Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 21 of 344
Found at i:7487098 original size:7 final size:7
Alignment explanation
Indices: 7487086--7487118 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
7487076 TAGTCGTTTC
7487086 GTATTTA
1 GTATTTA
7487093 GTATTTA
1 GTATTTA
7487100 GTATTTA
1 GTATTTA
7487107 GTATTTA
1 GTATTTA
7487114 GTATT
1 GTATT
7487119 ATGTATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:7487131 original size:21 final size:21
Alignment explanation
Indices: 7487086--7487148 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
7487076 TAGTCGTTTC
7487086 GTATTTAGTATT-TAGTATTTA-
1 GTATTTAGTATTAT-GTA-TTAT
7487107 GTATTTAGTATTATGTATTAT
1 GTATTTAGTATTATGTATTAT
* *
7487128 GTATATAAGTAATAT-TATTAT
1 GTAT-TTAGTATTATGTATTAT
7487149 CATGTTCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 3 0.08
21 25 0.68
22 9 0.24
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (21 bp):
GTATTTAGTATTATGTATTAT
Found at i:7487745 original size:18 final size:18
Alignment explanation
Indices: 7487722--7487764 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
7487712 TGCCAGGTGC
*
7487722 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
7487740 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
7487758 GTTTCCT
1 GTATCCT
7487765 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:7491478 original size:126 final size:126
Alignment explanation
Indices: 7491251--7491632 Score: 595
Period size: 126 Copynumber: 3.0 Consensus size: 126
7491241 TTATAGCCTC
* * *
7491251 ATTTTTGTACGAACTACTGTAGCAAAAGAGCGTCCATGTGGAAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
7491316 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAAAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAAAAACGTCTACTCAGAATT
*
7491377 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACATGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * *
7491442 ACAGTGCATCCTGCTTGAAGTGTTTTCGGCATTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAAAAACGTCTACTCAGAATT
* * * * *
7491503 ATTTTTCTATGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGTTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * * *
7491568 ACAGTGCATCCTGCTTGAAGCATTTTCCGACACTATTT-TTCCAAAAACATCTGCTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTT-CGGCACTATTTGTT-CAAAAACGTCTACTCAGAATT
7491630 ATT
1 ATT
7491633 CTTGCAGAAA
Statistics
Matches: 234, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
126 204 0.87
127 30 0.13
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAAAAACGTCTACTCAGAATT
Found at i:7498346 original size:13 final size:13
Alignment explanation
Indices: 7498328--7498352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7498318 GTTTGACAAG
7498328 TTTCCTAAAAATA
1 TTTCCTAAAAATA
7498341 TTTCCTAAAAAT
1 TTTCCTAAAAAT
7498353 TGTTTTCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTCCTAAAAATA
Found at i:7499226 original size:14 final size:14
Alignment explanation
Indices: 7499201--7499241 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
7499191 ATATGAAGAA
7499201 TATTACTTAAAATTAT
1 TATTA-TTAAAATT-T
7499217 TATT-TTAAAATTT
1 TATTATTAAAATTT
7499230 TATTATTAAAAT
1 TATTATTAAAAT
7499242 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 15 0.62
16 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTATTAAAATTT
Found at i:7504010 original size:25 final size:26
Alignment explanation
Indices: 7503982--7504032 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7503972 CTTATTTCAT
*
7503982 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
7504007 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
7504033 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:7504024 original size:26 final size:24
Alignment explanation
Indices: 7503994--7504042 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
7503984 AATAAAAAAT
*
7503994 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
7504020 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
7504043 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:7511550 original size:23 final size:23
Alignment explanation
Indices: 7511507--7511551 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7511497 CGTTGTCAGT
*
7511507 TTTTTAACTACATTTTAAAAATA
1 TTTTTAACTACATTTCAAAAATA
*
7511530 TTTTTAATCTAC-TTTCCAAAAT
1 TTTTTAA-CTACATTTCAAAAAT
7511552 TTATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTTAACTACATTTCAAAAATA
Found at i:7523482 original size:22 final size:22
Alignment explanation
Indices: 7523457--7523501 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
7523447 TAATTGAAAT
*
7523457 AATCTTCAATACTAGGCAACAA
1 AATCTTCAATACGAGGCAACAA
7523479 AATCTTCAATACGAGGCAACAA
1 AATCTTCAATACGAGGCAACAA
7523501 A
1 A
7523502 TATTTACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (22 bp):
AATCTTCAATACGAGGCAACAA
Found at i:7526912 original size:46 final size:45
Alignment explanation
Indices: 7526854--7527026 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 45
7526844 GGGCTATTGT
* *
7526854 GAGCAAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-TGA-GAC
*
7526900 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CATTGAGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATTGAGAC
* * *
7526946 GAGTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCC-TCGAGAC
1 GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGAC
* *
7526992 GTAAGTCAGTGTAAGACATATCTGGGACATGCATC
1 G--AGCCAGTGTAAGACATGTCTGGGACATGCATC
7527027 AGTTACGAGA
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
45 2 0.02
46 57 0.53
47 31 0.29
48 18 0.17
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGAC
Found at i:7527036 original size:46 final size:46
Alignment explanation
Indices: 7526904--7527066 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 46
7526894 TTATGAGAGC
7526904 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCATT-GAGACG-AGT
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCAGC-TTCGAGACGTAGT
* * *
7526950 GCTAGTGTAAGA-CATGTCTAGGACATGCATCGGCCTCGAGACGTAAGT
1 -C-AGTGTAAGACCATGTCTGGGACATGCATCAGCTTCGAGACGT-AGT
* *
7526998 CAGTGTAAGA-CATATCTGGGACATGCATCAG-TTACGAGATGT-GT
1 CAGTGTAAGACCATGTCTGGGACATGCATCAGCTT-CGAGACGTAGT
7527042 CAGTGTAAGACCATGTCT-GGACATG
1 CAGTGTAAGACCATGTCTGGGACATG
7527067 GCATTAGCAC
Statistics
Matches: 101, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
44 19 0.19
45 8 0.08
46 47 0.47
47 15 0.15
48 12 0.12
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCAGCTTCGAGACGTAGT
Found at i:7528137 original size:28 final size:28
Alignment explanation
Indices: 7528092--7528156 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
7528082 CACGGGCTAA
* * * *
7528092 GACACGGGCGTGTTATGGCCTTGTGAAG
1 GACACGGGCATGTCATGGCCGTGTGAAC
7528120 GACACGGGCATGTCATGGCCGTGTGAAC
1 GACACGGGCATGTCATGGCCGTGTGAAC
7528148 GACACGGGC
1 GACACGGGC
7528157 CAGGTACACG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.20, C:0.23, G:0.38, T:0.18
Consensus pattern (28 bp):
GACACGGGCATGTCATGGCCGTGTGAAC
Found at i:7532100 original size:26 final size:26
Alignment explanation
Indices: 7532065--7532115 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
7532055 AATGTGAAAG
*
7532065 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
7532091 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
7532116 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:7532127 original size:103 final size:103
Alignment explanation
Indices: 7531987--7532208 Score: 365
Period size: 103 Copynumber: 2.2 Consensus size: 103
7531977 TGTATATAAA
** * *
7531987 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
7532051 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
7532090 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
7532155 TGAAATGTGAAAGGGGGTTGCTATGTGGTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
7532193 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
7532209 GATATCCATT
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
103 110 0.99
104 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:7532261 original size:70 final size:72
Alignment explanation
Indices: 7532128--7532278 Score: 234
Period size: 71 Copynumber: 2.1 Consensus size: 72
7532118 TCATTGGTGG
* * *
7532128 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGGTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
7532192 GAGGGGT
66 GAGGGGT
***
7532199 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
7532263 GAGGGGT
66 GAGGGGT
7532270 TGCTAAGTG
1 TGCTAAGTG
7532279 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
70 23 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:7539718 original size:104 final size:103
Alignment explanation
Indices: 7539538--7539760 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
7539528 TGTATATAAA
** * *
7539538 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
7539603 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTG-TGATTCCCCCG
* *
7539642 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
