Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 114 of 143
Found at i:34804670 original size:11 final size:11
Alignment explanation
Indices: 34804647--34804709 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
34804637 TCAAATTTAT
34804647 TTTAATCTTAAA
1 TTTAAT-TTAAA
*
34804659 TTTATTTTAAA
1 TTTAATTTAAA
* *
34804670 TTCAATTCAAA
1 TTTAATTTAAA
*
34804681 TTTCAATTTCAA
1 TTT-AATTTAAA
34804693 TTTAATTTAAA
1 TTTAATTTAAA
34804704 TTTAAT
1 TTTAAT
34804710 GTTATTATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
11 28 0.67
12 14 0.33
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:34804919 original size:20 final size:20
Alignment explanation
Indices: 34804894--34804953 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
34804884 GTGCCTACTG
*
34804894 CTGCTGGCCACCAACTCCAT
1 CTGCTGACCACCAACTCCAT
*
34804914 CTGCTGACCACCAGCTCCAT
1 CTGCTGACCACCAACTCCAT
34804934 CTGCTGACCACCAAGCTCCA
1 CTGCTGACCACCAA-CTCCA
34804954 CCATGCCCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 31 0.86
21 5 0.14
ACGTcount: A:0.22, C:0.45, G:0.15, T:0.18
Consensus pattern (20 bp):
CTGCTGACCACCAACTCCAT
Found at i:34805874 original size:15 final size:15
Alignment explanation
Indices: 34805840--34805874 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
34805830 TTTTCAAAAC
34805840 GTTT-CCAGATCTGG
1 GTTTCCCAGATCTGG
34805854 GTTTTCCCAGATCTGG
1 G-TTTCCCAGATCTGG
34805870 GTTTC
1 GTTTC
34805875 GAAAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 7 0.37
16 11 0.58
ACGTcount: A:0.11, C:0.23, G:0.26, T:0.40
Consensus pattern (15 bp):
GTTTCCCAGATCTGG
Found at i:34806716 original size:31 final size:30
Alignment explanation
Indices: 34806649--34806792 Score: 180
Period size: 30 Copynumber: 4.7 Consensus size: 30
34806639 CCCTAAATTG
* *
34806649 TCCAGAAATTATATTTTGACCCCAAATCTTT
1 TCCA-AAATTATATTTTAACCCCAAAACTTT
** *
34806680 TCCAAAATTATATTTTTGTCCCCGAAACTTT
1 TCCAAAATTATA-TTTTAACCCCAAAACTTT
* * *
34806711 ACCAAAATTACATTTTAACCCTAAAACTTT
1 TCCAAAATTATATTTTAACCCCAAAACTTT
*
34806741 CCCAAAATTATATTTTAACCCCAAAACTTT
1 TCCAAAATTATATTTTAACCCCAAAACTTT
*
34806771 TCCAAAATTACATTTTAACCCC
1 TCCAAAATTATATTTTAACCCC
34806793 GATTTCATTG
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
30 69 0.70
31 29 0.30
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (30 bp):
TCCAAAATTATATTTTAACCCCAAAACTTT
Found at i:34806848 original size:59 final size:59
Alignment explanation
Indices: 34806774--34807236 Score: 606
Period size: 59 Copynumber: 7.9 Consensus size: 59
34806764 AAACTTTTCC
* **
34806774 AAAATTACA-TTTTAACCCCGATTTCATTGAAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * ** * *
34806832 AAAATTCAATTTTTAACCCCGATTCCACTAAAAATTACCATTTTACCCCCGAAACTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * * *
34806891 AAAATTCTATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTGAATGTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
*
34806950 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * *
34807009 AAAATTCCATTTTTAACCCCGATTTTACTGAAAATTACCATTTTACCCCCAAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * * * * ** * *
34807068 AAAATTCCGTTTTTTTACCCTGATTTCATCAAAAATTACCATTTTACCCTTGAAGCTTCT
1 AAAATTCC-ATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * *
34807128 AAAATTCCGTTTTTAACCCTGATTTCACCGAAAATTGCCATTTTACCCCCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * * *
34807187 AAAATTCCATTTTAAACCCCGATTACA-CTAAAATTACCATTTTGCCCCCG
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCG
34807237 GGTATCCATA
Statistics
Matches: 352, Mismatches: 51, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
58 27 0.08
59 278 0.79
60 47 0.13
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
Found at i:34806985 original size:177 final size:178
Alignment explanation
Indices: 34806774--34807236 Score: 677
Period size: 178 Copynumber: 2.6 Consensus size: 178
34806764 AAACTTTTCC
* **
34806774 AAAATTACA-TTTTAACCCCGATTTCATTGAAAATTACCATTTTACCCCCGAATCTTTTAAAATT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTTAAAATT
* *
34806838 CAATTTTTAACCCCGATTCCACTAAAAATTACCATTTTACCCCCGAAA-CTTCTAAAATT-C-TA
66 CCATTTTTAACCCCGATTACACT-AAAATTACCATTTTACCCCCGAAATCTTCTAAAATTCCGT-
*
34806900 TTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTGAATG-TTTT
129 TTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTGAA-GCTTCT
*
34806950 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTCTAAAATT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTTAAAATT
** *
34807015 CCATTTTTAACCCCGATTTTACTGAAAATTACCATTTTACCCCC-AAATCTTTTAAAATTCCGTT
66 CCATTTTTAACCCCGATTACACT-AAAATTACCATTTTACCCCCGAAATCTTCTAAAATTCCGTT
* * * *
34807079 TTTTTACCCTGATTTCATCAAAAATTACCATTTTACCCTTGAAGCTTCT
130 TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTGAAGCTTCT
* * *
34807128 AAAATTCCGTTTTTAACCCTGATTTCACCGAAAATTGCCATTTTACCCCCGAATCTTTTAAAATT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTTAAAATT
* *
34807193 CCATTTTAAACCCCGATTACACTAAAATTACCATTTTGCCCCCG
66 CCATTTTTAACCCCGATTACACTAAAATTACCATTTTACCCCCG
34807237 GGTATCCATA
Statistics
Matches: 259, Mismatches: 22, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
176 11 0.04
177 122 0.47
178 125 0.48
179 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (178 bp):
AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTTAAAATT
CCATTTTTAACCCCGATTACACTAAAATTACCATTTTACCCCCGAAATCTTCTAAAATTCCGTTT
TTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTGAAGCTTCT
Found at i:34812394 original size:15 final size:15
Alignment explanation
Indices: 34812360--34812394 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
34812350 TTTTCAAAAC
34812360 GTTT-CCAGATCTGG
1 GTTTCCCAGATCTGG
34812374 GTTTTCCCAGATCTGG
1 G-TTTCCCAGATCTGG
34812390 GTTTC
1 GTTTC
34812395 GAAAAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 7 0.37
16 11 0.58
ACGTcount: A:0.11, C:0.23, G:0.26, T:0.40
Consensus pattern (15 bp):
GTTTCCCAGATCTGG
Found at i:34813208 original size:30 final size:30
Alignment explanation
Indices: 34813169--34813344 Score: 217
Period size: 30 Copynumber: 5.8 Consensus size: 30
34813159 ACCTAAATTG
*
34813169 TCCAGAAATTACATTTTGACCCCAAATCTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
* **
34813200 TCCAAAATTATATTTTTGACCCTGAAACTTT
1 TCCAAAATTACA-TTTTGACCCCAAAACTTT
* *
34813231 ACCAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* **
34813261 TCCAAAATTATATTTTGACCTTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * *
34813291 TCTAAAATTATATGTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
34813321 TCCAAAATTACATTTTAACCCCAA
1 TCCAAAATTACATTTTGACCCCAA
34813345 TTTCACTAAA
Statistics
Matches: 122, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
30 93 0.76
31 29 0.24
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:34813360 original size:29 final size:30
Alignment explanation
Indices: 34813324--34813725 Score: 122
Period size: 29 Copynumber: 13.7 Consensus size: 30
34813314 AAACTTTTCC
34813324 AAAATTA-CATTTTAACCCCAATTTCACTA
1 AAAATTACCATTTTAACCCCAATTTCACTA
* *
34813353 AAAATTACCATTTTACCCCCGAATCTT---TT
1 AAAATTACCATTTTAACCCC-AAT-TTCACTA
* * *
34813382 AAAATTA-AATTTTTAACCCCGATTCCACTA
1 AAAATTACCA-TTTTAACCCCAATTTCACTA
* *
34813412 AAAATTACCATTTTACCCCCGAAACTT--CT-
1 AAAATTACCATTTTAACCCC--AATTTCACTA
**** * *
34813441 AAAATTTTGTTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTAACCCCAATTTCACTA
*
34813471 AAAATTACCATTTT-ACCCTCGAATCTT---TT
1 AAAATTACCATTTTAACCC-C-AAT-TTCACTA
* **
34813500 AAAATT-CCATTTTTAACCCCGATTTCACCG
1 AAAATTACCA-TTTTAACCCCAATTTCACTA
* *
34813530 AAAATTACCATTTTACCCCCGAATCTT---TT
1 AAAATTACCATTTTAACCCC-AAT-TTCACTA
** *
34813559 AAAATT-CCATTTTTAACCCCGGTTTTA-TCA
1 AAAATTACCA-TTTTAACCCCAATTTCACT-A
* *
34813589 AAAATTACCATTTTACCCCCGAAGCTT--CT-
1 AAAATTACCATTTTAACCCC-AA-TTTCACTA
* **
34813618 AAAATT-CCATTTTTAACCCCGATTTCACCG
1 AAAATTACCA-TTTTAACCCCAATTTCACTA
* * *
34813648 AAAATTGCCACTTT-ACCCCTGAATCTT---TT
1 AAAATTACCATTTTAACCCC--AAT-TTCACTA
* * *
34813677 AAAATT-CCATTTTTAACCCCGATTACAC-C
1 AAAATTACCA-TTTTAACCCCAATTTCACTA
*
34813706 AAAATTACCATTTTACCCCC
1 AAAATTACCATTTTAACCCC
34813726 GGGTATCCAT
Statistics
Matches: 272, Mismatches: 55, Indels: 92
0.65 0.13 0.22
Matches are distributed among these distances:
27 11 0.04
28 21 0.08
29 116 0.43
30 92 0.34
31 20 0.07
32 12 0.04
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAATTACCATTTTAACCCCAATTTCACTA
Found at i:34813397 original size:59 final size:59
Alignment explanation
Indices: 34813324--34813726 Score: 576
Period size: 59 Copynumber: 6.9 Consensus size: 59
34813314 AAACTTTTCC
* * *
34813324 AAAATTACA-TTTTAACCCCAATTTCACTAAAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTT
** * * * *
34813382 AAAATTAAATTTTTAACCCCGATTCCACTAAAAATTACCATTTTACCCCCGAAACTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTT
*** *
34813441 AAAATTTTGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTT
*
34813500 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTT
* * * * *
34813559 AAAATTCCATTTTTAACCCCGGTTTTATCAAAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTT
* * * *
34813618 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTGCCACTTTACCCCTGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTT
*
34813677 AAAATTCCATTTTTAACCCCGATTACACC-AAAATTACCATTTTACCCCCG
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCG
34813727 GGTATCCATA
Statistics
Matches: 307, Mismatches: 37, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
58 26 0.08
59 281 0.92
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTT
Found at i:34820219 original size:17 final size:17
Alignment explanation
Indices: 34820197--34820230 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34820187 TTTAACTATA
*
34820197 TGCTTTTATTTCGGTGT
1 TGCTTTTATTTAGGTGT
34820214 TGCTTTTATTTAGGTGT
1 TGCTTTTATTTAGGTGT
34820231 AATAGGTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.09, G:0.24, T:0.59
Consensus pattern (17 bp):
TGCTTTTATTTAGGTGT
Found at i:34820649 original size:21 final size:20
Alignment explanation
Indices: 34820623--34820662 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34820613 CGGTTACATG
34820623 CAGAGTCATTATACATTTTTT
1 CAGAGT-ATTATACATTTTTT
* *
34820644 CAGAGTGTTATATATTTTT
1 CAGAGTATTATACATTTTT
34820663 CTTTATACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
CAGAGTATTATACATTTTTT
Found at i:34822464 original size:17 final size:16
Alignment explanation
Indices: 34822442--34822496 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 16
34822432 ACTTAAAAAT
34822442 ATTAAAATAACAAATAA
1 ATTAAAA-AACAAATAA
34822459 ATT-AAAAAC-AAT--
1 ATTAAAAAACAAATAA
*
34822471 ATTAAAACACCAAATAA
1 ATTAAAA-AACAAATAA
34822488 ATTAAAAAA
1 ATTAAAAAA
