Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008164.1 Hibiscus syriacus cultivar Beakdansim tig00110744_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: 2577652
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:663823 original size:37 final size:37
Alignment explanation
Indices: 663768--663879 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
663758 AACATAACGT
* *
663768 TAGAGTTTTATTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
*
663805 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
*
663842 TAGAGTTTTACTATAATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
663879 T
1 T
663880 CCATAAGCAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (37 bp):
TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
Found at i:664231 original size:17 final size:20
Alignment explanation
Indices: 664211--664247 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
664201 AAAAATTCAA
664211 TTTTT-TTA-TATT-TTATT
1 TTTTTCTTACTATTATTATT
664228 TTTTTCTTACTATTATTATT
1 TTTTTCTTACTATTATTATT
664248 ATATATACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 4 0.24
20 5 0.29
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTCTTACTATTATTATT
Found at i:664586 original size:33 final size:34
Alignment explanation
Indices: 664515--664611 Score: 89
Period size: 33 Copynumber: 2.9 Consensus size: 34
664505 ATATATTTTA
664515 TTTATTATTCTTATACCCTTCTATTTTTATTTTCT
1 TTTATTATTCTTATA-CCTTCTATTTTTATTTTCT
*
664550 TTTATTATTCTT-TA-CTTACTGTTTTTATTATT-T
1 TTTATTATTCTTATACCTT-CTATTTTTATT-TTCT
* *
664583 TTTAGTATTATTATTA--TTCTA-TTTTATTT
1 TTTATTATTCTTA-TACCTTCTATTTTTATTT
664612 ATTTCTATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
31 1 0.02
32 10 0.19
33 23 0.43
34 6 0.11
35 14 0.26
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (34 bp):
TTTATTATTCTTATACCTTCTATTTTTATTTTCT
Found at i:664829 original size:25 final size:25
Alignment explanation
Indices: 664800--664857 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
664790 TCGTATTCAT
*
664800 TTTTATCTTTACT-GTTTTTTTATTC
1 TTTTAT-TTCACTCGTTTTTTTATTC
* *
664825 TTTTATTTCAGTCGTTTTTTTATTT
1 TTTTATTTCACTCGTTTTTTTATTC
664850 TCTTTATT
1 T-TTTATT
664858 ATATTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 18 0.64
26 6 0.21
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.72
Consensus pattern (25 bp):
TTTTATTTCACTCGTTTTTTTATTC
Found at i:666527 original size:35 final size:34
Alignment explanation
Indices: 666383--666538 Score: 95
Period size: 35 Copynumber: 4.5 Consensus size: 34
666373 GAACATATTA
* * *
666383 GCACACACAGTGCTATCATATCAGAATCATAATAT
1 GCACACACAGTGCAATCACATCAAAAT-ATAATAT
* * * *
666418 GGACACAAAGTGCAATCACATCTGAAATATACTAGT
1 GCACACACAGTGCAATCACATC-AAAATATAATA-T
* * ** * *
666454 GTAC-CTAC-GGGCAA-CACCA-CAGTATATCATAA
1 GCACAC-ACAGTGCAATCA-CATCAAAATATAATAT
*
666486 GCACACACAGTGCTATCACATCAAAATCATAATAT
1 GCACACACAGTGCAATCACATCAAAAT-ATAATAT
*
666521 GCACACAAAGTGCAATCA
1 GCACACACAGTGCAATCA
666539 TATATGAAAT
Statistics
Matches: 87, Mismatches: 25, Indels: 18
0.67 0.19 0.14
Matches are distributed among these distances:
32 5 0.06
33 13 0.15
34 9 0.10
35 52 0.60
36 8 0.09
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.21
Consensus pattern (34 bp):
GCACACACAGTGCAATCACATCAAAATATAATAT
Found at i:666573 original size:103 final size:103
Alignment explanation
Indices: 666382--666583 Score: 305
Period size: 103 Copynumber: 2.0 Consensus size: 103
666372 AGAACATATT
* * * *
666382 AGCACACACAGTGCTATCATATCAGAATCATAATATGGACACAAAGTGCAATCACATCTGAAATA
1 AGCACACACAGTGCTATCACATCAAAATCATAATATGCACACAAAGTGCAATCACATATGAAATA
* * * *
666447 TACTAGTGTACCTACGGGCAACACCACAGTATATCATA
66 TACTAGTGTACCCACCGACAACACCACAATATATCATA
*
666485 AGCACACACAGTGCTATCACATCAAAATCATAATATGCACACAAAGTGCAATCATATATGAAATA
1 AGCACACACAGTGCTATCACATCAAAATCATAATATGCACACAAAGTGCAATCACATATGAAATA
* *
666550 TACTAGTGTACCCACCGATAACACGACAATATAT
66 TACTAGTGTACCCACCGACAACACCACAATATAT
666584 TAATCACTCC
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 88 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.22
Consensus pattern (103 bp):
AGCACACACAGTGCTATCACATCAAAATCATAATATGCACACAAAGTGCAATCACATATGAAATA
TACTAGTGTACCCACCGACAACACCACAATATATCATA
Found at i:677060 original size:38 final size:38
Alignment explanation
Indices: 677018--677184 Score: 144
Period size: 38 Copynumber: 4.5 Consensus size: 38
677008 CAATGTTCTA
* * * *
677018 TATTTAAGAATTTAAATTTAATTAAAATTTGAATATGT
1 TATTTAAGAATTTATATTTGATTAAAATATGAATATAT
* * *
677056 TATTTATGAATTTATATTCGATTGAAATATGAATATAT
1 TATTTAAGAATTTATATTTGATTAAAATATGAATATAT
***
677094 TATTTATA-AATTTATATTTGATT-AAATGCAAATATAT
1 TATTTA-AGAATTTATATTTGATTAAAATATGAATATAT
* * * **
677131 TATTTATGAATTTATA-TTCATTAAGATACAAATATAT
1 TATTTAAGAATTTATATTTGATTAAAATATGAATATAT
* *
677168 TA-TCATGAATTTATATT
1 TATTTAAGAATTTATATT
677185 AGTTTAGAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
36 17 0.16
37 40 0.37
38 51 0.47
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (38 bp):
TATTTAAGAATTTATATTTGATTAAAATATGAATATAT
Found at i:677137 original size:37 final size:37
Alignment explanation
Indices: 677049--677198 Score: 169
Period size: 37 Copynumber: 4.0 Consensus size: 37
677039 TTAAAATTTG
* * **
677049 AATATGTTATTTATGAATTTATATTCGATTGAAATATG
1 AATATATTATTTATGAATTTATATTTGATT-AAATACA
* *
677087 AATATATTATTTATAAATTTATATTTGATTAAATGCA
1 AATATATTATTTATGAATTTATATTTGATTAAATACA
*
677124 AATATATTATTTATGAATTTATA-TTCATTAAGATACA
1 AATATATTATTTATGAATTTATATTTGATTAA-ATACA
* * *
677161 AATATATTA-TCATGAATTTATATTAGTTTAGAATACA
1 AATATATTATTTATGAATTTATATTTGATTA-AATACA
677198 A
1 A
677199 TATTGTAGTT
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
36 19 0.20
37 49 0.51
38 28 0.29
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (37 bp):
AATATATTATTTATGAATTTATATTTGATTAAATACA
Found at i:677148 original size:17 final size:17
Alignment explanation
Indices: 677089--677148 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
677079 GAAATATGAA
*
677089 TATATTATTTATAAATT
1 TATATTATTTATGAATT
* *
677106 TATATTTGATTAAATGCAA-A
1 TATA-TT-ATT-TATG-AATT
677126 TATATTATTTATGAATT
1 TATATTATTTATGAATT
677143 TATATT
1 TATATT
677149 CATTAAGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.06
17 13 0.39
18 5 0.15
19 5 0.15
20 6 0.18
21 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (17 bp):
TATATTATTTATGAATT
Found at i:689207 original size:3 final size:3
Alignment explanation
Indices: 689199--689253 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
689189 TAATTATTTT
*
689199 TAA TAA TAA TAA TATA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
689245 TAA TAA TAA
1 TAA TAA TAA
689254 AATGAGTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:689943 original size:113 final size:113
Alignment explanation
Indices: 689673--690436 Score: 1088
Period size: 112 Copynumber: 6.8 Consensus size: 113
689663 ATCTATCGAG
* * * * * *
689673 TGATGAATTTGAGCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTTTTCAGA
1 TGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* ** *
689738 TGAGTTCTTCTCATTATGAACTCTTTCACTGGGGATGCTGATCCATCAAA
66 TGAGTTCTTCTCATTATGAA--CTTTCTCTGGCAAAGCTGATCCATCAAA
* *
689788 TGATGAATTTAAACAAAAGGTTGAACAAATTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* *
689853 TGAGTTCTTCTCATTATGAACTTTTTCTGG-AGAAGATGATCCATCAAA
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCA-AAGCTGATCCATCAAA
* * * *
689901 TGATGGATTTGAGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
1 TGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* *
689966 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAG
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAA
* * *
690014 TGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
1 TGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
690079 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAA
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAA
* * * *
690127 TAATGAATTCAAGCAAAA-GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTGTTCAGA
1 TGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* *
690191 TGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGTTGATCCATCAAA
66 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAA
* * * * *
690239 TAATGAATTCAAG-AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CTCTCTTCAG
1 TGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCT-TCTTCAG
*
690302 ATGAGTTCTTCTTATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAA
65 ATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAA
* * * * *
690351 TGATGAATTCAAGCAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCTTTTTTCAGA
1 TGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
690415 CGAGTTCTTCTCATTATGAACT
66 TGAGTTCTTCTCATTATGAACT
690437 CTAACTGACA
Statistics
Matches: 600, Mismatches: 43, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
111 6 0.01
112 264 0.44
113 252 0.42
114 1 0.00
115 77 0.13
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (113 bp):
TGATGAATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAA
Found at i:691283 original size:16 final size:18
Alignment explanation
Indices: 691251--691284 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
691241 GCACATGGCA
691251 TTCCAGTTCACATGTTTG
1 TTCCAGTTCACATGTTTG
691269 TTCCAGTT-A-ATGTTTG
1 TTCCAGTTCACATGTTTG
691285 GACTGGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (18 bp):
TTCCAGTTCACATGTTTG
Found at i:692039 original size:19 final size:16
Alignment explanation
Indices: 692015--692059 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
692005 TTTCAAAATT
692015 ATAAATTGAATCTTCGAAA
1 ATAAATTGAATC-TC--AA
*
692034 ATAAATTAAATCTCAA
1 ATAAATTGAATCTCAA
692050 ATAAATTGAA
1 ATAAATTGAA
692060 CTTGGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 11 0.46
18 2 0.08
19 11 0.46
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (16 bp):
ATAAATTGAATCTCAA
Found at i:692406 original size:1 final size:1
Alignment explanation
Indices: 692391--692508 Score: 83
Period size: 1 Copynumber: 118.0 Consensus size: 1
692381 CTTGACCACA
* * * * * * * * *
692391 TTTTTCTTTTCTTTTTTCTTTTTTTTTTTTTCTTTCTTTTTTTCTCTTTTTTCTTTTTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * *
