Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 254 of 255
Found at i:82178408 original size:12 final size:12
Alignment explanation
Indices: 82178393--82178417 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
82178383 TTTTAAACAC
82178393 ATTTAAAGAATA
1 ATTTAAAGAATA
82178405 ATTTAAAGAATA
1 ATTTAAAGAATA
82178417 A
1 A
82178418 ATAATTTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATTTAAAGAATA
Found at i:82178503 original size:27 final size:27
Alignment explanation
Indices: 82178452--82178509 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
82178442 GTGGGTTTTG
* ***
82178452 AAAGTGAAATGATTTTTTTTTAAAAAA
1 AAAGTGAAATGACTTTTTGAAAAAAAA
82178479 AAAGTGAAATGACTTTTTGAAAAAAAA
1 AAAGTGAAATGACTTTTTGAAAAAAAA
82178506 AAAG
1 AAAG
82178510 GAAGTGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (27 bp):
AAAGTGAAATGACTTTTTGAAAAAAAA
Found at i:82178684 original size:36 final size:37
Alignment explanation
Indices: 82178644--82178722 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 37
82178634 ATTAATAATA
*
82178644 TAATATAATTTTAAATTTAATATAAATAT-ATAT-GAT
1 TAATATAA-TTAAAATTTAATATAAATATAATATAGAT
*
82178680 TAATAT-ATTAAAATTTTATATAAATATAATATAGAT
1 TAATATAATTAAAATTTAATATAAATATAATATAGAT
*
82178716 TACTATA
1 TAATATA
82178723 GAAAAGCTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 18 0.49
35 5 0.14
36 14 0.38
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.46
Consensus pattern (37 bp):
TAATATAATTAAAATTTAATATAAATATAATATAGAT
Found at i:82178701 original size:34 final size:36
Alignment explanation
Indices: 82178656--82178722 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 36
82178646 ATATAATTTT
82178656 AAATTTAATATAAATAT-ATAT-GATTAATATATTA
1 AAATTTAATATAAATATAATATAGATTAATATATTA
* *
82178690 AAATTTTATATAAATATAATATAGATTACTATA
1 AAATTTAATATAAATATAATATAGATTAATATA
82178723 GAAAAGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 16 0.55
35 4 0.14
36 9 0.31
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (36 bp):
AAATTTAATATAAATATAATATAGATTAATATATTA
Found at i:82178969 original size:16 final size:16
Alignment explanation
Indices: 82178948--82178980 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
82178938 TATTTTAGTT
82178948 ATTTTTTTAATTTTTA
1 ATTTTTTTAATTTTTA
82178964 ATTTTTTTAATTTTTA
1 ATTTTTTTAATTTTTA
82178980 A
1 A
82178981 ATTTATATAT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTTTTTAATTTTTA
Found at i:82179100 original size:9 final size:9
Alignment explanation
Indices: 82179076--82179128 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
82179066 TTTTTAATTT
82179076 TTAAAAAT-
1 TTAAAAATA
82179084 TT-AAAATA
1 TTAAAAATA
82179092 TTAAAAATA
1 TTAAAAATA
82179101 TTAAAAATA
1 TTAAAAATA
82179110 -T-AAAATA
1 TTAAAAATA
*
82179117 TAAAAAAATA
1 T-TAAAAATA
82179127 TT
1 TT
82179129 TTTTAATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 11 0.29
8 5 0.13
9 15 0.39
10 7 0.18
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TTAAAAATA
Found at i:82179106 original size:25 final size:26
Alignment explanation
Indices: 82179076--82179128 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
82179066 TTTTTAATTT
* *
82179076 TTAAAAATTTAAAATAT-TAAAAATA
1 TTAAAAATATAAAATATAAAAAAATA
82179101 TTAAAAATATAAAATATAAAAAAATA
1 TTAAAAATATAAAATATAAAAAAATA
82179127 TT
1 TT
82179129 TTTTAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
TTAAAAATATAAAATATAAAAAAATA
Found at i:82180999 original size:31 final size:31
Alignment explanation
Indices: 82180934--82181000 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
82180924 TAACAACTCA
*
82180934 TCAATGACTTAAATAAAAACTATGGAACAAT
1 TCAATGACTTAAATAAAAACTATCGAACAAT
* * * *
82180965 TCAATGACTTAAATGAAAACTTTCGAATAGT
1 TCAATGACTTAAATAAAAACTATCGAACAAT
82180996 TCAAT
1 TCAAT
82181001 AATCATTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.30
Consensus pattern (31 bp):
TCAATGACTTAAATAAAAACTATCGAACAAT
Found at i:82184964 original size:4 final size:4
Alignment explanation
Indices: 82184957--82184995 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
82184947 CCATTTTACT
* *
82184957 TACA TACA TACA T-TA TACA TACA TTCA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
82184996 CACACACATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 2 0.07
4 28 0.93
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (4 bp):
TACA
Found at i:82184976 original size:11 final size:12
Alignment explanation
Indices: 82184959--82184992 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
82184949 ATTTTACTTA
82184959 CATACATACATT
1 CATACATACATT
82184971 -ATACATACATT
1 CATACATACATT
82184982 CATACATACAT
1 CATACATACAT
82184993 ACACACACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
CATACATACATT
Found at i:82185658 original size:8 final size:8
Alignment explanation
Indices: 82185645--82185671 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
82185635 ATGACCCGCG
82185645 TGAAAAGA
1 TGAAAAGA
82185653 TGAAAAGA
1 TGAAAAGA
82185661 TGAAAAGA
1 TGAAAAGA
82185669 TGA
1 TGA
82185672 GATACATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (8 bp):
TGAAAAGA
Found at i:82188448 original size:132 final size:131
Alignment explanation
Indices: 82188205--82188472 Score: 441
Period size: 132 Copynumber: 2.0 Consensus size: 131
82188195 TCAGATCATA
* *
82188205 GTTTCTGCTTTTGATCTTATAACTATATGTTAAATGAAGCTTTCGATGGTTTATTTTATCGTAGT
1 GTTTCTGCTTTTGATCTTATAACTATATGTTAAATAAAGCTTTCAATGGTTTATTTTATCGTAGT
*
82188270 TTTATATTTCTATATTTTCATGATTCTACAAATGTTTATTAATGGAAGCCGACCAGTATAATTTA
66 ATTATATTTC-ATATTTTCATGATTCTACAAATGTTTATTAATGGAAGCCGACCAGTATAATTTA
82188335 CT
130 CT
*
82188337 GTTTCTGCTTTTGATTTTAATAACTATATGTTAAATAAAGCTTTCAATGGTTTATTTTATCGTGT
1 GTTTCTGCTTTTGATCTT-ATAACTATATGTTAAATAAAGCTTTCAATGGTTTATTTTATC--GT
*
82188402 AGTATTATATTTC-TA-TTTCATGATTCTACAAATGTTTATTAATGGAAGCTGACCAGTATAATT
63 AGTATTATATTTCATATTTTCATGATTCTACAAATGTTTATTAATGGAAGCCGACCAGTATAATT
82188465 TACT
128 TACT
82188469 GTTT
1 GTTT
82188473 TAATACTCTT
Statistics
Matches: 128, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
132 72 0.56
133 42 0.33
135 14 0.11
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.47
Consensus pattern (131 bp):
GTTTCTGCTTTTGATCTTATAACTATATGTTAAATAAAGCTTTCAATGGTTTATTTTATCGTAGT
ATTATATTTCATATTTTCATGATTCTACAAATGTTTATTAATGGAAGCCGACCAGTATAATTTAC
T
Found at i:82194792 original size:19 final size:17
Alignment explanation
Indices: 82194760--82194794 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
82194750 TATCATTCAC
82194760 TTTTTTTTTAATTTTAT
1 TTTTTTTTTAATTTTAT
82194777 TTTTTGTTTGTAATTTTA
1 TTTTT-TTT-TAATTTTA
82194795 AAAGTTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTTTTTTAATTTTAT
Found at i:82199571 original size:3 final size:3
Alignment explanation
Indices: 82199563--82199597 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
82199553 TTATGCATTT
82199563 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
82199598 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:82203135 original size:43 final size:43
Alignment explanation
Indices: 82203073--82203166 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
82203063 AACAACCTTG
** *
82203073 ACCTAACTTGAAATTAAATACATCCCAACATATCTCAACCCCC
1 ACCTAACTCAAAATGAAATACATCCCAACATATCTCAACCCCC
*
82203116 ACCTAACTCAAAATGAAATACATCCCAACATATTTCAACCCCC
1 ACCTAACTCAAAATGAAATACATCCCAACATATCTCAACCCCC
82203159 ACCTAACT
1 ACCTAACT
82203167 TAATATACCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.40, C:0.35, G:0.02, T:0.22
Consensus pattern (43 bp):
ACCTAACTCAAAATGAAATACATCCCAACATATCTCAACCCCC
Found at i:82203655 original size:12 final size:11
Alignment explanation
Indices: 82203613--82203664 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 11
82203603 TGTAATTTTA
82203613 TTATAATTAAT
1 TTATAATTAAT
*
82203624 TTTTAATTACTCATT
1 TTATAATTA---A-T
82203639 TTATAATATAAT
1 TTATAAT-TAAT
82203651 TTATAATTAAT
1 TTATAATTAAT
82203662 TTA
1 TTA
82203665 CTCATTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
11 15 0.44
12 8 0.24
13 1 0.03
14 1 0.03
15 7 0.21
16 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
TTATAATTAAT
Found at i:82206699 original size:28 final size:30
Alignment explanation
Indices: 82206666--82206724 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
82206656 TTTATCAAAT
* *
82206666 ACAGGTACGGAATT-GGACAAAAAA-TAAA
1 ACAGGTACCGAATTGGGAAAAAAAAGTAAA
*
82206694 ACAGGTACCGTATTGGGAAAAAAAAGTAAA
1 ACAGGTACCGAATTGGGAAAAAAAAGTAAA
82206724 A
1 A
82206725 TTCAAGTACC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 9 0.35
30 5 0.19
ACGTcount: A:0.53, C:0.10, G:0.22, T:0.15
Consensus pattern (30 bp):
ACAGGTACCGAATTGGGAAAAAAAAGTAAA
Found at i:82216015 original size:27 final size:27
Alignment explanation
Indices: 82215983--82216035 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
82215973 GACCAAAAAG
82215983 ACAAAATTGAATAGTTGAATGACCATA
1 ACAAAATTGAATAGTTGAATGACCATA
