Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 165 of 208
Found at i:53357375 original size:8 final size:8
Alignment explanation
Indices: 53357364--53357408 Score: 54
Period size: 8 Copynumber: 5.1 Consensus size: 8
53357354 TATATTTAAA
53357364 TATATTTT
1 TATATTTT
53357372 TATATTTT
1 TATATTTT
53357380 TATATTTTT
1 TATA-TTTT
53357389 TATAAATTTT
1 TAT--ATTTT
53357399 TATATATTT
1 TATAT-TTT
53357408 T
1 T
53357409 TTTCAAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 14 0.42
9 11 0.33
10 7 0.21
11 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TATATTTT
Found at i:53357376 original size:10 final size:10
Alignment explanation
Indices: 53357349--53357409 Score: 74
Period size: 10 Copynumber: 6.4 Consensus size: 10
53357339 GTTTTAGTGA
53357349 TTTTATATAT
1 TTTTATATAT
**
53357359 TTAAATATA-
1 TTTTATATAT
53357368 TTTT-TATAT
1 TTTTATATAT
53357377 TTTTATAT-T
1 TTTTATATAT
*
53357386 TTTTATAAAT
1 TTTTATATAT
53357396 TTTTATATAT
1 TTTTATATAT
53357406 TTTT
1 TTTT
53357410 TTCAAAATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 4 0.10
9 14 0.33
10 24 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATATAT
Found at i:53357480 original size:25 final size:26
Alignment explanation
Indices: 53357426--53357482 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
53357416 ATACTATAAG
* *
53357426 ATTTTTATATATTTGTAATTGTATGC
1 ATTTTTATATATTTATAATTGTATAC
*
53357452 ATTTTTATA-ATTTTATAATT-TATAT
1 ATTTTTATATA-TTTATAATTGTATAC
53357477 ATTTTT
1 ATTTTT
53357483 TAAAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (26 bp):
ATTTTTATATATTTATAATTGTATAC
Found at i:53357987 original size:16 final size:18
Alignment explanation
Indices: 53357951--53357988 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
53357941 ACTATATTGA
*
53357951 ATAAAATATAAAATATGT
1 ATAAAATATAAAATATAT
*
53357969 ATAAAATAAAAAATATAT
1 ATAAAATATAAAATATAT
53357987 AT
1 AT
53357989 TTATTTAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAAAATATAAAATATAT
Found at i:53358402 original size:31 final size:31
Alignment explanation
Indices: 53358343--53358432 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 31
53358333 TATGTGATAG
* * *
53358343 TACAGGGTTTGAATATG-AAATATTAATGA-
1 TACATGGTATGAATATGAAAATATGAATGAT
53358372 TA-ATAGGATATGAATATGAAAATATGAATGAT
1 TACAT-GG-TATGAATATGAAAATATGAATGAT
53358404 TACATGGTATGAATATGAAAATATGAATG
1 TACATGGTATGAATATGAAAATATGAATG
53358433 GTTGATACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
28 1 0.02
29 4 0.08
30 9 0.17
31 33 0.62
32 4 0.08
33 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (31 bp):
TACATGGTATGAATATGAAAATATGAATGAT
Found at i:53362208 original size:23 final size:23
Alignment explanation
Indices: 53362178--53362227 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
53362168 TACATACGTA
*
53362178 ATCAGGAAGCTCACAAAGAGCCT
1 ATCAGGAAGCTCACAAAAAGCCT
*
53362201 ATCAGGAAGCTCACAAAAAGCTT
1 ATCAGGAAGCTCACAAAAAGCCT
53362224 ATCA
1 ATCA
53362228 TCCATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (23 bp):
ATCAGGAAGCTCACAAAAAGCCT
Found at i:53362378 original size:26 final size:26
Alignment explanation
Indices: 53362346--53362410 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
53362336 ATGAGAGCAA
* *
53362346 TAATCAGGAAGTTCAC-AATGAACTTT
1 TAATCAGGAAGCTCACGAA-GAACCTT
*
53362372 TAATCAGGAAGCTCACGAAGAGCCTT
1 TAATCAGGAAGCTCACGAAGAACCTT
53362398 TAATCAGG-AGCTC
1 TAATCAGGAAGCTC
53362411 CGGATAGCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.14
26 28 0.80
27 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (26 bp):
TAATCAGGAAGCTCACGAAGAACCTT
Found at i:53364876 original size:64 final size:65
Alignment explanation
Indices: 53364751--53364924 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 65
53364741 GCAAACAAAC
* *
53364751 ATTCGAACCACATATG--TAT-AATTTACA-ACATTAAATTTCAGCTCAAAGAATTTGTAACCTA
1 ATTCGAACCACATATGTATATAAAATT-CATACATTAAATTCCAGCTCAAAGAATTTGTAACCTA
53364812 T
65 T
* *
53364813 ATTCGAACCTCATATGTATGTAAAATTCATACATTAAATTCCA-CTCAAA-AATTTTGTAACCTA
1 ATTCGAACCACATATGTATATAAAATTCATACATTAAATTCCAGCTCAAAGAA-TTTGTAACCTA
53364876 T
65 T
* * * *
53364877 ATTTGAACCACATATGTATATATAATTCATACATTGAA-TACAGCTCAA
1 ATTCGAACCACATATGTATATAAAATTCATACATTAAATTCCAGCTCAA
53364925 GAACTTTAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
62 15 0.16
63 5 0.05
64 60 0.62
65 16 0.17
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.34
Consensus pattern (65 bp):
ATTCGAACCACATATGTATATAAAATTCATACATTAAATTCCAGCTCAAAGAATTTGTAACCTAT
Found at i:53365044 original size:21 final size:22
Alignment explanation
Indices: 53365003--53365045 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
53364993 TCAAAGAACT
53365003 TATATCATACATTCAAACTTTA
1 TATATCATACATTCAAACTTTA
53365025 TATAT-ATA-ATTCACAACTTTA
1 TATATCATACATTCA-AACTTTA
53365046 AATTCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATCATACATTCAAACTTTA
Found at i:53372758 original size:64 final size:65
Alignment explanation
Indices: 53372579--53372759 Score: 223
Period size: 64 Copynumber: 2.9 Consensus size: 65
53372569 GCAAACAAAC
*
53372579 ATTTGAACCACATATGTATA-AT--TTACA-ACATTAAATTTCAGCTCAAAGAA-TTTGTAACCT
1 ATTTGAACCACATATGTATATATAATT-CATACATTAAATTACAGCTC-AAGAACTTTGTAACCT
53372639 AT
64 AT
* * * * * *
53372641 ATTCGAACCTCATATGTATGTAAAATTCATACATTAAATTCCA-CTCAAAAACTTTGTAACCTAT
1 ATTTGAACCACATATGTATATATAATTCATACATTAAATTACAGCTCAAGAACTTTGTAACCTAT
*
53372705 ATTTGAAACACATATGTATATATAATTCATACATTAAA-TACAGCTCAAGAACTTT
1 ATTTGAACCACATATGTATATATAATTCATACATTAAATTACAGCTCAAGAACTTT
53372760 AAATATATAT
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
62 17 0.17
63 8 0.08
64 61 0.61
65 14 0.14
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (65 bp):
ATTTGAACCACATATGTATATATAATTCATACATTAAATTACAGCTCAAGAACTTTGTAACCTAT
Found at i:53372872 original size:21 final size:22
Alignment explanation
Indices: 53372831--53372873 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
53372821 TCAAAGAACT
53372831 TATATCATACATTCAAACTTTA
1 TATATCATACATTCAAACTTTA
53372853 TATAT-ATA-ATTCACAACTTTA
1 TATATCATACATTCA-AACTTTA
53372874 AATTCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATCATACATTCAAACTTTA
Found at i:53373482 original size:28 final size:28
Alignment explanation
Indices: 53373451--53373504 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
53373441 CATGCATTTC
* *
53373451 ATTTA-TTTCATATTTTAGTCCCTAAAAA
1 ATTTATTTTCACAATTTAG-CCCTAAAAA
53373479 ATTTATTTTCACAATTTAGCCCTAAA
1 ATTTATTTTCACAATTTAGCCCTAAA
53373505 TACTCAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (28 bp):
ATTTATTTTCACAATTTAGCCCTAAAAA
Found at i:53378354 original size:42 final size:44
Alignment explanation
Indices: 53378289--53378373 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
53378279 GCAGGCCACC
53378289 TAAAATATACTATCTAAAGAAGTAA-TTTATT-ATTTAATTTAAT
1 TAAAATATACTATCTAAAGAAGTAATTTTATTAATTT-ATTTAAT
* *
53378332 TAAAATATAGT-TCTAAATAAGTAATTTTATTAATTTATTTAA
1 TAAAATATACTATCTAAAGAAGTAATTTTATTAATTTATTTAA
53378374 ACATAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 12 0.32
43 22 0.58
44 4 0.11
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (44 bp):
TAAAATATACTATCTAAAGAAGTAATTTTATTAATTTATTTAAT
Found at i:53378457 original size:26 final size:26
Alignment explanation
Indices: 53378428--53378478 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
53378418 ATCTACTTCA
53378428 AATTTAATAAATTTAAAAATAATAAT
1 AATTTAATAAATTTAAAAATAATAAT
** **
53378454 AATTTTTTAAATTTAAGTATAATAA
1 AATTTAATAAATTTAAAAATAATAA
53378479 AAATAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
AATTTAATAAATTTAAAAATAATAAT
Found at i:53378991 original size:8 final size:8
Alignment explanation
Indices: 53378980--53379022 Score: 52
Period size: 8 Copynumber: 5.1 Consensus size: 8
53378970 TATATTTAAA
53378980 TATATTTT
1 TATATTTT
53378988 TATA-TTT
1 TATATTTT
53378995 TATATTTTT
1 TATA-TTTT
53379004 TATAAATTTT
1 TAT--ATTTT
53379014 TATATTTT
1 TATATTTT
53379022 T
1 T
53379023 TTTTCAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
7 7 0.23
8 10 0.32
9 6 0.19
10 7 0.23
11 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TATATTTT
Found at i:53378992 original size:10 final size:10
Alignment explanation
Indices: 53378965--53379023 Score: 56
Period size: 9 Copynumber: 6.4 Consensus size: 10
53378955 GTTTTAGTGA
53378965 TTTTATATAT
1 TTTTATATAT
**
53378975 TTAAATATA-
1 TTTTATATAT
53378984 TTTT-TATA-
1 TTTTATATAT
53378992 TTTTATAT-T
1 TTTTATATAT
*
53379001 TTTTATAAAT
1 TTTTATATAT
53379011 TTTTATAT-T
1 TTTTATATAT
53379020 TTTT
1 TTTT
53379024 TTTCAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
8 8 0.20
9 17 0.43
10 15 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATATAT
Found at i:53379019 original size:26 final size:27
Alignment explanation
Indices: 53378964--53379021 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
53378954 AGTTTTAGTG
*
53378964 ATTTTATATATTTAAATATATTTTTAT
1 ATTTTATATATTTAAATAAATTTTTAT
**
53378991 ATTTTATAT-TTTTTATAAATTTTTAT
1 ATTTTATATATTTAAATAAATTTTTAT
53379017 ATTTT
1 ATTTT
53379022 TTTTTCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
ATTTTATATATTTAAATAAATTTTTAT
Found at i:53379024 original size:10 final size:9
Alignment explanation
Indices: 53378965--53379023 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 9
53378955 GTTTTAGTGA
53378965 TTTTATATAT
1 TTTTATAT-T
**
53378975 TTAAATATAT
1 TTTTATAT-T
53378985 TTTTATA--
1 TTTTATATT
53378992 TTTTATATT
1 TTTTATATT
*
53379001 TTTTATAAAT
1 TTTTAT-ATT
53379011 TTTTATATT
1 TTTTATATT
53379020 TTTT
1 TTTT
53379024 TTTCAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
7 7 0.17
9 12 0.30
10 21 0.52
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTATATT
Found at i:53379095 original size:25 final size:26
Alignment explanation
Indices: 53379041--53379097 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
53379031 ATACTATAAG
* *
53379041 ATTTTTATATATTTGTAATTGTATGC
1 ATTTTTATATATTTATAATTGTATAC
*
53379067 ATTTTTATA-ATTTTATAATT-TATAT
1 ATTTTTATATA-TTTATAATTGTATAC
53379092 ATTTTT
1 ATTTTT
53379098 TAAAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (26 bp):
ATTTTTATATATTTATAATTGTATAC
Found at i:53380020 original size:31 final size:31
Alignment explanation
Indices: 53379961--53380050 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 31
53379951 TATGTGATAG
* * *
53379961 TACAGGGTTTGAATATG-AAATATTAATGA-
1 TACATGGTATGAATATGAAAATATGAATGAT
53379990 TA-ATAGGATATGAATATGAAAATATGAATGAT
1 TACAT-GG-TATGAATATGAAAATATGAATGAT
53380022 TACATGGTATGAATATGAAAATATGAATG
1 TACATGGTATGAATATGAAAATATGAATG
53380051 GTTGATACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
28 1 0.02
29 4 0.08
30 9 0.17
31 33 0.62
32 4 0.08
33 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (31 bp):
TACATGGTATGAATATGAAAATATGAATGAT
Found at i:53381035 original size:21 final size:20
Alignment explanation
Indices: 53381011--53381058 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
53381001 ATTCTAGTAG
*
53381011 AAATATTTCATTTATAATAAA
1 AAATATCTCATTTA-AATAAA
* *
53381032 AAATTAACTCTTTTAAATAAA
1 AAA-TATCTCATTTAAATAAA
53381053 AAATAT
1 AAATAT
53381059 GTTTTTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.09