692456 TTTTTCTTTTCTCTTTTTTCTTTTCTTTCTTTTTTCTTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
692509 CTTCAAGCAT
Statistics
Matches: 83, Mismatches: 34, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.00, C:0.14, G:0.01, T:0.86
Consensus pattern (1 bp):
T
Found at i:692426 original size:25 final size:26
Alignment explanation
Indices: 692391--692511 Score: 131
Period size: 29 Copynumber: 4.5 Consensus size: 26
692381 CTTGACCACA
692391 TTTTTCTTTTCTTTTT-TCTTTTTTTT
1 TTTTTC-TTTCTTTTTCTCTTTTTTTT
692417 TTTTTCTTTCTTTTTTTCTCTTTTTTCTT
1 TTTTTCTTTC--TTTTTCTCTTTTTT-TT
* *
692446 TTTTTTTTTCTTTTTCTTTTCTCTTTTT
1 TTTTTCTTTCTTTTTCTCTT-T-TTTTT
692474 TCTTTTCTTTCTTTTT-TCTTTTTTTGT
1 T-TTTTCTTTCTTTTTCTCTTTTTTT-T
692501 TTTTT-TTTCTT
1 TTTTTCTTTCTT
692512 CAAGCATAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 17
0.80 0.04 0.16
Matches are distributed among these distances:
25 10 0.12
26 14 0.17
27 17 0.20
28 15 0.18
29 27 0.33
ACGTcount: A:0.00, C:0.14, G:0.01, T:0.85
Consensus pattern (26 bp):
TTTTTCTTTCTTTTTCTCTTTTTTTT
Found at i:692458 original size:54 final size:55
Alignment explanation
Indices: 692391--692511 Score: 167
Period size: 54 Copynumber: 2.2 Consensus size: 55
692381 CTTGACCACA
* * *
692391 TTTTTCTTTTCTTTTTTCTTTTTTTTTTTTTC-TTTCTTT-TTTTCTCTTTTTTCT
1 TTTTTTTTTTCTTTTTTCTTTTCTCTTTTTTCTTTTCTTTCTTTTCTCTTTTTT-T
*
692445 TTTTTTTTTTC-TTTTTCTTTTCTCTTTTTTCTTTTCTTTCTTTTTTCTTTTTTT
1 TTTTTTTTTTCTTTTTTCTTTTCTCTTTTTTCTTTTCTTTCTTTTCTCTTTTTTT
*
692499 GTTTTTTTTTCTT
1 TTTTTTTTTTCTT
692512 CAAGCATAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
53 18 0.31
54 28 0.47
55 13 0.22
ACGTcount: A:0.00, C:0.14, G:0.01, T:0.85
Consensus pattern (55 bp):
TTTTTTTTTTCTTTTTTCTTTTCTCTTTTTTCTTTTCTTTCTTTTCTCTTTTTTT
Found at i:692481 original size:58 final size:57
Alignment explanation
Indices: 692391--692508 Score: 175
Period size: 58 Copynumber: 2.1 Consensus size: 57
692381 CTTGACCACA
* * *
692391 TTTTTCTTTTCTTTTTTCTTTTTTTTTTTTTCTTTCTTTTTTTCTCTTTTTTCTTTTTT
1 TTTTTCTTTTCTCTTTTCTCTTTTTTCTTTTCTTTC-TTTTTTCT-TTTTTTCTTTTTT
*
692450 TTTTTCTTTT-TCTTTTCTCTTTTTTCTTTTCTTTCTTTTTTCTTTTTTTGTTTTTT
1 TTTTTCTTTTCTCTTTTCTCTTTTTTCTTTTCTTTCTTTTTTCTTTTTTTCTTTTTT
692506 TTT
1 TTT
692509 CTTCAAGCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
56 15 0.27
57 8 0.15
58 22 0.40
59 10 0.18
ACGTcount: A:0.00, C:0.14, G:0.01, T:0.86
Consensus pattern (57 bp):
TTTTTCTTTTCTCTTTTCTCTTTTTTCTTTTCTTTCTTTTTTCTTTTTTTCTTTTTT
Found at i:692505 original size:7 final size:7
Alignment explanation
Indices: 692397--692497 Score: 120
Period size: 7 Copynumber: 14.6 Consensus size: 7
692387 CACATTTTTC
692397 TTTTCTT
1 TTTTCTT
692404 TTTTCTT
1 TTTTCTT
*
692411 TTTTTTT
1 TTTTCTT
692418 TTTTCTT
1 TTTTCTT
692425 TCTTT-TT
1 T-TTTCTT
*
692432 TTCTCTT
1 TTTTCTT
692439 TTTTC-T
1 TTTTCTT
692445 TTTT-TT
1 TTTTCTT
692451 TTTTC-T
1 TTTTCTT
692457 TTTTCTT
1 TTTTCTT
*
692464 TTCTCTT
1 TTTTCTT
692471 TTTTCTTT
1 TTTTC-TT
692479 TCTTTCTT
1 T-TTTCTT
692487 TTTTCTT
1 TTTTCTT
692494 TTTT
1 TTTT
692498 TGTTTTTTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
6 18 0.22
7 50 0.62
8 9 0.11
9 4 0.05
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:699724 original size:15 final size:15
Alignment explanation
Indices: 699701--699732 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
699691 TGAAATGAAT
699701 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
699716 AATGCATGTATGCAA
1 AATGAATGTATGCAA
699731 AA
1 AA
699733 AGATATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:705128 original size:3 final size:3
Alignment explanation
Indices: 705120--705185 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
705110 AATTATTTTT
* *
705120 TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
705165 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
705186 AATGAGTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:711620 original size:2 final size:2
Alignment explanation
Indices: 711613--711642 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
711603 ATAGAAAAAC
711613 AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
711643 GTACCTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:715940 original size:64 final size:62
Alignment explanation
Indices: 715872--716081 Score: 185
Period size: 65 Copynumber: 3.3 Consensus size: 62
715862 TGCACTAAGA
* *
715872 GTGCATCGATGCATCAAGTGCATTTGATGTTTCAAAATAGTCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATA-TCAGAGTGCATCGATGCATGG-TG
* * * **
715936 GTGCAACGATTCATCAAATGCATTCAATGTTTTCATAAA-ATCCTCAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAT-CAGAGTGCATCGATGCATGGT-
*
716000 T
62 G
* *
716001 GTGCATCGATGCATGAAATACATTCGATG-TTCAATTTAAT-TCATGA-TGCATCGATGCATGGA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAA---AATATCA-GAGTGCATCGATGCATGG-
716063 TTG
61 -TG
*
716066 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
716082 CTATGAAAAA
Statistics
Matches: 117, Mismatches: 18, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 42 0.36
65 66 0.56
66 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (62 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATATCAGAGTGCATCGATGCATGGTG
Found at i:716547 original size:2 final size:2
Alignment explanation
Indices: 716540--716566 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
716530 AATTGATTAA
716540 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 A
716567 GCTTAAGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:716786 original size:14 final size:15
Alignment explanation
Indices: 716767--716796 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
716757 TTCAAACATT
716767 AAACAATCCA-AAAC
1 AAACAATCCAGAAAC
716781 AAACAATCCAGAAAC
1 AAACAATCCAGAAAC
716796 A
1 A
716797 TCAAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.63, C:0.27, G:0.03, T:0.07
Consensus pattern (15 bp):
AAACAATCCAGAAAC
Found at i:722629 original size:22 final size:21
Alignment explanation
Indices: 722587--722626 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
722577 TATGAGTTTT
*
722587 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
722608 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
722627 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:724596 original size:18 final size:17
Alignment explanation
Indices: 724542--724590 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
724532 TTGGACCCTT
* *
724542 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
724560 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
724578 AGTGCATTCGATG
1 AGTGCA-TCGATG
724591 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:724659 original size:46 final size:45
Alignment explanation
Indices: 724561--724667 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
724551 GTGCACTAAG
* * *
724561 AGTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGTCAG
1 AGTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGTCAC
*
724606 AGTGCATCGATGCATGAAATGCATTCGATGTTTTCATAAA-A-TCCTC
1 AGTGCATCGATGCATGAAATGCATTCGATG-TTTCA-AAATAGT-CAC
724652 AGTGCATCGATGCATG
1 AGTGCATCGATGCATG
724668 GTATGTGCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 29 0.53
46 23 0.42
47 3 0.05
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (45 bp):
AGTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGTCAC
Found at i:724743 original size:65 final size:63
Alignment explanation
Indices: 724607--724732 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 63
724597 AATAGTCAGA
724607 GTGCATCGATGCATGAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGTAT
**
724672 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGATGCATCGATGCATGG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTC-ATAAAATCTCA-G-TGCATCGATGCATGG
724733 ATTGGTGCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
62 3 0.05
63 4 0.07
64 20 0.36
65 29 0.52
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTAT
Found at i:729905 original size:29 final size:29
Alignment explanation
Indices: 729839--729912 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
729829 GACGTTGACC
*
729839 GGTGCTATTTTAGTAATTAATTCGAAATA
1 GGTGCTATTTTAGTAATTAATTCGAAAAA
* *
729868 GGTACTATTTTAGTAATTAATT-TAAAAA
1 GGTGCTATTTTAGTAATTAATTCGAAAAA
* *
729896 GGGTGTTATTTTTGTAA
1 -GGTGCTATTTTAGTAA
729913 AATGGTTGAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 4 0.11
29 34 0.89
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.45
Consensus pattern (29 bp):
GGTGCTATTTTAGTAATTAATTCGAAAAA
Found at i:737009 original size:17 final size:17
Alignment explanation
Indices: 736987--737044 Score: 81
Period size: 17 Copynumber: 3.7 Consensus size: 17
736977 TGACCAGTTC
736987 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
737004 TGACCCGA--C--CCGT
1 TGACCCGACCCGACCGT
737017 TGA-CCGACCCGACCGT
1 TGACCCGACCCGACCGT
737033 TGACCCGACCCG
1 TGACCCGACCCG
737045 TTGACCGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 4 0.11
13 7 0.19
14 1 0.03
15 1 0.03
16 7 0.19
17 16 0.44
ACGTcount: A:0.17, C:0.47, G:0.24, T:0.12
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:737010 original size:12 final size:12
Alignment explanation
Indices: 736993--737064 Score: 63
Period size: 12 Copynumber: 5.3 Consensus size: 12
736983 GTTCTGACCC
736993 GACCCGACCGTT
1 GACCCGACCGTT
737005 GACCCGACCCGTT
1 GACCCGA-CCGTT
737018 GACCGACCCGACCGTT
1 ----GACCCGACCGTT
737034 GACCCGACCCGTT
1 GACCCGA-CCGTT
*
737047 GACCGTTGACCGTT
1 GACC--CGACCGTT
737061 GACC
1 GACC
737065 GGTGCTATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 14
0.77 0.02 0.21
Matches are distributed among these distances:
12 14 0.27
13 14 0.27
14 9 0.18
15 2 0.04
16 5 0.10
17 7 0.14
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.17
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:737025 original size:29 final size:29
Alignment explanation
Indices: 736991--737051 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
736981 CAGTTCTGAC
736991 CCGACCCGACCGTTGACCCGACCCGTTGA
1 CCGACCCGACCGTTGACCCGACCCGTTGA
737020 CCGACCCGACCGTTGACCCGACCCGTTGA
1 CCGACCCGACCGTTGACCCGACCCGTTGA
737049 CCG
1 CCG
737052 TTGACCGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.16, C:0.46, G:0.25, T:0.13
Consensus pattern (29 bp):
CCGACCCGACCGTTGACCCGACCCGTTGA