34822497 TTTCTATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
12 3 0.10
13 3 0.10
14 5 0.16
15 6 0.19
16 4 0.13
17 10 0.32
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (16 bp):
ATTAAAAAACAAATAA
Found at i:34822471 original size:29 final size:29
Alignment explanation
Indices: 34822439--34822495 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
34822429 TACACTTAAA
*
34822439 AATATTAAAATAACAAATAAATTAAAAAC
1 AATATTAAAACAACAAATAAATTAAAAAC
*
34822468 AATATTAAAACACCAAATAAATTAAAAA
1 AATATTAAAACAACAAATAAATTAAAAA
34822496 ATTTCTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (29 bp):
AATATTAAAACAACAAATAAATTAAAAAC
Found at i:34826510 original size:12 final size:12
Alignment explanation
Indices: 34826495--34826520 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34826485 ATACACTCAC
34826495 AAATATTAAAAT
1 AAATATTAAAAT
34826507 AAATATTAAAAT
1 AAATATTAAAAT
34826519 AA
1 AA
34826521 CAAACAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATATTAAAAT
Found at i:34827451 original size:20 final size:21
Alignment explanation
Indices: 34827413--34827451 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
34827403 AAATAAAACA
*
34827413 AATTGAGTAAAATTTAATAAT
1 AATTGAGTAAAACTTAATAAT
34827434 AATTGAGT-AAACTTAATA
1 AATTGAGTAAAACTTAATA
34827452 TTAGCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (21 bp):
AATTGAGTAAAACTTAATAAT
Found at i:34854072 original size:28 final size:30
Alignment explanation
Indices: 34854041--34854101 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
34854031 GATAAATAAA
34854041 ATTTTAG-TTAAAATGCTAAAA-TTGAGAT
1 ATTTTAGTTTAAAATGCTAAAAGTTGAGAT
** *
34854069 ATTTTAGTTTATGATGTTAAAAGTTGAGAT
1 ATTTTAGTTTAAAATGCTAAAAGTTGAGAT
34854099 ATT
1 ATT
34854102 AAAAGTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 7 0.25
29 11 0.39
30 10 0.36
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (30 bp):
ATTTTAGTTTAAAATGCTAAAAGTTGAGAT
Found at i:34860197 original size:11 final size:11
Alignment explanation
Indices: 34860183--34860221 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
34860173 AAAACAAATC
34860183 TAAAAAATATA
1 TAAAAAATATA
*
34860194 TAAAATATATA
1 TAAAAAATATA
34860205 TAAAAAAT-TA
1 TAAAAAATATA
34860215 -AAAAAAT
1 TAAAAAAT
34860222 TAAAAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 7 0.27
10 2 0.08
11 17 0.65
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAAAAATATA
Found at i:34875619 original size:27 final size:27
Alignment explanation
Indices: 34875579--34875630 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
34875569 AAAGATGTTT
* * *
34875579 AAAAATTTATAAAAGATAAAATTACTA
1 AAAAACTTACAAAAGAAAAAATTACTA
*
34875606 AAAAACTTACAAAATAAAAAATTAC
1 AAAAACTTACAAAAGAAAAAATTAC
34875631 AAAGTTTATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAAACTTACAAAAGAAAAAATTACTA
Found at i:34875630 original size:15 final size:16
Alignment explanation
Indices: 34875604--34875633 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34875594 ATAAAATTAC
34875604 TAAAAAACTTACAAAA
1 TAAAAAACTTACAAAA
34875620 TAAAAAA-TTACAAA
1 TAAAAAACTTACAAA
34875634 GTTTATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAAAACTTACAAAA
Found at i:34880326 original size:19 final size:16
Alignment explanation
Indices: 34880283--34880351 Score: 63
Period size: 16 Copynumber: 4.3 Consensus size: 16
34880273 CCTGGGCAGT
34880283 AGAAGAAGAGAAAATG
1 AGAAGAAGAGAAAATG
* *
34880299 AAAATAAGAGCAGAAATAG
1 AGAAGAAGAG-A-AAAT-G
*
34880318 AGAAGAAGA-AAAA-A
1 AGAAGAAGAGAAAATG
34880332 AGAAGAAGAGAAAATG
1 AGAAGAAGAGAAAATG
34880348 -GAAG
1 AGAAG
34880352 GAGCTTCGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
14 9 0.21
15 8 0.19
16 11 0.26
17 2 0.05
18 4 0.10
19 8 0.19
ACGTcount: A:0.65, C:0.01, G:0.28, T:0.06
Consensus pattern (16 bp):
AGAAGAAGAGAAAATG
Found at i:34888836 original size:15 final size:16
Alignment explanation
Indices: 34888802--34888840 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
34888792 AATGACAAAC
*
34888802 ATAAAATAACATAGAAA
1 ATAAAA-AACATAAAAA
34888819 ATAAAAAA-ATAAAAA
1 ATAAAAAACATAAAAA
34888834 ATAAAAA
1 ATAAAAA
34888841 CAGAAGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 2 0.10
17 6 0.29
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (16 bp):
ATAAAAAACATAAAAA
Found at i:34888864 original size:27 final size:27
Alignment explanation
Indices: 34888834--34888888 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
34888824 AAAATAAAAA
*
34888834 ATAAAAACAGAAGGGGAAGCAAAAGAG
1 ATAAAAACAGAAGGAGAAGCAAAAGAG
* * *
34888861 ATAAATATAGAAGGAGAAGCAGAAGAG
1 ATAAAAACAGAAGGAGAAGCAAAAGAG
34888888 A
1 A
34888889 ATGAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.58, C:0.05, G:0.29, T:0.07
Consensus pattern (27 bp):
ATAAAAACAGAAGGAGAAGCAAAAGAG
Found at i:34888922 original size:21 final size:19
Alignment explanation
Indices: 34888890--34888928 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
34888880 CAGAAGAGAA
34888890 TGAAAAAATAAAAAAAAAT
1 TGAAAAAATAAAAAAAAAT
34888909 TGAAAGAACATAAAAAAAAA
1 TGAAA-AA-ATAAAAAAAAA
34888929 ACTTAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.13
Consensus pattern (19 bp):
TGAAAAAATAAAAAAAAAT
Found at i:34899748 original size:40 final size:40
Alignment explanation
Indices: 34899679--34899769 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
34899669 TAAGTTCATG
* * *
34899679 AGTCCTCCTTTTAATCAATTTTATGCTCTACCGAGCCATA
1 AGTCTTCCTTTTAATCAATCTTATACTCTACCGAGCCATA
* * *
34899719 AGTCTTCCTTTTATTCACTCTTATACTCTACCGAGTCATA
1 AGTCTTCCTTTTAATCAATCTTATACTCTACCGAGCCATA
34899759 AGTCTTCCTTT
1 AGTCTTCCTTT
34899770 CTAAAAGCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.22, C:0.27, G:0.09, T:0.42
Consensus pattern (40 bp):
AGTCTTCCTTTTAATCAATCTTATACTCTACCGAGCCATA
Found at i:34899884 original size:43 final size:40
Alignment explanation
Indices: 34899795--34899901 Score: 124
Period size: 41 Copynumber: 2.5 Consensus size: 40
34899785 GCGCTCATTT
* * * * *
34899795 TGAGACATGAGTTTTCCTTTAATATAATCTCATTCTCATC
1 TGAGACATGAGTCTTCATTTAATATAATCTCATGCTAACC
34899835 TCGAGACATGAGTCTTCATTTAATATAAATTCTCATGCTTAACC
1 T-GAGACATGAGTCTTCATTTAATAT-AA-TCTCATGC-TAACC
34899879 TGAGACATGAGTCTTCCATTTAA
1 TGAGACATGAGTCTT-CATTTAA
34899902 ATATCGAGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
40 1 0.02
41 22 0.39
42 2 0.04
43 21 0.37
44 11 0.19
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (40 bp):
TGAGACATGAGTCTTCATTTAATATAATCTCATGCTAACC
Found at i:34900912 original size:23 final size:23
Alignment explanation
Indices: 34900849--34900957 Score: 92
Period size: 23 Copynumber: 4.7 Consensus size: 23
34900839 TGGGGAAACT
34900849 GTAAGCACACACAGTGCAAATCA
1 GTAAGCACACACAGTGCAAATCA
* *** *
34900872 GTAGGCACATGTAGTGCAAAACA
1 GTAAGCACACACAGTGCAAATCA
* *
34900895 ATAAGCACACACAATGCAAATCA
1 GTAAGCACACACAGTGCAAATCA
*** * *
34900918 GTAAGCATGTATAGTGCGAATCA
1 GTAAGCACACACAGTGCAAATCA
* *
34900941 GTAAGCAGACATAGTGC
1 GTAAGCACACACAGTGC
34900958 TGAACAGTAA
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.17
Consensus pattern (23 bp):
GTAAGCACACACAGTGCAAATCA
Found at i:34900946 original size:46 final size:46
Alignment explanation
Indices: 34900844--34900947 Score: 127
Period size: 46 Copynumber: 2.3 Consensus size: 46
34900834 AGTGCTGGGG
* * * *
34900844 AAACTGTAAGCACACACAGTGCAAATCAGTAGGCACATGTAGTGCA
1 AAACAGTAAGCACACACAATGCAAATCAGTAAGCACATATAGTGCA
* ** *
34900890 AAACAATAAGCACACACAATGCAAATCAGTAAGCATGTATAGTGCG
1 AAACAGTAAGCACACACAATGCAAATCAGTAAGCACATATAGTGCA
*
34900936 AATCAGTAAGCA
1 AAACAGTAAGCA
34900948 GACATAGTGC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.17
Consensus pattern (46 bp):
AAACAGTAAGCACACACAATGCAAATCAGTAAGCACATATAGTGCA
Found at i:34906330 original size:3 final size:3
Alignment explanation
Indices: 34906322--34906349 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
34906312 ATTGTTTTAT
34906322 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
34906350 AAAAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34909170 original size:3 final size:3
Alignment explanation
Indices: 34909162--34909198 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
34909152 TGTTTGTGGG
34909162 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
34909199 TATGAACTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:34917573 original size:3 final size:3
Alignment explanation
Indices: 34917565--34917595 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
34917555 CAAGTAATCA
34917565 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
34917596 GGGGATTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34932650 original size:13 final size:13
Alignment explanation
Indices: 34932632--34932659 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34932622 CAATCAAATC
34932632 GGCATGCATGATT
1 GGCATGCATGATT
34932645 GGCATGCATGATT
1 GGCATGCATGATT
34932658 GG
1 GG
34932660 ATGTTTGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (13 bp):
GGCATGCATGATT
Found at i:34950352 original size:20 final size:21
Alignment explanation
Indices: 34950327--34950365 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34950317 TATTTGCTAA
34950327 TATT-AAGTTTACTCAATTAT
1 TATTAAAGTTTACTCAATTAT
*
34950347 TATTAAATTTTACTCAATT
1 TATTAAAGTTTACTCAATT
34950366 TGTTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (21 bp):
TATTAAAGTTTACTCAATTAT
Found at i:34955570 original size:17 final size:15
Alignment explanation
Indices: 34955542--34955576 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
34955532 AATTTTGAGT
34955542 TTAATTTTTTTAAAA
1 TTAATTTTTTTAAAA
34955557 TTAATATTTATTTAAAA
1 TTAAT-TTT-TTTAAAA
34955574 TTA
1 TTA
34955577 CATTATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 3 0.17
17 10 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAATTTTTTTAAAA
Found at i:34957818 original size:17 final size:17
Alignment explanation
Indices: 34957775--34957867 Score: 65
Period size: 17 Copynumber: 5.8 Consensus size: 17
34957765 AAAAAATTAT
*
34957775 AATTGTTAAAA-TAAAA
1 AATTATTAAAATTAAAA
*
34957791 AATTATGAAAATTAAAA
1 AATTATTAAAATTAAAA
*
34957808 AATCT-TTAAAATT-CAA
1 AAT-TATTAAAATTAAAA
*
34957824 AA-TA--AAAAATAAAA
1 AATTATTAAAATTAAAA
*
34957838 AATATTTTAAAA-TAAAA
1 AAT-TATTAAAATTAAAA
*
34957855 AATTATCAAAATT
1 AATTATTAAAATT
34957868 CAATGTTATC
Statistics
Matches: 59, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
13 5 0.08
14 5 0.08
16 20 0.34
17 24 0.41
18 5 0.08
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.31
Consensus pattern (17 bp):
AATTATTAAAATTAAAA
Found at i:34959111 original size:4 final size:4
Alignment explanation
Indices: 34959102--34959156 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
