Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007838.1 Hibiscus syriacus cultivar Beakdansim tig00110187_pilon, 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: 3429202
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 13
Found at i:2647020 original size:26 final size:24
Alignment explanation
Indices: 2646963--2647036 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 24
2646953 GTTTATATGT
* *
2646963 GGTCCTTCGGGACAAATTCTACGC
1 GGTCCTTCGGGAAAAATTCTACGA
2646987 GGTCCTTCGGGATAAAATTTCTACGA
1 GGTCCTTCGGGA-AAAA-TTCTACGA
* *
2647013 GG-CACTTCGGTGCAAAACTCTACG
1 GGTC-CTTCGG-GAAAAATTCTACG
2647037 CGGCACTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 12 0.29
25 10 0.24
26 19 0.45
27 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
GGTCCTTCGGGAAAAATTCTACGA
Found at i:2647282 original size:3 final size:3
Alignment explanation
Indices: 2647274--2647311 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2647264 AGTTCCTTGC
2647274 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2647312 AATTGCCTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2650007 original size:18 final size:18
Alignment explanation
Indices: 2649984--2650019 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2649974 TGATCAAAAT
* *
2649984 ATTTTATAGTCATTTTTA
1 ATTTTATAATAATTTTTA
2650002 ATTTTATAATAATTTTTA
1 ATTTTATAATAATTTTTA
2650020 GAATTGGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTATAATAATTTTTA
Found at i:2651299 original size:29 final size:28
Alignment explanation
Indices: 2651235--2651299 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
2651225 GATTTCAATA
* * *
2651235 ATTTTTCAATAATTTTAAAAATATTTTC
1 ATTTTTAAATAATTTAAAAAATAATTTC
2651263 ATTATTTAAATAATTTAAAAAATTAATTT-
1 ATT-TTTAAATAATTTAAAAAA-TAATTTC
2651292 ATATTTTA
1 AT-TTTTA
2651300 TAATTAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.10
29 22 0.71
30 6 0.19
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTTTTAAATAATTTAAAAAATAATTTC
Found at i:2658787 original size:119 final size:119
Alignment explanation
Indices: 2658574--2658792 Score: 393
Period size: 119 Copynumber: 1.8 Consensus size: 119
2658564 TAAAATATTA
*
2658574 AAAGTACACAACAAAGCTTATCCTAAAAATTAAAACATTATATTATATTATATCAATATATCTAA
1 AAAGTACACAACAAAGCTGATCCTAAAAATTAAAACATTATATTATATTATATCAATATATCTAA
*
2658639 GTTTTTCCCTTTATTAAATATTTTGGAAATTAATGGCGAACCCAAGTTAATCTT
66 ATTTTTCCCTTTATTAAATATTTTGGAAATTAATGGCGAACCCAAGTTAATCTT
*
2658693 AAAGTATACAACAAAGCTGATCCTAAAAATTAAAACATTATATTATATTATATCAATATATCTAA
1 AAAGTACACAACAAAGCTGATCCTAAAAATTAAAACATTATATTATATTATATCAATATATCTAA
* *
2658758 ATTTTTCTCTTTATTAAATATTTTTGAAATTAATG
66 ATTTTTCCCTTTATTAAATATTTTGGAAATTAATG
2658793 ATAACCCAAT
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 95 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (119 bp):
AAAGTACACAACAAAGCTGATCCTAAAAATTAAAACATTATATTATATTATATCAATATATCTAA
ATTTTTCCCTTTATTAAATATTTTGGAAATTAATGGCGAACCCAAGTTAATCTT
Found at i:2669635 original size:20 final size:22
Alignment explanation
Indices: 2669599--2669645 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
2669589 ATTAAATCCC
2669599 TATTTTTATTGAATAAAAATAA
1 TATTTTTATTGAATAAAAATAA
* *
2669621 TATTTTT-TT-AATAAATATAT
1 TATTTTTATTGAATAAAAATAA
2669641 TATTT
1 TATTT
2669646 AGGGTCGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 2 0.09
22 7 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTTTATTGAATAAAAATAA
Found at i:2670672 original size:2 final size:2
Alignment explanation
Indices: 2670660--2670704 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
2670650 ATTCATCTTG
* *
2670660 TC TC CC TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2670702 TC T
1 TC T
2670705 TCAGAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:2672280 original size:44 final size:44
Alignment explanation
Indices: 2672232--2672392 Score: 259
Period size: 44 Copynumber: 3.7 Consensus size: 44
2672222 GCTTCAGAAT
*
2672232 AACGAGCCTCTATAATTAACAAGCACAACGTACCTTTTCGGAAC
1 AACGAGCCTCTATAATCAACAAGCACAACGTACCTTTTCGGAAC
* * *
2672276 AACGAGCCTCTATGATCAACAAGCGCAACGTACCTTTTTGGAAC
1 AACGAGCCTCTATAATCAACAAGCACAACGTACCTTTTCGGAAC
* * *
2672320 AACGAGCCTCTATGATCAACAAGCGCAACGTACCTCTTCGGAAC
1 AACGAGCCTCTATAATCAACAAGCACAACGTACCTTTTCGGAAC
2672364 AACGAGCCTCTATAATCAACAAGCACAAC
1 AACGAGCCTCTATAATCAACAAGCACAAC
2672393 CCAACAGTAA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 109 1.00
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (44 bp):
AACGAGCCTCTATAATCAACAAGCACAACGTACCTTTTCGGAAC
Found at i:2672661 original size:25 final size:25
Alignment explanation
Indices: 2672626--2672739 Score: 178
Period size: 25 Copynumber: 4.6 Consensus size: 25
2672616 CATGACATAG
*
2672626 AGTATATAATTGATCATTCTTTCTC
1 AGTATAGAATTGATCATTCTTTCTC
2672651 AGTATAGAATTGATCATTCTTTCTC
1 AGTATAGAATTGATCATTCTTTCTC
* *
2672676 AGTATAGAGTTGATCAGTCTTTCTC
1 AGTATAGAATTGATCATTCTTTCTC
*
2672701 AGTATAGAGTTGATCATTCTTTCTC
1 AGTATAGAATTGATCATTCTTTCTC
2672726 AGTAT--AATTGATCA
1 AGTATAGAATTGATCA
2672740 ATCCTCGTTT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
23 8 0.10
25 76 0.90
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (25 bp):
AGTATAGAATTGATCATTCTTTCTC
Found at i:2673798 original size:19 final size:19
Alignment explanation
Indices: 2673774--2673812 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2673764 GGTGAGTTAG
2673774 TTTTTTTATCTGTCCTATT
1 TTTTTTTATCTGTCCTATT
2673793 TTTTTTTATCTGTCCTATT
1 TTTTTTTATCTGTCCTATT
2673812 T
1 T
2673813 CAATGGCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTTTTATCTGTCCTATT
Found at i:2688651 original size:5 final size:5
Alignment explanation
Indices: 2688641--2688665 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2688631 GTATTATCAA
2688641 ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT
2688666 CACTCTAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:2692548 original size:66 final size:66
Alignment explanation
Indices: 2692439--2692575 Score: 202
Period size: 66 Copynumber: 2.1 Consensus size: 66
2692429 AACCAATGAT
* * * * *
2692439 ATTTTTCAATTGAAAATATGCAACCAATAAGATGGTGATTGTCGATTTAACGAAAGTATACCCCT
1 ATTTTTCAATTGAAAATATGCAACCAATAAGATGATGACTGTCGAATTAACCAAAGTATACCCCC
2692504 A
66 A
* **
2692505 ATTTTTCAATTGAAAATATGTAATTAATAAGATGATGACTGTCGAATTAACCAAAGTATACCCCC
1 ATTTTTCAATTGAAAATATGCAACCAATAAGATGATGACTGTCGAATTAACCAAAGTATACCCCC
2692570 A
66 A
2692571 ATTTT
1 ATTTT
2692576 GATATTTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (66 bp):
ATTTTTCAATTGAAAATATGCAACCAATAAGATGATGACTGTCGAATTAACCAAAGTATACCCCC
A
Found at i:2693377 original size:31 final size:31
Alignment explanation
Indices: 2693349--2693432 Score: 150
Period size: 31 Copynumber: 2.7 Consensus size: 31
2693339 ATAAATAATT
*
2693349 AGATAAATAAAATAAAAACATAAGAATAACC
1 AGATAATTAAAATAAAAACATAAGAATAACC
*
2693380 AGATACTTAAAATAAAAACATAAGAATAACC
1 AGATAATTAAAATAAAAACATAAGAATAACC
2693411 AGATAATTAAAATAAAAACATA
1 AGATAATTAAAATAAAAACATA
2693433 TGTATAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.65, C:0.10, G:0.06, T:0.19
Consensus pattern (31 bp):
AGATAATTAAAATAAAAACATAAGAATAACC
Found at i:2698744 original size:14 final size:14
Alignment explanation
Indices: 2698727--2698756 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2698717 TAATTTGGTC
*
2698727 ATAATTTTAATTTA
1 ATAAGTTTAATTTA
2698741 ATAAGTTTAATTTA
1 ATAAGTTTAATTTA
2698755 AT
1 AT
2698757 TTTTTAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
ATAAGTTTAATTTA
Found at i:2705914 original size:15 final size:15
Alignment explanation
Indices: 2705891--2705926 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2705881 CTCATTTTAG
*
2705891 AATTGTCCAAATTTT
1 AATTATCCAAATTTT
2705906 AATTATCCAAATTTT
1 AATTATCCAAATTTT
2705921 AATTAT
1 AATTAT
2705927 GTGATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (15 bp):
AATTATCCAAATTTT
Found at i:2708280 original size:39 final size:39
Alignment explanation
Indices: 2708236--2708317 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
2708226 TTATCAATAT
2708236 ATTATACTCGTTGACT-TATACCATGATAAATCAAGAAAA
1 ATTATACTCGTTGA-TGTATACCATGATAAATCAAGAAAA
* **
2708275 ATTATACTCGTTGATGTGTACCATGATAAATCTGGAAAA
1 ATTATACTCGTTGATGTATACCATGATAAATCAAGAAAA
2708314 ATTA
1 ATTA
2708318 CTTCTAAGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
ATTATACTCGTTGATGTATACCATGATAAATCAAGAAAA
Found at i:2714574 original size:6 final size:6
Alignment explanation
Indices: 2714563--2714599 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
2714553 ATAGTAACAC
*
2714563 ATTTTA ATTTTA ATTTTA ATTTT- ATTTAA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
2714600 ATATTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:2714594 original size:11 final size:11
Alignment explanation
Indices: 2714563--2714597 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2714553 ATAGTAACAC
2714563 ATTTTAATTTT
1 ATTTTAATTTT
2714574 AATTTTAATTTT
1 -ATTTTAATTTT
*
2714586 ATTTAAATTTT
1 ATTTTAATTTT
2714597 A
1 A
2714598 ATATATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTTTAATTTT
Found at i:2714594 original size:17 final size:18
Alignment explanation
Indices: 2714563--2714599 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
2714553 ATAGTAACAC
*