Found at i:737131 original size:29 final size:29
Alignment explanation
Indices: 737065--737132 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
737055 ACCGTTGACC
* *
737065 GGTGCTATTTTAGTAATTAATTCGAAATA
1 GGTGATATTTTAGTAATTAATTCGAAAAA
* *
737094 GGTGCTATTTTAGTAATTAATT-TAAAAA
1 GGTGATATTTTAGTAATTAATTCGAAAAA
737122 GGATGATATTT
1 GG-TGATATTT
737133 CTGTAAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 6 0.17
29 29 0.83
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.43
Consensus pattern (29 bp):
GGTGATATTTTAGTAATTAATTCGAAAAA
Found at i:745159 original size:3 final size:3
Alignment explanation
Indices: 745148--745190 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
745138 TAAAAGAAAA
*
745148 AAT ATT AAT AAT AAT AATT AA- AAT AAT AAT AAT AATT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AA-T AAT AAT
745191 TAAAACCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 27 0.77
4 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:745569 original size:128 final size:128
Alignment explanation
Indices: 745411--746631 Score: 400
Period size: 139 Copynumber: 9.0 Consensus size: 128
745401 TATTTGGGTA
* * *
745411 ATTTGGAGACAACACAGTTCCTTCGTGTTGAGGAAGTCTCG-TTATTTGAGGATGACACTGCTCC
1 ATTTGGAGACAACACAGTTCCTTCGCGTTGAGGAAGTCT-GATTATGTGAGGATGACACTCCTCC
* *
745475 TTCG-TGTTGGGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTTAAGGACGTCTAGATGT
65 TTCGCT-TTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTTAAGGACGTCTAGACGT
*
745539 ATTTGGAGACAACAC-GATTCCTTCGCGTTGAGGAAGTCTGATTGTGTGAGGATGACACTCCTCC
1 ATTTGGAGACAACACAG-TTCCTTCGCGTTGAGGAAGTCTGATTATGTGAGGATGACACTCCTCC
** * * *
745603 TTCGCTTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTTGTGTTGAGGATGTCTAGCCGT
65 TTCGCTTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTTAAGGACGTCTAGACGT
* * * ** ***
745667 ATTTGGAGATAATTTGGAGGCAACCGGTTTCTTCGTATTGAGGAAGTCTGATTGCCTGAGGATGA
1 ATTTGGAGA-CA-----A--C-A-CAGTTCCTTCGCGTTGAGGAAGTCTGATTATGTGAGGATGA
** ** * ** * *
745732 CACTGTTCCTTCG-TGTTGAGGAGATCTGGTCAATGGATGACATTGGTGTTTCGTGTTGAA-TAC
56 CACTCCTCCTTCGCT-TTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTT-AAGGAC
745795 GTCTATTCATATTTGGA-GAT
119 G-----TC-TA----GACG-T
* * * * * * * * *
745815 AATTTGGAGACAACACTGTTCTTTTC-CTTTGAGGAGGTCTAATTTTCTGATGATGACACTGCTC
1 -ATTTGGAGACAACACAGTTC-CTTCGCGTTGAGGAAGTCTGATTATGTGAGGATGACACTCCTC
* * * * ** * * * * *
745879 CTTTGCGTTAAGGAGATCTAGTCAATAGATGGCATTGTTCCTTCGTATTGAGGACATCTAGTCGT
64 CTTCGCTTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTTAAGG--A-C--GTC--
745944 ATTTAGA-GAT
122 ---TAGACG-T
* * * * * ** *
745954 AATTTGGAGACAACACGGTTCCTTCGCATTGAGGAAGTCTGATTGTCTGAGGATGACATTGTTCA
1 -ATTTGGAGACAACACAGTTCCTTCGCGTTGAGGAAGTCTGATTATGTGAGGATGACACTCCTCC
* ** * * ** * * * *
746019 TTTGCGTTAAAGG-GATCTAGTCAGTGGACAACATTGATCCTTCTTGTTGAGGATGTCTAGATGT
65 TTCGC-TTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTTAAGGACGTCT--A-G-
*
746083 ATTTGGTGAT
125 A-----CG-T
** * * * * * * * *
746093 AATTTGGAGACAACATGGTTCTTTCGTGTTGGGGAAGTTTGATTGTTTGAGGATGACACTTCTTC
1 -ATTTGGAGACAACACAGTTCCTTCGCGTTGAGGAAGTCTGATTATGTGAGGATGACACTCCTCC
* * * * * ** * * *
746158 TTTGCGTTAAGGAGATCTGGTCAGTGGACGGTATTGTTCTTTCGTGTTGAGGTAATC-TAGCAGT
65 TTCGCTTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTTAAGG--A-CGT--C--T
*
746222 ATTTGAAGAT
123 A---GACG-T
** * * * * ** *
746232 AATTTGGAGACAACATGGTTTCTTCGCGTTGAGGAAGTCTGATTGTCTAAGGATGACACAACTAC
1 -ATTTGGAGACAACACAGTTCCTTCGCGTTGAGGAAGTCTGATTATGTGAGGATGACACTCCTCC
* * * * *
746297 TTTG-TGTTGAGGAGATCTGGTCGATGGATGACATTGTTCCTTCGTGTTGAGGACGTCTAGTCGT
65 TTCGCT-TTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTTAAGGACGTCTAGACGT
** * * * * * *
746361 ATTTAGAGATAATTTAGAGACAACATGGTTCCTTCGCTTTGAGGAGGTATGATTGTTTCAGGATG
1 ATTT---G--------GAGACAACACAGTTCCTTCGCGTTGAGGAAGTCTGATTATGTGAGGATG
* * * * * * * *
746426 ACACTACTCTTTCACGTTGAAGAGATTTGGTCGGTGGATGACATTGTTCCTTCGTGTTGAGGACG
55 ACACTCCTCCTTCGCTTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTTAAGGACG
***
746491 TCTAGTTAT
120 TCTAGACGT
* * ** * * *
746500 ACTTGGAGATAACATTGTTCCTTCGTGTTGAGGAAGTCT-AGTTATCT--GGATGACACTGCTCC
1 ATTTGGAGACAACACAGTTCCTTCGCGTTGAGGAAGTCTGA-TTATGTGAGGATGACACTCCTCC
* * * * * * * * *
746562 TTCACATTGAGGAGATGTGGTCGGTAGATGACAGTGTTCCTTCGTGTTGAGGACATCTAGCCGT
65 TTCGCTTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTTAAGGACGTCTAGACGT
746626 ACTTTG
1 A-TTTG
746632 AAAATTTGAT
Statistics
Matches: 859, Mismatches: 156, Indels: 157
0.73 0.13 0.13
Matches are distributed among these distances:
126 69 0.08
127 6 0.01
128 156 0.18
129 4 0.00
130 2 0.00
131 2 0.00
132 1 0.00
133 3 0.00
134 4 0.00
135 1 0.00
136 3 0.00
137 5 0.01
138 92 0.11
139 470 0.55
140 9 0.01
141 4 0.00
142 1 0.00
143 7 0.01
144 4 0.00
145 3 0.00
147 1 0.00
148 3 0.00
149 9 0.01
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.35
Consensus pattern (128 bp):
ATTTGGAGACAACACAGTTCCTTCGCGTTGAGGAAGTCTGATTATGTGAGGATGACACTCCTCCT
TCGCTTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTTAAGGACGTCTAGACGT
Found at i:745915 original size:139 final size:139
Alignment explanation
Indices: 745539--746631 Score: 987
Period size: 139 Copynumber: 8.0 Consensus size: 139
745529 GTCTAGATGT
* * * * *
745539 ATTTGGAGACAACACGATTCCTTCGCGTTGAGGAAGTCTGATTGTGTGAGGATGACACTCCTCCT
1 ATTTGGAGACAACATGGTTCCTTCGCTTTGAGGAAGTCTGATTGTCTGAGGATGACACTGCTCCT
* * * ** * * *
745604 TCGCTTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTTGTGTTGAGGATGTCTAGCCGTAT
66 TTGCGTTAAGGAGATCTGGTCAATGGATGACATTGTTCCTTCGTGTTGAGGACGTCTAGTCGTAT
745669 TTGGAGATA
131 TTGGAGATA
* * * * *
745678 ATTTGGAGGCAAC-CGGTTTCTTCG-TATTGAGGAAGTCTGATTGCCTGAGGATGACACTGTTCC
1 ATTTGGAGACAACATGGTTCCTTCGCT-TTGAGGAAGTCTGATTGTCTGAGGATGACACTGCTCC
* * * * ** ** * *
745741 TTCGTGTTGAGGAGATCTGGTCAATGGATGACATTGGTGTTTCGTGTTGAATACGTCTATTCATA
65 TTTGCGTTAAGGAGATCTGGTCAATGGATGACATTGTTCCTTCGTGTTGAGGACGTCTAGTCGTA
745806 TTTGGAGATA
130 TTTGGAGATA
* * * * *
745816 ATTTGGAGACAACACT-GTTCTTTTC-CTTTGAGGAGGTCTAATTTTCTGATGATGACACTGCTC
1 ATTTGGAGACAACA-TGGTTC-CTTCGCTTTGAGGAAGTCTGATTGTCTGAGGATGACACTGCTC
* * * * *
745879 CTTTGCGTTAAGGAGATCTAGTCAATAGATGGCATTGTTCCTTCGTATTGAGGACATCTAGTCGT
64 CTTTGCGTTAAGGAGATCTGGTCAATGGATGACATTGTTCCTTCGTGTTGAGGACGTCTAGTCGT
*
745944 ATTTAGAGATA
129 ATTTGGAGATA
* * * * *
745955 ATTTGGAGACAACACGGTTCCTTCGCATTGAGGAAGTCTGATTGTCTGAGGATGACATTGTTCAT
1 ATTTGGAGACAACATGGTTCCTTCGCTTTGAGGAAGTCTGATTGTCTGAGGATGACACTGCTCCT
* * ** * * *
746020 TTGCGTTAAAGG-GATCTAGTCAGTGGACAACATTGATCCTTCTTGTTGAGGATGTCTAGAT-GT
66 TTGCGTT-AAGGAGATCTGGTCAATGGATGACATTGTTCCTTCGTGTTGAGGACGTCTAG-TCGT
*
746083 ATTTGGTGATA
129 ATTTGGAGATA
* * * * * *
746094 ATTTGGAGACAACATGGTTCTTTCG-TGTTGGGGAAGTTTGATTGTTTGAGGATGACACTTCTTC
1 ATTTGGAGACAACATGGTTCCTTCGCT-TTGAGGAAGTCTGATTGTCTGAGGATGACACTGCTCC
* * ** * *
746158 TTTGCGTTAAGGAGATCTGGTCAGTGGACGGTATTGTTCTTTCGTGTTGAGGTA-ATCTAG-CAG
65 TTTGCGTTAAGGAGATCTGGTCAATGGATGACATTGTTCCTTCGTGTTGAGG-ACGTCTAGTC-G
*
746221 TATTTGAAGATA
128 TATTTGGAGATA
* * * ** *
746233 ATTTGGAGACAACATGGTTTCTTCGCGTTGAGGAAGTCTGATTGTCTAAGGATGACACAACTACT
1 ATTTGGAGACAACATGGTTCCTTCGCTTTGAGGAAGTCTGATTGTCTGAGGATGACACTGCTCCT
* * *
746298 TTGTGTTGAGGAGATCTGGTCGATGGATGACATTGTTCCTTCGTGTTGAGGACGTCTAGTCGTAT
66 TTGCGTTAAGGAGATCTGGTCAATGGATGACATTGTTCCTTCGTGTTGAGGACGTCTAGTCGTAT
*
746363 TTAGAGATA
131 TTGGAGATA
* * * * * *
746372 ATTTAGAGACAACATGGTTCCTTCGCTTTGAGGAGGTATGATTGTTTCAGGATGACACTACT-CT
1 ATTTGGAGACAACATGGTTCCTTCGCTTTGAGGAAGTCTGATTGTCTGAGGATGACACTGCTCCT
* * **
746436 TTCACGTTGAA-GAGATTTGGTCGGTGGATGACATTGTTCCTTCGTGTTGAGGACGTCTA---G-
66 TT-GCGTT-AAGGAGATCTGGTCAATGGATGACATTGTTCCTTCGTGTTGAGGACGTCTAGTCGT
746496 --TT----AT-
129 ATTTGGAGATA
* * * *
746500 ACTTGGAGATAACATTGTTCCTTCG-TGTTGAGGAAGTCT-AGTTATCT--GGATGACACTGCTC
1 ATTTGGAGACAACATGGTTCCTTCGCT-TTGAGGAAGTCTGA-TTGTCTGAGGATGACACTGCTC
** * * * ** * * * *
746561 CTTCACATTGAGGAGATGTGGTCGGTAGATGACAGTGTTCCTTCGTGTTGAGGACATCTAGCCGT
64 CTTTGCGTTAAGGAGATCTGGTCAATGGATGACATTGTTCCTTCGTGTTGAGGACGTCTAGTCGT
746626 ACTTTG
129 A-TTTG
746632 AAAATTTGAT
Statistics
Matches: 782, Mismatches: 141, Indels: 67
0.79 0.14 0.07
Matches are distributed among these distances:
125 1 0.00
126 60 0.08
127 5 0.01
128 35 0.04
129 3 0.00
133 4 0.01
136 1 0.00
138 127 0.16
139 534 0.68
140 12 0.02
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.35
Consensus pattern (139 bp):
ATTTGGAGACAACATGGTTCCTTCGCTTTGAGGAAGTCTGATTGTCTGAGGATGACACTGCTCCT
TTGCGTTAAGGAGATCTGGTCAATGGATGACATTGTTCCTTCGTGTTGAGGACGTCTAGTCGTAT
TTGGAGATA
Found at i:746150 original size:278 final size:276
Alignment explanation
Indices: 745400--746496 Score: 1081
Period size: 278 Copynumber: 4.0 Consensus size: 276
745390 TGTTCTAGAA
* * * ** * *
745400 GTATTTG-GGTAATTTGGAGACAACACAGTTCCTTCGTGTTGAGGAAGTCTCG-TTATTTGAGGA
1 GTATTTGAGATAATTTGGAGACAACACGGTTTCTTCGCATTGAGGAAGTCT-GATTGTCTGAGGA
* * * * * * * *
745463 TGACACTGCTCCTTCGTGTTGGGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGTTAAGGA
65 TGACACTGTTCATTTGTGTTGAGGAGATCTGGTCAGTGGATGACATTGATCCTTCGTGTTGAGGA
* * *
745528 CGTCTA---G-A--T---G-T-ATTTGGAGACAACACGATTCCTTCGCGTTGAGGAAGTCTGATT
130 CGTCTAGTCGTATTTGGAGATAATTTGGAGACAACATGGTTCCTTCG-TTTGAGGAAGTCTGATT
* * * * * * *
745582 GTGTGAGGATGACACTCCTCCTTCGCTTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTTG
194 GTTTGAGGATGACACTACTCCTTTGCGTTAAGGAGATCTGGTCAGTGGATGACATTGTTCCTTCG
** *
745647 TGTTGAGGATGTCTAGCC
259 TGTTGAGGACATCTAGTC
* * *
745665 GTATTTGGAGATAATTTGGAGGCAAC-CGGTTTCTTCGTATTGAGGAAGTCTGATTGCCTGAGGA
1 GTATTT-GAGATAATTTGGAGACAACACGGTTTCTTCGCATTGAGGAAGTCTGATTGTCTGAGGA
* * * * ** **
745729 TGACACTGTTCCTTCGTGTTGAGGAGATCTGGTCAATGGATGACATTGGTGTTTCGTGTTGAATA
65 TGACACTGTTCATTTGTGTTGAGGAGATCTGGTCAGTGGATGACATTGATCCTTCGTGTTGAGGA
* * * * * *
745794 CGTCTATTCATATTTGGAGATAATTTGGAGACAACACT-GTTCTTTTCCTTTGAGGAGGTCTAAT
130 CGTCTAGTCGTATTTGGAGATAATTTGGAGACAACA-TGGTTC-CTTCGTTTGAGGAAGTCTGAT
* * * * * *
745858 T-TTCTGATGATGACACTGCTCCTTTGCGTTAAGGAGATCTAGTCAATAGATGGCATTGTTCCTT
193 TGTT-TGAGGATGACACTACTCCTTTGCGTTAAGGAGATCTGGTCAGTGGATGACATTGTTCCTT
*
745922 CGTATTGAGGACATCTAGTC
257 CGTGTTGAGGACATCTAGTC
*
745942 GTATTTAGAGATAATTTGGAGACAACACGGTTCCTTCGCATTGAGGAAGTCTGATTGTCTGAGGA
