Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 201 of 328
Found at i:60312214 original size:20 final size:20
Alignment explanation
Indices: 60312189--60312256 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
60312179 CTCCTATCTT
60312189 TTTATTCTTA-TTTTATTTTA
1 TTTATT-TTATTTTTATTTTA
*
60312209 TTTATTTTATTTTTATTTTT
1 TTTATTTTATTTTTATTTTA
**
60312229 TTTATTTTCATTTCAATTTTA
1 TTTATTTT-ATTTTTATTTTA
60312250 -TTATTTT
1 TTTATTTT
60312257 GAAAGACATA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.07
20 30 0.71
21 9 0.21
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTATTTTATTTTTATTTTA
Found at i:60312241 original size:6 final size:5
Alignment explanation
Indices: 60312188--60312251 Score: 69
Period size: 5 Copynumber: 12.4 Consensus size: 5
60312178 CCTCCTATCT
60312188 TTTTA TTCTTA TTTTA TTTTA -TTTA TTTTA TTTTTA TTTT- TTTTA TTTTCA
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTT-A
*
60312239 TTTCAA TTTTA TT
1 TTT-TA TTTTA TT
60312252 ATTTTGAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
4 8 0.16
5 25 0.49
6 18 0.35
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:60315177 original size:13 final size:13
Alignment explanation
Indices: 60315161--60315193 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
60315151 TTTAATTGAA
*
60315161 TTAGTTAATTAGT
1 TTAGATAATTAGT
60315174 TTAGATAATTAGT
1 TTAGATAATTAGT
60315187 TTA-ATAA
1 TTAGATAA
60315194 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:60316672 original size:18 final size:18
Alignment explanation
Indices: 60316630--60316664 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60316620 TGAAAATAGT
*
60316630 CAAAATTTATTTTTAAGC
1 CAAAATTTATTTCTAAGC
60316648 CAAAATTTATTTCTAAG
1 CAAAATTTATTTCTAAG
60316665 TATAAATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (18 bp):
CAAAATTTATTTCTAAGC
Found at i:60318733 original size:6 final size:6
Alignment explanation
Indices: 60318703--60318877 Score: 80
Period size: 6 Copynumber: 28.3 Consensus size: 6
60318693 TAAAAACATT
* * *
60318703 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
60318750 GTGACAGA ATCAAA ATCAAA ATTAGGTA A-CAGA ATCAGA ATCA-A TATCAGGTA
1 AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA -ATCA-G-A
* *
60318803 A-CAGA ATCAGA ATCTGA A-CTAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATC-AGA ATCAGA ATCA-G-A ATCAGA ATCAGA
60318851 ATCA-A TATCAGGTA AT-AGA ATCAGA AT
1 ATCAGA -ATCA-G-A ATCAGA ATCAGA AT
60318878 GTCAATACAA
Statistics
Matches: 131, Mismatches: 15, Indels: 46
0.68 0.08 0.24
Matches are distributed among these distances:
5 14 0.11
6 96 0.73
7 11 0.08
8 8 0.06
9 2 0.02
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:60318761 original size:25 final size:24
Alignment explanation
Indices: 60318730--60318816 Score: 120
Period size: 25 Copynumber: 3.5 Consensus size: 24
60318720 AATGAGAATT
*
60318730 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCA-AATCAGGTAAC
* *
60318755 AGAATCAAAATCAAAATTAGGTAAC
1 AGAATCAGAATC-AAATCAGGTAAC
60318780 AGAATCAGAATCAATATCAGGTAAC
1 AGAATCAGAATCAA-ATCAGGTAAC
60318805 AGAATCAGAATC
1 AGAATCAGAATC
60318817 TGAACTAGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
24 2 0.04
25 52 0.95
26 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.18
Consensus pattern (24 bp):
AGAATCAGAATCAAATCAGGTAAC
Found at i:60319044 original size:27 final size:26
Alignment explanation
Indices: 60318996--60319055 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
60318986 GCGAGGCTGC
*
60318996 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
60319023 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
60319049 TAGATAT
1 CAGATAT
60319056 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60319142 original size:27 final size:26
Alignment explanation
Indices: 60319094--60319145 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
60319084 CCGAGGCTGC
*
60319094 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
60319120 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
60319146 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60319420 original size:27 final size:27
Alignment explanation
Indices: 60319390--60319613 Score: 267
Period size: 27 Copynumber: 8.3 Consensus size: 27
60319380 GGGGTAAAAT
* *
60319390 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
60319417 GGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
60319444 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
60319471 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* *
60319498 GGTAATTATACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
60319525 AGTAATTCTACCATACAGGGGTATTT-
1 GGTAATTTTACCCTACAGGGGTATTTC
60319551 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
*
60319578 GGT-ATTTCTACCCTACAGGGGTATTTT
1 GGTAATTT-TACCCTACAGGGGTATTTC
60319605 GGTAATTTT
1 GGTAATTTT
60319614 GTAAATCGAG
Statistics
Matches: 171, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
25 3 0.02
26 22 0.13
27 139 0.81
28 7 0.04
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:60319456 original size:54 final size:54
Alignment explanation
Indices: 60319390--60319611 Score: 302
Period size: 54 Copynumber: 4.1 Consensus size: 54
60319380 GGGGTAAAAT
* * * * *
60319390 GGTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
60319444 AGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* ** *
60319498 GGTAATTATACCCTACAGGGGTATTTTAGTAATTCTACCATACAGGGGTATTT-
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
60319551 GGTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
60319605 GGTAATT
1 GGTAATT
60319612 TTGTAAATCG
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 47 0.32
54 98 0.68
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:60319515 original size:81 final size:80
Alignment explanation
Indices: 60319389--60319603 Score: 333
Period size: 81 Copynumber: 2.7 Consensus size: 80
60319379 AGGGGTAAAA
* * *
60319389 TGGTAATTT-TACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCT
1 TGGT-ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCT
*
60319453 ACCCTACAGGGGTATT
65 ACCATACAGGGGTATT
* *
60319469 TCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTACAGGGGTATTTTAGTAATTCT
1 T-GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCT
60319534 ACCATACAGGGGTATT
65 ACCATACAGGGGTATT
* *
60319550 TGGTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
60319604 TGGTAATTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
80 55 0.44
81 69 0.56
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (80 bp):
TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTA
CCATACAGGGGTATT
Found at i:60319654 original size:107 final size:108
Alignment explanation
Indices: 60319449--60319662 Score: 233
Period size: 107 Copynumber: 2.0 Consensus size: 108
60319439 ATTTCAGTAA
**
60319449 TTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTAC
1 TTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTATACAATAC
*** * * *
60319514 AGGGGTATTTTAGTAATTCTACCATACAGGGGTA-TTTGGTAT
66 AGGGGTAAAATAATAATTCTACAATACAAGGGTATTTTGGTAT
* * *
60319556 TTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTTGGTAATTTTGTA-AAT
1 TTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAA--TTATACAAT
*
60319620 -C-GAGGGTAAAATAATAATTTTGTA-AAT-CAAGGGTATTTTGGTA
64 ACAG-GGGTAAAATAATAA--TTCTACAATACAAGGGTATTTTGGTA
60319663 ATTTTACAAG
Statistics
Matches: 89, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
106 1 0.01
107 70 0.79
108 10 0.11
109 8 0.09
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (108 bp):
TTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTATACAATAC
AGGGGTAAAATAATAATTCTACAATACAAGGGTATTTTGGTAT
Found at i:60319664 original size:27 final size:27
Alignment explanation
Indices: 60319647--60320098 Score: 449
Period size: 27 Copynumber: 16.7 Consensus size: 27
60319637 TTTTGTAAAT
**
60319647 CAAGGGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** ***
60319674 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** *** * *
60319701 TGAGGGTATTTCAATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
60319728 C-AGAGGTATTTTGGTAATTTT-CGAAAC
1 CAAG-GGTATTTTGGTAATTTTAC-AAAC
* * *
60319755 TAGGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
60319782 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
60319809 TAGGGGTATTTTGGTAAATTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
60319836 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*** ***
60319863 TTGGGGTATTTTGGTAATTTGGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
60319890 CAAGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
60319917 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
60319944 CAAGGGCATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
60319971 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
60319998 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * **
60320025 TAGGGGTATTTTTGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
60320052 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
60320079 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
60320099 GGTAAACTAA
Statistics
Matches: 354, Mismatches: 67, Indels: 8
0.83 0.16 0.02
Matches are distributed among these distances:
26 3 0.01
27 349 0.99
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:60320090 original size:54 final size:54
Alignment explanation
Indices: 60319732--60320105 Score: 552
Period size: 54 Copynumber: 6.9 Consensus size: 54
60319722 ACAAATCAGA
* ** * *
60319732 GGTATTTTGGTAATTTT-CGAAACTAGGGGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTAC-AAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
* *
60319786 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAAATTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
* * *
60319840 GGTATTTTAGTAATTTTACAAACTTGGGGTATTTTGGTAATTTGGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
* * * *
60319894 GGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
* *
60319948 GGCATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
*
60320002 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTTGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
* * *
60320056 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAAC
60320106 TAAAGTATTC
Statistics
Matches: 291, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
54 290 1.00
55 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
Found at i:60320105 original size:27 final size:27
Alignment explanation
Indices: 60319715--60320098 Score: 473
