Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 124 of 190
Found at i:19586652 original size:3 final size:3
Alignment explanation
Indices: 19586644--19586682 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
19586634 TTAAAATTTA
* *
19586644 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19586683 TATTTATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:19589123 original size:26 final size:26
Alignment explanation
Indices: 19589079--19589170 Score: 102
Period size: 26 Copynumber: 3.6 Consensus size: 26
19589069 CCTAATTGGA
*
19589079 CCCATTTTGG-CTCAGGCCCAATTAGG
1 CCCATTTTGGTC-CAAGCCCAATTAGG
19589105 CCCATTTTGGTCCAAGCCCAATTAGG
1 CCCATTTTGGTCCAAGCCCAATTAGG
* *
19589131 CTCATTTTGGT-CAAGCCCACCA-TA-A
1 CCCATTTTGGTCCAAGCCCA--ATTAGG
19589156 CCCATTTTGGTCCAA
1 CCCATTTTGGTCCAA
19589171 TTAAATACTT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
25 18 0.31
26 38 0.66
27 2 0.03
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (26 bp):
CCCATTTTGGTCCAAGCCCAATTAGG
Found at i:19589201 original size:3 final size:3
Alignment explanation
Indices: 19589186--19589218 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
19589176 TACTTTTACC
*
19589186 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19589219 TATTTTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:19591037 original size:17 final size:17
Alignment explanation
Indices: 19591017--19591052 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
19591007 TTGTTATCCT
19591017 AACTATTATGTTCTCCC
1 AACTATTATGTTCTCCC
19591034 AACTATTATGTTCTCCC
1 AACTATTATGTTCTCCC
19591051 AA
1 AA
19591053 TACTAAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (17 bp):
AACTATTATGTTCTCCC
Found at i:19595501 original size:5 final size:5
Alignment explanation
Indices: 19595493--19595527 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
19595483 TTATTTAAAG
19595493 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAA
19595528 AGTATTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:19595519 original size:11 final size:11
Alignment explanation
Indices: 19595493--19595611 Score: 73
Period size: 11 Copynumber: 10.3 Consensus size: 11
19595483 TTATTTAAAG
19595493 AAAATAAAAT-
1 AAAATAAAATA
19595503 AAAATAAAATA
1 AAAATAAAATA
19595514 AAAATAAAATA
1 AAAATAAAATA
*
19595525 AAAAGTATTAAACA
1 AAAA-TA--AAATA
*** *
19595539 ATTCTAATATA
1 AAAATAAAATA
*
19595550 ATAATAAAATA
1 AAAATAAAATA
*
19595561 ATAATAATAAT-
1 AAAATAA-AATA
19595572 AAAATAATAATA
1 AAAATAA-AATA
19595584 ATAAATTATAAATA
1 A-AAA-TA-AAATA
19595598 ATAAATAAAA-A
1 A-AAATAAAATA
19595609 AAA
1 AAA
19595612 CTTGGGAACA
Statistics
Matches: 90, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
10 12 0.13
11 45 0.50
12 9 0.10
13 7 0.08
14 16 0.18
15 1 0.01
ACGTcount: A:0.71, C:0.02, G:0.01, T:0.26
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:19595555 original size:3 final size:3
Alignment explanation
Indices: 19595543--19595601 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
19595533 TAAACAATTC
19595543 TAA T-A TAA TAA TAA -AA TAA TAA TAA TAA TAA -AA TAA TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
*
19595589 TTA TAAA TAA TAA
1 TAA T-AA TAA TAA
19595602 ATAAAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
2 6 0.12
3 38 0.78
4 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:19595566 original size:14 final size:14
Alignment explanation
Indices: 19595547--19595602 Score: 71
Period size: 14 Copynumber: 4.0 Consensus size: 14
19595537 CAATTCTAAT
19595547 ATAATAATAA-AATA
1 ATAATAATAATAA-A
19595561 ATAATAATAATAAA
1 ATAATAATAATAAA
19595575 ATAATAATAAT-AA
1 ATAATAATAATAAA
*
19595588 ATTATAAATAATAAA
1 ATAAT-AATAATAAA
19595603 TAAAAAAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
13 6 0.16
14 28 0.74
15 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATAATAAA
Found at i:19595569 original size:17 final size:17
Alignment explanation
Indices: 19595495--19595601 Score: 87
Period size: 17 Copynumber: 6.1 Consensus size: 17
19595485 ATTTAAAGAA
19595495 AATAA-AATAAAATAA-
1 AATAATAATAAAATAAT
* *
19595510 AATAAAAATAAAATAAA
1 AATAATAATAAAATAAT
* *
19595527 AAGTATTAA-ACAATTCTAAT
1 AA-TAATAATA-AA--ATAAT
19595547 -ATAATAATAAAATAAT
1 AATAATAATAAAATAAT
19595563 AATAATAATAAAATAAT
1 AATAATAATAAAATAAT
19595580 AATAATAAATTATAAATAAT
1 AATAAT-AA-TA-AAATAAT
19595600 AA
1 AA
19595602 ATAAAAAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
15 5 0.07
16 14 0.19
17 25 0.33
18 15 0.20
19 4 0.05
20 12 0.16
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.28
Consensus pattern (17 bp):
AATAATAATAAAATAAT
Found at i:19595596 original size:7 final size:7
Alignment explanation
Indices: 19595543--19595605 Score: 65
Period size: 8 Copynumber: 8.4 Consensus size: 7
19595533 TAAACAATTC
19595543 TAATATAA
1 TAATA-AA
19595551 TAATAAAA
1 TAAT-AAA
19595559 TAATAATAA
1 TAAT-A-AA
19595568 TAATAAAA
1 TAAT-AAA
19595576 TAAT-AA
1 TAATAAA
19595582 TAATAAA
1 TAATAAA
*
19595589 TTATAAA
1 TAATAAA
19595596 TAATAAA
1 TAATAAA
19595603 TAA
1 TAA
19595606 AAAAAACTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
6 6 0.12
7 17 0.34
8 18 0.36
9 9 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
TAATAAA
Found at i:19596243 original size:30 final size:30
Alignment explanation
Indices: 19596192--19596279 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 30
19596182 ATATTAATAA
19596192 ATAAATGATA-ATATGTAAATAGATAAATAATT
1 ATAAAT-ATATATAT-T-AATAGATAAATAATT
19596224 ATAAATATATATATTAATAGATAAATAA-T
1 ATAAATATATATATTAATAGATAAATAATT
* * *
19596253 A-ATA-ACATATGTTAATAGATAAATAAT
1 ATAAATATATATATTAATAGATAAATAAT
19596280 AACATATAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
27 20 0.39
28 2 0.04
29 2 0.04
30 13 0.25
31 4 0.08
32 10 0.20
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.35
Consensus pattern (30 bp):
ATAAATATATATATTAATAGATAAATAATT
Found at i:19596281 original size:30 final size:30
Alignment explanation
Indices: 19596202--19596281 Score: 103
Period size: 27 Copynumber: 2.8 Consensus size: 30
19596192 ATAAATGATA
* * *
19596202 ATATGTAAATAGATAAATAATTATAAATAT
1 ATATGTTAATAGATAAATAATAATAAATAC
*
19596232 ATATATTAATAGATAAATAATAAT--A-AC
1 ATATGTTAATAGATAAATAATAATAAATAC
19596259 ATATGTTAATAGATAAATAATAA
1 ATATGTTAATAGATAAATAATAA
19596282 CATATAAGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 23 0.51
28 1 0.02
30 21 0.47
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.35
Consensus pattern (30 bp):
ATATGTTAATAGATAAATAATAATAAATAC
Found at i:19596336 original size:72 final size:77
Alignment explanation
Indices: 19596169--19596353 Score: 218
Period size: 79 Copynumber: 2.4 Consensus size: 77
19596159 AAATAAAATA
* * * * * * *
19596169 AAATAAAAAATATATATTAATAAATAAATGATAATATGTAAATAGATAAATAATTATAAATATAT
1 AAATAATAAACATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTATAAATATAT
*
19596234 ATATTAATAGAT
66 ATATTAACAGAT
* * *
19596246 AAATAATAATAACATATGTTAATAGATAAATAATAACATATAAGTGGATACATAATTAT-AA-AT
1 AAATAAT-A-AACATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTATAAATAT
19596309 ATATA-T-ACAGAT
64 ATATATTAACAGAT
19596321 AAATAATAAA-ATATGTTAATAGATAAATAATAA
1 AAATAATAAACATATGTTAATAGATAAATAATAA
19596354 AAATTATATA
Statistics
Matches: 95, Mismatches: 11, Indels: 9
0.83 0.10 0.08
Matches are distributed among these distances:
72 23 0.24
73 2 0.02
74 1 0.01
75 12 0.13
76 1 0.01
77 13 0.14
78 3 0.03
79 40 0.42
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (77 bp):
AAATAATAAACATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTATAAATATAT
ATATTAACAGAT
Found at i:19596362 original size:28 final size:26
Alignment explanation
Indices: 19596170--19596410 Score: 128
Period size: 24 Copynumber: 9.2 Consensus size: 26
19596160 AATAAAATAA
*
19596170 AATAAAAAATATA-TATTA-ATAAAT
1 AATAAAAAATATATTAATAGATAAAT
* * * *
19596194 AA-ATGATAATATGTAAATAGATAAAT
1 AATA-AAAAATATATTAATAGATAAAT
19596220 AATTATAAATATATATATTAATAGATAAAT
1 AA-TA-AAA-A-ATATATTAATAGATAAAT
* *
19596250 AATAATAACATATGTTAATAGATAAAT
1 AATAA-AAAATATATTAATAGATAAAT
* * * *
19596277 AAT--AACATATA--AGTGGATACAT
1 AATAAAAAATATATTAATAGATAAAT
* * *
19596299 AATTATAAATATA-TATACAGATAAAT
1 AATAAAAAATATATTA-ATAGATAAAT
*
19596325 AAT--AAAATATGTTAATAGATAAAT
1 AATAAAAAATATATTAATAGATAAAT
*
19596349 AATAAAAATTATATATTAATACAT-AAT
1 AATAAAAA--ATATATTAATAGATAAAT
*
19596376 AATAATAATAATAATAATAATA-ATAAAT
1 AATAA-AA-AAT-ATATTAATAGATAAAT
19596404 AAGTAAA
1 AA-TAAA
19596411 TAAAAATAGA
Statistics
Matches: 168, Mismatches: 27, Indels: 40
0.71 0.11 0.17
Matches are distributed among these distances:
22 11 0.07
23 1 0.01
24 39 0.23
25 6 0.04
26 20 0.12
27 32 0.19
28 32 0.19
29 9 0.05
30 18 0.11
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AATAAAAAATATATTAATAGATAAAT
Found at i:19596379 original size:3 final size:3
Alignment explanation
Indices: 19596346--19596401 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
19596336 TTAATAGATA
* * *
19596346 AAT AAT AAA AAT TAT -AT ATT AAT ACAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
19596391 AAT AAT AAT AA
1 AAT AAT AAT AA
19596402 ATAAGTAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:19596398 original size:72 final size:72
Alignment explanation
Indices: 19596238--19596431 Score: 179
Period size: 72 Copynumber: 2.7 Consensus size: 72
19596228 ATATATATAT
* * * *
19596238 TAATAGATAAATAATAATAACATATGTTAATAGATAAATAAT-AACATATAAGTGGATACATAAT
1 TAATACAT-AATAATAATAAAATATGTTAATAGATAAATAATAAAAATATAAGTGAATACATAAT
*
19596302 TATAAATA
65 AATAAATA
* *
19596310 TATATACA-GATAAATAATAAAATATGTTAATAGATAAATAATAAAAATTATATA-TTAATACAT
1 TA-ATACATAAT-AATAATAAAATATGTTAATAGATAAATAATAAAAA-TATA-AGTGAATACAT
19596373 AATAAT-AATAA
62 AATAATAAAT-A
* * *
19596384 TAATA-ATAATAATAAT-AAATAAGTAAATA-A-AAATAGATAAAAAAATAA
1 TAATACATAATAATAATAAAATATGTTAATAGATAAATA-ATAAAAATATAA
19596432 AAGTGGACTT
Statistics
Matches: 103, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
68 1 0.01
69 8 0.08
70 8 0.08
71 13 0.13
72 38 0.37
73 15 0.15
74 19 0.18
75 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (72 bp):
TAATACATAATAATAATAAAATATGTTAATAGATAAATAATAAAAATATAAGTGAATACATAATA
ATAAATA
Found at i:19596412 original size:8 final size:7
Alignment explanation
Indices: 19596319--19596424 Score: 62
Period size: 6 Copynumber: 14.7 Consensus size: 7
19596309 ATATATACAG
19596319 ATAAATA
1 ATAAATA
19596326 ATAAAATA
1 AT-AAATA
* *
19596334 TGTTAATA
1 -ATAAATA
19596342 GATAAATA
1 -ATAAATA
19596350 ATAAA-A
1 ATAAATA
19596356 ATTATATATTA
1 A-TA-A-A-TA
*
19596367 ATACATA
1 ATAAATA
19596374 AT-AATA
1 ATAAATA
19596380 AT-AATA
1 ATAAATA
19596386 AT-AATA
1 ATAAATA
19596392 AT-AATA
1 ATAAATA
19596398 ATAAATA
1 ATAAATA
19596405 AGTAAATA
1 A-TAAATA
19596413 A-AAATA
1 ATAAATA
19596419 GATAAA
1 -ATAAA
19596425 AAAATAAAAG
Statistics
Matches: 81, Mismatches: 7, Indels: 21
0.74 0.06 0.19
Matches are distributed among these distances:
6 30 0.37
7 19 0.23
8 26 0.32
9 2 0.02
10 2 0.02
