A:0.52, C:0.20, G:0.03, T:0.25
Consensus pattern (9 bp):
AAACACATT
Found at i:55560765 original size:18 final size:18
Alignment explanation
Indices: 55560702--55560765 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
55560692 AGCATTTAAC
*
55560702 AAACACATTAAGAACACATT
1 AAACACATT-A-AATACATT
* *
55560722 TAACACACTAAATACATT
1 AAACACATTAAATACATT
* *
55560740 AAACACATTAATTACTTT
1 AAACACATTAAATACATT
55560758 AAACACAT
1 AAACACAT
55560766 GAAACTTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
18 29 0.78
19 1 0.03
20 7 0.19
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.27
Consensus pattern (18 bp):
AAACACATTAAATACATT
Found at i:55564956 original size:9 final size:9
Alignment explanation
Indices: 55564930--55564998 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
55564920 AGCATTTAAC
55564930 AAACACATT
1 AAACACATT
55564939 AAGAACACATT
1 -A-AACACATT
*
55564950 AAACACACT
1 AAACACATT
55564959 AAACACATT
1 AAACACATT
55564968 AAACACATT
1 AAACACATT
** *
55564977 AATTACTTT
1 AAACACATT
*
55564986 AAACACATG
1 AAACACATT
55564995 AAAC
1 AAAC
55564999 TTAATTAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
9 39 0.80
10 2 0.04
11 8 0.16
ACGTcount: A:0.54, C:0.22, G:0.03, T:0.22
Consensus pattern (9 bp):
AAACACATT
Found at i:55565117 original size:34 final size:34
Alignment explanation
Indices: 55565059--55565124 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
55565049 TAGCAATGAA
*
55565059 ATTAACTAAGATAAACATTTATTCTAACAACTCC
1 ATTAACTAAGATAAACATTGATTCTAACAACTCC
* * * *
55565093 ATTAACTAAGTTGAATATTGATTCTAGCAACT
1 ATTAACTAAGATAAACATTGATTCTAACAACT
55565125 TAATTTAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.35
Consensus pattern (34 bp):
ATTAACTAAGATAAACATTGATTCTAACAACTCC
Found at i:55568733 original size:43 final size:44
Alignment explanation
Indices: 55568613--55568735 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 44
55568603 AGCTCATAAA
* * **
55568613 ATGCC-ATATCCCAGATATGGTCTTACATTTTGTCAC-ATATCG
1 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAATATCG
* * * * * *
55568655 ATGCCACTGTCCCAAATAGGGTCTTAAAAGAAATCACAATAT-G
1 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAATATCG
*
55568698 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACA
55568736 TCTCGATAAC
Statistics
Matches: 62, Mismatches: 17, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
42 5 0.08
43 53 0.85
44 4 0.06
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (44 bp):
ATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAATATCG
Found at i:55573587 original size:50 final size:50
Alignment explanation
Indices: 55573508--55573610 Score: 165
Period size: 50 Copynumber: 2.1 Consensus size: 50
55573498 CACGCAGCCC
55573508 TGTGACATAGCTCAGACCATGTGAACATTCGAAGTATGGACA-AGTGGTCG
1 TGTGACATAGCTCAGACCATGTGAACATTCGAAGTATGGACACA-TGGTCG
*
55573558 TGTGACATAGC-CTAGACCATGTGAGCATTCGAAGTATGGACACATGGTCG
1 TGTGACATAGCTC-AGACCATGTGAACATTCGAAGTATGGACACATGGTCG
55573608 TGT
1 TGT
55573611 TCTATCCTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
49 1 0.02
50 48 0.96
51 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (50 bp):
TGTGACATAGCTCAGACCATGTGAACATTCGAAGTATGGACACATGGTCG
Found at i:55576527 original size:41 final size:43
Alignment explanation
Indices: 55576481--55576617 Score: 145
Period size: 43 Copynumber: 3.2 Consensus size: 43
55576471 ACCGGCACGA
* **
55576481 AGCCTGCTAGACTTTAAGTTTGA-ACTCAT-TCACCGGCATT-T
1 AGCCTGCTAGACTTGAAGTCCGATA-TCATGTCACCGGCATTGT
* *
55576522 CGCCTGCTAGGCTTGAAGTCCGATATCATGTCACCGGCATTGT
1 AGCCTGCTAGACTTGAAGTCCGATATCATGTCACCGGCATTGT
* * * * * *
55576565 AGCCTGCTAGGCATGAAGCCCGATATTATCTCACCGGCATTTT
1 AGCCTGCTAGACTTGAAGTCCGATATCATGTCACCGGCATTGT
55576608 AGCCTGCTAG
1 AGCCTGCTAG
55576618 GCCCGAAGCC
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 22 0.27
42 12 0.15
43 48 0.59
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (43 bp):
AGCCTGCTAGACTTGAAGTCCGATATCATGTCACCGGCATTGT
Found at i:55576576 original size:43 final size:41
Alignment explanation
Indices: 55576506--55576632 Score: 164
Period size: 43 Copynumber: 3.0 Consensus size: 41
55576496 AAGTTTGAAC
* * *
55576506 TCATTCACCGGCATTTCGCCTGCTAGGCTTGAAGTCCGATA
1 TCATTCACCGGCATTTAGCCTGCTAGGCATGAAGCCCGATA
55576547 TCATGTCACCGGCATTGTAGCCTGCTAGGCATGAAGCCCGATA
1 TCAT-TCACCGGCATT-TAGCCTGCTAGGCATGAAGCCCGATA
* **
55576590 TTATCTCACCGGCATTTTAGCCTGCTAGGCCCGAAGCCCGATA
1 TCAT-TCACCGGCA-TTTAGCCTGCTAGGCATGAAGCCCGATA
55576633 ATATTATTCA
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 4 0.05