7539706 TTGAAATGTGAAAGGGGGTTGCTATGTGTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGTGATTCCCCCG
7539745 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
7539761 GATATTCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 27 0.24
104 84 0.75
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGTGATTCCCCCG
Found at i:7539765 original size:71 final size:71
Alignment explanation
Indices: 7539680--7539830 Score: 232
Period size: 71 Copynumber: 2.1 Consensus size: 71
7539670 TCATTGGTGG
* *
7539680 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTG-TGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
7539744 GAGGGGT
65 GAGGGGT
* ***
7539751 TGCTAAGTGCGATATTCATTGTATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
7539816 AGGGGT
66 AGGGGT
7539822 TGCTAAGTG
1 TGCTAAGTG
7539831 ATGATTCCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
70 18 0.25
71 55 0.75
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (71 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
AGGGGT
Found at i:7542501 original size:27 final size:27
Alignment explanation
Indices: 7542471--7542533 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
7542461 CTATAATTGA
*
7542471 TTCATATAACCATTTCATATATCTATT
1 TTCATATAACCATTTCATATATCTACT
* *
7542498 TTCATATATCGATTTCATATATCTACT
1 TTCATATAACCATTTCATATATCTACT
7542525 TTCATATAA
1 TTCATATAA
7542534 TTGATTCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (27 bp):
TTCATATAACCATTTCATATATCTACT
Found at i:7542502 original size:14 final size:13
Alignment explanation
Indices: 7542439--7542532 Score: 93
Period size: 13 Copynumber: 7.0 Consensus size: 13
7542429 TATCCAATGT
7542439 TCTATTTCATATA
1 TCTATTTCATATA
*
7542452 TCTATTTCCCTATAA
1 TCTATTT-CATAT-A
7542467 T-TGA-TTCATATA
1 TCT-ATTTCATATA
* *
7542479 ACCATTTCATATA
1 TCTATTTCATATA
7542492 TCTATTTTCATATA
1 TCTA-TTTCATATA
*
7542506 TCGATTTCATATA
1 TCTATTTCATATA
7542519 TCTACTTTCATATA
1 TCTA-TTTCATATA
7542533 ATTGATTCAT
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
12 2 0.03
13 33 0.50
14 28 0.42
15 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.02, T:0.49
Consensus pattern (13 bp):
TCTATTTCATATA
Found at i:7542515 original size:40 final size:40
Alignment explanation
Indices: 7542442--7542532 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
7542432 CCAATGTTCT
* *
7542442 ATTTCATATATCTATTTCCCTATAATTGATTCATATAACC
1 ATTTCATATATCTATTTCCATATAATCGATTCATATAACC
* * *
7542482 ATTTCATATATCTATTTTCATAT-ATCGATTTCATATATCT
1 ATTTCATATATCTATTTCCATATAATCGA-TTCATATAACC
7542522 ACTTTCATATA
1 A-TTTCATATA
7542533 ATTGATTCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
39 4 0.09
40 31 0.70
41 9 0.20
ACGTcount: A:0.32, C:0.18, G:0.02, T:0.48
Consensus pattern (40 bp):
ATTTCATATATCTATTTCCATATAATCGATTCATATAACC
Found at i:7545703 original size:17 final size:17
Alignment explanation
Indices: 7545644--7545703 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
7545634 TAATAAATTT
*
7545644 AAAATATAATATATAATAA
1 AAAATATAAT-T-TTATAA
7545663 AAAATAT-A-TTTAT-A
1 AAAATATAATTTTATAA
*
7545677 AGAATAATAATTTTATAA
1 AAAAT-ATAATTTTATAA
7545695 AAAATATAA
1 AAAATATAA
7545704 AATTTATTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 5 0.15
15 5 0.15
16 2 0.06
17 9 0.26
18 6 0.18
19 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATAATTTTATAA
Found at i:7546223 original size:18 final size:18
Alignment explanation
Indices: 7546189--7546329 Score: 140
Period size: 18 Copynumber: 7.4 Consensus size: 18
7546179 TCATATCTTT
*
7546189 TAAGATTGTATATCATATC
1 TAAGATTGCA-ATCATATC
*
7546208 TAATATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
7546226 TAAGATTG-TATCATATC
1 TAAGATTGCAATCATATC
*
7546243 TAATATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
7546261 TAAGATTGTAAGATTGTATCATATC
1 TAAGATTG---CA----ATCATATC
7546286 TAAGATTGCAATCATATC
1 TAAGATTGCAATCATATC
*
7546304 TAAGATTGCATATCACATC
1 TAAGATTGCA-ATCATATC
7546323 TAAGATT
1 TAAGATT
7546330 ACATATCATT
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
17 15 0.15
18 48 0.47
19 22 0.21
21 1 0.01
22 1 0.01
25 16 0.16
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (18 bp):
TAAGATTGCAATCATATC
Found at i:7546244 original size:35 final size:36
Alignment explanation
Indices: 7546189--7546325 Score: 168
Period size: 35 Copynumber: 3.6 Consensus size: 36
7546179 TCATATCTTT
7546189 TAAGATTGTATATCATATCTAATATTGCAATCATATC
1 TAAGATTG-ATATCATATCTAATATTGCAATCATATC
7546226 TAAGATTG-TATCATATCTAATATTGCAATCATATC
1 TAAGATTGATATCATATCTAATATTGCAATCATATC
*
7546261 TAAGATTGTAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGA-T-T--GA---TATCATATCTAATATTGCAATCATATC
*
7546304 TAAGATTGCATATCACATCTAA
1 TAAGATTG-ATATCATATCTAA
7546326 GATTACATAT
Statistics
Matches: 89, Mismatches: 2, Indels: 18
0.82 0.02 0.17
Matches are distributed among these distances:
35 32 0.36
36 1 0.01
37 20 0.22
39 2 0.02
40 1 0.01
41 1 0.01
42 1 0.01
43 31 0.35
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (36 bp):
TAAGATTGATATCATATCTAATATTGCAATCATATC
Found at i:7546274 original size:43 final size:43
Alignment explanation
Indices: 7546226--7546311 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
7546216 CAATCATATC
*
7546226 TAAGATTGTATCATATCTAATATTGCAATCATATCTAAGATTG
1 TAAGATTGTATCATATCTAAGATTGCAATCATATCTAAGATTG
7546269 TAAGATTGTATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TAAGATTGTATCATATCTAAGATTGCAATCATATCTAAGATTG
7546312 CATATCACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (43 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATCTAAGATTG
Found at i:7553676 original size:57 final size:57
Alignment explanation
Indices: 7553576--7553692 Score: 162
Period size: 57 Copynumber: 2.1 Consensus size: 57
7553566 GTCATTATTC
* * * **
7553576 ACATTTTGACAACATAAATATGCGCATTAAGAGATATTATGACAGTAGCTGTAAATT
1 ACATTTGGACAACATAAATATGCACATTAAGAGACATTATGACAACAGCTGTAAATT
* * *
7553633 ACATTTGGACAGCATAAATATGCACATTAAGATACATTTTGACAACAGCTGTAAATT
1 ACATTTGGACAACATAAATATGCACATTAAGAGACATTATGACAACAGCTGTAAATT
7553690 ACA
1 ACA
7553693 AGTGCAAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (57 bp):
ACATTTGGACAACATAAATATGCACATTAAGAGACATTATGACAACAGCTGTAAATT
Found at i:7555675 original size:36 final size:36
Alignment explanation
Indices: 7555628--7555705 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
7555618 TGAAAAAGAA
*
7555628 AACTAAAAAAAATAGAGGAGATAGAACATTTTTTTC
1 AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
7555664 AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
1 AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
7555700 AACTAA
1 AACTAA
7555706 TATTTAGGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.27
Consensus pattern (36 bp):
AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
Found at i:7556023 original size:27 final size:27
Alignment explanation
Indices: 7555968--7556024 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
7555958 TAGTTTAGCC
****
7555968 AATAAATAAATACAAATAGAACTTCAA
1 AATAAATAAATACAAATAGAAAAGAAA
*
7555995 AATAAATAAATACAAATATAAAAGAAA
1 AATAAATAAATACAAATAGAAAAGAAA
7556022 AAT
1 AAT
7556025 CGAATCGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (27 bp):
AATAAATAAATACAAATAGAAAAGAAA
Found at i:7562098 original size:18 final size:18
Alignment explanation
Indices: 7562075--7562112 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7562065 AATATATATT
7562075 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
7562093 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
7562111 AA
1 AA
7562113 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:7562105 original size:13 final size:13
Alignment explanation
Indices: 7562089--7562113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7562079 CAAGTACCCA
7562089 ACCCAACCCAATT
1 ACCCAACCCAATT
7562102 ACCCAACCCAAT
1 ACCCAACCCAAT
7562114 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:7562171 original size:5 final size:6
Alignment explanation
Indices: 7562138--7562178 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
7562128 ATAATTTAAT
*
7562138 AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
7562179 CATATAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:7564333 original size:16 final size:16
Alignment explanation
Indices: 7564312--7564344 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7564302 TCGCTTATTA
*
7564312 ATTATAAATTCATTTC
1 ATTATAAAGTCATTTC
7564328 ATTATAAAGTCATTTC
1 ATTATAAAGTCATTTC
7564344 A
1 A
7564345 CAATAGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTATAAAGTCATTTC
Found at i:7565906 original size:15 final size:15
Alignment explanation
Indices: 7565886--7565917 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7565876 TTTAATTTAG
7565886 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
7565901 AAGATAAATATATAT
1 AAGATAAATATAAAT
7565916 AA
1 AA
7565918 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:7565942 original size:37 final size:37
Alignment explanation
Indices: 7565892--7565972 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
7565882 TTAGAAGATA