34959092 TCATACGACT
* *
34959102 AAGA AAGA AAGT AAGA AAG- AAG- AAGTA GATGA AAGA AAGA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAG-A -AAGA AAGA AAGA AAGA AAGA
*
34959150 GAGA AAG
1 AAGA AAG
34959157 GTATTCTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 6 0.14
4 33 0.79
5 1 0.02
6 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.05
Consensus pattern (4 bp):
AAGA
Found at i:34959559 original size:43 final size:43
Alignment explanation
Indices: 34959510--34959597 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
34959500 TAATTAATTT
* * *
34959510 GTTAGTAACTAATTTTATTTTGTTAGTAGTAGTTAGTAAGTAA
1 GTTAGTAAATAATTTTATTTTGTTAGTAGTAGTAAATAAGTAA
34959553 GTTAGTAAATAATTTTATTTTGTTAGTAGTAGTAAATAAGTAA
1 GTTAGTAAATAATTTTATTTTGTTAGTAGTAGTAAATAAGTAA
34959596 GT
1 GT
34959598 AATATAAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.45
Consensus pattern (43 bp):
GTTAGTAAATAATTTTATTTTGTTAGTAGTAGTAAATAAGTAA
Found at i:34959579 original size:21 final size:21
Alignment explanation
Indices: 34959507--34959580 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
34959497 TTTTAATTAA
*
34959507 TTTGTTAGTAACTAATTTTAT
1 TTTGTTAGTAAATAATTTTAT
* * * *
34959528 TTTGTTAGT-AGTAGTTAGTAAG
1 TTTGTTAGTAAATAATT--TTAT
**
34959550 TAAGTTAGTAAATAATTTTAT
1 TTTGTTAGTAAATAATTTTAT
34959571 TTTGTTAGTA
1 TTTGTTAGTA
34959581 GTAGTAAATA
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
20 5 0.13
21 19 0.50
22 9 0.24
23 5 0.13
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.51
Consensus pattern (21 bp):
TTTGTTAGTAAATAATTTTAT
Found at i:34959769 original size:20 final size:20
Alignment explanation
Indices: 34959744--34959815 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 20
34959734 TGTTGATACC
34959744 ATTTTGGTATATAAATATTT
1 ATTTTGGTATATAAATATTT
* * *
34959764 ATTTTGTACTATTTTGATAAATAACTC
1 ATTTTG--GTA---T-ATAAAT-ATTT
34959791 ATTTTGGTATATAAATATTT
1 ATTTTGGTATATAAATATTT
34959811 ATTTT
1 ATTTT
34959816 TTACCATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
20 13 0.33
21 6 0.15
22 3 0.08
25 3 0.08
26 6 0.15
27 8 0.21
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.54
Consensus pattern (20 bp):
ATTTTGGTATATAAATATTT
Found at i:34960056 original size:20 final size:19
Alignment explanation
Indices: 34960031--34960069 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
34960021 TATTTGTTCC
34960031 TTATTTCATTTACGAAATTA
1 TTATTT-ATTTACGAAATTA
*
34960051 TTATTTGTTTACGAAATTA
1 TTATTTATTTACGAAATTA
34960070 AATTAGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (19 bp):
TTATTTATTTACGAAATTA
Found at i:34961078 original size:43 final size:43
Alignment explanation
Indices: 34960996--34961080 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
34960986 AACATTTTTT
* * * * *
34960996 TAAATTATATTATTTGATTCGTGTTAATATGGTTGCATGTTAC
1 TAAATTATATTACTTAACTCGTATTAATATGCTTGCATGTTAC
*
34961039 TAAATTATATTACTTAACTCTTATTAATAT-CTTGACATGTTA
1 TAAATTATATTACTTAACTCGTATTAATATGCTTG-CATGTTA
34961081 TTAATTGTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 3 0.09
43 32 0.91
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (43 bp):
TAAATTATATTACTTAACTCGTATTAATATGCTTGCATGTTAC
Found at i:34962041 original size:25 final size:26
Alignment explanation
Indices: 34962002--34962052 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
34961992 CCTTAAACCA
34962002 AAATACAAACATAAA-AAAATTAATT
1 AAATACAAACATAAACAAAATTAATT
** *
34962027 AAATACAAATTTAAACATAATTAATT
1 AAATACAAACATAAACAAAATTAATT
34962053 TCAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (26 bp):
AAATACAAACATAAACAAAATTAATT
Found at i:34964378 original size:24 final size:24
Alignment explanation
Indices: 34964344--34964391 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
34964334 CACCATACAC
*
34964344 GGAGTTCGATCTTTATTTTCTACT
1 GGAGTTCGATCTTCATTTTCTACT
* *
34964368 GGAGTTGGATCTTCATTTTGTACT
1 GGAGTTCGATCTTCATTTTCTACT
34964392 AGTTCCACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.48
Consensus pattern (24 bp):
GGAGTTCGATCTTCATTTTCTACT
Found at i:34970556 original size:16 final size:17
Alignment explanation
Indices: 34970535--34970568 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34970525 TTAATTAAGT
*
34970535 AAATT-AAACTTGATTA
1 AAATTAAAACATGATTA
34970551 AAATTAAAACATGATTA
1 AAATTAAAACATGATTA
34970568 A
1 A
34970569 TTAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (17 bp):
AAATTAAAACATGATTA
Found at i:34973260 original size:5 final size:5
Alignment explanation
Indices: 34973244--34973296 Score: 54
Period size: 5 Copynumber: 10.8 Consensus size: 5
34973234 AGATTCTTAG
* * * * *
34973244 ATTAT AATAT ATCAT ATCAT ATAAT -TTAT ATTAT ATTAT ATTAT ATCAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
34973293 ATTA
1 ATTA
34973297 CATTGTATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
4 3 0.08
5 37 0.93
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (5 bp):
ATTAT
Found at i:34979047 original size:24 final size:24
Alignment explanation
Indices: 34979012--34979061 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
34979002 CACCATACAC
*
34979012 GGAGTTCGATCTTTATTTTCTACT
1 GGAGTTCGATCTTCATTTTCTACT
*
34979036 GGAGTT-GAATCTTCATTTTGTACT
1 GGAGTTCG-ATCTTCATTTTCTACT
34979060 GG
1 GG
34979062 TTCTACATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.46
Consensus pattern (24 bp):
GGAGTTCGATCTTCATTTTCTACT
Found at i:34979832 original size:27 final size:27
Alignment explanation
Indices: 34979794--34979852 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
34979784 TTAGTACAGT
34979794 CACTTAATCCCCCTCCAAGGGTGCCGC
1 CACTTAATCCCCCTCCAAGGGTGCCGC
* * * *
34979821 CACTTAGTCCCCCTTCAAGTGTGCTGC
1 CACTTAATCCCCCTCCAAGGGTGCCGC
34979848 CACTT
1 CACTT
34979853 GATATTCCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.41, G:0.17, T:0.25
Consensus pattern (27 bp):
CACTTAATCCCCCTCCAAGGGTGCCGC
Found at i:34982055 original size:30 final size:29
Alignment explanation
Indices: 34981960--34982076 Score: 105
Period size: 30 Copynumber: 3.9 Consensus size: 29
34981950 TTTGACCCTG
* **
34981960 AACTTTCCAAAATTA-CATTTTTACCCTTA
1 AACTTTCAAAAATTATCA-TTTTACCCCAA
* * *
34981989 AACTTCTCCAAACTTAT-ATTTTGACCCCCTA
1 AACTT-TCAAAAATTATCATTTT-A-CCCCAA
34982020 AACTTTCTAAAAATTA-CATTTCTACCCCAA
1 AACTTTC-AAAAATTATCATTT-TACCCCAA
34982050 AACTTTCAAAAATTATCATTTTACCCC
1 AACTTTCAAAAATTATCATTTTACCCC
34982077 CGGATGTCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
29 23 0.31
30 30 0.40
31 21 0.28
32 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.01, T:0.37
Consensus pattern (29 bp):
AACTTTCAAAAATTATCATTTTACCCCAA
Found at i:34982064 original size:29 final size:28
Alignment explanation
Indices: 34981896--34982076 Score: 123
Period size: 29 Copynumber: 6.1 Consensus size: 28
34981886 CCTTGAAGGT
* *
34981896 CCCTAAACTGTCCAAAAATTATATTTTA-
1 CCCTAAACT-TTCAAAAATTACATTTTAC
* * * *
34981924 ACCTCGAACTTCTCCAAAATTATATTTTTGA-
1 CCCT-AAACTT-TCAAAAATTACA-TTTT-AC
* *
34981955 CCCTGAACTTTCCAAAATTACATTTTTAC
1 CCCTAAACTTTCAAAAATTACA-TTTTAC
* * * *
34981984 CCTTAAACTTCTCCAAACTTATATTTTGACC
1 CCCTAAACTT-TCAAAAATTACATTTT-A-C
34982015 CCCTAAACTTTCTAAAAATTACATTTCTAC
1 CCCTAAACTTTC-AAAAATTACATTT-TAC
*
34982045 CCCAAAACTTTCAAAAATTATCATTTTAC
1 CCCTAAACTTTCAAAAATTA-CATTTTAC
34982074 CCC
1 CCC
34982077 CGGATGTCCA
Statistics
Matches: 127, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
28 5 0.04
29 56 0.44
30 40 0.31
31 25 0.20
32 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (28 bp):
CCCTAAACTTTCAAAAATTACATTTTAC
Found at i:34982123 original size:59 final size:57
Alignment explanation
Indices: 34982053--34982263 Score: 182
Period size: 59 Copynumber: 3.6 Consensus size: 57
34982043 ACCCCAAAAC
34982053 TTTCAAAAATTATCATTTTACCCCCGGATGTCCAAAAATTTCTTTTTTGATCCCGATTT
1 TTTCAAAAATTATCATTTTA-CCCCGGATGTCCAAAAATTTCTTTTTTGATCCCGA-TT
* * **
34982112 TTTCTAAAATTA-CTGTTTTACCCC-GAGTGTCCAAAAATTT-TATTTTTGA-CCCTGAAAC
1 TTTCAAAAATTATC-ATTTTACCCCGGA-TGTCCAAAAATTTCT-TTTTTGATCCC-G-ATT
* * * * **
34982170 TTTCAAAAATTATCATTTTATCCCTGGATGTCCGAAAATTCCGTTTTTGATCTTGATT
1 TTTCAAAAATTATCATTTTA-CCCCGGATGTCCAAAAATTTCTTTTTTGATCCCGATT
* *
34982228 TTTCTAAAAATTACCATTTT-TCCCGAGA-GTCCAAAA
1 TTTC-AAAAATTATCATTTTACCCCG-GATGTCCAAAA
34982264 TTACCATTTT
Statistics
Matches: 122, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
57 16 0.13
58 49 0.40
59 54 0.44
60 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (57 bp):
TTTCAAAAATTATCATTTTACCCCGGATGTCCAAAAATTTCTTTTTTGATCCCGATT
Found at i:34982179 original size:58 final size:59
Alignment explanation
Indices: 34982049--34982221 Score: 185
Period size: 58 Copynumber: 2.9 Consensus size: 59
34982039 TTCTACCCCA
34982049 AAACTTTCAAAAATTATCATTTTACCCCCGGATGTCCAAAAATTTCTTTTTTGATCCCG
1 AAACTTTCAAAAATTATCATTTTACCCCCGGATGTCCAAAAATTTCTTTTTTGATCCCG
*** * *
34982108 ATTTTTTCTAAAATTA-CTGTTTTA-CCCC-GAGTGTCCAAAAATTT-TATTTTTGA-CCCTG
1 AAACTTTCAAAAATTATC-ATTTTACCCCCGGA-TGTCCAAAAATTTCT-TTTTTGATCCC-G
* * * * *
34982166 AAACTTTCAAAAATTATCATTTTATCCCTGGATGTCCGAAAATTCCGTTTTTGATC
1 AAACTTTCAAAAATTATCATTTTACCCCCGGATGTCCAAAAATTTCTTTTTTGATC
34982222 TTGATTTTTC
Statistics
Matches: 91, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
57 6 0.07
58 43 0.47
59 39 0.43
60 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (59 bp):
AAACTTTCAAAAATTATCATTTTACCCCCGGATGTCCAAAAATTTCTTTTTTGATCCCG
Found at i:34982184 original size:117 final size:116
Alignment explanation
Indices: 34982049--34982263 Score: 306
Period size: 117 Copynumber: 1.8 Consensus size: 116
34982039 TTCTACCCCA
* *
34982049 AAACTTTCAAAAATTATCATTTTACCCCCGGATGTCCAAAAATTTCTTTTTTGATCCCGATTTTT
1 AAACTTTCAAAAATTATCATTTTACCCCCGGATGTCCAAAAATTCCGTTTTTGATCCCGA-TTTT
** *
34982114 TCT-AAAATTACTGTTTTACCCCGAGTGTCCAAAAATTTTATTTTTGACCCTG
65 TCTAAAAATTACCATTTT-CCCCGAGAGTCCAAAAATTTTATTTTTGACCCTG
* * * **
34982166 AAACTTTCAAAAATTATCATTTTATCCCTGGATGTCCGAAAATTCCGTTTTTGATCTTGATTTTT
1 AAACTTTCAAAAATTATCATTTTACCCCCGGATGTCCAAAAATTCCGTTTTTGATCCCGATTTTT
*
34982231 CTAAAAATTACCATTTTTCCCGAGAGTCCAAAA
66 CTAAAAATTACCATTTTCCCCGAGAGTCCAAAA
34982264 TTACCATTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
116 21 0.24
117 65 0.76
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (116 bp):
AAACTTTCAAAAATTATCATTTTACCCCCGGATGTCCAAAAATTCCGTTTTTGATCCCGATTTTT
CTAAAAATTACCATTTTCCCCGAGAGTCCAAAAATTTTATTTTTGACCCTG
Found at i:34982650 original size:97 final size:96
Alignment explanation
Indices: 34982508--34982797 Score: 424
Period size: 97 Copynumber: 3.0 Consensus size: 96
34982498 AAAACTTTAA
* * *
34982508 AATCGAGGCAATA-TTCTTTTAT-TTCGAGAGTC-AAAAATTTGTGCCTTAACTTACTAGGTTCA
1 AATCGAGGCAATATTTC-TTTATCTTC--GATTCTGAAAATTTGTGCCTTAACTTACTAGGTGCA