21 12 0.55
22 8 0.36
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATATCTCATTTAAATAAA
Found at i:53382279 original size:29 final size:31
Alignment explanation
Indices: 53382237--53382313 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
53382227 TTTACCTCAG
*
53382237 GTTACATTTTAGTCACTTATGTT-T-GAAAT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
* *
53382266 GTTACATTTTAGTCACTTACGTTATCGTATT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
*
53382297 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
53382314 AAGCTATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATCGAAAT
Found at i:53384371 original size:26 final size:25
Alignment explanation
Indices: 53384342--53384394 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
53384332 ATCAGGAAAT
*
53384342 TCACAAAGAACTTTTAATCAAGAAGC
1 TCACAAAGAACCTTTAATCAAG-AGC
* *
53384368 TCACGAAGAGCCTTTAATCAAGAGC
1 TCACAAAGAACCTTTAATCAAGAGC
53384393 TC
1 TC
53384395 CGGATAGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (25 bp):
TCACAAAGAACCTTTAATCAAGAGC
Found at i:53385733 original size:26 final size:26
Alignment explanation
Indices: 53385675--53385739 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
53385665 ATAAGAGCAA
* * *
53385675 TAATCAAGAAGTTCACAAAGAACTTT
1 TAATCAGGAAGCTCACAAAGAACCTT
* *
53385701 TAATCAGGAAGCTCACGAAGAGCCTT
1 TAATCAGGAAGCTCACAAAGAACCTT
53385727 TAATCAGG-AGCTC
1 TAATCAGGAAGCTC
53385740 CGGATAGCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 5 0.15
26 29 0.85
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAACCTT
Found at i:53386620 original size:6 final size:6
Alignment explanation
Indices: 53386611--53386655 Score: 63
Period size: 6 Copynumber: 7.0 Consensus size: 6
53386601 AGCTTTTATT
53386611 TTTTTA TTTTTA TTTTTGTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA --TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA
53386656 CAAACAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 27 0.75
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:53387268 original size:3 final size:3
Alignment explanation
Indices: 53387254--53387311 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
53387244 AAATTGTTAT
*
53387254 TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* *
53387299 TTT TTA TTT TTA T
1 TTA TTA TTA TTA T
53387312 ATTCATGCGC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 1 0.02
3 45 0.96
4 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:53387749 original size:23 final size:23
Alignment explanation
Indices: 53387723--53387766 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
53387713 CGATTTTGTT
53387723 TATT-CATT-TATTCATATTATTTC
1 TATTCCATTGTATT-AT-TTATTTC
53387746 TATTCCATTGTATTATTTATT
1 TATTCCATTGTATTATTTATT
53387767 ATTGCATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.47
24 6 0.32
25 4 0.21
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTCCATTGTATTATTTATTTC
Found at i:53387774 original size:20 final size:20
Alignment explanation
Indices: 53387737--53387783 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
53387727 CATTTATTCA
53387737 TATTATTT-CTATTCCATTG
1 TATTATTTACTATTCCATTG
* *
53387756 TATTATTTATTATTGCATTG
1 TATTATTTACTATTCCATTG
53387776 TA-TATTTA
1 TATTATTTA
53387784 ATGTAGCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (20 bp):
TATTATTTACTATTCCATTG
Found at i:53387792 original size:19 final size:20
Alignment explanation
Indices: 53387751--53387792 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
53387741 ATTTCTATTC
* *
53387751 CATTGTATTATTTATTATTG
1 CATTGTATTATTTAATATAG
*
53387771 CATTGTA-TATTTAATGTAG
1 CATTGTATTATTTAATATAG
53387790 CAT
1 CAT
53387793 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (20 bp):
CATTGTATTATTTAATATAG
Found at i:53390450 original size:44 final size:44
Alignment explanation
Indices: 53390372--53390456 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
53390362 ACCTCCAACT
* * * *
53390372 TGGACAAAGGTAGAAGAAAATATTAGTGGATCCCCTACTCCTAA
1 TGGACAAAGGTAAAAGAAAATATAAATGGATCCCCCACTCCTAA
*
53390416 TGGACAAATGTAAAAGAAAATATCAAATGG-TCCCCCACTCC
1 TGGACAAAGGTAAAAGAAAATAT-AAATGGATCCCCCACTCC
53390457 CAACGTTGCC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 31 0.89
45 4 0.11
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (44 bp):
TGGACAAAGGTAAAAGAAAATATAAATGGATCCCCCACTCCTAA
Found at i:53392589 original size:42 final size:44
Alignment explanation
Indices: 53392524--53392608 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
53392514 GCAGGCCACC
53392524 TAAAATATACTATCTAAAGAAGTAA-TTTATT-ATTTAATTTAAT
1 TAAAATATACTATCTAAAGAAGTAATTTTATTAATTT-ATTTAAT
* *
53392567 TAAAATATAGT-TCTAAATAAGTAATTTTATTAATTTATTTAA
1 TAAAATATACTATCTAAAGAAGTAATTTTATTAATTTATTTAA
53392609 ACATAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
42 12 0.32
43 22 0.58
44 4 0.11
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (44 bp):
TAAAATATACTATCTAAAGAAGTAATTTTATTAATTTATTTAAT
Found at i:53393230 original size:8 final size:8
Alignment explanation
Indices: 53393219--53393253 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
53393209 TATATTTAAA
53393219 TATATTTT
1 TATATTTT
53393227 TATATTTT
1 TATATTTT
53393235 TATAAATTTT
1 TAT--ATTTT
53393245 TATATTTT
1 TATATTTT
53393253 T
1 T
53393254 TTTCAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TATATTTT
Found at i:53393252 original size:18 final size:18
Alignment explanation
Indices: 53393203--53393253 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
53393193 AGTTTTAGTG
** *
53393203 ATTTTATATATTTAAATAT
1 ATTTT-TATATTTTTATAA
53393222 ATTTTTATATTTTTATAA
1 ATTTTTATATTTTTATAA
53393240 ATTTTTATATTTTT
1 ATTTTTATATTTTT
53393254 TTTCAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTATATTTTTATAA
Found at i:53393255 original size:10 final size:10
Alignment explanation
Indices: 53393204--53393254 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
53393194 GTTTTAGTGA
53393204 TTTTATATAT
1 TTTTATATAT
**
53393214 TTAAATATA-
1 TTTTATATAT
53393223 TTTT-TATAT
1 TTTTATATAT
*
53393232 TTTTATAAAT
1 TTTTATATAT
53393242 TTTTATAT-T
1 TTTTATATAT
53393251 TTTT
1 TTTT
53393255 TTCAAAATAC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
8 4 0.12
9 11 0.33
10 18 0.55
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATATAT
Found at i:53393325 original size:25 final size:26
Alignment explanation
Indices: 53393271--53393327 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
53393261 ATACTATAAG
* *
53393271 ATTTTTATATATTTGTAATTGTATGC
1 ATTTTTATATATTTATAATTGTATAC
*
53393297 ATTTTTATA-ATTTTATAATT-TATAT
1 ATTTTTATATA-TTTATAATTGTATAC
53393322 ATTTTT
1 ATTTTT
53393328 TAAAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (26 bp):
ATTTTTATATATTTATAATTGTATAC
Found at i:53394248 original size:31 final size:31
Alignment explanation
Indices: 53394189--53394278 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 31
53394179 TATGTGATAG
* * *
53394189 TACAGGGTTTGAATATG-AAATATTAATGA-
1 TACATGGTATGAATATGAAAATATGAATGAT
53394218 TA-ATAGGATATGAATATGAAAATATGAATGAT
1 TACAT-GG-TATGAATATGAAAATATGAATGAT
53394250 TACATGGTATGAATATGAAAATATGAATG
1 TACATGGTATGAATATGAAAATATGAATG
53394279 GTTGATACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
28 1 0.02
29 4 0.08
30 9 0.17
31 33 0.62
32 4 0.08
33 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (31 bp):
TACATGGTATGAATATGAAAATATGAATGAT
Found at i:53398056 original size:23 final size:23
Alignment explanation
Indices: 53398026--53398075 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
53398016 TACATACGTA
*
53398026 ATCAGGAAGCTCACAAAGAGCCT
1 ATCAGGAAGCTCACAAAAAGCCT
*
53398049 ATCAGGAAGCTCACAAAAAGCTT
1 ATCAGGAAGCTCACAAAAAGCCT
53398072 ATCA
1 ATCA
53398076 TCCATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (23 bp):
ATCAGGAAGCTCACAAAAAGCCT
Found at i:53398226 original size:26 final size:26
Alignment explanation
Indices: 53398194--53398258 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
53398184 ATGAGAGCAA
* *
53398194 TAATCAGGAAGTTCAC-AATGAACTTT
1 TAATCAGGAAGCTCACGAA-GAACCTT
*
53398220 TAATCAGGAAGCTCACGAAGAGCCTT
1 TAATCAGGAAGCTCACGAAGAACCTT
53398246 TAATCAGG-AGCTC
1 TAATCAGGAAGCTC
53398259 CGGATAGCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.14
26 28 0.80
27 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (26 bp):
TAATCAGGAAGCTCACGAAGAACCTT
Found at i:53400723 original size:64 final size:65
Alignment explanation
Indices: 53400598--53400771 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 65
53400588 GCAAACAAAC
* *
53400598 ATTCGAACCACATATG--TAT-AATTTACA-ACATTAAATTTCAGCTCAAAGAATTTGTAACCTA
1 ATTCGAACCACATATGTATATAAAATT-CATACATTAAATTCCAGCTCAAAGAATTTGTAACCTA
53400659 T
65 T
* *
53400660 ATTCGAACCTCATATGTATGTAAAATTCATACATTAAATTCCA-CTCAAA-AATTTTGTAACCTA
1 ATTCGAACCACATATGTATATAAAATTCATACATTAAATTCCAGCTCAAAGAA-TTTGTAACCTA
53400723 T
65 T
* * * *
53400724 ATTTGAACCACATATGTATATATAATTCATACATTGAA-TACAGCTCAA
1 ATTCGAACCACATATGTATATAAAATTCATACATTAAATTCCAGCTCAA
53400772 GAACTTTAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
62 15 0.16
63 5 0.05
64 60 0.62
65 16 0.17
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.34
Consensus pattern (65 bp):
ATTCGAACCACATATGTATATAAAATTCATACATTAAATTCCAGCTCAAAGAATTTGTAACCTAT
Found at i:53400891 original size:21 final size:22
Alignment explanation
Indices: 53400850--53400892 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
53400840 TCAAAGAACT
53400850 TATATCATACATTCAAACTTTA
1 TATATCATACATTCAAACTTTA
53400872 TATAT-ATA-ATTCACAACTTTA
1 TATATCATACATTCA-AACTTTA
53400893 AATTCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATCATACATTCAAACTTTA
Found at i:53408586 original size:64 final size:65
Alignment explanation
Indices: 53408407--53408587 Score: 223
Period size: 64 Copynumber: 2.9 Consensus size: 65
53408397 GCAAACAAAC
*
53408407 ATTTGAACCACATATGTATA-AT--TTACA-ACATTAAATTTCAGCTCAAAGAA-TTTGTAACCT
1 ATTTGAACCACATATGTATATATAATT-CATACATTAAATTACAGCTC-AAGAACTTTGTAACCT
53408467 AT
64 AT
* * * * * *
53408469 ATTCGAACCTCATATGTATGTAAAATTCATACATTAAATTCCA-CTCAAAAACTTTGTAACCTAT
1 ATTTGAACCACATATGTATATATAATTCATACATTAAATTACAGCTCAAGAACTTTGTAACCTAT
*
53408533 ATTTGAAACACATATGTATATATAATTCATACATTAAA-TACAGCTCAAGAACTTT
1 ATTTGAACCACATATGTATATATAATTCATACATTAAATTACAGCTCAAGAACTTT
53408588 AAATATATAT
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
62 17 0.17
63 8 0.08
64 61 0.61
65 14 0.14
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (65 bp):
ATTTGAACCACATATGTATATATAATTCATACATTAAATTACAGCTCAAGAACTTTGTAACCTAT
Found at i:53408702 original size:21 final size:22
Alignment explanation
Indices: 53408661--53408703 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
53408651 TCAAAGAACT
53408661 TATATCATACATTCAAACTTTA
1 TATATCATACATTCAAACTTTA
53408683 TATAT-ATA-ATTCACAACTTTA
1 TATATCATACATTCA-AACTTTA
53408704 AATTCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATCATACATTCAAACTTTA
Found at i:53409312 original size:28 final size:28
Alignment explanation
Indices: 53409281--53409334 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
53409271 CATGCATTTC
* *
53409281 ATTTA-TTTCATATTTTAGTCCCTAAAAA
1 ATTTATTTTCACAATTTAG-CCCTAAAAA