7565892 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
7565929 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
*
7565966 AAAATAA
1 AATATAA
7565973 TATATATCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (37 bp):
AATATAAATAAGATAAATATATATAAATTATTATTTT
Found at i:7567958 original size:39 final size:39
Alignment explanation
Indices: 7567904--7567982 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
7567894 GATATGACTG
* *
7567904 TCTTAAATTTGTTATTTTGCTTGATTATTTGAGATCTGC
1 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
7567943 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
1 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
7567982 T
1 T
7567983 TCTGTCAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (39 bp):
TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
Found at i:7568337 original size:2 final size:2
Alignment explanation
Indices: 7568330--7568377 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
7568320 CCATTAATTT
* * *
7568330 TA TA TA TA TA TA CA TA TA TA TA CA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7568372 TA TA TA
1 TA TA TA
7568378 GAATAAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:7568349 original size:14 final size:14
Alignment explanation
Indices: 7568330--7568377 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
7568320 CCATTAATTT
* *
7568330 TATATATATATACA
1 TATATATACATATA
7568344 TATATATACATATA
1 TATATATACATATA
7568358 TATATATACATATA
1 TATATATACATATA
7568372 TATATA
1 TATATA
7568378 GAATAAATCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATATACATATA
Found at i:7570150 original size:9 final size:9
Alignment explanation
Indices: 7570127--7570227 Score: 85
Period size: 9 Copynumber: 10.6 Consensus size: 9
7570117 ATTGATCATT
*
7570127 ACTTAAATA
1 ACTTACATA
*
7570136 AATTACATA
1 ACTTACATA
7570145 ACTTACATA
1 ACTTACATA
* *
7570154 ACTCATATA
1 ACTTACATA
7570163 ACTTACATA
1 ACTTACATA
*
7570172 ATTTACATAACA
1 ACTTACAT---A
7570184 ACTTACATA
1 ACTTACATA
*
7570193 ACTCACATA
1 ACTTACATA
*
7570202 ACGTACATAACA
1 ACTTACAT---A
7570214 ACTTACATA
1 ACTTACATA
7570223 ACTTA
1 ACTTA
7570228 ACTAATACAT
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
9 57 0.78
12 16 0.22
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:7570188 original size:21 final size:21
Alignment explanation
Indices: 7570144--7570203 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
7570134 TAAATTACAT
*
7570144 AACTTACATAACT--CAT-AT
1 AACTTACATAACTCACATAAC
* *
7570162 AACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAAC
7570183 AACTTACATAACTCACATAAC
1 AACTTACATAACTCACATAAC
7570204 GTACATAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.34
20 3 0.09
21 20 0.57
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
AACTTACATAACTCACATAAC
Found at i:7570201 original size:30 final size:30
Alignment explanation
Indices: 7570160--7570225 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
7570150 CATAACTCAT
* **
7570160 ATAACTTACATAATTTACATAACAACTTAC
1 ATAACTCACATAACGTACATAACAACTTAC
7570190 ATAACTCACATAACGTACATAACAACTTAC
1 ATAACTCACATAACGTACATAACAACTTAC
7570220 ATAACT
1 ATAACT
7570226 TAACTAATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.29
Consensus pattern (30 bp):
ATAACTCACATAACGTACATAACAACTTAC
Found at i:7570226 original size:39 final size:40
Alignment explanation
Indices: 7570138--7570227 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 40
7570128 CTTAAATAAA
* * **
7570138 TTACATAACTTACATAACTCATATAACTTACATAATTTAC
1 TTACATAACTTACATAACTCACATAACGTACATAATCAAC
* *
7570178 ATA-ACAACTTACATAACTCACATAACGTACATAA-CAAC
1 TTACATAACTTACATAACTCACATAACGTACATAATCAAC
7570216 TTACATAACTTA
1 TTACATAACTTA
7570228 ACTAATACAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
38 4 0.10
39 35 0.85
40 2 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (40 bp):
TTACATAACTTACATAACTCACATAACGTACATAATCAAC
Found at i:7576167 original size:43 final size:43
Alignment explanation
Indices: 7576120--7576216 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
7576110 ACTGGGCAAA
*
7576120 TTAGCGGCGTTTTTTAAAAAAGCGCCGCGAAAAGTCCCAGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCAGCGAAAAGTCCCAGTCT
* * * * *
7576163 TTAGCGGTGTTTTTTAAAAAAGTGCAGCTAAAAGTCTCGGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCAGCGAAAAGTCCCAGTCT
*
7576206 TTAGCAGCGTT
1 TTAGCGGCGTT
7576217 ACATATAGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTAAAAAAGCGCAGCGAAAAGTCCCAGTCT
Found at i:7577702 original size:12 final size:10
Alignment explanation
Indices: 7577668--7577822 Score: 65
Period size: 10 Copynumber: 15.6 Consensus size: 10
7577658 CTTATCAAAC
7577668 TATAAAAATA
1 TATAAAAATA
7577678 T-TAAAAAATA
1 TAT-AAAAATA
7577688 TATAAAAAT-
1 TATAAAAATA
*
7577697 TGATATAAATA
1 T-ATAAAAATA
*
7577708 T-TATAAATA
1 TATAAAAATA
*
7577717 TTATAAAAATC
1 -TATAAAAATA
*
7577728 TA-ATAAAT-
1 TATAAAAATA
7577736 TATAAAAA-A
1 TATAAAAATA
*
7577745 TATATAACATA
1 TATA-AAAATA
* * *
7577756 TTTAAAATTT
1 TATAAAAATA
**
7577766 TATAAAAACG
1 TATAAAAATA
*
7577776 TATGAAAAT-
1 TATAAAAATA
* *
7577785 TCTATAAAATT
1 TATA-AAAATA
7577796 TATAAAAA-A
1 TATAAAAATA
*
7577805 GTATTAAAATTA
1 -TA-TAAAAATA
7577817 TATAAA
1 TATAAA
7577823 CCTATAAAAA
Statistics
Matches: 109, Mismatches: 21, Indels: 30
0.68 0.13 0.19
Matches are distributed among these distances:
8 2 0.02
9 25 0.23
10 59 0.54
11 22 0.20
12 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (10 bp):
TATAAAAATA
Found at i:7577709 original size:30 final size:29
Alignment explanation
Indices: 7577673--7577751 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
7577663 CAAACTATAA
7577673 AAATATTAAAAAATATATAAAAAT-TGATAT
1 AAATATTAAAAAATATATAAAAATCT-A-AT
*
7577703 AAATATT-ATAAATATTATAAAAATCTAAT
1 AAATATTAAAAAATA-TATAAAAATCTAAT
7577732 AAAT-TATAAAAAATATATAA
1 AAATAT-TAAAAAATATATAA
7577752 CATATTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
28 1 0.02
29 18 0.42
30 23 0.53
31 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (29 bp):
AAATATTAAAAAATATATAAAAATCTAAT
Found at i:7577757 original size:48 final size:50
Alignment explanation
Indices: 7577668--7577773 Score: 130
Period size: 48 Copynumber: 2.2 Consensus size: 50
7577658 CTTATCAAAC
* *
7577668 TATAAAAATATTAAAAAATATATAAAAATTGATATAAATA-TTATAAATAT
1 TATAAAAATACTAAAAAATATATAAAAAATGATATAAATATTTA-AAATAT
* *
7577718 TATAAAAAT-CTAATAAAT-TATAAAAAAT-ATATAACATATTTAAAATTT
1 TATAAAAATACTAAAAAATATATAAAAAATGATATAA-ATATTTAAAATAT
7577766 TATAAAAA
1 TATAAAAA
7577774 CGTATGAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
47 6 0.12
48 25 0.50
49 10 0.20
50 9 0.18
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (50 bp):
TATAAAAATACTAAAAAATATATAAAAAATGATATAAATATTTAAAATAT
Found at i:7577798 original size:30 final size:31
Alignment explanation
Indices: 7577758--7577822 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
7577748 ATAACATATT
* *
7577758 TAAAATTTTATAAAAACGTATGAAAATTCTA
1 TAAAATTTTATAAAAAAGTATGAAAATTATA
*
7577789 TAAAA-TTTATAAAAAAGTATTAAAATTATA
1 TAAAATTTTATAAAAAAGTATGAAAATTATA
7577819 TAAA
1 TAAA
7577823 CCTATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (31 bp):
TAAAATTTTATAAAAAAGTATGAAAATTATA
Found at i:7577817 original size:19 final size:19
Alignment explanation
Indices: 7577789--7577841 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
7577779 GAAAATTCTA
*
7577789 TAAAATTTATAAAAAAGTAT
1 TAAAA-TTATAAAAAACTAT
* *
7577809 TAAAATTATATAAACCTAT
1 TAAAATTATAAAAAACTAT
*
7577828 AAAAATTA-AAAAAA
1 TAAAATTATAAAAAA
7577842 TCATAAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 4 0.15
19 18 0.67
20 5 0.19
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
TAAAATTATAAAAAACTAT
Found at i:7578418 original size:19 final size:20
Alignment explanation
Indices: 7578396--7578443 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
7578386 ATAAGTGTTT
7578396 ATAATTTTTTAT-AATTCTA
1 ATAATTTTTTATAAATTCTA
* * *
7578415 ATAAGTTTATATAAATTTTA
1 ATAATTTTTTATAAATTCTA
7578435 AT-ATTTTTT
1 ATAATTTTTT
7578444 TGAAAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
ATAATTTTTTATAAATTCTA
Found at i:7583668 original size:20 final size:20
Alignment explanation
Indices: 7583640--7583681 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
7583630 TTTTTATGCA
7583640 TTTTATAAAATCTTA-TAATT
1 TTTTAT-AAATCTTATTAATT
* *
7583660 TTTTGTAAATTTTATTAATT
1 TTTTATAAATCTTATTAATT
7583680 TT
1 TT
7583682 CAATTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTATAAATCTTATTAATT
Found at i:7584360 original size:30 final size:30
Alignment explanation
Indices: 7584326--7584397 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
7584316 TTAAGAAAAG
* *
7584326 TAAAATTATACTTTGACCCTTTAAAAATGA
1 TAAAATTATAATTTAACCCTTTAAAAATGA
* * *
7584356 TAAAATTTTAATTTAATCCTTTAAAAATTA
1 TAAAATTATAATTTAACCCTTTAAAAATGA
7584386 TAAAGA-TATAAT
1 TAAA-ATTATAAT
7584398 CAAAATTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 34 0.97
31 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.40
Consensus pattern (30 bp):