82216010 ACAAAATTGAATAGTTGAATGACCAT
1 ACAAAATTGAATAGTTGAATGACCAT
82216036 GTTGTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.26
Consensus pattern (27 bp):
ACAAAATTGAATAGTTGAATGACCATA
Found at i:82216062 original size:56 final size:59
Alignment explanation
Indices: 82215993--82216115 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 59
82215983 ACAAAATTGA
* * *
82215993 ATAGTTGAATGACCATAACA-AAA-TT-GAATAGTTGAATGACCATGTTGTAAATTTTC
1 ATAGTTGAATGACCATAAAAGAAAGTTAGAATAGCTGAATGACCATGTTATAAATTTTC
* * * *
82216049 ATAGTTGAGTGACCATAAAAGAAAGTTACTAATAGCTGAATGACCATTTTATAATTTTTC
1 ATAGTTGAATGACCATAAAAGAAAGTTA-GAATAGCTGAATGACCATGTTATAAATTTTC
82216109 ATAGTTG
1 ATAGTTG
82216116 GGATGACAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 18 0.32
57 3 0.05
58 2 0.04
60 33 0.59
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (59 bp):
ATAGTTGAATGACCATAAAAGAAAGTTAGAATAGCTGAATGACCATGTTATAAATTTTC
Found at i:82219480 original size:16 final size:16
Alignment explanation
Indices: 82219459--82219489 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82219449 TTCTAAATTT
*
82219459 TCACCAACATACAATG
1 TCACCAACACACAATG
82219475 TCACCAACACACAAT
1 TCACCAACACACAAT
82219490 TGTTGCTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.35, G:0.03, T:0.16
Consensus pattern (16 bp):
TCACCAACACACAATG
Found at i:82223132 original size:23 final size:23
Alignment explanation
Indices: 82223104--82223163 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
82223094 ATGATTCCTT
82223104 TTTTTTTTTTGCTTGA-TTTTAA
1 TTTTTTTTTTGCTTGATTTTTAA
* * *
82223126 TTATTTTTTAGCTTTGATTTTTGA
1 TTTTTTTTTTGC-TTGATTTTTAA
82223150 TTTTTTTTTTGCTT
1 TTTTTTTTTTGCTT
82223164 TGGGGTTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 10 0.32
23 6 0.19
24 15 0.48
ACGTcount: A:0.12, C:0.05, G:0.10, T:0.73
Consensus pattern (23 bp):
TTTTTTTTTTGCTTGATTTTTAA
Found at i:82235272 original size:20 final size:20
Alignment explanation
Indices: 82235249--82235286 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
82235239 AATTTTTTTT
82235249 AAAAATTAAAATAAAACTTA
1 AAAAATTAAAATAAAACTTA
82235269 AAAAATTAAAATAAAACT
1 AAAAATTAAAATAAAACT
82235287 CACTCAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATTAAAATAAAACTTA
Found at i:82235735 original size:29 final size:29
Alignment explanation
Indices: 82235688--82235743 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
82235678 TATGATTTTT
* * *
82235688 TTTAATAATACATGTACTAAATTGATCCA
1 TTTAATAATAAAAGGACTAAATTGATCCA
*
82235717 TTTAATAATAAAAGGACTAATTTGATC
1 TTTAATAATAAAAGGACTAAATTGATC
82235744 GGGTCCTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (29 bp):
TTTAATAATAAAAGGACTAAATTGATCCA
Found at i:82237385 original size:141 final size:142
Alignment explanation
Indices: 82237153--82237436 Score: 473
Period size: 141 Copynumber: 2.0 Consensus size: 142
82237143 AATGCAATCT
* *
82237153 AACTCATAGCACAAAAGGCCTCCATGGCACTTTTACTGTATGGTTCTTCAAAAGGAATATATATA
1 AACTCATAGCACAAAAGGCATCCATGGCACTTTTACCGTATGGTTCTTCAAAAGGAATATATATA
* *
82237218 AAAAAAATACCAATTAAAAGAATAACATAAATCATGTAATTTGAACCTATCATATTTCAACCTCG
66 AAAAAAATACCAATTAAAAGAATAACAAAAACCATGTAATTTGAACCTATCATATTTCAACCTCG
82237283 CATGAAAAAACC
131 CATGAAAAAACC
* * *
82237295 AACTCTTAGCACAAAGGGCATCCATGGCACTTTTACCGTCATGTTTCTTCAAAAGGAATATATA-
1 AACTCATAGCACAAAAGGCATCCATGGCACTTTTACCGT-ATGGTTCTTCAAAAGGAATATATAT
*
82237359 AAAAAAAA-ACCAATTAAAAGAATAACAAAAACCATGTAATTTGAACCTATCATATTTCAACCTT
65 AAAAAAAATACCAATTAAAAGAATAACAAAAACCATGTAATTTGAACCTATCATATTTCAACCTC
82237423 GCATGAAAAAACC
130 GCATGAAAAAACC
82237436 A
1 A
82237437 GTATGAAAAA
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
141 67 0.50
142 43 0.32
143 23 0.17
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (142 bp):
AACTCATAGCACAAAAGGCATCCATGGCACTTTTACCGTATGGTTCTTCAAAAGGAATATATATA
AAAAAAATACCAATTAAAAGAATAACAAAAACCATGTAATTTGAACCTATCATATTTCAACCTCG
CATGAAAAAACC
Found at i:82237731 original size:171 final size:171
Alignment explanation
Indices: 82237541--82237889 Score: 445
Period size: 171 Copynumber: 2.0 Consensus size: 171
82237531 TGTATCTAGC
* *
82237541 TCAAAATAACAACCTAAACAAA-AGACTAACGGG-TTCTTCACATACATTCAAGAGATAATATTC
1 TCAAAATAACAACCTAAACAAATA-ACTAA-GGGCTTCTTAACATACATTCAAGAGATAAAATTC
* * * * **
82237604 ATGAAACGGGCATCACA-AAAATTGAGATTTTACACGTAAAAT-AATAGAACCACTGTCTGTTTA
64 ATAAAACGGGCATCACAGAAAA-TGACATTTTACACGT-AAATGAATAGAAACACTGTATGTCAA
82237667 TACTTTTTACAAACACATTGACTACATTGCATATCTGCACATAAT
127 TACTTTTTACAAACACATTGACTACATTGCATATCTGCACATAAT
* *
82237712 TCAAAATAACGAGCTAAACAAATAACTAAGGGCTTCTTAACATACATTCAAGAGATAAAATTCAT
1 TCAAAATAACAACCTAAACAAATAACTAAGGGCTTCTTAACATACATTCAAGAGATAAAATTCAT
* * * * ** * *
82237777 AAAATGGGTATTAGAGAAAATGACATTTTATGCGTAAATGCATAGAAACACTTTATGTCAATACT
66 AAAACGGGCATCACAGAAAATGACATTTTACACGTAAATGAATAGAAACACTGTATGTCAATACT
* *
82237842 TTTTACAAACACATTGACTACATTGCATATTTGCACCTAAT
131 TTTTACAAACACATTGACTACATTGCATATCTGCACATAAT
82237883 TCTAAAA
1 TC-AAAA
82237890 CAAATAACTA
Statistics
Matches: 153, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
170 7 0.05
171 137 0.90
172 9 0.06
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.29
Consensus pattern (171 bp):
TCAAAATAACAACCTAAACAAATAACTAAGGGCTTCTTAACATACATTCAAGAGATAAAATTCAT
AAAACGGGCATCACAGAAAATGACATTTTACACGTAAATGAATAGAAACACTGTATGTCAATACT
TTTTACAAACACATTGACTACATTGCATATCTGCACATAAT
Found at i:82238504 original size:71 final size:71
Alignment explanation
Indices: 82238420--82238563 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
82238410 ATGTGATCCG
*
82238420 AATTAAAATTTTAATAATAATTCACTTTAATTACAAAATATTTTTGGAATTTTATTTTTTTAGAA
1 AATTAAAATTTTAATAATAATTCACTTTAATTAAAAAATATTTTTGGAATTTTATTTTTTTAGAA
82238485 TAATAA
66 TAATAA
82238491 AATTAAAATTTTAATAATAATTCACTTTAATTAAAAAATATTTTTGGAATTTTATTTTTTTAGAA
1 AATTAAAATTTTAATAATAATTCACTTTAATTAAAAAATATTTTTGGAATTTTATTTTTTTAGAA
82238556 TAATAA
66 TAATAA
82238562 AA
1 AA
82238564 AGAATTATTT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (71 bp):
AATTAAAATTTTAATAATAATTCACTTTAATTAAAAAATATTTTTGGAATTTTATTTTTTTAGAA
TAATAA
Found at i:82243835 original size:2 final size:2
Alignment explanation
Indices: 82243828--82243858 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
82243818 CTTTAACATT
82243828 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
82243859 AGTCAATCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:82247656 original size:22 final size:21
Alignment explanation
Indices: 82247618--82247666 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
82247608 ATTTTATGTG
82247618 TTTTTTAATTTACATTTTTGGTA
1 TTTTTTAATTTACATTTTT--TA
82247641 TTTTTATAA-TTA-ATTTTTTA
1 TTTTT-TAATTTACATTTTTTA
82247661 TTTTTT
1 TTTTTT
82247667 GAAGTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
22 6 0.24
23 8 0.32
24 3 0.12
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTTTAATTTACATTTTTTA
Found at i:82249024 original size:13 final size:13
Alignment explanation
Indices: 82249006--82249040 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
82248996 ATATTAGTAT
82249006 AAATAAA-TAATTA
1 AAATAAAGT-ATTA
82249019 AAATAAAGTATTA
1 AAATAAAGTATTA
82249032 AAATAAAGT
1 AAATAAAGT
82249041 TGGTGATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 20 0.95
14 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (13 bp):
AAATAAAGTATTA
Found at i:82249491 original size:31 final size:31
Alignment explanation
Indices: 82249456--82249527 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
82249446 TTTGATGAAT
82249456 TTTGACTTAAGCAACTAATTATCTGATTTAA
1 TTTGACTTAAGCAACTAATTATCTGATTTAA
*
82249487 TTTGACTTAAGTAACTAATTATCTGATTTAA
1 TTTGACTTAAGCAACTAATTATCTGATTTAA
82249518 TTTGACTTAA
1 TTTGACTTAA
82249528 TTATCCACAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (31 bp):
TTTGACTTAAGCAACTAATTATCTGATTTAA
Found at i:82254727 original size:31 final size:31
Alignment explanation
Indices: 82254689--82254751 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
82254679 AATTTTTACT
82254689 GTTAAAAACTGGTCGTTGTATGTTAGCATAA
1 GTTAAAAACTGGTCGTTGTATGTTAGCATAA
*
82254720 GTTAAAAACTGGTCTTTGTATGTTAGCATAA
1 GTTAAAAACTGGTCGTTGTATGTTAGCATAA
82254751 G
1 G
82254752 GTACACATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTAAAAACTGGTCGTTGTATGTTAGCATAA
Found at i:82257015 original size:30 final size:29
Alignment explanation
Indices: 82256981--82257037 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
82256971 CTAAGAAATT
*
82256981 TCTATTTTAGTCTTTGTATTATTAAATGGA
1 TCTA-TTTAGTCATTGTATTATTAAATGGA
* *
82257011 TCTATTTATTCATTGTGTTATTAAATG
1 TCTATTTAGTCATTGTATTATTAAATG
82257038 TGCTATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.54
Consensus pattern (29 bp):
TCTATTTAGTCATTGTATTATTAAATGGA
Found at i:82258264 original size:27 final size:29
Alignment explanation
Indices: 82258234--82258293 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
82258224 ATGAAGATTC
*
82258234 TAAGTA-TCAAAATGAGAAAAAA-A-AATT