42 11 0.14
43 59 0.78
44 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (41 bp):
TCATTCACCGGCATTTAGCCTGCTAGGCATGAAGCCCGATA
Found at i:55583165 original size:40 final size:40
Alignment explanation
Indices: 55583005--55583196 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 40
55582995 ATAACCACAT
* * * *
55583005 GCACGAATGCCTTTGGGTCTTAGCCC-G-TATAGAACGACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTA--ACTA
* * ** *
55583045 GCACAAATGCCTTCGGGTATTAGCCCGGATTTAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTA
* * *
55583085 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTA
* * *
55583125 GCACAATTGCCTTCGGGTCTTAACCCGGATATAGTTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTA
* * *
55583165 GCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
55583197 CATGCAATTG
Statistics
Matches: 126, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
40 121 0.96
41 1 0.01
42 4 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTA
Found at i:55586149 original size:43 final size:43
Alignment explanation
Indices: 55586075--55586198 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 43
55586065 TCTGAACTGA
* **
55586075 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCTCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCAGAAGCTCGATATCAT
* *
55586117 TTCACCGGCATTATAGGCTGCTAGGCCAGAAGCTCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCAGAAGCTCGATATCAT
*
55586160 CTCACCGGCATTATAGCCTGCTAGGCCCA-AAGCTCGATA
1 TTCACCGGCATTATAGCCTGCTAGG-CCAGAAGCTCGATA
55586199 ATATTATCCA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
42 12 0.16
43 58 0.79
44 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCAGAAGCTCGATATCAT
Found at i:55587933 original size:14 final size:15
Alignment explanation
Indices: 55587904--55587933 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
55587894 AAAAATTTAG
55587904 ACATGATACTTTCAC
1 ACATGATACTTTCAC
55587919 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
55587933 A
1 A
55587934 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:55588432 original size:29 final size:29
Alignment explanation
Indices: 55588361--55588446 Score: 104
Period size: 28 Copynumber: 3.0 Consensus size: 29
55588351 TGCATGTATC
* *
55588361 TGGCCCATTAAGCCCAA-TCATATTCATA
1 TGGCCCATTAGGCCCAAGTCACATTCATA
*
55588389 TGGCCCATTAGGCCCAAGTCACATTTATA
1 TGGCCCATTAGGCCCAAGTCACATTCATA
** *
55588418 TGGCCTGTTATGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAGTCACATTCATA
55588446 T
1 T
55588447 TCATGCTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 29 0.58
29 21 0.42
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAGTCACATTCATA
Found at i:55588684 original size:8 final size:8
Alignment explanation
Indices: 55588657--55588719 Score: 63
Period size: 8 Copynumber: 7.9 Consensus size: 8
55588647 ATAGCCAAAC
55588657 TTTCGGCA
1 TTTCGGCA
*
55588665 TTCCGGCA
1 TTTCGGCA
*
55588673 TTTCGGCT
1 TTTCGGCA
*
55588681 TTTCGGTA
1 TTTCGGCA
* *
55588689 TTTTGGCG
1 TTTCGGCA
*
55588697 TTTCGACA
1 TTTCGGCA
*
55588705 TTTCGGCG
1 TTTCGGCA
55588713 TTTCGGC
1 TTTCGGC
55588720 TTTTGTCGAT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
8 42 1.00
ACGTcount: A:0.08, C:0.24, G:0.27, T:0.41
Consensus pattern (8 bp):
TTTCGGCA
Found at i:55589464 original size:22 final size:22
Alignment explanation
Indices: 55589434--55589475 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
55589424 TGAGAAAAAG
55589434 ATTTCGGCATTAGCCTCATAAT
1 ATTTCGGCATTAGCCTCATAAT
*
55589456 ATTTTGGCATTAGCCTCATA
1 ATTTCGGCATTAGCCTCATA
55589476 CCCTTGCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (22 bp):
ATTTCGGCATTAGCCTCATAAT
Found at i:55593754 original size:27 final size:27
Alignment explanation
Indices: 55593721--55593806 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 27
55593711 CCAAAGTACC
*
55593721 CTCGATTTATAGAATTACTGTTTTACA
1 CTCGATTTACAGAATTACTGTTTTACA
* * *
55593748 CTTGATTTACAGAATTGCTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACA
* ** *
55593775 CTCGATTTACAAAATTACCATTTTACC
1 CTCGATTTACAGAATTACTGTTTTACA
55593802 CTCGA
1 CTCGA
55593807 CTAAGAAATT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACTGTTTTACA
Found at i:55593898 original size:27 final size:27
Alignment explanation
Indices: 55593840--55593962 Score: 151
Period size: 27 Copynumber: 4.6 Consensus size: 27
55593830 TGTAGGGTAG
* *
55593840 AATTACCAAAATACCCCT-AGTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
55593866 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
