Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 359 of 362
Found at i:118574069 original size:97 final size:98
Alignment explanation
Indices: 118573833--118574184 Score: 480
Period size: 97 Copynumber: 3.6 Consensus size: 98
118573823 TTTTTTTGAA
* * * * * * * * *
118573833 ATTTTCACTTCGAACACTTACTTAAGCTTATCGAAGCATTTAATTTTCATTTCTTAATATGGCGG
1 ATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGC
118573898 ATCTTCAAATTTTTGTTTCTCTGTTTGTTTTTTC
66 ATCTTCAAATTTTTGTTTCTCTGTTT-TTTTTTC
*
118573932 ATTTTCATTTTGAACTCTTAGTTAAGCTTATCGTAGCAGTTGA-TTTCATTTCTTTACATGGCGC
1 ATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGC
118573996 ATCTTCAAATTTTTGTTTCTCTGTTTTTTTTTC
66 ATCTTCAAATTTTTGTTTCTCTGTTTTTTTTTC
* *
118574029 ATTTTCATTTTGAACTCTTAGTTAAGCTTATCGTAGCAGTTGA-TTTCATTTCTTTACATGGCAC
1 ATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGC
118574093 ATCTTCAAATTTTTGTTTCTCTGTTATTTTTTTCC
66 ATCTTCAAATTTTTGTTTCTCTGTT-TTTTTTT-C
* *
118574128 A-TTTCGAAGTTCGAACAATC-T-GTTAAGCTTATCGTAGCATTTGATTTTCATTTCTTT
1 ATTTTC--ATTTCGAAC--TCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTT
118574185 GTTTTTTTAA
Statistics
Matches: 232, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
97 95 0.41
98 55 0.24
99 38 0.16
100 29 0.12
101 13 0.06
102 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (98 bp):
ATTTTCATTTCGAACTCTTAGTTAAGCTTATCGTAGCAGTTGATTTTCATTTCTTTACATGGCGC
ATCTTCAAATTTTTGTTTCTCTGTTTTTTTTTC
Found at i:118585396 original size:44 final size:44
Alignment explanation
Indices: 118585346--118585477 Score: 201
Period size: 44 Copynumber: 3.0 Consensus size: 44
118585336 TACAAAAAAC
118585346 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
* *
118585390 TAAATCCACAAGAATTAGTAGCAGAATTTGACCATTTTTAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
* * * * *
118585434 TAAATTCACAAGGACTAATATCAGAACTTGACCATTTTAAGCAT
1 TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
118585478 AGAAAGAGAA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 79 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (44 bp):
TAAATCCACAAGGATTAATAGCAGAATTTGACCATTTTTAGCAT
Found at i:118587088 original size:16 final size:15
Alignment explanation
Indices: 118587069--118587105 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
118587059 TAAAATTTTA
118587069 AAATTAAAAAATATAG
1 AAATTAAAAAATAT-G
118587085 AAATT-AAAAATATG
1 AAATTAAAAAATATG
118587099 AAATTAA
1 AAATTAA
118587106 CTTAGAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
15 9 0.45
16 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (15 bp):
AAATTAAAAAATATG
Found at i:118587093 original size:14 final size:14
Alignment explanation
Indices: 118587069--118587105 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
118587059 TAAAATTTTA
118587069 AAATTAAAAAATATAG
1 AAATT-AAAAATAT-G
118587085 AAATTAAAAATATG
1 AAATTAAAAATATG
118587099 AAATTAA
1 AAATTAA
118587106 CTTAGAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.38
15 8 0.38
16 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AAATTAAAAATATG
Found at i:118593897 original size:18 final size:19
Alignment explanation
Indices: 118593856--118593903 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
118593846 AAGCACTTGT
*
118593856 TTTAATGTGTAAAAAAATG
1 TTTAATATGTAAAAAAATG
*
118593875 TTTAAT-TGTACAAGAAATG
1 TTTAATATGTA-AAAAAATG
118593894 -TTAATATGTA
1 TTTAATATGTA
118593904 TATAGAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTAATATGTAAAAAAATG
Found at i:118597917 original size:21 final size:22
Alignment explanation
Indices: 118597891--118597937 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
118597881 CTCTGCTCAA
*
118597891 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
118597912 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
118597934 ACTC
1 ACTC