** * * *
34982570 ATTTTTCTTCAAATCGAAATAATCGAATATCCTT
63 ACCTTTCTTCAAATCGAGATAATCAAACATCCTT
34982604 AATCGAGGCAATATTTCTTTATCTTCGATTCTGAAAATCTTGTGCCTTAACTTACTAGGTGCAAC
1 AATCGAGGCAATATTTCTTTATCTTCGATTCTGAAAAT-TTGTGCCTTAACTTACTAGGTGCAAC
34982669 CTTTCTTCAAATCGAGATAATCAAACATCCTT
65 CTTTCTTCAAATCGAGATAATCAAACATCCTT
*
34982701 AATCGAGGCAATATTTCCTTATCTTCGATTCTGAAAATTTTGTGCCTTAACTTACTAGGTGCAAC
1 AATCGAGGCAATATTTCTTTATCTTCGATTCTGAAAA-TTTGTGCCTTAACTTACTAGGTGCAAC
*
34982766 CTTTCTTCAAATCGAGATAATTAAACATCCTT
65 CTTTCTTCAAATCGAGATAATCAAACATCCTT
34982798 TTCCAAAATT
Statistics
Matches: 179, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
95 4 0.02
96 23 0.13
97 151 0.84
98 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (96 bp):
AATCGAGGCAATATTTCTTTATCTTCGATTCTGAAAATTTGTGCCTTAACTTACTAGGTGCAACC
TTTCTTCAAATCGAGATAATCAAACATCCTT
Found at i:34985194 original size:54 final size:53
Alignment explanation
Indices: 34985095--34985206 Score: 174
Period size: 54 Copynumber: 2.1 Consensus size: 53
34985085 TTGTTTGCAT
*
34985095 ATAAAATATTTTTCGTAGTATTTTTATTATTTTATGGTGTTGTTTAGTG-GTAA
1 ATAAAATATTTTTCGTAATATTTTTATTATTTTATGGTGTTGTTTAGTGAG-AA
34985148 ATAAAATATTTTTCGTAAAATATTTTTATT-TTTTATGGTGTTGTTTAGTGAGAA
1 ATAAAATATTTTTCGT--AATATTTTTATTATTTTATGGTGTTGTTTAGTGAGAA
34985202 ATAAA
1 ATAAA
34985207 TTACCGAAAG
Statistics
Matches: 55, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
53 16 0.29
54 27 0.49
55 12 0.22
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (53 bp):
ATAAAATATTTTTCGTAATATTTTTATTATTTTATGGTGTTGTTTAGTGAGAA
Found at i:34985429 original size:22 final size:22
Alignment explanation
Indices: 34985388--34985429 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34985378 CGAAAAAACA
*
34985388 ATTTTTTATATTGTACTTTTAT
1 ATTTTTTATATTGTAATTTTAT
34985410 ATTTTTTACTATT-TAATTTT
1 ATTTTTTA-TATTGTAATTTT
34985430 TGAAATACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (22 bp):
ATTTTTTATATTGTAATTTTAT
Found at i:34991208 original size:67 final size:66
Alignment explanation
Indices: 34991100--34991269 Score: 274
Period size: 67 Copynumber: 2.6 Consensus size: 66
34991090 TATATATATA
*
34991100 TATTTATTTATATTCAT-AA-AAT-AATAAATAAATAATAAAACAAAATTAATTTTATTTTACAT
1 TATTTATTTATATTCATAAATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTACAT
34991162 T
66 T
*
34991163 TATTTATTTATATTCATACAATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTATA
1 TATTTATTTATATTCATA-AATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTACA
34991228 TT
65 TT
34991230 TATTTATTTATATTCATAAAAATAATAAATAAATAAATAA
1 TATTTATTTATATTCAT--AAATAATAAATAAATAAATAA
34991270 AAATAATAAG
Statistics
Matches: 99, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
63 17 0.17
65 2 0.02
66 3 0.03
67 56 0.57
68 20 0.20
69 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (66 bp):
TATTTATTTATATTCATAAATAATAAATAAATAAATAATAAAACAAAATTAATATTATTTTACAT
T
Found at i:34991864 original size:40 final size:39
Alignment explanation
Indices: 34991800--34993155 Score: 815
Period size: 40 Copynumber: 34.6 Consensus size: 39
34991790 ATAGTTTTAG
* * *
34991800 GGGTAAAAGATTGGATTG-CTTCAATCTGTCCCATGGTTG
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-CCCATGATTA
* * *
34991839 GGGTAAGAGATCGGATGGTCTTCAATCTGCCC-TCTAGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCAT-GA-TTA
* * **
34991879 GGGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-CCCATGATTA
* * *
34991918 GGGTAAGAGATCGGATGGTCTTCAATCTGCCC-TCTAGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCAT-GA-TTA
* * **
34991958 GGGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-CCCATGATTA
** * * ***
34991997 GGGTAAGTGATCGGATGGTCTTCAATTTGCTTTTTGATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGC-CCATGATTA
* *
34992037 GGGTAAAAGATTGGAT--TACTTCAATCTGCCTCACGATCA
1 GGGTAAAAGATTGGATGGT-CTTCAATCTGCC-CATGATTA
* * * *
34992076 GGGTAAAAGATTGGATGGTCTTTAATCTACCCTCTAATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-ATGATTA
* * **
34992116 GGATAAAAGATTGGATTG-CTTCAATCTGCCTCATGATCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCC-CATGATTA
* * *
34992155 GGGTAAGAGATTGGATGGTTTTTAATCTGTCCTC-TGATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-CC-CATGATTA
** *
34992195 ACGTAAAAGATCT-GATGGTCTTCAATCTGCCCTCTGATTA
1 GGGTAAAAGAT-TGGATGGTCTTCAATCTGCCC-ATGATTA
* *
34992235 GGGTAAAAGATTGGATGATCTTCAATCTGCCTCCT-AGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCC-CATGA-TTA
* * **
34992275 GAGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGATCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-CCCATGATTA
** * ** *
34992314 GGGTAAAAGATTAAATGAT-TTCAATCTGCCTTTTAATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCC-CATGATTA
* **
34992353 GGGTAAAAGATTGGACT-GT-TTTAATCTGCCCCATGATCG
1 GGGTAAAAGATTGGA-TGGTCTTCAATCTG-CCCATGATTA
** * * *
34992392 GGGTAAAAGATTAAATGGTCTTCAATTTACCCTCTGATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-ATGATTA
* * * **
34992432 GGGTAAAAGATTGAATTG-CTTCAATCTGCCCCATAATCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-CCCATGATTA
* * *
34992471 GGGTAAGAGATTGAAT--TACTTCAATCTGTCCTC-TGGTTA
1 GGGTAAAAGATTGGATGGT-CTTCAATCTG-CC-CATGATTA
* **
34992510 GGGTAAAAGATTGGACT-AT-TTCAATCTGCCCCATGATCG
1 GGGTAAAAGATTGGA-TGGTCTTCAATCTG-CCCATGATTA
* * *
34992549 GGGTAAAAGATTGGATGGTCTTTAATCTGCCCTCTAATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-ATGATTA
* * *
34992589 GGGTAAAAGATTGAATGATCTTCAATCTGTCTTC-TGATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-C-CCATGATTA
34992629 GGGTAAAAGATCT-GATGGTCTTCAATCTGCTCTC-T-AGTTA
1 GGGTAAAAGAT-TGGATGGTCTTCAATCTGC-C-CATGA-TTA
* * *
34992669 AGGTAAAAGATTGGATGTTCTTCAATCTGCCTTC-TGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCC--CATGATTA
* ** * **
34992709 GGGTAAAAGATTGGATTG-CTTCGGTCTGCCTCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCC-CATGATTA
* * * * * *
34992748 GGGTAAGAGATTGAAT-GACTTCAATTTGCCCTCTGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-ATGATTA
* * **
34992787 GGGTAAAAGATTGGACT-G-CTTCAATCTGTCCTATGGTCG
1 GGGTAAAAGATTGGA-TGGTCTTCAATCTG-CCCATGATTA
* * * *
34992826 GGGTAAGAGATTAGATGGTCTTCAATTTGCCCTCTGATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-ATGATTA
* *
34992866 GGGTAAAAGATTGAATGGTCTTCAATCTGTCCTC-TGATTC
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-CC-CATGATTA
*
34992906 GGGTAAAAGATCT-GATGGTCTTCAATCTGCCCTCTGATTA
1 GGGTAAAAGAT-TGGATGGTCTTCAATCTGCCC-ATGATTA
*
34992946 GGGTAAAAGATTGGATAGTCTTCAAT-T-----TG---A
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCATGATTA
* * * *
34992976 GGGTAAAAGATTGGATTG-CTTCAATTTGCCTCATGGTCA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCC-CATGATTA
* * * * *
34993015 GGGTAAGAGATTGAAT-GACTTCAATCTGCCCTCTGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-ATGATTA
* * * **
34993054 GGGTAAAAGATTGGACT-G-CTTTAATCTACCCCATGGTCG
1 GGGTAAAAGATTGGA-TGGTCTTCAATCT-GCCCATGATTA
* * *
34993093 GGGTAAGAGATTGGATGGTCTTCAATATGCCC-TCTAGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCAT-GA-TTA
*
34993133 GGGTAAAAGATTAGATGGTCTTC
1 GGGTAAAAGATTGGATGGTCTTC
34993156 GAAAAGATCT
Statistics
Matches: 1025, Mismatches: 207, Indels: 169
0.73 0.15 0.12
Matches are distributed among these distances:
29 7 0.01
30 19 0.02
33 2 0.00
36 2 0.00
38 19 0.02
39 469 0.46
40 490 0.48
41 15 0.01
42 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (39 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTGCCCATGATTA
Found at i:34991931 original size:79 final size:79
Alignment explanation
Indices: 34991800--34993144 Score: 1192
Period size: 79 Copynumber: 17.2 Consensus size: 79
34991790 ATAGTTTTAG
* * * * *
34991800 GGGTAAAAGATTGGATTGCTTCAATCTGTCCCATGGTTGGGGTAAGAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAAT
34991865 CTGCCCTCTAGTTA
66 CTGCCCTCTAGTTA
* * *
34991879 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAAT
34991944 CTGCCCTCTAGTTA
66 CTGCCCTCTAGTTA
* ** *
34991958 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGTGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAAT
* * * *
34992023 TTG-CTTTTTGATTA
66 CTGCCCTCTAG-TTA
* * * * *
34992037 GGGTAAAAGATTGGATTACTTCAATCTGCCTCACGATCAGGGTAAAAGATTGGATGGTCTTTAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAAT
* *
34992102 CTACCCTCTAATTA
66 CTGCCCTCTAGTTA
* * * * *
34992116 GGATAAAAGATTGGATTGCTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGGTTTTTAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAAT
*
34992181 CTGTCCTCT-GATTA
66 CTGCCCTCTAG-TTA
** * ** *
34992195 ACGTAAAAGATCT-GATGGTCTTCAATCTGCCCTC-TGATTAGGGTAAAAGATTGGATGATCTTC
1 GGGTAAAAGAT-TGGATTG-CTTCAATCTGCCC-CATGATCGGGGTAAAAGATTGGATGGTCTTC
34992258 AATCTG-CCTCCTAGTTA
63 AATCTGCCCT-CTAGTTA
* ** *
34992275 GAGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTAAATGAT-TTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAAT
* * *
34992339 CTGCCTTTTAATTA
66 CTGCCCTCTAGTTA
* * * **
34992353 GGGTAAAAGATTGGACTGTTTTAATCTGCCCCATGATCGGGGTAAAAGATTAAATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAAT
* *
34992418 TTACCCTCT-GATTA
66 CTGCCCTCTAG-TTA
* * * *
34992432 GGGTAAAAGATTGAATTGCTTCAATCTGCCCCATAATCGGGGTAAGAGATTGAAT--TACTTCAA
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGT-CTTCAA
* *
34992495 TCTGTCCTCTGGTTA
65 TCTGCCCTCTAGTTA
* ** *
34992510 GGGTAAAAGATTGGACTATTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTTAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAAT
*
34992575 CTGCCCTCTAATTA
66 CTGCCCTCTAGTTA
* ** **
34992589 GGGTAAAAGATT-GAATGATCTTCAATCTGTCTTC-TGATTAGGGTAAAAGATCT-GATGGTCTT
1 GGGTAAAAGATTGGATTG--CTTCAATCTG-CCCCATGATCGGGGTAAAAGAT-TGGATGGTCTT
*
34992651 CAATCTGCTCTCTAGTTA
62 CAATCTGCCCTCTAGTTA
* * * * ** * *
34992669 AGGTAAAAGATTGGATGTTCTTCAATCTGCCTTC-TGGTTAGGGTAAAAGATTGGATTG-CTTCG
1 GGGTAAAAGATTGGAT-TGCTTCAATCTGCC-CCATGATCGGGGTAAAAGATTGGATGGTCTTCA
* * **
34992732 GTCTG-CCTCATGGTCG
64 ATCTGCCCTC-TAGTTA
* * * * **
34992748 GGGTAAGAGATT-GAATGACTTCAATTTGCCCTC-TGGTTAGGGTAAAAGATTGGACT-G-CTTC
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATGATCGGGGTAAAAGATTGGA-TGGTCTTC
* * * **
34992809 AATCTGTCCTATGGTCG
63 AATCTGCCCTCTAGTTA
* * * * ** *
34992826 GGGTAAGAGATTAGATGGTCTTCAATTTGCCCTC-TGATTAGGGTAAAAGATTGAATGGTCTTCA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATGATCGGGGTAAAAGATTGGATGGTCTTCA
* *
34992890 ATCTGTCCTCT-GATTC
64 ATCTGCCCTCTAG-TTA
* ** *
34992906 GGGTAAAAGATCT-GATGGTCTTCAATCTGCCCTC-TGATTAGGGTAAAAGATTGGATAGTCTTC
1 GGGTAAAAGAT-TGGATTG-CTTCAATCTGCCC-CATGATCGGGGTAAAAGATTGGATGGTCTTC
34992969 AA--T----T-T-G--A
63 AATCTGCCCTCTAGTTA
* * * * * * *
34992976 GGGTAAAAGATTGGATTGCTTCAATTTGCCTCATGGTCAGGGTAAGAGATTGAAT-GACTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAAT
*
34993040 CTGCCCTCTGGTTA