1 GTATTT-GAGATAATTTGGAGACAACACGGTTTCTTCGCATTGAGGAAGTCTGATTGTCTGAGGA
* * * * ** *
746007 TGACATTGTTCATTTGCGTTAAAGG-GATCTAGTCAGTGGACAACATTGATCCTTCTTGTTGAGG
65 TGACACTGTTCATTTGTGTT-GAGGAGATCTGGTCAGTGGATGACATTGATCCTTCGTGTTGAGG
* * * * *
746071 ATGTCTAGAT-GTATTTGGTGATAATTTGGAGACAACATGGTTCTTTCGTGTTGGGGAAGTTTGA
129 ACGTCTAG-TCGTATTTGGAGATAATTTGGAGACAACATGGTTCCTTCGT-TTGAGGAAGTCTGA
* * * ** *
746135 TTGTTTGAGGATGACACTTCTTCTTTGCGTTAAGGAGATCTGGTCAGTGGACGGTATTGTTCTTT
192 TTGTTTGAGGATGACACTACTCCTTTGCGTTAAGGAGATCTGGTCAGTGGATGACATTGTTCCTT
746200 CGTGTTGAGGTA-ATCTAG-C
257 CGTGTTGAGG-ACATCTAGTC
* * *
746219 AGTATTTGAAGATAATTTGGAGACAACATGGTTTCTTCGCGTTGAGGAAGTCTGATTGTCTAAGG
1 -GTATTTG-AGATAATTTGGAGACAACACGGTTTCTTCGCATTGAGGAAGTCTGATTGTCTGAGG
*** *
746284 ATGACACAACT-ACTTTGTGTTGAGGAGATCTGGTC-GATGGATGACATTGTTCCTTCGTGTTGA
64 ATGACACTGTTCA-TTTGTGTTGAGGAGATCTGGTCAG-TGGATGACATTGATCCTTCGTGTTGA
* * * *
746347 GGACGTCTAGTCGTATTTAGAGATAATTTAGAGACAACATGGTTCCTTCGCTTTGAGGAGGTATG
127 GGACGTCTAGTCGTATTTGGAGATAATTTGGAGACAACATGGTTCCTTCG-TTTGAGGAAGTCTG
* * * *
746412 ATTGTTTCAGGATGACACTACT-CTTTCACGTTGAA-GAGATTTGGTCGGTGGATGACATTGTTC
191 ATTGTTTGAGGATGACACTACTCCTTT-GCGTT-AAGGAGATCTGGTCAGTGGATGACATTGTTC
*
746475 CTTCGTGTTGAGGACGTCTAGT
254 CTTCGTGTTGAGGACATCTAGT
746497 TATACTTGGA
Statistics
Matches: 682, Mismatches: 115, Indels: 56
0.80 0.13 0.07
Matches are distributed among these distances:
265 7 0.01
266 91 0.13
267 15 0.02
270 1 0.00
272 1 0.00
275 1 0.00
276 2 0.00
277 139 0.20
278 415 0.61
279 10 0.01
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (276 bp):
GTATTTGAGATAATTTGGAGACAACACGGTTTCTTCGCATTGAGGAAGTCTGATTGTCTGAGGAT
GACACTGTTCATTTGTGTTGAGGAGATCTGGTCAGTGGATGACATTGATCCTTCGTGTTGAGGAC
GTCTAGTCGTATTTGGAGATAATTTGGAGACAACATGGTTCCTTCGTTTGAGGAAGTCTGATTGT
TTGAGGATGACACTACTCCTTTGCGTTAAGGAGATCTGGTCAGTGGATGACATTGTTCCTTCGTG
TTGAGGACATCTAGTC
Found at i:746336 original size:417 final size:414
Alignment explanation
Indices: 745393--746495 Score: 1141
Period size: 417 Copynumber: 2.7 Consensus size: 414
745383 TTGAAGATGT
* * * * *
745393 TCTAGAAGTATTTG-GGTAATTTGGAGACAACACAGTTCCTTCGTGTTGAGGAAGTCTCG-TTAT
1 TCTAGCAGTATTTGAGATAATTTGGAGACAACA-TGTTTCTTCGCGTTGAGGAAGTCT-GATTAT
* * * * *
745456 TTGAGGATGACACTGCTCCTTCGTGTTGGGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATG
64 CTGAGGATGACACTGCTCCTTTGTGTTGAGGAGATCTGGTCGATGGATGACATTGTTCCTTCGTG
* * *
745521 TTAAGGACGTCTA---G-A--T---G-T-ATTTGGAGACAACACGATTCCTTCGCGTTGAGGAAG
129 TTGAGGACGTCTAGTCGTATTTAGAGATAATTTGGAGACAACACGGTTCCTTCGCATTGAGGAAG
* * ** * * ** *
745575 TCTGATTGTGTGAGGATGACACTCCTCCTTCGCTTTGAGGAGATCTGGTCGGTGGATGACATTGT
194 TCTGATTGTCTGAGGATGACACTCCTCATTCGCTTAAAGGAGATCTAGTCAGTGGACAACATTGA
* *
745640 TCCTTTGTGTTGAGGATGTCTAGCCGTATTTGGAGATAATTTGGAGGCAACCGGTTTCTTCGTAT
259 TCCTTTGTGTTGAGGATGTCTAGACGTATTTGGAGATAATTTGGAGACAACCGGTTTCTTCGTAT
* * *
745705 TGAGGAAGTCTGATTGCCTGAGGATGACACTGTTCCTTCGTGTTGAGGAGATCTGGTCAATGGAT
324 TGAGGAAGTCTGATTGCCTGAGGATGACACTGTTCCTTCGCGTTAAGGAGATCTGGTCAATGGAC
* *
745770 GACATTGGTGTTTCGTGTTGAATACG
389 GACATTGGTCTTTCGTGTTGAATACA
* * * * *
745796 TCTATTCA-TATTTGGAGATAATTTGGAGACAACACTGTTCTTTTC-CTTTGAGGAGGTCTAATT
1 TCTA-GCAGTATTT-GAGATAATTTGGAGACAACA-TGTT-TCTTCGCGTTGAGGAAGTCTGATT
* * * * * * * *
745859 TTCTGATGATGACACTGCTCCTTTGCGTTAAGGAGATCTAGTCAATAGATGGCATTGTTCCTTCG
62 ATCTGAGGATGACACTGCTCCTTTGTGTTGAGGAGATCTGGTCGATGGATGACATTGTTCCTTCG
* *
745924 TATTGAGGACATCTAGTCGTATTTAGAGATAATTTGGAGACAACACGGTTCCTTCGCATTGAGGA
127 TGTTGAGGACGTCTAGTCGTATTTAGAGATAATTTGGAGACAACACGGTTCCTTCGCATTGAGGA
* ** *
745989 AGTCTGATTGTCTGAGGATGACATTGTTCATTTGCGTTAAAGG-GATCTAGTCAGTGGACAACAT
192 AGTCTGATTGTCTGAGGATGACACTCCTCATTCGC-TTAAAGGAGATCTAGTCAGTGGACAACAT
* * *
746053 TGATCCTTCT-TGTTGAGGATGTCTAGATGTATTTGGTGATAATTTGGAGACAACATGG-TTCTT
256 TGATCCTT-TGTGTTGAGGATGTCTAGACGTATTTGGAGATAATTTGGAGACAAC-CGGTTTC-T
* * * ** * *
746116 TCGTGTTGGGGAAGTTTGATTGTTTGAGGATGACACT-TCTTCTTTGCGTTAAGGAGATCTGGTC
318 TCGTATTGAGGAAGTCTGATTGCCTGAGGATGACACTGT-TCCTTCGCGTTAAGGAGATCTGGTC
* ** * *
746180 AGTGGACGGTATTGTTCTTTCGTGTTGAGGTA-A
382 AATGGACGACATTGGTCTTTCGTGTTGA-ATACA
*
746213 TCTAGCAGTATTTGAAGATAATTTGGAGACAACATGGTTTCTTCGCGTTGAGGAAGTCTGATTGT
1 TCTAGCAGTATTTG-AGATAATTTGGAGACAACAT-GTTTCTTCGCGTTGAGGAAGTCTGATTAT
* ** *
746278 CTAAGGATGACACAACTACTTTGTGTTGAGGAGATCTGGTCGATGGATGACATTGTTCCTTCGTG
64 CTGAGGATGACACTGCTCCTTTGTGTTGAGGAGATCTGGTCGATGGATGACATTGTTCCTTCGTG
* * * *
746343 TTGAGGACGTCTAGTCGTATTTAGAGATAATTTAGAGACAACATGGTTCCTTCGCTTTGAGGAGG
129 TTGAGGACGTCTAGTCGTATTTAGAGATAATTTGGAGACAACACGGTTCCTTCGCATTGAGGAAG
* * * * * * * * * * **
746408 TATGATTGTTTCAGGATGACACTACTCTTTCACGTTGAA-GAGATTTGGTCGGTGGATGACATTG
194 TCTGATTGTCTGAGGATGACACTCCTCATTCGC-TTAAAGGAGATCTAGTCAGTGGACAACATTG
* * *
746472 TTCCTTCGTGTTGAGGACGTCTAG
258 ATCCTTTGTGTTGAGGATGTCTAG
746496 TTATACTTGG
Statistics
Matches: 568, Mismatches: 104, Indels: 42
0.80 0.15 0.06
Matches are distributed among these distances:
403 9 0.02
404 2 0.00
405 98 0.17
406 3 0.01
408 1 0.00
409 1 0.00
411 1 0.00
414 1 0.00
415 1 0.00
416 138 0.24
417 311 0.55
418 2 0.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.35
Consensus pattern (414 bp):
TCTAGCAGTATTTGAGATAATTTGGAGACAACATGTTTCTTCGCGTTGAGGAAGTCTGATTATCT
GAGGATGACACTGCTCCTTTGTGTTGAGGAGATCTGGTCGATGGATGACATTGTTCCTTCGTGTT
GAGGACGTCTAGTCGTATTTAGAGATAATTTGGAGACAACACGGTTCCTTCGCATTGAGGAAGTC
TGATTGTCTGAGGATGACACTCCTCATTCGCTTAAAGGAGATCTAGTCAGTGGACAACATTGATC
CTTTGTGTTGAGGATGTCTAGACGTATTTGGAGATAATTTGGAGACAACCGGTTTCTTCGTATTG
AGGAAGTCTGATTGCCTGAGGATGACACTGTTCCTTCGCGTTAAGGAGATCTGGTCAATGGACGA
CATTGGTCTTTCGTGTTGAATACA
Found at i:747104 original size:72 final size:73
Alignment explanation
Indices: 747018--747205 Score: 195
Period size: 73 Copynumber: 2.6 Consensus size: 73
747008 GGGAAGATTG
* ** **
747018 TCTCAAGCGAGATGAAA-TTTATTTTTA-AGAAAAACAATCTCAAATGTTATCAATTTT-CTTCA
1 TCTCAAACGAGATGAAACTTTATTTCGATAG--AAACAATCTCAAATGAGATCAATTTTGCTTCA
*
747080 AGAAAAATTA
64 AGAAAAACTA
* * *
747090 TCTCAAACGAGATGAAACTTTATTTCGATAGAAACAATCTTAAGTGAGATCAATTTTGTTTCAAG
1 TCTCAAACGAGATGAAACTTTATTTCGATAGAAACAATCTCAAATGAGATCAATTTTGCTTCAAG
747155 AAAAACTA
66 AAAAACTA
* ** * * *
747163 TCTCAAAAGAGACAAAACTTTGTTTCAAAAGAAAC-ATCTCAAA
1 TCTCAAACGAGATGAAACTTTATTTCGATAGAAACAATCTCAAA
747206 GGTGGTAGAC
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
72 44 0.46
73 50 0.52
74 2 0.02
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (73 bp):
TCTCAAACGAGATGAAACTTTATTTCGATAGAAACAATCTCAAATGAGATCAATTTTGCTTCAAG
AAAAACTA
Found at i:747167 original size:73 final size:71
Alignment explanation
Indices: 747018--747205 Score: 191
Period size: 72 Copynumber: 2.6 Consensus size: 71
747008 GGGAAGATTG
* * * **
747018 TCTCAAGCGAGATGAAA-TTTATTTTTAAGAAAAACAATCTCAAATGTTATCAATTTTCTTCAAG
1 TCTCAAACGAGATGAAACTTTA-TTTCAA-AGAAACAATCTCAAATGAGATCAATTTTCTTCAAG
*
747082 AAAAATTA
64 AAAAACTA
* * * *
747090 TCTCAAACGAGATGAAACTTTATTTCGATAGAAACAATCTTAAGTGAGATCAATTTTGTTTCAAG
1 TCTCAAACGAGATGAAACTTTATTTC-AAAGAAACAATCTCAAATGAGATCAATTTT-CTTCAAG
747155 AAAAACTA
64 AAAAACTA
* ** *
747163 TCTCAAAAGAGACAAAACTTTGTTTCAAAAGAAAC-ATCTCAAA
1 TCTCAAACGAGATGAAACTTTATTTC-AAAGAAACAATCTCAAA
747206 GGTGGTAGAC
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
72 48 0.51
73 47 0.49
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (71 bp):
TCTCAAACGAGATGAAACTTTATTTCAAAGAAACAATCTCAAATGAGATCAATTTTCTTCAAGAA
AAACTA
Found at i:748790 original size:26 final size:25
Alignment explanation
Indices: 748740--748796 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
748730 TTTTATTTTC
*
748740 AAATTTTGAAAAAGATCAATTAAAA
1 AAATTTTGAAAAAGATCAATCAAAA
* * *
748765 GAATTTTGAAAAATATTTAATCAAAA
1 AAATTTTGAAAAAGA-TCAATCAAAA
748791 AAATTT
1 AAATTT
748797 AAATATTGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (25 bp):
AAATTTTGAAAAAGATCAATCAAAA
Found at i:750024 original size:3 final size:3
Alignment explanation
Indices: 750011--750044 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
750001 AATGGGTTCA
*
750011 AAC AA- AAC AAC AAC AAC AAA AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
750045 AACCCAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:750032 original size:15 final size:15
Alignment explanation
Indices: 750014--750046 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
750004 GGGTTCAAAC
750014 AAAACAACAACAACA
1 AAAACAACAACAACA
750029 AAAACAACAACAACA
1 AAAACAACAACAACA
750044 AAA
1 AAA
750047 CCCAATTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAACAACAACAACA
Found at i:750298 original size:15 final size:14
Alignment explanation
Indices: 750261--750299 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
750251 AATGGGAAGT
*
750261 AATCCCTGCAAATA
1 AATCCCTGCAAAAA
750275 AATCCCTGCGAAAAA
1 AATCCCTGC-AAAAA
*
750290 AATCTCTGCA
1 AATCCCTGCA
750300 TATAGACAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (14 bp):
AATCCCTGCAAAAA
Found at i:753354 original size:15 final size:16
Alignment explanation
Indices: 753324--753357 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
753314 CAGCTCCAAC
*
753324 AGCCTAGCATTTAATG
1 AGCCTAGCATTCAATG
753340 AGCCTA-CATTCAATG
1 AGCCTAGCATTCAATG
753355 AGC
1 AGC
753358 AAACTCTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (16 bp):
AGCCTAGCATTCAATG
Found at i:758734 original size:3 final size:3
Alignment explanation
Indices: 758723--758776 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
758713 TAAAAGAAAA
* *
758723 AAT ATT AAT AAT AAT GAT AAT AATT AA- AAT AAT AAT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AA-T
758769 AAT AAT AA
1 AAT AAT AA
758777 ACAATTAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:758753 original size:21 final size:22
Alignment explanation
Indices: 758728--758776 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
758718 GAAAAAATAT
*
758728 TAATAATAATGATAATAATTAA
1 TAATAATAATAATAATAATTAA
758750 -AATAATAATAATAATAATTAA
1 TAATAATAATAATAATAATTAA
758771 TAATAA
1 TAATAA
758777 ACAATTAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TAATAATAATAATAATAATTAA
Found at i:759661 original size:142 final size:142
Alignment explanation
Indices: 759405--759690 Score: 545
Period size: 142 Copynumber: 2.0 Consensus size: 142
759395 TCTGCCCAAC
759405 CATGACAAGATGTTATAATTTAAAAGTAAAGCACTTTCAAATTGAAAAGAATCCATTTATCTAAA