1 TAAGTACT-AAAAGGAGAAAAAATATAATT
82258261 TAAGTACTAAAAGGAGAAAAAATATAATT
1 TAAGTACTAAAAGGAGAAAAAATATAATT
82258290 TAAG
1 TAAG
82258294 AGTCAAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 19 0.66
28 2 0.07
29 8 0.28
ACGTcount: A:0.60, C:0.03, G:0.13, T:0.23
Consensus pattern (29 bp):
TAAGTACTAAAAGGAGAAAAAATATAATT
Found at i:82262379 original size:30 final size:30
Alignment explanation
Indices: 82262345--82262409 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
82262335 ATTTGGACTT
** *
82262345 ATTGATTCTTTTTAATAGTACAGGGACTAA
1 ATTGATTCCATTTAATAATACAGGGACTAA
*
82262375 ATTGA-TCCATTTAATAATAGAGGGACTAA
1 ATTGATTCCATTTAATAATACAGGGACTAA
*
82262404 TTTGAT
1 ATTGAT
82262410 CCAGTCACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.38
Consensus pattern (30 bp):
ATTGATTCCATTTAATAATACAGGGACTAA
Found at i:82262387 original size:29 final size:29
Alignment explanation
Indices: 82262355--82262430 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
82262345 ATTGATTCTT
*
82262355 TTTAATAGTACAGGGACTAAATTGATCCA
1 TTTAATAATACAGGGACTAAATTGATCCA
* *
82262384 TTTAATAATAGAGGGACTAATTTGATCCA
1 TTTAATAATACAGGGACTAAATTGATCCA
* *
82262413 GTCACTATAATACAGGGA
1 TTTA--ATAATACAGGGA
82262431 TCTCCCAGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 28 0.72
31 11 0.28
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (29 bp):
TTTAATAATACAGGGACTAAATTGATCCA
Found at i:82262698 original size:54 final size:54
Alignment explanation
Indices: 82262634--82262741 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
82262624 TAGACTCGAA
82262634 GTTTATGTTTTAGCTGATTCTAAATCCTGAGTATGACACGGGAAAAATTATACT
1 GTTTATGTTTTAGCTGATTCTAAATCCTGAGTATGACACGGGAAAAATTATACT
82262688 GTTTATGTTTTAGCTGATTCTAAATCCTGAGTATGACACGGGAAAAATTATACT
1 GTTTATGTTTTAGCTGATTCTAAATCCTGAGTATGACACGGGAAAAATTATACT
82262742 CCAATGGGCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (54 bp):
GTTTATGTTTTAGCTGATTCTAAATCCTGAGTATGACACGGGAAAAATTATACT
Found at i:82269813 original size:37 final size:37
Alignment explanation
Indices: 82269763--82269837 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
82269753 CATTTTATGG
82269763 TTCATGATTACCTTCCTAACAACATCGTCTTCAAATT
1 TTCATGATTACCTTCCTAACAACATCGTCTTCAAATT
82269800 TTCATGATTACCTTCCTAACAACATCGTCTTCAAATT
1 TTCATGATTACCTTCCTAACAACATCGTCTTCAAATT
82269837 T
1 T
82269838 AGTTAACCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (37 bp):
TTCATGATTACCTTCCTAACAACATCGTCTTCAAATT
Found at i:82270194 original size:53 final size:53
Alignment explanation
Indices: 82270114--82270220 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
82270104 ATACACTAAA
82270114 GGAAGTGGCTCCATCACCATAATTAGAACTAAAGGTTAAGTGAGTTTTCTATT
1 GGAAGTGGCTCCATCACCATAATTAGAACTAAAGGTTAAGTGAGTTTTCTATT
82270167 GGAAGTGGCTCCATCACCATAATTAGAACTAAAGGTTAAGTGAGTTTTCTATT
1 GGAAGTGGCTCCATCACCATAATTAGAACTAAAGGTTAAGTGAGTTTTCTATT
82270220 G
1 G
82270221 ATATCGAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (53 bp):
GGAAGTGGCTCCATCACCATAATTAGAACTAAAGGTTAAGTGAGTTTTCTATT
Found at i:82274865 original size:23 final size:23
Alignment explanation
Indices: 82274838--82274916 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 23
82274828 CAAAGATAAA
82274838 TTATATTTTGTCCTCGTAAAAAT
1 TTATATTTTGTCCTCGTAAAAAT
* * * *
82274861 TTATAATTTATCTTCATACAAAGAT
1 TTATATTTTGTCCTCGTA-AAA-AT
82274886 AAATTATATTTTGTCCTCGTAAAAAT
1 ---TTATATTTTGTCCTCGTAAAAAT
82274912 TTATA
1 TTATA
82274917 ATTTATCTTC
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
23 19 0.44
24 3 0.07
25 2 0.05
26 2 0.05
27 3 0.07
28 14 0.33
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (23 bp):
TTATATTTTGTCCTCGTAAAAAT
Found at i:82274901 original size:51 final size:51
Alignment explanation
Indices: 82274825--82274926 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
82274815 AGTCCTTCCA
82274825 ATACAAAGATAAATTATATTTTGTCCTCGTAAAAATTTATAATTTATCTTC
1 ATACAAAGATAAATTATATTTTGTCCTCGTAAAAATTTATAATTTATCTTC
82274876 ATACAAAGATAAATTATATTTTGTCCTCGTAAAAATTTATAATTTATCTTC
1 ATACAAAGATAAATTATATTTTGTCCTCGTAAAAATTTATAATTTATCTTC
82274927 CATCTTCTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (51 bp):
ATACAAAGATAAATTATATTTTGTCCTCGTAAAAATTTATAATTTATCTTC
Found at i:82276200 original size:21 final size:22
Alignment explanation
Indices: 82276176--82276218 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
82276166 TCCCGTCTCG
82276176 TGCTCG-TGTCTTATTTTTCCT
1 TGCTCGATGTCTTATTTTTCCT
82276197 TGCTCGTATGTCTTATTTTTCC
1 TGCTCG-ATGTCTTATTTTTCC
82276219 GAACTATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.07, C:0.23, G:0.14, T:0.56
Consensus pattern (22 bp):
TGCTCGATGTCTTATTTTTCCT
Found at i:82280219 original size:57 final size:57
Alignment explanation
Indices: 82280150--82280273 Score: 239
Period size: 57 Copynumber: 2.2 Consensus size: 57
82280140 GGTAATAAAG
82280150 TATTTCCAAAGTTTAAGCATTCAATCCATATTAAATCATATTTGAATAATTTTTTAAT
1 TATTT-CAAAGTTTAAGCATTCAATCCATATTAAATCATATTTGAATAATTTTTTAAT
82280208 TATTTCAAAGTTTAAGCATTCAATCCATATTAAATCATATTTGAATAATTTTTTAAT
1 TATTTCAAAGTTTAAGCATTCAATCCATATTAAATCATATTTGAATAATTTTTTAAT
82280265 TATTTCAAA
1 TATTTCAAA
82280274 TATTTATATA
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
57 61 0.92
58 5 0.08
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (57 bp):
TATTTCAAAGTTTAAGCATTCAATCCATATTAAATCATATTTGAATAATTTTTTAAT
Found at i:82281096 original size:20 final size:20
Alignment explanation
Indices: 82281059--82281096 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
82281049 AAAAATAAAA
*
82281059 ATAAAAATTATTAAAAAAGT
1 ATAAAAATTATAAAAAAAGT
82281079 ATAAAAATTATAAAAAAA
1 ATAAAAATTATAAAAAAA
82281097 TATTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
ATAAAAATTATAAAAAAAGT
Found at i:82281596 original size:19 final size:20
Alignment explanation
Indices: 82281574--82281622 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
82281564 TTTTTACCAC
82281574 TTTTTAAT-ATTTTAAATAA
1 TTTTTAATAATTTTAAATAA
*
82281593 TTTTTTATAATTTTAAATAA
1 TTTTTAATAATTTTAAATAA
* *
82281613 ATTCTAATAA
1 TTTTTAATAA
82281623 ATTGAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTTAATAATTTTAAATAA
Found at i:82299934 original size:11 final size:13
Alignment explanation
Indices: 82299905--82299933 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
82299895 TTTATATTTA
82299905 ATTTTATGATAAT
1 ATTTTATGATAAT
82299918 ATTTTATGA-AAT
1 ATTTTATGATAAT
82299930 ATTT
1 ATTT
82299934 AGATGATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (13 bp):
ATTTTATGATAAT
Found at i:82301068 original size:244 final size:246
Alignment explanation
Indices: 82300635--82301097 Score: 662
Period size: 244 Copynumber: 1.9 Consensus size: 246
82300625 AGATATTAAA
82300635 AAAAAGGTTAAATGACTAAAGAAGCCCTTAAACTAGTTTTTTTTAAAAAAAATAAGCTTCTAAAC
1 AAAAAGGTTAAATGACTAAAGAAGCCCTTAAACTAGTTTTTTTT---AAAAATAAGCTTCTAAAC
* * * * * *
82300700 TTTTGTTGCAACTCAAATAAACCCTTATGTTTTGATTCGTATTTAAATTAGCTCTTGAATAATGC
63 TTTTGTTGCAACTCAAATAAACCCGTATATTTTGATTCGTATTTAAATCAGCCCTTAAATAATGA
* *
82300765 TTTATATTAAGAATTTTATTTAATTTTAAACTAAAGGATAGAGGCTTATTTAGATACAAGTT-AA
128 TTTATATTAAGAATTTTATTTAAGTATAAACTAAAGGATAGAGGCTTATTTAGATACAAGTTAAA
82300829 AGATTAAGAGCTTATTTGGTTTTTAAGGGTTTATTAGGGTTTATACAAAACATT
193 AGATTAAGAGCTTATTTGGTTTTTAAGGGTTTATTAGGGTTTATACAAAACATT
* * *
82300883 AAAAAGGTTAAATTACTACAGAAGCCCTTAAACTAGTTTTTTTT-AAAATATGCTTCTAAACTTT
1 AAAAAGGTTAAATGACTAAAGAAGCCCTTAAACTAGTTTTTTTTAAAAATAAGCTTCTAAACTTT
* * * *
82300947 TTTTGTAACTCAAATAAACCCGTATATTTTGATTTGTTTTTAAATCAGCCCTTAAATAATGATTT
66 TGTTGCAACTCAAATAAACCCGTATATTTTGATTCGTATTTAAATCAGCCCTTAAATAATGATTT
* * * * *
82301012 ATATTGAA-AATTTTATTTAGGTATAAATTGAAGTATAGATGCTTATTTAGATACAAGTTAAAAA
131 ATATT-AAGAATTTTATTTAAGTATAAACTAAAGGATAGAGGCTTATTTAGATACAAGTT---AA
82301076 AAGATTAAGAGCTTATTTGGTT
192 AAGATTAAGAGCTTATTTGGTT
82301098 ACCAATTAAA
Statistics
Matches: 190, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
244 123 0.65
245 2 0.01
248 65 0.34
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.40
Consensus pattern (246 bp):
AAAAAGGTTAAATGACTAAAGAAGCCCTTAAACTAGTTTTTTTTAAAAATAAGCTTCTAAACTTT
TGTTGCAACTCAAATAAACCCGTATATTTTGATTCGTATTTAAATCAGCCCTTAAATAATGATTT
ATATTAAGAATTTTATTTAAGTATAAACTAAAGGATAGAGGCTTATTTAGATACAAGTTAAAAGA
TTAAGAGCTTATTTGGTTTTTAAGGGTTTATTAGGGTTTATACAAAACATT
Found at i:82303967 original size:6 final size:6
Alignment explanation
Indices: 82303956--82304032 Score: 109
Period size: 6 Copynumber: 12.8 Consensus size: 6
82303946 CATATACATC
* * * * *
82303956 AGAGAG AGAGAG GGAGAG GGAGAG GGAGAG AGGGAG AGGGAG AGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
82304004 AGAGAG AGAGAG AGAGAG AGAGAG AGAGA
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGA
82304033 TGTAGCTTTC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (6 bp):
AGAGAG
Found at i:82303978 original size:14 final size:14
Alignment explanation
Indices: 82303956--82304032 Score: 113