Period size: 27 Copynumber: 14.2 Consensus size: 27
60319705 GGTATTTCAA
* * *
60319715 TAATTTCACAAATCAGAGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
60319742 TAATTTT-CGAAACTAGGGGTATTTTGA
1 TAATTTTAC-AAACCAGGGGTATTTTGG
*
60319769 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
60319796 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
60319823 TAAATTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
**
60319850 TAATTTTACAAACTTGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*** * *
60319877 TAATTTGGTAAACCAAGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
60319904 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
60319931 TGATTTTATAAACCAAGGGCATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
60319958 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
** *
60319985 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
60320012 TAATTTTACAAACTAGGGGTATTTTTG
1 TAATTTTACAAACCAGGGGTATTTTGG
** * *
60320039 TAATTTTGTAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
60320066 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
60320093 TAATTT
1 TAATTT
60320099 GGTAAACTAA
Statistics
Matches: 301, Mismatches: 54, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 1 0.00
27 299 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:60322103 original size:6 final size:6
Alignment explanation
Indices: 60322073--60322247 Score: 87
Period size: 6 Copynumber: 28.3 Consensus size: 6
60322063 TAAAAACATT
* * *
60322073 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
60322120 GTGACAGA ATCAAA ATCAAA ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA
1 AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
60322173 A-CAGA ATCAGA ATCTGA A-CTAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATC-AGA ATCAGA ATCA-G-A ATCAGA ATCAGA
60322221 ATCA-A TATCAGGTA AT-AGA ATCAGA AT
1 ATCAGA -ATCA-G-A ATCAGA ATCAGA AT
60322248 GTCAATACAA
Statistics
Matches: 131, Mismatches: 17, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
5 13 0.10
6 97 0.74
7 12 0.09
8 8 0.06
9 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:60322131 original size:25 final size:25
Alignment explanation
Indices: 60322100--60322186 Score: 129
Period size: 25 Copynumber: 3.5 Consensus size: 25
60322090 AATGAGAATT
*
60322100 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* * *
60322125 AGAATCAAAATCAAAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
60322150 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
60322175 AGAATCAGAATC
1 AGAATCAGAATC
60322187 TGAACTAGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:60322219 original size:19 final size:19
Alignment explanation
Indices: 60322155--60322222 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
60322145 GTAACAGAAT
* *
60322155 CAGAATCAGTATCAGGTAA
1 CAGAATCAGAATTAGGTAA
60322174 CAGAATCAGAATCT--G-AA
1 CAGAATCAGAAT-TAGGTAA
60322191 CTAGAATCAGAATTAGGTAA
1 C-AGAATCAGAATTAGGTAA
60322211 CAGAATCAGAAT
1 CAGAATCAGAAT
60322223 CAATATCAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
17 4 0.10
18 12 0.29
19 23 0.55
20 3 0.07
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.21
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTAA
Found at i:60322414 original size:27 final size:26
Alignment explanation
Indices: 60322366--60322425 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
60322356 GCGAGGCTGC
*
60322366 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
60322393 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
60322419 TAGATAT
1 CAGATAT
60322426 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60322512 original size:27 final size:26
Alignment explanation
Indices: 60322464--60322515 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
60322454 CCGAGGTTGC
*
60322464 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
60322490 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
60322516 TTGCTGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60322790 original size:27 final size:27
Alignment explanation
Indices: 60322760--60322984 Score: 267
Period size: 27 Copynumber: 8.3 Consensus size: 27
60322750 GGGGTAAAAT
* *
60322760 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
60322787 GGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
60322814 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
60322841 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* *
60322868 GGTAATTATACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* * * *
60322895 AGTAATTCTACCATACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
60322922 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
*
60322949 GGT-ATTTCTACCCTACAGGGGTATTTT
1 GGTAATTT-TACCCTACAGGGGTATTTC
60322976 GGTAATTTT
1 GGTAATTTT
60322985 GTAAATCGAG
Statistics
Matches: 172, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.03
27 159 0.92
28 7 0.04
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:60322826 original size:54 final size:54
Alignment explanation
Indices: 60322760--60322982 Score: 302
Period size: 54 Copynumber: 4.1 Consensus size: 54
60322750 GGGGTAAAAT
* * * * *
60322760 GGTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
60322814 AGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* ** * *
60322868 GGTAATTATACCCTACAGGGGTATTTTAGTAATTCTACCATACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
60322922 GGTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
60322976 GGTAATT
1 GGTAATT
60322983 TTGTAAATCG
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 146 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:60322975 original size:81 final size:81
Alignment explanation
Indices: 60322759--60322982 Score: 342
Period size: 81 Copynumber: 2.8 Consensus size: 81
60322749 AGGGGTAAAA
* * * *
60322759 TGGTAATTT-TACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCT
1 TGGT-ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCT
*
60322823 ACCCTACAGGGGTATTT
65 ACCATACAGGGGTATTT
* *
60322840 CGGTATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTACAGGGGTATTTTAGTAATTCTA
1 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
60322905 CCATACAGGGGTATTT
66 CCATACAGGGGTATTT
* * *
60322921 TGGTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTTGGTAATT
1 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATT
60322983 TTGTAAATCG
Statistics
Matches: 130, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
80 4 0.03
81 126 0.97
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (81 bp):
TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
CCATACAGGGGTATTT
Found at i:60322997 original size:27 final size:26
Alignment explanation
Indices: 60322855--60323469 Score: 385
Period size: 27 Copynumber: 22.8 Consensus size: 26
60322845 TTTCTACCCT
* * **
60322855 ACAAGGGTATTTCGGTAATTATACCCT
1 ACAAGGGTATTTTGGTAATTTTA-CAA
* * * *
60322882 ACAGGGGTATTTTAGTAATTCTACCAT
1 ACAAGGGTATTTTGGTAATTTTA-CAA
* **
60322909 ACAGGGGTATTTTGGT-ATTTCTACCCT
1 ACAAGGGTATTTTGGTAATTT-TA-CAA
* * **
60322936 ACAGGGGTATTTCGGT-ATTTCTACCCT
1 ACAAGGGTATTTTGGTAATTT-TA-CAA
* **
60322963 ACAGGGGTATTTTGGTAATTTTGTAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* *** ** **
60322989 ATCGAGGGTAAAATAATAATTTTGTAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
60323016 ATCAAGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *** *
60323043 GTCGAGGGTATTTCAATAATTTTACAGG
1 -ACAAGGGTATTTTGGTAATTTTACA-A
*** *** *
60323071 TTGAGGGTATTTCAATAATTTCACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
60323097 ATC-AGAGGTATTTTGGTAATTTT-CGAA
1 A-CAAG-GGTATTTTGGTAATTTTAC-AA
* *
60323124 ACTAGGGGTATTTTGATAATTTTACAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
60323151 ACTAGGGGTATTTTGGTAATTTTACAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
* * *
60323178 ACTAGGGGTATTTTGGTAAATTTATAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
60323205 ACCAAGGGTATTTTAGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
**
60323232 ACTTGGGGTATTTTGGTAATTTGGTA-AA
1 AC-AAGGGTATTTTGGTAATTT--TACAA
* *
60323260 CCAAGGGTATTTTGATAATTTTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* * *
60323286 ACCAGGGGTATTTTGGTGATTTTATAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
*
60323313 ACCAAGGGCATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* **
60323340 ACCAGGGGTATTTTGGTAATTTTGTAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
60323367 ACCAAGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * **
60323394 ACTAGGGGTATTTTTGTAATTTTGTAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
60323421 ACCAAGGGTATTTTAGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
*
60323448 ACCAGGGGTATTTTGGTAATTT
1 A-CAAGGGTATTTTGGTAATTT
60323470 GGTAAACTAA
Statistics
Matches: 483, Mismatches: 86, Indels: 38
0.80 0.14 0.06
Matches are distributed among these distances:
25 2 0.00
26 12 0.02
27 456 0.94
28 11 0.02
29 2 0.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (26 bp):
ACAAGGGTATTTTGGTAATTTTACAA
Found at i:60323461 original size:54 final size:54
Alignment explanation
Indices: 60323103--60323476 Score: 552
Period size: 54 Copynumber: 6.9 Consensus size: 54
60323093 ACAAATCAGA
* ** * *
60323103 GGTATTTTGGTAATTTT-CGAAACTAGGGGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTAC-AAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
* *
60323157 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAAATTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
* * *
60323211 GGTATTTTAGTAATTTTACAAACTTGGGGTATTTTGGTAATTTGGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
* * * *
60323265 GGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
* *
60323319 GGCATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
*
60323373 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTTGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
* * *
60323427 GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAAC
60323477 TAAAGTATTC
Statistics
Matches: 291, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
54 290 1.00
55 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAG
Found at i:60323476 original size:27 final size:27
Alignment explanation
Indices: 60323086--60323469 Score: 473
Period size: 27 Copynumber: 14.2 Consensus size: 27
60323076 GGTATTTCAA
* * *
60323086 TAATTTCACAAATCAGAGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
60323113 TAATTTT-CGAAACTAGGGGTATTTTGA
1 TAATTTTAC-AAACCAGGGGTATTTTGG
*
60323140 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