11 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (7 bp):
ATAAATA
Found at i:19596760 original size:42 final size:42
Alignment explanation
Indices: 19596616--19597033 Score: 497
Period size: 42 Copynumber: 9.9 Consensus size: 42
19596606 TTGATCAAAA
* * * **
19596616 CTCCTCTAAGCAGAGGCTCAATGACTTCGAAAAACATAAGCAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTG--AAA-ATAAATAAAG
*
19596661 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAAT--GG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
* * * *
19596701 CTCCTCTAATCAAAGGCTCAACAATTTTGAAAACAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
* *
19596743 CTCCTCTAAACAGAGGCTCAACGACTTTGAAAACAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
* *
19596785 CTCCTCTAATCAGAAGCTCAACGACTTTAAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
* * *
19596827 CTCTTCTAATGAGAGGCTCAATGACTTTGAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
* * * * *
19596869 CTCATTTAATTAGAGGCTCTACGACTTTGAAAGATAAACAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAA-ATAAATAAAG
*
19596912 CTCCTCTAATCAGAGGCTCAACAACTTTGAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
*
19596954 CTCCTCTAATCAGAGGCAT-AACGACTTTGAAAATAAAT--GG
1 CTCCTCTAATCAGAGGC-TCAACGACTTTGAAAATAAATAAAG
*
19596994 CTCCTCTAAAT-AGAGGCATCAACAACTTTTGAAAATAAAT
1 CTCCTCT-AATCAGAGGC-TCAACGAC-TTTGAAAATAAAT
19597034 TGCTCCTCCA
Statistics
Matches: 327, Mismatches: 39, Indels: 17
0.85 0.10 0.04
Matches are distributed among these distances:
40 51 0.16
41 8 0.02
42 202 0.62
43 40 0.12
45 26 0.08
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (42 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAG
Found at i:19596932 original size:169 final size:165
Alignment explanation
Indices: 19596616--19597038 Score: 492
Period size: 169 Copynumber: 2.5 Consensus size: 165
19596606 TTGATCAAAA
* * * **
19596616 CTCCTCTAAGCAGAGGCTCAATGACTTCGAAAAACATAAGCAAAGCTCCTCTAATCAGAGGCTCA
1 CTCCTCTAATCAGAGGCTCAACGACTT--TAAAA-ATAAATAAAGCTCCTCTAAT-AGAGGCTCA
* * * *
19596681 ACGACTTTGAAAATAAATGGCTCCTCTAATCAAAGGCTCAACAATTTTGAAAACAAATAAAGCTC
62 ACGACTTTGAAAATAAATAGCTCATCTAATCAAAGGCTCAACAACTTTGAAAACAAACAAAGCTC
*
19596746 CTCTAAACAGAGGCTCAACGACTTTGAAAACAAATAAAG
127 CTCTAAACAGAGGCTCAACAACTTTGAAAACAAATAAAG
* * *
19596785 CTCCTCTAATCAGAAGCTCAACGACTTTAAAAATAAATAAAGCTCTTCTAATGAGAGGCTCAATG
1 CTCCTCTAATCAGAGGCTCAACGACTTTAAAAATAAATAAAGCTCCTCTAAT-AGAGGCTCAACG
* * * * * *
19596850 ACTTTGAAAATAAATAAAGCTCATTTAATTAGAGGCTCTACGACTTTGAAAGATAAACAAAGCTC
65 ACTTTGAAAATAAAT--AGCTCATCTAATCAAAGGCTCAACAACTTTGAAA-ACAAACAAAGCTC
* *
19596915 CTCTAATCAGAGGCTCAACAACTTTGAAAATAAATAAAG
127 CTCTAAACAGAGGCTCAACAACTTTGAAAACAAATAAAG
* *
19596954 CTCCTCTAATCAGAGGCAT-AACGACTTTGAAAATAAAT--GGCTCCTCTAAATAGAGGCATCAA
1 CTCCTCTAATCAGAGGC-TCAACGACTTTAAAAATAAATAAAGCTCCTCT-AATAGAGGC-TCAA
* *
19597016 CAACTTTTGAAAATAAATTGCTC
63 CGAC-TTTGAAAATAAATAGCTC
19597039 CTCCAAACAG
Statistics
Matches: 218, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
166 43 0.20
167 21 0.10
168 35 0.16
169 118 0.54
170 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (165 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTAAAAATAAATAAAGCTCCTCTAATAGAGGCTCAACGA
CTTTGAAAATAAATAGCTCATCTAATCAAAGGCTCAACAACTTTGAAAACAAACAAAGCTCCTCT
AAACAGAGGCTCAACAACTTTGAAAACAAATAAAG
Found at i:19596962 original size:127 final size:126
Alignment explanation
Indices: 19596620--19597032 Score: 494
Period size: 127 Copynumber: 3.3 Consensus size: 126
19596610 TCAAAACTCC
* * * *
19596620 TCTAAGCAGAGGCTCAATGACTTCGAAAAACATAAGCAAAGCTCCTCTAATCAGAGGCTCAACGA
1 TCTAAACAGAGGCTCAACGACTTTG--AAA-ATAAACAAAGCTCCTCTAATCAGAGGCTCAACGA
* * * * * *
19596685 CTTTGAAAATAAAT--GGCTCCTCTAATCAAAGGCTCAACAATTTTGAAAACAAATAAAGCTCC
63 CTTTGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCA
* * *
19596747 TCTAAACAGAGGCTCAACGACTTTGAAAACAAATAAAGCTCCTCTAATCAGAAGCTCAACGACTT
1 TCTAAACAGAGGCTCAACGACTTTGAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTT
* * * *
19596812 TAAAAATAAATAAAGCTCTTCTAATGAGAGGCTCAATGACTTTGAAAATAAATAAAGCTCA
66 TGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCA
* ** * *
19596873 TTTAATTAGAGGCTCTACGACTTTGAAAGATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACT
1 TCTAAACAGAGGCTCAACGACTTTGAAA-ATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACT
* *
19596938 TTGAAAATAAATAAAGCTCCTCTAATCAGAGGCAT-AACGACTTTGAAAATAAAT--GGCTCC
65 TTGAAAATAAATAAAGCTCCTCTAATCAGAGGC-TCAACGACTTTGAAAATAAATAAAGCTCA
* *
19596998 TCTAAATAGAGGCATCAACAACTTTTGAAAATAAA
1 TCTAAACAGAGGC-TCAACGAC-TTTGAAAATAAA
19597033 TTGCTCCTCC
Statistics
Matches: 245, Mismatches: 35, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
124 43 0.18
125 18 0.07
126 74 0.30
127 109 0.44
128 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (126 bp):
TCTAAACAGAGGCTCAACGACTTTGAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTT
TGAAAATAAATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCA
Found at i:19597054 original size:17 final size:17
Alignment explanation
Indices: 19597032--19597066 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19597022 TTGAAAATAA
19597032 ATTGCTCCTCCAAACAG
1 ATTGCTCCTCCAAACAG
*
19597049 ATTGCTCCTCTAAACAG
1 ATTGCTCCTCCAAACAG
19597066 A
1 A
19597067 GGTATCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.26
Consensus pattern (17 bp):
ATTGCTCCTCCAAACAG
Found at i:19597130 original size:101 final size:99
Alignment explanation
Indices: 19596953--19597141 Score: 245
Period size: 101 Copynumber: 1.9 Consensus size: 99
19596943 AATAAATAAA
* * *
19596953 GCTCCTCTAATCAGAGGCATAACGACTTTGAAAATAAATGGCTCCTCTAAATAGAGGCATCAACA
1 GCTCCTCTAAACAGAGGCATAACAACTTTGAAAATAAATGGCTCCTCTAAATAGAGGCAACAACA
19597018 ACTTTTGAAAATAAATTGCTCCTCCAAACAGATT
66 ACTTTTGAAAATAAATTGCTCCTCCAAACAGATT
* * * * * *
19597052 GCTCCTCTAAACAGAGGTATCACAACTTTTGGGAAGTAAATTGCTCCTCTAAATAGAGGCAACCA
1 GCTCCTCTAAACAGAGGCATAACAAC-TTT-GAAAATAAATGGCTCCTCTAAATAGAGGCAACAA
**
19597117 TGAC-TTTGAAAAATAAATTGCTCCT
64 CAACTTTTG-AAAATAAATTGCTCCT
19597142 TAACAACCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
99 22 0.29
100 7 0.09
101 47 0.62
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (99 bp):
GCTCCTCTAAACAGAGGCATAACAACTTTGAAAATAAATGGCTCCTCTAAATAGAGGCAACAACA
ACTTTTGAAAATAAATTGCTCCTCCAAACAGATT
Found at i:19597477 original size:44 final size:44
Alignment explanation
Indices: 19597416--19597520 Score: 135
Period size: 43 Copynumber: 2.4 Consensus size: 44
19597406 TTCAAGGCTT
*
19597416 TTCAAAGGTTCTCATTTGGCAAACTTGGA-ATTCATATCCAAAAA
1 TTCAAAGCTTCTCATTTGG-AAACTTGGAGATTCATATCCAAAAA
* **
19597460 -TCTAAAGCTTTTCATTT-GAATTTTGGAGATTCATATCCAAAAA
1 TTC-AAAGCTTCTCATTTGGAAACTTGGAGATTCATATCCAAAAA
19597503 TTCAAAGCTTCTCATTTG
1 TTCAAAGCTTCTCATTTG
19597521 AGTTCAAAGG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
42 7 0.13
43 31 0.60
44 14 0.27
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (44 bp):
TTCAAAGCTTCTCATTTGGAAACTTGGAGATTCATATCCAAAAA
Found at i:19598945 original size:31 final size:32
Alignment explanation
Indices: 19598910--19598971 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
19598900 TGAGTCTTCC
19598910 TTTTCCCTCCTTTCATCTT-TTTTT-TTTTTTA
1 TTTTCCC-CCTTTCATCTTATTTTTCTTTTTTA
* *
19598941 TTTTCCCCCTTTTATTTTATTTTTCTTTTTT
1 TTTTCCCCCTTTCATCTTATTTTTCTTTTTT
19598972 TCACCTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 9 0.33
31 12 0.44
32 6 0.22
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (32 bp):
TTTTCCCCCTTTCATCTTATTTTTCTTTTTTA
Found at i:19598964 original size:30 final size:32
Alignment explanation
Indices: 19598910--19598970 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
19598900 TGAGTCTTCC
19598910 TTTTCCCTCCTTTCATCTTTTTTTT-TTTTTA
1 TTTTCCCTCCTTTCATCTTTTTTTTCTTTTTA
*
19598941 TTTTCCC-CCTTTTAT-TTTATTTTTCTTTTT
1 TTTTCCCTCCTTTCATCTTT-TTTTTCTTTTT
19598971 TTCACCTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 3 0.11
30 12 0.44
31 12 0.44
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (32 bp):
TTTTCCCTCCTTTCATCTTTTTTTTCTTTTTA
Found at i:19598988 original size:30 final size:32
Alignment explanation
Indices: 19598954--19599018 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
19598944 TCCCCCTTTT
19598954 ATTTTATTTT-TCTTTTTTTCACCTTTCA-CC
1 ATTTTATTTTCTCTTTTTTTCACCTTTCATCC
* * *
19598984 ATTTTCTTTTCTTTTTTTTTCATCTTTCATCC
1 ATTTTATTTTCTCTTTTTTTCACCTTTCATCC
19599016 ATT
1 ATT
19599019 ATTAATATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 9 0.30
31 16 0.53
32 5 0.17
ACGTcount: A:0.12, C:0.22, G:0.00, T:0.66
Consensus pattern (32 bp):
ATTTTATTTTCTCTTTTTTTCACCTTTCATCC
Found at i:19598999 original size:35 final size:33
Alignment explanation
Indices: 19598925--19599003 Score: 86
Period size: 35 Copynumber: 2.3 Consensus size: 33
19598915 CCTCCTTTCA
* * * *
19598925 TCTTTTTTTTTTTTTATTTTCCCCCTTTTATTT
1 TCTTTTTTTTTTTTCACTTTCACCATTTTATTT
* *
19598958 TATTTTTCTTTTTTTCACCTTTCACCATTTTCTTT
1 TCTTTTT-TTTTTTTCA-CTTTCACCATTTTATTT
19598993 TCTTTTTTTTT
1 TCTTTTTTTTT
19599004 CATCTTTCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
33 6 0.16
34 12 0.32
35 19 0.51
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (33 bp):
TCTTTTTTTTTTTTCACTTTCACCATTTTATTT
Found at i:19602212 original size:54 final size:53
Alignment explanation
Indices: 19602148--19602261 Score: 201
Period size: 54 Copynumber: 2.1 Consensus size: 53
19602138 GTTGAGCTTG
*
19602148 TTTCTTGCATTCATCAGACAAAGCTTCTACTTGTGCTGTGCGTCGATCCACTTA
1 TTTCTTGCATTCATCAGACAAAGCTTCTACTCGTGCTGTGCGTCGATCCAC-TA
19602202 TTTCTTGCATTCATCAGACAAAGCTTCTACTCGTGCTGTGCGTCGATCCACTA
1 TTTCTTGCATTCATCAGACAAAGCTTCTACTCGTGCTGTGCGTCGATCCACTA
*
19602255 TCTCTTG
1 TTTCTTG
19602262 TAGCATTAGG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 8 0.14
54 50 0.86
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (53 bp):
TTTCTTGCATTCATCAGACAAAGCTTCTACTCGTGCTGTGCGTCGATCCACTA
Found at i:19605077 original size:27 final size:27
Alignment explanation
Indices: 19605047--19605137 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
19605037 TAATTTCGAG
19605047 AAAAATTGATACTTTCAACTTTTCCTC
1 AAAAATTGATACTTTCAACTTTTCCTC
** * * ** *
19605074 AAAAATCCAT-TTTTGAAAACTTATTTTTA
1 AAAAATTGATACTTT--CAACTT-TTCCTC
19605103 AGGAAAATTGATACTTTCAACTTTTCCTC
1 A--AAAATTGATACTTTCAACTTTTCCTC
19605132 AAAAAT
1 AAAAAT
19605138 ATTTTTTAGA
Statistics
Matches: 44, Mismatches: 14, Indels: 12
0.63 0.20 0.17
Matches are distributed among these distances:
26 3 0.07
27 13 0.30
28 5 0.11
29 8 0.18
30 5 0.11
31 7 0.16
32 3 0.07
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.40
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTCCTC
Found at i:19605202 original size:58 final size:57
Alignment explanation
Indices: 19604986--19605202 Score: 303
Period size: 58 Copynumber: 3.8 Consensus size: 57
19604976 TGCTTTTGTA
* * * *
19604986 CAAGAAAAATTGATATTTTCAACTTTTCC-CCAAAATAATTTTTAGAAACTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAC-TTATTTT
* *