118597938 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:118606631 original size:190 final size:189
Alignment explanation
Indices: 118606246--118606660 Score: 444
Period size: 190 Copynumber: 2.2 Consensus size: 189
118606236 TTGTTGGGTC
* ** * * *
118606246 AAATTATGATTTTGGTCCTTTTACTATGCTCAAATTTGGATATATAGTAAGAAAAACGAGTTAAT
1 AAATTATGATTTTGGTCCCTCAACTATGCTC--A-TTGGATATATAATAAGAAAAACAAGTTAAA
* * * * *
118606311 ACTAAAGAAATTAAACAAGGTTTTTTGGTTAAATTTTGATTTTAGTCCGTCTATTATGGTCTAAT
63 ACTAAAGAAACTAAACAAGGTTTTTTGGTTAAATTATGATTTTAGTCCGTCTACTATGCTCAAAT
* * * ** *
118606376 TTGGATGTAAAATAAATAATAAAAACTAGTTAAAAGTGATGAAATGAAACAATTTTTTTGGTT
128 TTGGATGT-AAATAAATAAGAAAAACGAGTTAAAAGTGATAAAACAAAAAAATTTTTTTGGTT
* *
118606439 AAATTATGATTTTGGTCCCTCAACTATGCTC-TTGGATGTATAATAAGAAAAACAAGTTAAAAGT
1 AAATTATGATTTTGGTCCCTCAACTATGCTCATTGGATATATAATAAGAAAAACAAGTTAAAACT
* * * * * *
118606503 GATG-AACTAAACAAGTTTTTTTTGTGTTAAATTATGGTTTTGGTCCTTCTACTATGCTCAAATT
66 AAAGAAACTAAACAAG-GTTTTTTG-GTTAAATTATGATTTTAGTCCGTCTACTATGCTCAAATT
*
118606567 TGGAT-T-TAT-AATAAGAAAAACGAGTTAAAAGTGATAAAACAAAAGAAAGTTTTTCTTTGGTT
129 TGGATGTAAATAAATAAGAAAAACGAGTTAAAAGTGATAAAACAAAA-AAA--TTTT-TTTGGTT
* * *
118606629 AAATTCTGATTTTGGTCCCACAACTATTCTCA
1 AAATTATGATTTTGGTCCCTCAACTATGCTCA
118606661 AGTTTGGAAT
Statistics
Matches: 186, Mismatches: 29, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
186 30 0.16
187 4 0.02
188 10 0.05
189 42 0.23
190 72 0.39
193 28 0.15
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (189 bp):
AAATTATGATTTTGGTCCCTCAACTATGCTCATTGGATATATAATAAGAAAAACAAGTTAAAACT
AAAGAAACTAAACAAGGTTTTTTGGTTAAATTATGATTTTAGTCCGTCTACTATGCTCAAATTTG
GATGTAAATAAATAAGAAAAACGAGTTAAAAGTGATAAAACAAAAAAATTTTTTTGGTT
Found at i:118606667 original size:98 final size:94
Alignment explanation
Indices: 118606246--118606673 Score: 364
Period size: 98 Copynumber: 4.5 Consensus size: 94
118606236 TTGTTGGGTC
* ** * * * *
118606246 AAATTATGATTTTGGTCCTTTTACTATGCTCAAATTTGGATATATAGTAAGAAAAACGAGTTAAT
1 AAATTATGATTTTGGTCCCTCAACTATGCTC-AATTTGGATTTATAATAAGAAAAACAAGTTAAA
* * * ** *
118606311 ACTAAAGAAATTAAACAAG-GTTTTTTGGTT
65 AGT-GATAAACAAAACAAGTTTTTTTTGGTT
* * * * * * * * *
118606341 AAATTTTGATTTTAGTCCGTCTATTATGGTCTAATTTGGATGTAAAATAAATAATAAAAACTAGT
1 AAATTATGATTTTGGTCCCTCAACTATGCTC-AATTTGGAT-T--TAT-AATAAGAAAAACAAGT
**
118606406 TAAAAGTGATGAAATGAAACAA--TTTTTTTGGTT
61 TAAAAGTGAT-AAACAAAACAAGTTTTTTTTGGTT
*
118606439 AAATTATGATTTTGGTCCCTCAACTATGCTC---TTGGATGTATAATAAGAAAAACAAGTTAAAA
1 AAATTATGATTTTGGTCCCTCAACTATGCTCAATTTGGATTTATAATAAGAAAAACAAGTTAAAA
* *
118606501 GTGATGAACTAAACAAGTTTTTTTTGTGTT
66 GTGATAAACAAAACAAGTTTTTTTTG-GTT
* * * *
118606531 AAATTATGGTTTTGGTCCTTCTACTATGCTCAAATTTGGATTTATAATAAGAAAAACGAGTTAAA
1 AAATTATGATTTTGGTCCCTCAACTATGCTC-AATTTGGATTTATAATAAGAAAAACAAGTTAAA
*
118606596 AGTGATAAAACAAAAGAAAGTTTTTCTTTGGTT
65 AGTGAT-AAACAAAA-CAAGTTTTT-TTTGGTT
* * *
118606629 AAATTCTGATTTTGGTCCCACAACTATTCTCAAGTTTGGAATTTA
1 AAATTATGATTTTGGTCCCTCAACTATGCTCAA-TTTGG-ATTTA
118606674 ACATCTGTAT
Statistics
Matches: 271, Mismatches: 45, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
89 8 0.03
90 24 0.09
91 10 0.04
92 31 0.11
94 6 0.02
95 34 0.13
96 34 0.13
97 8 0.03
98 79 0.29
99 37 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (94 bp):
AAATTATGATTTTGGTCCCTCAACTATGCTCAATTTGGATTTATAATAAGAAAAACAAGTTAAAA
GTGATAAACAAAACAAGTTTTTTTTGGTT
Found at i:118607555 original size:2 final size:2
Alignment explanation
Indices: 118607550--118607584 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
118607540 AAAGAGAAAA
118607550 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
118607585 TTGGTGTGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:118615817 original size:21 final size:22
Alignment explanation