60323167 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
60323194 TAAATTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
**
60323221 TAATTTTACAAACTTGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*** * *
60323248 TAATTTGGTAAACCAAGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
60323275 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
60323302 TGATTTTATAAACCAAGGGCATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
60323329 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
** *
60323356 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
60323383 TAATTTTACAAACTAGGGGTATTTTTG
1 TAATTTTACAAACCAGGGGTATTTTGG
** * *
60323410 TAATTTTGTAAACCAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
60323437 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
60323464 TAATTT
1 TAATTT
60323470 GGTAAACTAA
Statistics
Matches: 301, Mismatches: 54, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 1 0.00
27 299 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:60325475 original size:6 final size:6
Alignment explanation
Indices: 60325445--60325619 Score: 87
Period size: 6 Copynumber: 28.3 Consensus size: 6
60325435 AAAAAACATT
* * *
60325445 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
60325492 GTGACAGA ATCAAA ATCAAA ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA
1 AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
60325545 A-CAGA ATCAGA ATCTGA A-CTAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATC-AGA ATCAGA ATCA-G-A ATCAGA ATCAGA
60325593 ATCA-A TATCAGGTA AT-AGA ATCAGA AT
1 ATCAGA -ATCA-G-A ATCAGA ATCAGA AT
60325620 GTCAATACAA
Statistics
Matches: 131, Mismatches: 17, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
5 13 0.10
6 97 0.74
7 12 0.09
8 8 0.06
9 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:60325503 original size:25 final size:25
Alignment explanation
Indices: 60325472--60325558 Score: 129
Period size: 25 Copynumber: 3.5 Consensus size: 25
60325462 AATGAGAATT
*
60325472 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* * *
60325497 AGAATCAAAATCAAAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
60325522 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
60325547 AGAATCAGAATC
1 AGAATCAGAATC
60325559 TGAACTAGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:60325591 original size:19 final size:19
Alignment explanation
Indices: 60325527--60325594 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
60325517 GTAACAGAAT
* *
60325527 CAGAATCAGTATCAGGTAA
1 CAGAATCAGAATTAGGTAA
60325546 CAGAATCAGAATCT--G-AA
1 CAGAATCAGAAT-TAGGTAA
60325563 CTAGAATCAGAATTAGGTAA
1 C-AGAATCAGAATTAGGTAA
60325583 CAGAATCAGAAT
1 CAGAATCAGAAT
60325595 CAATATCAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
17 4 0.10
18 12 0.29
19 23 0.55
20 3 0.07
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.21
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTAA
Found at i:60325786 original size:27 final size:26
Alignment explanation
Indices: 60325738--60325797 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
60325728 GCGAGGCTGC
*
60325738 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
60325765 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
60325791 TAGATAT
1 CAGATAT
60325798 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60325884 original size:27 final size:26
Alignment explanation
Indices: 60325836--60325887 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
60325826 CCGAGGTTGC
*
60325836 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
60325862 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
60325888 TTGCTGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:60326162 original size:27 final size:27
Alignment explanation
Indices: 60326132--60326515 Score: 344
Period size: 27 Copynumber: 14.3 Consensus size: 27
60326122 GGGGTAAAAT
*
60326132 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
60326159 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* *
60326186 AGTAATTCTACCCTAC-AGGGTTATTTC
1 GGTAATTTTACCCTACAAGGG-TATTTC
60326213 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
60326240 GGTAATTATACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
60326267 AGTAATTCTACCCTAC-AGGGATATTTC
1 GGTAATTTTACCCTACAAGGG-TATTTC
* **
60326294 GAT-ATTTCTACCCT---AGGGTAAAAT-
1 GGTAATTT-TACCCTACAAGGGT-ATTTC
* *
60326318 GGTAATTTTATCCTACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
60326345 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
** *
60326372 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
60326399 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
60326426 GGTAATTATACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
60326453 AGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
60326480 GGT-ATTTCTACCCTACAGGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
60326507 GGTAATTTT
1 GGTAATTTT
60326516 GTAAATCGAG
Statistics
Matches: 297, Mismatches: 41, Indels: 38
0.79 0.11 0.10
Matches are distributed among these distances:
24 8 0.03
25 10 0.03
26 24 0.08
27 238 0.80
28 17 0.06
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:60326198 original size:54 final size:53
Alignment explanation
Indices: 60326132--60326513 Score: 389
Period size: 54 Copynumber: 7.1 Consensus size: 53
60326122 GGGGTAAAAT
* * *
60326132 GGTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGG-GTATTTC
* *
60326186 AGTAATTCTACCCTAC-AGGGTTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTCGGTAATTCTACCCTAC-AGGGTATTTC
* * **
60326240 GGTAATTATACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGG-TATTTC
* * ** * * *
60326294 GATATTTCTACCCT---AGGGTAAAAT-GGTAATTTTATCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGT-ATTTCGGTAATTCTACCCTAC-AGGGTATTTC
* **
60326345 GGTAATTCTACCTTAC-AGGAGTATTTCAATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTCGGTAATTCTACCCTAC-AGGGTATTTC
* * *
60326399 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTC
* * * * *
60326453 AGTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTC
60326507 GGTAATT
1 GGTAATT
60326514 TTGTAAATCG
Statistics
Matches: 273, Mismatches: 43, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
51 33 0.12
52 6 0.02
53 14 0.05
54 211 0.77
55 9 0.03
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTATTTC
Found at i:60326275 original size:81 final size:80
Alignment explanation
Indices: 60326136--60326513 Score: 442
Period size: 81 Copynumber: 4.7 Consensus size: 80
60326126 TAAAATGGTA
* * * *
60326136 ATTT-TACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
**
60326200 ACAGGGTTATTTCGGT
66 ACAGGG-TATTTCAAT
* **
60326216 ATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
*
60326281 ACAGGGATATTTCGAT
66 ACAGGG-TATTTCAAT
** * * * * *
60326297 ATTTCTACCCT---AGGGTAAAAT-GGTAATTTTATCCTACAAGGGTATCTCGGTAATTCTACCT
1 ATTTCTACCCTACAAGGGT-ATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
60326358 TACAGGAGTATTTCAAT
65 TACAGG-GTATTTCAAT
* * * *
60326375 AATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTATACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
* *
60326440 ACAGGGGTATTTTAGT
66 ACA-GGGTATTTCAAT
* * *
60326456 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTTGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATT
60326514 TTGTAAATCG
Statistics
Matches: 258, Mismatches: 32, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
78 62 0.24
79 3 0.01
80 6 0.02
81 185 0.72
82 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (80 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
ACAGGGTATTTCAAT
Found at i:60326437 original size:186 final size:187
Alignment explanation
Indices: 60326116--60326494 Score: 690
Period size: 186 Copynumber: 2.0 Consensus size: 187
60326106 GTCATTTAAC
60326116 ACCCTAGGGGTAAAATGGTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGAGT
1 ACCCTAGGGGTAAAATGGTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGAGT
*
60326181 ATTTCAGTAATTCTACCCTACAGGGTTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAAT
66 ATTTCAATAATTCTACCCTACAGGGTTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAAT
60326246 TATACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCGATATTTCT
131 TATACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCGATATTTCT
*
60326303 ACCCTA-GGGTAAAATGGTAATTTTATCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGAGT
1 ACCCTAGGGGTAAAATGGTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGAGT
60326367 ATTTCAATAATTCTACCCTACAAGGG-TATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAA
66 ATTTCAATAATTCTACCCTAC-AGGGTTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAA
* * *
60326431 TTATACCCTACAGGGGTATTTTAGTATTTCTACCCTACAGGGGTATTTCGGTATTTCT
130 TTATACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCGATATTTCT
60326489 ACCCTA
1 ACCCTA
60326495 CAGGGGTATT
Statistics
Matches: 186, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
186 176 0.95
187 10 0.05
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (187 bp):
ACCCTAGGGGTAAAATGGTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCTTACAGGAGT
ATTTCAATAATTCTACCCTACAGGGTTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAAT
TATACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGATATTTCGATATTTCT
Found at i:60326593 original size:27 final size:27
Alignment explanation
Indices: 60326563--60326627 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
60326553 GGTACTTTGG
*
60326563 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAAGGTATTTCAA
* * * *
60326590 TAATTTTACAGGTTGAAGGTATTTTAG
1 TAATTTTACAAGTCGAAGGTATTTCAA
*
60326617 TAATTTCACAA
1 TAATTTTACAA
60326628 ATTAGGGGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAGTCGAAGGTATTTCAA
Found at i:60326637 original size:27 final size:27
Alignment explanation
Indices: 60326607--60326942 Score: 471
Period size: 27 Copynumber: 12.6 Consensus size: 27
60326597 ACAGGTTGAA
* * **
60326607 GGTATTTTAGTAATTTCACAAATTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
60326634 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
60326661 GGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
60326688 GGTATTTTGGTAATTTTACAAACTA-G
1 GGTATTTTGGTAATTTTACAAACCAGG
*
60326714 GGTATTTTGGTAATTTTACAAACTA-G
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
60326740 GGTATTTTAGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*** *
60326767 GGTATTTTGGTAATTTGGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
60326794 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