19605043 CGAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTGA-AAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT--ATTTTTTAGAAACTTATTTT
* *
19605101 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAA-CTTATTTT
*
19605159 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
19605203 TTGAATTTTA
Statistics
Matches: 144, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
56 7 0.05
57 30 0.21
58 97 0.67
59 4 0.03
60 6 0.04
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (57 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTATTTT
Found at i:19605240 original size:6 final size:6
Alignment explanation
Indices: 19605220--19605285 Score: 68
Period size: 6 Copynumber: 11.7 Consensus size: 6
19605210 TTATTTAAAG
* * * *
19605220 AAAAT- AAAATA AAAATG AAAATA AAAATA AAGA-A ACAAT- GAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
19605265 AAAATA AAAAT- AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
19605286 GTATTAAACA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
5 16 0.33
6 33 0.67
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:19605241 original size:17 final size:17
Alignment explanation
Indices: 19605219--19605285 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
19605209 TTTATTTAAA
19605219 GAAAATAAAATAAAAAT
1 GAAAATAAAATAAAAAT
19605236 GAAAATAAAAATAAAGAA-
1 GAAAAT-AAAATAAA-AAT
* *
19605254 -ACAATGAAATAAAAAT
1 GAAAATAAAATAAAAAT
*
19605270 AAAAATAAAATAAAAA
1 GAAAATAAAATAAAAA
19605286 GTATTAAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 2 0.05
16 7 0.17
17 23 0.55
18 8 0.19
19 2 0.05
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (17 bp):
GAAAATAAAATAAAAAT
Found at i:19605242 original size:12 final size:11
Alignment explanation
Indices: 19605220--19605284 Score: 71
Period size: 11 Copynumber: 5.8 Consensus size: 11
19605210 TTATTTAAAG
19605220 AAAATAAAATA
1 AAAATAAAATA
19605231 AAAATGAAAATA
1 AAAAT-AAAATA
19605243 AAAATAAAGA-A
1 AAAATAAA-ATA
* *
19605254 ACAATGAAATA
1 AAAATAAAATA
19605265 AAAATAAAA-A
1 AAAATAAAATA
19605275 TAAAATAAAA
1 -AAAATAAAA
19605285 AGTATTAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.04
11 32 0.70
12 12 0.26
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:19605263 original size:22 final size:23
Alignment explanation
Indices: 19605220--19605279 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
19605210 TTATTTAAAG
19605220 AAAATAAAATAAAAATGAAAATA
1 AAAATAAAATAAAAATGAAAATA
*
19605243 AAAATAAAGA-AACAATG-AAATA
1 AAAATAAA-ATAAAAATGAAAATA
19605265 AAAATAAAAATAAAA
1 AAAAT-AAAATAAAA
19605280 TAAAAAGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 11 0.34
23 20 0.62
24 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (23 bp):
AAAATAAAATAAAAATGAAAATA
Found at i:19605329 original size:3 final size:3
Alignment explanation
Indices: 19605314--19605355 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
19605304 CTAATCAATA
*
19605314 AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
19605356 GTAAATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:19606306 original size:27 final size:27
Alignment explanation
Indices: 19606276--19606424 Score: 88
Period size: 27 Copynumber: 5.9 Consensus size: 27
19606266 TTATAAATAT
*
19606276 ATATATTAGCAGATAAATAATAACAAA
1 ATATATTAACAGATAAATAATAACAAA
* *
19606303 ATATGTTAATAGATAAATAATAAC---
1 ATATATTAACAGATAAATAATAACAAA
* * *
19606327 ATATA--AATAGATAAATAATTA-TAA
1 ATATATTAACAGATAAATAATAACAAA
*
19606351 ATATA-TATACAGGTAAATAAT---AAA
1 ATATATTA-ACAGATAAATAATAACAAA
* *
19606375 ATATGTTAATAGATAAATAATAA-AAA
1 ATATATTAACAGATAAATAATAACAAA
* *
19606401 TTATATATTAATACAT-AATAATAA
1 --ATATATTAACAGATAAATAATAA
19606425 TAATAATAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
22 15 0.15
24 26 0.26
25 3 0.03
26 14 0.14
27 29 0.29
28 12 0.12
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (27 bp):
ATATATTAACAGATAAATAATAACAAA
Found at i:19606321 original size:8 final size:7
Alignment explanation
Indices: 19606310--19606479 Score: 63
Period size: 8 Copynumber: 23.4 Consensus size: 7
19606300 AAAATATGTT
19606310 AATAGATA
1 AATA-ATA
19606318 AATAATA
1 AATAATA
19606325 ACAT-ATA
1 A-ATAATA
19606332 AATAGATA
1 AATA-ATA
19606340 AATAATTA
1 AATAA-TA
19606348 TAA-ATATA
1 -AATA-ATA
*
19606356 TATACAGGTA
1 AATA-A--TA
19606366 AATAATAA
1 AATAAT-A
* *
19606374 AATATGTT
1 AATA-ATA
19606382 AATAGATA
1 AATA-ATA
19606390 AATAATA
1 AATAATA
19606397 AA-AAT-
1 AATAATA
* *
19606402 TATATATT
1 AATA-ATA
19606410 AATACAT-
1 AATA-ATA
19606417 AATAAT-
1 AATAATA
19606423 AATAAT-
1 AATAATA
19606429 AATAAT-
1 AATAATA
19606435 AATAATA
1 AATAATA
19606442 AATAAGTA
1 AATAA-TA
19606450 AATAAATA
1 AAT-AATA
19606458 AA-AATA
1 AATAATA
* *
19606464 AGTAAAA
1 AATAATA
19606471 AATAA-A
1 AATAATA
19606477 AAT
1 AAT
19606480 GGACTTACCC
Statistics
Matches: 130, Mismatches: 14, Indels: 38
0.71 0.08 0.21
Matches are distributed among these distances:
5 1 0.01
6 35 0.27
7 34 0.26
8 48 0.37
9 7 0.05
10 5 0.04
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:19606325 original size:30 final size:30
Alignment explanation
Indices: 19606230--19606335 Score: 83
Period size: 30 Copynumber: 3.5 Consensus size: 30
19606220 AAATATATAT
*
19606230 TAATAGATAAATGATAATATGTAAATAGATAAA
1 TAATA-ATAAAT-A-AATATGTTAATAGATAAA
* * * **
19606263 TAATTATAAATATATATATTAGCAGATAAA
1 TAATAATAAATAAATATGTTAATAGATAAA
*
19606293 TAAT-A-ACA-AAATATGTTAATAGATAAA
1 TAATAATAAATAAATATGTTAATAGATAAA
* *
19606320 TAATAACATATAAATA
1 TAATAATAAATAAATA
19606336 GATAAATAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 9
0.73 0.15 0.11
Matches are distributed among these distances:
27 19 0.33
28 3 0.05
29 3 0.05
30 22 0.38
31 1 0.02
32 6 0.10
33 4 0.07
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (30 bp):
TAATAATAAATAAATATGTTAATAGATAAA
Found at i:19606338 original size:22 final size:22
Alignment explanation
Indices: 19606310--19606399 Score: 90
Period size: 24 Copynumber: 3.8 Consensus size: 22
19606300 AAAATATGTT
*
19606310 AATAGATAAATAATAACATATA
1 AATAGATAAATAATAAAATATA
19606332 AATAGATAAATAATTATAAATATA
1 AATAGATAAATAA-TA-AAATATA
* * *
19606356 TATACAGGTAAATAATAAAATATGTT
1 -A-ATAGATAAATAATAAAATA--TA
19606382 AATAGATAAATAATAAAA
1 AATAGATAAATAATAAAA
19606400 ATTATATATT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
22 13 0.23
23 2 0.04
24 26 0.46
25 4 0.07
26 11 0.20
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (22 bp):
AATAGATAAATAATAAAATATA
Found at i:19606377 original size:72 final size:76
Alignment explanation
Indices: 19606213--19606397 Score: 252
Period size: 79 Copynumber: 2.4 Consensus size: 76
19606203 AAATAAAATA
* * * * *
19606213 AAATAAAAAATATATATTAATAGATAAATGATAATATGTAAATAGATAAATAATTATAAATATAT
1 AAATAATAAA-ATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTATAAATATAT
19606278 ATATTAGCAGAT
65 ATATTAGCAGAT
19606290 AAATAATAACAAAATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTAT-AA-AT
1 AAATAAT---AAAATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTATAAATAT
*
19606353 ATATA-TA-CAGGT
63 ATATATTAGCAGAT
19606365 AAATAATAAAATATGTTAATAGATAAATAATAA
1 AAATAATAAAATATGTTAATAGATAAATAATAA
19606398 AAATTATATA
Statistics
Matches: 99, Mismatches: 6, Indels: 11
0.85 0.05 0.09
Matches are distributed among these distances:
72 26 0.26
75 11 0.11
76 2 0.02
77 13 0.13
78 2 0.02
79 42 0.42
80 3 0.03
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (76 bp):
AAATAATAAAATATGTTAATAGATAAATAATAACATATAAATAGATAAATAATTATAAATATATA
TATTAGCAGAT
Found at i:19606423 original size:3 final size:3
Alignment explanation
Indices: 19606390--19606442 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
19606380 TTAATAGATA
* * *
19606390 AAT AAT AAA AAT TAT -AT ATT AAT ACAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
19606435 AAT AAT AA
1 AAT AAT AA
19606443 ATAAGTAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:19606453 original size:18 final size:17
Alignment explanation
Indices: 19606417--19606479 Score: 76
Period size: 18 Copynumber: 3.7 Consensus size: 17
19606407 ATTAATACAT
*
19606417 AATAATAATAATAA-T-
1 AATAATAAAAATAAGTA
19606432 AATAATAATAAATAAGTA
1 AATAATAA-AAATAAGTA
19606450 AATAAATAAAAATAAGTA
1 AAT-AATAAAAATAAGTA
*
19606468 AAAAATAAAAAT
1 AATAATAAAAAT
19606480 GGACTTACCC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
15 8 0.19
16 5 0.12
17 10 0.24
18 14 0.33
19 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AATAATAAAAATAAGTA
Found at i:19606476 original size:25 final size:25
Alignment explanation
Indices: 19606415--19606476 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
19606405 ATATTAATAC
*
19606415 ATAAT-AAT-AAT-AAT-AATAATA
1 ATAATAAATAAATAAATAAATAAAA
*
19606436 ATAATAAATAAGTAAATAAATAAAA
1 ATAATAAATAAATAAATAAATAAAA
19606461 ATAAGTAAA-AAATAAA
1 ATAA-TAAATAAATAAA
19606477 AATGGACTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.15
22 3 0.09
23 2 0.06
24 3 0.09
25 16 0.48
26 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (25 bp):
ATAATAAATAAATAAATAAATAAAA
Found at i:19613077 original size:119 final size:118
Alignment explanation
Indices: 19612866--19613568 Score: 741
Period size: 119 Copynumber: 5.9 Consensus size: 118
19612856 TCTCACTCAC
* * * * * * *
19612866 TTGATCTTGGATCTATCCAAATCATTTCATATGATTCATGGTTCATCCTGATCATTCATTTTTTT
1 TTGATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGGTTCATCCCGATCATTCA-TTTTTG
* * * *
19612931 ACCTCAACTCGATCTTGGTAATTTTATTTTGACTCGTGGTTTCATCCCGGTCGT
65 ACCTCGACTCGATCTTGATCATTTTATTTTGACTCGTGGTTTCATCTCGGTCGT
* * *
19612985 TTGATCTTGGCTTAGTCCAGATCATTTCTTACGATTCGTGGTTTCATCCCGATCATTCATTTTTG
1 TTGATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGG-TTCATCCCGATCATTCATTTTTG
* *
19613050 ACCTCGACTCGATCCTGATCATTTTATTTTGACTCGTGGTTTCATCTCGGATCAT
65 ACCTCGACTCGATCTTGATCATTTTATTTTGACTCGTGGTTTCATCTCGG-TCGT
* * *
19613105 TTGATCTTGGCTCAATTCAGATCATTTCTTATGATTCATGGTTCTGTCCCGATCATTCATTTTTG
1 TTGATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGGTTC-ATCCCGATCATTCATTTTTG
* * * * ** * * *
19613170 ACCTTGACTTGGT-TCTGGTTGTTTTATTTTAACTCATGGTTTCATCTCGATCGT
65 ACCTCGACTCGATCT-TGATCATTTTATTTTGACTCGTGGTTTCATCTCGGTCGT
* * *
19613224 TTGATCTTGGCTCAGTCTAGATCATTTCTTATGATTCGTGGTTCTATCCCAATCATTCATTTTTC
1 TTGATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGGTTC-ATCCCGATCATTCATTTTT-
* ** * *
19613289 GATCTCGACTTAATCTTGTTCATTTTATTTTGACTTGTGGTTTCATCTCGGTCGT
64 GACCTCGACTCGATCTTGATCATTTTATTTTGACTCGTGGTTTCATCTCGGTCGT
* * * * *
19613344 TTGATTTTTGCTCAATCCAAATAATTTCTTATGATTCGTGGTACCATCCCGATCATTCATTTTTG
1 TTGATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGGT-TCATCCCGATCATTCATTTTTG
* * * * * *
19613409 ACCTCGACTCGATCTTGATCGTTTTATTTTGACTCGTGGTTTCGTTTCGATTGC
65 ACCTCGACTCGATCTTGATCATTTTATTTTGACTCGTGGTTTCATCTCGGTCGT
* * ** * *
19613463 TTAATCTTGGCAT-AATCCAGATCATTT-TGTATAATTTTTGGTGCCATCCCGATCATTTATTTT
1 TTGATCTTGGC-TCAATCCAGATCATTTCT-TATGATTCGTGGT-TCATCCCGATCATTCATTTT
* ** * *
19613526 TTACCTCGA-TTTAGTCTTGATCATTTCA-TTTGACTTGTGGTTT
63 TGACCTCGACTCGA-TCTTGATCATTTTATTTTGACTCGTGGTTT