2714563 ATTTTAATTTTAATTTTA
1 ATTTTAATTTAAATTTTA
2714581 ATTTT-ATTTAAATTTTA
1 ATTTTAATTTAAATTTTA
2714598 AT
1 AT
2714600 ATATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTAATTTAAATTTTA
Found at i:2714604 original size:16 final size:17
Alignment explanation
Indices: 2714569--2714606 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2714559 ACACATTTTA
* *
2714569 ATTTTAATTTTAATTTT
1 ATTTAAATTTTAATTAT
2714586 ATTTAAATTTTAA-TAT
1 ATTTAAATTTTAATTAT
2714602 ATTTA
1 ATTTA
2714607 TTTCATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTAAATTTTAATTAT
Found at i:2716157 original size:13 final size:13
Alignment explanation
Indices: 2716139--2716163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2716129 TTTAAAATAA
2716139 ATATATATTTATT
1 ATATATATTTATT
2716152 ATATATATTTAT
1 ATATATATTTAT
2716164 GACTACATAA
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:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATATATTTATT
Found at i:2717600 original size:3 final size:3
Alignment explanation
Indices: 2717592--2717660 Score: 111
Period size: 3 Copynumber: 23.0 Consensus size: 3
2717582 TTAATATATT
* *
2717592 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2717640 TAA TAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
2717661 ATCAATATGG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2718569 original size:113 final size:113
Alignment explanation
Indices: 2717917--2718555 Score: 1152
Period size: 113 Copynumber: 5.6 Consensus size: 113
2717907 GCTCTTGATG
**
2717917 AGTTCTTCTCATTATGAACTTCTTCATCCTTCTCTTTTGATGAGTTCTTCTCATTATGAACTTCT
1 AGTTCTTCTCATTATGAACTTCTTCATCC-T-TCTTCAGATGAGTTCTTCTCATTATGAACTT-T
* * * *
2717982 TTCTGGCAAGGCTGATCCATCAATTGATGAATTCATGTAAAAGGTTGAACA
63 CTCTGGAAAAGCTGATCCATCAAGTGATGAATTCATGTAAAAGGTTGAACA
2718033 AGTTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
2718098 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGCAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGTAAAAGGTTGAACA
* * *
2718146 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCTTTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
2718211 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGTAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGTAAAAGGTTGAACA
2718259 AGTTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
2718324 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGTAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGTAAAAGGTTGAACA
2718372 AGTTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
2718437 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGTAAAAGGTTGAACA
66 TGGAAAAGCTGATCCATCAAGTGATGAATTCATGTAAAAGGTTGAACA
*
2718485 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
2718550 TGGAAA
66 TGGAAA
2718556 TGTCAATCCA
Statistics
Matches: 508, Mismatches: 15, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
113 449 0.88
114 29 0.06
115 1 0.00
116 29 0.06
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGCTGATCCATCAAGTGATGAATTCATGTAAAAGGTTGAACA
Found at i:2719500 original size:105 final size:105
Alignment explanation
Indices: 2719350--2720172 Score: 1565
Period size: 105 Copynumber: 7.8 Consensus size: 105
2719340 CCAGAAGATG
*
2719350 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
* *
2719415 GAACACTTTCAGAAGATGCTATTGAGTCTCCTTATTTTTA
66 GAACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTTTA
2719455 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
2719520 GAACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTTTA
66 GAACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTTTA
2719560 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
2719625 GAACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTTTA
66 GAACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTTTA
2719665 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
2719730 GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTA
66 GAACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTTTA
2719770 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
2719835 GAACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTTTA
66 GAACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTTTA
* *
2719875 CAATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
2719940 GAACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTTTA
66 GAACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTTTA
2719980 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
2720045 GAACACTTCCAAAATATGCTATTGAGTCTCCTTATTTTTA
66 GAACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTTTA
2720085 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
*
2720150 GAACACTTCCAGAAGATGCTATT
66 GAACACTTCCAAAAGATGCTATT
2720173 AGCAAATTGC
Statistics
Matches: 704, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 704 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (105 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAAAAGATGCTATTGAGTCTCCTTATTTTTA
Found at i:2732021 original size:17 final size:17
Alignment explanation
Indices: 2732001--2732038 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2731991 AATGAAATAT
2732001 AAAT-ATAAATACTATAA
1 AAATAATAAATA-TATAA
*
2732018 AAATAATAAGTATATAA
1 AAATAATAAATATATAA
2732035 AAAT
1 AAAT
2732039 TTGAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAATAAATATATAA
Found at i:2734188 original size:3 final size:3
Alignment explanation
Indices: 2734180--2734254 Score: 141
Period size: 3 Copynumber: 25.0 Consensus size: 3
2734170 TTAATATATT
*
2734180 TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2734228 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
2734255 ATCAATATGG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2734972 original size:200 final size:200
Alignment explanation
Indices: 2734629--2735030 Score: 786
Period size: 200 Copynumber: 2.0 Consensus size: 200
2734619 AAGAGAACTG
*
2734629 GAAATCTCAAGGGGACAATGATGCGGATGAAGGCCTTGTTCTCACCCGATTTTATAGCCTTTTTC
1 GAAATCTCAAGGGGACAATGATGCGGATGAAGGCCTTGTTATCACCCGATTTTATAGCCTTTTTC
*
2734694 AGGGGGGACAAACAGGTCATAGGGCTTTACACCAATTAATGTAAGGGTATATATTTGATGGACTG
66 AGGGGGGAAAAACAGGTCATAGGGCTTTACACCAATTAATGTAAGGGTATATATTTGATGGACTG
2734759 ACAGTATATAAACTTCATACACTGTTAAAGAATCAAATGTTGCAGCATCATTAATAAGCACTAAA
131 ACAGTATATAAACTTCATACACTGTTAAAGAATCAAATGTTGCAGCATCATTAATAAGCACTAAA
2734824 AATTT
196 AATTT
2734829 GAAATCTCAAGGGGACAATGATGCGGATGAAGGCCTTGTTATCACCCGATTTTATAGCCTTTTTC
1 GAAATCTCAAGGGGACAATGATGCGGATGAAGGCCTTGTTATCACCCGATTTTATAGCCTTTTTC
2734894 AGGGGGGAAAAACAGGTCATAGGGCTTTACACCAATTAATGTAAGGGTATATATTTGATGGACTG
66 AGGGGGGAAAAACAGGTCATAGGGCTTTACACCAATTAATGTAAGGGTATATATTTGATGGACTG
2734959 ACAGTATATAAACTTCATACACTGTTAAAGAATCAAATGTTGCAGCATCATTAATAAGCACTAAA
131 ACAGTATATAAACTTCATACACTGTTAAAGAATCAAATGTTGCAGCATCATTAATAAGCACTAAA
2735024 AATTT
196 AATTT
2735029 GA
1 GA
2735031 GATTCTTAAG
Statistics
Matches: 200, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (200 bp):
GAAATCTCAAGGGGACAATGATGCGGATGAAGGCCTTGTTATCACCCGATTTTATAGCCTTTTTC
AGGGGGGAAAAACAGGTCATAGGGCTTTACACCAATTAATGTAAGGGTATATATTTGATGGACTG
ACAGTATATAAACTTCATACACTGTTAAAGAATCAAATGTTGCAGCATCATTAATAAGCACTAAA
AATTT
Found at i:2736224 original size:164 final size:165
Alignment explanation
Indices: 2735949--2736269 Score: 484
Period size: 164 Copynumber: 2.0 Consensus size: 165
2735939 TACCTCTTCC
** *
2735949 TGTTCCAAACTGTTGTAACAAGTCCTTTAAACTAAGAGCCAATCAAGAGAGCTAAGCAAAGAATG
1 TGTTCCAAACTGTTGTAACAAGTCCCATAAACTAAGAGCCAATCAAGAGAGCGAAGCAAAGAATG
* * * * * *
2736014 CCCTAGCATATGAGACTTATGAATTTCTTCTATCACTTTAAACTCTTTTAAAATAATTTTATTTT
66 CACTACCACATGAGACTTAGGAATTTCTTCTATCACTTTAAACTCTTTTAAAATAAATTAATTTT
* *
2736079 CCTGAA-GAAGTGTTGAATACCCCCTATCTCCTAT
131 CCTAAAGGAAGTGTCGAATACCCCCTATCTCCTAT
* *
2736113 TGTTCCAAACTGTTGTAACCAGTCCCATAAACTAAGAGCCATTCAAGAGAGCGAAGCAAAGAATG
1 TGTTCCAAACTGTTGTAACAAGTCCCATAAACTAAGAGCCAATCAAGAGAGCGAAGCAAAGAATG
* *
2736178 CACTACCACATGAGACTTAGGAATTTCTTCT-TCCGCTTTTAACTCTTTTAAAATAAATTAATTT
66 CACTACCACATGAGACTTAGGAATTTCTTCTAT-CACTTTAAACTCTTTTAAAATAAATTAATTT
2736242 TCCTAAAGGAAGTGTCGAATACCCCCTA
130 TCCTAAAGGAAGTGTCGAATACCCCCTA
2736270 CAAAATGCAT
Statistics
Matches: 140, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
163 1 0.01
164 120 0.86
165 19 0.14
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (165 bp):
TGTTCCAAACTGTTGTAACAAGTCCCATAAACTAAGAGCCAATCAAGAGAGCGAAGCAAAGAATG
CACTACCACATGAGACTTAGGAATTTCTTCTATCACTTTAAACTCTTTTAAAATAAATTAATTTT
CCTAAAGGAAGTGTCGAATACCCCCTATCTCCTAT
Found at i:2740817 original size:31 final size:30
Alignment explanation
Indices: 2740779--2740870 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 30
2740769 AATGACAAAT
2740779 TTTGATAAATTTAAGGATCATTTTGTAACAG
1 TTTGATAAATTTAA-GATCATTTTGTAACAG
* ** * *
2740810 TTTGATAAGTTTAATTTCTATTTTATAATAG
1 TTTGATAAATTTAAGATC-ATTTTGTAACAG
*
2740841 TTTTATAAATTTTAATGATCATTTTGTAAC
1 TTTGATAAA-TTTAA-GATCATTTTGTAAC
2740871 TGGTTAAGTA
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
30 2 0.04
31 30 0.64
32 13 0.28
33 2 0.04
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (30 bp):
TTTGATAAATTTAAGATCATTTTGTAACAG
Found at i:2747696 original size:337 final size:334
Alignment explanation
Indices: 2746826--2747769 Score: 1427