** *
60326821 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
60326848 GGTA-TTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* * *
60326874 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
60326901 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
60326928 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
60326943 CGGTAAATTA
Statistics
Matches: 275, Mismatches: 32, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
26 74 0.27
27 201 0.73
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:60326959 original size:80 final size:80
Alignment explanation
Indices: 60326607--60326942 Score: 417
Period size: 80 Copynumber: 4.2 Consensus size: 80
60326597 ACAGGTTGAA
* * ** * *
60326607 GGTATTTTAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT-GA
1 GGTATTTTGGTAATTTGACAAACCA-AGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-
60326671 TAATTTTACAAACCAGG
64 TAATTTTACAAACCAGG
* * * *
60326688 GGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAA-CTAGGGTATTTTAGTA
1 GGTATTTTGGTAATTTGACAAACCAAGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTA
*
60326752 ATTTTACAAACTAGG
66 ATTTTACAAACCAGG
** * *
60326767 GGTATTTTGGTAATTTGGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTGACAAACCAA-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGT
** *
60326832 AATTTTGTAAACCAAG
65 AATTTTACAAACCAGG
* * * *
60326848 GGTA-TTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGT
1 GGTATTTTGGTAATTTGACAAACCA-AGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGT
60326912 AATTTTACAAACCAGG
65 AATTTTACAAACCAGG
60326928 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
60326943 CGGTAAATTA
Statistics
Matches: 221, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
79 47 0.21
80 114 0.52
81 60 0.27
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
GGTATTTTGGTAATTTGACAAACCAAGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTA
ATTTTACAAACCAGG
Found at i:60329118 original size:46 final size:46
Alignment explanation
Indices: 60329068--60329192 Score: 223
Period size: 46 Copynumber: 2.7 Consensus size: 46
60329058 GGTTGAGCAT
*
60329068 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
60329114 CCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
60329160 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
60329193 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:60329454 original size:19 final size:20
Alignment explanation
Indices: 60329417--60329454 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
60329407 ATAAGGTGGT
60329417 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
60329437 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
60329455 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:60338222 original size:19 final size:18
Alignment explanation
Indices: 60338185--60338228 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
60338175 ATACATACAG
60338185 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
60338202 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
60338221 TACTAATT
1 TAATAATT
60338229 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:60339704 original size:46 final size:46
Alignment explanation
Indices: 60339654--60339776 Score: 210
Period size: 46 Copynumber: 2.7 Consensus size: 46
60339644 TTGAGCATCT
*
60339654 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAAGCCC
*
60339700 GAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAAAGCCC
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAAGCCC
* *
60339746 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTA
60339777 GGGGCGGGTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAAGCCC
Found at i:60340038 original size:19 final size:20
Alignment explanation
Indices: 60340001--60340038 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
60339991 ATAAGGTGGT
60340001 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
60340021 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
60340039 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:60341132 original size:24 final size:24
Alignment explanation
Indices: 60341087--60341133 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
60341077 CTGTCAGGAG
** *
60341087 AGGATTTAGGAGTTGATTAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
60341111 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
60341134 GGAAATCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.38, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:60342568 original size:27 final size:27
Alignment explanation
Indices: 60342528--60342639 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
60342518 AGGAAGCGTC
* *
60342528 CTGGTGGCTATGCCACAATCATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
60342555 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
60342582 CTGGTGGCTCTGCCACGATTATCTGCAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
60342610 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
60342636 CTGG
1 CTGG
60342640 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.66
28 17 0.23
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:60342634 original size:54 final size:54
Alignment explanation
Indices: 60342528--60342639 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
60342518 AGGAAGCGTC
* *
60342528 CTGGTGGCTATGCCACAATCATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATCATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
60342582 CTGGTGGCTCTGCCACGATTATCTGCATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATCATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
60342636 CTGG
1 CTGG
60342640 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATCATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:60347526 original size:17 final size:17
Alignment explanation
Indices: 60347499--60347544 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
60347489 TATCATTTAC
*
60347499 CATTTATCGGGCATTATT
1 CATTGATCGGGCATT-TT
60347517 -ATTGATCGGGCATTTT
1 CATTGATCGGGCATTTT
*
60347533 CATTTATCGGGC
1 CATTGATCGGGC
60347545 TATAACGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 23 0.92
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (17 bp):
CATTGATCGGGCATTTT
Found at i:60349420 original size:17 final size:17
Alignment explanation
Indices: 60349398--60349434 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
60349388 ACAGAAGCTT
60349398 ACACATCATATAATCTG
1 ACACATCATATAATCTG
60349415 ACACATCATATAATCTG
1 ACACATCATATAATCTG
60349432 ACA
1 ACA
60349435 ATCTCAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.27
Consensus pattern (17 bp):
ACACATCATATAATCTG
Found at i:60359515 original size:13 final size:13
Alignment explanation
Indices: 60359493--60359522 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60359483 CTAAGCCACC
60359493 TCACACGGGCGTG
1 TCACACGGGCGTG
*
60359506 TCACATGGGCGTG
1 TCACACGGGCGTG
60359519 TCAC
1 TCAC
60359523 CCAAGCTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:60361288 original size:28 final size:29
Alignment explanation
Indices: 60361176--60361300 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
60361166 GAAAGCATGT
*
60361176 ATATGAATGTGATTTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
60361205 ATATGAATGTGATTTGGGCCTAATGGGCA
1 ATATGAATGTGATTTGGGCCTAATGGGCC
**
60361234 ATACAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
60361263 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
60361291 ATATGCATGT
1 ATATGAATGT
60361301 ATGTAGACTT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 23 0.27
29 62 0.73
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:60366774 original size:19 final size:20
Alignment explanation
Indices: 60366723--60366780 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
60366713 TACCCTAAAC
* **
60366723 TCTCCACTCTTCTTTCATTT
1 TCTCCCCTCTTCTTTCCCTT
60366743 TCTCCCCTC-TCTTTCCCTT
1 TCTCCCCTCTTCTTTCCCTT
*
60366762 T-TCCCCTCTTCTTACCCTT
1 TCTCCCCTCTTCTTTCCCTT
60366781 GCAAGAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 7 0.21
19 18 0.55
20 8 0.24
ACGTcount: A:0.05, C:0.45, G:0.00, T:0.50
Consensus pattern (20 bp):
TCTCCCCTCTTCTTTCCCTT
Found at i:60373511 original size:29 final size:29
Alignment explanation
Indices: 60373478--60373543 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
60373468 CGGTGACGAG
60373478 ATGGCACTAAGTGTGCATGCTGGAAATAT
1 ATGGCACTAAGTGTGCATGCTGGAAATAT
60373507 ATGGCACTAAGTGTGCATGCTGGAAATAT
1 ATGGCACTAAGTGTGCATGCTGGAAATAT
*
60373536 ACGGCACT
1 ATGGCACT
60373544 GGGTGTGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCATGCTGGAAATAT
Found at i:60381894 original size:40 final size:40
Alignment explanation
Indices: 60381786--60381895 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
60381776 ATTGAATGAT
* * * * *
60381786 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
60381826 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
60381866 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
60381896 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:60381910 original size:40 final size:39
Alignment explanation
Indices: 60381786--60381935 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
60381776 ATTGAATGAT
* * * * * * *
60381786 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
60381826 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
60381866 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
60381906 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
60381936 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:60389948 original size:40 final size:40
Alignment explanation
Indices: 60389840--60389949 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
60389830 ATTGAATGAT
* * * * *
60389840 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
60389880 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
60389920 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
60389950 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:60389964 original size:40 final size:39
Alignment explanation
Indices: 60389840--60389989 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
60389830 ATTGAATGAT
* * * * * * *
60389840 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
60389880 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
60389920 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
60389960 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
60389990 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:60391818 original size:29 final size:29
Alignment explanation