19613569 AATCCCAGTC
Statistics
Matches: 489, Mismatches: 85, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
118 17 0.03
119 260 0.53
120 210 0.43
121 2 0.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (118 bp):
TTGATCTTGGCTCAATCCAGATCATTTCTTATGATTCGTGGTTCATCCCGATCATTCATTTTTGA
CCTCGACTCGATCTTGATCATTTTATTTTGACTCGTGGTTTCATCTCGGTCGT
Found at i:19613472 original size:239 final size:237
Alignment explanation
Indices: 19612866--19613568 Score: 813
Period size: 239 Copynumber: 2.9 Consensus size: 237
19612856 TCTCACTCAC
* * * * * *
19612866 TTGATCTTGGATCTATCCAAATCATTTCATATGATTCATGGTTCATCCTGATCATTCATTTTTTT
1 TTGATCTTGGCTCAATCCAAATCATTTCTTATGATTCATGGTCCATCCCGATCATTCA-TTTTTG
* * * *
19612931 ACCTCAACTCGATCTTGGTAATTTTATTTTGACTCGTGGTTTCATCCCGGTCGTTTGATCTTGGC
65 ACCTCGACTCGATCTTGGTAGTTTTATTTTGACTCGTGGTTTCATCTCGATCGTTTGATCTTGGC
* *
19612996 TTAGTCCAGATCATTTCTTACGATTCGTGGTT-TCATCCCGATCATTCATTTTTGACCTCGACTC
130 -TAGTCCAGATCATTTCTTATGATTCGTGGTTCT-ATCCCGATCATTCATTTTTGACCTCGACTT
* * *
19613060 GATCCTGATCATTTTATTTTGACTCGTGGTTTCATCTCGGATCAT
193 AATCTTGATCATTTTATTTTGACTTGTGGTTTCATCTCGGATCAT
* * **
19613105 TTGATCTTGGCTCAATTCAGATCATTTCTTATGATTCATGGTTCTGTCCCGATCATTCATTTTTG
1 TTGATCTTGGCTCAATCCAAATCATTTCTTATGATTCATGG-TCCATCCCGATCATTCATTTTTG
* * * * * *
19613170 ACCTTGACTTGGT-TCTGGTTGTTTTATTTTAACTCATGGTTTCATCTCGATCGTTTGATCTTGG
65 ACCTCGACTCGATCT-TGGTAGTTTTATTTTGACTCGTGGTTTCATCTCGATCGTTTGATCTTGG
* * *
19613234 CTCAGTCTAGATCATTTCTTATGATTCGTGGTTCTATCCCAATCATTCATTTTTCGATCTCGACT
129 CT-AGTCCAGATCATTTCTTATGATTCGTGGTTCTATCCCGATCATTCATTTTT-GACCTCGACT
* *
19613299 TAATCTTGTTCATTTTATTTTGACTTGTGGTTTCATCTCGG-TCGT
192 TAATCTTGATCATTTTATTTTGACTTGTGGTTTCATCTCGGATCAT
* * * *
19613344 TTGATTTTTGCTCAATCCAAATAATTTCTTATGATTCGTGGTACCATCCCGATCATTCATTTTTG
1 TTGATCTTGGCTCAATCCAAATCATTTCTTATGATTCATGGT-CCATCCCGATCATTCATTTTTG
* * * * * * *
19613409 ACCTCGACTCGATCTTGATCGTTTTATTTTGACTCGTGGTTTCGTTTCGATTGCTTAATCTTGGC
65 ACCTCGACTCGATCTTGGTAGTTTTATTTTGACTCGTGGTTTCATCTCGATCGTTTGATCTTGGC
* * ** * * * * *
19613474 ATAATCCAGATCATTT-TGTATAATTTTTGGTGCCATCCCGATCATTTATTTTTTACCTCGATTT
130 -TAGTCCAGATCATTTCT-TATGATTCGTGGTTCTATCCCGATCATTCATTTTTGACCTCGACTT
* *
19613538 AGTCTTGATCATTTCA-TTTGACTTGTGGTTT
193 AATCTTGATCATTTTATTTTGACTTGTGGTTT
19613569 AATCCCAGTC
Statistics
Matches: 390, Mismatches: 65, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
237 15 0.04
238 25 0.06
239 289 0.74
240 61 0.16
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (237 bp):
TTGATCTTGGCTCAATCCAAATCATTTCTTATGATTCATGGTCCATCCCGATCATTCATTTTTGA
CCTCGACTCGATCTTGGTAGTTTTATTTTGACTCGTGGTTTCATCTCGATCGTTTGATCTTGGCT
AGTCCAGATCATTTCTTATGATTCGTGGTTCTATCCCGATCATTCATTTTTGACCTCGACTTAAT
CTTGATCATTTTATTTTGACTTGTGGTTTCATCTCGGATCAT
Found at i:19613777 original size:26 final size:26
Alignment explanation
Indices: 19613693--19613781 Score: 92
Period size: 26 Copynumber: 3.5 Consensus size: 26
19613683 GCTGTAGACA
* *
19613693 CCCAGTTT-GTCTAGGCCTAATTGGG
1 CCCATTTTGGTCTAGGCCCAATTGGG
* * * *
19613718 CCCATTCTAG-CTCAAGCCCAATTAGG
1 CCCATTTTGGTCT-AGGCCCAATTGGG
*
19613744 TCCATTTTGGTCTAGGCCCAATTGGG
1 CCCATTTTGGTCTAGGCCCAATTGGG
19613770 CCCATTTTGGTC
1 CCCATTTTGGTC
19613782 CAATTAAATA
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
25 8 0.16
26 40 0.80
27 2 0.04
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.31
Consensus pattern (26 bp):
CCCATTTTGGTCTAGGCCCAATTGGG
Found at i:19613960 original size:22 final size:22
Alignment explanation
Indices: 19613935--19613979 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19613925 TCTTGTCTTG
19613935 ACAGAATGCAATCCCAAGAATC
1 ACAGAATGCAATCCCAAGAATC
*
19613957 ACAGAATGCAATCCCAGGAATC
1 ACAGAATGCAATCCCAAGAATC
19613979 A
1 A
19613980 AGCCTAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.27, G:0.16, T:0.13
Consensus pattern (22 bp):
ACAGAATGCAATCCCAAGAATC
Found at i:19614689 original size:18 final size:18
Alignment explanation
Indices: 19614660--19614706 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
19614650 GGTCGTAGGT
* *
19614660 TTTTCTTTTTTTATTTTCA
1 TTTTATTTTTTGATTTT-A
19614679 TTTTATTTTTTGATTTTA
1 TTTTATTTTTTGATTTTA
19614697 TTTTATTTTT
1 TTTTATTTTT
19614707 AACCCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTATTTTTTGATTTTA
Found at i:19618231 original size:24 final size:23
Alignment explanation
Indices: 19618200--19618244 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
19618190 TAATATATAT
*
19618200 AAATTATACTAGTTTGATATTAA
1 AAATTATACTAATTTGATATTAA
*
19618223 AAATATATATTAATTTGATATT
1 AAAT-TATACTAATTTGATATT
19618245 TTCAATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (23 bp):
AAATTATACTAATTTGATATTAA
Found at i:19618301 original size:24 final size:24
Alignment explanation
Indices: 19618268--19618316 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
19618258 ATAAATTATA
*
19618268 ATTTGTGTTATATTTATTATTTTT
1 ATTTGCGTTATATTTATTATTTTT
19618292 ATTTGCGTTATATTTATTATTTTT
1 ATTTGCGTTATATTTATTATTTTT
19618316 A
1 A
19618317 ATAAATTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.02, G:0.08, T:0.67
Consensus pattern (24 bp):
ATTTGCGTTATATTTATTATTTTT
Found at i:19622980 original size:9 final size:9
Alignment explanation
Indices: 19622958--19622998 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
19622948 ATTTTTAAAC
*
19622958 AAAAAAAAT
1 AAAAAATAT
*
19622967 TAAAAATAT
1 AAAAAATAT
19622976 AAAAAATAT
1 AAAAAATAT
19622985 AAAAAAATAT
1 -AAAAAATAT
19622995 AAAA
1 AAAA
19622999 TTTTTGGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAATAT
Found at i:19622981 original size:10 final size:10
Alignment explanation
Indices: 19622968--19622998 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
19622958 AAAAAAAATT
19622968 AAAAATAT-A
1 AAAAATATAA
19622977 AAAAATATAA
1 AAAAATATAA
19622987 AAAAATATAA
1 AAAAATATAA
19622997 AA
1 AA
19622999 TTTTTGGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATATAA
Found at i:19622999 original size:17 final size:16
Alignment explanation
Indices: 19622960--19623000 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
19622950 TTTTAAACAA
*
19622960 AAAAAATTAAAAATAT
1 AAAAAATTAAAAAAAT
19622976 AAAAAATATAAAAAAAT
1 AAAAAAT-TAAAAAAAT
*
19622993 ATAAAATT
1 AAAAAATT
19623001 TTTGGAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATTAAAAAAAT
Found at i:19633736 original size:10 final size:10
Alignment explanation
Indices: 19633721--19633782 Score: 79
Period size: 10 Copynumber: 5.9 Consensus size: 10
19633711 TGCTTAAGAG
19633721 GAAAAAAAAA
1 GAAAAAAAAA
19633731 GAAAAAAAAA
1 GAAAAAAAAA
19633741 GAAAAAAAAA
1 GAAAAAAAAA
*
19633751 TTAAGAAAAAAA
1 -GAA-AAAAAAA
*
19633763 AAAAAAGAAAA
1 GAAAAA-AAAA
19633774 GAAAAAAAA
1 GAAAAAAAA
19633783 GGACTCAAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
10 26 0.57
11 13 0.28
12 7 0.15
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:19633749 original size:14 final size:14
Alignment explanation
Indices: 19633722--19633783 Score: 81
Period size: 14 Copynumber: 4.5 Consensus size: 14
19633712 GCTTAAGAGG
*
19633722 AAAAAA-AAAGAAA
1 AAAAAAGAAAAAAA
19633735 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
**
19633749 AATTAAGAAAAAAA
1 AAAAAAGAAAAAAA
*
19633763 AAAAAAGAAAAGAA
1 AAAAAAGAAAAAAA
19633777 AAAAAAG
1 AAAAAAG
19633784 GACTCAAGGC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
13 6 0.14
14 36 0.86
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (14 bp):
AAAAAAGAAAAAAA
Found at i:19633798 original size:1 final size:1
Alignment explanation
Indices: 19633722--19633782 Score: 59
Period size: 1 Copynumber: 61.0 Consensus size: 1
19633712 GCTTAAGAGG
* * ** * * *
19633722 AAAAAAAAAGAAAAAAAAAGAAAAAAAAATTAAGAAAAAAAAAAAAAGAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19633783 GGACTCAAGG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (1 bp):
A
Found at i:19634722 original size:21 final size:21
Alignment explanation
Indices: 19634696--19634736 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19634686 AATCTAAGAA
*
19634696 TTTCAAAGGAGAATATTTGAG
1 TTTCAAAGAAGAATATTTGAG
*
19634717 TTTCAAAGAAGAATCTTTGA
1 TTTCAAAGAAGAATATTTGA
19634737 AGTGTAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (21 bp):
TTTCAAAGAAGAATATTTGAG
Found at i:19635237 original size:41 final size:41
Alignment explanation
Indices: 19635168--19635479 Score: 372
Period size: 41 Copynumber: 7.8 Consensus size: 41
19635158 ATTGTCAAAA
* *
19635168 AGCCATTTATTTTGTCAAAGTT-TGTTGCCTCTATTTAGATG
1 AGCCATTTATTTT-TTAAAGTTCTGTTGCCTCTATTCAGATG
* * *
19635209 AGCCATTTATTTTTTGAAGTTCTATTGCCTCTGTTCAGATG
1 AGCCATTTATTTTTTAAAGTTCTGTTGCCTCTATTCAGATG
* *
19635250 AGCCATTTATTTTTTGAAGTTCTATTGCCTCTATTCAGATG
1 AGCCATTTATTTTTTAAAGTTCTGTTGCCTCTATTCAGATG
** * *
19635291 AGCCATTTATTTTCCAAAGTTC-GTTGCCTCTGTTCAGAGG
1 AGCCATTTATTTTTTAAAGTTCTGTTGCCTCTATTCAGATG
*
19635331 AGCCATTTA----TT--AGTTCTGTTGCCTCTATTCAGAGG
1 AGCCATTTATTTTTTAAAGTTCTGTTGCCTCTATTCAGATG
* * *
19635366 AGCCATTTATTTTTCAAAGTTCTGTTGCCTTTATTCAAATG
1 AGCCATTTATTTTTTAAAGTTCTGTTGCCTCTATTCAGATG
* *
19635407 AGCCATTTATTTTCTAAAGTTCTGTTGCCTCTATTTC-GAGG
1 AGCCATTTATTTTTTAAAGTTCTGTTGCCTCTA-TTCAGATG
* *
19635448 AGCCATTTATTTTTCACAGTTCTGTTGCCTCT
1 AGCCATTTATTTTTTAAAGTTCTGTTGCCTCT
19635480 GTTAGAGGAG
Statistics
Matches: 235, Mismatches: 27, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
34 5 0.02
35 26 0.11
39 1 0.00
40 30 0.13
41 170 0.72
42 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (41 bp):
AGCCATTTATTTTTTAAAGTTCTGTTGCCTCTATTCAGATG
Found at i:19635413 original size:157 final size:156
Alignment explanation
Indices: 19635186--19635490 Score: 443
Period size: 157 Copynumber: 1.9 Consensus size: 156
19635176 ATTTTGTCAA
* * ** * *
19635186 AGTTTGTTGCCTCTATTTAGATGAGCCATTTATTTTTTGAAGTTCTATTGCCTCTGTTCAGATGA
1 AGTTTGTTGCCTCTATTCAGAGGAGCCATTTATTTTTCAAAGTTCTATTGCCTCTATTCAAATGA
* * *
19635251 GCCATTTATTTTTTGAAGTTCTATTGCCTCTA-TTCAGATGAGCCATTTATTTTCCAAAGTTC-G
66 GCCATTTATTTTCTAAAGTTCTATTGCCTCTATTTC-GAGGAGCCATTTATTTTCCAAAGTTCTG
19635314 TTGCCTCTGTTCAGAGGAGCCATTTATT
130 TTGCCTCTGTT-AGAGGAGCCATTTATT
* *
19635342 AGTTCTGTTGCCTCTATTCAGAGGAGCCATTTATTTTTCAAAGTTCTGTTGCCTTTATTCAAATG
1 AGTT-TGTTGCCTCTATTCAGAGGAGCCATTTATTTTTCAAAGTTCTATTGCCTCTATTCAAATG
* * *
19635407 AGCCATTTATTTTCTAAAGTTCTGTTGCCTCTATTTCGAGGAGCCATTTATTTTTCACAGTTCTG
65 AGCCATTTATTTTCTAAAGTTCTATTGCCTCTATTTCGAGGAGCCATTTATTTTCCAAAGTTCTG
19635472 TTGCCTCTGTTAGAGGAGC
130 TTGCCTCTGTTAGAGGAGC
19635491 TTTGCTTACT
Statistics
Matches: 132, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
156 4 0.03
157 113 0.86
158 15 0.11
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (156 bp):
AGTTTGTTGCCTCTATTCAGAGGAGCCATTTATTTTTCAAAGTTCTATTGCCTCTATTCAAATGA
GCCATTTATTTTCTAAAGTTCTATTGCCTCTATTTCGAGGAGCCATTTATTTTCCAAAGTTCTGT
TGCCTCTGTTAGAGGAGCCATTTATT
Found at i:19635674 original size:7 final size:7
Alignment explanation
Indices: 19635659--19635691 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
19635649 AAATAGGGCC
*
19635659 TATTTTT