Period size: 321 Copynumber: 2.8 Consensus size: 334
2746816 AACTCGATAA
* * *
2746826 ATTTTGATTTTTGCATGAAATTATATAATATATATAATCTAGTATAGGAAAACTTTGAGGGTAAA
1 ATTTT-ATTTTTGCATGAAATTATACAATACATATAATCTAGTATAAGAAAACTTTGAGGGTAAA
*
2746891 TATTTTAAAATATGAATAATTTTATAAAAAATTTATAACTAGTATTTCTTTTACAAAATGATGAT
65 TATTTTAAAATATGAATAATTTTAT-AAAATTTTATAACTAGTATTTCTTTTACAAAATGATGAT
2746956 GATGATGATGATTATAAATATTTTATAATTTAATAAATTATAAATTTCATATATTTTTGAAAAAT
129 GATGATGAT-A--ATAAATATTTTATAATTTAA-AAATTATAAATTTCATATATTTTTGAAAAAT
*
2747021 TTATTGATTTTTAAAATTAATTGTTTAAAAATATAAAAAAATATTAAAATAAACTTTTAATTACA
190 TTATTGACTTTTAAAATTAATTGTTT-AAAA-ATAAAAAAATATTAAAATAAACTTTTAATTACA
*
2747086 ATTGAGGGATCAAATGAATTATTATTCATTAATTATTATTTTTAACAACAGTTAATAATGTTTAT
253 ATTGAGGGATCAAATGAATTATTATTCATTAATTATTATTTTTAACAACAATTAATAATGTTTAT
2747151 TCATTTTTAATAAAATT
318 TCATTTTTAATAAAATT
* * *
2747168 ACTTTGATTTTTGCATGAAATTACACAATACATATAATTTAGTAT-AGAACAACTTTGAGGGTAA
1 A-TTTTATTTTTGCATGAAATTATACAATACATATAATCTAGTATAAGAA-AACTTTGAGGGTAA
* *
2747232 GTATTTTAAAATATG----A----AT--AATTTTATAACTAGTATTTCTTTT--ATAA--A--AT
64 ATATTTTAAAATATGAATAATTTTATAAAATTTTATAACTAGTATTTCTTTTACAAAATGATGAT
2747281 GATGATGATAATAAATATTTTATAATTTAAAAAAATTATAAATTTCATATATTTTTGAAAAATTT
129 GATGATGATAATAAATATTTTATAATTT--AAAAATTATAAATTTCATATATTTTTGAAAAATTT
2747346 ATTGACTTTTAAAATTAATTGTTTAAAAATAAAAAAATATTAAAATAAACTTTTAATTACAATTG
192 ATTGACTTTTAAAATTAATTGTTTAAAAATAAAAAAATATTAAAATAAACTTTTAATTACAATTG
**
2747411 AATGATCAAATGAATTATTATTCATTAATTATTATTTTTAACAACAATTAATAATGTTTATTCAT
257 AGGGATCAAATGAATTATTATTCATTAATTATTATTTTTAACAACAATTAATAATGTTTATTCA-
2747476 TTTTTAATAAAATT
321 TTTTTAATAAAATT
*
2747490 ATTTTATTTTTGCATGAAATTATACAATACGTATAATCTAGTATAAGAAAACTTTGAGGGTAAAT
1 ATTTTATTTTTGCATGAAATTATACAATACATATAATCTAGTATAAGAAAACTTTGAGGGTAAAT
* *
2747555 ATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAATATTTCTTTTACAAAATGATGATG
66 ATTTTAAAATATGAATAATTTTATAAAA-TTTTATAACTAGTATTTCTTTTACAAAATGATGATG
*
2747620 ATGATGATAATAAATATTTTATAATTTAAAAATTATAAATTTCATATGTTTTTTGAAAAATTTAT
130 ATGATGATAATAAATATTTTATAATTTAAAAATTATAAATTTCATAT-ATTTTTGAAAAATTTAT
* * * * *
2747685 TGACTTTTAAAATTAATTGTTTAAAAATATAAAAATATAAAAATAAATTTTTAATCACAATTTAG
194 TGACTTTTAAAATTAATTGTTTAAAAATAAAAAAATATTAAAATAAACTTTTAATTACAATTGAG
*
2747750 GGATCAAGTGAATTATTATT
259 GGATCAAATGAATTATTATT
2747770 TTTTAACAAC
Statistics
Matches: 548, Mismatches: 30, Indels: 53
0.87 0.05 0.08
Matches are distributed among these distances:
321 165 0.30
322 41 0.07
323 56 0.10
324 3 0.01
325 12 0.02
327 1 0.00
329 5 0.01
331 25 0.05
332 20 0.04
334 5 0.01
336 21 0.04
337 93 0.17
338 31 0.06
341 3 0.01
342 64 0.12
343 3 0.01
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (334 bp):
ATTTTATTTTTGCATGAAATTATACAATACATATAATCTAGTATAAGAAAACTTTGAGGGTAAAT
ATTTTAAAATATGAATAATTTTATAAAATTTTATAACTAGTATTTCTTTTACAAAATGATGATGA
TGATGATAATAAATATTTTATAATTTAAAAATTATAAATTTCATATATTTTTGAAAAATTTATTG
ACTTTTAAAATTAATTGTTTAAAAATAAAAAAATATTAAAATAAACTTTTAATTACAATTGAGGG
ATCAAATGAATTATTATTCATTAATTATTATTTTTAACAACAATTAATAATGTTTATTCATTTTT
AATAAAATT
Found at i:2747961 original size:22 final size:22
Alignment explanation
Indices: 2747905--2747964 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
2747895 TACATTCTTT
*
2747905 TTTTTATTGA-ATTTTATTCAC
1 TTTTTATTGATTTTTTATTCAC
* **
2747926 TTTTAATTCTTTTTTTATTGCA-
1 TTTTTATTGATTTTTTATT-CAC
2747948 TTTTTATTGATTTTTTA
1 TTTTTATTGATTTTTTA
2747965 AAAAAATGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 7 0.23
22 21 0.70
23 2 0.07
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTTATTGATTTTTTATTCAC
Found at i:2749783 original size:31 final size:33
Alignment explanation
Indices: 2749735--2749797 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 33
2749725 TTTTGGTCAC
2749735 CCAACTATTCTTTTTTTCAAAATCATCACTAAT
1 CCAACTATTCTTTTTTTCAAAATCATCACTAAT
*
2749768 CCAACTA-T-TTTTTTTCAAAATCATTACTAA
1 CCAACTATTCTTTTTTTCAAAATCATCACTAA
2749798 CGTTACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 21 0.72
32 1 0.03
33 7 0.24
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (33 bp):
CCAACTATTCTTTTTTTCAAAATCATCACTAAT
Found at i:2752592 original size:18 final size:16
Alignment explanation
Indices: 2752570--2752610 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
2752560 ATTAGATGTT
2752570 TAAAAAATATTAAAAA
1 TAAAAAATATTAAAAA
2752586 TGAAAAAATATTTAAAAAA
1 T-AAAAAATA-TT-AAAAA
2752605 TAAAAA
1 TAAAAA
2752611 TAATTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 1 0.05
17 8 0.36
18 7 0.32
19 6 0.27
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
TAAAAAATATTAAAAA
Found at i:2752593 original size:17 final size:17
Alignment explanation
Indices: 2752571--2752622 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 17
2752561 TTAGATGTTT
*
2752571 AAAAAATATTAAAAATG
1 AAAAAATATTAAAAATA
2752588 AAAAAATATTTAAAAAATA
1 AAAAAATA-TT-AAAAATA
2752607 AAAATAATTATTAAAA
1 AAAA-AA-TATTAAAA
2752623 TTTATAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 8 0.27
18 2 0.07
19 14 0.47
20 4 0.13
21 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAAAATATTAAAAATA
Found at i:2754765 original size:2 final size:2
Alignment explanation
Indices: 2754760--2754793 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2754750 TTTTGCATTT
2754760 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2754794 GAATTCATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2755844 original size:17 final size:16
Alignment explanation
Indices: 2755822--2755858 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
2755812 TTGTCAATTC
*
2755822 AATTATCCATCAACATT
1 AATTATCAATCAACA-T
2755839 AATTATCAATCAACAT
1 AATTATCAATCAACAT
2755855 AATT
1 AATT
2755859 TCCGCGTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTATCAATCAACAT
Found at i:2756347 original size:2 final size:2
Alignment explanation
Indices: 2756340--2756376 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2756330 TCAAGGCACA
2756340 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2756377 AAATATTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2759611 original size:50 final size:49
Alignment explanation
Indices: 2759536--2759635 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 49
2759526 CAATACTCTC
*
2759536 TTACTCAAATCGTTTACTTTTTCCTGGTATTCACAGGATATAGATATCCA
1 TTACTCAAATCGTTTACTTTTTCCTGGTACTCACAGGATATAGATA-CCA
2759586 TTACTCAAATCGTTTACTTTTTCCTGGTACTCACAGGATATAGATACCA
1 TTACTCAAATCGTTTACTTTTTCCTGGTACTCACAGGATATAGATACCA
2759635 T
1 T
2759636 ATAATGGATA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 4 0.08
50 45 0.92
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (49 bp):
TTACTCAAATCGTTTACTTTTTCCTGGTACTCACAGGATATAGATACCA
Found at i:2760234 original size:104 final size:103
Alignment explanation
Indices: 2760108--2760307 Score: 364
Period size: 104 Copynumber: 1.9 Consensus size: 103
2760098 GTTAGGTATA
2760108 ATTTTGACAAAAAAATAATAGTTGGATTATTAAAACAGAACAAAAGTTAGAATACTAAATGTGTA
1 ATTTTGACAAAAAAATAATAGTTGGATTATTAAAACAGAACAAAAGTTAGAATACTAAATGTGTA
*
2760173 GTTTGCCATAGAAACTAATATATATATATATATATATG
66 GTTTACCATAGAAACTAATATATATATATATATATATG
*
2760211 ATTTTGACAAAAAAAATAATAGTTGGATTATTAAAACGGAACAAAAGTTAGAATACTAAATGTGT
1 ATTTTGAC-AAAAAAATAATAGTTGGATTATTAAAACAGAACAAAAGTTAGAATACTAAATGTGT
*
2760276 AGTTTACCATATAAACTAATATATATATATAT
65 AGTTTACCATAGAAACTAATATATATATATAT
2760308 GTGTGTGTGT
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
103 8 0.09
104 85 0.91
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (103 bp):
ATTTTGACAAAAAAATAATAGTTGGATTATTAAAACAGAACAAAAGTTAGAATACTAAATGTGTA
GTTTACCATAGAAACTAATATATATATATATATATATG
Found at i:2764944 original size:44 final size:44
Alignment explanation
Indices: 2764881--2764968 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
2764871 ATCCATGTAA
2764881 ATATCGTGTTCAAACTCAGAACCTCTAATAATAACAATTATCCC
1 ATATCGTGTTCAAACTCAGAACCTCTAATAATAACAATTATCCC
*
2764925 ATATCGTGTTCAAACTCAGAACCTCTAATAATAATAATTATCCC
1 ATATCGTGTTCAAACTCAGAACCTCTAATAATAACAATTATCCC
2764969 TTAAACTACT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.31
Consensus pattern (44 bp):
ATATCGTGTTCAAACTCAGAACCTCTAATAATAACAATTATCCC
Found at i:2778140 original size:13 final size:13
Alignment explanation
Indices: 2778117--2778152 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2778107 GTTCGGTTTT
*
2778117 TTTAACGGTTCGG
1 TTTATCGGTTCGG
*
2778130 TTTTTCGGTTCGG
1 TTTATCGGTTCGG
2778143 TTTATCGGTT
1 TTTATCGGTT
2778153 TTTCAATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.08, C:0.14, G:0.28, T:0.50
Consensus pattern (13 bp):
TTTATCGGTTCGG
Found at i:2779796 original size:60 final size:59
Alignment explanation
Indices: 2779718--2779835 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 59
2779708 ATCAGGTTAA
*
2779718 TTTGGCCCCTAAATTGAAATTAGGT-AATAAAATT-TACTTTAA-TTTCTTAATTGATTTTAG
1 TTTGGCCCCTAAATTGAAATT-GATAAATAAAATTGT-C-TTAAGTTTCTTAATT-ATTTTAG
*
2779778 TTTGGTCCCT-AATATGAAATTGATAAATAAAATTGTCTTAAGTTTCTTAATTATTTTA
1 TTTGGCCCCTAAAT-TGAAATTGATAAATAAAATTGTCTTAAGTTTCTTAATTATTTTA
2779836 ATTTAGTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
59 15 0.29
60 36 0.69
61 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (59 bp):
TTTGGCCCCTAAATTGAAATTGATAAATAAAATTGTCTTAAGTTTCTTAATTATTTTAG