66 CTGCCCTCTAGTTA
* * * * *
34993054 GGGTAAAAGATTGGACTGCTTTAATCTACCCCATGGTCGGGGTAAGAGATTGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAAT
*
34993119 ATGCCCTCTAGTTA
66 CTGCCCTCTAGTTA
34993133 GGGTAAAAGATT
1 GGGTAAAAGATT
34993145 AGATGGTCTT
Statistics
Matches: 1073, Mismatches: 145, Indels: 96
0.82 0.11 0.07
Matches are distributed among these distances:
68 8 0.01
69 30 0.03
70 16 0.01
73 2 0.00
74 2 0.00
75 1 0.00
76 1 0.00
77 2 0.00
78 255 0.24
79 517 0.48
80 230 0.21
81 8 0.01
82 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (79 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATGGTCTTCAAT
CTGCCCTCTAGTTA
Found at i:34992299 original size:277 final size:275
Alignment explanation
Indices: 34991839--34993248 Score: 1281
Period size: 277 Copynumber: 5.2 Consensus size: 275
34991829 CCCATGGTTG
* * *
34991839 GGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCT-AGTTAGGGTAAAAGATTGGATTGCTTCAA
1 GGGTAAAAGATTGGATTGTCTTCAATCTG-CCTCTGA-TTAGGGTAAAAGATTGGATTGCTTCAA
* * * *
34991903 TCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCT-AGTTAGGGTAAAAG
64 TCTGCCTCATGATCGGGGTAAGAGATTGAAT-GTCTTCAATCTGCCCTCTGA-TTAGGGTAAAAG
** * * **
34991967 ATTGGA-TTGCTTCAATCTGCCCC-ATGGTCGGGGTAAGTGATCGGATGGTCTTCAATTTGCTTT
127 ATTGGACTT-CTTCAATCTGCCCCTAT-GTCGGGGTAAAAGATTGGATGGTCTTCAATCTGCCCT
* * * *
34992030 TTGATTAGGGTAAAAGATTGGATTACTTCAATCTG-CCTCACGATCAGGGTAAAAGAT-TGGATG
190 CTGATTAGGGTAAAAGATTGAATGACTTCAATCTGTCCTC-TGATCAGGGTAAAAGATCT-GATG
* *
34992093 GTCTTTAATCTACCCTCTAATTA
253 GTCTTCAATCTGCCCTCTAATTA
* ** * * * *
34992116 GGATAAAAGATTGGATTG-CTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGGTTTTTAA
1 GGGTAAAAGATTGGATTGTCTTCAATCTGCCTC-TGATTAGGGTAAAAGATTGGATTG-CTTCAA
**** *
34992180 TCTGTCCTC-TGATTAACGTAAAAGATCTG-ATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAA
64 TCTG-CCTCATGATCGGGGTAAGAGAT-TGAAT-GTCTTCAATCTGCCCTCTGATTAGGGTAAAA
** * *
34992243 GATTGGA-TGATCTTCAATCTGCCTCCTA-GTTAGAGTAAAAGATTGGATTG-CTTCAATCTGCC
126 GATTGGACT--TCTTCAATCTGCC-CCTATGTCGGGGTAAAAGATTGGATGGTCTTCAATCTGCC
** * * * * *
34992305 C-CATGATCGGGGTAAAAGATTAAATGATTTCAATCTG-CCTTTTAATTAGGGTAAAAGAT-TGG
188 CTC-TGATTAGGGTAAAAGATTGAATGACTTCAATCTGTCC-TCTGATCAGGGTAAAAGATCT-G
* * **
34992367 ACT-GT-TTTAATCTGCCC-CATGATCG
250 A-TGGTCTTCAATCTGCCCTC-TAATTA
** * * * *
34992392 GGGTAAAAGATTAAATGGTCTTCAATTTACCCTCTGATTAGGGTAAAAGATTGAATTGCTTCAAT
1 GGGTAAAAGATTGGATTGTCTTCAATCT-GCCTCTGATTAGGGTAAAAGATTGGATTGCTTCAAT
* * * *
34992457 CTGCCCCATAATCGGGGTAAGAGATTGAAT-TACTTCAATCTGTCCTCTGGTTAGGGTAAAAGAT
65 CTGCCTCATGATCGGGGTAAGAGATTGAATGT-CTTCAATCTGCCCTCTGATTAGGGTAAAAGAT
*
34992521 TGGACTAT-TTCAATCTGCCCC-ATGATCGGGGTAAAAGATTGGATGGTCTTTAATCTGCCCTCT
129 TGGACT-TCTTCAATCTGCCCCTATG-TCGGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCT
* * *
34992584 AATTAGGGTAAAAGATTGAATGATCTTCAATCTGTCTTCTGATTAGGGTAAAAGATCTGATGGTC
192 GATTAGGGTAAAAGATTGAATGA-CTTCAATCTGTCCTCTGATCAGGGTAAAAGATCTGATGGTC
* *
34992649 TTCAATCTGCTCTCTAGTTA
256 TTCAATCTGCCCTCTAATTA
* * **
34992669 AGGTAAAAGATTGGA-TGTTCTTCAATCTGCCTTCTGGTTAGGGTAAAAGATTGGATTGCTTCGG
1 GGGTAAAAGATTGGATTG-TCTTCAATCTGCC-TCTGATTAGGGTAAAAGATTGGATTGCTTCAA
* * * *
34992733 TCTGCCTCATGGTCGGGGTAAGAGATTGAATGACTTCAATTTGCCCTCTGGTTAGGGTAAAAGAT
64 TCTGCCTCATGATCGGGGTAAGAGATTGAATGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGAT
* * * * *
34992798 TGGACTGCTTCAATCTG-TCCTATGGTCGGGGTAAGAGATTAGATGGTCTTCAATTTGCCCTCTG
129 TGGACTTCTTCAATCTGCCCCTAT-GTCGGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTG
*
34992862 ATTAGGGTAAAAGATTGAATGGTCTTCAATCTGTCCTCTGATTC-GGGTAAAAGATCTGATGGTC
193 ATTAGGGTAAAAGATTGAAT-GACTTCAATCTGTCCTCTGA-TCAGGGTAAAAGATCTGATGGTC
*
34992926 TTCAATCTGCCCTCTGATTA
256 TTCAATCTGCCCTCTAATTA
* *
34992946 GGGTAAAAGATTGGATAGTCTTCAA--T---T-TG---AGGGTAAAAGATTGGATTGCTTCAATT
1 GGGTAAAAGATTGGATTGTCTTCAATCTGCCTCTGATTAGGGTAAAAGATTGGATTGCTTCAATC
* * * *
34993002 TGCCTCATGGTCAGGGTAAGAGATTGAATGACTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTG
66 TGCCTCATGATCGGGGTAAGAGATTGAATGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTG
* * * * *
34993067 GACTGCTTTAATCTACCCC-ATGGTCGGGGTAAGAGATTGGATGGTCTTCAATATGCCCTCT-AG
131 GACTTCTTCAATCTGCCCCTAT-GTCGGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGA-
*
34993130 TTAGGGTAAAAGATT--A-G------A--TG--GTCT--TC---G-AAAAGATCTGATGGTCTTC
194 TTAGGGTAAAAGATTGAATGACTTCAATCTGTCCTCTGATCAGGGTAAAAGATCTGATGGTCTTC
* *
34993176 AATCTGCTCTCTGATTA
259 AATCTGCCCTCTAATTA
* * * *
34993193 GAGTAAAAGATTGAATGGTCTTTAATCTGTCCTCTGATTAGGGTAAAAGATTGGAT
1 GGGTAAAAGATTGGATTGTCTTCAATCTG-CCTCTGATTAGGGTAAAAGATTGGAT
34993249 GATTATAATT
Statistics
Matches: 951, Mismatches: 131, Indels: 122
0.79 0.11 0.10
Matches are distributed among these distances:
247 56 0.06
248 1 0.00
249 1 0.00
250 2 0.00
253 4 0.00
254 2 0.00
255 2 0.00
257 18 0.02
263 1 0.00
265 1 0.00
266 1 0.00
267 155 0.16
268 2 0.00
270 2 0.00
271 1 0.00
272 1 0.00
273 3 0.00
274 29 0.03
275 80 0.08
276 114 0.12
277 428 0.45
278 43 0.05
279 3 0.00
280 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (275 bp):
GGGTAAAAGATTGGATTGTCTTCAATCTGCCTCTGATTAGGGTAAAAGATTGGATTGCTTCAATC
TGCCTCATGATCGGGGTAAGAGATTGAATGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTG
GACTTCTTCAATCTGCCCCTATGTCGGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGATT
AGGGTAAAAGATTGAATGACTTCAATCTGTCCTCTGATCAGGGTAAAAGATCTGATGGTCTTCAA
TCTGCCCTCTAATTA
Found at i:34992981 original size:30 final size:29
Alignment explanation
Indices: 34992945--34993003 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
34992935 CCCTCTGATT
34992945 AGGGTAAAAGATTGGATAGTCTTCAATTTG
1 AGGGTAAAAGATTGGATAG-CTTCAATTTG
*
34992975 AGGGTAAAAGATTGGATTGCTTCAATTTG
1 AGGGTAAAAGATTGGATAGCTTCAATTTG
34993004 CCTCATGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (29 bp):
AGGGTAAAAGATTGGATAGCTTCAATTTG
Found at i:34993046 original size:108 final size:110
Alignment explanation
Indices: 34992865--34993068 Score: 283
Period size: 108 Copynumber: 1.9 Consensus size: 110
34992855 CCCTCTGATT
* *
34992865 AGGGTAAAAGATTGAATGGTCTTCAATCTGTCCTCTGATTCGGGTAAAAGATCTGATGGTCTTCA
1 AGGGTAAAAGATTGAATGGTCTTCAATCTGTCCTCTGAGTCGGGTAAAAGATCTGATGGACTTCA
34992930 ATCTGCCCTCTGATTAGGGTAAAAGATTGGATAGTCTTCAATTTG
66 ATCTGCCCTCTGATTAGGGTAAAAGATTGGATAGTCTTCAATTTG
* * * *
34992975 AGGGTAAAAGATTGGATTG-CTTCAATTTG-CCTCATG-GTCAGGGTAAGAGAT-TGAAT-GACT
1 AGGGTAAAAGATTGAATGGTCTTCAATCTGTCCTC-TGAGTC-GGGTAAAAGATCTG-ATGGACT
*
34993035 TCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGA
63 TCAATCTGCCCTCTGATTAGGGTAAAAGATTGGA
34993069 CTGCTTTAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
108 44 0.52
109 23 0.27
110 17 0.20
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (110 bp):
AGGGTAAAAGATTGAATGGTCTTCAATCTGTCCTCTGAGTCGGGTAAAAGATCTGATGGACTTCA
ATCTGCCCTCTGATTAGGGTAAAAGATTGGATAGTCTTCAATTTG
Found at i:34993104 original size:78 final size:79
Alignment explanation
Indices: 34992975--34993144 Score: 243
Period size: 78 Copynumber: 2.2 Consensus size: 79
34992965 CTTCAATTTG
* * * *
34992975 AGGGTAAAAGATTGGATTGCTTCAATTTGCCTCATGGTCAGGGTAAGAGATTGAAT-GACTTCAA
1 AGGGTAAAAGATTGGACTGCTTCAATCTACCCCATGGTCAGGGTAAGAGATTGAATGGACTTCAA
* *
34993039 TCTGCCCTCTGGTT
66 TATGCCCTCTAGTT
* * * *
34993053 AGGGTAAAAGATTGGACTGCTTTAATCTACCCCATGGTCGGGGTAAGAGATTGGATGGTCTTCAA
1 AGGGTAAAAGATTGGACTGCTTCAATCTACCCCATGGTCAGGGTAAGAGATTGAATGGACTTCAA
34993118 TATGCCCTCTAGTT
66 TATGCCCTCTAGTT
34993132 AGGGTAAAAGATT
1 AGGGTAAAAGATT
34993145 AGATGGTCTT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 49 0.60
79 32 0.40
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (79 bp):
AGGGTAAAAGATTGGACTGCTTCAATCTACCCCATGGTCAGGGTAAGAGATTGAATGGACTTCAA
TATGCCCTCTAGTT
Found at i:34993162 original size:20 final size:20
Alignment explanation
Indices: 34993137--34993175 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34993127 TAGTTAGGGT
34993137 AAAAGAT-TAGATGGTCTTCG
1 AAAAGATCT-GATGGTCTTCG
34993157 AAAAGATCTGATGGTCTTC
1 AAAAGATCTGATGGTCTTC
34993176 AATCTGCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (20 bp):
AAAAGATCTGATGGTCTTCG
Found at i:34993212 original size:40 final size:39
Alignment explanation
Indices: 34993157--34993245 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 39
34993147 ATGGTCTTCG
34993157 AAAAGATCTGATGGTCTTCAATCTG-CTCTCTGATTAGAGT
1 AAAAGAT-TGATGGTCTTCAATCTGTC-CTCTGATTAGAGT
* *
34993197 AAAAGATTGAATGGTCTTTAATCTGTCCTCTGATTAGGGT
1 AAAAGATTG-ATGGTCTTCAATCTGTCCTCTGATTAGAGT
34993237 AAAAGATTG
1 AAAAGATTG
34993246 GATGATTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 2 0.04
40 42 0.93
41 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35
Consensus pattern (39 bp):
AAAAGATTGATGGTCTTCAATCTGTCCTCTGATTAGAGT
Found at i:34993629 original size:49 final size:49
Alignment explanation
Indices: 34993547--34993704 Score: 145
Period size: 49 Copynumber: 3.2 Consensus size: 49
34993537 CGGCCCCAAT
* * * * *
34993547 CTTTCCCTTCACATCTCTATGGTATAAGGTTCACCATTATGACTTCAAC
1 CTTTCCCTTCATATCTCTAGGGTACAAGATTCACCATTACGACTTCAAC
* * * * **
34993596 CTTTCCCTCCATAACTCTAGGGTACAAGATTCACCGTTGCGGTTTCAAC
1 CTTTCCCTTCATATCTCTAGGGTACAAGATTCACCATTACGACTTCAAC
* ** ** * * *
34993645 CTTTCTCTTCATATCTCTAGGGTATTAGATTTGCCATTGCGGCTTCAAT
1 CTTTCCCTTCATATCTCTAGGGTACAAGATTCACCATTACGACTTCAAC
34993694 CTTTCCCTTCA
1 CTTTCCCTTCA
34993705 AACCTATAGA
Statistics
Matches: 87, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
49 87 1.00
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.37
Consensus pattern (49 bp):
CTTTCCCTTCATATCTCTAGGGTACAAGATTCACCATTACGACTTCAAC
Found at i:34994610 original size:17 final size:17
Alignment explanation
Indices: 34994584--34994649 Score: 64
Period size: 17 Copynumber: 3.7 Consensus size: 17
34994574 CGACCTCTCC
34994584 TTTTTT-CTTTTCTTCT
1 TTTTTTCCTTTTCTTCT
34994600 TTTTTTCCTTTTCTTTTTCT
1 TTTTTTCCTTTTC---TTCT
*
34994620 CTTTTTCTCTTTT-TTCCT
1 TTTTTTC-CTTTTCTT-CT
34994638 TTTTTTCCTTTT
1 TTTTTTCCTTTT
34994650 TTAATTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
16 6 0.14
17 13 0.31
18 8 0.19
20 10 0.24
21 5 0.12
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTCCTTTTCTTCT
Found at i:34994613 original size:14 final size:14
Alignment explanation
Indices: 34994596--34994640 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
34994586 TTTTCTTTTC
34994596 TTCTTTTTTTCCTT
1 TTCTTTTTTTCCTT
* *
34994610 TTCTTTTTCTCTTT
1 TTCTTTTTTTCCTT
34994624 TTCTCTTTTTTCCTT
1 TTCT-TTTTTTCCTT
34994639 TT
1 TT
34994641 TTTCCTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTCTTTTTTTCCTT
Found at i:34994616 original size:29 final size:29
Alignment explanation
Indices: 34994585--34994640 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