1 TATTATT
19635666 TATTATT
1 TATTATT
19635673 TATTA-T
1 TATTATT
19635679 TATTATT
1 TATTATT
19635686 TATTAT
1 TATTAT
19635692 CATTATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TATTATT
Found at i:19635683 original size:13 final size:13
Alignment explanation
Indices: 19635665--19635697 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
19635655 GGCCTATTTT
19635665 TTATTATTTATTA
1 TTATTATTTATTA
19635678 TTATTATTTATTA
1 TTATTATTTATTA
*
19635691 TCATTAT
1 TTATTAT
19635698 CATTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:19643618 original size:151 final size:149
Alignment explanation
Indices: 19643335--19643626 Score: 397
Period size: 151 Copynumber: 1.9 Consensus size: 149
19643325 CCTTTAATAA
* * *
19643335 TTTTAATAATTTTTGTAGAGAATTATTAAAGGCCTTTTTTGAGAAAAAATCCTTCAATAATTTTC
1 TTTTAATAATTTTTGTAGAGAATTATTAAAGGCCTTTTTTAAGAAAAAAACCTTAAATAATTTTC
* * * * **
19643400 TTTTAAAAGTTTTTTGGGATTATTAAAAGAGTCTTCCAATAAAAAATGCCTTCAATGTTCTACTA
66 TTTTAAAAATTGTTTAGGATTATTAAAAGAGTATTCCAATAAAAAACACCTTCAATGTTCTACTA
19643465 CTAAAATTTTATCATATGC
131 CTAAAATTTTATCATATGC
* **
19643484 TTTTAATAATTTTTGTAGAGAATTATTGAAGGTGTTTTTTTAAGAAAAAACACCTTAAATAATTT
1 TTTTAATAATTTTTGTAGAGAATTATTAAAGG-CCTTTTTTAAGAAAAAA-ACCTTAAATAATTT
* * * *
19643549 TCTTTTAAAAATTGTTTAGGATTATTAAAGGTGTATTCTAATAAAAAACACCTTCAATATT-TCA
64 TCTTTTAAAAATTGTTTAGGATTATTAAAAGAGTATTCCAATAAAAAACACCTTCAATGTTCT-A
*
19643613 TTACTAAAATTTTA
128 CTACTAAAATTTTA
19643627 AGACGGTTAG
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
149 31 0.25
150 15 0.12
151 77 0.63
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (149 bp):
TTTTAATAATTTTTGTAGAGAATTATTAAAGGCCTTTTTTAAGAAAAAAACCTTAAATAATTTTC
TTTTAAAAATTGTTTAGGATTATTAAAAGAGTATTCCAATAAAAAACACCTTCAATGTTCTACTA
CTAAAATTTTATCATATGC
Found at i:19644154 original size:239 final size:239
Alignment explanation
Indices: 19643488--19644365 Score: 1015
Period size: 239 Copynumber: 3.7 Consensus size: 239
19643478 ATATGCTTTT
* *
19643488 AATAATTTTTGTAGAGAATTATTGAAGGTGTTTTTTTAAGAAAAAACACCTTAAATAATTTTCTT
1 AATAATTTTTGTACAGAATTATTGAAGGTG-TTTTTTAAGAAAAAACACCTTCAATAATTTTCTT
* * *
19643553 TTAAAAATTGTTTAGG-ATTATTAAAGGTGTATTCTAATAAAAAACACCTTCAATATTTCATTAC
65 TTAAAAATTGTTT-GGAATTATTAAAGGTGTCTTCTAATGAAAAACACCTTCAATATTTCACTAC
* * * * * *
19643617 TAAAATTTTAAGACGG-TTAGTGAAGGCATTTATTCCAAAAAAATGCCTTCACTAATTCGTTCTA
129 TAAAATTTTAA-AGGGATTAGTGAAGGCATTTATTTCAGAAAAACGCATTTACTAATTCGTTCTA
* * *
19643681 ATTTTTGAAAGAATTTATTAAAGGTATTTTTTGTAGTATACGCCTTC
193 ATTTTTGAAAGAATTTATTGAAGGCATTTTTTGTATTATACGCCTTC
* * * * * *
19643728 GATAATTTTTGTAGAGAATTATTAAAGGTGTTTCTTGAGAAAAAACATCTTCAATAATTTT-TTT
1 AATAATTTTTGTACAGAATTATTGAAGGTGTTTTTTAAGAAAAAACACCTTCAATAATTTTCTTT
* * * ** *
19643792 AAAAAAAAATTATTTGGAATTATTAAAGGTATCTTCTAAT-AGAAAATGCCTTCAATATTCCACT
66 ---TAAAAATTGTTTGGAATTATTAAAGGTGTCTTCTAATGA-AAAACACCTTCAATATTTCACT
** * * *
19643856 ACTAAAATTTT-AAGACAGTTAGTGAAGGTATTTA-TTCTAGAAAAACACAATCT-CTAATTCGT
127 ACTAAAATTTTAAAGGGA-TTAGTGAAGGCATTTATTTC-AGAAAAACGC-ATTTACTAATTCGT
* * * * * *
19643918 TCTAATTTTTGAAAAAACTTATTGAAGGCGTTTTTTGCATTATACACCTTT
189 TCTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGTATTATACGCCTTC
* * *
19643969 AATAATTTTTGTACAGAATTATTGAAGGTATTTTTTAATAACAAATC-CCTTCAATAA-TTTCTT
1 AATAATTTTTGTACAGAATTATTGAAGGTGTTTTTTAAGAA-AAAACACCTTCAATAATTTTC-T
* * * *
19644032 TTTAAAAATTGTTTGGAATTACTAAAGGTGTCTTTTAGTGAAAAATACCTTCAATA-TTCTACTA
64 TTTAAAAATTGTTTGGAATTATTAAAGGTGTCTTCTAATGAAAAACACCTTCAATATTTC-ACTA
* * *
19644096 CTAAAATTTTAAAGGGATTATTAAAGGCGTTTATTTCAGAAAAACGCATTTACTAATTCGTTCTA
128 CTAAAATTTTAAAGGGATTAGTGAAGGCATTTATTTCAGAAAAACGCATTTACTAATTCGTTCTA
*
19644161 ATTTTTGAAAGCATTTATTGAAGGCATTTTTTGTATTATACGCCTTC
193 ATTTTTGAAAGAATTTATTGAAGGCATTTTTTGTATTATACGCCTTC
* * **
19644208 AATAATTTTTGTACAGAATTATTGAAGGTGTTTTTTTAGAACAAATGCCTTCAATAATTTTCTTT
1 AATAATTTTTGTACAGAATTATTGAAGGTGTTTTTTAAGAAAAAACACCTTCAATAATTTTCTTT
* * * *
19644273 TAAAAATTGTTT-GAGACTATTAAAGGCGTCTTCTAGTG-AAAACACATTCAATATTTCACTACT
66 TAAAAATTGTTTGGA-ATTATTAAAGGTGTCTTCTAATGAAAAACACCTTCAATATTTCACTACT
* * *
19644336 AAACTTTTAAAGGGGTTATTGAAGGCATTT
130 AAAATTTTAAAGGGATTAGTGAAGGCATTT
19644366 TTTGCATTAT
Statistics
Matches: 535, Mismatches: 82, Indels: 44
0.81 0.12 0.07
Matches are distributed among these distances:
238 57 0.11
239 246 0.46
240 49 0.09
241 175 0.33
242 8 0.01
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (239 bp):
AATAATTTTTGTACAGAATTATTGAAGGTGTTTTTTAAGAAAAAACACCTTCAATAATTTTCTTT
TAAAAATTGTTTGGAATTATTAAAGGTGTCTTCTAATGAAAAACACCTTCAATATTTCACTACTA
AAATTTTAAAGGGATTAGTGAAGGCATTTATTTCAGAAAAACGCATTTACTAATTCGTTCTAATT
TTTGAAAGAATTTATTGAAGGCATTTTTTGTATTATACGCCTTC
Found at i:19645247 original size:28 final size:27
Alignment explanation
Indices: 19645176--19645253 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
19645166 TTCTTTAAGT
*
19645176 ATATTGGTTTGCTGAATTGTATTGTGTG
1 ATATTGGTTTGCTGAA-TGTATTGTATG
* *
19645204 ATATTGTTTTGTTGAATGATATTAG-ATG
1 ATATTGGTTTGCTGAATG-TATT-GTATG
*
19645232 ATATTGGTATGCTGAATCGTAT
1 ATATTGGTTTGCTGAAT-GTAT
19645254 GCTGAATGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
27 2 0.05
28 37 0.90
29 2 0.05
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.47
Consensus pattern (27 bp):
ATATTGGTTTGCTGAATGTATTGTATG
Found at i:19645271 original size:12 final size:12
Alignment explanation
Indices: 19645236--19645342 Score: 79
Period size: 12 Copynumber: 8.8 Consensus size: 12
19645226 TAGATGATAT
*
19645236 TGGTATGCTGAA
1 TGGTTTGCTGAA
* *
19645248 TCGTATGCTGAA
1 TGGTTTGCTGAA
*
19645260 TGGTTTGTTGAA
1 TGGTTTGCTGAA
* *
19645272 CGGGTTGCTGAA
1 TGGTTTGCTGAA
*
19645284 TGGTGTTTCTGAA
1 TGGT-TTGCTGAA
19645297 TGGTTTGCTGAA
1 TGGTTTGCTGAA
* *
19645309 GGGTGTTTCTGAA
1 TGGT-TTGCTGAA
*** *
19645322 TACATTGCTGAT
1 TGGTTTGCTGAA
19645334 TGGTTTGCT
1 TGGTTTGCT
19645343 AAATAGTATT
Statistics
Matches: 71, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
12 53 0.75
13 18 0.25
ACGTcount: A:0.18, C:0.10, G:0.32, T:0.40
Consensus pattern (12 bp):
TGGTTTGCTGAA
Found at i:19645295 original size:13 final size:13
Alignment explanation
Indices: 19645279--19645322 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
19645269 GAACGGGTTG
19645279 CTGAATGGTGTTT
1 CTGAATGGTGTTT
*
19645292 CTGAATGGT-TTG
1 CTGAATGGTGTTT
*
19645304 CTGAAGGGTGTTT
1 CTGAATGGTGTTT
19645317 CTGAAT
1 CTGAAT
19645323 ACATTGCTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.18, C:0.09, G:0.32, T:0.41
Consensus pattern (13 bp):
CTGAATGGTGTTT
Found at i:19645304 original size:25 final size:25
Alignment explanation
Indices: 19645243--19645322 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
19645233 TATTGGTATG
* *
19645243 CTGAATCGTATGCTGAATGGT-TTGT
1 CTGAATGGTTTGCTGAATGGTGTT-T
* *
19645268 -TGAACGGGTTGCTGAATGGTGTTT
1 CTGAATGGTTTGCTGAATGGTGTTT
*
19645292 CTGAATGGTTTGCTGAAGGGTGTTT
1 CTGAATGGTTTGCTGAATGGTGTTT
19645317 CTGAAT
1 CTGAAT
19645323 ACATTGCTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 17 0.37
25 29 0.63
ACGTcount: A:0.19, C:0.10, G:0.33, T:0.39
Consensus pattern (25 bp):
CTGAATGGTTTGCTGAATGGTGTTT
Found at i:19645329 original size:25 final size:25
Alignment explanation
Indices: 19645276--19645332 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
19645266 GTTGAACGGG
* ***
19645276 TTGCTGAATGGTGTTTCTGAATGGT
1 TTGCTGAAGGGTGTTTCTGAATACA
19645301 TTGCTGAAGGGTGTTTCTGAATACA
1 TTGCTGAAGGGTGTTTCTGAATACA
19645326 TTGCTGA
1 TTGCTGA
19645333 TTGGTTTGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.40
Consensus pattern (25 bp):
TTGCTGAAGGGTGTTTCTGAATACA
Found at i:19647754 original size:20 final size:20
Alignment explanation
Indices: 19647729--19647779 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
19647719 ATTATATATC
19647729 TTTTATTTCTTCA-TAAGTAA
1 TTTTATTTCTT-ATTAAGTAA
*
19647749 TTTTATTTATGTATTAAGTAA
1 TTTTATTTCT-TATTAAGTAA
19647770 TTTT-TTTCTT
1 TTTTATTTCTT
19647780 TTCAATTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 14 0.52
21 12 0.44
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (20 bp):
TTTTATTTCTTATTAAGTAA
Found at i:19651989 original size:37 final size:37
Alignment explanation
Indices: 19651948--19652021 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
19651938 TTTGGTATTA
* *
19651948 TTAAATTCAAATTATTTTAGA-TT-AAAATTATTAAATT
1 TTAAAATCAAATTAATTTA-ATTTCAAAATT-TTAAATT
19651985 TTAAAATCAAATTAATTTAATTTCAAAATTTTAAATT
1 TTAAAATCAAATTAATTTAATTTCAAAATTTTAAATT
19652022 AAATTTCATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 1 0.03
37 26 0.79
38 6 0.18
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
TTAAAATCAAATTAATTTAATTTCAAAATTTTAAATT
Found at i:19652012 original size:22 final size:21
Alignment explanation
Indices: 19651972--19652013 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
19651962 TTTTAGATTA
*
19651972 AAATTATTAAATTTTAAAATC
1 AAATTATTAAATTTCAAAATC
*
19651993 AAATTAATTTAATTTCAAAAT
1 AAATT-ATTAAATTTCAAAAT
19652014 TTTAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTATTAAATTTCAAAATC
Found at i:19654604 original size:78 final size:78
Alignment explanation
Indices: 19654475--19654626 Score: 286
Period size: 78 Copynumber: 1.9 Consensus size: 78
19654465 ACCTTTCCGT
*
19654475 TTAATAAGTTTTTTCCACCATAGATTGCCCAGTTTCAAAGTACTTCTTGTGTTTTAGTTGTCAAC
1 TTAATAAGTTTTTTCCACCACAGATTGCCCAGTTTCAAAGTACTTCTTGTGTTTTAGTTGTCAAC
19654540 TTTGATTTAAGAG
66 TTTGATTTAAGAG
*
19654553 TTAATAAGTTTTTTCCACCACAGATTGCCCAGTTTCAAAGTACTTCTTGTGTTTTGGTTGTCAAC
1 TTAATAAGTTTTTTCCACCACAGATTGCCCAGTTTCAAAGTACTTCTTGTGTTTTAGTTGTCAAC
19654618 TTTGATTTA
66 TTTGATTTA
19654627 GGAGATGAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.44
Consensus pattern (78 bp):
TTAATAAGTTTTTTCCACCACAGATTGCCCAGTTTCAAAGTACTTCTTGTGTTTTAGTTGTCAAC
TTTGATTTAAGAG
Found at i:19656600 original size:18 final size:18
Alignment explanation
Indices: 19656579--19656618 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
19656569 TATGACAATT
19656579 ATGAAAAC-GATGATGATG
1 ATGAAAACAG-TGATGATG
*
19656597 ATGACAACAGTGATGATG
1 ATGAAAACAGTGATGATG
19656615 ATGA
1 ATGA
19656619 TGATGAGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.23
Consensus pattern (18 bp):
ATGAAAACAGTGATGATG
Found at i:19656799 original size:3 final size:3
Alignment explanation
Indices: 19656791--19656825 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
19656781 TGAAATGCAA
* *
19656791 TTG TTG TTG TTG TTG TTG ATG TTG TTG ATG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
19656826 TCTTTTGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.06, C:0.00, G:0.31, T:0.63
Consensus pattern (3 bp):
TTG
Found at i:19656805 original size:9 final size:9
Alignment explanation
Indices: 19656792--19656825 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
19656782 GAAATGCAAT
*
19656792 TGTTGTTGT
1 TGTTGTTGA
19656801 TGTTGTTGA
1 TGTTGTTGA
19656810 TGTTGTTGA
1 TGTTGTTGA
19656819 TGTTGTT
1 TGTTGTT
19656826 TCTTTTGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.06, C:0.00, G:0.32, T:0.62