53409309 ATTTATTTTCACAATTTAGCCCTAAA
1 ATTTATTTTCACAATTTAGCCCTAAA
53409335 TACTCAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (28 bp):
ATTTATTTTCACAATTTAGCCCTAAAAA
Found at i:53414139 original size:43 final size:43
Alignment explanation
Indices: 53414092--53414176 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
53414082 GCAGGCCACC
53414092 TAAAATATACTATCTAAAGAAGTAA-TTTATT-ATTTAATTTAAT
1 TAAAATATACT-TCTAAAGAAGTAATTTTATTAATTT-ATTTAAT
* * *
53414135 TAAAATATAGTTCTATATAAGTAATTTTATTAATTTATTTAA
1 TAAAATATACTTCTAAAGAAGTAATTTTATTAATTTATTTAA
53414177 ACATAAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 11 0.30
43 22 0.59
44 4 0.11
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (43 bp):
TAAAATATACTTCTAAAGAAGTAATTTTATTAATTTATTTAAT
Found at i:53414825 original size:10 final size:10
Alignment explanation
Indices: 53414773--53414824 Score: 63
Period size: 10 Copynumber: 5.4 Consensus size: 10
53414763 GTTTTAGTGA
53414773 TTTTATATAT
1 TTTTATATAT
**
53414783 TTAAATATAT
1 TTTTATATAT
53414793 TTTTATAT-T
1 TTTTATATAT
*
53414802 TTTTATAAAT
1 TTTTATATAT
53414812 TTTTATAT-T
1 TTTTATATAT
53414821 TTTT
1 TTTT
53414825 TTCAAAATAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
9 13 0.37
10 22 0.63
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATATAT
Found at i:53414895 original size:25 final size:26
Alignment explanation
Indices: 53414841--53414898 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
53414831 ATACTATAAG
* *
53414841 ATTTTTATATATTTGTAATTGTATGC
1 ATTTTTATATATTTATAATTGTATAC
*
53414867 ATTTTTATA-ATTTTATAATT-TATAT
1 ATTTTTATATA-TTTATAATTGTATAC
53414892 ATTTTTA
1 ATTTTTA
53414899 AAATATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (26 bp):
ATTTTTATATATTTATAATTGTATAC
Found at i:53415822 original size:31 final size:31
Alignment explanation
Indices: 53415763--53415852 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 31
53415753 TATGTGATAG
* * *
53415763 TACAGGGTTTGAATATG-AAATATTAATGA-
1 TACATGGTATGAATATGAAAATATGAATGAT
53415792 TA-ATAGGATATGAATATGAAAATATGAATGAT
1 TACAT-GG-TATGAATATGAAAATATGAATGAT
53415824 TACATGGTATGAATATGAAAATATGAATG
1 TACATGGTATGAATATGAAAATATGAATG
53415853 GTTGATACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
28 1 0.02
29 4 0.08
30 9 0.17
31 33 0.62
32 4 0.08
33 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (31 bp):
TACATGGTATGAATATGAAAATATGAATGAT
Found at i:53418087 original size:29 final size:31
Alignment explanation
Indices: 53418045--53418121 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
53418035 TTTACCTCAG
*
53418045 GTTACATTTTAGTCACTTATGTT-T-GAAAT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
* *
53418074 GTTACATTTTAGTCACTTACGTTATCGTATT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
*
53418105 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
53418122 AAGCTATTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATCGAAAT
Found at i:53419537 original size:29 final size:31
Alignment explanation
Indices: 53419466--53419542 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
53419456 TTAACGGCTC
* *
53419466 AGTGACTAAAATGTTACAATACGATAACGTA
1 AGTGACTAAAATGTAACAATACGATAACATA
* *
53419497 AGTGACTAAAATGTAACATTTC-A-AACATA
1 AGTGACTAAAATGTAACAATACGATAACATA
53419526 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
53419543 CTGAGATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (31 bp):
AGTGACTAAAATGTAACAATACGATAACATA
Found at i:53423188 original size:12 final size:13
Alignment explanation
Indices: 53423171--53423199 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
53423161 CCCATTAGTG
53423171 TTTTTGTTTTTT-
1 TTTTTGTTTTTTA
53423183 TTTTTGTTTTTTA
1 TTTTTGTTTTTTA
53423196 TTTT
1 TTTT
53423200 AATAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (13 bp):
TTTTTGTTTTTTA
Found at i:53423216 original size:14 final size:14
Alignment explanation
Indices: 53423199--53423239 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
53423189 TTTTTTATTT
53423199 TAATAATAATAAAA
1 TAATAATAATAAAA
53423213 TAATAATAAT-AAA
1 TAATAATAATAAAA
* *
53423226 TAAGAAAAATAAAA
1 TAATAATAATAAAA
53423240 AACTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
TAATAATAATAAAA
Found at i:53423297 original size:29 final size:29
Alignment explanation
Indices: 53423244--53423374 Score: 142
Period size: 28 Copynumber: 4.5 Consensus size: 29
53423234 ATAAAAAACT
*
53423244 TAAAATTTACATTTTGACCCC-AACTTTCC
1 TAAAA-TTATATTTTGACCCCTAACTTTCC
* *
53423273 TAAAATTATATTTTAACCCCTAACTTTTC
1 TAAAATTATATTTTGACCCCTAACTTTCC
*
53423302 TAAAATTATA-TTTGACCCCTAATTTTCC
1 TAAAATTATATTTTGACCCCTAACTTTCC
* * *
53423330 TAAAATTACATTTTGA-CCCTAATTTTTTTTC
1 TAAAATTATATTTTGACCCCTAA---CTTTCC
53423361 TAAAATTATATTTT
1 TAAAATTATATTTT
53423375 TTCCCTAGAA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
28 43 0.49
29 27 0.31
31 18 0.20
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (29 bp):
TAAAATTATATTTTGACCCCTAACTTTCC
Found at i:53423333 original size:57 final size:56
Alignment explanation
Indices: 53423256--53423373 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 56
53423246 AAATTTACAT
*
53423256 TTTGACCCCAACTTTCCTAAAATTATATTTTAACCCCTAA-CTTTTCTAAAATTATA
1 TTTGACCCCAACTTTCCTAAAATTACATTTTAA-CCCTAATCTTTTCTAAAATTATA
* * *
53423312 TTTGACCCCTAATTTTCCTAAAATTACATTTTGACCCTAATTTTTTTTCTAAAATTATA
1 TTTGACCCC-AACTTTCCTAAAATTACATTTTAACCCTAA--TCTTTTCTAAAATTATA
53423371 TTT
1 TTT
53423374 TTTCCCTAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
56 15 0.28
57 21 0.39
59 18 0.33
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (56 bp):
TTTGACCCCAACTTTCCTAAAATTACATTTTAACCCTAATCTTTTCTAAAATTATA
Found at i:53423761 original size:7 final size:7
Alignment explanation
Indices: 53423739--53423810 Score: 54
Period size: 7 Copynumber: 11.6 Consensus size: 7
53423729 AGGCTTTCAA
53423739 AAGAAA-
1 AAGAAAG
53423745 AAGAAA-
1 AAGAAAG
53423751 AAGAAAG
1 AAGAAAG
*
53423758 AAGAGAG
1 AAGAAAG
53423765 AAG--AG
1 AAGAAAG
53423770 AA-AAA-
1 AAGAAAG
53423775 AAGAAAG
1 AAGAAAG
*
53423782 AAGAGAG
1 AAGAAAG
53423789 AAG--AG
1 AAGAAAG
*
53423794 AA-AAAA
1 AAGAAAG
53423800 AAGAAAG
1 AAGAAAG
53423807 AAGA
1 AAGA
53423811 GAAAAGAGAG
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
5 10 0.19
6 19 0.35
7 25 0.46
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:53423780 original size:24 final size:24
Alignment explanation
Indices: 53423748--53423819 Score: 126
Period size: 24 Copynumber: 3.0 Consensus size: 24
53423738 AAAGAAAAAG
53423748 AAAAAGAAAGAAGAGAGAAGAGAA
1 AAAAAGAAAGAAGAGAGAAGAGAA
53423772 AAAAAGAAAGAAGAGAGAAGAGAAA
1 AAAAAGAAAGAAGAGAGAAGAG-AA
*
53423797 AAAAAGAAAGAAGAGAAAAGAGA
1 AAAAAGAAAGAAGAGAGAAGAGA
53423820 GGGGAAATGC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
24 23 0.50
25 23 0.50
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAGAAGAGAGAAGAGAA
Found at i:53423944 original size:16 final size:16
Alignment explanation
Indices: 53423893--53423955 Score: 67
Period size: 15 Copynumber: 3.9 Consensus size: 16
53423883 AGGGTTTGAA
*
53423893 AAGAAGAAGAAAAAAG
1 AAGAAGAAAAAAAAAG
* *
53423909 AA-AACAAAAAGAAAG
1 AAGAAGAAAAAAAAAG
53423924 AAGAAGGAAAAAAAAAG
1 AAGAA-GAAAAAAAAAG
53423941 -AGAAGAAAGAAAAAA
1 AAGAAGAAA-AAAAAA
53423956 AAAGGGGGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 16 0.41
16 14 0.36
17 9 0.23
ACGTcount: A:0.78, C:0.02, G:0.21, T:0.00
Consensus pattern (16 bp):
AAGAAGAAAAAAAAAG
Found at i:53423944 original size:19 final size:20
Alignment explanation
Indices: 53423891--53423959 Score: 86
Period size: 19 Copynumber: 3.4 Consensus size: 20
53423881 TTAGGGTTTG
* *
53423891 AAAAGAAGAAGAAAAAAGAA
1 AAAAAAAGAAGAAGAAAGAA
*
53423911 AACAAAAAGAAAGAAGAAGGAA
1 AA-AAAAAG-AAGAAGAAAGAA
53423933 AAAAAAAG-AGAAGAAAGAA
1 AAAAAAAGAAGAAGAAAGAA
53423952 AAAAAAAG
1 AAAAAAAG
53423960 GGGGAAGAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
19 18 0.42
20 2 0.05
21 11 0.26
22 12 0.28
ACGTcount: A:0.78, C:0.01, G:0.20, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAGAAGAAAGAA
Found at i:53428574 original size:93 final size:92
Alignment explanation
Indices: 53428427--53428604 Score: 250
Period size: 93 Copynumber: 1.9 Consensus size: 92
53428417 AGGTTTCTTA
* * * * * *
53428427 ATTAAATTAATTATAAATTTTTCAAAATTAAATTAGGGTTTCGAGTTTATGGTTTTTAAGGAAAA
1 ATTAAATTAATTATAAATTTTTAAAAATTAAACTAGAGTTTCAAGTTTAGGGTTTTTAAAGAAAA
53428492 AATCAAATAAATTAGGGTTTAGGGTTG
66 AATCAAATAAATTAGGGTTTAGGGTTG
* *
53428519 ATTAAATTAATTATAATTTTTTTAAAAATTAGACTAGAGTTT-AATGTTTAGGGTTTTTAAAGAA
1 ATTAAATTAATTATAA-ATTTTTAAAAATTAAACTAGAGTTTCAA-GTTTAGGGTTTTTAAAGAA
*
53428583 AAACTCAAATAAATTAGGGTTT
64 AAAATCAAATAAATTAGGGTTT
53428605 GTGATTTAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
92 17 0.23
93 58 0.77
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.41
Consensus pattern (92 bp):
ATTAAATTAATTATAAATTTTTAAAAATTAAACTAGAGTTTCAAGTTTAGGGTTTTTAAAGAAAA
AATCAAATAAATTAGGGTTTAGGGTTG
Found at i:53429047 original size:125 final size:125
Alignment explanation
Indices: 53428643--53429059 Score: 561
Period size: 126 Copynumber: 3.3 Consensus size: 125
53428633 TAATTTTAAA
* * * * * * *
53428643 AAGCTTCCACGTAGACGCTCTTTTGCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGACATTT
1 AAGCTCCCACGTGGAAGCTCTTTTGCTATAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTT
* * *
53428708 CTA-ATCAAATAGTGGCAAAAACGCTTTAAACAGGATGCATTGTCATCAAAAGTACTGAAAG
66 CTAGA--AAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
*
53428769 AAGCTCCCACGTGGAAGCTTTTTTGCTATAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGAAGCTCTTTTGCTATAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTT
* * * *
53428834 CTGAGCAAATAGTGTTAAAAACGCTTTAAGCAGGATGCGTTGTCAGCAAAAGTACTGAAAA
66 CT-AGAAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
53428895 AAACTCCCACGTGGACA-CACTTTTGCTATAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTT
1 AAGCTCCCACGTGGA-AGCTCTTTTGCTATAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTT
* *
53428959 TCATAGAAAATAGTGTCAAAAATGCTTTAAGCA-GATGCTTTGTCAGCAAAAGTACTGAAAG
65 TC-TAGAAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
53429020 AAGCTCCCATGTGGATGCTCTTTTGCTACAGTAGCTCTTG
1 AAGCTCCCACGTGGAAGCTCTTTTGCTATAGTAGCTCTTG
53429060 TTTGGCCTGA
Statistics
Matches: 256, Mismatches: 30, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
125 59 0.23
126 194 0.76
127 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (125 bp):
AAGCTCCCACGTGGAAGCTCTTTTGCTATAGTAGCTCTTGAAAAAATAATTTCGAGTAGACGTTT
CTAGAAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:53432193 original size:116 final size:117
Alignment explanation
Indices: 53432047--53432258 Score: 390
Period size: 116 Copynumber: 1.8 Consensus size: 117
53432037 ATGTTGTATT
* *
53432047 ATTTATATTTTATTACATGAAATAATATAGAAATATTCAAAATATTTCCTTATTTATAAGAATTT
1 ATTTATATTTTATTACATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGAATTT
*
53432112 CTATTTTATTAAAAATATAAAAGTAAATTTCAATTACTTTATTCAAAACAAC
66 CTATTTCATTAAAAATATAAAAGTAAATTTCAATTACTTTATTCAAAACAAC
53432164 ATTT-TATTTTATTACATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGAATTT
1 ATTTATATTTTATTACATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGAATTT
53432228 CTATTTCATTAAAAATATAAAAGTAAATTTC
66 CTATTTCATTAAAAATATAAAAGTAAATTTC
53432259 TATTTTTTAC
Statistics
Matches: 92, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
116 88 0.96
117 4 0.04
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (117 bp):
ATTTATATTTTATTACATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGAATTT
CTATTTCATTAAAAATATAAAAGTAAATTTCAATTACTTTATTCAAAACAAC
Found at i:53432233 original size:61 final size:61
Alignment explanation
Indices: 53432047--53432238 Score: 206
Period size: 61 Copynumber: 3.2 Consensus size: 61
53432037 ATGTTGTATT
* * *
53432047 ATTTATATTTTATTACATGAAATAATATAGAAATATTCAAAATATTTCCTTATTTATAAGA
1 ATTTCTATTTTATTACATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGA
* * * *
53432108 ATTTCTATTTTATTA-A--AAAT-ATAAAAGTAAAT-TTC---A-ATTACTTTATTCAAAACAA
1 ATTTCTATTTTATTACATGAAATAAT-ATAG-AAATATTCAAAATATTACCTTATTTAAAA-GA
53432163 CATTT-TATTTTATTACATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGA
1 -ATTTCTATTTTATTACATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGA
*
53432224 ATTTCTATTTCATTA
1 ATTTCTATTTTATTA
53432239 AAAATATAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 28
0.72 0.08 0.19
Matches are distributed among these distances:
54 12 0.11
55 12 0.11
56 5 0.05
57 6 0.06
58 20 0.19
59 6 0.06
60 5 0.05
61 25 0.24
62 14 0.13
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (61 bp):
ATTTCTATTTTATTACATGAAATAATATAGAAATATTCAAAATATTACCTTATTTAAAAGA
Found at i:53432258 original size:30 final size:29
Alignment explanation
Indices: 53432217--53432301 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 29
53432207 TTACCTTATT
53432217 TAAAAGAATTTCTATTTCATTAAA-AATA
1 TAAAAGAATTTCTATTTCATTAAATAATA
*
53432245 TAAAAGTAAATTTCTATTTTTTACATGAAATAATA
1 TAAAAG--AATTTCTA---TTT-CATTAAATAATA
53432280 TAAAAGAATTTCTATTTCATTA
1 TAAAAGAATTTCTATTTCATTA
53432302 CATGAAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
28 6 0.12
29 4 0.08
30 11 0.23
33 11 0.23
34 6 0.12
35 10 0.21
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (29 bp):
TAAAAGAATTTCTATTTCATTAAATAATA
Found at i:53432308 original size:34 final size:34
Alignment explanation
Indices: 53432217--53432318 Score: 128
Period size: 34 Copynumber: 3.1 Consensus size: 34
53432207 TTACCTTATT
53432217 TAAAAGAATTTCTATTTCA-T---T-AAA-AATA
1 TAAAAGAATTTCTATTTCATTACATGAAATAATA
*
53432245 TAAAAGTAAATTTCTATTT-TTTACATGAAATAATA
1 TAAAAG--AATTTCTATTTCATTACATGAAATAATA
53432280 TAAAAGAATTTCTATTTCATTACATGAAATAATA
1 TAAAAGAATTTCTATTTCATTACATGAAATAATA
53432314 TAAAA
1 TAAAA
53432319 ATACTCAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
28 6 0.10
30 12 0.19
33 12 0.19
34 23 0.37
35 10 0.16
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (34 bp):
TAAAAGAATTTCTATTTCATTACATGAAATAATA
Found at i:53432464 original size:21 final size:21
Alignment explanation
Indices: 53432440--53432483 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
53432430 CTAGCTTCTA
* * *
53432440 GCAGGGGTTGTGGTTGCTCCG
1 GCAGGGATTCTGGTTCCTCCG
53432461 GCAGGGATTCTGGTTCCTCCG
1 GCAGGGATTCTGGTTCCTCCG
53432482 GC
1 GC
53432484 CGGTGTTCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.25, G:0.41, T:0.27
Consensus pattern (21 bp):
GCAGGGATTCTGGTTCCTCCG
Found at i:53434554 original size:18 final size:18
Alignment explanation
Indices: 53434508--53434561 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
53434498 GGAAATTTTG
*
53434508 ATGATTTAAAAAAAATTA
1 ATGATTTTAAAAAAATTA
* **
53434526 AGAGAAATTAAAAAAATTA
1 A-TGATTTTAAAAAAATTA
53434545 ATGATTTTAAAAAAATT
1 ATGATTTTAAAAAAATT
53434562 CAAAAAAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (18 bp):
ATGATTTTAAAAAAATTA
Found at i:53434557 original size:19 final size:18
Alignment explanation
Indices: 53434508--53434561 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
53434498 GGAAATTTTG
53434508 ATGATTTAAAAAAAATTA
1 ATGATTTAAAAAAAATTA
* *
53434526 AGAGAAATT-AAAAAAATTA
1 A-TG-ATTTAAAAAAAATTA
*
53434545 ATGATTTTAAAAAAATT
1 ATGATTTAAAAAAAATT
53434562 CAAAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 3 0.10
18 11 0.38
19 12 0.41
20 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (18 bp):
ATGATTTAAAAAAAATTA
Found at i:53439697 original size:8 final size:9
Alignment explanation
Indices: 53439667--53439695 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
53439657 ATTTAGGCCC
53439667 TTTAAAATT
1 TTTAAAATT
53439676 TTTAAAATT
1 TTTAAAATT
53439685 TTTAAAATT
1 TTTAAAATT
53439694 TT
1 TT
53439696 AACCCTCCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTAAAATT
Found at i:53443521 original size:44 final size:44
Alignment explanation
Indices: 53443473--53443849 Score: 105
Period size: 44 Copynumber: 8.4 Consensus size: 44
53443463 CTACTACGTT
* **
53443473 TTCAGAGAGATATGACTCGTAGCTTCAATCTACTCTGCTGCAAC
1 TTCAGAGAGATAAGACTCGTAGCTTCAATCTACTCCACTGCAAC
* * * * * *
53443517 TTCAGGGGGATAAGATTGGTATCTTCAATCTGCTCCACTGCAAC
1 TTCAGAGAGATAAGACTCGTAGCTTCAATCTACTCCACTGCAAC
* ** * * * * * * *
53443561 TTC-GGGTAGATAAGGTTTGCCATCTTCAGTCTGCTCCACTGTAGC
1 TTCAGAG-AGATAAGACTCG-TAGCTTCAATCTACTCCACTGCAAC
* * * * * *
53443606 TTTAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGAC-CTACTGCAAC
1 TTCAGAGAGATAAGAC------TCGTAGCTTCAATCT-ACTCCACTGCAAC
* * * * * * * *
53443656 TTTAGAG-GTATAAGATTCATCA-TTTTAATCTGCTCCAATGAAAC
1 TTCAGAGAG-ATAAGACTCGT-AGCTTCAATCTACTCCACTGCAAC
* * * * * * *
53443700 TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTACAAC
1 TTCAGAGAGATAAGACTCGTAGCTTCAATCTACTCCACTGCAAC
* * * * * * *
53443744 TTCAGGGAGATAAGATTGGAATCTTCAACCTGCTCCACTGCAAC
1 TTCAGAGAGATAAGACTCGTAGCTTCAATCTACTCCACTGCAAC
* ** * * * * *
53443788 TTCAGATAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTGCAAC
1 TTCAGAGAGATAAGACTCGT-AGCTTCAATCTACTCCACTGCAAC
* *
53443833 TTTAGGGAGATAAGACT
1 TTCAGAGAGATAAGACT
53443850 TGTTATGGTA
Statistics
Matches: 248, Mismatches: 69, Indels: 31
0.71 0.20 0.09
Matches are distributed among these distances:
43 5 0.02
44 145 0.58
45 65 0.26
46 3 0.01
49 1 0.00
50 26 0.10
51 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
TTCAGAGAGATAAGACTCGTAGCTTCAATCTACTCCACTGCAAC
Found at i:53443892 original size:227 final size:227
Alignment explanation
Indices: 53443473--53443962 Score: 739
Period size: 227 Copynumber: 2.2 Consensus size: 227
53443463 CTACTACGTT
* * * * * * * *
53443473 TTCAGAGAGATATGACTCGTAGCTTCAATCTACTCTGCTGCAACTTCAGGGGGATAAGATTGGTA
1 TTCAGGGAGATAGGATTAGTAGCTTCAATCTACTCCGCTACAACTTCAGGGAGATAAGATTGGAA
* * * *
53443538 TCTTCAATCTGCTCCACTGCAACTTCGGGTAGATAAGGTTTGCCATCTTCAGTCTGCTCCACTGT
66 TCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGCCATCTTCAGTCTGCTCCACTGC
* * * *
53443603 AGCTTTAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCAACTTTAGAGGTATA
131 AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAACTTCAGAGGTATA
* *
53443668 AGATTCATCATTTTAATCTGCTCCAATGA-AAC
196 AGATTCATCATTCTAATCCGCTCCAAT-ACAAC
*
53443700 TTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTACAACTTCAGGGAGATAAGATTGGAA
1 TTCAGGGAGATAGGATTAGTAGCTTCAATCTACTCCGCTACAACTTCAGGGAGATAAGATTGGAA
* *
53443765 TCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTGC
66 TCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGCCATCTTCAGTCTGCTCCACTGC
53443830 AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAACTTCAGAGGTATA
131 AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAACTTCAGAGGTATA
* *
53443895 GGATTCATCATTCTAATCCGCTCCACTACAAC
196 AGATTCATCATTCTAATCCGCTCCAATACAAC
* *
53443927 TTAAGGGAGATAGGATTAGTAGCTTCAATCTTCTCC
1 TTCAGGGAGATAGGATTAGTAGCTTCAATCTACTCC
53443963 TTCAGGGACA
Statistics
Matches: 237, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
226 1 0.00
227 236 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (227 bp):
TTCAGGGAGATAGGATTAGTAGCTTCAATCTACTCCGCTACAACTTCAGGGAGATAAGATTGGAA
TCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGCCATCTTCAGTCTGCTCCACTGC
AACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAACTTCAGAGGTATA
AGATTCATCATTCTAATCCGCTCCAATACAAC
Found at i:53443977 original size:36 final size:36
Alignment explanation
Indices: 53443930--53443998 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
53443920 CTACAACTTA
* * *
53443930 AGGGAGATAGGATTAGTAGCTTCAATCTTCTCCTTC
1 AGGGACATAGGATTAGCAGCTTCAATCTGCTCCTTC
53443966 AGGGACATAGGATTAGCAGCTTCAATCTGCTCC
1 AGGGACATAGGATTAGCAGCTTCAATCTGCTCC
53443999 GCTGCAACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (36 bp):
AGGGACATAGGATTAGCAGCTTCAATCTGCTCCTTC
Found at i:53444166 original size:263 final size:263
Alignment explanation
Indices: 53443699--53444220 Score: 850
Period size: 263 Copynumber: 2.0 Consensus size: 263
53443689 TCCAATGAAA
* *
53443699 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTACAACTTCAGGGAGATAAGATTGGA
1 CTTCAGGGACATAGGATTAGCAGCTTCAATCTGCTCCGCTACAACTTCAGGGAGATAAGATTGGA
*
53443764 ATCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTG
66 ATCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCACCTTTAGTCTGCTCCACTG
*
53443829 CAACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAACTTCAGAGGTAT
131 CAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAACTTCAGAGGTAT
* * *
53443894 AGGATTCATCATTCTAATCCGCTCCACTACAACTTAAGGGAGATAGGATTAGTAGCTTCAATCTT
196 AGGATTCATCATTCTAATCCACTCCACTACAACTTAAGCGAGATAGGATTAGGAGCTTCAATCTT
53443959 CTC
261 CTC
* *
53443962 CTTCAGGGACATAGGATTAGCAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATATA-ATTGG
1 CTTCAGGGACATAGGATTAGCAGCTTCAATCTGCTCCGCTACAACTTCAGGGAGATA-AGATTGG
* * *
53444026 TATCTTCAACCTGCTCCAGTGCAACTTCAGGA-AGATAAGGTTTGTCACCTTTGGTCTGCTCCAC
65 AATCTTCAACCTGCTCCACTGCAACTTCA-GATAGATAAGGTTTGTCACCTTTAGTCTGCTCCAC
* *
53444090 TGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGT
129 TGCAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAACTTCAGAGGT
* * * *
53444155 ATAGGATTCATCATTTTAATCTACTCCACTGCAACTTCAGCGAGATAGGATTAGGAGCTTCAATC
194 ATAGGATTCATCATTCTAATCCACTCCACTACAACTTAAGCGAGATAGGATTAGGAGCTTCAATC
53444220 T
259 T
53444221 GTTCCACTGC
Statistics
Matches: 239, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
263 236 0.99
264 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (263 bp):
CTTCAGGGACATAGGATTAGCAGCTTCAATCTGCTCCGCTACAACTTCAGGGAGATAAGATTGGA
ATCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCACCTTTAGTCTGCTCCACTG
CAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAACTTCAGAGGTAT
AGGATTCATCATTCTAATCCACTCCACTACAACTTAAGCGAGATAGGATTAGGAGCTTCAATCTT
CTC
Found at i:53444234 original size:227 final size:227
Alignment explanation
Indices: 53443962--53444972 Score: 1497
Period size: 227 Copynumber: 4.5 Consensus size: 227
53443952 CAATCTTCTC
* * *
53443962 CTTCAGGGACATAGGATTAGCAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATATA-ATTGG
1 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATA-AGATTGG
* * * * *
53444026 TATCTTCAACCTGCTCCAGTGCAACTTCAGGAAGATAAGGTTTGTCACCTTTGGTCTGCTCCACT
65 TATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACT
53444091 GCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTA
130 GCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTA
* *
53444156 TAGGATTCATCATTTTAATCTACTCCACTGCAA
195 TAGGATTCATCATTTTAATCCACTCCACTACAA