34994575 GACCTCTCCT
34994585 TTTTTCT-TTTCTTCT-TTTTTTCCTTTTC
1 TTTTTCTCTTT-TTCTCTTTTTTCCTTTTC
34994613 TTTTTCTCTTTTTCTCTTTTTTCCTTTT
1 TTTTTCTCTTTTTCTCTTTTTTCCTTTT
34994641 TTTCCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTTCTCTTTTTCTCTTTTTTCCTTTTC
Found at i:34994633 original size:22 final size:22
Alignment explanation
Indices: 34994585--34994633 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
34994575 GACCTCTCCT
*
34994585 TTTTTCTTTTCTTCTTTTTTTC
1 TTTTTCTTTTCTTCTTTTTCTC
*
34994607 CTTTTCTTTT-TCTCTTTTTCTC
1 TTTTTCTTTTCT-TCTTTTTCTC
34994629 TTTTT
1 TTTTT
34994634 TCCTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTCTTTTCTTCTTTTTCTC
Found at i:34994639 original size:8 final size:8
Alignment explanation
Indices: 34994581--34994651 Score: 55
Period size: 8 Copynumber: 9.1 Consensus size: 8
34994571 CCTCGACCTC
34994581 TCCTTTTT
1 TCCTTTTT
34994589 T-CTTTTCT
1 TCCTTTT-T
*
34994597 TCTTTTTT
1 TCCTTTTT
34994605 TCC--TTT
1 TCCTTTTT
34994611 T-C-TTTT
1 TCCTTTTT
34994617 T-CTCTTTT
1 TCCT-TTTT
34994625 TCTCTTTTT
1 TC-CTTTTT
34994634 TCCTTTTTT
1 TCC-TTTTT
34994643 TCCTTTTT
1 TCCTTTTT
34994651 T
1 T
34994652 AATTTTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
5 1 0.02
6 9 0.17
7 5 0.09
8 18 0.34
9 18 0.34
10 2 0.04
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
TCCTTTTT
Found at i:34994657 original size:17 final size:18
Alignment explanation
Indices: 34994621--34994660 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
34994611 TCTTTTTCTC
**
34994621 TTTTTCTCTTTTTTCCTT
1 TTTTTCTCTTTTTTAATT
34994639 TTTTTC-CTTTTTTAATT
1 TTTTTCTCTTTTTTAATT
34994656 TTTTT
1 TTTTT
34994661 TATTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCTCTTTTTTAATT
Found at i:34999369 original size:14 final size:13
Alignment explanation
Indices: 34999329--34999371 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
34999319 ATGTGGGTCG
* *
34999329 AAAAAAGTTATAT
1 AAAAAATTTATAA
*
34999342 AAGAAATTTATAA
1 AAAAAATTTATAA
34999355 AAAAAATTATATAA
1 AAAAAATT-TATAA
34999369 AAA
1 AAA
34999372 TTAAATGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 17 0.68
14 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (13 bp):
AAAAAATTTATAA
Found at i:35003990 original size:57 final size:58
Alignment explanation
Indices: 35003889--35004016 Score: 188
Period size: 57 Copynumber: 2.2 Consensus size: 58
35003879 TTTTAATAAG
*
35003889 ATTATTATTTAAATATAATTTAATAAAAATAATAAATAATTTAAT-AATATTTTAACATA
1 ATTATTA-TTAAATAAAATTTAATAAAAATAATAAATAATTTAATAAAT-TTTTAACATA
* * *
35003948 TTTATTATTAAATAAAATTTAAT-AAAATAATATATAATTTAATAAATTTTTAATATA
1 ATTATTATTAAATAAAATTTAATAAAAATAATAAATAATTTAATAAATTTTTAACATA
35004005 ATTATTATTAAA
1 ATTATTATTAAA
35004017 ATACGAATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
57 39 0.62
58 18 0.29
59 6 0.10
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (58 bp):
ATTATTATTAAATAAAATTTAATAAAAATAATAAATAATTTAATAAATTTTTAACATA
Found at i:35006458 original size:17 final size:17
Alignment explanation
Indices: 35006438--35006470 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35006428 TTTAAGGACT
35006438 TTTTAATTTT-GTTTAAG
1 TTTT-ATTTTAGTTTAAG
35006455 TTTTATTTTAGTTTAA
1 TTTTATTTTAGTTTAA
35006471 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAG
Found at i:35006809 original size:52 final size:51
Alignment explanation
Indices: 35006665--35006818 Score: 140
Period size: 48 Copynumber: 3.1 Consensus size: 51
35006655 TGACATCCAT
* * *
35006665 TAACTCTCATGATCAGTT-AAGTTTGCATCATAAAT-AATGACATGCATTAAG
1 TAACTCACATG-TTAGTTAAAGTTTGCATCATAAATCAA-GTCATGCATTAAG
* * * *
35006716 TAACTTACA--TTAGTTAAA-TATGCATCATAAATCCTA-TCATGCATTATG
1 TAACTCACATGTTAGTTAAAGTTTGCATCATAAAT-CAAGTCATGCATTAAG
* * *
35006764 TAACTCCCATGTTAGTTAAAGTTTTCATCATTAAATCAAGTCATGCATTTAG
1 TAACTCACATGTTAGTTAAAGTTTGCATCA-TAAATCAAGTCATGCATTAAG
35006816 TAA
1 TAA
35006819 TCCATTAGTT
Statistics
Matches: 81, Mismatches: 14, Indels: 15
0.74 0.13 0.14
Matches are distributed among these distances:
48 35 0.43
49 2 0.02
50 10 0.12
51 16 0.20
52 18 0.22
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (51 bp):
TAACTCACATGTTAGTTAAAGTTTGCATCATAAATCAAGTCATGCATTAAG
Found at i:35011810 original size:21 final size:20
Alignment explanation
Indices: 35011785--35011823 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
35011775 CTCAAAATCA
*
35011785 TAAACCTCAAACCCTAAACAT
1 TAAACCCCAAA-CCTAAACAT
35011806 TAAACCCCAAACCTAAAC
1 TAAACCCCAAACCTAAAC
35011824 TCTGAATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (20 bp):
TAAACCCCAAACCTAAACAT
Found at i:35012891 original size:24 final size:23
Alignment explanation
Indices: 35012856--35012905 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
35012846 ATTTATTTTA
*
35012856 AAATTATAAAAATTATAAAGATAT
1 AAATTATAAAAATAAT-AAGATAT
*
35012880 AAATTATTAAAATAATAAGATAT
1 AAATTATAAAAATAATAAGATAT
35012903 AAA
1 AAA
35012906 AATAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
AAATTATAAAAATAATAAGATAT
Found at i:35013288 original size:5 final size:5
Alignment explanation
Indices: 35013272--35013305 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
35013262 TTTTTATATA
* *
35013272 ATAAT GTAAT ATGAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
35013306 ACTATATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:35013296 original size:15 final size:15
Alignment explanation
Indices: 35013272--35013317 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
35013262 TTTTTATATA
*
35013272 ATAATGTAATATGAT
1 ATAATATAATATGAT
*
35013287 ATAATATAATATAAT
1 ATAATATAATATGAT
35013302 ATAA-ACT-ATATGAT
1 ATAATA-TAATATGAT
35013316 AT
1 AT
35013318 GCTATGATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.33
15 18 0.67
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (15 bp):
ATAATATAATATGAT
Found at i:35013503 original size:26 final size:25
Alignment explanation
Indices: 35013465--35013517 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
35013455 TATTATTTTA
* *
35013465 ATTTTGATTATTTGATATTTAATAAT
1 ATTTTAATCATTTGATA-TTAATAAT
*
35013491 ATTTTAATCATTTGATATTAGTAAT
1 ATTTTAATCATTTGATATTAATAAT
35013516 AT
1 AT
35013518 CTTTTATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (25 bp):
ATTTTAATCATTTGATATTAATAAT
Found at i:35013614 original size:97 final size:96
Alignment explanation
Indices: 35013479--35013671 Score: 262
Period size: 95 Copynumber: 2.0 Consensus size: 96
35013469 TGATTATTTG
** *
35013479 ATATTTAATAATATTTTAATCATTTGATATTAGTAATATCTTTTATTGTGAAGTTTTGAATGAAG
1 ATATTTAATAATATTTTAATCATTTGATATTAACAATATCTTTTATTGTGAAG--TTGAATGAAA
*
35013544 GAACATGAGTCAAAATGCAATTAATTGCATTAT
64 GAACATGAATCAAAATGCAATTAATTGCATTAT
* * * * * *
35013577 ATATTTAATGATATTTT-TTTATTTGATATTAACAATATTTTTTGTTGTGAAGTTGATTGAAAGA
1 ATATTTAATAATATTTTAATCATTTGATATTAACAATATCTTTTATTGTGAAGTTGAATGAAAGA
*
35013641 ATATGAATCAAAATGCAATTAATTGCATTAT
66 ACATGAATCAAAATGCAATTAATTGCATTAT
35013672 TAAACAACCT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
95 39 0.46
97 29 0.35
98 16 0.19
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (96 bp):
ATATTTAATAATATTTTAATCATTTGATATTAACAATATCTTTTATTGTGAAGTTGAATGAAAGA
ACATGAATCAAAATGCAATTAATTGCATTAT
Found at i:35014043 original size:24 final size:22
Alignment explanation
Indices: 35014016--35014079 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 22
35014006 TCATTAACAT
35014016 TGTTCGTGAACATGTTCAATTATA
1 TGTT-GTGAACATGTTCAATTA-A
* * * *
35014040 TGTTAATGAGCATGTTTATTTAA
1 TGTT-GTGAACATGTTCAATTAA
35014063 TGCTTGTGAACATGTTC
1 TG-TTGTGAACATGTTC
35014080 GTGAATATTA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.44
Consensus pattern (22 bp):
TGTTGTGAACATGTTCAATTAA
Found at i:35015737 original size:30 final size:30
Alignment explanation
Indices: 35015693--35015773 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
35015683 AAATTTAAAA
*
35015693 TTAATAAA-AATAAAATTATACTTTAACCCT
1 TTAA-AAATAATAAAATTATAATTTAACCCT
*
35015723 TTAAAAATAATAAAAATT-TAATTTAATCCT
1 TTAAAAATAAT-AAAATTATAATTTAACCCT
* *
35015753 TTAAAAATTATAAAAATATAA
1 TTAAAAATAATAAAATTATAA
35015774 AAAAATAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
29 8 0.18
30 30 0.68
31 6 0.14
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (30 bp):
TTAAAAATAATAAAATTATAATTTAACCCT
Found at i:35026931 original size:11 final size:11
Alignment explanation
Indices: 35026915--35026943 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
35026905 ATGAAACATC
35026915 AAACTAAAATA
1 AAACTAAAATA
35026926 AAACTAAAATA
1 AAACTAAAATA
35026937 AAA-TAAA
1 AAACTAAA
35026944 TAAGTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (11 bp):
AAACTAAAATA
Found at i:35036160 original size:25 final size:25
Alignment explanation
Indices: 35036126--35036173 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
35036116 ATTTTGTCGG
*
35036126 TGTCTGAGGGTTTAAGTGTACATTA
1 TGTCCGAGGGTTTAAGTGTACATTA
*
35036151 TGTCCGAGGGTTTAGGTGTACAT
1 TGTCCGAGGGTTTAAGTGTACAT
35036174 AATAGGTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.21, C:0.10, G:0.31, T:0.38
Consensus pattern (25 bp):
TGTCCGAGGGTTTAAGTGTACATTA
Found at i:35038492 original size:13 final size:13
Alignment explanation
Indices: 35038474--35038500 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35038464 AAAAATCTAG
35038474 AGAAATGATGAAA
1 AGAAATGATGAAA
35038487 AGAAATGATGAAA
1 AGAAATGATGAAA
35038500 A
1 A
35038501 AGCTATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (13 bp):
AGAAATGATGAAA
Found at i:35040034 original size:6 final size:6
Alignment explanation
Indices: 35040023--35040061 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
35040013 TGATCAAAAT
* * *
35040023 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
35040062 TATGAATTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:35040056 original size:18 final size:16
Alignment explanation
Indices: 35040020--35040073 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 16
35040010 TTGTGATCAA
35040020 AATTGAAAGTGAAA-G
1 AATTGAAAGTGAAATG
35040035 ---TGAAAGTGAAATTGG
1 AATTGAAAGTGAAA-T-G
*
35040050 AATTGAAAGTGATATG
1 AATTGAAAGTGAAATG
35040066 AATTGAAA
1 AATTGAAA
35040074 ATTGAAAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
12 11 0.34
15 1 0.03
16 9 0.28
17 1 0.03
18 10 0.31
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (16 bp):
AATTGAAAGTGAAATG
Found at i:35040070 original size:16 final size:18
Alignment explanation
Indices: 35040035--35040073 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
35040025 AAAGTGAAAG
35040035 TGAAAGTGAAATTGGAAT
1 TGAAAGTGAAATTGGAAT
*
35040053 TGAAAGTGATA-T-GAAT
1 TGAAAGTGAAATTGGAAT
35040069 TGAAA
1 TGAAA
35040074 ATTGAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 1 0.05