Period size: 14 Copynumber: 5.6 Consensus size: 14
82303946 CATATACATC
82303956 AGAGAGAGAGAGGG
1 AGAGAGAGAGAGGG
82303970 AGAG-G-GAGAGGG
1 AGAGAGAGAGAGGG
*
82303982 AGAGAGGGAGAGGG
1 AGAGAGAGAGAGGG
*
82303996 AGAGAGAGAGAGAG
1 AGAGAGAGAGAGGG
*
82304010 AGAGAGAGAGAGAG
1 AGAGAGAGAGAGGG
82304024 AGAGAGAGA
1 AGAGAGAGA
82304033 TGTAGCTTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.19
13 2 0.03
14 46 0.78
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (14 bp):
AGAGAGAGAGAGGG
Found at i:82303984 original size:20 final size:20
Alignment explanation
Indices: 82303956--82304032 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
82303946 CATATACATC
*
82303956 AGAGAGAGAGAGGGAGAGGG
1 AGAGAGAGAGAGAGAGAGGG
* *
82303976 AGAGGGAGAGAGGGAGAGGG
1 AGAGAGAGAGAGAGAGAGGG
*
82303996 AGAGAGAGAGAGAGAGAGAG
1 AGAGAGAGAGAGAGAGAGGG
82304016 AGAGAGAGAGAGAGAGA
1 AGAGAGAGAGAGAGAGA
82304033 TGTAGCTTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (20 bp):
AGAGAGAGAGAGAGAGAGGG
Found at i:82313093 original size:16 final size:15
Alignment explanation
Indices: 82313068--82313097 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
82313058 GAATTTTTTT
82313068 ATTTAATTAATTTAG
1 ATTTAATTAATTTAG
82313083 ATTTAAATTAATTTA
1 ATTT-AATTAATTTA
82313098 ATCATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTAATTAATTTAG
Found at i:82314476 original size:18 final size:19
Alignment explanation
Indices: 82314430--82314477 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
82314420 TAAAATGTTG
82314430 ATTA-GATTAATTGGCCAAT
1 ATTATGATT-ATTGGCCAAT
* *
82314449 ATTTTGATTATTGGTCAA-
1 ATTATGATTATTGGCCAAT
82314467 ATTATGATTAT
1 ATTATGATTAT
82314478 GTTGAAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 10 0.40
19 11 0.44
20 4 0.16
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (19 bp):
ATTATGATTATTGGCCAAT
Found at i:82315419 original size:93 final size:92
Alignment explanation
Indices: 82315321--82315502 Score: 240
Period size: 93 Copynumber: 2.0 Consensus size: 92
82315311 TTCTGCCTAT
* *
82315321 GAGGTTTCCCATAAGAAATCAATTCTCCGC-TCTCGGTTTTAACTTCTAGGGAATCAAAATCTTG
1 GAGGTTTCCCATAAGAAATCAA--CTCCGCATCTCGATTTTAACTTCCAGGGAATCAAAATCTTG
*
82315385 CGCAGACTTTTCCCTAATTTTCTCCACAC
64 CGAAGACTTTTCCCTAATTTTCTCCACAC
* * * * * * *
82315414 GAGGTTTCTCATCAGAAATCAACTCCTCATTCTTGATTTTAATTTCCAGGGATTCAGAATCTTGC
1 GAGGTTTCCCATAAGAAATCAACTCCGCA-TCTCGATTTTAACTTCCAGGGAATCAAAATCTTGC
82315479 GAAGACTTTTCCCTAATTTTCTCC
65 GAAGACTTTTCCCTAATTTTCTCC
82315503 CTCTTTATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
91 5 0.06
93 72 0.94
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (92 bp):
GAGGTTTCCCATAAGAAATCAACTCCGCATCTCGATTTTAACTTCCAGGGAATCAAAATCTTGCG
AAGACTTTTCCCTAATTTTCTCCACAC
Found at i:82318816 original size:29 final size:28
Alignment explanation
Indices: 82318784--82318840 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
82318774 GTTGGTTTAT
* * *
82318784 ATTAAAAATAGAAAGATTCAATTCTTAAA
1 ATTAAAAATAAAAAAATTAAATT-TTAAA
82318813 ATTAAAAATAAAAAAATTAAATTTTAAA
1 ATTAAAAATAAAAAAATTAAATTTTAAA
82318841 TATATAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (28 bp):
ATTAAAAATAAAAAAATTAAATTTTAAA
Found at i:82322997 original size:21 final size:21
Alignment explanation
Indices: 82322961--82323002 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
82322951 CTCCAAAACA
*
82322961 AGGGAAAATGGGTTACACTTT
1 AGGGAAAATGGCTTACACTTT
* *
82322982 AGGGAAAATGTCTTACCCTTT
1 AGGGAAAATGGCTTACACTTT
82323003 CAATTTCCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (21 bp):
AGGGAAAATGGCTTACACTTT
Found at i:82324963 original size:14 final size:15
Alignment explanation
Indices: 82324941--82324974 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
82324931 GCTTTAGTTG
*
82324941 AAATGTTAAAA-TTA
1 AAATTTTAAAATTTA
82324955 AAATTTTAAAATTTA
1 AAATTTTAAAATTTA
82324970 AAATT
1 AAATT
82324975 AAAAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AAATTTTAAAATTTA
Found at i:82339917 original size:183 final size:182
Alignment explanation
Indices: 82339610--82339979 Score: 677
Period size: 183 Copynumber: 2.0 Consensus size: 182
82339600 ATATAAATAG
** *
82339610 GCAATTACACCTTAACTGAAGCCCTCCGTATATGTGTATGTATAAGGCTTGGCTAAGACTTAGAA
1 GCAATTACACCTTAACTGAAGCCCTCCCCATATGTGTATATATAAGGCTTGGCTAAGACTTAGAA
82339675 TGGTAGGTTTTTGTTCTATCAACAAGTCAACCTTCAGGCTTCTATATATTGCTGTTCAAAGTATA
66 TGGTAGGTTTTTGTTCTATCAACAAGTCAACCTTCAGGCTTCTATATATTGCTGTTCAAAGTATA
82339740 TTTAATAACCCCTTCCATCTCTCAACTCAACTCAACTCTATATATTGACTCA
131 TTTAATAACCCCTTCCATCTCTCAACTCAACTCAACTCTATATATTGACTCA
82339792 GCAATTACACCTTAACTGAAGCCCTCCCCATATGTGTATAATATAAGGCTTGGCTAAGACTTAGA
1 GCAATTACACCTTAACTGAAGCCCTCCCCATATGTGTAT-ATATAAGGCTTGGCTAAGACTTAGA
*
82339857 ATGGTAGGTTTTTGTTCTATCAACAAGTCAACCTTCAGGCTTCTATATATTGTTGTTCAAAGTAT
65 ATGGTAGGTTTTTGTTCTATCAACAAGTCAACCTTCAGGCTTCTATATATTGCTGTTCAAAGTAT
* *
82339922 ATTTAATAACCCCTTCCATCTCTCCACTCAACTCAACTCTATATTTTGACTCA
130 ATTTAATAACCCCTTCCATCTCTCAACTCAACTCAACTCTATATATTGACTCA
82339975 GCAAT
1 GCAAT
82339980 ATCAAGCATC
Statistics
Matches: 181, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
182 37 0.20
183 144 0.80
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (182 bp):
GCAATTACACCTTAACTGAAGCCCTCCCCATATGTGTATATATAAGGCTTGGCTAAGACTTAGAA
TGGTAGGTTTTTGTTCTATCAACAAGTCAACCTTCAGGCTTCTATATATTGCTGTTCAAAGTATA
TTTAATAACCCCTTCCATCTCTCAACTCAACTCAACTCTATATATTGACTCA
Found at i:82340108 original size:16 final size:16
Alignment explanation
Indices: 82340087--82340118 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
82340077 CAGCAAGATC
82340087 TTTACATACATACATA
1 TTTACATACATACATA
*
82340103 TTTACATGCATACATA
1 TTTACATACATACATA
82340119 CATAAATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (16 bp):
TTTACATACATACATA
Found at i:82341466 original size:15 final size:14
Alignment explanation
Indices: 82341439--82341465 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
82341429 AGGTATAGTA
82341439 AAATATTAAAAAAT
1 AAATATTAAAAAAT
82341453 AAATATTAAAAAA
1 AAATATTAAAAAA
82341466 AAACTCGTGG
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:82341893 original size:6 final size:6
Alignment explanation
Indices: 82341882--82341947 Score: 132
Period size: 6 Copynumber: 11.0 Consensus size: 6
82341872 TTGAACTTAT
82341882 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
82341930 TACATA TACATA TACATA
1 TACATA TACATA TACATA
82341948 GAGAGAGAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:82345517 original size:27 final size:28
Alignment explanation
Indices: 82345487--82345542 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
82345477 AAAAAACATA
82345487 AAATT-ATTTATTACATATAAT-TAATTT
1 AAATTAATTT-TTACATATAATGTAATTT
* *
82345514 AAATTAATTTTTATATATTATGTAATTT
1 AAATTAATTTTTACATATAATGTAATTT
82345542 A
1 A
82345543 TAATACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
AAATTAATTTTTACATATAATGTAATTT
Found at i:82352256 original size:288 final size:276
Alignment explanation
Indices: 82351743--82352483 Score: 852
Period size: 288 Copynumber: 2.7 Consensus size: 276
82351733 TTTATTTATT
*
82351743 TATTTTAAACAAATCAGTTTAATAT-A-ATGCTATTGG-GAAAATAATTAAATGATTTA-TT-TG
1 TATTTTAAACAAATCAGTTTAATATGATAT-C-ATTGGAGAAAATAATTAAATGATTTATTTATT
* * * * *
82351803 T-T-TGTTTTTATTTTAGGTATGGCAATAACAGGTCCAGAGGAAAAATGTAATGAAGAATCGAAA
64 TATCTGTTTTTATTTTAGGTAT-G-ACT-ACAGGTTCGGAGAAAAAACGTAATGAAGAATCGAAA
* * * * *
82351866 AGTAAAAACTCTAACCTATATGTCTAAAAAGTAAATTATTTTAGTCGAATTTACATTGTTAAAAA
126 AGTAAAACCT-TAATCTACATGTCTAAAAAATAAATTATTTTAGCCGAATTTACATTGTTAAAAA
*
82351931 TTTGAATTAAAATTATCATGTCATATTACATATTAAATCAAAAATAAAAATAAAAATTGCTTAAC
190 TTTGAATTAAAATTATCATATCATATTACATATTAAATCAAAAATAAAAAT----ATT--TTAAC
82351996 TAGGTGAAGATGAAATTATTTTAAAAAAAACA
249 TAGGTGAAGATGAAATTA-TTT--AAAAAA-A
*
82352028 TATTTTAGACAAATCAGTTTAATATGATATCATTGGAGAAAATAATTAAATGATTTATTTATTTA
1 TATTTTAAACAAATCAGTTTAATATGATATCATTGGAGAAAATAATTAAATGATTTATTTATTTA
* * *
82352093 TCTGTTTTTATTTTAGGTATGACTACAGGTTTGGAGAAAAAACGTGATGAAGAA-CAGAAAGGTA
66 TCTGTTTTTATTTTAGGTATGACTACAGGTTCGGAGAAAAAACGTAATGAAGAATC-GAAAAGTA
* **
82352157 AATACCTTAATCTACACGTCTAAAAAAATAAATTATTTTAGCCGAATTTATGTTGTTAAAAATTT
130 AA-ACCTTAATCTACATGTCT-AAAAAATAAATTATTTTAGCCGAATTTACATTGTTAAAAATTT
* * * *
82352222 GAATTGAAATTCTCATATCATATTGCATATTAAATCAAAAATAAAAATGTTTTAACTAGGTGAAG
193 GAATTAAAATTATCATATCATATTACATATTAAATCAAAAATAAAAATATTTTAACTAGGTGAAG
82352287 ATGAAATTATTTAAAAAAA
258 ATGAAATTATTTAAAAAAA
* * * * *
82352306 TA--TTAAACAAATCAATTTAATATGGTATCACTAGAGAAAATAATTGAATGATTTATTTATTTA
1 TATTTTAAACAAATCAGTTTAATATGATATCATTGGAGAAAATAATTAAATGATTTATTTATTTA
** * *
82352369 TCCATTTTTATTTTA-G---G-C-ACAGGTTCGGA-AGAAAAACGAAATGAGGAATCGAAAAGTA
66 TCTGTTTTTATTTTAGGTATGACTACAGGTTCGGAGA-AAAAACGTAATGAAGAATCGAAAAGTA
* *
82352427 AAGACCTTAATCTACATGTGTAAAAAATAATTTATTTTAGCC-AATTTTACATTGTTA
130 AA-ACCTTAATCTACATGTCTAAAAAATAAATTATTTTAGCCGAA-TTTACATTGTTA