* * * * * * *
53444189 CTTCAGCGAGATAGGATTAGGAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGCTAAGATCGAT
1 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGT
* *
53444254 ATCTTCAACCTACTCCACTGCAACTTCAAGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTA
66 ATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTG
* *
53444319 CAACTTCAGGGATATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGCAACTTCAGAGGTAT
131 CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTAT
* *
53444384 AGGATTCATCATTTTAATCCGCTCCATTACAA
196 AGGATTCATCATTTTAATCCACTCCACTACAA
53444416 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGAT-AGATTGGT
1 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGT
* * * *
53444480 ATCTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCCATCTTTAGTCTGCTCCACTG
66 ATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTG
* *
53444545 CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTACAACTTCAGAGGTAT
131 CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTAT
* * *
53444610 AGGATTTATTATTTTAATCCGCTCCACTACAA
196 AGGATTCATCATTTTAATCCACTCCACTACAA
* * * *
53444642 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCTGCTGTAACTTGAGAGAGATAAGATTGGT
1 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGT
* *
53444707 ATCTTCAACCTACTCCACTGTAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTACTCCACTG
66 ATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTG
* * * *
53444772 CAACTTCAGGCAGATAATACTTGTTATGGTACATTTAATTCGACCTACTGCAACTTCAGAGGTAT
131 CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTAT
* *
53444837 AGGATTCATCATTTTAATCCACTCCACTGCAG
196 AGGATTCATCATTTTAATCCACTCCACTACAA
* * * *
53444869 CTTCAGGGTGATAGGATTAGTAGCTTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGGTCTGC
1 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGAT-TGG
* * * * * *
53444934 AAT-TTCAACATGCCCCACTGTAACTTCAGGGGGATAAGG
65 TATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGG
53444973 CTGGTGTCTT
Statistics
Matches: 707, Mismatches: 74, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
226 210 0.30
227 493 0.70
228 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (227 bp):
CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGT
ATCTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTCATCTTTAGTCTGCTCCACTG
CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTAT
AGGATTCATCATTTTAATCCACTCCACTACAA
Found at i:53444417 original size:490 final size:490
Alignment explanation
Indices: 53443493--53444452 Score: 1521
Period size: 490 Copynumber: 2.0 Consensus size: 490
53443483 TATGACTCGT
* * *
53443493 AGCTTCAATCTACTCTGCTGCAACTTCAGGGGGATAAGATTGGTATCTTCAATCTGCTCCACTGC
1 AGCTTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGC
* * * * * *
53443558 AACTTCGGGTAGATAAGGTTTGCCATCTTCAGTCTGCTCCACTGTAGCTTTAGGGAGATAAGACT
66 AACTTCAGGAAGATAAGGTTTGCCACCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
* * *
53443623 TGTTATGGTAGATTTAATCTGACCTACTGCAACTTTAGAGGTATAAGATTCATCATTTTAATCTG
131 TGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATCTA
* * *
53443688 CTCCAATGAAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTACAACTTCAGGGAG
196 CTCCAATGAAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTGCTCCACTACAACTTCAGGGAG
* * *
53443753 ATAAGATTGGAATCTTCAACCTGCTCCACTGCAACTTCAGATAGATAAGGTTTGTCATCTTTAGT
261 ATAAGATTCGAATCTTCAACCTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTCATCTTTAGT
* *
53443818 CTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAAC
326 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAAC
53443883 TTCAGAGGTATAGGATTCATCATTCTAATCCGCTCCACTACAACTTAAGGGAGATAGGATTAGTA
391 TTCAGAGGTATAGGATTCATCATTCTAATCCGCTCCACTACAACTTAAGGGAGATAGGATTAGTA
*
53443948 GCTTCAATCTTCTCCTTCAGGGACATAGGATTAGC
456 GCTTCAATCTGCTCCTTCAGGGACATAGGATTAGC
* * *
53443983 AGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATATA-ATTGGTATCTTCAACCTGCTCCAGTG
1 AGCTTCAATCTACTCCGCTGCAACTTCAGGGAGATA-AGATTGGTATCTTCAACCTGCTCCACTG
* **
53444047 CAACTTCAGGAAGATAAGGTTTGTCACCTTTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
65 CAACTTCAGGAAGATAAGGTTTGCCACCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
*
53444112 TTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGGATTCATCATTTTAATCT
130 TTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATCT
* * * *
53444177 ACTCCACTGCAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTGTTCCACTGCAACTTCAGGGA
195 ACTCCAATGAAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTGCTCCACTACAACTTCAGGGA
*
53444242 GCTAAGA-TCGATATCTTCAACCTACTCCACTGCAACTTCA-AGGAGATAAGGTTTGTCATCTTT
260 GATAAGATTCGA-ATCTTCAACCTACTCCACTGCAACTTCAGA-GAGATAAGGTTTGTCATCTTT
* * *
53444305 AGTCTGCTCCACTACAACTTCAGGGATATAAGACTTGTTATGGTAGATTTAATCTGACCTACTGC
323 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGC
* * *
53444370 AACTTCAGAGGTATAGGATTCATCATTTTAATCCGCTCCATTACAACTTCAGGGAGATAGGATTA
388 AACTTCAGAGGTATAGGATTCATCATTCTAATCCGCTCCACTACAACTTAAGGGAGATAGGATTA
53444435 GTAGCTTCAATCTGCTCC
453 GTAGCTTCAATCTGCTCC
53444453 GCTGCAACTT
Statistics
Matches: 428, Mismatches: 39, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
489 4 0.01
490 423 0.99
491 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (490 bp):
AGCTTCAATCTACTCCGCTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGC
AACTTCAGGAAGATAAGGTTTGCCACCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
TGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAAGATTCATCATTTTAATCTA
CTCCAATGAAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTGCTCCACTACAACTTCAGGGAG
ATAAGATTCGAATCTTCAACCTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTCATCTTTAGT
CTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTACATTTAATCAGACCTACTGCAAC
TTCAGAGGTATAGGATTCATCATTCTAATCCGCTCCACTACAACTTAAGGGAGATAGGATTAGTA
GCTTCAATCTGCTCCTTCAGGGACATAGGATTAGC
Found at i:53444452 original size:44 final size:44
Alignment explanation
Indices: 53443962--53444925 Score: 419
Period size: 44 Copynumber: 21.3 Consensus size: 44
53443952 CAATCTTCTC
* * * *
53443962 CTTCAGGGACATAGGATTAGCAGCTTCAATCTGCTCCGCTGCAA
1 CTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCACTGCAA
* ** * * * * *
53444006 CTTTAGGGAGATATAATTGGTATCTTCAACCTGCTCCAGTGCAA
1 CTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCACTGCAA
* * * **
53444050 CTTCAGGAAGATAAGG-TTTGTCACCTTTGGTCTGCTCCACTGCAA
1 CTTCAGGGAGAT-AGGATTAGT-AGCTTTAATCTGCTCCACTGCAA
* * * *
53444095 CTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGAC-CTACTGCAA
1 CTTCAGGGAGATAGGA----TTA--GTAGCTTTAATCTG-CTCCACTGCAA
* * *
53444145 CTTCAGAGG-TATAGGATTCA-TCA-TTTTAATCTACTCCACTGCAA
1 CTTCAG-GGAGATAGGATT-AGT-AGCTTTAATCTGCTCCACTGCAA
* * * *
53444189 CTTCAGCGAGATAGGATTAGGAGCTTCAATCTGTTCCACTGCAA
1 CTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCACTGCAA
* * * * * * *
53444233 CTTCAGGGAGCTAAGA-TCGATATCTTCAACCTACTCCACTGCAA
1 CTTCAGGGAGATAGGATTAG-TAGCTTTAATCTGCTCCACTGCAA
* * * * *
53444277 CTTCAAGGAGATAAGG-TTTGTCATCTTTAGTCTGCTCCACTACAA
1 CTTCAGGGAGAT-AGGATTAGT-AGCTTTAATCTGCTCCACTGCAA
* * * *
53444322 CTTCAGGGATATAAGACTTGTTATGGTAGATTTAATCTGAC-CTACTGCAA
1 CTTCAGGGAGATAGGA----TTA--GTAGCTTTAATCTG-CTCCACTGCAA
* * * * *
53444372 CTTCAGAGG-TATAGGATTCA-TCA-TTTTAATCCGCTCCATTACAA
1 CTTCAG-GGAGATAGGATT-AGT-AGCTTTAATCTGCTCCACTGCAA
* *
53444416 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAA
1 CTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCACTGCAA
* * *
53444460 CTTCAGGGAGATA-GATTGGTATCTTCAA-CTTGCTCCACTGCAA
1 CTTCAGGGAGATAGGATTAGTAGCTTTAATC-TGCTCCACTGCAA
* * * * *
53444503 CTTTAGGGAGATAAGG-TTTGCCATCTTTAGTCTGCTCCACTGCAA
1 CTTCAGGGAGAT-AGGATTAG-TAGCTTTAATCTGCTCCACTGCAA
* * * *
53444548 CTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGAC-CTACTACAA
1 CTTCAGGGAGATAGGA----TTA--GTAGCTTTAATCTG-CTCCACTGCAA
* * * * *
53444598 CTTCAGAGG-TATAGGATTTATTA-TTTTAATCCGCTCCACTACAA
1 CTTCAG-GGAGATAGGA-TTAGTAGCTTTAATCTGCTCCACTGCAA
* ** *
53444642 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCTGCTGTAA
1 CTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCACTGCAA
* * * * * * * * *
53444686 CTTGAGAGAGATAAGATTGGTATCTTCAACCTACTCCACTGTAA
1 CTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCACTGCAA
* * * *
53444730 CTTCAGGGAGATAAGG-TTTGTCATCTTTAGTCTACTCCACTGCAA
1 CTTCAGGGAGAT-AGGATTAGT-AGCTTTAATCTGCTCCACTGCAA
* ** *
53444775 CTTCAGGCAGATAATACTT-GTTATGGTACATTTAAT-TCGAC-CTACTGCAA
1 CTTCAGGGAGATAGGA-TTAG-TA--G--C-TTTAATCT-G-CTCCACTGCAA
* * ** *
53444825 CTTCAGAGG-TATAGGATTCA-TCA-TTTTAATCCACTCCACTGCAG
1 CTTCAG-GGAGATAGGATT-AGT-AGCTTTAATCTGCTCCACTGCAA
* * * *
53444869 CTTCAGGGTGATAGGATTAGTAGCTTCAATCTACTCCGCTGCAA
1 CTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCACTGCAA
53444913 CTTCAGGGAGATA
1 CTTCAGGGAGATA
53444926 AGGTCTGCAA
Statistics
Matches: 690, Mismatches: 156, Indels: 148
0.69 0.16 0.15
Matches are distributed among these distances:
42 1 0.00
43 60 0.09
44 354 0.51
45 130 0.19
46 8 0.01
47 5 0.01
49 11 0.02
50 105 0.15
51 16 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTCAGGGAGATAGGATTAGTAGCTTTAATCTGCTCCACTGCAA
Found at i:53444545 original size:453 final size:454
Alignment explanation
Indices: 53443962--53444925 Score: 1518
Period size: 453 Copynumber: 2.1 Consensus size: 454
53443952 CAATCTTCTC
* * *
53443962 CTTCAGGGACATAGGATTAGCAGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATATAATTGGT
1 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATATAATTGGT
* * *
53444027 ATCTTCAACCTGCTCCAGTGCAACTTCAGGAAGATAAGGTTTGTCACCTTTGGTCTGCTCCACTG
66 ATCTTCAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGCCACCTTTAGTCTGCTCCACTG
*
53444092 CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTAT
131 CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTACAACTTCAGAGGTAT
* *
53444157 AGGATTCATCATTTTAATCTACTCCACTGCAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTG
196 AGGATTCATCATTTTAATCCACTCCACTACAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTG
* * *
53444222 TTCCACTGCAACTTCAGGGAGCTAAGATCGATATCTTCAACCTACTCCACTGCAACTTCAAGGAG
261 CTCCACTGCAACTTCAGAGAGATAAGATCGATATCTTCAACCTACTCCACTGCAACTTCAAGGAG
* * * *
53444287 ATAAGGTTTGTCATCTTTAGTCTGCTCCACTACAACTTCAGGGATATAAGACTTGTTATGGTAGA
326 ATAAGGTTTGTCATCTTTAGTCTACTCCACTACAACTTCAGGCAGATAAGACTTGTTATGGTACA
* *
53444352 TTTAA-TCTGACCTACTGCAACTTCAGAGGTATAGGATTCATCATTTTAATCCGCTCCATTACAA
391 TTTAATTC-GACCTACTGCAACTTCAGAGGTATAGGATTCATCATTTTAATCCACTCCACTACAA
*
53444416 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATA-GATTGGT
1 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATATAATTGGT
* * * *
53444480 ATCTTCAACTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCCATCTTTAGTCTGCTCCACTG
66 ATCTTCAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGCCACCTTTAGTCTGCTCCACTG
*
53444545 CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTACTACAACTTCAGAGGTAT
131 CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTACAACTTCAGAGGTAT
* * * * *
53444610 AGGATTTATTATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTG
196 AGGATTCATCATTTTAATCCACTCCACTACAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTG
** * * * * * *
53444675 CTCTGCTGTAACTTGAGAGAGATAAGATTGGTATCTTCAACCTACTCCACTGTAACTTCAGGGAG