18 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (18 bp):
TGAAAGTGAAATTGGAAT
Found at i:35045286 original size:6 final size:6
Alignment explanation
Indices: 35045266--35045355 Score: 82
Period size: 6 Copynumber: 15.8 Consensus size: 6
35045256 ACCAAACCAT
* * * *
35045266 TTTAAA TTT-AT TTTAAA TTTAAA TCT-AT TTTAAA TTTAAG TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
35045310 -TTAAA TTTAAA TTTAGA TTTAAT TTTAAA TTTAAA ATTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
35045356 TCAATGTCCA
Statistics
Matches: 65, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
3 2 0.03
5 8 0.12
6 55 0.85
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:35045288 original size:17 final size:17
Alignment explanation
Indices: 35045266--35045342 Score: 95
Period size: 17 Copynumber: 4.6 Consensus size: 17
35045256 ACCAAACCAT
35045266 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
35045283 TTTAAATCTATTTTAAA
1 TTTAAATTTATTTTAAA
*
35045300 TTTAAGTTTA--TTAAA
1 TTTAAATTTATTTTAAA
* *
35045315 TTTAAATTTAGATTTAAT
1 TTTAAATTTA-TTTTAAA
35045333 TTTAAATTTA
1 TTTAAATTTA
35045343 AAATTAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.27
17 24 0.46
18 14 0.27
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:35045315 original size:15 final size:15
Alignment explanation
Indices: 35045266--35045354 Score: 67
Period size: 17 Copynumber: 5.7 Consensus size: 15
35045256 ACCAAACCAT
35045266 TTTAAATTTATTTTAAA
1 TTTAAATTTA--TTAAA
*
35045283 TTTAAATCTATTTTAAA
1 TTTAAAT-T-TATTAAA
*
35045300 TTTAAGTTTATTAAA
1 TTTAAATTTATTAAA
*
35045315 TTTAAATTTAGATTTAAT
1 TTTAAATTT--A-TTAAA
35045333 TTTAAATTTA--AAA
1 TTTAAATTTATTAAA
35045346 -TTAAATTTA
1 TTTAAATTTA
35045355 ATCAATGTCC
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
12 9 0.15
13 2 0.03
15 14 0.23
16 2 0.03
17 19 0.31
18 14 0.23
19 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (15 bp):
TTTAAATTTATTAAA
Found at i:35045334 original size:32 final size:33
Alignment explanation
Indices: 35045264--35045356 Score: 97
Period size: 32 Copynumber: 2.9 Consensus size: 33
35045254 CAACCAAACC
* *
35045264 ATTTTAAATTTATTTTAAATTTAAATCTATTTTAA
1 ATTTTAAATTTA--TTAAATTTAAATTTAATTTAA
*
35045299 A-TTTAAGTTTATTAAATTTAAATTTAGATTT-A
1 ATTTTAAATTTATTAAATTTAAATTTA-ATTTAA
35045331 ATTTTAAATTTA--AAA-TTAAATTTAAT
1 ATTTTAAATTTATTAAATTTAAATTTAAT
35045357 CAATGTCCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
29 2 0.04
30 9 0.17
31 3 0.06
32 16 0.31
33 12 0.23
34 9 0.17
35 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (33 bp):
ATTTTAAATTTATTAAATTTAAATTTAATTTAA
Found at i:35045564 original size:16 final size:18
Alignment explanation
Indices: 35045526--35045565 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
35045516 ACAGACTCCA
*
35045526 CTTCAGCCATCAGCTCAC
1 CTTCTGCCATCAGCTCAC
35045544 C-TCTGCCA-CAGC-CAC
1 CTTCTGCCATCAGCTCAC
35045559 CTTCTGC
1 CTTCTGC
35045566 AACGCCGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 6 0.30
18 1 0.05
ACGTcount: A:0.17, C:0.47, G:0.12, T:0.23
Consensus pattern (18 bp):
CTTCTGCCATCAGCTCAC
Found at i:35046069 original size:29 final size:30
Alignment explanation
Indices: 35046022--35046097 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 30
35046012 CTTTATTAAT
* * * *
35046022 ATTAATAATAAATACCAGTA-ATGAATGAC
1 ATTAATAATTATTAACAGTACATGAATAAC
* *
35046051 ATTAATAATTATTAACAGTAGCATTAATAAT
1 ATTAATAATTATTAACAGTA-CATGAATAAC
35046082 ATTAATAATATATTAA
1 ATTAATAAT-TATTAA
35046098 TATTAATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.45
31 15 0.39
32 6 0.16
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (30 bp):
ATTAATAATTATTAACAGTACATGAATAAC
Found at i:35046087 original size:9 final size:9
Alignment explanation
Indices: 35046073--35046108 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
35046063 TAACAGTAGC
35046073 ATTAATAAT
1 ATTAATAAT
35046082 ATTAATAAT
1 ATTAATAAT
*
35046091 A-TATTAAT
1 ATTAATAAT
35046099 ATTAATAAT
1 ATTAATAAT
35046108 A
1 A
35046109 AAAAGAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTAATAAT
Found at i:35047164 original size:30 final size:30
Alignment explanation
Indices: 35047137--35047380 Score: 199
Period size: 30 Copynumber: 8.2 Consensus size: 30
35047127 CCAAAAATGG
*
35047137 TATTTTGACCCCAAAACTTTTTGAAAATTA
1 TATTTTAACCCCAAAACTTTTTGAAAATTA
* * **
35047167 CATTTTAACCCCTAAACTTTTCCAAAATTA
1 TATTTTAACCCCAAAACTTTTTGAAAATTA
*
35047197 TATTTTAACCCTAAAACTTTTTGAAAATTA
1 TATTTTAACCCCAAAACTTTTTGAAAATTA
* * **
35047227 CATTTTGACCCCTGAACTTCTTT-AAAATTA
1 TATTTTAACCCCAAAACTT-TTTGAAAATTA
* * ** *
35047257 TATTTCAACCTCAAAAC-TTTCAAAAAATA
1 TATTTTAACCCCAAAACTTTTTGAAAATTA
* * * *
35047286 CATTTTAACCTCTAAACTTCTCT-AAAATTA
1 TATTTTAACCCCAAAACTT-TTTGAAAATTA
**
35047316 TATTTTGGCCCCAAAACTTTTTGAAAATTA
1 TATTTTAACCCCAAAACTTTTTGAAAATTA
* * * * * *
35047346 CATTTTTACCCC-TAAGTTTTTCAAAATTC
1 TATTTTAACCCCAAAACTTTTTGAAAATTA
35047375 TATTTT
1 TATTTT
35047381 TGCCCTCGAT
Statistics
Matches: 166, Mismatches: 43, Indels: 11
0.75 0.20 0.05
Matches are distributed among these distances:
28 2 0.01
29 41 0.25
30 119 0.72
31 4 0.02
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.41
Consensus pattern (30 bp):
TATTTTAACCCCAAAACTTTTTGAAAATTA
Found at i:35047342 original size:119 final size:118
Alignment explanation
Indices: 35047160--35047379 Score: 325
Period size: 119 Copynumber: 1.9 Consensus size: 118
35047150 AAACTTTTTG
* * *
35047160 AAAATTACATTTTAACCCCTAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTTTGAAAAT
1 AAAAATACATTTTAACCCCTAAACTTCTCCAAAATTATATTTTAACCCCAAAACTTTTTGAAAAT
35047225 TACATTTTGACCCCTGAACTTCTTT-AAAATTATATTTCAACCTCAAAACTTTCA
66 TACATTTTGACCCCT-AACTT-TTTCAAAATTATATTTCAACCTCAAAACTTTCA
* * **
35047279 AAAAATACATTTTAACCTCTAAACTTCTCTAAAATTATATTTTGGCCCCAAAACTTTTTGAAAAT
1 AAAAATACATTTTAACCCCTAAACTTCTCCAAAATTATATTTTAACCCCAAAACTTTTTGAAAAT
* * *
35047344 TACATTTTTACCCCTAAGTTTTTCAAAATTCTATTT
66 TACATTTTGACCCCTAACTTTTTCAAAATTATATTT
35047380 TTGCCCTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
117 3 0.03
118 15 0.17
119 72 0.80
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (118 bp):
AAAAATACATTTTAACCCCTAAACTTCTCCAAAATTATATTTTAACCCCAAAACTTTTTGAAAAT
TACATTTTGACCCCTAACTTTTTCAAAATTATATTTCAACCTCAAAACTTTCA
Found at i:35047372 original size:59 final size:60
Alignment explanation
Indices: 35047137--35047380 Score: 289
Period size: 60 Copynumber: 4.1 Consensus size: 60
35047127 CCAAAAATGG
* *
35047137 TATTTTGACCCCAAAACTTTTTGAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTA
1 TATTTTAACCCCAAAACTTTTTGAAAATTACATTTTAACCCCTAAACTTTTTCAAAATTA
* * *
35047197 TATTTTAACCCTAAAACTTTTTGAAAATTACATTTTGACCCCTGAACTTCTTT-AAAATTA
1 TATTTTAACCCCAAAACTTTTTGAAAATTACATTTTAACCCCTAAACTT-TTTCAAAATTA
* * ** * * *
35047257 TATTTCAACCTCAAAAC-TTTCAAAAAATACATTTTAACCTCTAAAC-TTCTCTAAAATTA
1 TATTTTAACCCCAAAACTTTTTGAAAATTACATTTTAACCCCTAAACTTTTTC-AAAATTA
** * * *
35047316 TATTTTGGCCCCAAAACTTTTTGAAAATTACATTTTTACCCCT-AAGTTTTTCAAAATTC
1 TATTTTAACCCCAAAACTTTTTGAAAATTACATTTTAACCCCTAAACTTTTTCAAAATTA
35047375 TATTTT
1 TATTTT
35047381 TGCCCTCGAT
Statistics
Matches: 152, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
57 2 0.01
58 1 0.01
59 57 0.38
60 90 0.59
61 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.41
Consensus pattern (60 bp):
TATTTTAACCCCAAAACTTTTTGAAAATTACATTTTAACCCCTAAACTTTTTCAAAATTA
Found at i:35047459 original size:29 final size:28
Alignment explanation
Indices: 35047427--35047528 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 28
35047417 CAAACTTTCT
*
35047427 AAAATTCCATTTTAAATCCCGATTTCACC
1 AAAATTCCATTTTAAA-CCCAATTTCACC
* ** **
35047456 AAAATTATCATTTTACCCCCAAACT-ATCC
1 AAAATT-CCATTTTAAACCCAATTTCA-CC
35047485 AAAATTCCATTTTAAACTCCAATTTCACC
1 AAAATTCCATTTTAAAC-CCAATTTCACC
35047514 AAAAATTTCCATTTT
1 -AAAA-TTCCATTTT
35047529 TACCCCTAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
28 9 0.16
29 26 0.46
30 12 0.21
31 9 0.16
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.35
Consensus pattern (28 bp):
AAAATTCCATTTTAAACCCAATTTCACC
Found at i:35047475 original size:58 final size:57
Alignment explanation
Indices: 35047387--35047593 Score: 220
Period size: 58 Copynumber: 3.5 Consensus size: 57
35047377 TTTTTGCCCT
* * *
35047387 CGATTTTACCCAAAATTATCGTTTTACCCCCAAACTTTCTAAAATTCCATTTTAAATCC
1 CGATTTCA-CCAAAATTATCATTTTACCCCCAAACTATCTAAAATTCCATTTTAAA-CC
*
35047446 CGATTTCACCAAAATTATCATTTTACCCCCAAACTATCCAAAATTCCATTTTAAACTC
1 CGATTTCACCAAAATTATCATTTTACCCCCAAACTATCTAAAATTCCATTTTAAAC-C
* * * * * *
35047504 CAATTTCACCAAAAATT-TCCATTTTTACCCCTAAACTCTCTAAAATTTCATTTTGACCC
1 CGATTTCACC-AAAATTAT-CA-TTTTACCCCCAAACTATCTAAAATTCCATTTTAAACC
* *
35047563 CGATTTCACAAAAAATTA-CTATTTTGCCCCC
1 CGATTTCAC-CAAAATTATC-ATTTTACCCCC
35047594 GGGTATCCAA
Statistics
Matches: 126, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
57 1 0.01
58 64 0.51
59 31 0.25
60 30 0.24
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (57 bp):
CGATTTCACCAAAATTATCATTTTACCCCCAAACTATCTAAAATTCCATTTTAAACC
Found at i:35049891 original size:23 final size:23
Alignment explanation
Indices: 35049865--35050035 Score: 220
Period size: 23 Copynumber: 7.3 Consensus size: 23
35049855 ACACTAGCGC
35049865 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
35049888 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
35049911 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
35049934 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
* *
35049959 GCTCTCCGATTAGCA-TTTCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
35049982 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* * *
35050005 ACTCTCTGTTTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
35050028 GCTCTCTG
1 GCTCTCTG
35050036 TTGCCCAACA
Statistics
Matches: 132, Mismatches: 10, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
22 5 0.04
23 105 0.80
24 3 0.02
25 16 0.12
26 3 0.02
ACGTcount: A:0.12, C:0.24, G:0.23, T:0.42
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:35049982 original size:71 final size:68
Alignment explanation
Indices: 35049865--35050033 Score: 218
Period size: 71 Copynumber: 2.4 Consensus size: 68
35049855 ACACTAGCGC
* *
35049865 GCTCTCTG-ATTAGCACTGTGTGTGCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGT
1 GCTCTCTGTATTAGCACTGTGTGTGCTCTCCGATTAGCACTGTGTGTGCTCTCTGATTAGCAC-T
35049929 CTCGT
65 -TCGT
*
35049934 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCA-TTTCGTGTGCTCTCTGATTAGCAC
1 GCTCTCTG-TATTAGCACTGTGTGTGCTCTCCGATTAGCACTGT-GTGTGCTCTCTGATTAGCAC
*
35049998 TTTGT
64 TTCGT
*
35050003 GTACTCTCTGT-TTAGCACTTTGTGTGCTCTC
1 G--CTCTCTGTATTAGCACTGTGTGTGCTCTC
35050034 TGTTGCCCAA
Statistics