Indices: 118615776--118615817 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
118615766 ATAAATTTAT
*
118615776 ATTTTAATTAATAAATTTTAAA
1 ATTTTAATTAATAAATATTAAA
118615798 ATTTT-ATT-ATATAATATTAA
1 ATTTTAATTAATA-AATATTAA
118615818 TATTATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 3 0.17
21 10 0.56
22 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTAATTAATAAATATTAAA
Found at i:118617302 original size:63 final size:63
Alignment explanation
Indices: 118617224--118617350 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
118617214 TCCCAACCCC
*
118617224 TATATCATATTCTATTATAAGGCAAACTATACCCGAGGTCCCTAATTTTTATTAAATTTATGT
1 TATATCATATTCTATTATAAGGCAAACTATACCCAAGGTCCCTAATTTTTATTAAATTTATGT
118617287 TATATCATATTCTATTATAAGGCAAACTATACCCAAGGTCCCTAATTTTTATTAAATTTATGT
1 TATATCATATTCTATTATAAGGCAAACTATACCCAAGGTCCCTAATTTTTATTAAATTTATGT
118617350 T
1 T
118617351 CTAGTCATTC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.42
Consensus pattern (63 bp):
TATATCATATTCTATTATAAGGCAAACTATACCCAAGGTCCCTAATTTTTATTAAATTTATGT
Found at i:118617830 original size:5 final size:5
Alignment explanation
Indices: 118617820--118617879 Score: 111
Period size: 5 Copynumber: 12.0 Consensus size: 5
118617810 TAGTTAACCC
118617820 TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT
1 TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT TGTAT
*
118617870 TGTGT TGTAT
1 TGTAT TGTAT
118617880 GGTTTGACTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.18, C:0.00, G:0.22, T:0.60
Consensus pattern (5 bp):
TGTAT
Found at i:118618393 original size:14 final size:12
Alignment explanation
Indices: 118618362--118618399 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
118618352 TCTATTTTAT
118618362 GTCTCAAGACAA
1 GTCTCAAGACAA
118618374 -TCTCAAGACTAAA
1 GTCTCAAGAC--AA
118618387 GTCTCAAGACAA
1 GTCTCAAGACAA
118618399 G
1 G
118618400 CCTCCTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 9 0.39
12 3 0.13
13 2 0.09
14 9 0.39
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (12 bp):
GTCTCAAGACAA
Found at i:118621249 original size:15 final size:15
Alignment explanation
Indices: 118621215--118621257 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
118621205 AATTGGATTG
118621215 ATTT-AATTTAAATA
1 ATTTAAATTTAAATA
*
118621229 ATTTTAAATTTTAATA
1 A-TTTAAATTTAAATA
118621245 ATTTAAATTTAAA
1 ATTTAAATTTAAA
118621258 CTTGCTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 14 0.56
16 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTAAATTTAAATA
Found at i:118630475 original size:20 final size:19
Alignment explanation
Indices: 118630434--118630475 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
118630424 TTAATTAAAT
*
118630434 AAATTATTAAAAATACATA
1 AAATTATTAAAAATACAAA
*
118630453 AAATTATTTAAAAATAGAAA
1 AAATTA-TTAAAAATACAAA
118630473 AAA
1 AAA
118630476 CCAACTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATTATTAAAAATACAAA
Found at i:118631918 original size:16 final size:17
Alignment explanation
Indices: 118631882--118631923 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
118631872 CAATAATATG
*
118631882 TTTAATATTATTTAAAA
1 TTTATTATTATTTAAAA
118631899 -TTATTATT-TTTAAAA
1 TTTATTATTATTTAAAA
118631914 TTTATTATTA
1 TTTATTATTA
118631924 AAATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTATTATTATTTAAAA
Found at i:118634855 original size:23 final size:23
Alignment explanation
Indices: 118634829--118634877 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
118634819 AAATTCTAAA
*
118634829 TTAAAGCAAATAATAATAATTAT
1 TTAAAGAAAATAATAATAATTAT
* *
118634852 TTAAAGAAAATTATAATATTTAT
1 TTAAAGAAAATAATAATAATTAT
118634875 TTA
1 TTA
118634878 CTTTACATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
TTAAAGAAAATAATAATAATTAT
Found at i:118637415 original size:8 final size:8
Alignment explanation