Indices: 60391785--60391848 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
60391775 TGACGAGATG
*
60391785 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAC
60391814 GGCACTAAGTGTGCATGCTGGAAATATAC
1 GGCACTAAGTGTGCATGCTGGAAATATAC
60391843 GGCACT
1 GGCACT
60391849 GGTGTGCGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAATATAC
Found at i:60391953 original size:2 final size:2
Alignment explanation
Indices: 60391948--60391980 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
60391938 GTGCGTACTC
60391948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60391981 CTCCGATCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60398014 original size:48 final size:48
Alignment explanation
Indices: 60397938--60398212 Score: 246
Period size: 48 Copynumber: 5.7 Consensus size: 48
60397928 GGGTTATGTT
60397938 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGAT-TGGAG
1 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGATAT-GAG
* * * * * *
60397986 AGCTAGTGTAAGACCATGTATGGGACATGGCATCAGCCTCGATATGTG
1 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGATATGAG
* * *
60398034 AGCTAGTGTAAGACCATGTTTGGAACACGGCATCGATATTGATATGAG
1 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGATATGAG
* * * ** * * * *
60398082 AGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTG
1 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGATATGAG
* * * * ** **
60398130 GGCTAGTGTAAGGCCATGTTTGGAATAGGGCATCGGCATCAATTTATGAG
1 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGA--TATGAG
* * * *
60398180 GGCCAGTGTAAAACCATGTTTGGGACATGGCAT
1 AGCTAGTGTAAGACCATGTTTGGAACATGGCAT
60398213 TGGCATCTTA
Statistics
Matches: 182, Mismatches: 42, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
48 150 0.82
49 1 0.01
50 31 0.17
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (48 bp):
AGCTAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGATATGAG
Found at i:60398096 original size:96 final size:96
Alignment explanation
Indices: 60397932--60398212 Score: 352
Period size: 96 Copynumber: 2.9 Consensus size: 96
60397922 ATACTAGGGT
* * * *
60397932 TATGTTAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGAT-TGGAGAGCTAGTGTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACACGGCATCGATATTGATAT-GAGAGCTAGTGTA
60397996 AGACCATGTATGGGACATGGCATCAGCCTCGA
65 AGACCATGTATGGGACATGGCATCAGCCTCGA
*
60398028 TATGTGAGCTAGTGTAAGACCATGTTTGGAACACGGCATCGATATTGATATGAGAGTTAGTGTAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACACGGCATCGATATTGATATGAGAGCTAGTGTAA
* *
60398093 GACCATGTCTGGGACATGGCATCGGCCTCGA
66 GACCATGTATGGGACATGGCATCAGCCTCGA
* * * * * * *
60398124 CATGTGGGCTAGTGTAAGGCCATGTTTGGAATAGGGCATCGGCATCAATT--TATGAGGGCCAGT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACACGGCATC-G-AT--ATTGATATGAGAGCTAGT
* *
60398187 GTAAAACCATGTTTGGGACATGGCAT
62 GTAAGACCATGTATGGGACATGGCAT
60398213 TGGCATCTTA
Statistics
Matches: 163, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
96 122 0.75
97 2 0.01
98 36 0.22
100 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (96 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACACGGCATCGATATTGATATGAGAGCTAGTGTAA
GACCATGTATGGGACATGGCATCAGCCTCGA
Found at i:60400193 original size:49 final size:49
Alignment explanation
Indices: 60400139--60400298 Score: 180
Period size: 49 Copynumber: 3.3 Consensus size: 49
60400129 TGTCCCAGAT
*
60400139 AGGTCTTACACTGACTTTCAAATATCGAGGCTGATGCTATATCCTAGAC
1 AGGTCTTACACTGACTTTCAAATATCGAGGCTGATGCCATATCCTAGAC
* * ** * ** * * * *
60400188 AGGTCTTACATTGGCTAGCACAT-TAAAGTC-GATGCCGTGTCCTAAAC
1 AGGTCTTACACTGACTTTCAAATATCGAGGCTGATGCCATATCCTAGAC
* *
60400235 AGGTCTTACACTGACTTTCAAATATCGACGCTGATGCCATATCCCAGAC
1 AGGTCTTACACTGACTTTCAAATATCGAGGCTGATGCCATATCCTAGAC
60400284 AGGTCTTACACTGAC
1 AGGTCTTACACTGAC
60400299 ACACAACAAG
Statistics
Matches: 84, Mismatches: 25, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
47 31 0.37
48 7 0.08
49 46 0.55
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (49 bp):
AGGTCTTACACTGACTTTCAAATATCGAGGCTGATGCCATATCCTAGAC
Found at i:60400231 original size:47 final size:47
Alignment explanation
Indices: 60400081--60400339 Score: 177
Period size: 49 Copynumber: 5.5 Consensus size: 47
60400071 ACTGACGCCA
*
60400081 TGTCCCAGACATGGTCTTACACTAGCTAGCACATTAAAGTCGATGCCG
1 TGTCCCAGACA-GGTCTTACACTGGCTAGCACATTAAAGTCGATGCCG
* * ** * ** * **
60400129 TGTCCCAGATAGGTCTTACACTGACTTTCAAATATCGAGGCTGATGCTA
1 TGTCCCAGACAGGTCTTACACTGGCTAGCACAT-TAAAGTC-GATGCCG
* * *
60400178 TATCCTAGACAGGTCTTACATTGGCTAGCACATTAAAGTCGATGCCG
1 TGTCCCAGACAGGTCTTACACTGGCTAGCACATTAAAGTCGATGCCG
* * * ** * * * *
60400225 TGTCCTAAACAGGTCTTACACTGACTTTCAAATATCGACG-CTGATGCCA
1 TGTCCCAGACAGGTCTTACACTGGCTAGCACAT-T-AAAGTC-GATGCCG
* * * *
60400274 TATCCCAGACAGGTCTTACACTGAC-A-CACA--ACAAGTTGATGCCA
1 TGTCCCAGACAGGTCTTACACTGGCTAGCACATTA-AAGTCGATGCCG
60400318 TGTCCCAGACAGGTCTTACACT
1 TGTCCCAGACAGGTCTTACACT
60400340 AGCTTGTATA
Statistics
Matches: 161, Mismatches: 43, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
44 30 0.19
47 51 0.32
48 20 0.12
49 60 0.37
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (47 bp):
TGTCCCAGACAGGTCTTACACTGGCTAGCACATTAAAGTCGATGCCG
Found at i:60400257 original size:96 final size:96
Alignment explanation
Indices: 60400072--60400339 Score: 373
Period size: 96 Copynumber: 2.8 Consensus size: 96
60400062 GGATAAAATA
* * *
60400072 CTGACGCCATGTCCCAGACATGGTCTTACACTAGCTAGCACATTAAAGTCGATGCCGTGTCCCAG
1 CTGATGCCATATCCCAGACA-GGTCTTACACTGGCTAGCACATTAAAGTCGATGCCGTGTCCCAG
* *
60400137 ATAGGTCTTACACTGACTTTCAAATATCGAGG
65 ACAGGTCTTACACTGACTTTCAAATATCGACG
* * * * *
60400169 CTGATGCTATATCCTAGACAGGTCTTACATTGGCTAGCACATTAAAGTCGATGCCGTGTCCTAAA
1 CTGATGCCATATCCCAGACAGGTCTTACACTGGCTAGCACATTAAAGTCGATGCCGTGTCCCAGA
60400234 CAGGTCTTACACTGACTTTCAAATATCGACG
66 CAGGTCTTACACTGACTTTCAAATATCGACG
* * *
60400265 CTGATGCCATATCCCAGACAGGTCTTACACTGAC-A-CACA--ACAAGTTGATGCCATGTCCCAG
1 CTGATGCCATATCCCAGACAGGTCTTACACTGGCTAGCACATTA-AAGTCGATGCCGTGTCCCAG
60400326 ACAGGTCTTACACT
65 ACAGGTCTTACACT
60400340 AGCTTGTATA
Statistics
Matches: 152, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 30 0.20
94 4 0.03
95 1 0.01
96 100 0.66
97 16 0.11
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (96 bp):
CTGATGCCATATCCCAGACAGGTCTTACACTGGCTAGCACATTAAAGTCGATGCCGTGTCCCAGA
CAGGTCTTACACTGACTTTCAAATATCGACG
Found at i:60414610 original size:48 final size:47
Alignment explanation
Indices: 60414386--60414656 Score: 167
Period size: 48 Copynumber: 5.7 Consensus size: 47
60414376 TAGGGTATAA
* * * * * * *
60414386 TGCCAATGCCATGTCCCAAACATAGTCTTACACTGGCTCATCCATCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATCG
* * * * * * *
60414433 AGCCGATGCGATGTCCCAAACATGATCTTACACT--AACTATCAAATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC-CTC-TATCG
* * * ** * * *
60414480 AGGCCGACGCCATGTCCCAGACATGGTATTACACTACCTCTCACATATTCA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC-CTC-TA-TCG
* * *
60414531 TGCAGATGCCATGTCCCAGACATTGTGTTACACTGGCACCTCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTAT-CG
* **
60414579 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACATATCT-T-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATCG
*
60414624 TAGCCGAT-ACATGTCCCAGACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
60414657 AGCTCTCATA
Statistics
Matches: 178, Mismatches: 38, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 9 0.05
47 34 0.19
48 68 0.38
49 2 0.01
50 36 0.20
51 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACCTCTATCG
Found at i:60414796 original size:25 final size:25
Alignment explanation
Indices: 60414762--60414810 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
60414752 TAAAGTTCAA
60414762 ACGGAGTTCTACTATCTCAATTATT
1 ACGGAGTTCTACTATCTCAATTATT
60414787 ACGGAGTTCTACTATCTCAATTAT
1 ACGGAGTTCTACTATCTCAATTAT
60414811 CATCATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (25 bp):
ACGGAGTTCTACTATCTCAATTATT
Found at i:60420620 original size:50 final size:48
Alignment explanation
Indices: 60420505--60420818 Score: 172
Period size: 50 Copynumber: 6.6 Consensus size: 48
60420495 GGTAAGGTGC
* *
60420505 CGATGCCATGTCCCGGACATGGTCTTACACTGGCTCACACATCAAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCACACATCAAAGT
* * * *
60420553 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCGTATATCGAGGAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCAC--ACATCAAAG-T
*
60420604 -GATGCCATGTCCCAGACATGGTCTTACACT-AGCT--CTCATC----T
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCACACATCAAAGT
* * * * ** * ** *
60420645 -GATGCCATTTCCTAGCCATGGTTTTACACT-AGCTCTTATCTATTAGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCACA-C-ATCAAAGT
* * * * * * *
60420694 CAATTCCATGTCCCAGCCATGGTCTTACACT-A-ACACATAT-TAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCACACATCAAAGT
* * * * *
60420739 CGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATATCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCACACA--TCAAAGT
60420789 CGATGCCATGTCCCAGACA-GGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
60420819 AGGTCTCATA
Statistics
Matches: 213, Mismatches: 35, Indels: 35
0.75 0.12 0.12
Matches are distributed among these distances:
41 31 0.15
44 1 0.00
45 33 0.15
46 5 0.02
47 5 0.02
48 38 0.18
49 13 0.06
50 86 0.40
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCACACATCAAAGT
Found at i:60420750 original size:45 final size:48
Alignment explanation
Indices: 60420699--60420819 Score: 160
Period size: 45 Copynumber: 2.6 Consensus size: 48
60420689 AGTGCCAATT
*
60420699 CCATGTCCCAGCCATGGTCTTACACTA-ACACATAT-T-AAGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTACACACATATCTCAAGCCGATG
* * *
60420744 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTA-CACACATATCTC-AAGCCGATG
60420794 CCATGTCCCAGACA-GGTCTTACACTA
1 CCATGTCCCAGACATGGTCTTACACTA
60420820 GGTCTCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
45 26 0.39
47 6 0.09
48 1 0.01
49 12 0.18
50 22 0.33
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTACACACATATCTCAAGCCGATG
Found at i:60420829 original size:49 final size:50
Alignment explanation
Indices: 60420645--60420832 Score: 185
Period size: 50 Copynumber: 3.9 Consensus size: 50
60420635 GCTCTCATCT
* * * * **
60420645 GATGCCATTTCCTAGCCATGGTTTTACACTAGCTCT--TATCTATTAGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCT-CGAG-GCC
* * * * * *
60420695 AATTCCATGTCCCAGCCATGGTCTTACACTA--ACACATAT-T--AAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
60420740 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