261 CTCCACTGCAACTTCAGAGAGATAAGATCGATATCTTCAACCTACTCCACTGCAACTTCAAGGAG
* *
53444740 ATAAGGTTTGTCATCTTTAGTCTACTCCACTGCAACTTCAGGCAGATAATACTTGTTATGGTACA
326 ATAAGGTTTGTCATCTTTAGTCTACTCCACTACAACTTCAGGCAGATAAGACTTGTTATGGTACA
* *
53444805 TTTAATTCGACCTACTGCAACTTCAGAGGTATAGGATTCATCATTTTAATCCACTCCACTGCAG
391 TTTAATTCGACCTACTGCAACTTCAGAGGTATAGGATTCATCATTTTAATCCACTCCACTACAA
* *
53444869 CTTCAGGGTGATAGGATTAGTAGCTTCAATCTACTCCGCTGCAACTTCAGGGAGATA
1 CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATA
53444926 AGGTCTGCAA
Statistics
Matches: 466, Mismatches: 43, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
453 410 0.88
454 56 0.12
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (454 bp):
CTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATATAATTGGT
ATCTTCAACCTGCTCCACTGCAACTTCAGGAAGATAAGGTTTGCCACCTTTAGTCTGCTCCACTG
CAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTACAACTTCAGAGGTAT
AGGATTCATCATTTTAATCCACTCCACTACAACTTCAGCGAGATAGGATTAGGAGCTTCAATCTG
CTCCACTGCAACTTCAGAGAGATAAGATCGATATCTTCAACCTACTCCACTGCAACTTCAAGGAG
ATAAGGTTTGTCATCTTTAGTCTACTCCACTACAACTTCAGGCAGATAAGACTTGTTATGGTACA
TTTAATTCGACCTACTGCAACTTCAGAGGTATAGGATTCATCATTTTAATCCACTCCACTACAA
Found at i:53444614 original size:182 final size:182
Alignment explanation
Indices: 53444411--53444744 Score: 406
Period size: 182 Copynumber: 1.8 Consensus size: 182
53444401 TCCGCTCCAT
* * *
53444411 TACAACTTCAGGGAGATAGGA-TTAGTAGCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATA-G
1 TACAACTTCAGGGAGATAGGATTTAGTA-CTTCAATCCGCTCCACTACAACTTCAGGGAGATAGG
* * * * * * ** *
53444474 ATTGGTATCTTCAA-CTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGCCATCTTTAGTCTGC
65 ATTAGTAGCTTCAATC-TGCTCCACTGCAACTTGAGAGAGATAA-GATTGCCATCTTCAACCTAC
53444538 TCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTAC
128 TCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTAC
* * * *
53444593 TACAACTTCAGAGG-TATAGGATTTATTATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGG
1 TACAACTTCAG-GGAGATAGGATTTAGTACTTCAATCCGCTCCACTACAACTTCAGGGAGATAGG
** * **
53444657 ATTAGTAGCTTCAATCTGCTCTGCTGTAACTTGAGAGAGATAAGATTGGTATCTTCAACCTACTC
65 ATTAGTAGCTTCAATCTGCTCCACTGCAACTTGAGAGAGATAAGATTGCCATCTTCAACCTACTC
*
53444722 CACTGTAACTTCAGGGAGATAAG
130 CACTGCAACTTCAGGGAGATAAG
53444745 GTTTGTCATC
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
182 83 0.66
183 42 0.33
184 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (182 bp):
TACAACTTCAGGGAGATAGGATTTAGTACTTCAATCCGCTCCACTACAACTTCAGGGAGATAGGA
TTAGTAGCTTCAATCTGCTCCACTGCAACTTGAGAGAGATAAGATTGCCATCTTCAACCTACTCC
ACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCTGACCTAC
Found at i:53446434 original size:6 final size:6
Alignment explanation
Indices: 53446423--53446479 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
53446413 CCGAAGGTTT
* *
53446423 TTTTTG TTTTTG TTTTT- TATTTTC TTATT- TTTTTG --TTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG TTTTTG TTTTTG TTTTTG
53446468 TTTTTTG TTTTT
1 -TTTTTG TTTTT
53446480 TTTCCTCCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
4 4 0.09
5 5 0.12
6 27 0.63
7 7 0.16
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:53446439 original size:7 final size:7
Alignment explanation
Indices: 53446422--53446480 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 7
53446412 TCCGAAGGTT
53446422 TTTTTTG
1 TTTTTTG
53446429 -TTTTTG
1 TTTTTTG
*
53446435 TTTTTTA
1 TTTTTTG
53446442 TTTTCTT-
1 TTTT-TTG
*
53446449 ATTTTT-
1 TTTTTTG
*
53446455 TTGTTTG
1 TTTTTTG
53446462 -TTTTTG
1 TTTTTTG
53446468 TTTTTTG
1 TTTTTTG
53446475 TTTTTT
1 TTTTTT
53446481 TTCCTCCACT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
6 17 0.40
7 24 0.56
8 2 0.05
ACGTcount: A:0.03, C:0.02, G:0.10, T:0.85
Consensus pattern (7 bp):
TTTTTTG
Found at i:53453596 original size:15 final size:13
Alignment explanation
Indices: 53453565--53453604 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 13
53453555 CACCAATTTT
53453565 TTTAAAATAAA-A
1 TTTAAAATAAATA
53453577 TTTAAAATAAATCTA
1 TTTAAAATAAA--TA
53453592 TTTAAAATAAATA
1 TTTAAAATAAATA
53453605 GATTAGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.44
13 2 0.08
15 12 0.48
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAAAATAAATA
Found at i:53455588 original size:3 final size:3
Alignment explanation
Indices: 53455582--53455615 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
53455572 ATAACATTAT
* *
53455582 TAA TAA TAG TAA TAA TAA TAA TAC TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
53455616 GAAAGCAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:53455600 original size:15 final size:15
Alignment explanation
Indices: 53455582--53455637 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
53455572 ATAACATTAT
53455582 TAATAATAGTAATAA
1 TAATAATAGTAATAA
*
53455597 TAATAATACTAATAA
1 TAATAATAGTAATAA
*
53455612 TAATGAA-AGCAATAA
1 TAAT-AATAGTAATAA
* *
53455627 TTATAAGAGTA
1 TAATAATAGTA
53455638 CAAAAATAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
14 2 0.06
15 30 0.88
16 2 0.06
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (15 bp):
TAATAATAGTAATAA
Found at i:53460560 original size:28 final size:27
Alignment explanation
Indices: 53460529--53460583 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
53460519 AATATAAAAG
53460529 TAATATT-ATATTAATTTTTATATTTTTA
1 TAATATTAATATTAA-TTTTA-ATTTTTA
* *
53460557 TAATTTTAATTTTAATTTTAATTTTTA
1 TAATATTAATATTAATTTTAATTTTTA
53460584 AACAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 11 0.46
29 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
TAATATTAATATTAATTTTAATTTTTA
Found at i:53460568 original size:6 final size:6
Alignment explanation
Indices: 53460557--53460581 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
53460547 TATATTTTTA
53460557 TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT T
53460582 TAAACAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:53462333 original size:20 final size:20
Alignment explanation
Indices: 53462308--53462347 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
53462298 ATCAAGCCTC
*
53462308 TATTTATTTTTTGTAACTTA
1 TATTTATTCTTTGTAACTTA
53462328 TATTTATTCTTTGTAACTTA
1 TATTTATTCTTTGTAACTTA
53462348 AATAGAGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (20 bp):
TATTTATTCTTTGTAACTTA
Found at i:53477499 original size:26 final size:26
Alignment explanation
Indices: 53477449--53477506 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
53477439 CTGGAGCTCT
* *
53477449 TGATTAAAAGCTCTTCGTGAGCTTCC
1 TGATTAAAAGCTCTTCATGAACTTCC
* *
53477475 TGATTAAAAGTTCTTTATGAACTTCC
1 TGATTAAAAGCTCTTCATGAACTTCC
*
53477501 TAATTA
1 TGATTA
53477507 TTGCTCTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (26 bp):
TGATTAAAAGCTCTTCATGAACTTCC
Found at i:53477661 original size:23 final size:23
Alignment explanation
Indices: 53477631--53477674 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
53477621 TGGATGAAAA
*
53477631 GCTCTTTGTGAGCTTCTTGATAG
1 GCTCTTTGTGAGCTTCCTGATAG
53477654 GCTCTTTGTGAGCTTCCTGAT
1 GCTCTTTGTGAGCTTCCTGAT
53477675 TACATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (23 bp):
GCTCTTTGTGAGCTTCCTGATAG
Found at i:53478876 original size:26 final size:26
Alignment explanation
Indices: 53478819--53478876 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
53478809 CCGGAGCTTT
* *
53478819 TGATTAAAGGCTCTTCGTGAGCTTCC
1 TGATTAAAAGCTCTTCGTGAACTTCC
* * * *
53478845 TAATTAAAAGTTCTTTGTGAACTTCG
1 TGATTAAAAGCTCTTCGTGAACTTCC
53478871 TGATTA
1 TGATTA
53478877 TTGCTCTTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (26 bp):
TGATTAAAAGCTCTTCGTGAACTTCC
Found at i:53479289 original size:12 final size:12
Alignment explanation
Indices: 53479253--53479291 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
53479243 GTTAAATTTC
53479253 TTTTCTTTTCTT
1 TTTTCTTTTCTT
* **
53479265 TTTTCATAACTT
1 TTTTCTTTTCTT
53479277 TTTTCTTTTCTT
1 TTTTCTTTTCTT
53479289 TTT
1 TTT
53479292 GTTCCCTCTG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:53481194 original size:26 final size:26
Alignment explanation
Indices: 53481147--53481206 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
53481137 TAGCTATCCG
*
53481147 GAGC-TCCTGATTAAAGGCTCTTCAT
1 GAGCTTCCTGATTAAAAGCTCTTCAT
** *
53481172 GAGCTTCCTGATTAAAATTTCTTTAT
1 GAGCTTCCTGATTAAAAGCTCTTCAT
*
53481198 GAACTTCCT
1 GAGCTTCCT
53481207 AACTATCGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAAGCTCTTCAT
Found at i:53487894 original size:21 final size:20
Alignment explanation
Indices: 53487860--53487910 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
53487850 TAAACAGAAA
53487860 AAAACTC-CAAACAAAGTT-C
1 AAAACTCACAAAC-AAGTTAC
53487879 AAAACTCACAACACAAGTTAC
1 AAAACTCACAA-ACAAGTTAC
*
53487900 ACAACTCACAA
1 AAAACTCACAA
53487911 GCAAATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.25
20 8 0.29
21 13 0.46
ACGTcount: A:0.53, C:0.29, G:0.04, T:0.14
Consensus pattern (20 bp):
AAAACTCACAAACAAGTTAC
Found at i:53488924 original size:18 final size:19
Alignment explanation
Indices: 53488901--53488941 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
53488891 TTTAAATACA
53488901 TTTATTTTAT-TATATCAT
1 TTTATTTTATCTATATCAT
*
53488919 TTTA-TTTATCTATATCCT
1 TTTATTTTATCTATATCAT
53488937 TTTAT
1 TTTAT
53488942 ATAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTTATCTATATCAT
Found at i:53488979 original size:3 final size:3
Alignment explanation
Indices: 53488964--53489013 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
53488954 TTTAAGATTT
* * **
53488964 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
53489012 TT
1 TT
53489014 CTTAAATTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:53491522 original size:13 final size:13
Alignment explanation
Indices: 53491490--53491527 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
53491480 CAGTTAATTA
53491490 AATTAT-TTAATTT
1 AATTATATT-ATTT
53491503 AATTTATATTATTT
1 AA-TTATATTATTT
53491517 AATTATATTAT
1 AATTATATTAT
53491528 ACATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.48
14 10 0.43
15 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTATATTATTT
Found at i:53492506 original size:18 final size:18
Alignment explanation
Indices: 53492474--53492512 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
53492464 ACCTTTTATG
* *
53492474 TATCCTCCTCCTCAAATA
1 TATCCTCCACATCAAATA
*
53492492 TATCCTCCACATCAATTA
1 TATCCTCCACATCAAATA
53492510 TAT
1 TAT
53492513 GAAAACCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (18 bp):
TATCCTCCACATCAAATA
Found at i:53505502 original size:46 final size:46
Alignment explanation
Indices: 53505434--53505677 Score: 346
Period size: 46 Copynumber: 5.3 Consensus size: 46
53505424 TACCCCGTTT
* *
53505434 TGGACAACATTTATACATCAAATTGGACAGCATCAATATGCTCAAAA
1 TGGACAGCA-TTATACATCAAATTGGACAGCATCAATATACTCAAAA
* *
53505481 TGGACAGTATTATACATCAAATTGGAGAGCATCAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
* * *
53505527 TGGACAGCATTATGCATCAAATTGGACAGCTTTAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
* ** * *
53505573 TGGACAGCATTATACATCAAAATGGACAGC-TTTATATGCTCAAAT
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
*
53505618 TGGATAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