Indices: 118637402--118637426 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
118637392 ACCCTAATAA
118637402 TATAAATT
1 TATAAATT
118637410 TATAAATT
1 TATAAATT
118637418 TATAAATT
1 TATAAATT
118637426 T
1 T
118637427 CCGATCACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TATAAATT
Found at i:118638130 original size:10 final size:9
Alignment explanation
Indices: 118638115--118638139 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
118638105 TTCAGCTCTG
118638115 TTTTTTTGT
1 TTTTTTTGT
118638124 TTTTTTTGT
1 TTTTTTTGT
118638133 TTTTTTT
1 TTTTTTT
118638140 ACTTTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:118641290 original size:15 final size:15
Alignment explanation
Indices: 118641270--118641347 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
118641260 TTTATGGAAA
118641270 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
118641285 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
118641299 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
118641315 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
118641329 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
118641345 ATC
1 ATC
118641348 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:118641298 original size:30 final size:30
Alignment explanation
Indices: 118641264--118641357 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
118641254 TCCATATTTA
*
118641264 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
118641294 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
118641324 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
118641355 TGG
1 TGG
118641358 CATAATAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 53 0.87
31 8 0.13
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:118645943 original size:15 final size:15
Alignment explanation
Indices: 118645923--118646000 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
118645913 TTTATGGAAA
118645923 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
118645938 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
118645952 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
118645968 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
118645982 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
118645998 ATC
1 ATC
118646001 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:118645951 original size:30 final size:30
Alignment explanation
Indices: 118645917--118646010 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
118645907 TCCATATTTA
*
118645917 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
118645947 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
118645977 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
118646008 TGG
1 TGG
118646011 CATAATAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 53 0.87
31 8 0.13
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:118647041 original size:4 final size:4
Alignment explanation
Indices: 118647032--118647083 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
118647022 TCTTTTGTCA
* * * * *
118647032 ATGT ATGT ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
118647080 ATGT
1 ATGT
118647084 CATTTGTTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (4 bp):
ATGT
Found at i:118647045 original size:8 final size:8
Alignment explanation
Indices: 118647032--118647083 Score: 95
Period size: 8 Copynumber: 6.5 Consensus size: 8
118647022 TCTTTTGTCA
*
118647032 ATGTATGT
1 ATGTATGC
118647040 ATGTATGC
1 ATGTATGC
118647048 ATGTATGC
1 ATGTATGC
118647056 ATGTATGC
1 ATGTATGC
118647064 ATGTATGC
1 ATGTATGC
118647072 ATGTATGC
1 ATGTATGC
118647080 ATGT
1 ATGT
118647084 CATTTGTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 43 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (8 bp):
ATGTATGC
Found at i:118658623 original size:11 final size:11