*
60420790 GATGCCATGTCCCAGACA-GGTCTTACACTAGGTCTCATATCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
60420833 CTTCATCATG
Statistics
Matches: 116, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
45 31 0.27
46 1 0.01
47 6 0.05
48 2 0.02
49 25 0.22
50 51 0.44
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCC
Found at i:60432659 original size:16 final size:17
Alignment explanation
Indices: 60432609--60432662 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
60432599 ACCTTAAATT
*
60432609 TTAATAGTT-TTATATG
1 TTAAAAGTTATTATATG
60432625 TTAAAATGTTATTA-A-G
1 TTAAAA-GTTATTATATG
*
60432641 TTAAGA-TTATTATATG
1 TTAAAAGTTATTATATG
60432657 TTAAAA
1 TTAAAA
60432663 TAAAGAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 6 0.19
15 1 0.03
16 17 0.55
17 4 0.13
18 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (17 bp):
TTAAAAGTTATTATATG
Found at i:60434387 original size:17 final size:18
Alignment explanation
Indices: 60434345--60434393 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
60434335 AGTTGAAAAG
60434345 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
60434364 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
60434381 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
60434394 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:60435282 original size:40 final size:40
Alignment explanation
Indices: 60435216--60435382 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
60435206 AAATTGAATG
* * *
60435216 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
60435255 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
60435295 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
60435335 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
60435375 ATATCCGG
1 ATATCCGG
60435383 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:60437587 original size:49 final size:50
Alignment explanation
Indices: 60437522--60437650 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 50
60437512 TTAAGTCGAT
* * * *
60437522 GCCAAGTCCCAAACATGGTTTTACACTGACTATCGAGATC-GAG-GCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATC-AGATCTCAGTGCCGAC
* * * ** * *
60437571 GCCATGTCCCAGACATGGTCTTACATTGGCTCTCATCTCTCTGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCAGATCTCAGTGCCGAC
60437621 GCCATGTCCCAGACATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
60437651 ACATTTCATA
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
48 3 0.05
49 29 0.45
50 33 0.51
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCAGATCTCAGTGCCGAC
Found at i:60437647 original size:99 final size:96
Alignment explanation
Indices: 60437470--60437650 Score: 238
Period size: 99 Copynumber: 1.9 Consensus size: 96
60437460 AGGTATAATA
* * *
60437470 CCGATGCCTTGTCCCAGACACGGTCTTACATTGGTTCATCCATTAAGTCGATGCCAAGTCCCAAA
1 CCGACGCCATGTCCCAGACACGGTCTTACATTGGTTCATCCATTAAGCCGATGCCAAGTCCCAAA
*
60437535 CATGGTTTTACACTGACTATCGAGATCGAGG
66 CATGGTCTTACACTGACTATCGAGATCGAGG
* ** *
60437566 CCGACGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATCTC-TCTGTGCCGATGCCATGTCC
1 CCGACGCCATGTCCCAGACACGGTCTTACATTGG-T-TCATC-CAT-TAAGCCGATGCCAAGTCC
*
60437630 CAGACATGGTCTTACACTGAC
62 CAAACATGGTCTTACACTGAC
60437651 ACATTTCATA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
96 31 0.43
97 1 0.01
98 6 0.08
99 34 0.47
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (96 bp):
CCGACGCCATGTCCCAGACACGGTCTTACATTGGTTCATCCATTAAGCCGATGCCAAGTCCCAAA
CATGGTCTTACACTGACTATCGAGATCGAGG
Found at i:60445412 original size:29 final size:29
Alignment explanation
Indices: 60445370--60445427 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
60445360 CTTGGTGGAA
* *
60445370 CATAGTTGGATCTCTTAGGTTTGATTGCT
1 CATAATTGCATCTCTTAGGTTTGATTGCT
60445399 CATAATTGCATCTCTTAGGTTTGATTGCT
1 CATAATTGCATCTCTTAGGTTTGATTGCT
60445428 TATTAATCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.45
Consensus pattern (29 bp):
CATAATTGCATCTCTTAGGTTTGATTGCT
Found at i:60448852 original size:43 final size:43
Alignment explanation
Indices: 60448799--60449009 Score: 368
Period size: 43 Copynumber: 4.9 Consensus size: 43
60448789 GCTGGTATTA
60448799 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
60448842 TATTCGGGCCTTCGTGCCTAGTAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
60448885 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
60448928 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
60448971 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
60449010 AATGATATGT
Statistics
Matches: 160, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 160 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:60457728 original size:2 final size:2
Alignment explanation
Indices: 60457721--60457757 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
60457711 ATTAAGTGCC
60457721 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60457758 CGAATGGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60463425 original size:47 final size:49
Alignment explanation
Indices: 60463364--60463493 Score: 135
Period size: 47 Copynumber: 2.7 Consensus size: 49
60463354 TATAATGTCG
* * *
60463364 ATGCCATGTTCCAGATATGGTCTTACACTGGCTCATC-CATTAAG-TCA
1 ATGCCAAGTCCCAGATATGGTCTTACACTGGCTCATCACATCAAGATCA
* * * *
60463411 ATGCCAAGTCCCAGACATGGTCTTACACTGACT-ATCGAGATCGAGATCA
1 ATGCCAAGTCCCAGATATGGTCTTACACTGGCTCATC-ACATCAAGATCA
60463460 A--CACAATGTCCCAGATATGGTCTTACACTGGCTC
1 ATGC-CAA-GTCCCAGATATGGTCTTACACTGGCTC
60463494 TCATCTCTCC
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
46 3 0.04
47 30 0.44
48 7 0.10
49 28 0.41
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
ATGCCAAGTCCCAGATATGGTCTTACACTGGCTCATCACATCAAGATCA
Found at i:60468879 original size:17 final size:17
Alignment explanation
Indices: 60468838--60468879 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
60468828 TTTGAGTCCA
60468838 TTTATTTTCACTTTGTT
1 TTTATTTTCACTTTGTT
**
60468855 TTGCTTTTC-CTTTTGTT
1 TTTATTTTCAC-TTTGTT
60468872 TTTATTTT
1 TTTATTTT
60468880 AAAAGTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (17 bp):
TTTATTTTCACTTTGTT
Found at i:60470455 original size:30 final size:30
Alignment explanation
Indices: 60470419--60470479 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
60470409 TCGAAGACAT
60470419 GGCATTGGTAGGATATTGATAGACAGGAAC
1 GGCATTGGTAGGATATTGATAGACAGGAAC
60470449 GGCATTGGTAGGATATTGATAGACAGGAAC
1 GGCATTGGTAGGATATTGATAGACAGGAAC
60470479 G
1 G
60470480 ACCCTAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.10, G:0.34, T:0.23
Consensus pattern (30 bp):
GGCATTGGTAGGATATTGATAGACAGGAAC
Found at i:60472911 original size:20 final size:20
Alignment explanation
Indices: 60472886--60472944 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
60472876 TAAATATGGT
60472886 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
60472906 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
60472926 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
60472945 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:60473064 original size:47 final size:48
Alignment explanation
Indices: 60472995--60473113 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
60472985 GAGGAAGTGA
60472995 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
60473042 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
60473090 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
60473114 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:60473089 original size:24 final size:24
Alignment explanation
Indices: 60472995--60473113 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
60472985 GAGGAAGTGA
*
60472995 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
60473019 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
60473042 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
60473066 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
60473090 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
60473114 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:60473339 original size:31 final size:31
Alignment explanation
Indices: 60473304--60473367 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
60473294 CGTTTACAGT
60473304 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
60473335 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
60473366 AA
1 AA
60473368 CATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:60473373 original size:38 final size:38
Alignment explanation
Indices: 60473321--60473428 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
60473311 TCGGCCCAGT
60473321 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
60473359 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
* *
60473397 GATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
60473429 GCATGATTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 52 0.80
39 13 0.20
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:60482190 original size:40 final size:40
Alignment explanation
Indices: 60482097--60482278 Score: 172
Period size: 39 Copynumber: 4.6 Consensus size: 40
60482087 AAATTGAATG
* * * * *
60482097 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
60482136 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
60482176 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AATTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
60482215 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
60482255 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
60482279 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 63 0.52
40 57 0.47
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:60487453 original size:40 final size:40
Alignment explanation
Indices: 60487326--60487455 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
60487316 ATGCTGGAAA
* * *
60487326 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
60487366 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
60487406 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
60487446 TTATATCCGG
1 TTATATCCGG
60487456 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:60495723 original size:24 final size:24
Alignment explanation
Indices: 60495696--60495758 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
60495686 CTTATTATGT
60495696 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
60495720 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
60495744 TCGCACACATAGTGC
1 TCGCACACATAGTGC
60495759 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:60500822 original size:42 final size:42
Alignment explanation