Found at i:2781883 original size:71 final size:71
Alignment explanation
Indices: 2781801--2781943 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
2781791 CAGAGACACT
*
2781801 CATTGGTGCCCTAAAAATAAAGATTCATAAAAGTACAGCAACATGTTCAATCCATCAGTACTTTG
1 CATTGGTGCCCTAAAAATAAAGATTCATAAAAGTACAGCAACACGTTCAATCCATCAGTACTTTG
2781866 GAGGTG
66 GAGGTG
2781872 CATTGGTGCCCTAAAAATAAAGATTCATAAAAGTACAGCAACACGTTCAATCCATCAGTACTTTG
1 CATTGGTGCCCTAAAAATAAAGATTCATAAAAGTACAGCAACACGTTCAATCCATCAGTACTTTG
2781937 GAGGTG
66 GAGGTG
2781943 C
1 C
2781944 CTGTTGGGTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (71 bp):
CATTGGTGCCCTAAAAATAAAGATTCATAAAAGTACAGCAACACGTTCAATCCATCAGTACTTTG
GAGGTG
Found at i:2783762 original size:3 final size:3
Alignment explanation
Indices: 2783750--2783784 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
2783740 GATTCGAATG
2783750 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2783785 AATTTTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2786171 original size:24 final size:24
Alignment explanation
Indices: 2786144--2786224 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
2786134 GATGGAATTC
*
2786144 AATTCCATTAAATAAGGGAAAGTG
1 AATTCCATCAAATAAGGGAAAGTG
* * *
2786168 AATTCCATCAAAAAATGG-ATG-G
1 AATTCCATCAAATAAGGGAAAGTG
2786190 AATTCCATCAAATAAGGGAAAGTG
1 AATTCCATCAAATAAGGGAAAGTG
2786214 AATTCCATCAA
1 AATTCCATCAA
2786225 TTCCATCAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 17 0.35
23 4 0.08
24 27 0.56
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (24 bp):
AATTCCATCAAATAAGGGAAAGTG
Found at i:2786655 original size:32 final size:33
Alignment explanation
Indices: 2786613--2786689 Score: 122
Period size: 32 Copynumber: 2.4 Consensus size: 33
2786603 CTTTATTTTT
*
2786613 TTCGGATCGGGTCGGGTTTTTT-AAGTGTAG-TA
1 TTCGGGTCGGGTCGGGTTTTTTAAAGTGT-GCTA
2786645 TTCGGGTCGGGTCGGGTTTTTTAAAGTGTGCTA
1 TTCGGGTCGGGTCGGGTTTTTTAAAGTGTGCTA
2786678 TTCGGGTCGGGT
1 TTCGGGTCGGGT
2786690 TTGAGTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
32 22 0.52
33 20 0.48
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.39
Consensus pattern (33 bp):
TTCGGGTCGGGTCGGGTTTTTTAAAGTGTGCTA
Found at i:2792588 original size:8 final size:8
Alignment explanation
Indices: 2792575--2792599 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2792565 TGCTTGGTTG
2792575 AGTGGAAA
1 AGTGGAAA
2792583 AGTGGAAA
1 AGTGGAAA
2792591 AGTGGAAA
1 AGTGGAAA
2792599 A
1 A
2792600 TATTTTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.36, T:0.12
Consensus pattern (8 bp):
AGTGGAAA
Found at i:2796930 original size:22 final size:23
Alignment explanation
Indices: 2796886--2796939 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
2796876 ATAATTAAAA
* *
2796886 ATAATTTTAATTTAGAAAATTAT
1 ATAAATTTAACTTAGAAAATTAT
*
2796909 -TATATTTAACTTA-AAAATTTAT
1 ATAAATTTAACTTAGAAAA-TTAT
2796931 ATAAATTTA
1 ATAAATTTA
2796940 TAATATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.16
22 14 0.56
23 7 0.28
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
ATAAATTTAACTTAGAAAATTAT
Found at i:2806898 original size:39 final size:39
Alignment explanation
Indices: 2806855--2806940 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
2806845 AATGTTTGTA
2806855 AAATATGT-GCATTATCAAGAAATTAATAAAATTTTAAAC
1 AAATAT-TAGCATTATCAAGAAATTAATAAAATTTTAAAC
* *
2806894 AAATATTATCATTATCAAGAAATTAATAAAATTTTAAAT
1 AAATATTAGCATTATCAAGAAATTAATAAAATTTTAAAC
2806933 AAATATTA
1 AAATATTA
2806941 TTTTATAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.02
39 43 0.98
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (39 bp):
AAATATTAGCATTATCAAGAAATTAATAAAATTTTAAAC
Found at i:2806941 original size:39 final size:39
Alignment explanation
Indices: 2806864--2806941 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
2806854 AAAATATGTG
2806864 CATTATCAAGAAATTAATAAAATTTTAAACAAATATTAT
1 CATTATCAAGAAATTAATAAAATTTTAAACAAATATTAT
*
2806903 CATTATCAAGAAATTAATAAAATTTTAAATAAATATTAT
1 CATTATCAAGAAATTAATAAAATTTTAAACAAATATTAT
2806942 TTTATAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (39 bp):
CATTATCAAGAAATTAATAAAATTTTAAACAAATATTAT
Found at i:2809801 original size:18 final size:17
Alignment explanation
Indices: 2809765--2809803 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2809755 TTTAGTTTTT
*
2809765 TAATCTTTACTGTATAA
1 TAATCTTTACTGCATAA
*
2809782 TAATCTTTATTGGCATAA
1 TAATCTTTACT-GCATAA
2809800 TAAT
1 TAAT
2809804 AAAATTAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (17 bp):
TAATCTTTACTGCATAA
Found at i:2828597 original size:12 final size:12
Alignment explanation
Indices: 2828580--2828604 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2828570 GCCAAATAAT
2828580 TTAGGCACCAAA
1 TTAGGCACCAAA
2828592 TTAGGCACCAAA
1 TTAGGCACCAAA
2828604 T
1 T
2828605 GGTGCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (12 bp):
TTAGGCACCAAA
Found at i:2833437 original size:2 final size:2
Alignment explanation
Indices: 2833430--2833463 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2833420 ATTAAGTTCT
2833430 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2833464 CTTATTAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2836722 original size:2 final size:2
Alignment explanation
Indices: 2836717--2836741 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2836707 AATATAAAAA
2836717 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2836742 AAATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2840176 original size:24 final size:25
Alignment explanation
Indices: 2840123--2840180 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
2840113 TGTTTATTTT
2840123 TTTAAAAAAATTATTTTTAAATAAAA
1 TTTAAAAAAATTA-TTTTAAATAAAA
2840149 --TAAAAAAATTA-TTTAAA-AAACA
1 TTTAAAAAAATTATTTTAAATAAA-A
2840171 TTTAAAAAAA
1 TTTAAAAAAA
2840181 GAAAAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
21 3 0.10
22 7 0.24
24 19 0.66
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
TTTAAAAAAATTATTTTAAATAAAA
Found at i:2840506 original size:21 final size:21
Alignment explanation
Indices: 2840469--2840520 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
2840459 TAAATTTCTA
* *
2840469 ATTAGAGTTAGGAATTTGAGT
1 ATTAGATTTAGGAATTTAAGT
2840490 ATTAGATTTA-GAGATTTAAGT
1 ATTAGATTTAGGA-ATTTAAGT
*
2840511 TTATAGATTT
1 AT-TAGATTT
2840521 GTAAATTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.08
21 17 0.65
22 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (21 bp):
ATTAGATTTAGGAATTTAAGT
Found at i:2841055 original size:31 final size:31
Alignment explanation
Indices: 2841015--2841119 Score: 131
Period size: 31 Copynumber: 3.4 Consensus size: 31
2841005 AAAAATAGTT
* *
2841015 AAATCTTAATTTGACCCTTAAATTTTAGACA
1 AAATATTAATTTGACCCTTAAATTTTAGATA
*
2841046 AAATATTAATTTGA-CCATAAATTTTAGATA
1 AAATATTAATTTGACCCTTAAATTTTAGATA
* * * *
2841076 AAATACTAATTTAACTCTTAAACTTTAGATA
1 AAATATTAATTTGACCCTTAAATTTTAGATA
*
2841107 AAATATAAATTTG
1 AAATATTAATTTG
2841120 GCTCAAATCC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
30 26 0.42
31 36 0.58
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (31 bp):
AAATATTAATTTGACCCTTAAATTTTAGATA
Found at i:2841644 original size:31 final size:30
Alignment explanation
Indices: 2841597--2841655 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
2841587 ATACGTTTTG
*
2841597 ATCACTTATGTTATCGATTTATTAGATTTAA
1 ATCACTTACGTTATCGA-TTATTAGATTTAA
* *
2841628 ATCATTTACGTTATCGATTATTATATTT
1 ATCACTTACGTTATCGATTATTAGATTT
2841656 TGATCACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (30 bp):
ATCACTTACGTTATCGATTATTAGATTTAA
Found at i:2841787 original size:31 final size:30
Alignment explanation
Indices: 2841715--2841793 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
2841705 TAAAAATATT
* *
2841715 AAATTTTAATTTGACTCCTGAACTTTAGACA
1 AAATATTAATTTGAC-CCTAAACTTTAGACA
* * **
2841746 GAATACTAATTTGACCCTAAACTTTAAGGTA
1 AAATATTAATTTGACCCTAAACTTT-AGACA
2841777 AAATATTAATTTGACCC
1 AAATATTAATTTGACCC
2841794 CAAAATTGGA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 9 0.23
31 30 0.77
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (30 bp):
AAATATTAATTTGACCCTAAACTTTAGACA
Found at i:2849384 original size:2 final size:2
Alignment explanation
Indices: 2849377--2849405 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2849367 CATTAGCTAA
2849377 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2849406 AGAAAAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2855238 original size:28 final size:29
Alignment explanation
Indices: 2855180--2855239 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
2855170 AGGATTAAAG
2855180 ATTTTAGGATTTTTTTTAGATTTTAGAAA
1 ATTTTAGGATTTTTTTTAGATTTTAGAAA
2855209 ATTTT-GG-TTTTTTTGTA-ATTTTAGAGAA
1 ATTTTAGGATTTTTTT-TAGATTTTAGA-AA
2855237 ATT
1 ATT
2855240 AATTTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 15 0.52
28 9 0.31
29 5 0.17
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (29 bp):
ATTTTAGGATTTTTTTTAGATTTTAGAAA
Found at i:2857209 original size:12 final size:12
Alignment explanation
Indices: 2857176--2857224 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
2857166 ACCCATAATT
2857176 TTTTAATATTTA
1 TTTTAATATTTA
*
2857188 -TTTATTTATTTA
1 TTTTA-ATATTTA
2857200 TTTTAATATTT-