TAAAATTATAATTTAACCCTTTAAAAATGA
Found at i:7585760 original size:23 final size:24
Alignment explanation
Indices: 7585720--7585770 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
7585710 TTTTTTTTAT
*
7585720 TTTTTATTTTCATAATTTATATAA
1 TTTTTAATTTCATAATTTATATAA
* *
7585744 TTTTTAATTTCAT-ATTTTTATTA
1 TTTTTAATTTCATAATTTATATAA
7585767 TTTT
1 TTTT
7585771 GTATTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTTAATTTCATAATTTATATAA
Found at i:7594222 original size:43 final size:44
Alignment explanation
Indices: 7594144--7594227 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 44
7594134 TATGTAAAAT
* * *
7594144 AAAATATGTGATAATTATACATTTAAAAAGTTTATAATTTAACA
1 AAAATATGTAATAATTACACATTTAAAAAGATTATAATTTAACA
* *
7594188 AAAAT-TGTAATAATTACATATTTAAAATA-ATTATACTTTA
1 AAAATATGTAATAATTACACATTTAAAA-AGATTATAATTTA
7594228 GTTTATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 28 0.82
44 6 0.18
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (44 bp):
AAAATATGTAATAATTACACATTTAAAAAGATTATAATTTAACA
Found at i:7597761 original size:44 final size:45
Alignment explanation
Indices: 7597595--7597767 Score: 168
Period size: 49 Copynumber: 3.7 Consensus size: 45
7597585 GGGATAAGAT
* * *
7597595 GTCGACGCCATGTCCTAGACATGGTCTTACACTGGCTAACACATCAAA
1 GTCGACGCCATGTCCCAGACA-GGTCTTACACT-G-AAACACAACAAA
* ** * *
7597643 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAA
1 GTCGACGCCATGTCCCAGACAGGTCTTACACTGA--AACACA-A-CAAA
* * *
7597692 GCCAATGCCATGTCCCAGACAGGTCTTACACTGAAACACAAC-AA
1 GTCGACGCCATGTCCCAGACAGGTCTTACACTGAAACACAACAAA
*
7597736 GTTGACGCCATGTCCCAGACAGGTCTTACACT
1 GTCGACGCCATGTCCCAGACAGGTCTTACACT
7597768 AGCTTGTAAT
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
44 30 0.29
45 1 0.01
46 2 0.02
47 17 0.16
48 19 0.18
49 35 0.34
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (45 bp):
GTCGACGCCATGTCCCAGACAGGTCTTACACTGAAACACAACAAA
Found at i:7597815 original size:48 final size:46
Alignment explanation
Indices: 7597744--7597958 Score: 213
Period size: 46 Copynumber: 4.6 Consensus size: 46
7597734 AAGTTGACGC
*
7597744 CATGTCCCAGACAGGTCTTACACTAGCTTGTAATCTCGAGGCCCGATG
1 CATGT-CCAGACATGTCTTACACTAGCTTGTAATCTCGAGG-CCGATG
* * ** * *
7597792 CATGTCCTAGAAATGTCTTACACTAGC-TCTCGTCTCAATGCCGATG
1 CATGTCC-AGACATGTCTTACACTAGCTTGTAATCTCGAGGCCGATG
*
7597838 CATGTTCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCCGATG
1 CATG-TCCAGACATGTCTTACACTAGCTTGTA-ATCTCGAGGCCGATG
* * * *
7597886 CATGTCCAAGACATGTCTTACACTGGCTCTCATAA--T-GTGGTCGATG
1 CATGTCC-AGACATGTCTTACACTAGCT-T-GTAATCTCGAGGCCGATG
7597932 CATGTCCCAGACATGTCTTACACTAGC
1 CATGT-CCAGACATGTCTTACACTAGC
7597959 ACACATATCA
Statistics
Matches: 141, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
46 58 0.41
47 21 0.15
48 58 0.41
49 2 0.01
50 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCAGACATGTCTTACACTAGCTTGTAATCTCGAGGCCGATG
Found at i:7597967 original size:94 final size:94
Alignment explanation
Indices: 7597744--7597958 Score: 294
Period size: 94 Copynumber: 2.3 Consensus size: 94
7597734 AAGTTGACGC
* *
7597744 CATGTCCCAGACAGGTCTTACACTAGCTTGTA-ATCTCGAGGCCCGATGCATGTCCTAGAAATGT
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCCGATGCATGTCCAAGAAATGT
*
7597808 CTTACACTAGCTCTCGTCTCAATGCCGATG
66 CTTACACTAGCTCTCG-ATCAATGCCGATG
* * *
7597838 CATGTTCCAGACATGTCTTACACTGGCTTGTATATCTCGAGG-CCGATGCATGTCCAAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCCGATGCATGTCCAAGAAATGT
* *
7597902 CTTACACTGGCTCTC-AT-AATGTGGTCGATG
66 CTTACACTAGCTCTCGATCAA--T-GCCGATG
7597932 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
7597959 ACACATATCA
Statistics
Matches: 107, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 1 0.01
94 94 0.88
95 9 0.08
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCCGATGCATGTCCAAGAAATGT
CTTACACTAGCTCTCGATCAATGCCGATG
Found at i:7599169 original size:14 final size:14
Alignment explanation
Indices: 7599134--7599160 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7599124 CTCACAATCA
7599134 CTAAAATTAATTCG
1 CTAAAATTAATTCG
7599148 CTAAAATTAATTC
1 CTAAAATTAATTC
7599161 ATCAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (14 bp):
CTAAAATTAATTCG
Found at i:7603628 original size:23 final size:24
Alignment explanation
Indices: 7603586--7603635 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
7603576 AACACTGACG
* *
7603586 TGAGTTAATCTTTTGCTTGTTTAAT
1 TGAGTTAA-CTTTTGATTGTTAAAT
7603611 TGAGTTAA-TTTTGATTGTTAAAT
1 TGAGTTAACTTTTGATTGTTAAAT
7603634 TG
1 TG
7603636 TCTTCCTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
25 8 0.35
ACGTcount: A:0.24, C:0.04, G:0.18, T:0.54
Consensus pattern (24 bp):
TGAGTTAACTTTTGATTGTTAAAT
Found at i:7605905 original size:17 final size:17
Alignment explanation
Indices: 7605883--7605927 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
7605873 AGAGAAAAAC
7605883 CAAAAATAAAAAATAAA
1 CAAAAATAAAAAATAAA
*
7605900 CAAAAA-CAAAAATAAA
1 CAAAAATAAAAAATAAA
**
7605916 TTAAAATAAAAA
1 CAAAAATAAAAA
7605928 CCAATAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (17 bp):
CAAAAATAAAAAATAAA
Found at i:7607712 original size:24 final size:22
Alignment explanation
Indices: 7607685--7607734 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
7607675 TTTGTAAATC
7607685 TATTATGTGTATTATATCTTCTCA
1 TATTATGTGTATTAT-TCTT-TCA
* * *
7607709 TATTTTTTTTATTATTCTTTCA
1 TATTATGTGTATTATTCTTTCA
7607731 TATT
1 TATT
7607735 TTATATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 7 0.30
23 4 0.17
24 12 0.52
ACGTcount: A:0.22, C:0.10, G:0.04, T:0.64
Consensus pattern (22 bp):
TATTATGTGTATTATTCTTTCA
Found at i:7607734 original size:22 final size:23
Alignment explanation
Indices: 7607694--7607746 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
7607684 CTATTATGTG
* *
7607694 TATTATATCTTCTCATATTTTTTT
1 TATTAT-TCTTCTCATATTTTATA
7607718 TATTATTCTT-TCATATTTTATA
1 TATTATTCTTCTCATATTTTATA
7607740 TATTATT
1 TATTATT
7607747 TAAGTTATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 17 0.63
23 4 0.15
24 6 0.22
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTATTCTTCTCATATTTTATA
Found at i:7608409 original size:16 final size:16
Alignment explanation
Indices: 7608388--7608420 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7608378 AATAAATCGT
7608388 ATTTTTGAAGGTATAA
1 ATTTTTGAAGGTATAA
7608404 ATTTTTGAAGGTATAA
1 ATTTTTGAAGGTATAA
7608420 A
1 A
7608421 GGATCGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (16 bp):
ATTTTTGAAGGTATAA
Found at i:7609648 original size:41 final size:41
Alignment explanation
Indices: 7609603--7609680 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
7609593 GTGTCGGTCT
* *
7609603 TTATTGCGGACATGCATGCCCGATTCAAGTATAAAGTATCC
1 TTATTGAGGACATGCAAGCCCGATTCAAGTATAAAGTATCC
* * *
7609644 TTATTGAGTACATGCAAGCTCGATTCAAGTGTAAAGT
1 TTATTGAGGACATGCAAGCCCGATTCAAGTATAAAGT
7609681 GTCGTACCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (41 bp):
TTATTGAGGACATGCAAGCCCGATTCAAGTATAAAGTATCC
Found at i:7611365 original size:21 final size:20
Alignment explanation
Indices: 7611336--7611399 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
7611326 ATAGATAATT
7611336 TAAATGAAATGAGAAAAAAA
1 TAAATGAAATGAGAAAAAAA
*
7611356 TAAATTGAAATGAACAAAAATAATA
1 TAAA-TGAAATG-A-GAAAA-AA-A
*
7611381 TAAATGAACTGAGAAAAAA
1 TAAATGAAATGAGAAAAAA
7611400 TTTAAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
20 4 0.11
21 9 0.25
22 5 0.14
23 5 0.14
24 8 0.22
25 5 0.14
ACGTcount: A:0.66, C:0.03, G:0.12, T:0.19
Consensus pattern (20 bp):
TAAATGAAATGAGAAAAAAA
Found at i:7611429 original size:28 final size:27
Alignment explanation
Indices: 7611395--7611511 Score: 95
Period size: 28 Copynumber: 4.4 Consensus size: 27
7611385 TGAACTGAGA
*
7611395 AAAAATTTAAATTTACAAGGAAAGAAAG
1 AAAAATTTAAATTTA-AATGAAAGAAAG
* *
7611423 ATAAATTTAAA-TGAAATG--AG---G
1 AAAAATTTAAATTTAAATGAAAGAAAG
*
7611444 AAAAATTTAAATTTAAAAGAAATGAGAA-
1 AAAAATTTAAATTTAAATGAAA-GA-AAG
*
7611472 AAAAATTTAAATTAAAAATGAAAGAAAG
1 AAAAATTTAAATT-TAAATGAAAGAAAG
*
7611500 ATAAATTTAAAT
1 AAAAATTTAAAT
7611512 GAAATGAGGA
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
21 11 0.16
22 5 0.07
24 3 0.04
25 1 0.01
26 3 0.04
27 4 0.06
28 36 0.51
29 7 0.10
ACGTcount: A:0.62, C:0.01, G:0.12, T:0.26
Consensus pattern (27 bp):
AAAAATTTAAATTTAAATGAAAGAAAG
Found at i:7611448 original size:49 final size:47
Alignment explanation
Indices: 7611296--7611616 Score: 231
Period size: 49 Copynumber: 6.6 Consensus size: 47
7611286 GATAAAGGGT
* * * *
7611296 ATGAGAAAAAAATGAAAATTACATGGAAAGATAGATAATTTAAATGAA
1 ATGAGAAAAAAATTAAATTTA-AAGGAAAGAAAGATAATTTAAATGAA
* * *
7611344 ATGAGAAAAAAA-TAAATTGAAATGAACA-AAA-ATAATATAAATGAA
1 ATGAGAAAAAAATTAAATTTAAAGGAA-AGAAAGATAATTTAAATGAA
* *
7611389 CTGAGAAAAAATTTAAATTTACAAGGAAAGAAAGATAAATTTAAATGAA
1 ATGAGAAAAAAATTAAATTTA-AAGGAAAGAAAGAT-AATTTAAATGAA
* * * * * *
7611438 ATGAGGAAAAATTTAAATTTAAAAGAAATGAGAAAAAAATTTAAATTAAAA
1 ATGAGAAAAAAATTAAATTTAAAGGAAA-GA-AAGATAATTTAAA-T-GAA
** **
7611489 ATGAAAGAAAGATAAATTTAAATGAAATGAGGAAA-AAATCTAATTTAAATGAA