Consensus pattern (9 bp):
TGTTGTTGA
Found at i:19659991 original size:2 final size:2
Alignment explanation
Indices: 19659984--19660021 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
19659974 CAAATGTGTA
*
19659984 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19660022 TGTCAACTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:19662853 original size:2 final size:2
Alignment explanation
Indices: 19662846--19662874 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19662836 TATTTATTAC
19662846 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19662875 GTTCTTAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19663767 original size:20 final size:21
Alignment explanation
Indices: 19663722--19663774 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
19663712 CAACATAAAA
*
19663722 TTAATTTTGATTTATAATATT
1 TTAATTTTAATTTATAATATT
19663743 TTAATTTTAATTT-TAAT-TT
1 TTAATTTTAATTTATAATATT
*
19663762 TATAATTATAATT
1 T-TAATTTTAATT
19663775 AAATCACATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 3 0.10
20 14 0.48
21 12 0.41
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTAATTTTAATTTATAATATT
Found at i:19672933 original size:52 final size:52
Alignment explanation
Indices: 19672871--19672972 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
19672861 TCCAAAAATA
* * * *
19672871 CCTTAAATAATGTCCTATAAAAAATTAAATGGAATTATTTAAGGCCTTTTTG
1 CCTTAAATAATCTCCTACAAAAAATTAAATAGAATTATTTAAGGCATTTTTG
* *
19672923 CCTTAAATAATCTCCTACAAAAAATTGATTAGAATTATTTAAGGCATTTT
1 CCTTAAATAATCTCCTACAAAAAATTAAATAGAATTATTTAAGGCATTTT
19672973 CGGCCATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (52 bp):
CCTTAAATAATCTCCTACAAAAAATTAAATAGAATTATTTAAGGCATTTTTG
Found at i:19673006 original size:63 final size:63
Alignment explanation
Indices: 19672921--19673385 Score: 209
Period size: 63 Copynumber: 7.5 Consensus size: 63
19672911 AAGGCCTTTT
*
19672921 TGCCTTAAATAATCTCC-TACAAAAAATTGATTAGAATTATTTAAGGCATTTTCGGCCATAAAA
1 TGCCTTAAATAATC-CCTTACAAAAAATTGATTAGAATTATTTAAGGCATTTTCGGCCAAAAAA
* * * * ** **
19672984 TGCATTAAATAATCCCTTACAAAAAATTAAATT-GGATTATTTAAAGTG-TTTTTTAG-TTAAAA
1 TGCCTTAAATAATCCCTTACAAAAAATT-GATTAGAATTATTT-AAG-GCATTTTCGGCCAAAAA
19673046 A
63 A
* * * ***
19673047 TGCCTTAAATAATCTCC-TA-AAAAAATTGA--AAAACATATTTAAAGCATTTTCTAACAAAAAA
1 TGCCTTAAATAATC-CCTTACAAAAAATTGATTAGAA-TTATTTAAGGCATTTTCGGCCAAAAAA
* * * * * * * *
19673108 TGCCTTAGATAAT-TCTATTC--AATATT-TTTAAGAGATTATTTAAGGCCTTTTTTGGCTAAAA
1 TGCCTTAAATAATCCCT-TACAAAAAATTGATT-AGA-ATTATTTAAGG-CATTTTCGGCCAAAA
19673169 AA
62 AA
**** * * ** *
19673171 TATAATAAATAATCCCTTACAAAAAATTGAATAGGATTATTTAAGGTGTTTTC-TCACAAAAAA
1 TGCCTTAAATAATCCCTTACAAAAAATTGATTAGAATTATTTAAGGCATTTTCGGC-CAAAAAA
* * * * *
19673234 TGCCTTAAATAAT-CCTCTA-AAAAAATTGAATAGCATTATTTAAAGCATTTTTTGGCCAGAAAC
1 TGCCTTAAATAATCCCT-TACAAAAAATTGATTAGAATTATTTAAGGCA-TTTTCGGCCA-AAAA
19673297 A
63 A
* * ** ** * * *
19673298 --CATTAAATAAT-TC-T-C-ATCAATTTTTTAAGAGATTATTTAAAGTATTTT-TGCCAAAAAA
1 TGCCTTAAATAATCCCTTACAAAAAATTGATT-AGA-ATTATTTAAGGCATTTTCGGCCAAAAAA
*
19673356 TGCCTTAAATAAACCCTTACAAAAAATTGA
1 TGCCTTAAATAATCCCTTACAAAAAATTGA
19673386 AAGGGCAAAA
Statistics
Matches: 287, Mismatches: 80, Indels: 69
0.66 0.18 0.16
Matches are distributed among these distances:
58 4 0.01
59 12 0.04
60 28 0.10
61 37 0.13
62 60 0.21
63 101 0.35
64 36 0.13
65 8 0.03
66 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.35
Consensus pattern (63 bp):
TGCCTTAAATAATCCCTTACAAAAAATTGATTAGAATTATTTAAGGCATTTTCGGCCAAAAAA
Found at i:19673198 original size:187 final size:187
Alignment explanation
Indices: 19672989--19673337 Score: 481
Period size: 187 Copynumber: 1.9 Consensus size: 187
19672979 TAAAATGCAT
* * **
19672989 TAAATAATCCCTTACAAAAAATTAAATTGGATTATTTAAAGTGTTTT-TTAGTTAAAAATGCCTT
1 TAAATAATCCCTTACAAAAAATTAAATAGGATTATTTAAAGTGTTTTCTCA-CAAAAAATGCCTT
** * *
19673053 AAATAAT-CTCCTAAAAAAATTGAAAAACA-TATTTAAAGCATTTTCTAACAAAAAATGCCTTAG
65 AAATAATCCT-CTAAAAAAATTGAAAAACATTATTTAAAGCATTTTCTAACAAAAAACACATTAA
19673116 ATAATTCT-ATTCAATATTTTTAAGAGATTATTTAAGGCCTTTTTTGGCTAAAAAATATAA
129 ATAATTCTCA-TCAAT-TTTTTAAGAGATTATTTAAGGCCTTTTTTGGCTAAAAAATATAA
* *
19673176 TAAATAATCCCTTACAAAAAATTGAATAGGATTATTTAAGGTGTTTTCTCACAAAAAATGCCTTA
1 TAAATAATCCCTTACAAAAAATTAAATAGGATTATTTAAAGTGTTTTCTCACAAAAAATGCCTTA
* * * ** * *
19673241 AATAATCCTCTAAAAAAATTGAATAGCATTATTTAAAGCATTTTTTGGCCAGAAACACATTAAAT
66 AATAATCCTCTAAAAAAATTGAAAAACATTATTTAAAGCATTTTCTAACAAAAAACACATTAAAT
19673306 AATTCTCATCAATTTTTTAAGAGATTATTTAA
131 AATTCTCATCAATTTTTTAAGAGATTATTTAA
19673338 AGTATTTTTG
Statistics
Matches: 141, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
187 98 0.70
188 42 0.30
189 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.37
Consensus pattern (187 bp):
TAAATAATCCCTTACAAAAAATTAAATAGGATTATTTAAAGTGTTTTCTCACAAAAAATGCCTTA
AATAATCCTCTAAAAAAATTGAAAAACATTATTTAAAGCATTTTCTAACAAAAAACACATTAAAT
AATTCTCATCAATTTTTTAAGAGATTATTTAAGGCCTTTTTTGGCTAAAAAATATAA
Found at i:19673272 original size:126 final size:125
Alignment explanation
Indices: 19672926--19673289 Score: 328
Period size: 126 Copynumber: 2.9 Consensus size: 125
19672916 CTTTTTGCCT
* * * *
19672926 TAAATAATCTCCTACAAAAAATTGATTAGAATTATTTAAGGCATTTTCGGC-CATAAAATGCATT
1 TAAATAATCTCCTACAAAAAATTGAATAGAATTATTTAAGGCATTTTC-TCACAAAAAATGCCTT
* ** * * * **
19672990 AAATAATCC-CTTACAAAAAATTAAATTGGATTATTTAAAGTGTTTTTTAG-TTAAAAATGCCT
65 AAATAATCCTC-TA-AAAAAATTAAA-TAGATTATTTAAAGCATTTTTTGGCTAAAAAATACAA
* * *
19673052 TAAATAATCTCCTA-AAAAAATTGAA-A-AACATATTTAAAGCATTTTCTAACAAAAAATGCCTT
1 TAAATAATCTCCTACAAAAAATTGAATAGAA-TTATTTAAGGCATTTTCTCACAAAAAATGCCTT
* * * * * ** * * * * *
19673114 AGATAATTCTATTCAATATTTTTAAGAGATTATTTAAGGCCTTTTTTGGCTAAAAAATATAA
65 AAATAATCCT-CTAAAAAAATTAAATAGATTATTTAAAGCATTTTTTGGCTAAAAAATACAA
* **
19673176 TAAATAATC-CCTTACAAAAAATTGAATAGGATTATTTAAGGTGTTTTCTCACAAAAAATGCCTT
1 TAAATAATCTCC-TACAAAAAATTGAATAGAATTATTTAAGGCATTTTCTCACAAAAAATGCCTT
*
19673240 AAATAATCCTCTAAAAAAATTGAATAGCATTATTTAAAGCATTTTTTGGC
65 AAATAATCCTCTAAAAAAATTAAATAG-ATTATTTAAAGCATTTTTTGGC
19673290 CAGAAACACA
Statistics
Matches: 185, Mismatches: 43, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
123 22 0.12
124 59 0.32
125 32 0.17
126 71 0.38
127 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (125 bp):
TAAATAATCTCCTACAAAAAATTGAATAGAATTATTTAAGGCATTTTCTCACAAAAAATGCCTTA
AATAATCCTCTAAAAAAATTAAATAGATTATTTAAAGCATTTTTTGGCTAAAAAATACAA
Found at i:19673422 original size:41 final size:42
Alignment explanation
Indices: 19673349--19673427 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
19673339 GTATTTTTGC
*
19673349 CAAAAAATGCCTTAAATAAACCCTTACAAAAAATTGAAAGGG
1 CAAAAAATACCTTAAATAAACCCTTACAAAAAATTGAAAGGG
* *
19673391 CAAAAAATATCTTAAAT-AATCCTCTAC-AAAAATTGAA
1 CAAAAAATACCTTAAATAAACCCT-TACAAAAAATTGAA
19673428 CAGGATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 15 0.45
42 18 0.55
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.23
Consensus pattern (42 bp):
CAAAAAATACCTTAAATAAACCCTTACAAAAAATTGAAAGGG
Found at i:19677659 original size:15 final size:15
Alignment explanation
Indices: 19677635--19677668 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
19677625 AAATCAACAT
*
19677635 GAGGAGAAAGAAAAA
1 GAGGAAAAAGAAAAA
19677650 GAGGAAAAAGAAAAA
1 GAGGAAAAAGAAAAA
19677665 GAGG
1 GAGG
19677669 TGATGATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
GAGGAAAAAGAAAAA
Found at i:19688850 original size:22 final size:22
Alignment explanation
Indices: 19688811--19688866 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
19688801 TAAAATATTT
*
19688811 TTAAAATTATTTTTAATAATCAA
1 TTAAAATTA-ATTTAATAATCAA
*
19688834 TTAAAATTAATTTAATAATTAA
1 TTAAAATTAATTTAATAATCAA
*
19688856 -TAAAAATAATT
1 TTAAAATTAATT
19688867 CAATTGATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 10 0.33
22 11 0.37
23 9 0.30
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAAATTAATTTAATAATCAA
Found at i:19688937 original size:2 final size:2
Alignment explanation
Indices: 19688930--19688961 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19688920 AGTTTTGCAC
19688930 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
19688962 GTAGCTATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19703576 original size:472 final size:472
Alignment explanation
Indices: 19702709--19703576 Score: 964
Period size: 472 Copynumber: 1.8 Consensus size: 472
19702699 GTAGTAGGTG
* **
19702709 GGTTTAGGCACATATTTATATTTTTCCCATGCCAATGCCATTTTTATGGCTTGTAAATTCATATA
1 GGTTTAGGCACATATCTATATTTTTCCCACACCAATGCCATTTTTATGGCTTGTAAATTCATATA
* * ** * * *
19702774 AGTGCTCACCAGTGCTCGCACCTAGACCTGGCTCAATTTTGCCATACCTAAACACTGTGCTTAAG
66 AGTGCTCACCAGTGCCCACACCTAGACCTAACACAATTTTGCCAAACCTAAACACTGTGCCTAAG
* * * * *
19702839 CCTCTAGAGTCTTAATCATCGCCCATACCACTGTTTTGGGCTAGTTCCCCATGACCTAGGCCTCC
131 CCTCTAGAATCTTAATCATCACCCATACCACTATTTTAGGCTAGTTCCCCATAACCTAGGCCTCC
* * * * *
19702904 AGTAGGCCTCGAACCCTGGTTTTCATTACTATTTGAACCTATTCTTCTAAAACTAGAATTGCTCC
196 AGTAGGCCTCGAACCCTAGTTTTCATGACTATTAGAACCTATTCTACTAAAACTAGAACTGCTCC
* * * * *** *
19702969 TTAACTTGAAGAGAACCTTTGGGCCTATACCAGCTTACGGTCTATGGCACATGCGCATGCCTTGA
261 TTAACTCGAAGAGAACCTGTAGGCCTAGACCAGCTTACAAACTATGGCACATGCGCATGCCTCGA
* * * * * *
19703034 GCACTATCGGGACATGTTACCCTTTGGTCTTGGTACATGTTTTAACCACCATTTGCACATGCTAG
326 CCACTATCGGGACATGTTACCCTTTGATCTTGGCACATGTTTAAACCACCATTGGCACACGCTAG
19703099 CCCTTTGTGCAAGTAGTTACTTCAAACACCATTGGCATATGTTTGGCCATACACCAAGTATACCA
391 CCCTTTGTGCAAGTAGTTACTTCAAACACCATTGGCATATGTTTGGCCATACACCAAGTATACCA
19703164 TGACCAGGCAATATATT
456 TGACCAGGCAATATATT
* *
19703181 GGTTTAGGCACATCTCTATATTTTTGCCACACCAATGCCATTTTTCA-GGCTTGTAAATTCATAT
1 GGTTTAGGCACATATCTATATTTTTCCCACACCAATGCCATTTTT-ATGGCTTGTAAATTCATAT
** * * * *
19703245 AAGTGCTCACCAGTGCCCACACCTAGGTCTAACACAATTTTGTCAAACTTGAACACTGTGCCTGA
65 AAGTGCTCACCAGTGCCCACACCTAGACCTAACACAATTTTGCCAAACCTAAACACTGTGCCTAA
* * * * *
19703310 GCCTCTAGAAT-TATGATCA-CTACCCATACCATTATTTTAGGCTAGTTCCCTATAACTTGGGCC
130 GCCTCTAGAATCT-TAATCATC-ACCCATACCACTATTTTAGGCTAGTTCCCCATAACCTAGGCC
* * * * * * * *
19703373 TCTAGTAGGCCTC-AAGGCCTAGTTCTTC-TGGCTGTTAGACCCTA-TCATACTAGAATTGGAAC
193 TCCAGTAGGCCTCGAA-CCCTAGTT-TTCATGACTATTAGAACCTATTC-TACTAAAACTAGAAC
* * * * * *
19703435 TGTTCTTTGACTCGGAGAGAA-CTCGTAGGCCTAGACTAGCTTGCAAACTATGGCACATG-GACA
255 TGCTCCTTAACTCGAAGAGAACCT-GTAGGCCTAGACCAGCTTACAAACTATGGCACATGCG-CA
** * * *
19703498 TTTCTCGACCACTATTGGGACATGTTGGCCC-TTGATCTTTGCACAT-TCTTAAACCACCATTGG
318 TGCCTCGACCACTATCGGGACATGTT-ACCCTTTGATCTTGGCACATGT-TTAAACCACCATTGG
* *
19703561 CACACGTTGGCCCTTT
381 CACACGCTAGCCCTTT
19703577 ATACAAGCAA
Statistics
Matches: 318, Mismatches: 68, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
471 10 0.03
472 301 0.95
473 7 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (472 bp):
GGTTTAGGCACATATCTATATTTTTCCCACACCAATGCCATTTTTATGGCTTGTAAATTCATATA
AGTGCTCACCAGTGCCCACACCTAGACCTAACACAATTTTGCCAAACCTAAACACTGTGCCTAAG
CCTCTAGAATCTTAATCATCACCCATACCACTATTTTAGGCTAGTTCCCCATAACCTAGGCCTCC