82352484 GAGAAAATAA
Statistics
Matches: 401, Mismatches: 42, Indels: 42
0.83 0.09 0.09
Matches are distributed among these distances:
268 2 0.00
269 31 0.08
270 49 0.12
271 2 0.00
272 1 0.00
275 1 0.00
276 68 0.17
278 3 0.01
279 6 0.01
281 3 0.01
282 23 0.06
284 2 0.00
285 29 0.07
286 23 0.06
287 48 0.12
288 90 0.22
289 2 0.00
290 18 0.04
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (276 bp):
TATTTTAAACAAATCAGTTTAATATGATATCATTGGAGAAAATAATTAAATGATTTATTTATTTA
TCTGTTTTTATTTTAGGTATGACTACAGGTTCGGAGAAAAAACGTAATGAAGAATCGAAAAGTAA
AACCTTAATCTACATGTCTAAAAAATAAATTATTTTAGCCGAATTTACATTGTTAAAAATTTGAA
TTAAAATTATCATATCATATTACATATTAAATCAAAAATAAAAATATTTTAACTAGGTGAAGATG
AAATTATTTAAAAAAA
Found at i:82352510 original size:4 final size:4
Alignment explanation
Indices: 82352501--82352538 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
82352491 TAATTGAATG
82352501 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
82352539 CCATTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:82352643 original size:175 final size:169
Alignment explanation
Indices: 82352356--82352694 Score: 436
Period size: 175 Copynumber: 2.0 Consensus size: 169
82352346 TAATTGAATG
* *
82352356 ATTTATTTATTTATCCATTTTTATTTTAGGCACAGGTTCGGAAGAAAAACGAAATGAGGAATCGA
1 ATTTATTTATTTATCCATTTTTATTTTAGGCACAAGTTCGGAAGAAAAACGAAATGAAGAATCGA
* ** *
82352421 AAAGTAAAGACCTTAATCTACATGTGTAAAAAATAATTTATTTTAGCC-AATTTTACATTGTTAG
66 AAAGTAAAGAACTTAATCTACATGTCCAAAAAATAATTTAATTTAGCCGAA-TTTACATTGTTAG
82352485 -AGAAAATAATTGAATGATTTA-TTTATTTATTTATTTATTT
130 CA-AAAATAATTGAATGATTTACTTT-TTTATTTATTTATTT
* * *
82352525 ATTTATTTATTTATCCATTTTTATTTTAGATACGACTACAAGTTTGGAAGGAAAACGCAATGAAG
1 ATTTATTTATTTATCCATTTTTATTTTAG----G-C-ACAAGTTCGGAAGAAAAACGAAATGAAG
* *
82352590 AA-CGGAAAAGTAAGGAACTTAATCTACATGTCC-AAAAATTATATTAATTTAGCCGAATTTACA
60 AATC-GAAAAGTAAAGAACTTAATCTACATGTCCAAAAAATAAT-TTAATTTAGCCGAATTTACA
82352653 TTGTTAGCTAAAAATAATTGAATGATTTACTTTTTTATTTAT
123 TTGTTAGC-AAAAATAATTGAATGATTTACTTTTTTATTTAT
82352695 CCGTTTTTAT
Statistics
Matches: 147, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
169 29 0.20
173 1 0.01
174 10 0.07
175 73 0.50
176 30 0.20
177 4 0.03
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (169 bp):
ATTTATTTATTTATCCATTTTTATTTTAGGCACAAGTTCGGAAGAAAAACGAAATGAAGAATCGA
AAAGTAAAGAACTTAATCTACATGTCCAAAAAATAATTTAATTTAGCCGAATTTACATTGTTAGC
AAAAATAATTGAATGATTTACTTTTTTATTTATTTATTT
Found at i:82352805 original size:156 final size:154
Alignment explanation
Indices: 82352521--82352966 Score: 522
Period size: 156 Copynumber: 2.8 Consensus size: 154
82352511 TTATTTATTT
* * * *
82352521 ATTTATTTATTTATTTATCCATTTTTATTTTAGATACGACTACAAGTTTGGAAGGAAAACGCAAT
1 ATTTATTTATTTATTTATCCGTTTTTATTTTAGGTACGACTACAAGTTTGGAAGAAAAACGTAAT
* * * * * *
82352586 GAAGAACGGAAAAGTAAGGAACTTAATCTACATGTCCAAA-AATTATATTAATTTAGCCGAATTT
66 GAAGAACTGAAAAGTAAAG-ACTTAATCTACACGTCTAAAGAA-TAAATTATTTTAGCCGAATTT
82352650 ACATTGTTAGCTA-AAAATAATTGAATG
129 ACATTGTTA--TAGAAAATAATTGAATG
* * * *
82352677 ATTTACTTT-TTTATTTATCCGTTTTTATTTTAGGTACGGCCACAGGTTCGGAAGAAAAACGTAA
1 ATTTA-TTTATTTATTTATCCGTTTTTATTTTAGGTACGACTACAAGTTTGGAAGAAAAACGTAA
* * * *
82352741 TCAAGAACTGAAAAGTAAAGACTTTAATCTACACATTTAAAGAATAAATTATTTTGGCCGAATTT
65 TGAAGAACTGAAAAGTAAAGAC-TTAATCTACACGTCTAAAGAATAAATTATTTTAGCCGAATTT
*
82352806 ATATTGTTATAGAAAATAATTGAATG
129 ACATTGTTATAGAAAATAATTGAATG
82352832 ATTTATTTATTTATTTATCCATTTGTTTTTTTTTATTTTAGGTACGACTACAAGTTTGGAAGAAA
1 ATTTATTTATTTATTTATCC----G----TTTTTATTTTAGGTACGACTACAAGTTTGGAAGAAA
* *
82352897 AACGTAATGAAGAA-TCAAAAAGTAAAGACCTTAATCTACGCGTCTAAAGAATAAATTATTTTAG
58 AACGTAATGAAGAACT-GAAAAGTAAAGA-CTTAATCTACACGTCTAAAGAATAAATTATTTTAG
*
82352961 TCGAAT
121 CCGAAT
82352967 AAATAGTTTA
Statistics
Matches: 245, Mismatches: 30, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
154 5 0.02
155 32 0.13
156 109 0.44
157 5 0.02
159 1 0.00
162 1 0.00
163 91 0.37
164 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (154 bp):
ATTTATTTATTTATTTATCCGTTTTTATTTTAGGTACGACTACAAGTTTGGAAGAAAAACGTAAT
GAAGAACTGAAAAGTAAAGACTTAATCTACACGTCTAAAGAATAAATTATTTTAGCCGAATTTAC
ATTGTTATAGAAAATAATTGAATG
Found at i:82355336 original size:39 final size:39
Alignment explanation
Indices: 82355293--82355416 Score: 91
Period size: 39 Copynumber: 3.2 Consensus size: 39
82355283 GAATTTACAT
82355293 TATTAATAATTTGAATTAAAATTCTCATATCATATTGCA
1 TATTAATAATTTGAATTAAAATTCTCATATCATATTGCA
* * * *
82355332 TATTAAATAA----AA--AAAATGGTTTAACTAGGTGA-ATTTACA
1 TATT-AATAATTTGAATTAAAAT--TCTCA-TA--TCATA-TTGCA
82355371 TTATTAATAATTTGAATTAAAATTCTCATATCATATTGCA
1 -TATTAATAATTTGAATTAAAATTCTCATATCATATTGCA
82355411 TATTAA
1 TATTAA
82355417 ATAAAAAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 30
0.62 0.08 0.30
Matches are distributed among these distances:
34 5 0.08
36 5 0.08
37 2 0.03
38 1 0.02
39 21 0.34
40 15 0.24
41 1 0.02
42 2 0.03
43 5 0.08
45 5 0.08
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (39 bp):
TATTAATAATTTGAATTAAAATTCTCATATCATATTGCA
Found at i:82355414 original size:79 final size:81
Alignment explanation
Indices: 82355283--82355447 Score: 289
Period size: 79 Copynumber: 2.0 Consensus size: 81
82355273 AAAAAAAATC
82355283 GAATTTACATTATTAATAATTTGAATTAAAATTCTCATATCATATTGCATATTAAAT-AAA-AAA
1 GAATTTACATTATTAATAATTTGAATTAAAATTCTCATATCATATTGCATATTAAATAAAATAAA
82355346 AATGGTTTAACTAGGT
66 AATGGTTTAACTAGGT
82355362 GAATTTACATTATTAATAATTTGAATTAAAATTCTCATATCATATTGCATATTAAATAAAAAATA
1 GAATTTACATTATTAATAATTTGAATTAAAATTCTCATATCATATTGCATATTAAAT--AAAATA
*
82355427 AAAATGGTTTAATTAGGT
64 AAAATGGTTTAACTAGGT
82355445 GAA
1 GAA
82355448 GATGAAATTA
Statistics
Matches: 81, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
79 57 0.70
82 3 0.04
83 21 0.26
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (81 bp):
GAATTTACATTATTAATAATTTGAATTAAAATTCTCATATCATATTGCATATTAAATAAAATAAA
AATGGTTTAACTAGGT
Found at i:82359525 original size:2 final size:2
Alignment explanation
Indices: 82359513--82359544 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
82359503 TTCTGTTCAA
*
82359513 AT AT AT GT 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 AT AT
82359545 GCAGGAGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82373197 original size:169 final size:165
Alignment explanation
Indices: 82372861--82373198 Score: 430
Period size: 169 Copynumber: 2.0 Consensus size: 165
82372851 AGCTTAAATT
* * * *
82372861 TAAAGCATGCAATGGGGTTTGTGAGATAGGGAAGATTATATTTCATGGTCTAGTTTAAGGTCGAA
1 TAAAGCATGCAATGGGGTTTGTAAGATAGGAAAGATTATACTTCATGGTCTAGTTTAAGGTCAAA
* * * *
82372926 TGATATTTTGCATTATAATAGAGAAGGTTTTAGTGTTTTTGAGCTTTTAGCTTTATAGTAGTTAA
66 TGATATTTTGCATTATAACAAAGAAGGTTTTAGTGTTTTTGAGCTTTGAGCTTTATAATAGTTAA
*
82372991 CTTTGTTTTATATGAAGCTATGTTTATATATTATATATA
131 ATTTGTTTTATATGAAGCTA----TATATATTATATATA
*
82373030 TAAAGCATGCAATGGGAG-TTGTAAGATAGGAAAGGTTATACTTCATGGTCTAGTTTAAGGTCAA
1 TAAAGCATGCAATGGG-GTTTGTAAGATAGGAAAGATTATACTTCATGGTCTAGTTTAAGGTCAA
*
82373094 ATGATATTTTGTATTATAACAAAGAAGGTTTTAGTGTTTTTGAACTTTTAGCTTTGAGCTTTATA
65 ATGATATTTTGCATTATAACAAAGAAGGTTTTAGTGTTTTTG-------AGCTTTGAGCTTTATA
*
82373159 ATAGTTAAATTTGTTTTGATATGAAGC-AAATATA-TATATA
123 ATAGTTAAATTTGTTTT-ATATGAAGCTATATATATTATATA
82373199 ATTTATAATG
Statistics
Matches: 148, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
169 96 0.65
170 1 0.01
171 6 0.04
172 5 0.03
176 31 0.21
177 9 0.06
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.41
Consensus pattern (165 bp):
TAAAGCATGCAATGGGGTTTGTAAGATAGGAAAGATTATACTTCATGGTCTAGTTTAAGGTCAAA
TGATATTTTGCATTATAACAAAGAAGGTTTTAGTGTTTTTGAGCTTTGAGCTTTATAATAGTTAA
ATTTGTTTTATATGAAGCTATATATATTATATATA
Found at i:82390639 original size:5 final size:5
Alignment explanation
Indices: 82390625--82390660 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
82390615 AATCAAAGGT
82390625 AAAA- AAAAG AAAAG AAAAG AAAAG AAAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG A
82390661 TCTATAAGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.13
5 21 0.70
6 5 0.17
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:82390820 original size:213 final size:213
Alignment explanation
Indices: 82390448--82390845 Score: 697
Period size: 213 Copynumber: 1.9 Consensus size: 213
82390438 AAAAAAATGG
* * *
82390448 TCTACAAGTCAAAATCATGCTATAATGCGGCTAAAAGTACTATTTTCAAAATTGGATTGACTGGT
1 TCTACAAGTCAAAATCATGCTATAATGCGGCTAAAAGCACTATTTTCAAAATCGGATTGACTGAT
* *
82390513 TAGACCAGTGTAATCAAGACTTGGTTAGGATATTGATTTAGAATAAGGGTTGGATTAGTAAACTT
66 CAGACCAGTCTAATCAAGACTTGGTTAGGATATTGATTTAGAATAAGGGTTGGATTAGTAAACTT
*
82390578 GTAAAACTAGTACGAATTGCTTAAAGTGTGTTCCAATAATCAAAGGTAAAAAAAAGAAAAGAAAA
131 GTAAAACTAGTACGAATTGCTTAAAGTGTGTTCCAATAACCAAAGGTAAAAAAAAGAAAAGAAAA
82390643 GAAAAGAAAAAGAAAAGA
196 GAAAAGAAAAAGAAAAGA
* *
82390661 TCTATAAGTCAAAATCATGCTATCATGCGGCTAAAAGCACTATTTTCAAAATCGGATTGACTGAT
1 TCTACAAGTCAAAATCATGCTATAATGCGGCTAAAAGCACTATTTTCAAAATCGGATTGACTGAT