55593893 AATTACCAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
* **
55593920 AATTAACAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
55593947 AATTACCAAAATACCC
1 AATTACCAAAATACCC
55593963 TTGACTTTCT
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 20 0.24
27 60 0.71
28 4 0.05
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:55594108 original size:27 final size:27
Alignment explanation
Indices: 55594078--55594139 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
55594068 TACCCCTAAT
55594078 AGGTAAAAAGACCGTAA-AGCCCCTGTA
1 AGGTAAAAAGACCGTAATA-CCCCTGTA
**
55594105 AGGTAAAGTGACCGTAATACCCCTGTA
1 AGGTAAAAAGACCGTAATACCCCTGTA
*
55594132 TGGTAAAA
1 AGGTAAAA
55594140 TGTCGAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (27 bp):
AGGTAAAAAGACCGTAATACCCCTGTA
Found at i:55594989 original size:25 final size:24
Alignment explanation
Indices: 55594955--55595024 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
55594945 AGGAAGTGCT
*
55594955 AAAAGGGCTTCGCCCCAGTTTAGC
1 AAAAGGGCTTTGCCCCAGTTTAGC
*
55594979 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTAGC
55595004 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
55595025 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTAGC
Found at i:55595037 original size:24 final size:24
Alignment explanation
Indices: 55594954--55595037 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
55594944 GAGGAAGTGC
* *
55594954 TAAAAGGGCTTCGCCCCAGTTTAGC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
55594979 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
55595003 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
55595027 TAAAAGAGGCT
1 TAAAAG-GGCT
55595038 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:55595231 original size:42 final size:42
Alignment explanation
Indices: 55595172--55595263 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
55595162 TAGTCTCCCC
*
55595172 AAATGGGCTTGCATACATTCATTAACATTGCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTAACATTACATGTGATATTG
* * *
55595214 AAATGGGCTTGTATACATTCATTGACATTACATGTGATGTTG
1 AAATGGGCTTGCATACATTCATTAACATTACATGTGATATTG
55595256 AAATGGGC
1 AAATGGGC
55595264 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTAACATTACATGTGATATTG
Found at i:55595323 original size:31 final size:31
Alignment explanation
Indices: 55595287--55595427 Score: 255
Period size: 31 Copynumber: 4.5 Consensus size: 31
55595277 CGTTTACAGT
* *
55595287 AAAGGCTTCGGCCTAGTGATATGATTTACGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
55595318 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
55595349 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
55595380 AATGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
55595411 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
55595428 AACTGTTAAA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:55595488 original size:93 final size:93
Alignment explanation
Indices: 55595290--55595461 Score: 228
Period size: 93 Copynumber: 1.9 Consensus size: 93
55595280 TTACAGTAAA
* * *
55595290 GGCTTCGGCCTAGTGATATGATTTACGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGC
1 GGCTTCGGCCCAGTGATATGATTTACGAAAAGGCTTCGGCCCAGTGATATGATTAACGAAAAGGC
**
55595355 TTCGGCCCAGTGATATGATTTATGAAAT
66 TTCGGCCCAGTGATATGATAGATGAAAT
* *
55595383 GGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGT-A-ACTG-TTAAACG-ACAG
1 GGCTTCGGCCCAGTGATATGATTTACGAAAAGGCTTCGGCCCAGTGATA-TGATT-AACGAAAAG
55595444 GCTTCGGCCCAGT-ATATG
64 GCTTCGGCCCAGTGATATG
55595462 TCAAGACTAA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
90 5 0.07
91 19 0.26
92 5 0.07
93 43 0.60
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (93 bp):
GGCTTCGGCCCAGTGATATGATTTACGAAAAGGCTTCGGCCCAGTGATATGATTAACGAAAAGGC
TTCGGCCCAGTGATATGATAGATGAAAT
Found at i:55599606 original size:28 final size:28
Alignment explanation
Indices: 55599573--55599659 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
55599563 TTCATATGCG
*
55599573 ATGGCCCATTAAGCCCAATCATATTCAT
1 ATGGCCCATTAGGCCCAATCATATTCAT
* *
55599601 ATGGCCCATTAGGCCAAAGTCATATTAAT
1 ATGGCCCATTAGGCCCAA-TCATATTCAT
* * *
55599630 ATGGCCCGTTAGGCCCAGTCACATTCAT
1 ATGGCCCATTAGGCCCAATCATATTCAT
55599658 AT
1 AT
55599660 TCATGCTCAC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
28 26 0.52
29 24 0.48
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (28 bp):
ATGGCCCATTAGGCCCAATCATATTCAT
Found at i:55599631 original size:29 final size:28
Alignment explanation
Indices: 55599573--55599644 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 28