Indices: 60500763--60500924 Score: 141
Period size: 42 Copynumber: 3.9 Consensus size: 42
60500753 GACATTAGGG
*
60500763 TTATGAG-TTTACGTGTAAGACCATATCCAGGATATGGCATCA
1 TTATGAGATTT-CGTGTAAGACCATATCTAGGATATGGCATCA
* * * * *
60500805 TTATGAGATTTCGTGTAAGACCATGTTTGGGACATGGTATCA
1 TTATGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCA
* * * *
60500847 ATATGAGA-ATCGTGTAAGACCATAGCTAGGCTATTGGCATCGA
1 TTATGAGATTTCGTGTAAGACCATATCTAGGATA-TGGCATC-A
** * * *
60500890 -TATGAGATCCCATGTAAGATCATATCTGGGATATG
1 TTATGAGATTTCGTGTAAGACCATATCTAGGATATG
60500925 TCATTGGTAT
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 18 0.19
42 54 0.57
43 22 0.23
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
TTATGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCA
Found at i:60502300 original size:46 final size:44
Alignment explanation
Indices: 60502247--60502422 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 44
60502237 TATTTGGGCA
60502247 TCCGAACTCGTTGAGTTGAG-TCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTTC-GAGTTCACTTATGGATG-GAA-G
*** * *
60502293 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-ACTTATG-GA-T-GGAAG
* * *
60502340 TCCGAGCTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATG-GAA-G
* * *
60502386 CCCGAGCTTGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGG
60502423 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 63 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGGAAG
Found at i:60502402 original size:93 final size:93
Alignment explanation
Indices: 60502243--60502414 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
60502233 AGGATATTTG
* * * *
60502243 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
60502308 TTGAGTTCGAGTTCGAGAGATGTAACTA
66 TTGAGTTCGAGTTCGAGAGATGTAACTA
* * * *
60502336 GGCATCCGAGCTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTTGTTGAG
1 GGCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
60502401 TTGAGTTCGAGTTC
66 TTGAGTTCGAGTTC
60502415 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTTCGAGTTCGAGAGATGTAACTA
Found at i:60506839 original size:25 final size:27
Alignment explanation
Indices: 60506802--60506854 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
60506792 TCAAACATGC
60506802 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
60506828 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
60506854 A
1 A
60506855 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:60508366 original size:26 final size:26
Alignment explanation
Indices: 60508336--60508391 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
60508326 TGAAATGCCC
60508336 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
60508362 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
60508388 ATCA
1 ATCA
60508392 ATTTTATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:60514923 original size:24 final size:26
Alignment explanation
Indices: 60514887--60514935 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
60514877 TCAAACATGC
60514887 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
60514912 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
60514936 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:60516449 original size:26 final size:26
Alignment explanation
Indices: 60516419--60516475 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
60516409 TGAAATGCCC
60516419 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
60516445 ATCATGGAACATTTAGCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
60516471 ATCAT
1 ATCAT
60516476 TTTTATCAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:60517455 original size:54 final size:53
Alignment explanation
Indices: 60517326--60517462 Score: 184
Period size: 54 Copynumber: 2.5 Consensus size: 53
60517316 GTTGTCGTTG
60517326 CAAGGGATTTAACCTGGACTGGTAATCCCGACGACATTCTATGAGTTCATATTA
1 CAAGGGATTTAA-CTGGACTGGTAATCCCGACGACATTCTATGAGTTCATATTA
* ** ** *
60517380 CGAGGGATTTAAACTAAACTGGTAATTTCGACGACATTCTATGAGTTTATATTA
1 CAAGGGATTT-AACTGGACTGGTAATCCCGACGACATTCTATGAGTTCATATTA
*
60517434 CAAGGGATTTAGCTTGGACTGGTAATCCC
1 CAAGGGATTTAAC-TGGACTGGTAATCCC
60517463 ACCGTAGGAA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 2 0.03
54 65 0.94
55 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (53 bp):
CAAGGGATTTAACTGGACTGGTAATCCCGACGACATTCTATGAGTTCATATTA
Found at i:60519535 original size:22 final size:22
Alignment explanation
Indices: 60519510--60519555 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
60519500 TGAAATTTTA
60519510 TGGTCCGATTTACATGATTGTT
1 TGGTCCGATTTACATGATTGTT
* *
60519532 TGGTCTGATTTGCATGATTGTT
1 TGGTCCGATTTACATGATTGTT
60519554 TG
1 TG
60519556 TGTTTAAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.11, G:0.26, T:0.48
Consensus pattern (22 bp):
TGGTCCGATTTACATGATTGTT
Found at i:60520952 original size:22 final size:22
Alignment explanation
Indices: 60520920--60520973 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
60520910 ACGGCTCAAT
*
60520920 GCCTTAGACAGGACAACACATA
1 GCCTTAAACAGGACAACACATA
*
60520942 GCCTTAAACAGGACAGCACATA
1 GCCTTAAACAGGACAACACATA
*
60520964 GCCGTAAACA
1 GCCTTAAACA
60520974 TCGCAGTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.41, C:0.28, G:0.19, T:0.13
Consensus pattern (22 bp):
GCCTTAAACAGGACAACACATA
Found at i:60521204 original size:22 final size:22
Alignment explanation
Indices: 60521176--60521239 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
60521166 GCAAATACGT
* *
60521176 TTGGCACACAACCATAATCAGG
1 TTGGCACAGAGCCATAATCAGG
*
60521198 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAGAGCCATAAT-CAGG
60521220 TTGGCACAGAGCCATAATCA
1 TTGGCACAGAGCCATAATCA
60521240 AAATAATTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAGAGCCATAATCAGG
Found at i:60521505 original size:41 final size:41
Alignment explanation
Indices: 60521383--60521505 Score: 183
Period size: 41 Copynumber: 3.0 Consensus size: 41
60521373 AAAAGCCACC
* * *
60521383 GGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAATC
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
* *
60521424 GGTGGATCCACGGTCGTCAAACAACCATGCAATCCTCAATT
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
* *
60521465 GGTGGATCCACGGTTGTCAAGGAACCATGCGATCCTCAATT
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
60521506 TCTTCCTCTG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (41 bp):
GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
Found at i:60521794 original size:27 final size:27
Alignment explanation
Indices: 60521764--60522163 Score: 273
Period size: 27 Copynumber: 14.9 Consensus size: 27
60521754 GGTAAATCTA
* * * * *
60521764 CAAACCAAGTGTATTTCGGCAATTTTG
1 CAAATCAAGGGTATTTCTGTAATTTTC
* * *
60521791 CAAACCAATGGTATTTCTGTAATTTTT
1 CAAATCAAGGGTATTTCTGTAATTTTC
*
60521818 GAAAGTCAAGGGTATTTCTGTAATTTTC
1 CAAA-TCAAGGGTATTTCTGTAATTTTC
*
60521846 CAAATCAAGAGTATTTCTGTAATTTTC
1 CAAATCAAGGGTATTTCTGTAATTTTC
*
60521873 CAAATCAAGGGTATTT-TAGTAATTTTT
1 CAAATCAAGGGTATTTCT-GTAATTTTC
* * *
60521900 TAAATTAAGGGTATTT-TGATAATTTTA
1 CAAATCAAGGGTATTTCTG-TAATTTTC
* * *
60521927 CAAATCGAGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCTGTAATTTTC
* * * *
60521954 CAAGTTAAGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCTGTAATTTTC
**
60521981 CAGGTCAAGGGTATTT-TGGTAA-TTTC
1 CAAATCAAGGGTATTTCT-GTAATTTTC
* * *
60522007 ACAAATTAGGGGTATTT-TGGTAATTTTA
1 -CAAATCAAGGGTATTTCT-GTAATTTTC
* *
60522035 CAAAT-AGGGGTATTT-TGGTAATTTTG
1 CAAATCAAGGGTATTTCT-GTAATTTTC
* ** *
60522061 CTAATTGAGGGTATTT-TGGTAATTTTG
1 CAAATCAAGGGTATTTCT-GTAATTTTC
* * * *
60522088 TAAAACAAGGGTA-TTCAGTAATTTTG
1 CAAATCAAGGGTATTTCTGTAATTTTC
* * *
60522114 TAAACCAAGGGTATTTCAGTAATTTGT-
1 CAAATCAAGGGTATTTCTGTAATTT-TC
* *
60522141 -AAACCAAGGGTATTTCAGTAATT
1 CAAATCAAGGGTATTTCTGTAATT
60522164 CGACCCTATA
Statistics
Matches: 319, Mismatches: 43, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
26 75 0.24
27 216 0.68
28 28 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCTGTAATTTTC
Found at i:60521914 original size:54 final size:54
Alignment explanation
Indices: 60521800--60522163 Score: 312
Period size: 54 Copynumber: 6.8 Consensus size: 54
60521790 GCAAACCAAT
** * *
60521800 GGTATTTCTGTAATTTTTGAAAGTCAAGGGTATTTCT-GTAATTTTCCAAATCAAG
1 GGTATTTCTGTAATTTTACAAA-TCAAGGGTATTT-TAGTAATTTTACAAATTAAG
* * **
60521855 AGTATTTCTGTAATTTTCCAAATCAAGGGTATTTTAGTAATTTTTTAAATTAAG
1 GGTATTTCTGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATTAAG
* ** *
60521909 GGTATTT-TGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAGTTAAG
1 GGTATTTCTG-TAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATTAAG
* ** * * *
60521963 GGTATTTCGGTAATTTTACAGGTCAAGGGTATTTTGGTAATTTCACAAATTAGG
1 GGTATTTCTGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATTAAG
* * * * *
60522017 GGTATTT-TGGTAATTTTACAAAT-AGGGGTATTTTGGTAATTTTGCTAATTGAG
1 GGTATTTCT-GTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATTAAG
** * * ** **
60522070 GGTATTT-TGGTAATTTTGTAAAACAAGGGTA-TTCAGTAATTTTGTAAACCAAG
1 GGTATTTCT-GTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATTAAG
* * *
60522123 GGTATTTCAGTAATTTGT--AAACCAAGGGTATTTCAGTAATT
1 GGTATTTCTGTAATTT-TACAAATCAAGGGTATTTTAGTAATT
60522164 CGACCCTATA
Statistics
Matches: 257, Mismatches: 44, Indels: 18
0.81 0.14 0.06
Matches are distributed among these distances:
52 11 0.04
53 86 0.33
54 140 0.54
55 20 0.08
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGTATTTCTGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATTAAG
Found at i:60521942 original size:81 final size:81
Alignment explanation
Indices: 60521742--60522155 Score: 354
Period size: 81 Copynumber: 5.1 Consensus size: 81
60521732 TTTCACCTTA
* * * * * * * * *
60521742 CAAGGGTGTTTTGGTAAATCTACAAACCAAGTGTATTTCGGCAATTTTGCAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT
*
60521807 CT-GTAATTTTTGAAAGT
66 -TAGTAATTTTTTAAA-T
* * * *
60521824 CAAGGGTATTTCT-GTAATTTTCCAAATCAAGAGTATTTCTGTAATTTTCCAAATCAAGGGTATT
1 CAAGGGTATTT-TGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATT
60521888 TTAGTAATTTTTTAAAT
65 TTAGTAATTTTTTAAAT
* * * * *
60521905 TAAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAGTTAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT
** ** **
60521970 CGGTAATTTTACAGGT
66 TAGTAATTTTTTAAAT
* * * * *
60521986 CAAGGGTATTTTGGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAAT-AGGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT
* *
60522050 TGGTAATTTTGCT-AAT
66 TAGTAATTTT-TTAAAT
** ** * * ** *
60522066 TGAGGGTATTTTGGTAATTTTGTAAAACAAGGGTA-TTCAGTAATTTTGTAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT
* * *
60522130 CAGTAA-TTTGTAAAC
66 TAGTAATTTTTTAAAT
60522145 CAAGGGTATTT
1 CAAGGGTATTT
60522156 CAGTAATTCG
Statistics
Matches: 265, Mismatches: 61, Indels: 15
0.78 0.18 0.04
Matches are distributed among these distances:
78 1 0.00
79 27 0.10
80 60 0.23
81 112 0.42
82 64 0.24
83 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT
TAGTAATTTTTTAAAT
Found at i:60522115 original size:26 final size:27
Alignment explanation
Indices: 60522068--60522163 Score: 151
Period size: 26 Copynumber: 3.6 Consensus size: 27
60522058 TTGCTAATTG
** *
60522068 AGGGTATTTTGGTAATTTTGTAAAACA
1 AGGGTATTTCAGTAATTTTGTAAACCA
60522095 AGGGTA-TTCAGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTTGTAAACCA
60522121 AGGGTATTTCAGTAA-TTTGTAAACCA
1 AGGGTATTTCAGTAATTTTGTAAACCA
60522147 AGGGTATTTCAGTAATT
1 AGGGTATTTCAGTAATT
60522164 CGACCCTATA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
26 49 0.77
27 15 0.23
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGTAAACCA
Found at i:60522176 original size:26 final size:26
Alignment explanation
Indices: 60522122--60522216 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 26
60522112 TGTAAACCAA
* *
60522122 GGGTATTTCAGTAATTTGTAAACC-AA-
1 GGGTATTTCAGTAATTCG--ACCCTAAG
60522148 GGGTATTTCAGTAATTCGACCCTATAG
1 GGGTATTTCAGTAATTCGACCCTA-AG
* *
60522175 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCGACCCTA-AG
*
60522202 GGGCATTTCAGTAAT
1 GGGTATTTCAGTAAT
60522217 ACTAGCCTAC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.05
25 1 0.02
26 18 0.31
27 37 0.63
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (26 bp):
GGGTATTTCAGTAATTCGACCCTAAG
Found at i:60522187 original size:27 final size:27
Alignment explanation
Indices: 60522148--60522216 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
60522138 TGTAAACCAA
*
60522148 GGGTATTTCAGTAATTCGACCCTATAG
1 GGGTATTTCAGTAATTCGACCCTACAG
* *
60522175 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCGACCCTACAG
*
60522202 GGGCATTTCAGTAAT
1 GGGTATTTCAGTAAT
60522217 ACTAGCCTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCGACCCTACAG
Found at i:60522225 original size:27 final size:27
Alignment explanation
Indices: 60522152--60522227 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
60522142 AACCAAGGGT
* * *
60522152 ATTTCAGTAATTCGACCCTATAGGGGT
1 ATTTCAGTAATTCTACCCTACAGGGGC
*
60522179 ATTTTAGTAATTCTACCCTACAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
60522206 ATTTCAGTAATACTAGCCTACA
1 ATTTCAGTAATTCTACCCTACA
60522228 AATATGAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:60525718 original size:29 final size:29
Alignment explanation
Indices: 60525657--60525746 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
60525647 CACATACCTG
* *
60525657 TATATGACCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
60525685 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
60525714 TATATGGCCCATTAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
60525743 TATA
1 TATA
60525747 GTCATGCTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
28 17 0.29
29 41 0.71
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:60528455 original size:40 final size:40
Alignment explanation
Indices: 60528396--60528603 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
60528386 CAATTGAATG
* * * *
60528396 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
60528436 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
60528476 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
60528516 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
60528556 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
60528596 ATATCCGG
1 ATATCCGG
60528604 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:60528534 original size:80 final size:80
Alignment explanation
Indices: 60528397--60528603 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
60528387 AATTGAATGA
* * ** * * *
60528397 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
60528462 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
60528475 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
60528540 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
60528557 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
60528604 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:60536603 original size:80 final size:80
Alignment explanation
Indices: 60536456--60536660 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
60536446 ATTGAATGAT
* * ** * * *
60536456 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATA-CCGGGTTAAGACCCGAAGGCCAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
*
60536520 TGTGCTAGT-GACCAC
66 TGTGCAAGTCGACC-C
* * *
60536535 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGG-CAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCA-
** *
60536599 TTGTGCAAGTCGTTCT
65 TTGTGCAAGTCGACCC
* *
60536615 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
60536661 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 35 0.33
80 69 0.65
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCAT
TGTGCAAGTCGACCC
Found at i:60536658 original size:40 final size:40
Alignment explanation
Indices: 60536454--60536660 Score: 188
Period size: 40 Copynumber: 5.2 Consensus size: 40
60536444 CAATTGAATG
* * ** **
60536454 ATATCCGGGCTAAGTCCCGAAGACATTTATGC-TAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAT-GTGGTT
* ***
60536494 ATA-CCGGGTTAAGACCCGAAGGCCATT-GTGC-TAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAT-GTGGTT
* * *
60536533 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* * * * *
60536573 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
*
60536613 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
60536653 ATATCCGG
1 ATATCCGG
60536661 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
39 30 0.22
40 108 0.78
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
Found at i:60540048 original size:46 final size:46
Alignment explanation
Indices: 60539980--60540106 Score: 218
Period size: 46 Copynumber: 2.8 Consensus size: 46
60539970 TATATATACA
** * *
60539980 CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
60540026 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
60540072 CATCTCATACACGTTTCGCATTAGCCATTCGGCTT
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTT
60540107 CACCATATAT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.23, C:0.32, G:0.10, T:0.35
Consensus pattern (46 bp):
CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:60540164 original size:47 final size:47
Alignment explanation
Indices: 60540113--60540229 Score: 155
Period size: 47 Copynumber: 2.5 Consensus size: 47
60540103 GCTTCACCAT
* *
60540113 ATATATACACT-TCCACGTTCATCACATTGGCCATTCTACCTTATCAC
1 ATATATACA-TGTCCACATTCATCACATTGGCCATTCGACCTTATCAC
* * *
60540160 ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 ATATATACATGTCCACATTCATCACATTGGCCATTCGACCTTATCAC
* *
60540207 ATATATGCATGTTCACATTCATC
1 ATATATACATGTCCACATTCATC
60540230 TCATAAAATC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.02
47 63 0.98
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.35
Consensus pattern (47 bp):
ATATATACATGTCCACATTCATCACATTGGCCATTCGACCTTATCAC
Found at i:60542150 original size:2 final size:2
Alignment explanation
Indices: 60542143--60542170 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
60542133 ACATTCGGCA
60542143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60542171 TAATGACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60543219 original size:2 final size:2
Alignment explanation
Indices: 60543212--60543237 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60543202 ATTTTCATTC
60543212 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
60543238 CTAAGCTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60543617 original size:25 final size:25
Alignment explanation
Indices: 60543583--60543637 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
60543573 CGGTTAAAGA
60543583 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
*
60543608 ATTCGCACACATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
60543633 ATTCG
1 ATTCG
60543638 TTATTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:60543869 original size:40 final size:40
Alignment explanation
Indices: 60543801--60543919 Score: 195
Period size: 40 Copynumber: 3.0 Consensus size: 40
60543791 GATTACACAT
* * *
60543801 CACCGGCACGAATGCCCTTCAGGG-CTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTC-GGGACTTAGCCCGGATATAA
60543841 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
60543881 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
60543920 TATAACTCTC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.19
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:60545581 original size:46 final size:46
Alignment explanation
Indices: 60545399--60545567 Score: 266
Period size: 46 Copynumber: 3.7 Consensus size: 46
60545389 TATATATACA
* *
60545399 CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTCATATC
* * *
60545445 CATCTCATACACGTTTCGCATTAGCCATCCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTCATATC
*
60545491 CATCTCATACACGTTTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTCATATC
* *
60545537 CATCTCATACACATTTCGCATTAGTCATTCG
1 CATCTCATACACATTTCACATTAGCCATTCG
60545568 ACTTCGCCAC
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 113 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCTCATATC
Found at i:60545626 original size:47 final size:47
Alignment explanation
Indices: 60545595--60545741 Score: 276
Period size: 47 Copynumber: 3.1 Consensus size: 47
60545585 CACTTCCACG
**
60545595 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
60545642 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
60545689 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
60545736 TTCATC
1 TTCATC
60545742 TCATAAAATC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:60545673 original size:22 final size:22
Alignment explanation
Indices: 60545645--60545720 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
60545635 GTTCACATTC
60545645 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
60545667 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
60545691 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
60545714 ATCACAT
1 ATCACAT
60545721 ATATGCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 17 0.41
23 7 0.17
24 7 0.17
25 10 0.24
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Done.