**
82390726 CAGACCAGTCTAATCAAGACTTGGTTAGGATATTGATTTAGAATAAGGGTTGGATTAGTTGACTT
66 CAGACCAGTCTAATCAAGACTTGGTTAGGATATTGATTTAGAATAAGGGTTGGATTAGTAAACTT
*
82390791 GTAAAACTAGTACGAATTGCTTAAAGTGTGTTCCAATAACCAAGGGTAAAAAAAA
131 GTAAAACTAGTACGAATTGCTTAAAGTGTGTTCCAATAACCAAAGGTAAAAAAAA
82390846 AAAGATCTAT
Statistics
Matches: 174, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
213 174 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (213 bp):
TCTACAAGTCAAAATCATGCTATAATGCGGCTAAAAGCACTATTTTCAAAATCGGATTGACTGAT
CAGACCAGTCTAATCAAGACTTGGTTAGGATATTGATTTAGAATAAGGGTTGGATTAGTAAACTT
GTAAAACTAGTACGAATTGCTTAAAGTGTGTTCCAATAACCAAAGGTAAAAAAAAGAAAAGAAAA
GAAAAGAAAAAGAAAAGA
Found at i:82390980 original size:190 final size:190
Alignment explanation
Indices: 82390649--82390999 Score: 551
Period size: 190 Copynumber: 1.8 Consensus size: 190
82390639 AAAAGAAAAG
* *
82390649 AAAAAGAAAAGATCTATAAGTCAAAATCATGCTATCATGCGGCTAAAAGCACTATTTTCAAAATC
1 AAAAAAAAAAGATCTATAAGTCAAAATCATGCAATCATGCGGCTAAAAGCACTATTTTCAAAATC
* * * *
82390714 GGATTGACTGATCAGACCAGTCTAATCAAGACTTGGTTAGGATATTGATTTAGAATAAGGGTTGG
66 GGATTGACTAATCAGACCAGTCCAATCAAGACTTGATTAAGATATTGATTTAGAATAAGGGTTGG
* *
82390779 ATTAGTTGACTTGTAAAACTAGTACGAATTGCTTAAAGTGTGTTCCAATAACCAAGGGTA
131 ATTAATTGACTTGCAAAACTAGTACGAATTGCTTAAAGTGTGTTCCAATAACCAAGGGTA
* *
82390839 AAAAAAAAAAGATCTATAAGTCAAAATCATGCAATTATGCGGCTAAAAGTACTATTTTCAAAATC
1 AAAAAAAAAAGATCTATAAGTCAAAATCATGCAATCATGCGGCTAAAAGCACTATTTTCAAAATC
** *
82390904 GGATTGACTAATTGGACCAGTCCAATCAAGA-TTCGATTAAGATATTGATTTAGGATAAGGGTTG
66 GGATTGACTAATCAGACCAGTCCAATCAAGACTT-GATTAAGATATTGATTTAGAATAAGGGTTG
* *
82390968 GATTAATTGACTTGCAAAATTGGTACGAATTG
130 GATTAATTGACTTGCAAAACTAGTACGAATTG
82391000 GGCTAAAAAT
Statistics
Matches: 145, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
189 2 0.01
190 143 0.99
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (190 bp):
AAAAAAAAAAGATCTATAAGTCAAAATCATGCAATCATGCGGCTAAAAGCACTATTTTCAAAATC
GGATTGACTAATCAGACCAGTCCAATCAAGACTTGATTAAGATATTGATTTAGAATAAGGGTTGG
ATTAATTGACTTGCAAAACTAGTACGAATTGCTTAAAGTGTGTTCCAATAACCAAGGGTA
Found at i:82392707 original size:86 final size:87
Alignment explanation
Indices: 82392565--82392745 Score: 346
Period size: 86 Copynumber: 2.1 Consensus size: 87
82392555 GGATGCCTAA
82392565 TTTTAGAACCAATTTTATATAATTACATGACAAGACATGTGTCAGGTATAAATTTTAAAAAATAT
1 TTTTA-AACCAATTTTATATAATTACATGACAAGACATGTGTCAGGTATAAATTTTAAAAAATAT
82392630 GTAAATTAATTTAAAAAATAATT
65 GTAAATTAATTTAAAAAATAATT
82392653 TTTTAAA-CAATTTTATATAATTACATGACAAGACATGTGTCAGGTATAAATTTTAAAAAATATG
1 TTTTAAACCAATTTTATATAATTACATGACAAGACATGTGTCAGGTATAAATTTTAAAAAATATG
82392717 TAAATTAATTTAAAAAATAATT
66 TAAATTAATTTAAAAAATAATT
82392739 TTTTAAA
1 TTTTAAA
82392746 TTTAATATGT
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
86 86 0.92
87 2 0.02
88 5 0.05
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (87 bp):
TTTTAAACCAATTTTATATAATTACATGACAAGACATGTGTCAGGTATAAATTTTAAAAAATATG
TAAATTAATTTAAAAAATAATT
Found at i:82392955 original size:6 final size:6
Alignment explanation
Indices: 82392939--82392974 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
82392929 ACCAACATGT
* *
82392939 CCGCCG CCGCCA ACGCCA CCGCCA CCGCCA CCGCCA
1 CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA
82392975 GTCACCCTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.64, G:0.19, T:0.00
Consensus pattern (6 bp):
CCGCCA
Found at i:82395099 original size:15 final size:15
Alignment explanation
Indices: 82395079--82395129 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
82395069 ATATATATTT
82395079 TTATTTTATTTTTAA
1 TTATTTTATTTTTAA
82395094 TTATTTTAAATTTTTAA
1 TTATTTT--ATTTTTAA
* *
82395111 -TATAATTATTTTTTA
1 TTAT-TTTATTTTTAA
82395126 TTAT
1 TTAT
82395130 ATTGTCAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 14 0.47
16 6 0.20
17 10 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTTTATTTTTAA
Found at i:82395199 original size:22 final size:20
Alignment explanation
Indices: 82395171--82395215 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
82395161 TTTTAGTAAT
* *
82395171 TTTTTATTTGTTTTAATATTTA
1 TTTTTATGT-TTTTAA-ATATA
82395193 TTTTTATGTTTTTAAATATA
1 TTTTTATGTTTTTAAATATA
82395213 TTT
1 TTT
82395216 GATTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 6 0.29
22 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTTATGTTTTTAAATATA
Found at i:82395214 original size:20 final size:22
Alignment explanation
Indices: 82395159--82395215 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 22
82395149 TTTTAAGAAT
* *
82395159 TGTTTTAGTA-AT-TTTTTATT
1 TGTTTTAATATATATTTTTATG
*
82395179 TGTTTTAATATTTATTTTTATG
1 TGTTTTAATATATATTTTTATG
82395201 T-TTTTAA-ATATATTT
1 TGTTTTAATATATATTT
82395216 GATTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 16 0.52
21 7 0.23
22 8 0.26
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (22 bp):
TGTTTTAATATATATTTTTATG
Found at i:82395232 original size:26 final size:24
Alignment explanation
Indices: 82395186--82395245 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
82395176 ATTTGTTTTA
*
82395186 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
82395210 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
82395236 TTTTTTATTT
1 ATATTTATTT
82395246 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:82398010 original size:71 final size:71
Alignment explanation
Indices: 82397926--82398068 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
82397916 TTGTTCAAGT
82397926 TTCTTGATGCTTCATTATCATCCATGTATGCATATAAGTTTCTCCACCTCAAAAGCTTCAAATTC
1 TTCTTGATGCTTCATTATCATCCATGTATGCATATAAGTTTCTCCACCTCAAAAGCTTCAAATTC
82397991 TTCTTC
66 TTCTTC
82397997 TTCTTGATGCTTCATTATCATCCATGTATGCATATAAGTTTCTCCACCTCAAAAGCTTCAAATTC
1 TTCTTGATGCTTCATTATCATCCATGTATGCATATAAGTTTCTCCACCTCAAAAGCTTCAAATTC
82398062 TTCTTC
66 TTCTTC
82398068 T
1 T
82398069 ATGCATTTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.41
Consensus pattern (71 bp):
TTCTTGATGCTTCATTATCATCCATGTATGCATATAAGTTTCTCCACCTCAAAAGCTTCAAATTC
TTCTTC
Found at i:82398310 original size:16 final size:16
Alignment explanation
Indices: 82398289--82398323 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
82398279 TTTTCATTTA
82398289 CTTAGGTTGGCTTACG
1 CTTAGGTTGGCTTACG
82398305 CTTAGGTTGGCTTACG
1 CTTAGGTTGGCTTACG
82398321 CTT
1 CTT
82398324 GATTTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.20, G:0.29, T:0.40
Consensus pattern (16 bp):
CTTAGGTTGGCTTACG
Found at i:82399227 original size:13 final size:13
Alignment explanation
Indices: 82399209--82399276 Score: 68
Period size: 13 Copynumber: 5.2 Consensus size: 13
82399199 CTAGTTTGAC
82399209 AATATTTTTGAAA
1 AATATTTTTGAAA
82399222 AATATTTTT-AAA
1 AATATTTTTGAAA
** *
82399234 AAGT-GCTGTGAAA
1 AA-TATTTTTGAAA
*
82399247 AAGTACTTTTGAAA
1 AA-TATTTTTGAAA
82399261 AATATTTTTGAAA
1 AATATTTTTGAAA
82399274 AAT
1 AAT
82399277 TTAATTTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
12 7 0.16
13 30 0.67
14 8 0.18
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.40
Consensus pattern (13 bp):
AATATTTTTGAAA
Found at i:82401541 original size:25 final size:24
Alignment explanation
Indices: 82401488--82401536 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
82401478 CATTGTGGGT
82401488 GGTGTTGAAAAGTCAAATTAAAAGG
1 GGTGTTGAAAAGTCAAA-TAAAAGG
82401513 GGTGTTGAAAAGTCAAA-AAAAGG
1 GGTGTTGAAAAGTCAAATAAAAGG
82401536 G
1 G
82401537 AGGTGCAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.29
25 17 0.71
ACGTcount: A:0.45, C:0.04, G:0.31, T:0.20
Consensus pattern (24 bp):
GGTGTTGAAAAGTCAAATAAAAGG
Found at i:82404248 original size:5 final size:5
Alignment explanation
Indices: 82404238--82404309 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
82404228 TGTTAAAAAA
* *
82404238 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
82404284 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
82404310 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:82404291 original size:19 final size:19
Alignment explanation
Indices: 82404267--82404309 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
82404257 ATTATGTTTT
82404267 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
82404286 TATATTATATTATATTATA
1 TATATTATATTATATTATA
82404305 TATAT
1 TATAT
82404310 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:82404341 original size:17 final size:17
Alignment explanation
Indices: 82404319--82404352 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
82404309 TACATAAAAC
*
82404319 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
82404336 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
82404353 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:82404348 original size:9 final size:9
Alignment explanation
Indices: 82404319--82404352 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
82404309 TACATAAAAC
82404319 AAAAGAAAG
1 AAAAGAAAG
*
82404328 AATAGAAA-
1 AAAAGAAAG
82404336 AAAAGAAAG