55599563 TTCATATGCG
* * *
55599573 ATGGCCCATTAAGCCCAATCATATTCAT
1 ATGGCCCATTAGGCCAAATCATATTAAT
55599601 ATGGCCCATTAGGCCAAAGTCATATTAAT
1 ATGGCCCATTAGGCCAAA-TCATATTAAT
*
55599630 ATGGCCCGTTAGGCC
1 ATGGCCCATTAGGCC
55599645 CAGTCACATT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 16 0.41
29 23 0.59
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (28 bp):
ATGGCCCATTAGGCCAAATCATATTAAT
Found at i:55599880 original size:8 final size:8
Alignment explanation
Indices: 55599867--55599910 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
55599857 ATAGCCAAAC
*
55599867 TTTCGGTA
1 TTTCGGCA
55599875 TTTCGGCA
1 TTTCGGCA
*
55599883 TTTCGGCT
1 TTTCGGCA
*
55599891 TTTCGACA
1 TTTCGGCA
55599899 TTTCGGCA
1 TTTCGGCA
55599907 TTTC
1 TTTC
55599911 CACTTTTGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.45
Consensus pattern (8 bp):
TTTCGGCA
Found at i:55606540 original size:29 final size:29
Alignment explanation
Indices: 55606505--55606578 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
55606495 GTTGTGAGAT
* *
55606505 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* * *
55606534 TGGCACTAATTGTACGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
55606563 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55606579 TGGTTGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
28 5 0.14
29 32 0.86
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:55610542 original size:47 final size:48
Alignment explanation
Indices: 55610164--55610541 Score: 617
Period size: 47 Copynumber: 8.0 Consensus size: 48
55610154 GCTTTATCAT
* *
55610164 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
55610213 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
55610260 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
55610307 ATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
55610354 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
55610401 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
* *
55610448 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
55610496 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
55610542 GCACTTCCTC
Statistics
Matches: 317, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
47 255 0.80
48 50 0.16
49 12 0.04
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:55610542 original size:71 final size:71
Alignment explanation
Indices: 55610164--55610541 Score: 620
Period size: 71 Copynumber: 5.3 Consensus size: 71
55610154 GCTTTATCAT
* *
55610164 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAA
55610228 GCCCTTTA
64 GCCCTTTA
*
55610236 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
55610300 CCTTTTA
66 CC-TTTA
*
55610307 ATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
*
55610371 CCTTTTG
66 CC-TTTA
*
55610378 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
55610442 CCTTTA
66 CCTTTA
* *
55610448 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
55610513 CCTTTA
66 CCTTTA
55610519 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55610542 GCACTTCCTC
Statistics
Matches: 292, Mismatches: 10, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
70 68 0.23
71 212 0.73
72 12 0.04
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTA
Found at i:55610542 original size:118 final size:118
Alignment explanation
Indices: 55610164--55610541 Score: 679
Period size: 118 Copynumber: 3.2 Consensus size: 118
55610154 GCTTTATCAT
*
55610164 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
55610228 GCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
64 GCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
55610283 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
55610348 CCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
66 CCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
* *
55610401 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
*
55610465 CCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
66 CC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
55610519 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55610542 GCACTTCCTC
Statistics
Matches: 253, Mismatches: 4, Indels: 5
0.97 0.02 0.02
Matches are distributed among these distances:
117 23 0.09
118 218 0.86
119 12 0.05
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (118 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
Found at i:55610613 original size:9 final size:9
Alignment explanation
Indices: 55610599--55610655 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