1 TTTTAATATTTA
2857211 TTATTAA-ATTTA
1 TT-TTAATATTTA
2857223 TT
1 TT
2857225 AAAAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 10 0.32
12 17 0.55
13 4 0.13
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTAATATTTA
Found at i:2857481 original size:20 final size:20
Alignment explanation
Indices: 2857456--2857496 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2857446 TAAAAAAAAA
*
2857456 ACTCTTTTTATCATTTAAAT
1 ACTCTTTTTATCATGTAAAT
2857476 ACTCTTTTTATCATGTAAAT
1 ACTCTTTTTATCATGTAAAT
2857496 A
1 A
2857497 GTAATACGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.15, G:0.02, T:0.51
Consensus pattern (20 bp):
ACTCTTTTTATCATGTAAAT
Found at i:2867984 original size:254 final size:254
Alignment explanation
Indices: 2867621--2868129 Score: 1018
Period size: 254 Copynumber: 2.0 Consensus size: 254
2867611 GTAATTAAGG
2867621 TTACTTTAATACAACATGTAAAATTTTAGGTCATTTGGACATCATTTAAGCCTTCAATTAAACAA
1 TTACTTTAATACAACATGTAAAATTTTAGGTCATTTGGACATCATTTAAGCCTTCAATTAAACAA
2867686 GCAAACATTCCTAAAGATTAAATTGAATTCTGACAATAAATTTCAGTAATAACATGCAAAACCTA
66 GCAAACATTCCTAAAGATTAAATTGAATTCTGACAATAAATTTCAGTAATAACATGCAAAACCTA
2867751 GTTTTCTAGTTTATACATGCAATTAAACTGTAAATAAAATAACATGAGGAAACCTAAGTCAATTT
131 GTTTTCTAGTTTATACATGCAATTAAACTGTAAATAAAATAACATGAGGAAACCTAAGTCAATTT
2867816 GATTACGAATTGGCCCTCTATTTTAATCTTGAAATTTAGTGACTAAACGAATGATTGAA
196 GATTACGAATTGGCCCTCTATTTTAATCTTGAAATTTAGTGACTAAACGAATGATTGAA
2867875 TTACTTTAATACAACATGTAAAATTTTAGGTCATTTGGACATCATTTAAGCCTTCAATTAAACAA
1 TTACTTTAATACAACATGTAAAATTTTAGGTCATTTGGACATCATTTAAGCCTTCAATTAAACAA
2867940 GCAAACATTCCTAAAGATTAAATTGAATTCTGACAATAAATTTCAGTAATAACATGCAAAACCTA
66 GCAAACATTCCTAAAGATTAAATTGAATTCTGACAATAAATTTCAGTAATAACATGCAAAACCTA
2868005 GTTTTCTAGTTTATACATGCAATTAAACTGTAAATAAAATAACATGAGGAAACCTAAGTCAATTT
131 GTTTTCTAGTTTATACATGCAATTAAACTGTAAATAAAATAACATGAGGAAACCTAAGTCAATTT
2868070 GATTACGAATTGGCCCTCTATTTTAATCTTGAAATTTAGTGACTAAACGAATGATTGAA
196 GATTACGAATTGGCCCTCTATTTTAATCTTGAAATTTAGTGACTAAACGAATGATTGAA
2868129 T
1 T
2868130 ACTAAGGTAA
Statistics
Matches: 255, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
254 255 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.34
Consensus pattern (254 bp):
TTACTTTAATACAACATGTAAAATTTTAGGTCATTTGGACATCATTTAAGCCTTCAATTAAACAA
GCAAACATTCCTAAAGATTAAATTGAATTCTGACAATAAATTTCAGTAATAACATGCAAAACCTA
GTTTTCTAGTTTATACATGCAATTAAACTGTAAATAAAATAACATGAGGAAACCTAAGTCAATTT
GATTACGAATTGGCCCTCTATTTTAATCTTGAAATTTAGTGACTAAACGAATGATTGAA
Found at i:2868201 original size:18 final size:19
Alignment explanation
Indices: 2868164--2868201 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
2868154 TCACAAGTGA
*
2868164 ATTTAATATATAATTATAT
1 ATTTAAGATATAATTATAT
*
2868183 ATTTAAGAT-TAATTCTAT
1 ATTTAAGATATAATTATAT
2868201 A
1 A
2868202 GACAACATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTTAAGATATAATTATAT
Found at i:2871659 original size:41 final size:41
Alignment explanation
Indices: 2871573--2871659 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
2871563 CGTTGCGCTT
* * * * **
2871573 TTGGACTATCGCAATGCGAATATGCAAATCGCGTTGCGATT
1 TTGGACTATCGCAACGCGAATATGCAAAACGAGTTACGAAG
*
2871614 TTGGACTATCGCAACGCGAA-ATGGAAAACTGAGTTACGAAG
1 TTGGACTATCGCAACGCGAATATGCAAAAC-GAGTTACGAAG
2871655 TTGGA
1 TTGGA
2871660 GTTCGCGTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 7 0.18
41 31 0.82
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (41 bp):
TTGGACTATCGCAACGCGAATATGCAAAACGAGTTACGAAG
Found at i:2871918 original size:58 final size:56
Alignment explanation
Indices: 2871772--2871928 Score: 169
Period size: 58 Copynumber: 2.8 Consensus size: 56
2871762 AAAGAAATTC
*
2871772 TAAACTATACT-TTTTTTG-TTTGAAATCCCTAAACTATTTTTTGGTAAAAAATCCT
1 TAAACTATACTATTTTTTGCTTT-AAGTCCCTAAACTATTTTTTGGTAAAAAATCCT
** ** *
2871827 TAAACTATTA-TATGTAATCACTTTAAGTACCTAAACTATTTTTT-GTCAAAATAAATCCT
1 TAAACTA-TACTAT-TTTTTGCTTTAAGTCCCTAAACTATTTTTTGGT--AAA-AAATCCT
*
2871886 TAAACTATGCTATTTTTTGCTTTAAGTCCCTAAACTATTTTTT
1 TAAACTATACTATTTTTTGCTTTAAGTCCCTAAACTATTTTTT
2871929 TAGTTAAAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
55 8 0.10
56 5 0.06
57 20 0.24
58 32 0.39
59 17 0.21
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (56 bp):
TAAACTATACTATTTTTTGCTTTAAGTCCCTAAACTATTTTTTGGTAAAAAATCCT
Found at i:2876385 original size:37 final size:37
Alignment explanation
Indices: 2876342--2876418 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
2876332 TTTTTGTATA
*
2876342 TTTTTCTATAATTTCTATTTTACATTGT-ATTTACTAT
1 TTTTTCTATAATTTCTAGTTTACATT-TAATTTACTAT
*
2876379 TTTTTCTATAATTTCTAGTTTACATTTAATTTTCTAT
1 TTTTTCTATAATTTCTAGTTTACATTTAATTTACTAT
2876416 TTT
1 TTT
2876419 ATGAATTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (37 bp):
TTTTTCTATAATTTCTAGTTTACATTTAATTTACTAT
Found at i:2876929 original size:17 final size:18
Alignment explanation
Indices: 2876904--2876943 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
2876894 TTAAATGATT
*
2876904 AATAGAAAATATA-AAAA
1 AATAAAAAATATATAAAA
2876921 AATAAAAAATATATAAAA
1 AATAAAAAATATATAAAA
*
2876939 TATAA
1 AATAA
2876944 TGGAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAAAAAATATATAAAA
Found at i:2884676 original size:34 final size:34
Alignment explanation
Indices: 2884616--2884683 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
2884606 TTTCTTGAGA
*
2884616 GTTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTT
1 GTTGTTTTCTCCTTTATATC-AGAGAGAAGTTGTT
2884650 GTTGTTTTCTCCTTGATATATC-GAGAGAAGTTGT
1 GTTGTTTTCTCCTT--TATATCAGAGAGAAGTTGT
2884684 AATTCCTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 21 0.70
35 4 0.13
36 5 0.17
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.47
Consensus pattern (34 bp):
GTTGTTTTCTCCTTTATATCAGAGAGAAGTTGTT
Found at i:2885547 original size:2 final size:2
Alignment explanation
Indices: 2885540--2885564 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2885530 TGAGTTGATT
2885540 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2885565 GAGTTCTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2892778 original size:21 final size:21
Alignment explanation
Indices: 2892752--2892796 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
2892742 CACCCTTTCT
2892752 GCATCTCTCTGTCGATTGTCC
1 GCATCTCTCTGTCGATTGTCC
2892773 GCATCTCTCTGTCGATTGTCC
1 GCATCTCTCTGTCGATTGTCC
2892794 GCA
1 GCA
2892797 CCACCCCGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.11, C:0.33, G:0.20, T:0.36
Consensus pattern (21 bp):
GCATCTCTCTGTCGATTGTCC
Found at i:2896582 original size:2 final size:2
Alignment explanation
Indices: 2896575--2896616 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2896565 TAATTATTGA
2896575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2896617 CTTACACACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2903061 original size:47 final size:47
Alignment explanation
Indices: 2903007--2903109 Score: 179
Period size: 47 Copynumber: 2.2 Consensus size: 47
2902997 ACATTTATAG
* *
2903007 TAAAGATAATATAATAATCGATAAAACGATTAAAATGATAAATTTCC
1 TAAAGATAATATAATAATCGACAAAACGACTAAAATGATAAATTTCC
*
2903054 TAAAGATAATATAATAATCGACAAAACGACTAAAATGATAAATTTCG
1 TAAAGATAATATAATAATCGACAAAACGACTAAAATGATAAATTTCC
2903101 TAAAGATAA
1 TAAAGATAA
2903110 AATCGATAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.54, C:0.09, G:0.10, T:0.27
Consensus pattern (47 bp):
TAAAGATAATATAATAATCGACAAAACGACTAAAATGATAAATTTCC
Found at i:2903126 original size:41 final size:43
Alignment explanation
Indices: 2903017--2903136 Score: 154
Period size: 47 Copynumber: 2.7 Consensus size: 43
2903007 TAAAGATAAT
*
2903017 ATAATAATCGATAAAACGATTAAAATGATAAATTTCCTAAAGATAA
1 ATAATAATCGATAAAACGACTAAAATGATAAATTTCCTAAAG---A
* *
2903063 TATAATAATCGACAAAACGACTAAAATGATAAATTTCGTAAAG-
1 -ATAATAATCGATAAAACGACTAAAATGATAAATTTCCTAAAGA
*
2903106 ATAA-AATCGATAAAACGACTATAATGATAAA
1 ATAATAATCGATAAAACGACTAAAATGATAAA
2903137 CTCTCAACAG
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
41 25 0.37
42 4 0.06
47 39 0.57
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (43 bp):
ATAATAATCGATAAAACGACTAAAATGATAAATTTCCTAAAGA
Found at i:2913089 original size:66 final size:66
Alignment explanation
Indices: 2913017--2913151 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 66
2913007 ATTATAAGTG
*
2913017 TCCTTTCTTATTCCCCCACTCTTATCTCCTCCCTCCCTCTAACCCAGTGAATGTAAATTCCCTCT
1 TCCTTTCTTATTCCCCCACTCTTATCTACTCCCTCCCTCTAACCCAGTGAATGTAAATTCCCTCT
2913082 T
66 T
2913083 TCCTTTCTTATTCCCCCACTCTTATCTACTCCCTCCCTCTAACCCAGTGAATGTAAATTCCCTCT
1 TCCTTTCTTATTCCCCCACTCTTATCTACTCCCTCCCTCTAACCCAGTGAATGTAAATTCCCTCT
2913148 T
66 T
2913149 TCC
1 TCC
2913152 CCTTATCCCA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.17, C:0.41, G:0.04, T:0.38
Consensus pattern (66 bp):
TCCTTTCTTATTCCCCCACTCTTATCTACTCCCTCCCTCTAACCCAGTGAATGTAAATTCCCTCT
T
Found at i:2914647 original size:2 final size:2
Alignment explanation
Indices: 2914640--2914695 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
2914630 TTTTTGTTCA
2914640 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2914681 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
2914696 ATCTTGCAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2920637 original size:2 final size:2
Alignment explanation