1 CATGACAAGATGTTATAATTTAAAAGTAAAGCACTTTCAAATTGAAAAGAATCCATTTATCTAAA
759470 TATTATTACAAGTTCATATTACTCTTTAGAGATAAACGTACAAATAGTTACCTTCACAAGTTTCC
66 TATTATTACAAGTTCATATTACTCTTTAGAGATAAACGTACAAATAGTTACCTTCACAAGTTTCC
759535 TTGCTTCCTCAT
131 TTGCTTCCTCAT
* * *
759547 CATGACAAGATGTTATAATTTAAAAGTAAAGTACTTTCTAATTGAAAAGAATCCATTTATCTAAC
1 CATGACAAGATGTTATAATTTAAAAGTAAAGCACTTTCAAATTGAAAAGAATCCATTTATCTAAA
759612 TATTATTACAAGTTCATATTACTCTTTAGAGATAAACGTACAAATAGTTACCTTCACAAGTTTCC
66 TATTATTACAAGTTCATATTACTCTTTAGAGATAAACGTACAAATAGTTACCTTCACAAGTTTCC
759677 TTGCTTCCTCAT
131 TTGCTTCCTCAT
759689 CA
1 CA
759691 ACATCTCCAC
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 141 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (142 bp):
CATGACAAGATGTTATAATTTAAAAGTAAAGCACTTTCAAATTGAAAAGAATCCATTTATCTAAA
TATTATTACAAGTTCATATTACTCTTTAGAGATAAACGTACAAATAGTTACCTTCACAAGTTTCC
TTGCTTCCTCAT
Found at i:760762 original size:15 final size:15
Alignment explanation
Indices: 760742--760773 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
760732 AATACAAAAT
*
760742 AAAAATATAAGATAA
1 AAAAATAAAAGATAA
760757 AAAAATAAAAGATAA
1 AAAAATAAAAGATAA
760772 AA
1 AA
760774 TGAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAAATAAAAGATAA
Found at i:760797 original size:16 final size:17
Alignment explanation
Indices: 760776--760841 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 17
760766 AGATAAAATG
760776 AAATATATA-AAATAAT
1 AAATATATAGAAATAAT
*
760792 AAATATATA-TAA-AAT
1 AAATATATAGAAATAAT
*
760807 ATAAT-TATAGTAATAA-
1 A-AATATATAGAAATAAT
*
760823 AAATATATATAAATAAT
1 AAATATATAGAAATAAT
760840 AA
1 AA
760842 TGATATATGA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
15 11 0.26
16 27 0.64
17 4 0.10
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAATATATAGAAATAAT
Found at i:760808 original size:9 final size:9
Alignment explanation
Indices: 760776--760809 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
760766 AGATAAAATG
760776 AAATATATA
1 AAATATATA
760785 AAATA-ATA
1 AAATATATA
760793 AATATATATA
1 AA-ATATATA
760803 AAATATA
1 AAATATA
760810 ATTATAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.22
9 13 0.57
10 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATATATA
Found at i:760905 original size:9 final size:9
Alignment explanation
Indices: 760891--760919 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
760881 ATAACGATAG
760891 AATATAAAA
1 AATATAAAA
760900 AATATAAAA
1 AATATAAAA
760909 AATATAAAA
1 AATATAAAA
760918 AA
1 AA
760920 ATATCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AATATAAAA
Found at i:760946 original size:2 final size:2
Alignment explanation
Indices: 760939--760978 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
760929 TGAAGATAAT
760939 TA TA TA 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 TA TA TA
760979 AAATAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:763720 original size:50 final size:51
Alignment explanation
Indices: 763642--763739 Score: 135
Period size: 50 Copynumber: 1.9 Consensus size: 51
763632 TTTTTTCTCT
* *
763642 TTTTTCAATTTTTTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCTAAACG
1 TTTTTCAATTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTAAACG
** * *
763693 TTTTTC-ATTTTTTTTACTTAGGACGCCCTTTTGGGTTTTCATCCTAA
1 TTTTTCAATTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTAA
763740 GCAAAGTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
50 35 0.85
51 6 0.15
ACGTcount: A:0.16, C:0.21, G:0.14, T:0.48
Consensus pattern (51 bp):
TTTTTCAATTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTAAACG
Found at i:770417 original size:23 final size:23
Alignment explanation
Indices: 770391--770435 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
770381 GAAGTTTGCA
*
770391 CCTTT-ACAGCATATGATGTTTTT
1 CCTTTGACAGCATAGGA-GTTTTT
770414 CCTTTGACAGCATAGGAGTTTT
1 CCTTTGACAGCATAGGAGTTTT
770436 CTTATGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (23 bp):
CCTTTGACAGCATAGGAGTTTTT
Found at i:774186 original size:14 final size:14
Alignment explanation
Indices: 774169--774271 Score: 54
Period size: 14 Copynumber: 7.4 Consensus size: 14
774159 ATATATCTAT
*
774169 AAATAAAATACATA
1 AAATAAAATAGATA
774183 AAATAAAGA-AGAT-
1 AAATAAA-ATAGATA
*
774196 -AATAACAATACA-A
1 AAATAA-AATAGATA
*
774209 AAATAAAA-ATATA
1 AAATAAAATAGATA
* *
774222 AGATAAGATAAGATA
1 AAATAAAAT-AGATA
* *
774237 AAAAAATAAAAGATA
1 AAATAA-AATAGATA
* *
774252 AAATGAAATATATA
1 AAATAAAATAGATA
774266 AAATAA
1 AAATAA
774272 TAAATATATA
Statistics
Matches: 65, Mismatches: 15, Indels: 18
0.66 0.15 0.18
Matches are distributed among these distances:
12 8 0.12
13 12 0.18
14 26 0.40
15 18 0.28
16 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.07, T:0.19
Consensus pattern (14 bp):
AAATAAAATAGATA
Found at i:774312 original size:11 final size:12
Alignment explanation
Indices: 774258--774317 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
774248 GATAAAATGA
* *
774258 AATATATAAAAT
1 AATAAATAATAT
774270 AATAAATATATAT
1 AATAAATA-ATAT
* * *
774283 AACATATAATAGC
1 AATAAATAATA-T
774296 AATAAA-AATAT
1 AATAAATAATAT
774307 AATAAATAATA
1 AATAAATAATA
774318 ATGATATATG
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
11 6 0.16
12 18 0.49
13 13 0.35
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (12 bp):
AATAAATAATAT
Found at i:774313 original size:9 final size:9
Alignment explanation
Indices: 774257--774319 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 9
774247 AGATAAAATG
774257 AAATAT-AT
1 AAATATAAT
774265 AAA-ATAAT
1 AAATATAAT
774273 AAATATATAT
1 AAATATA-AT
774283 AACATATAAT
1 AA-ATATAAT
*
774293 AGCA-ATAA-
1 A-AATATAAT
774301 AAATATAAT
1 AAATATAAT
774310 AAATAATAAT
1 AAAT-ATAAT
774320 GATATATGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
7 3 0.07
8 13 0.29
9 11 0.24
10 13 0.29
11 5 0.11
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (9 bp):
AAATATAAT
Found at i:774315 original size:24 final size:26
Alignment explanation
Indices: 774270--774317 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
774260 TATATAAAAT
*
774270 AATAAATATATATAACATATAATAGC
1 AATAAATATATATAACAAATAATAGC
*
774296 AATAAA-A-ATATAATAAATAATA
1 AATAAATATATATAACAAATAATA
774318 ATGATATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 1 0.05
26 6 0.30
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (26 bp):
AATAAATATATATAACAAATAATAGC
Found at i:775798 original size:20 final size:19
Alignment explanation
Indices: 775775--775826 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
775765 TTCTTTTCAA
* *
775775 CGTTGCGCTTTTCTAAATCG
1 CGTTGCGATTTT-GAAATCG
*
775795 CGTTGCGATTTTGATATCG
1 CGTTGCGATTTTGAAATCG
775814 CGTTGCGATTTTG
1 CGTTGCGATTTTG
775827 TTGGTCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTGAAATCG
Found at i:775987 original size:24 final size:24
Alignment explanation
Indices: 775948--776007 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
775938 AACAATACAA
* *
775948 AAAT-AAAAATATAAGATAAGAT-
1 AAATAAAAAATAAAAGATAAAATG
775970 AAGATAAAAAATAAAAGATAAAATG
1 AA-ATAAAAAATAAAAGATAAAATG
*
775995 AAATATAAAATAA
1 AAATAAAAAATAA
776008 TAAATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 26 0.81
25 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (24 bp):
AAATAAAAAATAAAAGATAAAATG
Found at i:775989 original size:19 final size:19
Alignment explanation
Indices: 775965--776004 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
775955 AATATAAGAT
*
775965 AAGATAAGATAAAAAATAA
1 AAGATAAAATAAAAAATAA
* *
775984 AAGATAAAATGAAATATAA
1 AAGATAAAATAAAAAATAA
776003 AA
1 AA
776005 TAATAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (19 bp):
AAGATAAAATAAAAAATAA
Found at i:776051 original size:14 final size:14
Alignment explanation
Indices: 775995--776051 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
775985 AGATAAAATG
775995 AAATATA-AAATAAT
1 AAATATATAAAT-AT
776009 AAATATATAACATAT
1 AAATATATAA-ATAT
*
776024 -AAT-TATAGCA-AT
1 AAATATATA-AATAT
776036 AAATATATAAATAT
1 AAATATATAAATAT
776050 AA
1 AA
776052 TGATATATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
12 2 0.06
13 9 0.26
14 18 0.51
15 4 0.11
16 2 0.06
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (14 bp):
AAATATATAAATAT
Found at i:783778 original size:6 final size:6
Alignment explanation
Indices: 783767--783795 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
783757 TAATATTTTA
783767 TTTCAT TTTCAT TTTCAT TTTCAT TTTCA
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCA
783796 ATTTGGATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCAT
Found at i:785346 original size:15 final size:16
Alignment explanation
Indices: 785319--785348 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
785309 AAATTAAAAT
785319 TTGAAATGAAAATGAC
1 TTGAAATGAAAATGAC
785335 TTGAAA-GAAAATGA
1 TTGAAATGAAAATGA
785349 ATTAAAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.23
Consensus pattern (16 bp):
TTGAAATGAAAATGAC
Found at i:786783 original size:24 final size:24
Alignment explanation
Indices: 786751--786820 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 24
786741 ACATTCGACT
786751 AAATAATAAAATTAAAATAAGTTC
1 AAATAATAAAATTAAAATAAGTTC
*
786775 AAATGATAAAATTAAAATAAGTTC
1 AAATAATAAAATTAAAATAAGTTC
* *
786799 AAAATAAAACAAAGTAAAATAA
1 -AAATAATA-AAATTAAAATAA
786821 AAACGAATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 23 0.57
25 6 0.15
26 11 0.28
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (24 bp):
AAATAATAAAATTAAAATAAGTTC
Found at i:788878 original size:20 final size:20
Alignment explanation
Indices: 788844--788902 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
788834 TGAACATTCC
*
788844 AGAATCGATTCGAGTTAACT
1 AGAATCGATTCGAGTCAACT
* *
788864 AGAATCGGTTTGAGTCAACTT
1 AGAATCGATTCGAGTCAAC-T
**
788885 AG-ATCGAACCGAGTCAAC
1 AGAATCGATTCGAGTCAAC
788903 CCAAACCGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (20 bp):
AGAATCGATTCGAGTCAACT
Found at i:789770 original size:36 final size:36
Alignment explanation
Indices: 789729--789798 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
789719 ATGAAGTCTC
* * * *
789729 TATAGGTTCAGCTCTGATCAAGTTGGTAATTCCTCA
1 TATAGGTTCAGCACCGATCAAGCTAGTAATTCCTCA
*
789765 TATAGGTTTAGCACCGATCAAGCTAGTAATTCCT