1 ATG--AGAAA-A-AAA-TTAAATTTAA--AGGAAAGAAAGATAATTTAAATGAA
* * **
7611542 ATGAGAAAAAAATT-AATTTGCATGGAAAGATTGATAATTTAAATGAA
1 ATGAGAAAAAAATTAAATTT-AAAGGAAAGAAAGATAATTTAAATGAA
*
7611589 ATGAGGAAAAAAATT-AATTTAAATGAAA
1 ATGA-GAAAAAAATTAAATTTAAAGGAAA
7611617 TGAGAAAAAA
Statistics
Matches: 215, Mismatches: 38, Indels: 41
0.73 0.13 0.14
Matches are distributed among these distances:
45 23 0.11
46 19 0.09
47 40 0.19
48 38 0.18
49 43 0.20
50 5 0.02
51 10 0.05
53 9 0.04
54 2 0.01
55 12 0.06
56 9 0.04
58 5 0.02
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.25
Consensus pattern (47 bp):
ATGAGAAAAAAATTAAATTTAAAGGAAAGAAAGATAATTTAAATGAA
Found at i:7611460 original size:27 final size:27
Alignment explanation
Indices: 7611424--7611638 Score: 158
Period size: 27 Copynumber: 8.4 Consensus size: 27
7611414 GAAAGAAAGA
7611424 TAAATTTAAATGAAATGAGGAAAAATT
1 TAAATTTAAATGAAATGAGGAAAAATT
* *
7611451 TAAATTTAAAAGAAATGAGAAAAAAATT
1 TAAATTTAAATGAAATGAG-GAAAAATT
**
7611479 TAAA-TT-AA--AAATGA--AAGAAAGA
1 TAAATTTAAATGAAATGAGGAA-AAATT
*
7611501 TAAATTTAAATGAAATGAGGAAAAAATC
1 TAAATTTAAATGAAATGAGG-AAAAATT
* *
7611529 T-AATTTAAATGAAATGAGAAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAATT
* *
7611555 T-AA-TT---TG-CAT--GGAAAGATT
1 TAAATTTAAATGAAATGAGGAAAAATT
* *
7611574 GATAATTTAAATGAAATGAGGAAAAAAAT
1 TA-AATTTAAATGAAATGAGG-AAAAATT
*
7611603 T-AATTTAAATGAAATGA-GAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAATT
7611628 TAAATTTAAAT
1 TAAATTTAAAT
7611639 AAAAAATAAT
Statistics
Matches: 150, Mismatches: 18, Indels: 41
0.72 0.09 0.20
Matches are distributed among these distances:
19 6 0.04
21 6 0.04
22 11 0.07
23 2 0.01
24 8 0.05
25 12 0.08
26 28 0.19
27 53 0.35
28 17 0.11
29 7 0.05
ACGTcount: A:0.58, C:0.01, G:0.13, T:0.27
Consensus pattern (27 bp):
TAAATTTAAATGAAATGAGGAAAAATT
Found at i:7611638 original size:21 final size:20
Alignment explanation
Indices: 7611607--7611729 Score: 78
Period size: 21 Copynumber: 6.0 Consensus size: 20
7611597 AAAAATTAAT
7611607 TTAAATGAAATGAGAAAAAA
1 TTAAATGAAATGAGAAAAAA
* *
7611627 TTAAATTTAAAT-AAAAAATAA
1 TTAAA-TGAAATGAGAAAA-AA
7611648 TATAAATGAAATGAGAAATAAAA
1 T-TAAATGAAATGAG-AA-AAAA
*
7611671 TAAAATTG-AA--A-AAAAAA
1 TTAAA-TGAAATGAGAAAAAA
7611688 TCTAAATGAAATGA-AATAAAA
1 T-TAAATGAAATGAGAA-AAAA
* *
7611709 TAGAAATGAAATGACAAAAAA
1 T-TAAATGAAATGAGAAAAAA
7611730 AAAAGTGAGG
Statistics
Matches: 82, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
17 7 0.09
18 7 0.09
20 14 0.17
21 33 0.40
22 12 0.15
23 7 0.09
24 2 0.02
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (20 bp):
TTAAATGAAATGAGAAAAAA
Found at i:7611656 original size:42 final size:40
Alignment explanation
Indices: 7611595--7611709 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 40
7611585 TGAAATGAGG
* * *
7611595 AAAAAAATTAATTTAAATGAAATGAGAAAAAATTAAATTT
1 AAAAAAAATAATATAAATGAAATGAGAAAAAATTAAAATT
*
7611635 AAATAAAAAATAATATAAATGAAATGAGAAATAAAATAAAATT
1 -AA-AAAAAATAATATAAATGAAATGAGAAA-AAATTAAAATT
* *
7611678 GAAAAAAA-AATCTAAATGAAATGA-AATAAAAT
1 AAAAAAAATAATATAAATGAAATGAGAA-AAAAT
7611710 AGAAATGAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
39 5 0.08
40 16 0.25
41 8 0.12
42 26 0.41
43 9 0.14
ACGTcount: A:0.67, C:0.01, G:0.08, T:0.24
Consensus pattern (40 bp):
AAAAAAAATAATATAAATGAAATGAGAAAAAATTAAAATT
Found at i:7611660 original size:74 final size:75
Alignment explanation
Indices: 7611371--7611671 Score: 347
Period size: 77 Copynumber: 4.1 Consensus size: 75
7611361 TGAAATGAAC
* * *
7611371 AAAAA-TAATATAAATGAACTGAG-AAAAAATTTAAATTTACAAGGAAAGAAAGATAAATTTAAA
1 AAAAATTAATTTAAATGAAATGAGAAAAAAATTTAAATTTA-AATGAAAGAAAGATAAATTTAAA
7611434 TGAAATGAGGA
65 TGAAATGAGGA
* * *
7611445 AAAATTTAAATTTAAAAGAAATGAGAAAAAAATTTAAATTAAAAATGAAAGAAAGATAAATTTAA
1 AAAAATT-AATTTAAATGAAATGAGAAAAAAATTTAAATT-TAAATGAAAGAAAGATAAATTTAA
7611510 ATGAAATGAGGA
64 ATGAAATGAGGA
** **
7611522 AAAAATCTAATTTAAATGAAATGAGAAAAAAA-TT-AATTTGCATGGAAAGATTGAT-AATTTAA
1 AAAAAT-TAATTTAAATGAAATGAGAAAAAAATTTAAATTTAAAT-GAAAGAAAGATAAATTTAA
7611584 ATGAAATGAGGAA
64 ATGAAATGAGG-A
*
7611597 AAAAATTAATTTAAATGAAATGAG-AAAAAA-TTAAATTTAAAT--AA-AAA-AT-AATATAAAT
1 AAAAATTAATTTAAATGAAATGAGAAAAAAATTTAAATTTAAATGAAAGAAAGATAAATTTAAAT
*
7611655 GAAATGAGAA
66 GAAATGAGGA
7611665 ATAAAAT
1 A-AAAAT
7611672 AAAATTGAAA
Statistics
Matches: 199, Mismatches: 19, Indels: 23
0.83 0.08 0.10
Matches are distributed among these distances:
68 2 0.01
69 23 0.12
70 1 0.01
71 2 0.01
73 8 0.04
74 49 0.25
75 21 0.11
76 16 0.08
77 75 0.38
78 2 0.01
ACGTcount: A:0.60, C:0.01, G:0.13, T:0.26
Consensus pattern (75 bp):
AAAAATTAATTTAAATGAAATGAGAAAAAAATTTAAATTTAAATGAAAGAAAGATAAATTTAAAT
GAAATGAGGA
Found at i:7611944 original size:16 final size:16
Alignment explanation
Indices: 7611925--7611966 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
7611915 TAACAAATTT
7611925 AAAATTTAAAT-TGACA
1 AAAATTTAAATATGA-A
7611941 AAAA-TTAAATATGAA
1 AAAATTTAAATATGAA
7611956 AAAATTTAAAT
1 AAAATTTAAAT
7611967 GACCTCGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (16 bp):
AAAATTTAAATATGAA
Found at i:7611948 original size:15 final size:15
Alignment explanation
Indices: 7611925--7611966 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
7611915 TAACAAATTT
*
7611925 AAAATTTAAAT-TGA
1 AAAAATTAAATATGA
7611939 CAAAAATTAAATATGA
1 -AAAAATTAAATATGA
7611955 AAAAATTTAAAT
1 AAAAA-TTAAAT
7611967 GACCTCGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (15 bp):
AAAAATTAAATATGA
Found at i:7612050 original size:15 final size:16
Alignment explanation
Indices: 7611991--7612047 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
7611981 GACTACTTTT
7611991 AATTAATATGAAAAAA
1 AATTAATATGAAAAAA
* *
7612007 TATGAAATGAATTGAAAAAA
1 AAT-TAAT--A-TGAAAAAA
7612027 AATTAATATGAAAAAA
1 AATTAATATGAAAAAA
*
7612043 TATTA
1 AATTA
7612048 TATTAGGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
16 14 0.44
17 4 0.12
19 4 0.12
20 10 0.31
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (16 bp):
AATTAATATGAAAAAA
Found at i:7612291 original size:17 final size:17
Alignment explanation
Indices: 7612266--7612304 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
7612256 GAAAGATAGA
* *
7612266 AAATTTAAATGAAATGT
1 AAATGTAAATGAAATGC
7612283 AAATGTAAATGAAATGC
1 AAATGTAAATGAAATGC
7612300 AAATG
1 AAATG
7612305 AAACTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.03, G:0.15, T:0.28
Consensus pattern (17 bp):
AAATGTAAATGAAATGC
Found at i:7612433 original size:13 final size:13
Alignment explanation
Indices: 7612408--7612441 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
7612398 CGGCCTTACA
*
7612408 TTCAATGTTTTTT
1 TTCAATTTTTTTT
7612421 TT-AATTTTTTTT
1 TTCAATTTTTTTT
7612433 TTCAATTTT
1 TTCAATTTT
7612442 ACCCTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (13 bp):
TTCAATTTTTTTT
Found at i:7614523 original size:3 final size:3
Alignment explanation
Indices: 7614509--7614957 Score: 88
Period size: 3 Copynumber: 150.7 Consensus size: 3
7614499 AGTAAGTAAC
* * * * * *
7614509 AAT AAA AAT AAT AAT AAT AGT AAT AA- AA- AAT GAT AAT AGT GAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
7614555 AGT AAT AAT AAT AAT TAT AGGA- AAT CAT AGT ACATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT A-A-T AAT AAT AAT AAT
** * * **
7614603 ATAT GTT AAT ATAT AAA AAT AGGA- AAT GAT AAT -AT GGT AA- AA- AAT
1 A-AT AAT AAT A-AT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
7614648 AAT AAT AAT AAT AAT AAC AAA AAT AGT AAC AAT AGT ATGT GA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
** * * * * *
7614693 AAT AAT TGT AA- AAA AAT AAT AGT AAT AAT TAT ATT GAT AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * *
7614738 AAC AAT AAT ACT AAT AAT AAT AGT AGT AA- AA- AAT AA- AA- AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
7614781 AAA AAT AAT AAT AAT AGT AGT AAA AAT GAC AAT AA- AAT AA- GAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *** *
7614827 AAT AAT GAT AAA AAT AAA AAT AAA AAT AGT AAT AAT GGC AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
7614875 ACCAT AAT AA- AAG AAA AAGA AAT AAT AAC ATGT AAAT AAT AAT AAC
1 A--AT AAT AAT AAT AAT AA-T AAT AAT AAT A-AT -AAT AAT AAT AAT
* * * *
7614921 AAT AAT -AT ATT TAT AAT AAT AAT AGT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7614958 AATTAACTAA
Statistics
Matches: 313, Mismatches: 104, Indels: 58
0.66 0.22 0.12
Matches are distributed among these distances:
2 32 0.10
3 256 0.82
4 17 0.05
5 8 0.03
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7614924 original size:26 final size:26
Alignment explanation
Indices: 7614895--7614944 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
7614885 AAGAAAAAGA
7614895 AATAATAACATGTA-AATAATAATAAC
1 AATAAT-ACATGTATAATAATAATAAC
* *
7614921 AATAATATATTTATAATAATAATA
1 AATAATACATGTATAATAATAATA
7614945 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (26 bp):
AATAATACATGTATAATAATAATAAC
Found at i:7615576 original size:11 final size:11
Alignment explanation
Indices: 7615556--7615607 Score: 56
Period size: 10 Copynumber: 5.0 Consensus size: 11