AGTAGGCCTCGAACCCTAGTTTTCATGACTATTAGAACCTATTCTACTAAAACTAGAACTGCTCC
TTAACTCGAAGAGAACCTGTAGGCCTAGACCAGCTTACAAACTATGGCACATGCGCATGCCTCGA
CCACTATCGGGACATGTTACCCTTTGATCTTGGCACATGTTTAAACCACCATTGGCACACGCTAG
CCCTTTGTGCAAGTAGTTACTTCAAACACCATTGGCATATGTTTGGCCATACACCAAGTATACCA
TGACCAGGCAATATATT
Found at i:19713270 original size:22 final size:23
Alignment explanation
Indices: 19713245--19713291 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
19713235 TGTTTTTAGG
*
19713245 TGTG-CCCACACCTAGGTTTGAC
1 TGTGACCCACACCTAGGTCTGAC
*
19713267 TGTGCACCCACACCTGGGTCTGAC
1 TGTG-ACCCACACCTAGGTCTGAC
19713291 T
1 T
19713292 ATGAGCCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
24 17 0.81
ACGTcount: A:0.17, C:0.34, G:0.23, T:0.26
Consensus pattern (23 bp):
TGTGACCCACACCTAGGTCTGAC
Found at i:19729820 original size:25 final size:25
Alignment explanation
Indices: 19729762--19729816 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
19729752 ATATAATAAT
19729762 ATAA-ATCATACCAAATATCATGTA
1 ATAATATCATACCAAATATCATGTA
*
19729786 ATAATATCATACCTAA-ATCATGCTA
1 ATAATATCATACCAAATATCATG-TA
19729811 A-AATAT
1 ATAATAT
19729817 TCATGCAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (25 bp):
ATAATATCATACCAAATATCATGTA
Found at i:19730240 original size:21 final size:22
Alignment explanation
Indices: 19730204--19730244 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
19730194 ATGCAAATAG
19730204 ATATATAATCAAGCAATTAACA
1 ATATATAATCAAGCAATTAACA
*
19730226 ATATA-AATCATGCAATTAA
1 ATATATAATCAAGCAATTAA
19730245 ATATATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATATAATCAAGCAATTAACA
Found at i:19730250 original size:21 final size:20
Alignment explanation
Indices: 19730188--19730250 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
19730178 AAATAACTTA
* *
19730188 ATAATCATGCAAATAGATAT
1 ATAATCATGCAATTAAATAT
*
19730208 ATAATCAAGCAATTAACA-AT
1 ATAATCATGCAATTAA-ATAT
19730228 ATAAATCATGCAATTAAATAT
1 AT-AATCATGCAATTAAATAT
19730249 AT
1 AT
19730251 TCTTATGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 18 0.50
21 18 0.50
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.30
Consensus pattern (20 bp):
ATAATCATGCAATTAAATAT
Found at i:19730270 original size:32 final size:32
Alignment explanation
Indices: 19730228--19730328 Score: 159
Period size: 32 Copynumber: 3.1 Consensus size: 32
19730218 AATTAACAAT
19730228 ATAAATCATGCAATTAAATATATTCTTATGCAA
1 ATAAA-CATGCAATTAAATATATTCTTATGCAA
19730261 ATAAACATGCAATTAAATATATTCTCT-TGCAA
1 ATAAACATGCAATTAAATATATTCT-TATGCAA
* *
19730293 ATAAACATGCAATTAAATATATTATCATGCAA
1 ATAAACATGCAATTAAATATATTCTTATGCAA
19730325 ATAA
1 ATAA
19730329 TATATAATAC
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
32 58 0.91
33 6 0.09
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.34
Consensus pattern (32 bp):
ATAAACATGCAATTAAATATATTCTTATGCAA
Found at i:19730463 original size:18 final size:18
Alignment explanation
Indices: 19730437--19730490 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 18
19730427 TATTAAAATT
*
19730437 AATAAAAAAATCAAATCA
1 AATAGAAAAATCAAATCA
*
19730455 AATAG-AAAATCAAACCA
1 AATAGAAAAATCAAATCA
* *
19730472 AACAGAAAAATAAAATCA
1 AATAGAAAAATCAAATCA
19730490 A
1 A
19730491 CCTAACAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.70, C:0.13, G:0.04, T:0.13
Consensus pattern (18 bp):
AATAGAAAAATCAAATCA
Found at i:19730492 original size:22 final size:22
Alignment explanation
Indices: 19730460--19730512 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
19730450 AATCAAATAG
19730460 AAAATCAAACCAAACAGAAAAAT
1 AAAATCAAACCAAACA-AAAAAT
*
19730483 AAAATC-AACCTAACAAAAAAT
1 AAAATCAAACCAAACAAAAAAT
*
19730504 AAAACCAAA
1 AAAATCAAA
19730513 TAAAAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 11 0.41
22 10 0.37
23 6 0.22
ACGTcount: A:0.70, C:0.19, G:0.02, T:0.09
Consensus pattern (22 bp):
AAAATCAAACCAAACAAAAAAT
Found at i:19730555 original size:15 final size:15
Alignment explanation
Indices: 19730516--19730553 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
19730506 AACCAAATAA
19730516 AAATCAAAATAAAAT
1 AAATCAAAATAAAAT
*
19730531 AAATCAAAAT-AATT
1 AAATCAAAATAAAAT
19730545 AAATCAAAA
1 AAATCAAAA
19730554 ATCAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATCAAAATAAAAT
Found at i:19731509 original size:12 final size:12
Alignment explanation
Indices: 19731483--19731559 Score: 65
Period size: 12 Copynumber: 6.6 Consensus size: 12
19731473 ACTTTTGACC
*
19731483 AAAAT-AAACTT
1 AAAATCAAAATT
19731494 AAAATCAAAATT
1 AAAATCAAAATT
*
19731506 AAAAATCCAAA-T
1 -AAAATCAAAATT
19731518 -AAA-CAATAATT
1 AAAATCAA-AATT
*
19731529 -AAATAAATAATT
1 AAAATCAA-AATT
19731541 AAAATCAAAATT
1 AAAATCAAAATT
19731553 AAAATCA
1 AAAATCA
19731560 GCATGTTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
9 2 0.04
10 5 0.09
11 9 0.16
12 24 0.44
13 15 0.27
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAATCAAAATT
Found at i:19731851 original size:42 final size:41
Alignment explanation
Indices: 19731805--19731941 Score: 114
Period size: 42 Copynumber: 3.2 Consensus size: 41
19731795 TTTTTTTTAA
*
19731805 AAAAAAAAAAGCACTTCTACAACTGAGGCTTTGAAACTCTTG
1 AAAAAAAAAAGCACTCCTACAACTGAGGCTTTGAAACT-TTG
* * * * *
19731847 AAAAATGAAATGCTCCCCTACAACTGAGGCTTTGGAACTTTGG
1 AAAAA-AAAAAGCACTCCTACAACTGAGGCTTTGAAACTTT-G
* * * * *
19731890 AAAATAAAATGCTA-TCCCATAACAGAGGCTTTGAAACTTTTG
1 AAAAAAAAAAGC-ACTCCTACAACTGAGGCTTTGAAAC-TTTG
*
19731932 AAAAATAAAA
1 AAAAAAAAAA
19731942 TGAAATCATT
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
42 39 0.53
43 35 0.47
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (41 bp):
AAAAAAAAAAGCACTCCTACAACTGAGGCTTTGAAACTTTG
Found at i:19731851 original size:43 final size:42
Alignment explanation
Indices: 19731804--19731943 Score: 147
Period size: 43 Copynumber: 3.3 Consensus size: 42
19731794 CTTTTTTTTA
* * *
19731804 AAAAAAAAAAAGCACTTCTACAACTGAGGCTTTGAAACTCTTG
1 AAAAATAAAATGCACTCCTACAACTGAGGCTTTGAAACT-TTG
* * * *
19731847 AAAAATGAAATGCTCCCCTACAACTGAGGCTTTGGAACTTTG
1 AAAAATAAAATGCACTCCTACAACTGAGGCTTTGAAACTTTG
* * * *
19731889 GAAAATAAAATGCTA-TCCCATAACAGAGGCTTTGAAACTTTTG
1 AAAAATAAAATGC-ACTCCTACAACTGAGGCTTTGAAAC-TTTG
19731932 AAAAATAAAATG
1 AAAAATAAAATG
19731944 AAATCATTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 32 0.41
43 47 0.59
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (42 bp):
AAAAATAAAATGCACTCCTACAACTGAGGCTTTGAAACTTTG
Found at i:19732134 original size:13 final size:13
Alignment explanation
Indices: 19732116--19732140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19732106 TTCCAAACAT
19732116 ATGCAATGAATGC
1 ATGCAATGAATGC
19732129 ATGCAATGAATG
1 ATGCAATGAATG
19732141 AAAATATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (13 bp):
ATGCAATGAATGC
Found at i:19740311 original size:16 final size:16
Alignment explanation
Indices: 19740290--19740330 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
19740280 AAAGATACTT
19740290 ATGTATGAATGAATGG
1 ATGTATGAATGAATGG
*
19740306 ATGTATGAATGCATGG
1 ATGTATGAATGAATGG
19740322 ATGTATGAA
1 ATGTATGAA
19740331 CCCAATAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (16 bp):
ATGTATGAATGAATGG
Found at i:19743799 original size:101 final size:101
Alignment explanation
Indices: 19743681--19743883 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
19743671 TAACCATACA
19743681 ATTATGCACCCAATAAGTATAGAAACATGTAATTAAATATCTTTCAAATATAATACTAATCATGC
1 ATTATGCACCCAATAAGTATAGAAACATGTAATTAAATATCTTTCAAATATAATACTAATCATGC
19743746 CATAACATATAATATCATATCATGCAATTAACAATC
66 CATAACATATAATATCATATCATGCAATTAACAATC
19743782 ATTATGCACCCAATAAGTATAGAAACATGTAATTAAATATCTTTCAAATATAATACTAATCATGC
1 ATTATGCACCCAATAAGTATAGAAACATGTAATTAAATATCTTTCAAATATAATACTAATCATGC
19743847 CATAACATATAATATCATATCATGCAATTAACAATC
66 CATAACATATAATATCATATCATGCAATTAACAATC
19743883 A
1 A
19743884 CACTAATATA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.32
Consensus pattern (101 bp):
ATTATGCACCCAATAAGTATAGAAACATGTAATTAAATATCTTTCAAATATAATACTAATCATGC
CATAACATATAATATCATATCATGCAATTAACAATC
Found at i:19744041 original size:21 final size:21
Alignment explanation
Indices: 19743981--19744043 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
19743971 ATAACTTAAT
* * *
19743981 AATCATGCAAATAGATATAT-
1 AATCATGCAAATAAACATGTA
* *
19744001 AATCAAGC-AATTAACAATGTA
1 AATCATGCAAATAAAC-ATGTA
19744022 AATCATGCAAATAAACATGTA
1 AATCATGCAAATAAACATGTA
19744043 A
1 A
19744044 TTTAATACAT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
19 4 0.12
20 10 0.30
21 13 0.39
22 6 0.18
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (21 bp):
AATCATGCAAATAAACATGTA
Found at i:19749855 original size:28 final size:29
Alignment explanation
Indices: 19749802--19749867 Score: 107
Period size: 28 Copynumber: 2.3 Consensus size: 29
19749792 GGCCTATGAT
19749802 AGTTGGTATCAAAAGCTAGTTCTAATCGA
1 AGTTGGTATCAAAAGCTAGTTCTAATCGA
* *
19749831 AGTTGGTATC-ATAGCTAGTTTTAATCGA
1 AGTTGGTATCAAAAGCTAGTTCTAATCGA
19749859 AGTTGGTAT
1 AGTTGGTAT
19749868 TAGAGTACGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 25 0.71
29 10 0.29
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (29 bp):
AGTTGGTATCAAAAGCTAGTTCTAATCGA
Found at i:19749879 original size:28 final size:28
Alignment explanation
Indices: 19749802--19749880 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
19749792 GGCCTATGAT
* *
19749802 AGTTGGTATCAAAAGCTAGTTCTAATCGA
1 AGTTGGTATC-AGAGCTAGTTTTAATCGA
*
19749831 AGTTGGTATCATAGCTAGTTTTAATCGA
1 AGTTGGTATCAGAGCTAGTTTTAATCGA
*
19749859 AGTTGGTATTAGAG-TACGTTTT
1 AGTTGGTATCAGAGCTA-GTTTT
19749881 GAAGCTTTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 2 0.04
28 33 0.73
29 10 0.22
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (28 bp):
AGTTGGTATCAGAGCTAGTTTTAATCGA
Found at i:19750052 original size:20 final size:20
Alignment explanation
Indices: 19750020--19750062 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
19750010 AGTTAGCCAA
* *
19750020 TAGGATGCTTGAGTGCTCTT
1 TAGGATGCTTGAGAGATCTT
19750040 TAGGATG-TGTGAGAGATCTT
1 TAGGATGCT-TGAGAGATCTT
19750060 TAG
1 TAG
19750063 TTCAAGCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.21, C:0.09, G:0.33, T:0.37
Consensus pattern (20 bp):
TAGGATGCTTGAGAGATCTT
Found at i:19752506 original size:18 final size:19
Alignment explanation
Indices: 19752464--19752505 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19752454 CTCATTTTGT
* *
19752464 ATTTTTCATGATTTTTGGA
1 ATTTTTCATGAGTTTGGGA
19752483 ATTTTTCATG-GTTTGGG-
1 ATTTTTCATGAGTTTGGGA
19752500 ATTTTT
1 ATTTTT
19752506 TTGAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 5 0.24
19 10 0.48
ACGTcount: A:0.17, C:0.05, G:0.19, T:0.60
Consensus pattern (19 bp):
ATTTTTCATGAGTTTGGGA
Found at i:19755141 original size:6 final size:6
Alignment explanation
Indices: 19755132--19755248 Score: 66
Period size: 6 Copynumber: 19.0 Consensus size: 6
19755122 AGTTTTATAT
* * *
19755132 GTAAGG GTAAGGG GTAAGGGG GT-AGG TGTAACG GT-AGAG GTAAAG GTAAAG
1 GTAAGG GTAA-GG GTAA--GG GTAAGG -GTAAGG GTAAG-G GTAAGG GTAAGG