1 TATAGGTTCAGCACCGATCAAGCTAGTAATTCCT
789799 TATGAACCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (36 bp):
TATAGGTTCAGCACCGATCAAGCTAGTAATTCCTCA
Found at i:790858 original size:22 final size:22
Alignment explanation
Indices: 790833--790880 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
790823 AATCTCTTTA
* *
790833 ATTTGTTTATTTAATTATTATT
1 ATTTATTTAATTAATTATTATT
* *
790855 ATTTATTTAATTAATTTTTTTT
1 ATTTATTTAATTAATTATTATT
790877 ATTT
1 ATTT
790881 TAACCACAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
ATTTATTTAATTAATTATTATT
Found at i:790861 original size:18 final size:18
Alignment explanation
Indices: 790838--790880 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
790828 CTTTAATTTG
790838 TTTATTTAATT-ATTATTA
1 TTTATTTAATTAATT-TTA
*
790856 TTTATTTAATTAATTTTT
1 TTTATTTAATTAATTTTA
790874 TTTATTT
1 TTTATTT
790881 TAACCACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTAATTTTA
Found at i:798524 original size:76 final size:75
Alignment explanation
Indices: 798433--798597 Score: 224
Period size: 76 Copynumber: 2.2 Consensus size: 75
798423 TTAAACTCAA
*
798433 ATTTAGGATAATATTTTAAACATTATAT-TTTATCTTTGTATTTCAGTTTAAATAGGTTTTTAGT
1 ATTTAGGATATTATTTT-AACATTATATCTTTATCTTTGTATTTCAGTTTAAATAGG-TTTTAGT
798497 ATTTTAATTAAG
64 ATTTTAATTAAG
* * * * * *
798509 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTTTATTTTAGTTTAAATAGGTTTTAGTAT
1 ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTCAGTTTAAATAGGTTTTAGTAT
*
798574 TTTAATTAGG
66 TTTAATTAAG
*
798584 ATTTAGAATATTAT
1 ATTTAGGATATTAT
798598 ATTATTTTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
75 37 0.47
76 41 0.53
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.56
Consensus pattern (75 bp):
ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTCAGTTTAAATAGGTTTTAGTAT
TTTAATTAAG
Found at i:799265 original size:19 final size:19
Alignment explanation
Indices: 799241--799289 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
799231 AATCTCTTTA
799241 ATTTGTTTATTTAATTATT
1 ATTTGTTTATTTAATTATT
*
799260 ATTTGTTTATTTAATTCTT
1 ATTTGTTTATTTAATTATT
799279 ATTT-TTTATTT
1 ATTTGTTTATTT
799290 TTTATTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (19 bp):
ATTTGTTTATTTAATTATT
Found at i:799350 original size:22 final size:20
Alignment explanation
Indices: 799325--799376 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
799315 AAAATCCCCC
799325 TTTTATATTTATTACTATTAAT
1 TTTTATATTTATTA-TA-TAAT
799347 TTTTAT-TATTATTATATAAT
1 TTTTATAT-TTATTATATAAT
*
799367 TTTTTTATTT
1 TTTTATATTT
799377 TATTTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 11 0.41
21 4 0.15
22 12 0.44
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATATTTATTATATAAT
Found at i:799357 original size:19 final size:19
Alignment explanation
Indices: 799332--799375 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
799322 CCCTTTTATA
799332 TTTATTACTAT-TAATTTT
1 TTTATTACTATATAATTTT
*
799350 TATTATTATTATATAATTTT
1 T-TTATTACTATATAATTTT
799370 TTTATT
1 TTTATT
799376 TTATTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.61
20 8 0.35
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATTACTATATAATTTT
Found at i:802575 original size:489 final size:490
Alignment explanation
Indices: 801656--802635 Score: 1606
Period size: 489 Copynumber: 2.0 Consensus size: 490
801646 AATATTTTTG
* *
801656 TAATCGAAATTAAAACAGAAATAAATATATATAATATGAAATAAAAATATAAATTAACCTAAATA
1 TAATCGAAATCAAAACAGAAATAAATATATATAATACGAAATAAAAATATAAATTAACCTAAATA
*
801721 TACTACCATAGTAATCTGTTTGAGTTTAAATTAAACTACAATAAAAAAGGAATATATCTTAAGAT
66 TACTACCATAGTAATCTGTTTGAGTTTAAATTAAACTACAATAAAAAAGGAATATACCTTAAGAT
* *
801786 TGTAGTAAAATTGATTTAAGGTTGTAGTAAGGATAATCTAATGATAAAAATAATAATAATATCGT
131 TGTAGTAAAATTAATTTAAGGTTGTAGTAAGGATAATCTAATGATAAAAATAATAATAATACCGT
801851 AGCAATAATAAAGTTGTAGTAGTAACGTAACAAAAGACACCAAAAATAGATTAAAAGGTAAAATT
196 AGCAATAATAAAGTTGTAGTAGTAACGTAACAAAAGACACCAAAAATAGATTAAAAGGTAAAATT
*
801916 AAATAAAACCTATAATCGGAAAAAATTGAATAAAAAGAAGAATTTTATTGAGGCATGTATAAATA
261 AAATAAAACCTATAATCGGAAAAAATTGAATAAAAAGAAGAATTTTATTGAGGCATGAATAAATA
* * * * * *
801981 GTTTACTTAAGATAGATTTTTCCTCTCCTTGGTGCTTTGAGTAACGTTGGACATTAGTCTACCAA
326 GTTCACTTAAGATAGATTTGTCCTCTCATTGGTGATTTGAGTAACGTTGGACATCAGTATACCAA
* * * *
802046 GATACAACAACAAAAGTTTAAGATAGTAAGTACAACAGTAGAGAATAATCA-AACACAATTTTTG
391 GATACAACAACAAAAGTTCAAGATAGTAAGCACAACAGTAGAGAACAAT-AGAACACAAATTTTG
802110 TCTTTATCTATCACCGAAAATGAATTTGGAAGAAAA
455 TCTTTATCTATCACCGAAAATGAATTTGGAAGAAAA
*
802146 TAATCGAAATCAAAACTGAAATAAATATATATAATACGAAATAAAAATATAAATTAACCTAAATA
1 TAATCGAAATCAAAACAGAAATAAATATATATAATACGAAATAAAAATATAAATTAACCTAAATA
* * *
802211 TACTACCATAGTAATCTGTTTGAGTTTAGATTGAACTACAAT-AAAAAGGAATTTACCTTAAGAT
66 TACTACCATAGTAATCTGTTTGAGTTTAAATTAAACTACAATAAAAAAGGAATATACCTTAAGAT
*
802275 TGTAGTAAAATTAATTTAAGGTTGTAGTAAGGATAATCTAATGATAACAATAATAATAATACCGT
131 TGTAGTAAAATTAATTTAAGGTTGTAGTAAGGATAATCTAATGATAAAAATAATAATAATACCGT
* **
802340 AGCAATAATAAAGTTGTAGTAGTAACGTAAGAAAAGACACTGAAAATAGATTAAAA-GTAAAAAT
196 AGCAATAATAAAGTTGTAGTAGTAACGTAACAAAAGACACCAAAAATAGATTAAAAGGT-AAAAT
* *
802404 TAAATAAAACCTATAATCGGATAAAATTGAATAAAAAGAAGAATTTTATTGAGGCCTGAATAAAT
260 TAAATAAAACCTATAATCGGAAAAAATTGAATAAAAAGAAGAATTTTATTGAGGCATGAATAAAT
* * * *
802469 AGTTCCCTTAAGATAGATTTGTCCTCTCATTGGTGATTTGATTAACGTTGGACGTCAGTATCCCA
325 AGTTCACTTAAGATAGATTTGTCCTCTCATTGGTGATTTGAGTAACGTTGGACATCAGTATACCA
* * * *
802534 AGATATAACAACAAAAGTTCACGATAGTAAGCATAACAGTAGTGAACAATAGAACACAAATTTTG
390 AGATACAACAACAAAAGTTCAAGATAGTAAGCACAACAGTAGAGAACAATAGAACACAAATTTTG
*
802599 TCTTTATCTATCACTGAAAATGAATTTGGAAGAAAA
455 TCTTTATCTATCACCGAAAATGAATTTGGAAGAAAA
802635 T
1 T
802636 TGAAGATTTG
Statistics
Matches: 453, Mismatches: 35, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
488 3 0.01
489 348 0.77
490 102 0.23
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (490 bp):
TAATCGAAATCAAAACAGAAATAAATATATATAATACGAAATAAAAATATAAATTAACCTAAATA
TACTACCATAGTAATCTGTTTGAGTTTAAATTAAACTACAATAAAAAAGGAATATACCTTAAGAT
TGTAGTAAAATTAATTTAAGGTTGTAGTAAGGATAATCTAATGATAAAAATAATAATAATACCGT
AGCAATAATAAAGTTGTAGTAGTAACGTAACAAAAGACACCAAAAATAGATTAAAAGGTAAAATT
AAATAAAACCTATAATCGGAAAAAATTGAATAAAAAGAAGAATTTTATTGAGGCATGAATAAATA
GTTCACTTAAGATAGATTTGTCCTCTCATTGGTGATTTGAGTAACGTTGGACATCAGTATACCAA
GATACAACAACAAAAGTTCAAGATAGTAAGCACAACAGTAGAGAACAATAGAACACAAATTTTGT
CTTTATCTATCACCGAAAATGAATTTGGAAGAAAA
Found at i:802795 original size:21 final size:21
Alignment explanation
Indices: 802756--802797 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
802746 AAGGTTAAGG
**
802756 CCTTTCAATGAAATTACTTAA
1 CCTTTCAATGAAAGGACTTAA
*
802777 CCTTTTAATGAAAGGACTTAA
1 CCTTTCAATGAAAGGACTTAA
802798 AGTTTTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (21 bp):
CCTTTCAATGAAAGGACTTAA
Found at i:802810 original size:23 final size:22
Alignment explanation
Indices: 802771--802856 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
802761 CAATGAAATT
* *
802771 ACTTAAC-CTTTTAATGAAAGG
1 ACTTAACATTTTTTATGAAAGG
**
802792 ACTTAA-AGTTTTTTTATGAAAAA
1 ACTTAACA--TTTTTTATGAAAGG
802815 ACTTAACATTTTTTATGAAAGG
1 ACTTAACATTTTTTATGAAAGG
** * *
802837 GTTTAACAATTTTTGTGAAA
1 ACTTAACATTTTTTATGAAA
802857 AGGCATTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
21 6 0.12
22 28 0.55
23 16 0.31
24 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (22 bp):
ACTTAACATTTTTTATGAAAGG
Found at i:802865 original size:23 final size:22
Alignment explanation
Indices: 802817--802865 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
802807 ATGAAAAAAC
* **
802817 TTAACATTTTTTATGAAAGGGT
1 TTAACAATTTTTATGAAAGGCA
*
802839 TTAACAATTTTTGTGAAAAGGCA
1 TTAACAATTTTTATG-AAAGGCA
802862 TTAA
1 TTAA
802866 AAGATAGCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (22 bp):
TTAACAATTTTTATGAAAGGCA
Found at i:805366 original size:31 final size:31
Alignment explanation
Indices: 805290--805405 Score: 135
Period size: 31 Copynumber: 3.7 Consensus size: 31
805280 CCAGATACTA
805290 GTCAGATTTGCATTCAGATAATGCACCGTAT
1 GTCAGATTTGCATTCAGATAATGCACCGTAT
** *
805321 GTCAGGGTTACATTCAGATAATGCACCGTAT
1 GTCAGATTTGCATTCAGATAATGCACCGTAT
* * * *
805352 GTCAAATTTGCATTCAAATAATGCATCATAT
1 GTCAGATTTGCATTCAGATAATGCACCGTAT
* *
805383 GTCATG-TTCGCATTCAGCTAATG
1 GTCA-GATTTGCATTCAGATAATG
805406 AACATGAGTA
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (31 bp):
GTCAGATTTGCATTCAGATAATGCACCGTAT
Found at i:807953 original size:21 final size:21
Alignment explanation
Indices: 807927--808001 Score: 141
Period size: 21 Copynumber: 3.6 Consensus size: 21
807917 AGAGTTTGAG
*
807927 TATCGATACTCGGATGAACAA
1 TATCGATACTGGGATGAACAA
807948 TATCGATACTGGGATGAACAA
1 TATCGATACTGGGATGAACAA
807969 TATCGATACTGGGATGAACAA
1 TATCGATACTGGGATGAACAA
807990 TATCGATACTGG
1 TATCGATACTGG
808002 TTAACTCCCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (21 bp):
TATCGATACTGGGATGAACAA
Found at i:816693 original size:14 final size:14
Alignment explanation
Indices: 816670--816707 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
816660 TCTGTCTATA
*
816670 TGCAGAGATTT-TT
1 TGCAGGGATTTATT
816683 TCGCAGGGATTTATT
1 T-GCAGGGATTTATT
816698 TGCAGGGATT
1 TGCAGGGATT
816708 ACTGTCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 18 0.82
15 3 0.14
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:823880 original size:53 final size:53
Alignment explanation
Indices: 823817--823924 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
823807 ATGAAATATT
823817 AATCTTTTAGTCCTAAAATGAAACATTTGAGGGTCAAAATGTTCTAAAAAGGA
1 AATCTTTTAGTCCTAAAATGAAACATTTGAGGGTCAAAATGTTCTAAAAAGGA
823870 AATCTTTTAGTCCTAAAATGAAACATTTGAGGGTCAAAATGTTCTAAAAAGGA
1 AATCTTTTAGTCCTAAAATGAAACATTTGAGGGTCAAAATGTTCTAAAAAGGA
823923 AA
1 AA
823925 AAAAATGAGC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (53 bp):
AATCTTTTAGTCCTAAAATGAAACATTTGAGGGTCAAAATGTTCTAAAAAGGA
Found at i:824161 original size:84 final size:84
Alignment explanation
Indices: 824020--824290 Score: 488
Period size: 84 Copynumber: 3.2 Consensus size: 84
824010 CTAAAGTGAC
* * *
824020 TATTTAATCAAACATTAAACATAATTTTACCATAAAACGAATCAATGAGACCAAAATATTCTAAA
1 TATTTAATCAAATATTAGACATAATTTTACCATAAAACGAAACAATGAGACCAAAATATTCTAAA
*
824085 ATATAATAATTAAAATAAT
66 AGATAATAATTAAAATAAT