7615546 AAGGTACCCC
7615556 TTTTTAATAT-
1 TTTTTAATATA
*
7615566 TTTTT-GTATA
1 TTTTTAATATA
7615576 TTTTTAATATA
1 TTTTTAATATA
*
7615587 TTTTTGATATA
1 TTTTTAATATA
*
7615598 -TCTTAATATA
1 TTTTTAATATA
7615608 AGTATAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 3 0.09
10 18 0.51
11 14 0.40
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (11 bp):
TTTTTAATATA
Found at i:7615581 original size:20 final size:22
Alignment explanation
Indices: 7615556--7615607 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
7615546 AAGGTACCCC
7615556 TTTTTAATAT-TTTTTG-TATA
1 TTTTTAATATATTTTTGATATA
7615576 TTTTTAATATATTTTTGATATA
1 TTTTTAATATATTTTTGATATA
*
7615598 -TCTTAATATA
1 TTTTTAATATA
7615608 AGTATAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 10 0.34
21 15 0.52
22 4 0.14
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (22 bp):
TTTTTAATATATTTTTGATATA
Found at i:7616290 original size:22 final size:22
Alignment explanation
Indices: 7616232--7616290 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
7616222 GAATGGTATC
7616232 TACAAATCAAATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
7616254 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
*
7616277 TACATATCAAATCT
1 TACAAATCAAATCT
7616291 ACGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
23 14 0.44
24 6 0.19
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Found at i:7622211 original size:88 final size:88
Alignment explanation
Indices: 7622058--7622341 Score: 428
Period size: 88 Copynumber: 3.2 Consensus size: 88
7622048 TAAGATCTGT
* * * * * *
7622058 GATTTATAGCTTCGATCTAATCGGCTGAAACTTTAATGAGATACGAATGGTGGCTTCGAGGCTCT
1 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAATGAGATACGAATGGTGGCTTCGAGCCTCT
7622123 TCAGTGCCATTTCAGGGAGAAGA
66 TCAGTGCCATTTCAGGGAGAAGA
* * *
7622146 GATTTGTTGCTTCGATCTACTCCGTTGGAACTTCAATGAGATACTAATGGTGGCTTCGAGCCTCT
1 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAATGAGATACGAATGGTGGCTTCGAGCCTCT
*
7622211 TCAGTGCCATTTCAGGGAGAAGG
66 TCAGTGCCATTTCAGGGAGAAGA
* * *
7622234 GATTTATAGCTTTGATCTACTCCGCTGGAACTTCAAGGAGATACGAATGGTGGCTTCGAGCCTCT
1 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAATGAGATACGAATGGTGGCTTCGAGCCTCT
*
7622299 CCAGTGCCATTTCAGGGAG-A-A
66 TCAGTGCCATTTCAGGGAGAAGA
7622320 GATTTGTAGCTTCGATCTACTC
1 GATTTGTAGCTTCGATCTACTC
7622342 TGCTACTGCT
Statistics
Matches: 176, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
86 20 0.11
87 1 0.01
88 155 0.88
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (88 bp):
GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAATGAGATACGAATGGTGGCTTCGAGCCTCT
TCAGTGCCATTTCAGGGAGAAGA
Found at i:7622523 original size:44 final size:44
Alignment explanation
Indices: 7622464--7622963 Score: 165
Period size: 44 Copynumber: 11.5 Consensus size: 44
7622454 TAAATTCAGC
* *
7622464 CTGTTACCTTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
* * * *** * *
7622508 CTATTTCCCTACTGCTTA-GGGTGATAA-GATC-TGTAAATT-TAGC
1 CTGTTTCCCTACTGCTTAGGGGT-TTAAGGCTCAT-TGCCTTCGA-T
* *
7622551 CTGTTACCCTATTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
* * * *** *
7622595 CTGTTTCCCTACTACTTA-GGGTGATAA-GATC-TGTAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGT-TTAAGGCTCAT-TGCCTTCGA-T
* * * * *
7622638 CTGTTACCCTACTACTTAGGGTTTTAAGGC-CTATCGCATTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTC-ATTGCCTTCGAT
* *** *
7622682 CTGTTTCCCTACTGCTTA-GGGTGTTAA-GATC-TGTAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGT-TTAAGGCTCAT-TGCCTTCGA-T
* * * * * * *
7622725 CTGTTACCTTATTACTTAGGGGTTTAAGGCCCATCGCCTTCAAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
* * * * * *** *
7622769 TTGTTTCCCTACTACTGAGGGGGTTAA-GATC-TATAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCAT-TGCCTTCGA-T
* * * *
7622812 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCATCGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
** * * *** *
7622856 CTGTTTCCCTACTATTTAGGGGGTTAA-GATC-TGTAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCAT-TGCCTTCGA-T
* * * * * *
7622899 CTGTTACTCTACTGCTTAAGGGTTTAAGGCCCATCGCTTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
*
7622943 CTATTTCCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTAGGG
7622964 TGATAAGATC
Statistics
Matches: 312, Mismatches: 111, Indels: 66
0.64 0.23 0.13
Matches are distributed among these distances:
42 10 0.03
43 138 0.44
44 154 0.49
45 10 0.03
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (44 bp):
CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
Found at i:7622569 original size:43 final size:43
Alignment explanation
Indices: 7622514--7623100 Score: 187
Period size: 43 Copynumber: 13.5 Consensus size: 43
7622504 CGATCTATTT
* *
7622514 CCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * * *** * * *
7622557 CCCTATTGCTTAGGG-GTTTAAGGCTCAT-T-GCCTTCGATCTGTTT
1 CCCTACTACTTAGGGTG-TTAA-GATC-TGTAAATTTAG-CCTGTTA
* *
7622601 CCCTACTACTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* ** * ** * * *
7622644 CCCTACTACTTAGGGTTTTAAGGCCTATCGCA-TTCGATCTGTTT
1 CCCTACTACTTAGGGTGTTAAGATCTGT-AAATTTAG-CCTGTTA
* *
7622688 CCCTACTGCTTAGGGTGTTAAGATCTGTAAATTCAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * *
7622731 CCTTATTACTTAGGG-GTTTAAGGCCCATC-GCCTTCAATTT-G--T-TT-
1 CCCTACTACTTAGGGTG-TTAA-G---ATCTG---TAAATTTAGCCTGTTA
* * * *
7622775 CCCTACTACTGAGGGGGTTAAGATCTATAAATTCAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * ** **** * * *
7622818 CCCTACTGCTTAGGG-GTTTAAGACCCATCGCCTTCGATCTGTTT
1 CCCTACTACTTAGGGTG-TTAAGATCTGTAAATTTAG-CCTGTTA
* * *
7622862 CCCTACTATTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * ** ** *** * * * *
7622905 CTCTACTGCTTAAGGGT-TTAAGGCCCATCGCTTTCGATCTATTT
1 CCCTACTACTT-AGGGTGTTAAGATCTGTAAATTTAG-CCTGTTA
* * * *
7622949 CCCTACTGCTTAGGGTGATAAGATCAGTAAATTTAGCATGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * * * * * * *
7622992 CCCTACTGCTTAGGG-GTTTAAGGTCTATCACTTTCGATCTACTT-
1 CCCTACTACTTAGGGTG-TTAAGATCTGTAAATTTAG-CCT-GTTA
* * * *
7623036 CCCTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * *
7623079 CCCTATTGCTTAGGGAGTTAAG
1 CCCTACTACTTAGGGTGTTAAG
7623101 GCTTATGAAT
Statistics
Matches: 379, Mismatches: 129, Indels: 72
0.65 0.22 0.12
Matches are distributed among these distances:
38 5 0.01
39 1 0.00
40 3 0.01
41 1 0.00
42 9 0.02
43 180 0.47
44 160 0.42
45 9 0.02
46 2 0.01
47 3 0.01
48 1 0.00
49 5 0.01
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (43 bp):
CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
Found at i:7622579 original size:87 final size:87
Alignment explanation
Indices: 7622344--7623102 Score: 1004
Period size: 87 Copynumber: 8.7 Consensus size: 87
7622334 ATCTACTCTG
* * * * *
7622344 CTACTGCTTAGGGAGATAGGAT-GGTAAATTCAGCCTGTCACCCTACTACTTAGAGGG-TTAAGG
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG-GGGTTTAAGG
*
7622407 CCCATCGCCATCGATCTGTTTCC
65 CCCATCGCCTTCGATCTGTTTCC
* * *
7622430 CTACTACTTAGGGTGATAAGAT-GGTAAATTCAGCCTGTTACCTTACTGCTTAGGGGTTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* * *
7622494 TCATTGCCTTCGATCTATTTCC
66 CCATCGCCTTCGATCTGTTTCC
* *
7622516 CTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTACCCTATTGCTTAGGGGTTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* *
7622581 TCATTGCCTTCGATCTGTTTCC
66 CCATCGCCTTCGATCTGTTTCC
* * *
7622603 CTACTACTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGTTTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* *
7622668 CTATCGCATTCGATCTGTTTCC
66 CCATCGCCTTCGATCTGTTTCC
* * * *
7622690 CTACTGCTTAGGGTGTTAAGATCTGTAAATTCAGCCTGTTACCTTATTACTTAGGGGTTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* *
7622755 CCATCGCCTTCAATTTGTTTCC
66 CCATCGCCTTCGATCTGTTTCC
* * * * * *
7622777 CTACTACTGAGGGGGTTAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGAC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
7622842 CCATCGCCTTCGATCTGTTTCC
66 CCATCGCCTTCGATCTGTTTCC
** * * * *
7622864 CTACTATTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACTCTACTGCTTAAGGGTTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* *
7622929 CCATCGCTTTCGATCTATTTCC
66 CCATCGCCTTCGATCTGTTTCC
* * * *
7622951 CTACTGCTTAGGGTGATAAGATCAGTAAATTTAGCATGTTACCCTACTGCTTAGGGGTTTAAGGT
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* * * **
7623016 CTATCACTTTCGATCTACTTCC
66 CCATCGCCTTCGATCTGTTTCC
* *
7623038 CTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTGTTACCCTATTGCTTAGGGAG-TTAAGG
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG-GTTTAAGG
7623102 C
65 C
7623103 TTATGAATTC
Statistics
Matches: 599, Mismatches: 71, Indels: 5
0.89 0.11 0.01
Matches are distributed among these distances:
85 3 0.01
86 93 0.16
87 502 0.84
88 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (87 bp):
CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
CCATCGCCTTCGATCTGTTTCC
Found at i:7623063 original size:44 final size:43
Alignment explanation
Indices: 7622935--7623065 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 43
7622925 AGGCCCATCG