*
19755183 GTAAGG GT-AGG G-ATA-G GTAAGGG GTAAGG GTAAAG GTAAGGG GTAAGG
1 GTAAGG GTAAGG GTA-AGG GTAA-GG GTAAGG GTAAGG GTAA-GG GTAAGG
*
19755231 GTAAAG GT-AGAG GTAAGG
1 GTAAGG GTAAG-G GTAAGG
19755249 TTAGAGGTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 28
0.71 0.06 0.22
Matches are distributed among these distances:
5 11 0.12
6 51 0.57
7 22 0.25
8 5 0.06
ACGTcount: A:0.34, C:0.01, G:0.48, T:0.17
Consensus pattern (6 bp):
GTAAGG
Found at i:19755174 original size:12 final size:12
Alignment explanation
Indices: 19755132--19755257 Score: 73
Period size: 12 Copynumber: 10.2 Consensus size: 12
19755122 AGTTTTATAT
*
19755132 GTAAGGGTAAGGG
1 GTAAGGGT-AGAG
19755145 GTAAGGGGGTAG-G
1 GTAA--GGGTAGAG
*
19755158 TGTAACGGTAGAG
1 -GTAAGGGTAGAG
* *
19755171 GTAAAGGTAAAG
1 GTAAGGGTAGAG
19755183 GTAAGGGTAG-G
1 GTAAGGGTAGAG
*
19755194 G-ATA-GGTAAGGG
1 GTA-AGGGT-AGAG
*
19755206 GTAAGGGTAAAG
1 GTAAGGGTAGAG
19755218 GTAAGGGGTA-AGG
1 GTAA-GGGTAGA-G
*
19755231 GTAAAGGTAGAG
1 GTAAGGGTAGAG
*
19755243 GTAAGGTTAGAG
1 GTAAGGGTAGAG
19755255 GTA
1 GTA
19755258 TGATATAGGG
Statistics
Matches: 91, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
10 4 0.04
11 5 0.05
12 51 0.56
13 21 0.23
14 6 0.07
15 4 0.04
ACGTcount: A:0.34, C:0.01, G:0.47, T:0.18
Consensus pattern (12 bp):
GTAAGGGTAGAG
Found at i:19755330 original size:20 final size:20
Alignment explanation
Indices: 19755202--19755318 Score: 55
Period size: 19 Copynumber: 5.8 Consensus size: 20
19755192 GGGATAGGTA
19755202 AGGGGTAAGG-GTAAAG-GT
1 AGGGGTAAGGTGTAAAGAGT
19755220 AAGGGGTAAGG-GTAAAG-GT
1 -AGGGGTAAGGTGTAAAGAGT
* *
19755239 AGAGGTAAGGT-TAGAGGTATGAT
1 AGGGGTAAGGTGTA-AAG-A-G-T
* * ** *
19755262 ATAGGGTAATGTGTATGGGGT
1 A-GGGGTAAGGTGTAAAGAGT
*
19755283 AAGGGGTAAGGGGTAAAGAGT
1 -AGGGGTAAGGTGTAAAGAGT
*
19755304 AGAGGTAAGGTGTAA
1 AGGGGTAAGGTGTAA
19755319 GGATGAGGGG
Statistics
Matches: 74, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
18 11 0.15
19 20 0.27
20 13 0.18
21 14 0.19
22 3 0.04
23 2 0.03
24 9 0.12
25 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.44, T:0.21
Consensus pattern (20 bp):
AGGGGTAAGGTGTAAAGAGT
Found at i:19755508 original size:6 final size:6
Alignment explanation
Indices: 19755460--19755519 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
19755450 ACGTAAGTAT
* * * * *
19755460 GGGGTA AGGGTA AGGGTA GAGGTA AGGCTA GGGGTA GGGGTA GGGGTA
1 GGGGTA GGGGTA GGGGTA GGGGTA GGGGTA GGGGTA GGGGTA GGGGTA
*
19755508 GAGGTA GGGGTA
1 GGGGTA GGGGTA
19755520 TAGGGGTAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.25, C:0.02, G:0.57, T:0.17
Consensus pattern (6 bp):
GGGGTA
Found at i:19755581 original size:97 final size:97
Alignment explanation
Indices: 19755493--19755706 Score: 331
Period size: 97 Copynumber: 2.2 Consensus size: 97
19755483 AAGGCTAGGG
* *
19755493 GTAGGGGTAGGGGT-AGAGGTAGGGGTATAGGGGTAAATATAGGGGTGAAGGTTAGGGTAAAGGT
1 GTAGGGGTAGGGGTAAG-GGTAGGGGTATAAGAGTAAATATAGGGGTGAAGGTTAGGGTAAAGGT
* *
19755557 TATGGTTGGTGTAGGTATAGGGTAAAGTATGTT
65 TATGGTTGGTATAGGTATAGGGTAAGGTATGTT
* * * *
19755590 GTAGGGGTAGGGGTAAGGGTATGGGTATAAGAGTAAATGTAGGGGTGAGGGTTAGGGTAGAGGTT
1 GTAGGGGTAGGGGTAAGGGTAGGGGTATAAGAGTAAATATAGGGGTGAAGGTTAGGGTAAAGGTT
*
19755655 ATGGTTGGTATAGGTATAGGATAAGGTATGTT
66 ATGGTTGGTATAGGTATAGGGTAAGGTATGTT
19755687 GTAGGGGTAGGGGTAAGGGT
1 GTAGGGGTAGGGGTAAGGGT
19755707 GAGAATAAGG
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
97 105 0.98
98 2 0.02
ACGTcount: A:0.26, C:0.00, G:0.46, T:0.28
Consensus pattern (97 bp):
GTAGGGGTAGGGGTAAGGGTAGGGGTATAAGAGTAAATATAGGGGTGAAGGTTAGGGTAAAGGTT
ATGGTTGGTATAGGTATAGGGTAAGGTATGTT
Found at i:19755956 original size:23 final size:24
Alignment explanation
Indices: 19755925--19755991 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
19755915 TGTAGTAAAG
19755925 TGGGTGTAAGGGTGAGGGTA-GGGA
1 TGGG-GTAAGGGTGAGGGTAGGGGA
* *
19755949 TGGGGTAA-GGTATAGGGTAGGGGT
1 TGGGGTAAGGGT-GAGGGTAGGGGA
* *
19755973 TGGGGTAGGGGTGGGGGTA
1 TGGGGTAAGGGTGAGGGTA
19755992 ATGCTAAGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.09
23 10 0.29
24 19 0.54
25 3 0.09
ACGTcount: A:0.18, C:0.00, G:0.60, T:0.22
Consensus pattern (24 bp):
TGGGGTAAGGGTGAGGGTAGGGGA
Found at i:19756346 original size:12 final size:12
Alignment explanation
Indices: 19756293--19756583 Score: 88
Period size: 12 Copynumber: 25.3 Consensus size: 12
19756283 GAGGGGGTTA
*
19756293 GGGTAAGGATAG
1 GGGTAAGGGTAG
* *
19756305 GGGTAAAGGTGG
1 GGGTAAGGGTAG
19756317 GGGT-AGGGCTAG
1 GGGTAAGGG-TAG
** * *
19756329 ATGTAGGGGTAA
1 GGGTAAGGGTAG
19756341 GGGT-A-GGTATG
1 GGGTAAGGGTA-G
19756352 GGGTAAGGGTA-
1 GGGTAAGGGTAG
* *
19756363 AGGTAAGGTTA-
1 GGGTAAGGGTAG
19756374 GGGTAAGGGT-G
1 GGGTAAGGGTAG
*
19756385 AGG-ACGAGGGT-G
1 GGGTA--AGGGTAG
19756397 AGGGTAAGGGTAG
1 -GGGTAAGGGTAG
**
19756410 GGGTGGGGGTA-
1 GGGTAAGGGTAG
* * *
19756421 -GGTATGGCTTGG
1 GGGTAAGG-GTAG
* *
19756433 GGGT-CGAGGTGG
1 GGGTAAG-GGTAG
19756445 GGGT-AGGAGTAG
1 GGGTAAGG-GTAG
19756457 GGGTAAGGGTAG
1 GGGTAAGGGTAG
19756469 GGGT-AGGGT--
1 GGGTAAGGGTAG
*
19756478 TGG--A-GGTAG
1 GGGTAAGGGTAG
*
19756487 GGGTAAGGGTCG
1 GGGTAAGGGTAG
*
19756499 GGGT-A-GGTATT
1 GGGTAAGGGTA-G
* *
19756510 TGGTAA-GGTATA
1 GGGTAAGGGTA-G
*
19756522 GGGTAGGGGTAG
1 GGGTAAGGGTAG
*
19756534 GGGTAGGGGTA-
1 GGGTAAGGGTAG
19756545 GGGT-AGGGTAG
1 GGGTAAGGGTAG
* *
19756556 GGGTGAGGGTAA
1 GGGTAAGGGTAG
*
19756568 GGGTAAGGATAG
1 GGGTAAGGGTAG
19756580 GGGT
1 GGGT
19756584 GACGGTAAGG
Statistics
Matches: 208, Mismatches: 44, Indels: 54
0.68 0.14 0.18
Matches are distributed among these distances:
7 3 0.01
8 1 0.00
9 4 0.02
10 18 0.09
11 46 0.22
12 114 0.55
13 21 0.10
14 1 0.00
ACGTcount: A:0.22, C:0.02, G:0.56, T:0.20
Consensus pattern (12 bp):
GGGTAAGGGTAG
Found at i:19756356 original size:17 final size:18
Alignment explanation
Indices: 19756334--19756367 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
19756324 GCTAGATGTA
19756334 GGGGTAAGGGT-AGGTAT
1 GGGGTAAGGGTAAGGTAT
19756351 GGGGTAAGGGTAAGGTA
1 GGGGTAAGGGTAAGGTA
19756368 AGGTTAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.00, G:0.53, T:0.21
Consensus pattern (18 bp):
GGGGTAAGGGTAAGGTAT
Found at i:19756468 original size:18 final size:18
Alignment explanation
Indices: 19756444--19756882 Score: 124
Period size: 18 Copynumber: 24.2 Consensus size: 18
19756434 GGTCGAGGTG
* *
19756444 GGGGTAGGAGTAGGGGTA
1 GGGGTAGGGGTAAGGGTA
* *
19756462 AGGGTAGGGGT-AGGGTT
1 GGGGTAGGGGTAAGGGTA
*
19756479 GGAGGTAGGGGTAAGGGTC
1 GG-GGTAGGGGTAAGGGTA
19756498 GGGGTAGGTATTTGGTAA-GGTA
1 GGGGTAGG-----GGTAAGGGTA
* *
19756520 TAGGGTAGGGGTAGGGGTA
1 -GGGGTAGGGGTAAGGGTA
19756539 GGGGTA-GGGT-AGGGTA
1 GGGGTAGGGGTAAGGGTA
19756555 GGGGT-GAGGGTAAGGGTA
1 GGGGTAG-GGGTAAGGGTA
* * * *
19756573 AGGATAGGGGTGACGGTA
1 GGGGTAGGGGTAAGGGTA
* *
19756591 AGGGTGGGGGT-A-GGTA
1 GGGGTAGGGGTAAGGGTA
** * * *
19756607 TGTTGTA-GTGTTAGGTTA
1 -GGGGTAGGGGTAAGGGTA
* ** *
19756625 GGGGTATGGGTAAAAGAA
1 GGGGTAGGGGTAAGGGTA
*
19756643 GGGGT-GGTGTAAGGGTA
1 GGGGTAGGGGTAAGGGTA
* *
19756660 TGGGTAGGGATAGGTATGAGGTA
1 GGGGTA-GG---GGTAAG-GGTA
* * * *
19756683 AGGGTAGCGGTAAAGATA
1 GGGGTAGGGGTAAGGGTA
*
19756701 GGGGTAAGGGT-A-GGTGA
1 GGGGTAGGGGTAAGGGT-A
* *
19756718 AGGGTAGTGGTAAGGGTA
1 GGGGTAGGGGTAAGGGTA
* *
19756736 TGGGT-GGCGTAA-GGT-
1 GGGGTAGGGGTAAGGGTA
* *
19756751 GGGTGTTGGGTTAGAGGTTGACATA
1 GGG-GTAGGGGTA-AGG--G---TA
*
19756776 GGGGTAGGGGTAGGGGTA
1 GGGGTAGGGGTAAGGGTA
19756794 GGGGTAGGGGT-AGGGTA
1 GGGGTAGGGGTAAGGGTA
*
19756811 -GGGTAGGGCTAAGGGTA
1 GGGGTAGGGGTAAGGGTA
* * * ***
19756828 AGGGT--CGATATTCGTA
1 GGGGTAGGGGTAAGGGTA
* *
19756844 AGGGT-GGGTGTAGGGGTA
1 GGGGTAGGG-GTAAGGGTA
19756862 GGGGTAGGGGTAAGGGTA
1 GGGGTAGGGGTAAGGGTA
19756880 GGG
1 GGG
19756883 CTATGGCTAG
Statistics
Matches: 306, Mismatches: 74, Indels: 82
0.66 0.16 0.18
Matches are distributed among these distances:
15 2 0.01
16 44 0.14
17 63 0.21
18 128 0.42
19 25 0.08
21 2 0.01
22 8 0.03
23 23 0.08
24 8 0.03
25 3 0.01
ACGTcount: A:0.22, C:0.02, G:0.54, T:0.22
Consensus pattern (18 bp):
GGGGTAGGGGTAAGGGTA
Found at i:19756533 original size:6 final size:6
Alignment explanation
Indices: 19756522--19756583 Score: 67
Period size: 6 Copynumber: 10.7 Consensus size: 6
19756512 GTAAGGTATA
*
19756522 GGGTAG GGGTAG GGGTAG GGGTA- GGGTA- GGGTAG GGGT-G AGGGTAA
1 GGGTAG GGGTAG GGGTAG GGGTAG GGGTAG GGGTAG GGGTAG -GGGTAG
* *
19756568 GGGTAA GGATAG GGGT
1 GGGTAG GGGTAG GGGT
19756584 GACGGTAAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
5 11 0.22
6 38 0.78
ACGTcount: A:0.21, C:0.00, G:0.61, T:0.18
Consensus pattern (6 bp):
GGGTAG
Found at i:19756602 original size:12 final size:12
Alignment explanation
Indices: 19756511--19756595 Score: 59
Period size: 12 Copynumber: 7.2 Consensus size: 12
19756501 GTAGGTATTT
19756511 GGTAA-GGTATAG
1 GGTAAGGGTA-AG
* *
19756523 GGTAGGGGTAGG
1 GGTAAGGGTAAG
*
19756535 GGTAGGGGT-AG
1 GGTAAGGGTAAG
*
19756546 GGT-AGGGTAGG
1 GGTAAGGGTAAG
*
19756557 GGTGAGGGTAAG
1 GGTAAGGGTAAG
* *
19756569 GGTAAGGATAGG
1 GGTAAGGGTAAG
* *
19756581 GGTGACGGTAAG
1 GGTAAGGGTAAG
19756593 GGT
1 GGT
19756596 GGGGGTAGGT
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
10 4 0.07
11 8 0.14
12 41 0.72
13 4 0.07
ACGTcount: A:0.24, C:0.01, G:0.56, T:0.19
Consensus pattern (12 bp):
GGTAAGGGTAAG
Found at i:19756714 original size:12 final size:12
Alignment explanation
Indices: 19756679--19756740 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
19756669 ATAGGTATGA
*
19756679 GGTAAGGGTAGC
1 GGTAAGGGTAGG
* *
19756691 GGTAAAGATAGG
1 GGTAAGGGTAGG
19756703 GGTAAGGGTAGG
1 GGTAAGGGTAGG
* *
19756715 TG-AAGGGTAGT
1 GGTAAGGGTAGG
*
19756726 GGTAAGGGTATG
1 GGTAAGGGTAGG
19756738 GGT
1 GGT
19756741 GGCGTAAGGT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 9 0.23
12 30 0.77
ACGTcount: A:0.27, C:0.02, G:0.50, T:0.21
Consensus pattern (12 bp):
GGTAAGGGTAGG
Found at i:19756785 original size:6 final size:6
Alignment explanation
Indices: 19756774--19756882 Score: 89
Period size: 6 Copynumber: 17.8 Consensus size: 6
19756764 GAGGTTGACA
*
19756774 TAGGGG TAGGGG TAGGGG TAGGGG TAGGGG TA-GGG TA-GGG TAGGGC
1 TAGGGG TAGGGG TAGGGG TAGGGG TAGGGG TAGGGG TAGGGG TAGGGG
* *** *
19756820 TAAGGG TAAGGGTCG ATATTCG TAAGGG T-GGGTG TAGGGG TAGGGG TAGGGG
1 TAGGGG T-AGGG--G -TAGGGG TAGGGG TAGGG-G TAGGGG TAGGGG TAGGGG
*
19756872 TAAGGG TAGGG
1 TAGGGG TAGGG
19756883 CTATGGCTAG
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
5 12 0.14
6 61 0.73
7 7 0.08
9 2 0.02
10 1 0.01
ACGTcount: A:0.20, C:0.03, G:0.57, T:0.20
Consensus pattern (6 bp):
TAGGGG
Found at i:19757004 original size:22 final size:22
Alignment explanation
Indices: 19756978--19757021 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19756968 TTAGAGGTTG
* * *
19756978 GGGTATGGCTAGGGGTGGGGGT
1 GGGTAGGGCTAAGGGTAGGGGT
19757000 GGGTAGGGCTAAGGGTAGGGGT
1 GGGTAGGGCTAAGGGTAGGGGT
19757022 CAGTATTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.05, G:0.61, T:0.20
Consensus pattern (22 bp):
GGGTAGGGCTAAGGGTAGGGGT
Done.