* *
824104 TATTTAATCAAATATTAGACATAATTTTACTATAAAACGAAACAATGAGAACAAAATATTCTAAA
1 TATTTAATCAAATATTAGACATAATTTTACCATAAAACGAAACAATGAGACCAAAATATTCTAAA
824169 AGATAATAATTAAAATAAT
66 AGATAATAATTAAAATAAT
824188 TATTTAATCAAATATTAGACATAATTTTACCATAAAACGAAACAATGAGACCAAAATATTCTAAA
1 TATTTAATCAAATATTAGACATAATTTTACCATAAAACGAAACAATGAGACCAAAATATTCTAAA
824253 AGATAATAATTAAAATAAT
66 AGATAATAATTAAAATAAT
824272 TATTTAATCAAATATTAGA
1 TATTTAATCAAATATTAGA
824291 AACATTTCTT
Statistics
Matches: 179, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 179 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (84 bp):
TATTTAATCAAATATTAGACATAATTTTACCATAAAACGAAACAATGAGACCAAAATATTCTAAA
AGATAATAATTAAAATAAT
Found at i:825165 original size:2 final size:2
Alignment explanation
Indices: 825158--825188 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
825148 TCAACAAAAC
825158 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
825189 AATGTTGAAA
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:828372 original size:2 final size:2
Alignment explanation
Indices: 828365--828402 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
828355 ATTAACAATT
828365 TA TA 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 TA TA
828403 CATTGCCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:833203 original size:20 final size:20
Alignment explanation
Indices: 833175--833212 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
833165 ATATTTAACC
* *
833175 CTAGGGTATCGATACTACAG
1 CTAGAGTATCAATACTACAG
833195 CTAGAGTATCAATACTAC
1 CTAGAGTATCAATACTAC
833213 CCATTTTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (20 bp):
CTAGAGTATCAATACTACAG
Found at i:834411 original size:20 final size:20
Alignment explanation
Indices: 834378--834422 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
834368 TTGTGGGTGC
* *
834378 CGATACTGACCCTTCAGTAT
1 CGATACTAAACCTTCAGTAT
**
834398 CGATACTAAACCTTTGGTAT
1 CGATACTAAACCTTCAGTAT
834418 CGATA
1 CGATA
834423 TCCACCTGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (20 bp):
CGATACTAAACCTTCAGTAT
Found at i:836486 original size:25 final size:24
Alignment explanation
Indices: 836458--836510 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
836448 TAAAGTTCTC
* *
836458 TTTTCTTTTCTTTTCAAGTTTTCATT
1 TTTTATTTTATTTT-AAGTTTT-ATT
836484 TTTTATTTTATTTTAAGTTTTATT
1 TTTTATTTTATTTTAAGTTTTATT
836508 TTT
1 TTT
836511 AAACATGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.24
25 7 0.28
26 12 0.48
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTATTTTATTTTAAGTTTTATT
Found at i:836510 original size:13 final size:13
Alignment explanation
Indices: 836463--836512 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
836453 TTCTCTTTTC
* *
836463 TTTTCTTTTCAAG
1 TTTTATTTTTAAG
*
836476 TTTTCATTTTTTA-
1 TTTT-ATTTTTAAG
836489 TTTTA-TTTTAAG
1 TTTTATTTTTAAG
836501 TTTTATTTTTAA
1 TTTTATTTTTAA
836513 ACATGCTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 5 0.17
12 6 0.20
13 14 0.47
14 5 0.17
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.70
Consensus pattern (13 bp):
TTTTATTTTTAAG
Found at i:840721 original size:24 final size:24
Alignment explanation
Indices: 840694--840751 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
840684 AAGACTTTGA
840694 TTTTGATTCAAAATGCAAGGCATC
1 TTTTGATTCAAAATGCAAGGCATC
*
840718 TTTTGATTCAAAATGCAAGGCCTC
1 TTTTGATTCAAAATGCAAGGCATC
840742 TTTTGATTCA
1 TTTTGATTCA
840752 TTAAAGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (24 bp):
TTTTGATTCAAAATGCAAGGCATC
Found at i:848100 original size:56 final size:55
Alignment explanation
Indices: 848030--848135 Score: 158
Period size: 56 Copynumber: 1.9 Consensus size: 55
848020 AATATTCCGC
* * *
848030 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTCGAAAAAGAAAAAAGAAAAAACGT
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATCGAAAAA-AAAAAAGAAAAAACGT
* *
848086 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAATCGAAAAAAGAAAAGAAAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATCGAAAAAAAAAAAGAAAA
848136 TGAAAAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 10 0.22
56 35 0.78
ACGTcount: A:0.49, C:0.15, G:0.25, T:0.11
Consensus pattern (55 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAATCGAAAAAAAAAAAGAAAAAACGT
Found at i:848790 original size:22 final size:22
Alignment explanation
Indices: 848765--848806 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
848755 ACATTTGAAG
*
848765 AATTCAAAGA-TCGAGAATCAGA
1 AATTC-AAGATTCCAGAATCAGA
848787 AATTCAAGATTCCAGAATCA
1 AATTCAAGATTCCAGAATCA
848807 ATAGTCACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (22 bp):
AATTCAAGATTCCAGAATCAGA
Found at i:850126 original size:2 final size:2
Alignment explanation
Indices: 850113--850153 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
850103 TATATTCCAT
*
850113 TA TA TG TA TA TA TA TA 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 TA TA TA TA TA TA TA TA T
850154 TATCATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:850183 original size:20 final size:21
Alignment explanation
Indices: 850160--850201 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
850150 ATATTATCAT
850160 TTTTTATAATT-TTTTATATA
1 TTTTTATAATTCTTTTATATA
* *
850180 -TTTTATATTTCTTTTATTTA
1 TTTTTATAATTCTTTTATATA
850200 TT
1 TT
850202 CTTAGTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
19 9 0.50
20 8 0.44
21 1 0.06
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTATAATTCTTTTATATA
Found at i:850255 original size:9 final size:9
Alignment explanation
Indices: 850158--850272 Score: 61
Period size: 10 Copynumber: 11.9 Consensus size: 9
850148 ATATATTATC
*
850158 ATTTTTTATA
1 ATTTTTT-TT
*
850168 ATTTTTTAT
1 ATTTTTTTT
* *
850177 ATATTTTAT
1 ATTTTTTTT
*
850186 ATTTCTTTT
1 ATTTTTTTT
*
850195 ATTTATTCTT
1 ATTT-TTTTT
*
850205 AGTTTTTTTG
1 A-TTTTTTTT
*
850215 AGTTTTTGTT
1 A-TTTTTTTT
850225 ATTATTATTATT
1 ATT-TT-TT-TT
850237 ATTTTATTTT
1 ATTTT-TTTT
850247 ATTTTTTTT
1 ATTTTTTTT
850256 -TTTTTCTTT
1 ATTTTT-TTT
*
850265 CTTTTTTT
1 ATTTTTTT
850273 CTAACATTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
8 5 0.06
9 29 0.34
10 37 0.44
11 9 0.11
12 5 0.06
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:850439 original size:11 final size:10
Alignment explanation
Indices: 850419--850556 Score: 55
Period size: 10 Copynumber: 13.2 Consensus size: 10
850409 TCTATTTACC
850419 TTTTTTATTT
1 TTTTTTATTT
850429 TTTTATTATTT
1 TTTT-TTATTT
* *
850440 TGTTTTGTTT
1 TTTTTTATTT
* *
850450 TGTTTTGTTT
1 TTTTTTATTT
850460 TATTTTCTATTT
1 T-TTTT-TATTT
*
850472 TCTGTTTATTT
1 T-TTTTTATTT
850483 GTTTGTTT-TTT
1 -TTT-TTTATTT
** * *
850494 TCCTTTCTTC
1 TTTTTTATTT
**
850504 TTCCTTATTT
1 TTTTTTATTT
*
850514 TTATTTTAATT
1 TT-TTTTATTT
* *
850525 TATTCT-TTT
1 TTTTTTATTT
*
850534 TTATTTATTT
1 TTTTTTATTT
850544 TATTTTTATTT
1 T-TTTTTATTT
850555 TT
1 TT
850557 ATTCATTTTA
Statistics
Matches: 95, Mismatches: 24, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
9 8 0.08
10 39 0.41
11 36 0.38
12 12 0.13
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.78
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:850519 original size:6 final size:6
Alignment explanation
Indices: 850508--850559 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
850498 TTCTTCTTCC
* * *
850508 TTATTT TTATTT TAATTT ATTCTTT TT-TAT TTA-TT TTATTT TTATTT
1 TTATTT TTATTT TTATTT -TTATTT TTATTT TTATTT TTATTT TTATTT
850555 TTATT
1 TTATT
850560 CATTTTAGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
5 8 0.21
6 26 0.68
7 4 0.11
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:850539 original size:14 final size:15
Alignment explanation
Indices: 850515--850554 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
850505 TCCTTATTTT
*
850515 TATTTTAATTTATTC
1 TATTTTTATTTATTC
*
850530 T-TTTTTATTTATTT
1 TATTTTTATTTATTC
850544 TATTTTTATTT
1 TATTTTTATTT
850555 TTATTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TATTTTTATTTATTC
Found at i:856726 original size:25 final size:25
Alignment explanation
Indices: 856677--856726 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
856667 TCATAAAAAA
*
856677 TTCAAAACTTCTTTATCAAACATTT
1 TTCAAAACTTCTTCATCAAACATTT
856702 TTCAAAACTTCTTCATTCAAA-ATTT
1 TTCAAAACTTCTTCA-TCAAACATTT
856727 GAAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (25 bp):
TTCAAAACTTCTTCATCAAACATTT
Found at i:862194 original size:21 final size:22
Alignment explanation
Indices: 862170--862213 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
862160 AAACATTTTC
862170 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
862191 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
862213 T
1 T
862214 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:862503 original size:16 final size:15
Alignment explanation
Indices: 862483--862523 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
862473 TAATATAAAA
862483 TTAAAAAAATAATA-
1 TTAAAAAAATAATAT
862497 TTATAAAAAATAATAT
1 TTA-AAAAAATAATAT
862513 TTAAAATAAAT
1 TTAAAA-AAAT
862524 TTAAAAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 14 0.58
16 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAAAAATAATAT
Found at i:862506 original size:15 final size:15
Alignment explanation
Indices: 862477--862518 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
862467 AAATAATAAT
*
862477 ATAAAATTA-AAAAA
1 ATAATATTATAAAAA
862491 ATAATATTATAAAAA
1 ATAATATTATAAAAA
862506 ATAATATT-TAAAA
1 ATAATATTATAAAA
862519 TAAATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATATTATAAAAA
Found at i:862518 original size:27 final size:26
Alignment explanation
Indices: 862488--862540 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
862478 TAAAATTAAA
862488 AAAATAATATTATAAAA-AATAATATTT
1 AAAATAA-ATT-TAAAACAATAATATTT
862515 AAAATAAATTTAAAAGCAATAATATT
1 AAAATAAATTTAAAA-CAATAATATT
862541 AAATTGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 5 0.21
26 3 0.12
27 16 0.67
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
AAAATAAATTTAAAACAATAATATTT
Found at i:862527 original size:11 final size:12
Alignment explanation
Indices: 862488--862529 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 12
862478 TAAAATTAAA
862488 AAAATAATATTAT
1 AAAATAATATT-T