7622935 CTTTCGATCTATTTCCCTACTGCTTAGGGTGATAAGATC-AGTAA
1 CTTTCGATCTA-TTCCCTACTGCTTAGGGTGATAAGATCTA-TAA
* * * * * * *
7622979 ATTTAGCATGT-TACCCTACTGCTTAGGG-GTTTAAGGTCTATCA
1 CTTTCG-ATCTATTCCCTACTGCTTAGGGTG-ATAAGATCTATAA
7623022 CTTTCGATCTACTTCCCTACTGCTTAGGGTGATAAGATCTATAA
1 CTTTCGATCTA-TTCCCTACTGCTTAGGGTGATAAGATCTATAA
7623066 ATTCAGCCTG
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
42 4 0.06
43 28 0.42
44 31 0.46
45 4 0.06
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (43 bp):
CTTTCGATCTATTCCCTACTGCTTAGGGTGATAAGATCTATAA
Found at i:7623273 original size:66 final size:66
Alignment explanation
Indices: 7623167--7623295 Score: 231
Period size: 66 Copynumber: 2.0 Consensus size: 66
7623157 ATGTTTATGC
*
7623167 CAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAATGTG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAATGTG
7623232 T
66 T
* *
7623233 CAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAATTAGATGTGTTATGAATG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAATG
7623296 ATATATGAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (66 bp):
CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAATGTG
T
Found at i:7631544 original size:4 final size:4
Alignment explanation
Indices: 7631535--7631559 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7631525 AGCAAACGTG
7631535 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
7631560 TAGAAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:7639579 original size:28 final size:28
Alignment explanation
Indices: 7639547--7639600 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
7639537 AGAAACTCTA
*
7639547 ATCTACAATCCATTACAAAAAAACTCCC
1 ATCTACAATCCACTACAAAAAAACTCCC
* *
7639575 ATCTATAATCCACTATAAAAAAACTC
1 ATCTACAATCCACTACAAAAAAACTC
7639601 ATTTGATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (28 bp):
ATCTACAATCCACTACAAAAAAACTCCC
Found at i:7639923 original size:44 final size:44
Alignment explanation
Indices: 7639831--7639925 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 44
7639821 ACCAAATTTT
* *
7639831 TTTTTTACTAGTGTAGTGCCGGCCATTAGAAGGCCAAAACCATT
1 TTTTTTACTACTGTAGTGCCGGCCATTAGAAGGCCAAAACCATA
* * * * *
7639875 TTTTTTACTACTTTGGTGCCGGCCATTAGAAGGCTAGAACCGTA
1 TTTTTTACTACTGTAGTGCCGGCCATTAGAAGGCCAAAACCATA
7639919 TTTTTTA
1 TTTTTTA
7639926 AAAAATCCTG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (44 bp):
TTTTTTACTACTGTAGTGCCGGCCATTAGAAGGCCAAAACCATA
Found at i:7643438 original size:25 final size:25
Alignment explanation
Indices: 7643410--7643467 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
7643400 AATTTGATAT
*
7643410 TTCAGCAGAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
7643435 TTCAGCAAAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
7643460 TTC-GCAAA
1 TTCAGCAAA
7643468 CTCAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (25 bp):
TTCAGCAAAGAAGGCATTGTTGAGA
Found at i:7644183 original size:20 final size:22
Alignment explanation
Indices: 7644153--7644194 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
7644143 AAAATAATAA
7644153 AATAGTTATATACTAT-TTTTT
1 AATAGTTATATACTATGTTTTT
*
7644174 AATA-TTATATATTATGTTTTT
1 AATAGTTATATACTATGTTTTT
7644195 TATTCATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
AATAGTTATATACTATGTTTTT
Found at i:7644284 original size:24 final size:23
Alignment explanation
Indices: 7644217--7644284 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
7644207 TTTTAATAAT
* *
7644217 AATTATA-TTAAGAATGTTATTA
1 AATTATATTTAATAATATTATTA
* *
7644239 AATTATATATT-ATTATCTTTATTA
1 AATTATAT-TTAATAAT-ATTATTA
7644263 AATTATATTTAATAATAATTAT
1 AATTATATTTAATAAT-ATTAT
7644285 ATTAAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 7 0.19
23 5 0.14
24 24 0.67
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:7644327 original size:59 final size:62
Alignment explanation
Indices: 7644172--7644340 Score: 206
Period size: 59 Copynumber: 2.7 Consensus size: 62
7644162 ATACTATTTT
* * * *
7644172 TTAATATTATATATTATGT-TTTTTATT-CATTCATATTTTAATAATAATTATATTAAGAATGTT
1 TTAA-ATTATATATTAT-TATCTTTATTAAATT-ATA-TTTAATAATAATTATATTAAGAATATG
7644235 A
62 A
7644236 TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAA-AATATGA
1 TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAAGAATATGA
*
7644297 TTAAATTATTTATT-TT-T-TATTATTAAATTATATTTAATAATAAT
1 TTAAATTATATATTATTATCT-TTATTAAATTATATTTAATAATAAT
7644341 CCTATTATAA
Statistics
Matches: 97, Mismatches: 5, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
58 1 0.01
59 26 0.27
60 2 0.02
61 18 0.19
62 21 0.22
63 22 0.23
64 7 0.07
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (62 bp):
TTAAATTATATATTATTATCTTTATTAAATTATATTTAATAATAATTATATTAAGAATATGA
Found at i:7644539 original size:16 final size:16
Alignment explanation
Indices: 7644518--7644569 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
7644508 TGAATTACTG
7644518 ATTATAGCTCTATTTC
1 ATTATAGCTCTATTTC
*
7644534 ATTATAGCTTTA-TTC
1 ATTATAGCTCTATTTC
* * *
7644549 AATTACAGCCCTATTCC
1 -ATTATAGCTCTATTTC
7644566 ATTA
1 ATTA
7644570 CAGTGAACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 3 0.10
16 24 0.83
17 2 0.07
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTATAGCTCTATTTC
Found at i:7645633 original size:17 final size:17
Alignment explanation
Indices: 7645613--7645646 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7645603 AAATTTAGGT
7645613 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
7645630 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
7645647 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:7650502 original size:5 final size:5
Alignment explanation
Indices: 7650492--7650526 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
7650482 ATAGAAGATA
* *
7650492 TTATT TTATT TTGTT TTATT TTGTT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT
7650527 ATTTTAGGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:7650510 original size:10 final size:10
Alignment explanation
Indices: 7650495--7650523 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
7650485 GAAGATATTA
7650495 TTTTATTTTG
1 TTTTATTTTG
7650505 TTTTATTTTG
1 TTTTATTTTG
7650515 TTTTATTTT
1 TTTTATTTT
7650524 ATTATTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (10 bp):
TTTTATTTTG
Found at i:7651655 original size:38 final size:39
Alignment explanation
Indices: 7651613--7651690 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 39
7651603 TCAAATACAT
7651613 TTAAAACAAATATTAAAACAAGAAACAAA-AAAAAAATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAAATA
* * * * *
7651651 TTAAAACAATTCTTAAAACAATACACAAATTAAAAAATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAAATA
7651690 T
1 T
7651691 AATAAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
38 25 0.74
39 9 0.26
ACGTcount: A:0.67, C:0.10, G:0.01, T:0.22
Consensus pattern (39 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAAATA
Found at i:7651741 original size:23 final size:23
Alignment explanation
Indices: 7651713--7651757 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7651703 TCATATTAAA
* *
7651713 ATTAAAATTAAAATATAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
7651736 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
7651758 TTATTATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:7653440 original size:17 final size:14
Alignment explanation
Indices: 7653400--7653442 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
7653390 AATTATAATC
*
7653400 AATTAATTTAAAAA
1 AATTAAATTAAAAA
7653414 AATTAAATTAAAAA
1 AATTAAATTAAAAA
7653428 AGATATAAAATTAAA
1 A-AT-T-AAATTAAA
7653443 TGAAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 14 0.56
15 2 0.08
16 1 0.04
17 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (14 bp):
AATTAAATTAAAAA
Found at i:7653461 original size:21 final size:22
Alignment explanation
Indices: 7653412--7653458 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7653402 TTAATTTAAA
*
7653412 AAAATTAAATTAAAAAAGATAT
1 AAAATTAAATGAAAAAAGATAT
**
7653434 AAAATTAAATGAAAAATTATAT
1 AAAATTAAATGAAAAAAGATAT
7653456 AAA
1 AAA
7653459 TTATAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (22 bp):
AAAATTAAATGAAAAAAGATAT
Found at i:7679052 original size:33 final size:33
Alignment explanation
Indices: 7679012--7679096 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
7679002 GGCAATATAT
* *
7679012 GTGTAAGACCATAGCTAGGTTATGGCATCC-TGA
1 GTGTAAGACCATAGCTAGGATATGGCA-CCACGA
* *
7679045 -TGATAAGACCATATCTGGGATATGGCACCACGA
1 GTG-TAAGACCATAGCTAGGATATGGCACCACGA
*
7679078 GTGTAAGACCATGGCTAGG
1 GTGTAAGACCATAGCTAGG
7679097 CCATGACAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
32 4 0.10
33 36 0.86
34 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (33 bp):
GTGTAAGACCATAGCTAGGATATGGCACCACGA
Found at i:7679201 original size:45 final size:45
Alignment explanation
Indices: 7679152--7679262 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 45
7679142 ACCAGAAATA
* * *
7679152 AGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGACG
1 AGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAACG
* * * *
7679197 AGTAAGGCTATAGTTGAAAGACGCTATGACATCGCGATTCAAATG
1 AGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAACG
* *
7679242 TGTAAGACCATGGTTGAAAGA
1 AGTAAGACCATAGTTGAAAGA
7679263 TACCATGGCA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (45 bp):
AGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAACG
Found at i:7679292 original size:46 final size:46
Alignment explanation
Indices: 7679237--7679402 Score: 296
Period size: 46 Copynumber: 3.6 Consensus size: 46
7679227 ATCGCGATTC
7679237 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
7679283 AAATGTGTAAGATCATGGTTGAAAGATACCATGGAAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
**
7679329 AAATGTGTAAGACCATGGTTGAAAGATACGTTGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
7679375 AAATGTGTAAGACCATGGTTGAAAGATA
1 AAATGTGTAAGACCATGGTTGAAAGATA
7679403 GGGAATGGAT
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 114 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:7679351 original size:21 final size:21
Alignment explanation
Indices: 7679327--7679398 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
7679317 AAACATGATA
7679327 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
** * *
7679348 TGAAA-GATACGTTGGCAACATGAT
1 TGAAATG-T--GTAAG-ACCATGGT
7679372 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
7679394 TGAAA
1 TGAAA
7679399 GATAGGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 6 0.16
23 6 0.16
24 6 0.16
25 6 0.16
26 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:7679952 original size:46 final size:45
Alignment explanation
Indices: 7679902--7680078 Score: 205
Period size: 46 Copynumber: 3.9 Consensus size: 45
7679892 TGTCATAGCG
* * *
7679902 TCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCTGTCACGTTG-CATGGTA
* * * *
7679948 TCTTTCAACCATGGTTTTATTCATTTCCCCGTCATGTTGCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTT-TCTGTCACGTTGCATGGTA
* *
7679994 TCTTTCAACCATAGTCTTATTCA-TTTCATGTCACGTTACCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTC-TGTCACGTT-GCATGGTA
*
7680040 TCTTTTAACCATGGTCTTATTCA-TTTCATGTCACGTTGC
1 TCTTTCAACCATGGTCTTATTCATTTTC-TGTCACGTTGC
7680079 GTGTGTTTAG
Statistics
Matches: 113, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.01
45 10 0.09
46 93 0.82
47 9 0.08
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (45 bp):
TCTTTCAACCATGGTCTTATTCATTTTCTGTCACGTTGCATGGTA
Found at i:7683879 original size:28 final size:26
Alignment explanation
Indices: 7683813--7683880 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 26
7683803 AATGTGATAC
* *
7683813 TTGAACTTG-ACATTTTTTTTCTAAT
1 TTGAACTTGAACTTTTTTTTTCCAAT
* *
7683838 TTGAAACCTAAACTTTTTTTTATCCAAT
1 TTG-AACTTGAACTTTTTTTT-TCCAAT
7683866 TTGACACTTGAACTT
1 TTGA-ACTTGAACTT
7683881 GACACTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
25 3 0.09
26 4 0.12
27 10 0.30
28 16 0.48
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (26 bp):
TTGAACTTGAACTTTTTTTTTCCAAT
Found at i:7683898 original size:60 final size:59
Alignment explanation
Indices: 7683801--7683915 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 59
7683791 TTTTTTGTGC
* **
7683801 CCAATGTGATACTTGAACTTGACATTTTTTTTCTAATTTGAAACCTAAACTTTTTTTTAT
1 CCAATGTGACACTTGAACTTGACATTTTTCCTCTAA-TTGAAACCTAAACTTTTTTTTAT
* ** *
7683861 CCAATTTGACACTTGAACTTGACACTTTTTCCT-TAATTGGCACCTAAGCTTTTTT
1 CCAATGTGACACTTGAACTTGACA-TTTTTCCTCTAATTGAAACCTAAACTTTTTT
7683916 AGTCTAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
59 16 0.34
60 25 0.53
61 6 0.13
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (59 bp):
CCAATGTGACACTTGAACTTGACATTTTTCCTCTAATTGAAACCTAAACTTTTTTTTAT
Found at i:7684534 original size:27 final size:26
Alignment explanation
Indices: 7684485--7684545 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
7684475 ATTCACCAAG
*
7684485 TTTAAGTACCAAACTGGACAAAAAAAA
1 TTTAAGTACCAAACTAGA-AAAAAAAA
* *
7684512 TTTAAGTACTAAATTAGAAAAAAAAA
1 TTTAAGTACCAAACTAGAAAAAAAAA
7684538 TGTTAAGT
1 T-TTAAGT
7684546 TCATGTACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 9 0.30
27 21 0.70
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.26
Consensus pattern (26 bp):
TTTAAGTACCAAACTAGAAAAAAAAA
Found at i:7684633 original size:22 final size:22
Alignment explanation
Indices: 7684607--7684650 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7684597 AGTGTCAAAT
*
7684607 TTAGATACTAAATTAAAAAAAA
1 TTAGATACCAAATTAAAAAAAA
* *
7684629 TTAGATACCATATTAAGAAAAA
1 TTAGATACCAAATTAAAAAAAA
7684651 GTGGGGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (22 bp):
TTAGATACCAAATTAAAAAAAA
Found at i:7687082 original size:18 final size:19
Alignment explanation
Indices: 7687047--7687084 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7687037 CCCGATTTTC
7687047 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
7687066 AAAAATTCCAAAT-TTTAT
1 AAAAATTCAAAATATTTAT
7687084 A
1 A
7687085 TTATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:7687604 original size:12 final size:12
Alignment explanation
Indices: 7687574--7687612 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
7687564 ATGATAAAAT
* *
7687574 TTTCTTATTCTC
1 TTTCTTTTTTTC
7687586 TTTCTTTTTTTC
1 TTTCTTTTTTTC
7687598 TTTCTTTTTTTC
1 TTTCTTTTTTTC
7687610 TTT
1 TTT
7687613 TAAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:7689104 original size:3 final size:3
Alignment explanation
Indices: 7689096--7689140 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
7689086 TCTATAAACA
7689096 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7689141 CTAACGGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7690249 original size:21 final size:22
Alignment explanation
Indices: 7690223--7690269 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
7690213 CTCTGCTCAA
*
7690223 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
7690244 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
7690266 ACTC
1 ACTC
7690270 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:7697075 original size:6 final size:6
Alignment explanation
Indices: 7697066--7697096 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
7697056 TTTAATATTC
*
7697066 ATATAA ATATAA ATATAA ATATTA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA ATATAA A
7697097 ATTTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
ATATAA
Found at i:7697076 original size:25 final size:26
Alignment explanation
Indices: 7697022--7697076 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
7697012 GATGGGGATT
* * *
7697022 TATATGTTTTTTAATATTAATGTAAT
1 TATATGTTATTTAATATTAATATAAA
*
7697048 TATAT-TTATTTAATATTCATATAAA
1 TATATGTTATTTAATATTAATATAAA
7697073 TATA
1 TATA
7697077 AATATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (26 bp):
TATATGTTATTTAATATTAATATAAA
Found at i:7697102 original size:12 final size:12
Alignment explanation
Indices: 7697059--7697096 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
7697049 ATATTTATTT
*
7697059 AATATTCATATA
1 AATATTAATATA
*
7697071 AATATAAATATA
1 AATATTAATATA
7697083 AATATTAATATA
1 AATATTAATATA
7697095 AA
1 AA
7697097 ATTTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATTAATATA
Found at i:7700365 original size:40 final size:40
Alignment explanation
Indices: 7700246--7700367 Score: 165
Period size: 40 Copynumber: 3.0 Consensus size: 40
7700236 AACAAATCAG
*
7700246 CTATATGTGGCACTTAGTGTGCGATTCAACATAGTTTCGG
1 CTATATGTGGCACTTAGTGTGCGATTCAACATAGTTTCGA
* *
7700286 CTATACGTGGCACTTAGTGTGCGATTCGACATA-TCTTCGA
1 CTATATGTGGCACTTAGTGTGCGATTCAACATAGT-TTCGA
* * * *
7700326 CTATATATGGCACTTAGTTTGCGATTTAAGATAGTTTCGA
1 CTATATGTGGCACTTAGTGTGCGATTCAACATAGTTTCGA
7700366 CT
1 CT
7700368 GTGTACGACA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 69 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (40 bp):
CTATATGTGGCACTTAGTGTGCGATTCAACATAGTTTCGA
Found at i:7709819 original size:18 final size:17
Alignment explanation
Indices: 7709778--7709821 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
7709768 GAAAAATGAG
7709778 AATTTT-AAAACACGAA
1 AATTTTGAAAACACGAA
7709794 AATTTTGAAAACACGAA
1 AATTTTGAAAACACGAA
7709811 AATTTTTGAAA
1 AA-TTTTGAAA
7709822 CCTGATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 6 0.23
17 12 0.46
18 8 0.31
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (17 bp):
AATTTTGAAAACACGAA
Found at i:7709874 original size:17 final size:18
Alignment explanation
Indices: 7709841--7709874 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7709831 TTTTTTAGAA
*
7709841 AAACACGAAAAATTTTAG
1 AAACACGAAAAAGTTTAG
7709859 AAACACG-AAAAGTTTA
1 AAACACGAAAAAGTTTA
7709875 CAACACTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.21
Consensus pattern (18 bp):
AAACACGAAAAAGTTTAG
Found at i:7710529 original size:3 final size:3
Alignment explanation
Indices: 7710521--7710554 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7710511 ACTAATTTAA
7710521 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7710555 CAAACCAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Done.