1 AAAAGAAAG
82404345 AAAAGAAA
1 AAAAGAAA
82404353 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:82405372 original size:46 final size:44
Alignment explanation
Indices: 82405313--82405427 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
82405303 ACAGGACAGA
* *
82405313 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
82405359 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
82405403 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
82405428 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:82405408 original size:44 final size:45
Alignment explanation
Indices: 82405313--82405446 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
82405303 ACAGGACAGA
* *
82405313 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
82405359 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
82405403 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
82405447 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:82410486 original size:5 final size:5
Alignment explanation
Indices: 82410476--82410547 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
82410466 TGTTAAAAAA
* *
82410476 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
82410522 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
82410548 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:82410529 original size:19 final size:19
Alignment explanation
Indices: 82410505--82410547 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
82410495 ATTATGTTTT
82410505 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
82410524 TATATTATATTATATTATA
1 TATATTATATTATATTATA
82410543 TATAT
1 TATAT
82410548 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:82410579 original size:17 final size:17
Alignment explanation
Indices: 82410557--82410590 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
82410547 TACATAAAAC
*
82410557 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
82410574 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
82410591 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:82410586 original size:9 final size:9
Alignment explanation
Indices: 82410557--82410590 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
82410547 TACATAAAAC
82410557 AAAAGAAAG
1 AAAAGAAAG
*
82410566 AATAGAAA-
1 AAAAGAAAG
82410574 AAAAGAAAG
1 AAAAGAAAG
82410583 AAAAGAAA
1 AAAAGAAA
82410591 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:82411610 original size:46 final size:44
Alignment explanation
Indices: 82411551--82411665 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
82411541 ACAGGACAGA
* *
82411551 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
82411597 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
82411641 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
82411666 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:82411646 original size:44 final size:45
Alignment explanation
Indices: 82411551--82411684 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
82411541 ACAGGACAGA
* *
82411551 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
82411597 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
82411641 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
82411685 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:82413462 original size:21 final size:21
Alignment explanation
Indices: 82413436--82413476 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
82413426 AGACGAGCAA
* *
82413436 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
82413457 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
82413477 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:82417290 original size:21 final size:22
Alignment explanation
Indices: 82417264--82417312 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
82417254 GGAGATTTAT
* *
82417264 TCAGAAG-TAATAGCAGCAGAA
1 TCAGAAGATAATAACAGCAAAA
82417285 TCAGAAGATAATAACAGCAAAA
1 TCAGAAGATAATAACAGCAAAA
*
82417307 TTAGAA
1 TCAGAA
82417313 AAAGGCACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.16
Consensus pattern (22 bp):
TCAGAAGATAATAACAGCAAAA
Found at i:82420198 original size:22 final size:21
Alignment explanation
Indices: 82420168--82420208 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
82420158 TTTTTTTCAC
* *
82420168 TGTTGTTTGTTGTCATTTTGA
1 TGTTGTTTGCTATCATTTTGA
82420189 TGTTGTTTTGCTATCATTTT
1 TGTTG-TTTGCTATCATTTT
82420209 TCTATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.10, C:0.07, G:0.20, T:0.63
Consensus pattern (21 bp):
TGTTGTTTGCTATCATTTTGA
Found at i:82422345 original size:15 final size:15
Alignment explanation
Indices: 82422321--82422352 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
82422311 ACGGAGTAGC
*
82422321 TCGTCTTTGTCGTTG
1 TCGTCGTTGTCGTTG
82422336 TCGTCGTTGTCGTTG
1 TCGTCGTTGTCGTTG
82422351 TC
1 TC
82422353 TTTGTCGCAG
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:0.00, C:0.22, G:0.28, T:0.50
Consensus pattern (15 bp):
TCGTCGTTGTCGTTG
Found at i:82423168 original size:20 final size:20
Alignment explanation
Indices: 82423143--82423192 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
82423133 TGGCTTAAAA
82423143 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
82423163 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
82423180 GTGGTAGTGGATT
1 TTGGTAGTGGATT
82423193 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:82427804 original size:20 final size:20
Alignment explanation
Indices: 82427779--82427828 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
82427769 TGGCTTAAAA
82427779 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
82427799 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
82427816 GTGGTAGTGGATT
1 TTGGTAGTGGATT
82427829 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:82440064 original size:14 final size:14
Alignment explanation
Indices: 82440045--82440072 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
82440035 GGGTTTAGAT
82440045 AAAAAAATTAGGCC
1 AAAAAAATTAGGCC
82440059 AAAAAAATTAGGCC
1 AAAAAAATTAGGCC
82440073 CGTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAAAATTAGGCC
Found at i:82442934 original size:21 final size:22
Alignment explanation
Indices: 82442910--82442953 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
82442900 AGGGGACCAG
82442910 AAATA-AATTATAAATTTTTTA
1 AAATATAATTATAAATTTTTTA
* * *
82442931 AAATATTATTTTATATTTTTTA
1 AAATATAATTATAAATTTTTTA
82442953 A
1 A
82442954 TTTAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AAATATAATTATAAATTTTTTA
Found at i:82449531 original size:18 final size:18
Alignment explanation
Indices: 82449508--82449564 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
82449498 CCCAACTACT
*
82449508 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
82449526 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
82449544 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
82449562 GTA
1 GTA
82449565 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:82451580 original size:16 final size:18
Alignment explanation
Indices: 82451541--82451574 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
82451531 TAAGTTCATA
82451541 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
82451558 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
82451575 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:82459736 original size:18 final size:18
Alignment explanation
Indices: 82459679--82459728 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
82459669 TCTTTTCAGA
* **
82459679 TTCATTTTCATCATCTTC
1 TTCATCTTCATCAGATTC
* *
82459697 TTCTTCTTCTTCAGATTC
1 TTCATCTTCATCAGATTC
82459715 TTCATCTTCATCAG
1 TTCATCTTCATCAG
82459729 TATCTTCAGC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.28, G:0.04, T:0.52
Consensus pattern (18 bp):
TTCATCTTCATCAGATTC
Found at i:82460118 original size:56 final size:56
Alignment explanation
Indices: 82460010--82460119 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 56
82460000 AGTTCTTAAG
* * * * *
82460010 CAAACATTCTATCTTAGTGTCTTTAACATATATAACCATGAAAAAATAATAATAAT
1 CAAACATTCTAGCATAGCGTCTTTAACATACATAACCATGAAAAAACAATAATAAT
* *
82460066 CAAACATTCTAGCATAGCGTCTTTAACATACATAACCATGAAACAACGATAATA
1 CAAACATTCTAGCATAGCGTCTTTAACATACATAACCATGAAAAAACAATAATA
82460120 GTAGTTACCG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.29
Consensus pattern (56 bp):
CAAACATTCTAGCATAGCGTCTTTAACATACATAACCATGAAAAAACAATAATAAT
Found at i:82465299 original size:38 final size:38
Alignment explanation
Indices: 82465246--82465527 Score: 212
Period size: 38 Copynumber: 7.1 Consensus size: 38
82465236 AACATTTACT
* * *
82465246 ACACTGGCA-TCAAGCCTTTTAGGCATTAAGCTTAAATA
1 ACACTGGCACT-AAGCCTTCTAGGCACTAAGCTTGAATA
* * *
82465284 ACACTAGCACTAAGCCTGCTAGGCACTAAGTTTGAATA
1 ACACTGGCACTAAGCCTTCTAGGCACTAAGCTTGAATA
* * * *
82465322 GCACCGGCACTAAG-CTTGCTAGACACTAAGCCTGAATA
1 ACACTGGCACTAAGCCTT-CTAGGCACTAAGCTTGAATA
*