Indices: 2920630--2920660 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2920620 TTTTGAAGAG
2920630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2920661 ATTTTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2932627 original size:25 final size:25
Alignment explanation
Indices: 2932574--2932629 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
2932564 TTTGGTACTT
* * *
2932574 GTACTTTGATAAAATGTCTAGTGTG
1 GTACTTTGAAAAAATATCTAGTGTA
* *
2932599 GTACTTTGAAAAAATATTTATTGTA
1 GTACTTTGAAAAAATATCTAGTGTA
2932624 GTACTT
1 GTACTT
2932630 GTACTTTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (25 bp):
GTACTTTGAAAAAATATCTAGTGTA
Found at i:2932851 original size:31 final size:30
Alignment explanation
Indices: 2932816--2932973 Score: 101
Period size: 29 Copynumber: 5.2 Consensus size: 30
2932806 ACCATATTCA
*
2932816 ACATTTTGACAAACTATAGGTACCACATTGG
1 ACATTTT-ACAAACTAAAGGTACCACATTGG
* *
2932847 ACATTTTA-AAAGTAAAGGTATCACATTGG
1 ACATTTTACAAACTAAAGGTACCACATTGG
* * *
2932876 ACATTTTATCATAGTACAA-GTACCATATTGG
1 ACATTTTA-CAAACTA-AAGGTACCACATTGG
* * * **
2932907 ACATTTTGTCAAACTACAA-ATGCCACATTAA
1 ACATTTT-ACAAACTA-AAGGTACCACATTGG
* * *
2932938 ACATTTTA-AAAGTACAA-ATGCCACATTGG
1 ACATTTTACAAACTA-AAGGTACCACATTGG
2932967 ACATTTT
1 ACATTTT
2932974 GTCGAAGTAC
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
29 51 0.49
30 1 0.01
31 51 0.49
32 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.32
Consensus pattern (30 bp):
ACATTTTACAAACTAAAGGTACCACATTGG
Found at i:2932984 original size:91 final size:91
Alignment explanation
Indices: 2932795--2932973 Score: 216
Period size: 91 Copynumber: 2.0 Consensus size: 91
2932785 ACACATAATG
* * * ** **
2932795 ATAGTTCAAATACCATATTCAACATTTTGACAAACTATAGGTACCACATTGGACATTTTAAAAGT
1 ATAGTACAAGTACCATATTCAACATTTTGACAAACTACAAATACCACATTAAACATTTTAAAAGT
* *
2932860 AAAGGTATCACATTGGACATTTTATC
66 AAAGATACCACATTGGACATTTTATC
** * *
2932886 ATAGTACAAGTACCATATTGGACATTTTGTCAAACTACAAATGCCACATTAAACATTTTAAAAGT
1 ATAGTACAAGTACCATATTCAACATTTTGACAAACTACAAATACCACATTAAACATTTTAAAAGT
*
2932951 ACAA-ATGCCACATTGGACATTTT
66 A-AAGATACCACATTGGACATTTT
2932974 GTCGAAGTAC
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
91 71 0.97
92 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (91 bp):
ATAGTACAAGTACCATATTCAACATTTTGACAAACTACAAATACCACATTAAACATTTTAAAAGT
AAAGATACCACATTGGACATTTTATC
Found at i:2937254 original size:291 final size:295
Alignment explanation
Indices: 2936724--2937279 Score: 791
Period size: 291 Copynumber: 1.9 Consensus size: 295
2936714 GTTTTGAGTT
* ** *
2936724 TCCGTGAAAAAGTACCCTAGTATAGAGAAGTACTCTTTGTTGAAGGTGATTTGTGGTTTGAACCG
1 TCCGTGAAAAAGAACCCTAGTATAGAGAAGTACTCTTTGCCGAAGGTGATTTGTGGTTTGAACCA
* * **
2936789 ACGTTTGGTGAGAACACAGGAGGTCTGAGACTGATGTTAGAACTTTCTGTAGTTTCAGTCATGAA
66 ACATTTGGTGAGAACACAGGAGGTCTGAGA-TGA-GCTAGAACTTTCTGTAGTTTCAGTCACAAA
* * * * * *
2936854 TCTGTTCTCTATTAGGCTCTTAGGACATGAAGTCTCTGTGTTGTGTGTTGTGAATCAATTCCATC
129 TCTATTCTCTATTAGGCTCCTAAGACATGAAATCTCTGTGTTCTGTGTTATGAATCAATTCCATC
* *
2936919 AAGCTCCAGTTTTGGCATATTATTTCATTAAATTGGAATAGTTGAACTTGATTCTTAAATTATGA
194 AAGATCCAATTTTGGCATATTATTTCATTAAATTGGAATAGTTGAACTTGATTCTTAAATTATGA
2936984 TTTCATTAGAATGGTATAGTTGAACTTGTTTCGATTG
259 TTTCATTAGAATGGTATAGTTGAACTTGTTTCGATTG
* *
2937021 TCCGTGAAAAAGAACCGTAGTATAGAGAAGTAC-CTTTTGCCGGAGGTGATTTGTGGTTTGAACC
1 TCCGTGAAAAAGAACCCTAGTATAGAGAAGTACTC-TTTGCCGAAGGTGATTTGTGGTTTGAACC
* * **
2937085 AACATTTGGTGAGAACATAGGAGGTCTG-G-T-A-CTAGAACTTTCTGTATTTTCCTTCACAAAT
65 AACATTTGGTGAGAACACAGGAGGTCTGAGATGAGCTAGAACTTTCTGTAGTTTCAGTCACAAAT
* * *
2937146 CTATTCTCTGTTAGGCTCCTAAGACATGAAATTTCTGTGTTCTGTGTTATGAATCAATTCCATCT
130 CTATTCTCTATTAGGCTCCTAAGACATGAAATCTCTGTGTTCTGTGTTATGAATCAATTCCATCA
* *
2937211 AGATCCAATTTTTGCATATTATTTCATTAGAA-TGGTATAGTTGAACTTGATTCTTAAATTATGA
195 AGATCCAATTTTGGCATATTATTTCATTA-AATTGGAATAGTTGAACTTGATTCTTAAATTATGA
2937275 TTTCA
259 TTTCA
2937280 ATTTTAATAA
Statistics
Matches: 230, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
291 142 0.62
292 2 0.01
293 1 0.00
294 1 0.00
296 2 0.01
297 82 0.36
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (295 bp):
TCCGTGAAAAAGAACCCTAGTATAGAGAAGTACTCTTTGCCGAAGGTGATTTGTGGTTTGAACCA
ACATTTGGTGAGAACACAGGAGGTCTGAGATGAGCTAGAACTTTCTGTAGTTTCAGTCACAAATC
TATTCTCTATTAGGCTCCTAAGACATGAAATCTCTGTGTTCTGTGTTATGAATCAATTCCATCAA
GATCCAATTTTGGCATATTATTTCATTAAATTGGAATAGTTGAACTTGATTCTTAAATTATGATT
TCATTAGAATGGTATAGTTGAACTTGTTTCGATTG
Found at i:2940937 original size:32 final size:32
Alignment explanation
Indices: 2940901--2940977 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
2940891 CCACATTATA
* *
2940901 ACTTATGTATATGTGGCGTGTACCTTATCATC
1 ACTTATGTATACGTGGCGTGTACCGTATCATC
* * ** *
2940933 ACTTATGTACACGTGGCTTGTGGCGTGTCATC
1 ACTTATGTATACGTGGCGTGTACCGTATCATC
2940965 ACTTATGTATACG
1 ACTTATGTATACG
2940978 CGTGACACAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (32 bp):
ACTTATGTATACGTGGCGTGTACCGTATCATC
Found at i:2941037 original size:32 final size:32
Alignment explanation
Indices: 2940990--2941100 Score: 163
Period size: 32 Copynumber: 3.5 Consensus size: 32
2940980 TGACACATAC
* *
2940990 CATGTCATTATTTATGTATGCATGATATGTGT
1 CATGTCATCACTTATGTATGCATGATATGTGT
*
2941022 CATGTCATCACTTATGTATGCATGATATGAGT
1 CATGTCATCACTTATGTATGCATGATATGTGT
2941054 CATGTCATCACTTATGTAT--ATGCGATATGTGT
1 CATGTCATCACTTATGTATGCAT--GATATGTGT
2941086 CATGTCATCACTTAT
1 CATGTCATCACTTAT
2941101 ATACACATGA
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
30 2 0.03
32 71 0.97
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (32 bp):
CATGTCATCACTTATGTATGCATGATATGTGT
Found at i:2941113 original size:32 final size:32
Alignment explanation
Indices: 2941010--2941141 Score: 131
Period size: 32 Copynumber: 4.2 Consensus size: 32
2941000 TTTATGTATG
* **
2941010 CATGATATGTGTCATGTCATCACTTATGTATG
1 CATGATATGTGTCATGTCATCACTTATATACA
* * *
2941042 CATGATATGAGTCATGTCATCACTTATGTATA
1 CATGATATGTGTCATGTCATCACTTATATACA
***
2941074 TGCGATATGTGTCATGTCATCACTTATATACA
1 CATGATATGTGTCATGTCATCACTTATATACA
* * * * *
2941106 CATGATATATATCACGTCATCGCTT-TAGACA
1 CATGATATGTGTCATGTCATCACTTATATACA
2941137 CATGA
1 CATGA
2941142 CTTTCCAATT
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
31 10 0.12
32 74 0.88
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (32 bp):
CATGATATGTGTCATGTCATCACTTATATACA
Found at i:2944301 original size:15 final size:15
Alignment explanation
Indices: 2944281--2944310 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2944271 CTCCACCTTT
*
2944281 TAATAAAATATTTAA
1 TAATAAAAAATTTAA
2944296 TAATAAAAAATTTAA
1 TAATAAAAAATTTAA
2944311 AATTCAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATAAAAAATTTAA
Found at i:2945478 original size:26 final size:24
Alignment explanation
Indices: 2945437--2945491 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
2945427 TTTCAATATT
* *
2945437 TTATAAATTTATTTTCTTA-AAATA
1 TTATAAATTCATTTTCATATAAA-A
2945461 TTATAAATTCATTCTTTCATATAAAA
1 TTATAAATTCA-T-TTTCATATAAAA
2945487 TTATA
1 TTATA
2945492 TTTGTCTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 10 0.38
25 1 0.04
26 12 0.46
27 3 0.12
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (24 bp):
TTATAAATTCATTTTCATATAAAA
Found at i:2959988 original size:23 final size:24
Alignment explanation
Indices: 2959962--2960013 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
2959952 GGCGGTGATG
* *
2959962 TGGCAGCTAATGTGGC-GATGACA
1 TGGCAACTAACGTGGCAGATGACA
* *
2959985 TGGCAACTGACGTGGCAGGTGACA
1 TGGCAACTAACGTGGCAGATGACA
2960009 TGGCA
1 TGGCA
2960014 CCCAGTCAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.25, C:0.19, G:0.37, T:0.19
Consensus pattern (24 bp):
TGGCAACTAACGTGGCAGATGACA
Found at i:2960842 original size:19 final size:19
Alignment explanation
Indices: 2960801--2960843 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2960791 CTTCTTTGAA
2960801 ATCT-TTTTATTTTTCTTC
1 ATCTATTTTATTTTTCTTC
*
2960819 TTCTATTTTATTTCTT-TTC
1 ATCTATTTTATTT-TTCTTC
2960838 ATCTAT
1 ATCTAT
2960844 AGATCCCCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 16 0.76
20 2 0.10
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (19 bp):
ATCTATTTTATTTTTCTTC
Found at i:2967388 original size:35 final size:36
Alignment explanation
Indices: 2967321--2967392 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
2967311 TTCATTTAAA
* *
2967321 AATTCTAATAATATAGTCATCTTTAATAGTATTGTC
1 AATTCTAACAATATAATCATCTTTAATAGTATTGTC
*
2967357 AATTCTAACAATATAAT-ATTTTTAATAGTATTGTC
1 AATTCTAACAATATAATCATCTTTAATAGTATTGTC
2967392 A
1 A
2967393 GTCCAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 18 0.55
36 15 0.45
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (36 bp):
AATTCTAACAATATAATCATCTTTAATAGTATTGTC
Found at i:2967631 original size:22 final size:23
Alignment explanation
Indices: 2967604--2967648 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2967594 AAAATTCTAT
*
2967604 TTATAAAATTATATTA-TAAATA
1 TTATAAAAATATATTATTAAATA
*
2967626 TTATAAAAATATGTTATTAAATA
1 TTATAAAAATATATTATTAAATA
2967649 AATCAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TTATAAAAATATATTATTAAATA
Found at i:2970933 original size:22 final size:22
Alignment explanation
Indices: 2970886--2970926 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2970876 TTTAATGATA