862501 AAAAAATAATATTT
1 --AAAATAATATTT
862515 AAAATAA-ATTT
1 AAAATAATATTT
862526 AAAA
1 AAAA
862530 GCAATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.30
12 7 0.26
14 1 0.04
15 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATAATATTT
Found at i:863849 original size:3 final size:3
Alignment explanation
Indices: 863831--863886 Score: 76
Period size: 3 Copynumber: 18.0 Consensus size: 3
863821 TTGTAATATT
**
863831 TAA TAAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTT TAA
1 TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
863878 TAA TAA TAA
1 TAA TAA TAA
863887 ATTTAAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:864151 original size:76 final size:76
Alignment explanation
Indices: 864020--865422 Score: 2520
Period size: 76 Copynumber: 18.5 Consensus size: 76
864010 GATGGAAATG
* * * *
864020 TTTGAAAACATCATTCACTGAAGGATTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
864085 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
864096 TTTGGAAACATAATACACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
864161 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
864172 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
864236 CCCGAAGGCTT
66 CCCGAAGGCTT
**
864247 TTTGGAAACATCATGCACTATAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
864312 CCCGAAGGCTT
66 CCCGAAGGCTT
*
864323 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
864388 CCCGAATGCTT
66 CCCGAAGGCTT
*
864399 TTTGGAAACATCATGCACTGCAGGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
864464 CCCGAAGGCTT
66 CCCGAAGGCTT
864475 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
864540 CCCGAAGGCTT
66 CCCGAAGGCTT
864551 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
864616 CCCGAAGGCCT
66 CCCGAAGGCTT
** * *
864627 TTTGTTAACATCATGCACTGCATGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAAGC
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAAGC
*
864692 TCCCGAATGCTT
65 TCCCGAAGGCTT
* *
864704 TTTGGAAACATCATGCACTGCATGACTTACAGATGACCCTAAGACTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
* *
864769 CTCGAATGCTT
66 CCCGAAGGCTT
*
864780 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCCAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
864845 CCCGAAGGCTT
66 CCCGAAGGCTT
864856 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
864921 CCCGAAGGCTT
66 CCCGAAGGCTT
864932 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
864997 CCCGAAGGCTT
66 CCCGAAGGCTT
865008 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
865073 CCCGAAGGCTT
66 CCCGAAGGCTT
865084 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
865149 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
865160 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCGAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
865225 CACGAAGGCTT
66 CCCGAAGGCTT
*
865236 TTTGGAAACATCATGCACTCCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
865301 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
865312 TTTGGAAACATCATGCACTACAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
865377 CCCGAAGGCTT
66 CCCGAAGGCTT
865388 TTTGGAAACATCATGCACTGCAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGCAGGACTTACAGATG
865423 TGGAAAATAA
Statistics
Matches: 1279, Mismatches: 46, Indels: 4
0.96 0.03 0.00
Matches are distributed among these distances:
75 73 0.06
76 1136 0.89
77 70 0.05
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:866290 original size:22 final size:22
Alignment explanation
Indices: 866265--866316 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
866255 CATAAAGCTT
866265 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
866287 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
866309 TCATCTTT
1 TCATCTTT
866317 GAAGAGTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:866749 original size:50 final size:54
Alignment explanation
Indices: 866690--866841 Score: 170
Period size: 50 Copynumber: 2.9 Consensus size: 54
866680 ATCACTGGTT
* *
866690 TGTAAAACATTTGACAATACATTCATCTTTTCCTGTGGTTTCTG-TC-GA-G-A
1 TGTAAAACATTTGACAACACATTCATCTTTTCCTGTGGCTTCTGCTCAGATGTA
* * * * * *
866740 TGTAAAACATTTGAAAACACATTCTTCCTTTCTTGTAGCTTCTGCTCAGATGTT
1 TGTAAAACATTTGACAACACATTCATCTTTTCCTGTGGCTTCTGCTCAGATGTA
* *
866794 TGTAAAGCATTTGACAACACGTTCATCCTTTT-CTGTGGCTTCTGCTCA
1 TGTAAAACATTTGACAACACATTCAT-CTTTTCCTGTGGCTTCTGCTCA
866842 AATTTCTTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
50 37 0.45
51 2 0.02
52 2 0.02
53 1 0.01
54 36 0.44
55 4 0.05
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (54 bp):
TGTAAAACATTTGACAACACATTCATCTTTTCCTGTGGCTTCTGCTCAGATGTA
Found at i:866813 original size:54 final size:53
Alignment explanation
Indices: 866687--866841 Score: 174
Period size: 54 Copynumber: 3.0 Consensus size: 53
866677 ATAATCACTG
* * * *
866687 GTTTGTAAAACATTTGACAATACATTCATCTTTTCCTGTGGTTTCTG-TC-GA
1 GTTTGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGA
* * * *
866738 G-ATGTAAAACATTTGAAAACACATTCTTCCTTTCTTGTAGCTTCTGCTCAGA
1 GTTTGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGA
* *
866790 TGTTTGTAAAGCATTTGACAACACGTTCATCCTTT-TCTGTGGCTTCTGCTCA
1 -GTTTGTAAAACATTTGACAACACATTCATCCTTTCT-TGTGGCTTCTGCTCA
866842 AATTTCTTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
50 37 0.44
51 3 0.04
52 2 0.02
53 2 0.02
54 41 0.48
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (53 bp):
GTTTGTAAAACATTTGACAACACATTCATCCTTTCTTGTGGCTTCTGCTCAGA
Found at i:869762 original size:12 final size:12
Alignment explanation
Indices: 869745--869771 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
869735 CAATGTCCTG
869745 TCTCTTTTTTTT
1 TCTCTTTTTTTT
869757 TCTCTTTTTTTT
1 TCTCTTTTTTTT
869769 TCT
1 TCT
869772 GGGATCAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TCTCTTTTTTTT
Found at i:871401 original size:13 final size:13
Alignment explanation
Indices: 871381--871416 Score: 58
Period size: 11 Copynumber: 2.9 Consensus size: 13
871371 TTTCTCCCAT
871381 TCTTTTTTTTTC-
1 TCTTTTTTTTTCA
871393 -CTTTTTTTTTCA
1 TCTTTTTTTTTCA
871405 TCTTTTTTTTTC
1 TCTTTTTTTTTC
871417 TTTGCTGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TCTTTTTTTTTCA
Found at i:871429 original size:28 final size:27
Alignment explanation
Indices: 871398--871453 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 27
871388 TTTTCCTTTT
871398 TTTTTCATCTTTTTT-TTTCTTTGCTGGA
1 TTTTTC-T-TTTTTTCTTTCTTTGCTGGA
871426 TTTTTCTTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTTCTTTCTTTGCTGGA
871453 T
1 T
871454 GAGTATAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 6 0.22
27 15 0.56
28 6 0.22
ACGTcount: A:0.05, C:0.14, G:0.11, T:0.70
Consensus pattern (27 bp):
TTTTTCTTTTTTTCTTTCTTTGCTGGA
Found at i:874236 original size:14 final size:14
Alignment explanation
Indices: 874219--874257 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
874209 CAAAAGTATG
874219 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
874233 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
874248 AATG-AAAATG
1 AATGCAAAATG
874258 CATATATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:877009 original size:21 final size:22
Alignment explanation
Indices: 876985--877028 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
876975 AAACATTTTC
876985 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
877006 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
877028 T
1 T
877029 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:877329 original size:16 final size:16
Alignment explanation
Indices: 877305--877345 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
877295 TATAAAAGTA
877305 ATAAA-AAATAATATT
1 ATAAATAAATAATATT
877320 ATAAATAAATAATATT
1 ATAAATAAATAATATT
877336 -TAAAATAAAT
1 AT-AAATAAAT
877346 TTAAAAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAAATAAATAATATT
Found at i:878570 original size:3 final size:3
Alignment explanation
Indices: 878552--878613 Score: 72
Period size: 3 Copynumber: 20.0 Consensus size: 3
878542 TTGTAATATT
*
878552 TAA TAAA TAA TAAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
878599 -ATT TAA TAA TAA TAA
1 TA-A TAA TAA TAA TAA
878614 ATTTAAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 1 0.02
3 43 0.84
4 7 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:878578 original size:9 final size:9
Alignment explanation
Indices: 878545--878597 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
878535 TTGGGCTTTG
878545 TAATATTTAA
1 TAATA-TTAA
*
878555 TAAATAATAAA
1 T-AAT-ATTAA
878566 TAATATTAA
1 TAATATTAA
*
878575 TAATAATAA
1 TAATATTAA
*
878584 TAATAATAA
1 TAATATTAA
878593 TAATA
1 TAATA
878598 AATTTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
9 26 0.68
10 4 0.11
11 7 0.18
12 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TAATATTAA
Found at i:878589 original size:21 final size:21
Alignment explanation
Indices: 878545--878613 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 21
878535 TTGGGCTTTG
878545 TAATATT--TAATAAATAATAAA
1 TAATATTAATAAT-AATAAT-AA
878566 TAATATTAATAATAATAATAA
1 TAATATTAATAATAATAATAA
*
878587 TAATAATAATAAATTTAATAATAA
1 TAATATTAAT-AA--TAATAATAA
878611 TAA
1 TAA
878614 ATTTAAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
21 18 0.43
22 8 0.19
23 4 0.10
24 12 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATAATAATAATAA
Found at i:878614 original size:15 final size:16
Alignment explanation
Indices: 878557--878619 Score: 80
Period size: 15 Copynumber: 4.1 Consensus size: 16
878547 ATATTTAATA
878557 AATAATAA-ATAATATT
1 AATAATAATA-AATATT
*
878573 AATAATAAT-AATAAT
1 AATAATAATAAATATT
878588 AATAATAATAAAT-TT
1 AATAATAATAAATATT
878603 AATAATAATAAAT-TT
1 AATAATAATAAATATT
878618 AA
1 AA
878620 ATTTAAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
15 32 0.74
16 11 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAATAATAAATATT
Found at i:879535 original size:17 final size:18
Alignment explanation
Indices: 879513--879551 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
879503 ATTGTTCGAA
879513 TTGTTTCTATTATTT-AG
1 TTGTTTCTATTATTTGAG
*
879530 TTGTTTTTATTATTTGAG
1 TTGTTTCTATTATTTGAG
879548 TTGT
1 TTGT
879552 ATCATTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (18 bp):
TTGTTTCTATTATTTGAG
Done.