82465360 ACACTGGCACTAAGCCTGAATAAC-ACCGGCACTAATCTTGAATA
1 ACACTGGCACTAAGCCT---T--CTA--GGCACTAAGCTTGAATA
** * *
82465404 ACGTTGGCACTAAGCCTGCTAGGCACTAAGCCTGAATA
1 ACACTGGCACTAAGCCTTCTAGGCACTAAGCTTGAATA
*
82465442 ACACTGGCACTAAGCCTGAATAAC-ACCGGCACTAATCTTGAATA
1 ACACTGGCACTAAGCCT---T--CTA--GGCACTAAGCTTGAATA
** * *
82465486 ACGTTGGCACTAAGCCTGCTAGGCACTAAGCCTGAATA
1 ACACTGGCACTAAGCCTTCTAGGCACTAAGCTTGAATA
82465524 ACAC
1 ACAC
82465528 CGCATTTGAA
Statistics
Matches: 190, Mismatches: 36, Indels: 36
0.73 0.14 0.14
Matches are distributed among these distances:
37 2 0.01
38 117 0.62
39 5 0.03
40 2 0.01
42 3 0.02
43 2 0.01
44 59 0.31
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (38 bp):
ACACTGGCACTAAGCCTTCTAGGCACTAAGCTTGAATA
Found at i:82465373 original size:22 final size:22
Alignment explanation
Indices: 82465345--82465503 Score: 177
Period size: 22 Copynumber: 7.5 Consensus size: 22
82465335 GCTTGCTAGA
82465345 CACTAAGCCTGAATAACACTGG
1 CACTAAGCCTGAATAACACTGG
*
82465367 CACTAAGCCTGAATAACACCGG
1 CACTAAGCCTGAATAACACTGG
* * **
82465389 CACTAATCTTGAATAACGTTGG
1 CACTAAGCCTGAATAACACTGG
*
82465411 CACTAAGCCTG-CT---A--GG
1 CACTAAGCCTGAATAACACTGG
82465427 CACTAAGCCTGAATAACACTGG
1 CACTAAGCCTGAATAACACTGG
*
82465449 CACTAAGCCTGAATAACACCGG
1 CACTAAGCCTGAATAACACTGG
* * **
82465471 CACTAATCTTGAATAACGTTGG
1 CACTAAGCCTGAATAACACTGG
82465493 CACTAAGCCTG
1 CACTAAGCCTG
82465504 CTAGGCACTA
Statistics
Matches: 112, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
16 13 0.12
17 1 0.01
20 1 0.01
21 1 0.01
22 96 0.86
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (22 bp):
CACTAAGCCTGAATAACACTGG
Found at i:82465412 original size:44 final size:44
Alignment explanation
Indices: 82465345--82465503 Score: 195
Period size: 44 Copynumber: 3.8 Consensus size: 44
82465335 GCTTGCTAGA
82465345 CACTAAGCCTGAATAACACTGGCACTAAGCCTGAATAACACCGG
1 CACTAAGCCTGAATAACACTGGCACTAAGCCTGAATAACACCGG
* * ** *
82465389 CACTAATCTTGAATAACGTTGGCACTAAGCCTG-CT---A--GG
1 CACTAAGCCTGAATAACACTGGCACTAAGCCTGAATAACACCGG
82465427 CACTAAGCCTGAATAACACTGGCACTAAGCCTGAATAACACCGG
1 CACTAAGCCTGAATAACACTGGCACTAAGCCTGAATAACACCGG
* * **
82465471 CACTAATCTTGAATAACGTTGGCACTAAGCCTG
1 CACTAAGCCTGAATAACACTGGCACTAAGCCTG
82465504 CTAGGCACTA
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
38 31 0.33
39 1 0.01
40 1 0.01
42 1 0.01
43 1 0.01
44 60 0.63
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (44 bp):
CACTAAGCCTGAATAACACTGGCACTAAGCCTGAATAACACCGG
Found at i:82465414 original size:82 final size:82
Alignment explanation
Indices: 82465327--82465527 Score: 384
Period size: 82 Copynumber: 2.5 Consensus size: 82
82465317 GAATAGCACC
* *
82465327 GGCACTAAGCTTGCTAGACACTAAGCCTGAATAACACTGGCACTAAGCCTGAATAACACCGGCAC
1 GGCACTAAGCCTGCTAGGCACTAAGCCTGAATAACACTGGCACTAAGCCTGAATAACACCGGCAC
82465392 TAATCTTGAATAACGTT
66 TAATCTTGAATAACGTT
82465409 GGCACTAAGCCTGCTAGGCACTAAGCCTGAATAACACTGGCACTAAGCCTGAATAACACCGGCAC
1 GGCACTAAGCCTGCTAGGCACTAAGCCTGAATAACACTGGCACTAAGCCTGAATAACACCGGCAC
82465474 TAATCTTGAATAACGTT
66 TAATCTTGAATAACGTT
82465491 GGCACTAAGCCTGCTAGGCACTAAGCCTGAATAACAC
1 GGCACTAAGCCTGCTAGGCACTAAGCCTGAATAACAC
82465528 CGCATTTGAA
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 117 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (82 bp):
GGCACTAAGCCTGCTAGGCACTAAGCCTGAATAACACTGGCACTAAGCCTGAATAACACCGGCAC
TAATCTTGAATAACGTT
Found at i:82469407 original size:22 final size:22
Alignment explanation
Indices: 82469377--82469421 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
82469367 AAATTTCAGG
82469377 TATAAATAAGGAAATT-TTTTAA
1 TATAAATAA-GAAATTATTTTAA
* *
82469399 TATATATAAGTAATTATTTTAA
1 TATAAATAAGAAATTATTTTAA
82469421 T
1 T
82469422 TCTCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
TATAAATAAGAAATTATTTTAA
Found at i:82480166 original size:19 final size:20
Alignment explanation
Indices: 82480126--82480169 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
82480116 GTTTCTTTTG
* *
82480126 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
82480145 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
82480164 GCATTA
1 GCATTA
82480170 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:82483245 original size:16 final size:16
Alignment explanation
Indices: 82483224--82483255 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
82483214 TCGTACGAAA
*
82483224 ACGATTAATCTGGTAT
1 ACGATTAATCCGGTAT
82483240 ACGATTAATCCGGTAT
1 ACGATTAATCCGGTAT
82483256 GTACCACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (16 bp):
ACGATTAATCCGGTAT
Found at i:82486753 original size:26 final size:26
Alignment explanation
Indices: 82486724--82486831 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
82486714 TGAAATGCCC
* *
82486724 ATCATAGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAAACCATT
*
82486750 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
82486776 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
82486802 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
82486828 ATCA
1 ATCA
82486832 ATTTATACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:82486802 original size:52 final size:52
Alignment explanation
Indices: 82486724--82486831 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 52
82486714 TGAAATGCCC
82486724 ATCATAGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
* *
82486776 ATCATGGAATATTTACCT-AATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAAT-CATTATCATGGAACATTTACCTAACCCATT
82486828 ATCA
1 ATCA
82486832 ATTTATACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 3 0.06
52 50 0.94
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (52 bp):
ATCATAGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
Found at i:82492690 original size:6 final size:6
Alignment explanation
Indices: 82492679--82492717 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
82492669 AAAGTTAATA
* *
82492679 ATACAT ATACAT ATACAT GTACAT GTACAT ATACAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATA
82492718 TACCTTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:82493956 original size:11 final size:12
Alignment explanation
Indices: 82493934--82493962 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
82493924 CTAAAATTAT
82493934 AATTATATTTTA
1 AATTATATTTTA
82493946 AATTA-ATTTTA
1 AATTATATTTTA
82493957 AATTAT
1 AATTAT
82493963 TAAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
AATTATATTTTA
Found at i:82497052 original size:20 final size:20
Alignment explanation
Indices: 82497027--82497067 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
82497017 TAACAAAATT
82497027 ATATAAACATAATGTTTTTA
1 ATATAAACATAATGTTTTTA
** *
82497047 ATATAAGTATAGTGTTTTTA
1 ATATAAACATAATGTTTTTA
82497067 A
1 A
82497068 CGGATTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.46
Consensus pattern (20 bp):
ATATAAACATAATGTTTTTA
Found at i:82526031 original size:169 final size:169
Alignment explanation
Indices: 82525735--82526043 Score: 442
Period size: 169 Copynumber: 1.8 Consensus size: 169
82525725 CATGGATGGT
** * * *
82525735 TGCTTATGTTGTTGAACATATCTCTTGTGTGATTCGCTGCTTATGTTACTTCGACATACCCGTGT
1 TGCTTATGTTGTTGAACATATCTCGAGTGTGATTAGCTGCTTAAGTTACTTCGACATACCCATGT
* * * * *
82525800 CTAATTCATTGTCGCGTTAGAAACGAGCATGGATGACTTAGAAGCTTTTGTTGTTAGATATATGG
66 CTAATTCATTGTCACGTTAAAAACGAGCATGGATGACTCAGAAGCTTATGCTGTTAGATATATGG
*
82525865 TTTGATACATACACTCGACATAAAAACTTTTCAGGTCCA
131 TTCGATACATACACTCGACATAAAAACTTTTCAGGTCCA
*
82525904 TGCTTATGTTGTTGAACATATCTCGAGTGTGATTAGTTGCTTAAGTTAC-TCGAACATACCCATG
1 TGCTTATGTTGTTGAACATATCTCGAGTGTGATTAGCTGCTTAAGTTACTTCG-ACATACCCATG
* * * *
82525968 TCTAATTCATTGTCATGTTAAAAACGAGCGTGGATGACCTCA-ACGCTTATGCTGTTGGATATAT
65 TCTAATTCATTGTCACGTTAAAAACGAGCATGGATGA-CTCAGAAGCTTATGCTGTTAGATATAT
82526032 GGTTCGATACAT
129 GGTTCGATACAT
82526044 TCTCGTGTCT
Statistics
Matches: 122, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
168 3 0.02
169 116 0.95
170 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (169 bp):
TGCTTATGTTGTTGAACATATCTCGAGTGTGATTAGCTGCTTAAGTTACTTCGACATACCCATGT
CTAATTCATTGTCACGTTAAAAACGAGCATGGATGACTCAGAAGCTTATGCTGTTAGATATATGG
TTCGATACATACACTCGACATAAAAACTTTTCAGGTCCA
Found at i:82529331 original size:21 final size:22
Alignment explanation
Indices: 82529305--82529351 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
82529295 CTCTGCTCAA
*
82529305 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
82529326 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
82529348 ACTC
1 ACTC
82529352 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:82533477 original size:16 final size:17
Alignment explanation
Indices: 82533458--82533491 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
82533448 TAATTTTATT
*
82533458 ATTATTAATT-TAAAAA
1 ATTATAAATTATAAAAA
82533474 ATTATAAATTATAAAAA
1 ATTATAAATTATAAAAA
82533491 A
1 A
82533492 CCTATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTATAAATTATAAAAA
Done.