*
2970886 TTTTATTTCCAGAAGTACATAT
1 TTTTATTTCCAGAAGAACATAT
2970908 TTTTATTTCCA-AAGAACAT
1 TTTTATTTCCAGAAGAACAT
2970927 TTGTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (22 bp):
TTTTATTTCCAGAAGAACATAT
Found at i:2978403 original size:21 final size:21
Alignment explanation
Indices: 2978377--2978424 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
2978367 ACTATAATTT
* *
2978377 ATTCACATTAAATTTTATTAC
1 ATTCACAATAAATGTTATTAC
2978398 ATTCACAATAAATGTTATTAC
1 ATTCACAATAAATGTTATTAC
2978419 ATTCAC
1 ATTCAC
2978425 TACTTAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTCACAATAAATGTTATTAC
Found at i:2983615 original size:29 final size:29
Alignment explanation
Indices: 2983568--2983760 Score: 164
Period size: 29 Copynumber: 6.7 Consensus size: 29
2983558 CGACACGACC
*
2983568 CAGTGATATTTTGAG-AATT-TTTTTAAAAA
1 CAGTGACATTTTG-GTAATTATTTTT-AAAA
*
2983597 CAGTGACATTCTGGTAATTATTTTTAAAA
1 CAGTGACATTTTGGTAATTATTTTTAAAA
* * *
2983626 C-GATGACACTTTGG-GATTTTTTTTAAAAA
1 CAG-TGACATTTTGGTAATTATTTTT-AAAA
* * *
2983655 TAGTGTCATTCTGGTAATTATTTTTAAAA
1 CAGTGACATTTTGGTAATTATTTTTAAAA
* *
2983684 C-GATAATATTTTGGTAATTATTTTTAAAA
1 CAG-TGACATTTTGGTAATTATTTTTAAAA
* *
2983713 CAATGATATTTTGGTAATTATTTTTTAAAA
1 CAGTGACATTTTGGTAATTA-TTTTTAAAA
* *
2983743 -AGTGATATTTTTGTAATT
1 CAGTGACATTTTGGTAATT
2983761 TTTGAATGTG
Statistics
Matches: 134, Mismatches: 21, Indels: 18
0.77 0.12 0.10
Matches are distributed among these distances:
28 11 0.08
29 100 0.75
30 23 0.17
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (29 bp):
CAGTGACATTTTGGTAATTATTTTTAAAA
Found at i:2983697 original size:58 final size:57
Alignment explanation
Indices: 2983573--2983742 Score: 191
Period size: 58 Copynumber: 2.9 Consensus size: 57
2983563 CGACCCAGTG
* * * *
2983573 ATATTTTGAGAATTTTTTTAAAAACAGTGACATTCTGGTAATTATTTTTAAAACGATG
1 ATATTTTGGGATTTTTTTTAAAAA-AGTGTCATTCTGGTAATTATTTTTAAAACGATA
* *
2983631 ACACTTTGGGATTTTTTTTAAAAATAGTGTCATTCTGGTAATTATTTTTAAAACGATA
1 ATATTTTGGGATTTTTTTTAAAAA-AGTGTCATTCTGGTAATTATTTTTAAAACGATA
* * *
2983689 ATATTTTGGTAATTATTTTTAAAACAA-TGAT-ATTTTGGTAATTATTTTTTAAAA
1 ATATTTTGG-GATTTTTTTTAAAA-AAGTG-TCATTCTGGTAATTA-TTTTTAAAA
2983743 AGTGATATTT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
58 72 0.75
59 23 0.24
60 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (57 bp):
ATATTTTGGGATTTTTTTTAAAAAAGTGTCATTCTGGTAATTATTTTTAAAACGATA
Found at i:2983751 original size:58 final size:56
Alignment explanation
Indices: 2983571--2983763 Score: 185
Period size: 58 Copynumber: 3.3 Consensus size: 56
2983561 CACGACCCAG
* * *
2983571 TGATATTTTGAGAATTTTTTTAAAAACAGTGACATTCTGGTAATTATTTTTAAAACGA
1 TGATATTTTG-GAATTTTTTT-AAAACAATGATATTCTGGTAATTATTTTTAAAAAGA
* * * *
2983629 TGACACTTTGGGATTTTTTTTAAAA-ATAGTG-TCATTCTGGTAATTATTTTTAAAACGA
1 TGATA-TTTTGGAATTTTTTTAAAACA-A-TGAT-ATTCTGGTAATTATTTTTAAAAAGA
* *
2983687 TAATATTTTGGTAATTATTTTTAAAACAATGATATTTTGGTAATTATTTTTTAAAAAG-
1 TGATATTTTGG-AATT-TTTTTAAAACAATGATATTCTGGTAATTA-TTTTTAAAAAGA
*
2983745 TGATATTTTTGTAATTTTT
1 TGATA-TTTTGGAATTTTT
2983764 GAATGTGGAA
Statistics
Matches: 112, Mismatches: 13, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
56 1 0.01
57 12 0.11
58 68 0.61
59 30 0.27
60 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (56 bp):
TGATATTTTGGAATTTTTTTAAAACAATGATATTCTGGTAATTATTTTTAAAAAGA
Found at i:2990713 original size:29 final size:29
Alignment explanation
Indices: 2990664--2990838 Score: 203
Period size: 29 Copynumber: 6.1 Consensus size: 29
2990654 CCCGACCCAC
* * * *
2990664 TGACATTTTGGGACTTTTTTTTAAAACAC
1 TGACATTTTGGTAATTATTTTTAAAACAA
* *
2990693 TGACATTCTGGTAATTATTTTTAAAACGA
1 TGACATTTTGGTAATTATTTTTAAAACAA
*
2990722 TGACATTTTGGGAATT-TTTTTAAAA-ATA
1 TGACATTTTGGTAATTATTTTTAAAACA-A
* *
2990750 GTGGCATTCTGGTAATTATTTTTAAAACAA
1 -TGACATTTTGGTAATTATTTTTAAAACAA
**
2990780 TGATGTTTTGGTAATTATTTTTAAAACAA
1 TGACATTTTGGTAATTATTTTTAAAACAA
*
2990809 TGATATTTTGGTAATTATTTTTAAAA-AA
1 TGACATTTTGGTAATTATTTTTAAAACAA
2990837 TG
1 TG
2990839 TGATTTTTTT
Statistics
Matches: 125, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
28 14 0.11
29 100 0.80
30 10 0.08
31 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (29 bp):
TGACATTTTGGTAATTATTTTTAAAACAA
Found at i:2992545 original size:19 final size:20
Alignment explanation
Indices: 2992456--2992545 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 20
2992446 AACGCGATTT
*
2992456 TGAAAAATGTGTTGCGATAG
1 TGAAAAACGTGTTGCGATAG
* * * *
2992476 T-TAAAATGTGTTGCAAGAG
1 TGAAAAACGTGTTGCGATAG
2992495 TTTGAAAAACGTGTTATTGCGATAG
1 --TGAAAAACGTG---TTGCGATAG
2992520 TGAAAAA-GTGTTGCGATAG
1 TGAAAAACGTGTTGCGATAG
2992539 TGAAAAA
1 TGAAAAA
2992546 TCCAAAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
19 31 0.54
20 1 0.02
21 1 0.02
22 10 0.18
23 7 0.12
25 7 0.12
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.30
Consensus pattern (20 bp):
TGAAAAACGTGTTGCGATAG
Found at i:2992959 original size:20 final size:20
Alignment explanation
Indices: 2992934--2993106 Score: 136
Period size: 20 Copynumber: 8.5 Consensus size: 20
2992924 TTGTATTATT
*
2992934 GCGTTGCGATAGTCAGAACC
1 GCGTTGCGATAGTCAGAATC
* * **
2992954 GCGTTGCAATTTTGT-ATTATC
1 GCGTTGCGA--TAGTCAGAATC
*
2992975 GCGTTGCGATAGTCAGAACC
1 GCGTTGCGATAGTCAGAATC
* **
2992995 GCGTTGCGATTTTGT-ATTATC
1 GCGTTGCGA--TAGTCAGAATC
* *
2993016 GTGTTGCGATAGTCAGAACC
1 GCGTTGCGATAGTCAGAATC
* **
2993036 GCGTTGCGATTTTGT-ATTATC
1 GCGTTGCGA--TAGTCAGAATC
2993057 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
2993077 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
*
2993097 GCATTGCGAT
1 GCGTTGCGAT
2993107 TTTCTAAAAT
Statistics
Matches: 116, Mismatches: 28, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.08
20 64 0.55
21 34 0.29
22 9 0.08
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (20 bp):
GCGTTGCGATAGTCAGAATC
Found at i:2992979 original size:21 final size:21
Alignment explanation
Indices: 2992910--2993066 Score: 101
Period size: 21 Copynumber: 7.6 Consensus size: 21
2992900 AATTTGGAAA
*
2992910 ATCGCATTGCGATTTTGTATT
1 ATCGCGTTGCGATTTTGTATT
* * **
2992931 ATTGCGTTGCGA--TAGTCAGA
1 ATCGCGTTGCGATTTTGT-ATT
* *
2992951 ACCGCGTTGCAATTTTGTATT
1 ATCGCGTTGCGATTTTGTATT
* **
2992972 ATCGCGTTGCGA--TAGTCAGA
1 ATCGCGTTGCGATTTTGT-ATT
*
2992992 ACCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATTTTGTATT
* * **
2993013 ATCGTGTTGCGA--TAGTCAGA
1 ATCGCGTTGCGATTTTGT-ATT
*
2993033 ACCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATTTTGTATT
2993054 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
2993067 AGTCAGAATC
Statistics
Matches: 96, Mismatches: 31, Indels: 18
0.66 0.21 0.12
Matches are distributed among these distances:
19 9 0.09
20 33 0.34
21 45 0.47
22 9 0.09
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (21 bp):
ATCGCGTTGCGATTTTGTATT
Found at i:2992979 original size:41 final size:41
Alignment explanation
Indices: 2992916--2993086 Score: 306
Period size: 41 Copynumber: 4.2 Consensus size: 41
2992906 GAAAATCGCA
*
2992916 TTGCGATTTTGTATTATTGCGTTGCGATAGTCAGAACCGCG
1 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAACCGCG
*
2992957 TTGCAATTTTGTATTATCGCGTTGCGATAGTCAGAACCGCG
1 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAACCGCG
*
2992998 TTGCGATTTTGTATTATCGTGTTGCGATAGTCAGAACCGCG
1 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAACCGCG
*
2993039 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAATCGCG
1 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAACCGCG
2993080 TTGCGAT
1 TTGCGAT
2993087 AGTCAGAATC
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (41 bp):
TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGAACCGCG
Found at i:2996401 original size:20 final size:20
Alignment explanation
Indices: 2996376--2996418 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
2996366 TCGCGGTCGC
2996376 GGACCGCTATTTAAAACCCT
1 GGACCGCTATTTAAAACCCT
2996396 GGACCGCTATTTAAAACCCT
1 GGACCGCTATTTAAAACCCT
2996416 GGA
1 GGA
2996419 GTTGTCTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (20 bp):
GGACCGCTATTTAAAACCCT
Found at i:3000065 original size:115 final size:115
Alignment explanation
Indices: 2999863--3000092 Score: 460
Period size: 115 Copynumber: 2.0 Consensus size: 115
2999853 TGAAAGTAAG
2999863 TAAGAATACTACAAATGCATGTATCATGCTAAACCATAAATTTCTAAATCCATTCAGAAATATCG
1 TAAGAATACTACAAATGCATGTATCATGCTAAACCATAAATTTCTAAATCCATTCAGAAATATCG
2999928 AACTAATCTAGAACGTACAAGAAGGTAGCTAAAATGGAAACCATGAAACA
66 AACTAATCTAGAACGTACAAGAAGGTAGCTAAAATGGAAACCATGAAACA
2999978 TAAGAATACTACAAATGCATGTATCATGCTAAACCATAAATTTCTAAATCCATTCAGAAATATCG
1 TAAGAATACTACAAATGCATGTATCATGCTAAACCATAAATTTCTAAATCCATTCAGAAATATCG
3000043 AACTAATCTAGAACGTACAAGAAGGTAGCTAAAATGGAAACCATGAAACA
66 AACTAATCTAGAACGTACAAGAAGGTAGCTAAAATGGAAACCATGAAACA
3000093 CTCCATACTG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 115 1.00
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.23
Consensus pattern (115 bp):
TAAGAATACTACAAATGCATGTATCATGCTAAACCATAAATTTCTAAATCCATTCAGAAATATCG
AACTAATCTAGAACGTACAAGAAGGTAGCTAAAATGGAAACCATGAAACA
Found at i:3000871 original size:2 final size:2
Alignment explanation
Indices: 3000864--3000893 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3000854 TTGCAGACTG