55610589 ATCTCATGTG
55610599 CATATCATA
1 CATATCATA
*
55610608 CATATCATGTG
1 CATATCA--TA
55610619 CATATCATA
1 CATATCATA
* *
55610628 CATGTCATGTG
1 CATATCA--TA
55610639 CATATCATA
1 CATATCATA
55610648 CATATCAT
1 CATATCAT
55610656 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:55610615 original size:20 final size:20
Alignment explanation
Indices: 55610587--55610657 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
55610577 GCATTTATGA
*
55610587 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
55610607 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
55610627 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
55610647 ACATATCATGT
1 ACATATCATGT
55610658 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:55610622 original size:11 final size:11
Alignment explanation
Indices: 55610592--55610646 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
55610582 TATGAACATC
55610592 TCATGTGCATA
1 TCATGTGCATA
*
55610603 TCA--TACATA
1 TCATGTGCATA
55610612 TCATGTGCATA
1 TCATGTGCATA
* *
55610623 TCA--TACATG
1 TCATGTGCATA
55610632 TCATGTGCATA
1 TCATGTGCATA
55610643 TCAT
1 TCAT
55610647 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:55610740 original size:25 final size:25
Alignment explanation
Indices: 55610694--55610741 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
55610684 ATATATAAAC
* * * *
55610694 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
55610719 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
55610742 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:55612012 original size:27 final size:27
Alignment explanation
Indices: 55611983--55612322 Score: 432
Period size: 27 Copynumber: 12.6 Consensus size: 27
55611973 GGGTATTTTA
* *
55611983 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
55612010 GTAATTCTGTAAATCAAGGGTGAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
55612037 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
55612064 GTAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
55612091 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
55612118 ATAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
55612145 GTAATTATGTAAATTGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
55612172 ATAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
55612199 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
55612226 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
55612253 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
55612280 GTAATTCTAT-AACCTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
55612307 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
55612323 GGAGTACTTT
Statistics
Matches: 273, Mismatches: 36, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.01
27 265 0.97
28 4 0.01
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:55618098 original size:37 final size:37
Alignment explanation
Indices: 55618046--55618154 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
55618036 GGAAACATAT
*
55618046 TCCGGGTAAGACCCGATGGCTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
55618083 TTCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * ** *
55618120 TCCGAGTAAGACCCGATAACTTTGTGCGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
55618155 CGTCTGAGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:55619666 original size:40 final size:40
Alignment explanation
Indices: 55619423--55619654 Score: 295
Period size: 40 Copynumber: 5.8 Consensus size: 40
55619413 GAGAATTGAG
* * *
55619423 AGTGATATATCCGAGCTAAATCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55619463 AGTGATATATCCGGGCTAAGTCCCGAAGGGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** *
55619503 AGTGATGTATCCGGATTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
55619543 AGTGATGTATCCGAGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55619583 AGTGATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * * *
55619623 GGTGTTATATCTGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
55619655 ATCATGCTGG
Statistics
Matches: 168, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 165 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:55623912 original size:47 final size:47
Alignment explanation
Indices: 55623843--55623968 Score: 189
Period size: 47 Copynumber: 2.7 Consensus size: 47
55623833 TTTTGTGTGT
* * *
55623843 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 ATATATGCGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
*