*
53505664 TGGACAACATTATA
1 TGGACAGCATTATA
53505678 ACATATAAAA
Statistics
Matches: 174, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
45 40 0.23
46 127 0.73
47 7 0.04
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (46 bp):
TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAA
Found at i:53505506 original size:22 final size:23
Alignment explanation
Indices: 53505444--53505677 Score: 175
Period size: 22 Copynumber: 10.2 Consensus size: 23
53505434 TGGACAACAT
53505444 TTATACATCAAATTGGACAGCATCA
1 TTATACATCAAATTGGACAGC-T-A
* * *
53505469 ATATGC-TCAAAATGGACAG-TA
1 TTATACATCAAATTGGACAGCTA
*
53505490 TTATACATCAAATTGGAGAGCATCA
1 TTATACATCAAATTGGACAGC-T-A
* *
53505515 ATATAC-TCAAAATGGACAGC-A
1 TTATACATCAAATTGGACAGCTA
*
53505536 TTATGCATCAAATTGGACAGCT-
1 TTATACATCAAATTGGACAGCTA
* *
53505558 TTAATATACTCAAAATGGACAGC-A
1 TT-ATACA-TCAAATTGGACAGCTA
*
53505582 TTATACATCAAAATGGACAGCT-
1 TTATACATCAAATTGGACAGCTA
*
53505604 TTATATGC-TCAAATTGGATAGC-A
1 TTATA--CATCAAATTGGACAGCTA
53505627 TTATACATCAAATTGGACAGCATCA
1 TTATACATCAAATTGGACAGC-T-A
* * *
53505652 ATATAC-TCAAAATGGACAAC-A
1 TTATACATCAAATTGGACAGCTA
53505673 TTATA
1 TTATA
53505678 ACATATAAAA
Statistics
Matches: 168, Mismatches: 24, Indels: 38
0.73 0.10 0.17
Matches are distributed among these distances:
21 16 0.10
22 59 0.35
23 24 0.14
24 53 0.32
25 16 0.10
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (23 bp):
TTATACATCAAATTGGACAGCTA
Found at i:53505655 original size:91 final size:92
Alignment explanation
Indices: 53505434--53505677 Score: 346
Period size: 91 Copynumber: 2.7 Consensus size: 92
53505424 TACCCCGTTT
* * *
53505434 TGGACAACATTTATACATCAAATTGGACAGCATCAATATGCTCAAAATGGACAGTATTATACATC
1 TGGACAGCA-TTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATC
* *
53505499 AAATTGGAGAGCATCAATATACTCAAAA
65 AAAATGGACAGCATCAATATACTCAAAA
* * *
53505527 TGGACAGCATTATGCATCAAATTGGACAGCTTTAATATACTCAAAATGGACAGCATTATACATCA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATCA
** * *
53505592 AAATGGACAGC-TTTATATGCTCAAAT
66 AAATGGACAGCATCAATATACTCAAAA
* *
53505618 TGGATAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAACATTATA
1 TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATA
53505678 ACATATAAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
91 66 0.49
92 60 0.45
93 8 0.06
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (92 bp):
TGGACAGCATTATACATCAAATTGGACAGCATCAATATACTCAAAATGGACAGCATTATACATCA
AAATGGACAGCATCAATATACTCAAAA
Found at i:53506017 original size:18 final size:18
Alignment explanation
Indices: 53505994--53506031 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
53505984 TCAAAAGTAC
53505994 AAACTTATAAGGTACCGA
1 AAACTTATAAGGTACCGA
53506012 AAACTTATAAGGTACCGA
1 AAACTTATAAGGTACCGA
53506030 AA
1 AA
53506032 TAGCAATCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (18 bp):
AAACTTATAAGGTACCGA
Found at i:53512116 original size:3 final size:3
Alignment explanation
Indices: 53512084--53512150 Score: 56
Period size: 3 Copynumber: 23.3 Consensus size: 3
53512074 TTATACTCAT
53512084 TTA TTCA TTA TTA -TA TT- TCTA -TA TTA -TA TTA TTA TT- TT- TGTA
1 TTA TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA
*
53512126 TTA TTA TTA TTA TTA TCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
53512151 AGTTGCTCTT
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
2 10 0.19
3 40 0.74
4 4 0.07
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:53515617 original size:18 final size:18
Alignment explanation
Indices: 53515593--53515633 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
53515583 GTAAGTGCCA
53515593 TTATTTTTTA-AGTAAAT
1 TTATTTTTTATAGTAAAT
*
53515610 TATATTTTTTATAGTTAAT
1 T-TATTTTTTATAGTAAAT
53515629 TTATT
1 TTATT
53515634 GAGTTGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 13 0.62
19 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TTATTTTTTATAGTAAAT
Found at i:53520002 original size:19 final size:21
Alignment explanation
Indices: 53519963--53520010 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
53519953 ATCTCTTCAT
53519963 ATAA-ATATCATATATCATAC
1 ATAATATATCATATATCATAC
*
53519983 ATCATATATC-TATATC-TAC
1 ATAATATATCATATATCATAC
53520002 ATAATATAT
1 ATAATATAT
53520011 ATTATAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 9 0.36
21 5 0.20
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATATATCATATATCATAC
Found at i:53520495 original size:192 final size:190
Alignment explanation
Indices: 53520158--53520554 Score: 514
Period size: 193 Copynumber: 2.1 Consensus size: 190
53520148 GCAGACCACC
* *
53520158 TAAAATATACTATCTAAATAAGTAATTTATTATTTATTTAAACTTAAATTAATTAATATTAAAAA
1 TAAAATATAGT-TCTAAATAAGTAATTTATTATTTATTTAAACATAAATTAATTAATATTAAAAA
* * * * *
53520223 TAGAATTTACAATATATTAATATACTTCAAATTTAATAAATTTAAATTTGAAATTTTAATTGGAT
65 TAGAATTCACAATATATTAATATACTTCAAATTTAATAAATTTAAATATAAAATTTT-ATTGAAA
* * * *
53520288 TTTTCAAACTTAATAAAGTTTATCTATTTAAATAT-ATAAAAAATAAATTATAT-AATTTAAT
129 ATTTCAAAATTAATAAAGTTTATCTATTTAAATATAAT-AAAAATAAAATAAATCAATTTAAT
53520349 TAAAATATAGTTCTAAATAAGTAATTTTATTAATTTATTTAAACATAAATTAATTAATATTTAAA
1 TAAAATATAGTTCTAAATAAGTAA-TTTATT-ATTTATTTAAACATAAATTAATTAATA-TTAAA
* * * * *
53520414 ATTAGAATTCACATTATATTAATCTACTTTAAATTTAATAAATTTAAATAATAATAATTTT-TTT
63 AATAGAATTCACAATATATTAATATACTTCAAATTTAATAAATTTAAAT-ATAA-AATTTTATTG
** * *
53520478 AAAATTT-AAAATTAATAATTTTTCTCTATTTAAGTATAATAAAAATAAAATAAATCAATTTAAT
126 AAAATTTCAAAATTAATAAAGTTTATCTATTTAAATATAATAAAAATAAAATAAATCAATTTAAT
53520542 TAAAATATAGTTC
1 TAAAATATAGTTC
53520555 GTTAATTTAT
Statistics
Matches: 179, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
190 13 0.07
191 16 0.09
192 64 0.36
193 78 0.44
194 2 0.01
195 6 0.03
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (190 bp):
TAAAATATAGTTCTAAATAAGTAATTTATTATTTATTTAAACATAAATTAATTAATATTAAAAAT
AGAATTCACAATATATTAATATACTTCAAATTTAATAAATTTAAATATAAAATTTTATTGAAAAT
TTCAAAATTAATAAAGTTTATCTATTTAAATATAATAAAAATAAAATAAATCAATTTAAT
Found at i:53520616 original size:16 final size:18
Alignment explanation
Indices: 53520595--53520631 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
53520585 TTTAAATTGC
53520595 ATATTTTAAAA-AATA-A
1 ATATTTTAAAATAATAGA
53520611 ATA-TTTAAAATAATAGA
1 ATATTTTAAAATAATAGA
53520628 ATAT
1 ATAT
53520632 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.39
16 7 0.39
17 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATATTTTAAAATAATAGA
Found at i:53520956 original size:44 final size:44
Alignment explanation
Indices: 53520893--53520980 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
53520883 ATCGTTTACT
*
53520893 ATTTTAGAGTAAACTTGCAATAAGAGAATTAGTCATTGCCTACC
1 ATTTTAAAGTAAACTTGCAATAAGAGAATTAGTCATTGCCTACC
*
53520937 ATTTTAAAGTACACTTGCAATAAGAGAATTAGTCATTGCCTACC
1 ATTTTAAAGTAAACTTGCAATAAGAGAATTAGTCATTGCCTACC
53520981 GACAGCAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (44 bp):
ATTTTAAAGTAAACTTGCAATAAGAGAATTAGTCATTGCCTACC
Found at i:53522210 original size:31 final size:31
Alignment explanation
Indices: 53522162--53522239 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
53522152 ATAGGGTTTA
* * *
53522162 AATATG-AAATATTAATGATTATAGGATATG
1 AATATGAAAATATGAATGACTACAGGATATG
* *
53522192 AATGTGAAAATATGAATGACTACAGGGTATG
1 AATATGAAAATATGAATGACTACAGGATATG
*
53522223 AATATGCAAATATGAAT
1 AATATGAAAATATGAAT
53522240 AGTATGAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 5 0.12
31 35 0.88
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (31 bp):
AATATGAAAATATGAATGACTACAGGATATG
Found at i:53528418 original size:40 final size:39
Alignment explanation
Indices: 53528363--53528473 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 39
53528353 AGGGCTTCAA
* * **
53528363 AAGTAGAAAAAGGGGCATGTATGTGCATTCAAGCGTACTG
1 AAGTACAAACAGGGGCACATATGTGCATTCAAG-GTACTG
* *
53528403 AAGTATAAACAGGGGCACATATGTGCATTCCTAGGTACTG
1 AAGTACAAACAGGGGCACATATGTGCATT-CAAGGTACTG
*
53528443 AAGTACAAACAGGGGCACCTATGTGCATTCA
1 AAGTACAAACAGGGGCACATATGTGCATTCA
53528474 GACAATAATT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.02
40 58 0.94
41 3 0.05
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (39 bp):
AAGTACAAACAGGGGCACATATGTGCATTCAAGGTACTG
Found at i:53532883 original size:27 final size:28
Alignment explanation
Indices: 53532852--53532960 Score: 118
Period size: 27 Copynumber: 4.0 Consensus size: 28
53532842 ATAAATGATC
*
53532852 GAAATATCCC-CATAGGGTAAAATGACT
1 GAAATATCCCTCATAGGGTAAAATAACT
* * *
53532879 AAAATATCCCTGA-ATGGTAAAATAACT
1 GAAATATCCCTCATAGGGTAAAATAACT
* *
53532906 GAAATA-CCCTCAAAGGGTAAAACAACT
1 GAAATATCCCTCATAGGGTAAAATAACT
* *
53532933 GAAATA-CCCCCATAGGGTAAAATGACT
1 GAAATATCCCTCATAGGGTAAAATAACT
53532960 G
1 G
53532961 TTATACCCAT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.07
27 62 0.91
28 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (28 bp):
GAAATATCCCTCATAGGGTAAAATAACT
Found at i:53533163 original size:26 final size:26
Alignment explanation
Indices: 53533124--53533177 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
53533114 GGAAATATAT
53533124 TGTTACTGGCAGCTTTGCTGCGATAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
*
53533150 TGTTACTGGTAGCTTTGCTGCGATAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
53533176 TG
1 TG
53533178 GTGTGTTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.37
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCGATAC
Found at i:53533295 original size:28 final size:28
Alignment explanation
Indices: 53533263--53533330 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
53533253 TTGGCAAAGG
*
53533263 CCCACACTATTACTGTATTGGGCTGAGA
1 CCCACACTATTACTGTATTGGGCTAAGA
* *
53533291 CCCACACTGTTACTGTATTGGGCTAAGG
1 CCCACACTATTACTGTATTGGGCTAAGA
*
53533319 CCCACACAATTA
1 CCCACACTATTA
53533331 TTGTTACTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (28 bp):
CCCACACTATTACTGTATTGGGCTAAGA
Found at i:53535699 original size:13 final size:13
Alignment explanation
Indices: 53535668--53535713 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
53535658 TTTTTATTTT
*
53535668 TTTTTCCTTTTTTC
1 TTTTT-CTTCTTTC
53535682 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
*
53535695 TTTTTTTTCTCTTC
1 TTTTTCTTCT-TTC
53535709 TTTTT
1 TTTTT
53535714 TGGGCCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.55
14 13 0.45
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:53535700 original size:14 final size:14
Alignment explanation
Indices: 53535667--53535714 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
53535657 GTTTTTATTT
*
53535667 TTTTTTCCTTTTTTC
1 TTTTTT-CTTCTTTC
53535682 -TTTTTCTTCTTTC
1 TTTTTTCTTCTTTC
53535695 TTTTTT-TTCTCTTC
1 TTTTTTCTTCT-TTC
53535709 TTTTTT
1 TTTTTT
53535715 GGGCCAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.37
14 19 0.63
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTCTTTC
Found at i:53535707 original size:18 final size:19
Alignment explanation
Indices: 53535676--53535711 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
53535666 TTTTTTTCCT
*
53535676 TTTTTCTTTTTCTTCTTTC
1 TTTTTCTTTCTCTTCTTTC
53535695 TTTTT-TTTCTCTTCTTT
1 TTTTTCTTTCTCTTCTTT
53535712 TTTGGGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTCTTTCTCTTCTTTC
Found at i:53536429 original size:29 final size:28
Alignment explanation
Indices: 53536397--53536455 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
53536387 TATAAAAATA
*
53536397 TAGGGCCAAAATGTAATTTCTTGAAAGTT
1 TAGGGCCAAAATGTAATTT-TGGAAAGTT
* *
53536426 TAGGGCCCAAATTTAATTTTGGAAAGTT
1 TAGGGCCAAAATGTAATTTTGGAAAGTT
53536454 TA
1 TA
53536456 AAGGGTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (28 bp):
TAGGGCCAAAATGTAATTTTGGAAAGTT
Found at i:53536808 original size:75 final size:75
Alignment explanation
Indices: 53536723--53537827 Score: 1378
Period size: 75 Copynumber: 14.6 Consensus size: 75
53536713 TGATCCAAAA
* * * ** *
53536723 CTCAACTCACCTCTCG-AGTTATGAGTTGATCTTTGAGAAACAGAAATTGAAA-ATACCTCATTG
1 CTCAACTCACCTCTCGCA-ATATGAGTTGATTTTTGAAAAACAGAAATT-AAAGATACCTCGGTA
* *
53536786 TGCGGCTCGAGG
64 TGCGACCCGAGG
* * * * ** * *
53536798 CTCAGCTCACCTCTTGGATTACAAGTTGATTTTTGAAAGAC-GTAAATTAAAAGAAATACCTCAG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG-AAATT-AAAG--ATACCTCGG
** * *
53536862 CGTGCGGCCCAAGG
62 TATGCGACCCGAGG
* * **
53536876 CTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAAAAATTCAAA-ATACCTCGACAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAGATACCTCGGTAT
*
53536940 GTGACCCGAGG
65 GCGACCCGAGG
* * * *
53536951 CTCAACACACCTCTCGTAATATGAGTTGATTTTTTGAAAAATAGAAATTAAAGATACCACGGTAT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAGATACCTCGGTAT
*
53537016 GTGACCCGAGG
65 GCGACCCGAGG
* * *
53537027 CTCAACTCACCTCTCGCAATATGAGATT-TTTTTTAAAAAACAAAAATTAAAGATACCTCGGTAT
1 CTCAACTCACCTCTCGCAATATGAG-TTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTAT
*
53537091 GTGACCCGAGG
65 GCGACCCGAGG
* * *
53537102 CTCAACTGACCTCTCGAAATATGAGTTGATTTTTGAAAAATAGAAATTAAAGATACCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
*
53537167 TGACCCGAGG
66 CGACCCGAGG
53537177 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
* **
53537242 TGACCTAAGG
66 CGACCCGAGG
* * * *
53537252 CTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAATAGTAATTAAAGATGCCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
* *
53537317 TGACCCAAGG
66 CGACCCGAGG
* *
53537327 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCCCGGTTTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
53537392 CGACCCGAGG
66 CGACCCGAGG
*
53537402 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTAAAGATACCTCGGTA
1 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAGATACCTCGGTA
*
53537467 TGTGACCCGAGG
64 TGCGACCCGAGG
* * * *
53537479 CTCAACTCACCTCTTGCAATATGAGTT-ATTTTTGAAAAATAGATATTAAAGATACCCCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
* *
53537543 TGACCCAAGG
66 CGACCCGAGG
* * *
53537553 CTCAACTCACCTCTCGCAGTAT-AGTTGATTTTTTTGAATAGCAGAAATTAAAGATACCTCGGTA
1 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAGATACCTCGGTA
*
53537617 TGTGACCCGAGG
64 TGCGACCCGAGG
** * *
53537629 CTCAACTCACCTCTCGCAATATGAGTTGATTTTCAAAAAATAGAGATTAAAGATACCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
*
53537694 TGACCCGAGG
66 CGACCCGAGG
* * * * *
53537704 CTCAACTCACCTCTCACAATATGATTTGATTGTTGAGAAATAGAAATTAAAGATACCTCGGTATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
*
53537769 TGACCCGAGG
66 CGACCCGAGG
*
53537779 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT
53537828 GAAAAATATA
Statistics
Matches: 910, Mismatches: 103, Indels: 33
0.87 0.10 0.03
Matches are distributed among these distances:
73 4 0.00
74 65 0.07
75 565 0.62
76 138 0.15
77 76 0.08
78 62 0.07
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (75 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATG
CGACCCGAGG
Found at i:53537651 original size:452 final size:451
Alignment explanation
Indices: 53536869--53537832 Score: 1493
Period size: 452 Copynumber: 2.1 Consensus size: 451
53536859 CAGCGTGCGG
* *
53536869 CCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAAAAATTCAAAATACCT
1 CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTCAAAATACCC
* * *
53536934 CGACATGTGACCCGAGGCTCAACACACCTCTCGTAATATGAGTTGATTTTTTGAAAAATAGAAAT
66 CGACATGCGACCCGAGGCTCAACACACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAAT
*
53536999 TAAAGATACCACGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGATTTTTTTTAAA
131 TAAAGATACCACGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGATTATTTTTAAA
* * *
53537064 AAACAAAAATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTGACCTCTCGAAATATGAGTT
196 AAACAAAAATTAAAGATACCCCGGTATGTGACCCAAGGCTCAACTCACCTCTCGAAATATGAGTT
*
53537129 GATTTTTGAAAAATAGAAATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGC
261 GATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGC
** *
53537194 AATATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATGTGACCTAAGGCTCAACT
326 AATATGAGTTGATTTTCAAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCAAGGCTCAACT
** * * *
53537259 CACCTCTCGTAATATGAGTTGATTTTTGAAAAATAGTAATTAAAGATGCCTCGGTATGTGA
391 CACCTCTCACAATATGAGTTGATTGTTGAAAAATAGAAATTAAAGATACCTCGGTATGTGA
*
53537320 CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAGATACC
1 CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTCAAA-ATACC
*** * *
53537384 CCGGTTTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAA
65 CCGACATGCGACCCGAGGCTCAACACACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAA
* * *
53537449 ATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAG-TTATTTTTG
129 ATTAAAGATACCACGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGATTATTTTTA
* * * * *
53537513 AAAAATAGATATTAAAGATACCCCGGTATGTGACCCAAGGCTCAACTCACCTCTCGCAGTAT-AG
194 AAAAACAAAAATTAAAGATACCCCGGTATGTGACCCAAGGCTCAACTCACCTCTCGAAATATGAG
* *
53537577 TTGATTTTTTTGAATAGCAGAAATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTC
259 TTGA--TTTTTGAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTC
* * *
53537642 TCGCAATATGAGTTGATTTTCAAAAAATAGAGATTAAAGATACCTCGGTATGTGACCCGAGGCTC
322 TCGCAATATGAGTTGATTTTCAAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCAAGGCTC
* *
53537707 AACTCACCTCTCACAATATGATTTGATTGTTGAGAAATAGAAATTAAAGATACCTCGGTATGTGA
387 AACTCACCTCTCACAATATGAGTTGATTGTTGAAAAATAGAAATTAAAGATACCTCGGTATGTGA
* *
53537772 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAA
1 CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAAAAATTCAAAA
53537833 ATATAATTCT
Statistics
Matches: 466, Mismatches: 41, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
450 9 0.02
451 159 0.34
452 276 0.59
453 19 0.04
454 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (451 bp):
CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTCAAAATACCC
CGACATGCGACCCGAGGCTCAACACACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAAT
TAAAGATACCACGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGATTATTTTTAAA
AAACAAAAATTAAAGATACCCCGGTATGTGACCCAAGGCTCAACTCACCTCTCGAAATATGAGTT
GATTTTTGAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTCAAAAAACAGAAATTAAAGATACCTCGGTATGTGACCCAAGGCTCAACT
CACCTCTCACAATATGAGTTGATTGTTGAAAAATAGAAATTAAAGATACCTCGGTATGTGA
Found at i:53549923 original size:47 final size:47
Alignment explanation
Indices: 53549864--53550241 Score: 580
Period size: 47 Copynumber: 8.1 Consensus size: 47
53549854 TATCACATTT
* * * *
53549864 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
53549909 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
53549956 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
53550003 ATATACATGTTTACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
53550050 ATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
53550097 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
53550144 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
53550191 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTA-TCACAC
53550239 ATA
1 ATA
53550242 TACACTTTCA
Statistics
Matches: 310, Mismatches: 20, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 294 0.95
48 9 0.03
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:53550025 original size:25 final size:25
Alignment explanation
Indices: 53549996--53550073 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
53549986 ATTCGGCCTT
*
53549996 ATCACACATATACATGTTTACTTTC
1 ATCACACATATACATGTTCACTTTC
* *** *
53550021 ATCACA-TTGGCCA--TTCGGCTTT-
1 ATCACACATATACATGTTC-ACTTTC
53550043 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
53550068 ATCACA
1 ATCACA
53550074 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 7 0.19
25 15 0.41
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (25 bp):
ATCACACATATACATGTTCACTTTC
Found at i:53550119 original size:25 final size:25
Alignment explanation
Indices: 53550090--53550167 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
53550080 ATTCGGTCTT
53550090 ATCACACATACACACGTTCACTTTC
1 ATCACACATACACACGTTCACTTTC
* * * *
53550115 ATCACA-TTGGC-CA--TTCGGCCTT-
1 ATCACACAT-ACACACGTTC-ACTTTC
53550137 ATCACACATACACACGTTCACTTTC
1 ATCACACATACACACGTTCACTTTC
53550162 ATCACA
1 ATCACA
53550168 TTGGCCATTC
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 10 0.26
23 6 0.16
24 6 0.16
25 16 0.42
ACGTcount: A:0.29, C:0.35, G:0.08, T:0.28
Consensus pattern (25 bp):
ATCACACATACACACGTTCACTTTC
Found at i:53554625 original size:40 final size:40
Alignment explanation
Indices: 53554568--53554989 Score: 656
Period size: 40 Copynumber: 10.6 Consensus size: 40
53554558 CCAGCATGAT
* *
53554568 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
53554608 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
53554648 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
53554687 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
53554727 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
53554767 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
53554807 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
53554847 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
53554887 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
53554928 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
53554968 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
53554990 CATCATTCGA
Statistics
Matches: 355, Mismatches: 21, Indels: 12
0.91 0.05 0.03
Matches are distributed among these distances:
39 40 0.11
40 294 0.83
41 21 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:53557018 original size:47 final size:47
Alignment explanation
Indices: 53556959--53557336 Score: 580
Period size: 47 Copynumber: 8.1 Consensus size: 47
53556949 TATCACATTT
* * * *
53556959 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
53557004 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
53557051 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
53557098 ATATACATGTTTACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
53557145 ATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
53557192 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
53557239 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
53557286 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTA-TCACAC
53557334 ATA
1 ATA
53557337 TACACTTTCA
Statistics
Matches: 310, Mismatches: 20, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 294 0.95
48 9 0.03
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
Done.