Matches: 90, Mismatches: 5, Indels: 10
0.86 0.05 0.10
Matches are distributed among these distances:
69 31 0.34
70 4 0.04
71 55 0.61
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.41
Consensus pattern (68 bp):
GCTCTCTGTATTAGCACTGTGTGTGCTCTCCGATTAGCACTGTGTGTGCTCTCTGATTAGCACTT
CGT
Found at i:35050036 original size:23 final size:23
Alignment explanation
Indices: 35049865--35050107 Score: 208
Period size: 23 Copynumber: 10.5 Consensus size: 23
35049855 ACACTAGCGC
* *
35049865 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
* *
35049888 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
* *
35049911 GCTCTCTGTTTAGCACGTCT-CGT
1 GCTCTCTGTTTAGCAC-TTTGTGT
*
35049934 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTTTGTGT
* *
35049959 GCTCTCCGATTAGCA-TTTCGTGT
1 GCTCTCTGTTTAGCACTTT-GTGT
*
35049982 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
*
35050005 ACTCTCTGTTTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTTTGTGT
* * *
35050028 GCTCTCTGTTGCCCAACAC-TTATGT
1 GCTCTCTGTT---TAGCACTTTGTGT
* *
35050053 GCTCTCTGTTTAGTACTTCG-GT
1 GCTCTCTGTTTAGCACTTTGTGT
* * *
35050075 ACTCTCTGTTTAGTACTTCG-GT
1 GCTCTCTGTTTAGCACTTTGTGT
*
35050097 ACTCTCTGTTT
1 GCTCTCTGTTT
35050108 GTTCCGTTTA
Statistics
Matches: 189, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
22 39 0.21
23 107 0.57
24 8 0.04
25 31 0.16
26 4 0.02
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.42
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTTTGTGT
Found at i:35050054 original size:94 final size:94
Alignment explanation
Indices: 35049865--35050107 Score: 262
Period size: 94 Copynumber: 2.6 Consensus size: 94
35049855 ACACTAGCGC
* * *
35049865 GCTCTCTGATTAGCACTGT-GTGTGCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGT
1 GCTCTCTGATTAGCA-TTTCGTGTGCTCTCTGATTAGCACTTTGTGTACTCTCTGTTTAGCACGT
** * *
35049929 CTCGTGCTCTCTGTTATTAGCACTGTGTGT
65 CTCGTGCTCTCTGTTACCAACACTGTATGT
* *
35049959 GCTCTCCGATTAGCATTTCGTGTGCTCTCTGATTAGCACTTTGTGTACTCTCTGTTTAGCAC-TT
1 GCTCTCTGATTAGCATTTCGTGTGCTCTCTGATTAGCACTTTGTGTACTCTCTGTTTAGCACGTC
* *
35050023 TGTGTGCTCTCTGTTGCCCAACACT-TATGT
66 T-CGTGCTCTCTGTT-ACCAACACTGTATGT
* * * * * * *
35050053 GCTCTCTGTTTAGTACTTCG-GTACTCTCTGTTTAGTACTTCG-GTACTCTCTGTTT
1 GCTCTCTGATTAGCATTTCGTGTGCTCTCTGATTAGCACTTTGTGTACTCTCTGTTT
35050108 GTTCCGTTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
92 13 0.10
93 22 0.17
94 87 0.69
95 5 0.04
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.42
Consensus pattern (94 bp):
GCTCTCTGATTAGCATTTCGTGTGCTCTCTGATTAGCACTTTGTGTACTCTCTGTTTAGCACGTC
TCGTGCTCTCTGTTACCAACACTGTATGT
Found at i:35050079 original size:22 final size:22
Alignment explanation
Indices: 35050054--35050107 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
35050044 CACTTATGTG
35050054 CTCTCTGTTTAGTACTTCGGTA
1 CTCTCTGTTTAGTACTTCGGTA
35050076 CTCTCTGTTTAGTACTTCGGTA
1 CTCTCTGTTTAGTACTTCGGTA
35050098 CTCTCTGTTT
1 CTCTCTGTTT
35050108 GTTCCGTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (22 bp):
CTCTCTGTTTAGTACTTCGGTA
Found at i:35057885 original size:22 final size:21
Alignment explanation
Indices: 35057860--35057903 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
35057850 AATACTAAAA
35057860 ATATATTTTCATAATAAAATTT
1 ATATATTTT-ATAATAAAATTT
* *
35057882 ATATGTTTTATAATTAAATTT
1 ATATATTTTATAATAAAATTT
35057903 A
1 A
35057904 AATTAAGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATATTTTATAATAAAATTT
Found at i:35060428 original size:16 final size:17
Alignment explanation
Indices: 35060397--35060441 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
35060387 ATTAATCAAA
*
35060397 TTAACTAAATTAATTTT
1 TTAATTAAATTAATTTT
35060414 TTAATTAAA-TAATTTT
1 TTAATTAAATTAATTTT
*
35060430 TTCAATTCAATT
1 TT-AATTAAATT
35060442 CTAATTCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 14 0.58
18 1 0.04
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATTAAATTAATTTT
Found at i:35066818 original size:7 final size:7
Alignment explanation
Indices: 35066806--35066830 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35066796 AGCTACAAAA
35066806 TAATAAT
1 TAATAAT
35066813 TAATAAT
1 TAATAAT
35066820 TAATAAT
1 TAATAAT
35066827 TAAT
1 TAAT
35066831 TGAAGAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TAATAAT
Found at i:35075720 original size:102 final size:102
Alignment explanation
Indices: 35075538--35075768 Score: 363
Period size: 102 Copynumber: 2.3 Consensus size: 102
35075528 TTATTAGTAG
* * *
35075538 AGGGATTTAAAGTGGCGGCACTCAGGGGTTTTTTGTACAGAAAAATACTAGAAAAAAATACCTGA
1 AGGGTTTTTAAGTGGCGGCACTCAGGGGTTTTTTGTACAGAAAAATACGAGAAAAAAATACCTGA
* * *
35075603 CACCTAGTGGAGGAACACGAAGTGGCGGCACCAATGA
66 CACCCAATAGAGGAACACGAAGTGGCGGCACCAATGA
* * *
35075640 AGGGTTTTTAAGTTGCGGCACTCATGGGTTTTTTGTACAGAAAAATACGAGAAAAAAATATCTGA
1 AGGGTTTTTAAGTGGCGGCACTCAGGGGTTTTTTGTACAGAAAAATACGAGAAAAAAATACCTGA
*
35075705 CACCCAATAGAGGAACACGAAGTGGCGGCACCAATGG
66 CACCCAATAGAGGAACACGAAGTGGCGGCACCAATGA
*
35075742 AGGGTTTTTAAGTGGCGGCACTAAGGG
1 AGGGTTTTTAAGTGGCGGCACTCAGGG
35075769 ATGTTTTGCC
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 116 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (102 bp):
AGGGTTTTTAAGTGGCGGCACTCAGGGGTTTTTTGTACAGAAAAATACGAGAAAAAAATACCTGA
CACCCAATAGAGGAACACGAAGTGGCGGCACCAATGA
Found at i:35079272 original size:21 final size:21
Alignment explanation
Indices: 35079246--35079292 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
35079236 TTAGGGTCCA
* *
35079246 ATTGCCCCGAAGGAGTAGAGT
1 ATTGCCCCGAAGAAGTAAAGT
* *
35079267 ATTGCCCGGGAGAAGTAAAGT
1 ATTGCCCCGAAGAAGTAAAGT
35079288 ATTGC
1 ATTGC
35079293 AGTGGCTCGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (21 bp):
ATTGCCCCGAAGAAGTAAAGT
Found at i:35081221 original size:29 final size:29
Alignment explanation
Indices: 35081189--35081279 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
35081179 TTTATATATC
*
35081189 AAAATAGTATCCACACACCATTATTTACT
1 AAAATAGTATCAACACACCATTATTTACT
* * * ** * *
35081218 AAAATGGTA-CAATATATATATTTATATACC
1 AAAATAGTATCAACACA-CCA-TTATTTACT
*
35081248 AAAATAGTATCTACACACCATTATTTACT
1 AAAATAGTATCAACACACCATTATTTACT
35081277 AAA
1 AAA
35081280 TGATACGAAA
Statistics
Matches: 43, Mismatches: 16, Indels: 6
0.66 0.25 0.09
Matches are distributed among these distances:
28 4 0.09
29 19 0.44
30 16 0.37
31 4 0.09
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAATAGTATCAACACACCATTATTTACT
Found at i:35081281 original size:58 final size:59
Alignment explanation
Indices: 35081151--35081300 Score: 225
Period size: 59 Copynumber: 2.6 Consensus size: 59
35081141 CCAAAATGAG
* *
35081151 TTATTTACTAAAATGGTA-TATATATATATTTATATATCAAAATAGTATCCACACACCA
1 TTATTTACTAAAATGGTACAATATATATATTTATATACCAAAATAGTATCCACACACCA
*
35081209 TTATTTACTAAAATGGTACAATATATATATTTATATACCAAAATAGTATCTACACACCA
1 TTATTTACTAAAATGGTACAATATATATATTTATATACCAAAATAGTATCCACACACCA
* *
35081268 TTATTTACT-AAATGATACGAA-ATAAATATTTAT
1 TTATTTACTAAAATGGTAC-AATATATATATTTAT
35081301 TTTGTACCAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
58 37 0.44
59 48 0.56
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (59 bp):
TTATTTACTAAAATGGTACAATATATATATTTATATACCAAAATAGTATCCACACACCA
Found at i:35082053 original size:12 final size:12
Alignment explanation
Indices: 35082038--35082062 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35082028 AAATTAAAAT
35082038 ATTTTAAAATTA
1 ATTTTAAAATTA
35082050 ATTTTAAAATTA
1 ATTTTAAAATTA
35082062 A
1 A
35082063 CCAAACTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTTAAAATTA
Found at i:35082257 original size:9 final size:9
Alignment explanation
Indices: 35082240--35082270 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
35082230 CTTTTTTTTC
35082240 CTTCTCCTT
1 CTTCTCCTT
*
35082249 CTTCCCCTT
1 CTTCTCCTT
35082258 CTTCTCCTT
1 CTTCTCCTT
35082267 CTTC
1 CTTC
35082271 ATTCTTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (9 bp):
CTTCTCCTT
Found at i:35103675 original size:16 final size:18
Alignment explanation
Indices: 35103654--35103692 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
35103644 ATTATTTTAA
*
35103654 ATTTTAATA-TA-ATTAT
1 ATTTTAATAGTATATAAT
35103670 ATTTTAATAGTATATAAT
1 ATTTTAATAGTATATAAT
35103688 ATTTT
1 ATTTT
35103693 CATAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 2 0.10
18 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTTTAATAGTATATAAT
Found at i:35105292 original size:146 final size:145
Alignment explanation
Indices: 35105028--35105321 Score: 579
Period size: 146 Copynumber: 2.0 Consensus size: 145
35105018 CCCTCCCTCC
35105028 AAGGGCCTAGCCTCATGCCTCCTCTTTCTCCTTCATTACCAACCCCATCCAAGCCTATCAGAATT
1 AAGGGCCTAGCCTCATGCCTCCTCTTTCTCCTTCATTACCAACCCCATCCAAGCCTATCAGAATT
35105093 TTTATCTATTCTCCATATGCATGCAAGTCATAATCATCATTTATCATAATGGAAAAATATTTTGT
66 TTTATCTATTCTCCATATGCATGCAAGTCATAATCATCATTTATCATAATGGAAAAATATTTTGT
35105158 TTACTTTTTTTTTTTG
131 TTAC-TTTTTTTTTTG
35105174 AAGGGCCTAGCCTCATGCCTCCTCTTTCTCCTTCATTACCAACCCCATCCAAGCCTATCAGAATT
1 AAGGGCCTAGCCTCATGCCTCCTCTTTCTCCTTCATTACCAACCCCATCCAAGCCTATCAGAATT
35105239 TTTATCTATTCTCCATATGCATGCAAGTCATAATCATCATTTATCATAATGGAAAAATATTTTGT
66 TTTATCTATTCTCCATATGCATGCAAGTCATAATCATCATTTATCATAATGGAAAAATATTTTGT
35105304 TTACTTTTTTTTTTG
131 TTACTTTTTTTTTTG
35105319 AAG
1 AAG
35105322 TATATAGATT
Statistics
Matches: 148, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
145 14 0.09
146 134 0.91
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (145 bp):
AAGGGCCTAGCCTCATGCCTCCTCTTTCTCCTTCATTACCAACCCCATCCAAGCCTATCAGAATT
TTTATCTATTCTCCATATGCATGCAAGTCATAATCATCATTTATCATAATGGAAAAATATTTTGT
TTACTTTTTTTTTTG
Found at i:35107348 original size:18 final size:17
Alignment explanation
Indices: 35107314--35107348 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
35107304 TTATTTGAAT
35107314 ATTATGAATGGAAAAAA
1 ATTATGAATGGAAAAAA
35107331 ATTATGAATGGAAAAAA
1 ATTATGAATGGAAAAAA
35107348 A
1 A
35107349 GTATCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (17 bp):
ATTATGAATGGAAAAAA
Found at i:35113448 original size:3 final size:3
Alignment explanation
Indices: 35113440--35113464 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
35113430 TCAGACGAAG
35113440 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
35113465 TTGTTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:35119303 original size:22 final size:23
Alignment explanation
Indices: 35119273--35119318 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
35119263 ATTTATGAAA
*
35119273 TATAGATTTTAATTACTTATAAT
1 TATAGATTTTAATTACTTAGAAT
* *
35119296 TATA-ATTTTTATTATTTAGAAT
1 TATAGATTTTAATTACTTAGAAT
35119318 T
1 T
35119319 TTTAAGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TATAGATTTTAATTACTTAGAAT
Done.