3000864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3000894 TGATAATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3009121 original size:12 final size:12
Alignment explanation
Indices: 3009104--3009128 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3009094 TATGATTTTG
3009104 ATGAGAAAGTAA
1 ATGAGAAAGTAA
3009116 ATGAGAAAGTAA
1 ATGAGAAAGTAA
3009128 A
1 A
3009129 GCCACCGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (12 bp):
ATGAGAAAGTAA
Found at i:3009954 original size:21 final size:21
Alignment explanation
Indices: 3009928--3010099 Score: 130
Period size: 21 Copynumber: 8.6 Consensus size: 21
3009918 TCTCGCCGTT
*
3009928 AACTCCTGCTGCCGTATCATC
1 AACTCCTGCTGCCGTACCATC
* **
3009949 AACTCCTGCCGGTGTACCATC
1 AACTCCTGCTGCCGTACCATC
*
3009970 AACTCCTGC--CAC--ACTATC
1 AACTCCTGCTGC-CGTACCATC
**
3009988 AACTCCTGCTGGTGTACCATC
1 AACTCCTGCTGCCGTACCATC
*
3010009 AACTCCTGCTGCAGT---ATC
1 AACTCCTGCTGCCGTACCATC
*
3010027 AACTCCT--T-CCGCACCATC
1 AACTCCTGCTGCCGTACCATC
*
3010045 AACTCCTGCTGCTGTACCATC
1 AACTCCTGCTGCCGTACCATC
* * * *
3010066 TACTCCTGCTGCTGCATCATC
1 AACTCCTGCTGCCGTACCATC
*
3010087 AACTTCTGCTGCC
1 AACTCCTGCTGCC
3010100 ACATCACCAA
Statistics
Matches: 118, Mismatches: 22, Indels: 22
0.73 0.14 0.14
Matches are distributed among these distances:
15 2 0.02
16 1 0.01
18 34 0.29
20 1 0.01
21 80 0.68
ACGTcount: A:0.20, C:0.39, G:0.14, T:0.27
Consensus pattern (21 bp):
AACTCCTGCTGCCGTACCATC
Found at i:3009959 original size:18 final size:18
Alignment explanation
Indices: 3009945--3010053 Score: 83
Period size: 18 Copynumber: 5.7 Consensus size: 18
3009935 GCTGCCGTAT
*
3009945 CATCAACTCCTGCCGGTGTAC
1 CATCAACTCCTGCC---GCAC
*
3009966 CATCAACTCCTGCCACAC
1 CATCAACTCCTGCCGCAC
* * *
3009984 TATCAACTCCTGCTGGTGTAC
1 CATCAACTCCTGC---CGCAC
* *
3010005 CATCAACTCCTGCTGCAG
1 CATCAACTCCTGCCGCAC
* *
3010023 TATCAACTCCTTCCGCAC
1 CATCAACTCCTGCCGCAC
3010041 CATCAACTCCTGC
1 CATCAACTCCTGC
3010054 TGCTGTACCA
Statistics
Matches: 70, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
18 42 0.60
21 28 0.40
ACGTcount: A:0.22, C:0.40, G:0.13, T:0.25
Consensus pattern (18 bp):
CATCAACTCCTGCCGCAC
Found at i:3009990 original size:39 final size:39
Alignment explanation
Indices: 3009946--3010053 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
3009936 CTGCCGTATC
3009946 ATCAACTCCTGCCGGTGTACCATCAACTCCTGCCACACT
1 ATCAACTCCTGCCGGTGTACCATCAACTCCTGCCACACT
* ** *
3009985 ATCAACTCCTGCTGGTGTACCATCAACTCCTGCTGCAGT
1 ATCAACTCCTGCCGGTGTACCATCAACTCCTGCCACACT
* *
3010024 ATCAACTCCTTCC---GCACCATCAACTCCTGC
1 ATCAACTCCTGCCGGTGTACCATCAACTCCTGC
3010054 TGCTGTACCA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
36 16 0.26
39 46 0.74
ACGTcount: A:0.22, C:0.40, G:0.13, T:0.25
Consensus pattern (39 bp):
ATCAACTCCTGCCGGTGTACCATCAACTCCTGCCACACT
Found at i:3010055 original size:57 final size:57
Alignment explanation
Indices: 3009928--3010077 Score: 183
Period size: 57 Copynumber: 2.6 Consensus size: 57
3009918 TCTCGCCGTT
* * * ** *
3009928 AACTCCTGCTGCCGTATCATCAACTCCTGCCGGTGTACCATCAACTCCTGCCACACTATC
1 AACTCCTGCTGCTGTACCATCAACTCCTG-C--TGCAGTATCAACTCCTGCCACACCATC
* * *
3009988 AACTCCTGCTGGTGTACCATCAACTCCTGCTGCAGTATCAACTCCTTCCGCACCATC
1 AACTCCTGCTGCTGTACCATCAACTCCTGCTGCAGTATCAACTCCTGCCACACCATC
*
3010045 AACTCCTGCTGCTGTACCATCTACTCCTGCTGC
1 AACTCCTGCTGCTGTACCATCAACTCCTGCTGC
3010078 TGCATCATCA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 52 0.66
59 1 0.01
60 26 0.33
ACGTcount: A:0.20, C:0.39, G:0.14, T:0.27
Consensus pattern (57 bp):
AACTCCTGCTGCTGTACCATCAACTCCTGCTGCAGTATCAACTCCTGCCACACCATC
Found at i:3014452 original size:31 final size:30
Alignment explanation
Indices: 3014417--3014484 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 30
3014407 ATGCAGTTTT
*
3014417 AAATTTTGATTGTATTTCTATTTTAGTCACC
1 AAATTTT-AGTGTATTTCTATTTTAGTCACC
3014448 AAATTATTAGTGTATTTCTATTTTAGTCACC
1 AAATT-TTAGTGTATTTCTATTTTAGTCACC
*
3014479 CAATTT
1 AAATTT
3014485 ATTTTGTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 1 0.03
31 31 0.91
32 2 0.06
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (30 bp):
AAATTTTAGTGTATTTCTATTTTAGTCACC
Found at i:3016541 original size:3 final size:3
Alignment explanation
Indices: 3016533--3016560 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3016523 TTTTAATTTA
3016533 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3016561 TATTTTTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3016898 original size:23 final size:23
Alignment explanation
Indices: 3016872--3016915 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3016862 AATTTTATGT
3016872 TCGTTCATTTGTCTTCATTTACA
1 TCGTTCATTTGTCTTCATTTACA
* * *
3016895 TCGTTCGTTTGTGTTCGTTTA
1 TCGTTCATTTGTCTTCATTTA
3016916 TCATTTTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (23 bp):
TCGTTCATTTGTCTTCATTTACA
Found at i:3033247 original size:24 final size:24
Alignment explanation
Indices: 3033214--3033294 Score: 144
Period size: 24 Copynumber: 3.4 Consensus size: 24
3033204 TTGGGGATAT
*
3033214 ATAATGCAATTAAATCTAAAATAA
1 ATAATACAATTAAATCTAAAATAA
*
3033238 ATAATACAATTAAATCGAAAATAA
1 ATAATACAATTAAATCTAAAATAA
3033262 ATAATACAATTAAATCTAAAATAA
1 ATAATACAATTAAATCTAAAATAA
3033286 ATAATACAA
1 ATAATACAA
3033295 CCGAAAGAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (24 bp):
ATAATACAATTAAATCTAAAATAA
Found at i:3041835 original size:2 final size:2
Alignment explanation
Indices: 3041830--3041862 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3041820 ATTAAAAAAA
3041830 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3041863 CTGGACTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3042131 original size:23 final size:23
Alignment explanation
Indices: 3042101--3042160 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
3042091 ACATTAAACC
3042101 GAAACTAAAGCCAAGAATCAGCA
1 GAAACTAAAGCCAAGAATCAGCA
3042124 GAAACTAAAGCCAAGAATCAGCA
1 GAAACTAAAGCCAAGAATCAGCA
3042147 GAAACTAAAGCCAA
1 GAAACTAAAGCCAA
3042161 ATAATCCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.53, C:0.22, G:0.17, T:0.08
Consensus pattern (23 bp):
GAAACTAAAGCCAAGAATCAGCA
Found at i:3042947 original size:47 final size:47
Alignment explanation
Indices: 3042876--3042968 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
3042866 GCTCACTGCC
* * *
3042876 TCTTTCAATTTAGCCATGTTTCTTCACGGTGATGTGGTCGTCCCTCA
1 TCTTTCAATTTAGCCATGTCTCTTCACAGTGATGTAGTCGTCCCTCA
*
3042923 TCTTTCAATTTAGTCATGTCTCTTCACAGTGATGTAGTCGTCCCTC
1 TCTTTCAATTTAGCCATGTCTCTTCACAGTGATGTAGTCGTCCCTC
3042969 GTCATAGGCG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.16, C:0.26, G:0.17, T:0.41
Consensus pattern (47 bp):
TCTTTCAATTTAGCCATGTCTCTTCACAGTGATGTAGTCGTCCCTCA
Found at i:3057069 original size:42 final size:42
Alignment explanation
Indices: 3057021--3057133 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
3057011 TTTCCGAATT
*
3057021 TGTGTTTGTTTTACGTAATTCGTTTTCCGAAAAACGTTTTCA
1 TGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAACGTTTTCA
* * * *
3057063 TGTGTTTGTTTCACGTAATTCGTTTTCTGGAAAATGTTTTCC
1 TGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAACGTTTTCA
*
3057105 CGTGTTTGTTTCACGTAATT-GATTTTCCG
1 TGTGTTTGTTTCACGTAATTCG-TTTTCCG
3057134 GGATGTAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 62 0.98
ACGTcount: A:0.18, C:0.15, G:0.19, T:0.49
Consensus pattern (42 bp):
TGTGTTTGTTTCACGTAATTCGTTTTCCGAAAAACGTTTTCA
Found at i:3057355 original size:22 final size:22
Alignment explanation
Indices: 3057330--3057410 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 22
3057320 ATTTATTTAT
3057330 TAATATTTATAATAATATAATA
1 TAATATTTATAATAATATAATA
* *
3057352 TAATATTTTTAATATTATATAAAA
1 TAATATTTATAATA--ATATAATA
* *
3057376 TAATCAATTAT-ATTATAATAATA
1 TAAT-ATTTATAATAAT-ATAATA
*
3057399 TAAGATATTATA
1 TAATAT-TTATA
3057411 TTTTTATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
22 16 0.36
23 12 0.27
24 13 0.29
25 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (22 bp):
TAATATTTATAATAATATAATA
Found at i:3057440 original size:26 final size:29
Alignment explanation
Indices: 3057383--3057486 Score: 110
Period size: 29 Copynumber: 3.6 Consensus size: 29
3057373 AAATAATCAA
*
3057383 TTATATTATAATAATATA-AGATATTATATT
1 TTATATTTTAATAATATATA-ATATT-TATT
3057413 TT-TATTTTAATAATATATAATATTT-TT
1 TTATATTTTAATAATATATAATATTTATT
3057440 TTATATATTTAATAATGA-ATAATA-TTATT
1 TTATAT-TTTAATAAT-ATATAATATTTATT
*
3057469 TATATATTTAAATAATAT
1 T-TATATTTTAATAATAT
3057487 TTTAATAAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 15
0.79 0.02 0.18
Matches are distributed among these distances:
27 4 0.06
28 7 0.11
29 45 0.69
30 9 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (29 bp):
TTATATTTTAATAATATATAATATTTATT
Found at i:3057464 original size:19 final size:19
Alignment explanation
Indices: 3057442--3057494 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
3057432 ATATTTTTTT
*
3057442 ATATATTTAATAATGAATA
1 ATATATTTAATAATAAATA
*
3057461 ATATTATTTATATATTTAAATA
1 ATA-TATTTA-ATA-ATAAATA
3057483 ATAT-TTTAATAA
1 ATATATTTAATAA
3057495 AGATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 4 0.14
22 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATATTTAATAATAAATA
Done.