55623890 ATATGTGCGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGCGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
* * *
55623937 ATATATGTGATAAGGCCGAATGACTAATGTGA
1 ATATATGCGATAAGGCCGAATGGCCAATGTGA
55623969 ATTTTGTATG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (47 bp):
ATATATGCGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
Found at i:55624221 original size:37 final size:37
Alignment explanation
Indices: 55624171--55624279 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
55624161 GGAAACATAT
55624171 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
55624208 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
55624245 TCCGAGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
55624280 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:55638436 original size:41 final size:41
Alignment explanation
Indices: 55638391--55638508 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
55638381 TGAAAGATAA
55638391 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
55638432 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55638462 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55638503 ATGTAG
1 ATGTAG
55638509 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:55638447 original size:71 final size:71
Alignment explanation
Indices: 55638359--55638522 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55638349 GAGATGTATC
55638359 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55638424 AGGACA
66 AGGACA
55638430 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55638495 AGGACA
66 AGGACA
55638501 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
55638523 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:55645184 original size:40 final size:40
Alignment explanation
Indices: 55645125--55645332 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
55645115 CAATTGAATG
* * * *
55645125 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
55645165 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
55645205 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
55645245 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
55645285 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
55645325 ATATCCGG
1 ATATCCGG
55645333 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:55645263 original size:80 final size:80
Alignment explanation
Indices: 55645127--55645332 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
55645117 ATTGAATGAT
* * ** * * *
55645127 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
55645191 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
55645207 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
55645272 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
55645287 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
55645333 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:55649313 original size:40 final size:40
Alignment explanation
Indices: 55649268--55649434 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
55649258 CGGAATATAA
55649268 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55649308 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
55649348 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
55649388 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
55649427 CCGGATAT
1 CCGGATAT
55649435 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55649418 original size:80 final size:79
Alignment explanation
Indices: 55649268--55649434 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
55649258 CGGAATATAA
* *
55649268 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
55649333 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
55649348 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
55649410 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
55649427 CCGGATAT
1 CCGGATAT
55649435 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:55650283 original size:17 final size:19
Alignment explanation
Indices: 55650260--55650305 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
55650250 AAGAAGCATG
55650260 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
55650278 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
55650296 AATCATGCTC
1 AATCATGCTC
55650306 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:55657299 original size:40 final size:40
Alignment explanation
Indices: 55657254--55657419 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
55657244 CGGAATATAA
55657254 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55657294 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
55657334 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
55657373 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
55657412 CCGGATAT
1 CCGGATAT
55657420 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55657376 original size:39 final size:38
Alignment explanation
Indices: 55657270--55657381 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
55657260 ATAATCACGT
* * *
55657270 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
55657310 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
55657349 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
55657382 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:55657403 original size:79 final size:78
Alignment explanation
Indices: 55657270--55657419 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
55657260 ATAATCACGT
*
55657270 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
55657335 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
55657349 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
55657412 CCGGATAT
64 CCGGATAT
55657420 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:55658268 original size:17 final size:19
Alignment explanation
Indices: 55658245--55658290 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
55658235 AAGAAGCATG
55658245 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
55658263 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
55658281 AATCATGCTC
1 AATCATGCTC
55658291 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:55660222 original size:14 final size:14
Alignment explanation
Indices: 55660203--55660231 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
55660193 TTCAATTGGT
55660203 CGAAACTTTTCTGA
1 CGAAACTTTTCTGA
55660217 CGAAACTTTTCTGA
1 CGAAACTTTTCTGA
55660231 C
1 C
55660232 ACTTTCCGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (14 bp):
CGAAACTTTTCTGA
Found at i:55664459 original size:24 final size:24
Alignment explanation
Indices: 55664432--55664614 Score: 312
Period size: 24 Copynumber: 7.6 Consensus size: 24
55664422 CTTATTATGT
* * *
55664432 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
55664456 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
55664480 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
55664504 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
55664528 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
55664552 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
55664576 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
55664600 TCGCACACATAGTGC
1 TCGCACACATAGTGC
55664615 ATTTGAGATA
Statistics
Matches: 155, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 155 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:55664466 original size:48 final size:47
Alignment explanation
Indices: 55664410--55664614 Score: 284
Period size: 48 Copynumber: 4.3 Consensus size: 47
55664400 ACCGAATGTG
* ** * * *
55664410 GCACACATAGTGCTTATTATGTTCGCACACATAGAGCTATAGCAAATC
1 GCACACATAGTGCTTAGTA-AATCGCACACATAGTGCCATAGTAAATC
55664458 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATCGCACACATAGTGCCATAGTAAATC
*
55664506 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGCCATAGTAAATC
* * *
55664554 GCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGCCATAGTAAATC
55664602 GCACACATAGTGC
1 GCACACATAGTGC
55664615 ATTTGAGATA
Statistics
Matches: 146, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
47 1 0.01
48 140 0.96
49 5 0.03
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (47 bp):
GCACACATAGTGCTTAGTAAATCGCACACATAGTGCCATAGTAAATC
Found at i:55672742 original size:32 final size:32
Alignment explanation
Indices: 55672706--55672770 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
55672696 CGTAGATTTA
* *
55672706 ACTAATTAAACTATGTAAAAGAAACAGAGTGT
1 ACTAATTAAACTATGCAAAAGAAACAAAGTGT
55672738 ACTAATTAAACTATGCAAAAGAAACAAAGTGT
1 ACTAATTAAACTATGCAAAAGAAACAAAGTGT
55672770 A
1 A
55672771 AATTGATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (32 bp):
ACTAATTAAACTATGCAAAAGAAACAAAGTGT
Found at i:55674670 original size:15 final size:15
Alignment explanation
Indices: 55674646--55674678 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
55674636 AAGTGATCTT
55674646 TAGATGT-AAAACTA
1 TAGATGTAAAAACTA
55674660 TAGATTGTAAAAACTA
1 TAGA-TGTAAAAACTA
55674676 TAG
1 TAG
55674679 TAAACTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 3 0.18
16 10 0.59
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (15 bp):
TAGATGTAAAAACTA
Done.