Alignment explanation
Indices: 118658607--118658633 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
118658597 ATTCAAGTTC
118658607 GATTTAAAAAA
1 GATTTAAAAAA
118658618 GATTTAAAAAA
1 GATTTAAAAAA
118658629 GATTT
1 GATTT
118658634 GGTAACTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (11 bp):
GATTTAAAAAA
Found at i:118664481 original size:21 final size:22
Alignment explanation
Indices: 118664456--118664498 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
118664446 TATATTTTTA
*
118664456 TTAAAATTCTATTTAAA-CCTT
1 TTAAAATTCTAATTAAATCCTT
*
118664477 TTAAAATTTTAATTAAATCCTT
1 TTAAAATTCTAATTAAATCCTT
118664499 CAATTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAAAATTCTAATTAAATCCTT
Found at i:118670113 original size:20 final size:21
Alignment explanation
Indices: 118670069--118670120 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
118670059 TCTAAACACT
* *
118670069 TGTGTTTAGACATGTAACATA
1 TGTGTTGAGATATGTAACATA
*
118670090 TGTGTTGAGATATGTAA-TTA
1 TGTGTTGAGATATGTAACATA
118670110 TGTGTTGAGAT
1 TGTGTTGAGAT
118670121 TCCGACCCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (21 bp):
TGTGTTGAGATATGTAACATA
Found at i:118671349 original size:19 final size:19
Alignment explanation
Indices: 118671325--118671386 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 19
118671315 AAAGTTTTGA
118671325 AATTTTTTAATTAAACTTT
1 AATTTTTTAATTAAACTTT
** *
118671344 AA--TTTTAAAAAAATTATT
1 AATTTTTTAATTAAACT-TT
*
118671362 AAATTTTTAATTAAACTTT
1 AATTTTTTAATTAAACTTT
118671381 AATTTT
1 AATTTT
118671387 AAAAAAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 10 0.30
18 4 0.12
19 9 0.27
20 10 0.30
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTTTTTAATTAAACTTT
Found at i:118671372 original size:37 final size:38
Alignment explanation
Indices: 118671328--118671401 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 38
118671318 GTTTTGAAAT
118671328 TTTTTAATTAAACTTTAATTTTAAAAAAA-TTATTAAA
1 TTTTTAATTAAACTTTAATTTTAAAAAAATTTATTAAA
118671365 TTTTTAATTAAACTTTAATTTTAAAAAAATTTATTAA
1 TTTTTAATTAAACTTTAATTTTAAAAAAATTTATTAA
118671402 GTCCCACTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 29 0.81
38 7 0.19
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (38 bp):
TTTTTAATTAAACTTTAATTTTAAAAAAATTTATTAAA
Found at i:118671415 original size:37 final size:37
Alignment explanation
Indices: 118671337--118671416 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
118671327 TTTTTTAATT
* *** *
118671337 AAACTTTAATTTTAAAAAAATTATTAAATTTTTAATT
1 AAACTTTAATTTTAAAAAAATTATTAAAGTCCCAATA
*
118671374 AAACTTTAATTTTAAAAAAATTTATT-AAGTCCCACTA
1 AAACTTTAATTTTAAAAAAA-TTATTAAAGTCCCAATA
118671411 AAACTT
1 AAACTT
118671417 AAACCTCACG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
37 31 0.86
38 5 0.14
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.42
Consensus pattern (37 bp):
AAACTTTAATTTTAAAAAAATTATTAAAGTCCCAATA
Found at i:118679737 original size:20 final size:20
Alignment explanation
Indices: 118679712--118679749 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
118679702 TACAACAAAC
118679712 AATAAATCAAAT-ATATATGA
1 AATAAAT-AAATAATATATGA
118679732 AATAAATAAATAATATAT
1 AATAAATAAATAATATAT
118679750 AGCAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
AATAAATAAATAATATATGA
Found at i:118681792 original size:32 final size:32
Alignment explanation
Indices: 118681753--118681815 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
118681743 AACCTTTTTA
118681753 AAAAACAGTTAAAGAAAAAAAAGGTCTCGCTT
1 AAAAACAGTTAAAGAAAAAAAAGGTCTCGCTT
*
118681785 AAAAACAGTTAAAGAAAAGAAAGGTCTCGCT
1 AAAAACAGTTAAAGAAAAAAAAGGTCTCGCT
118681816 GTACTTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.17
Consensus pattern (32 bp):
AAAAACAGTTAAAGAAAAAAAAGGTCTCGCTT
Found at i:118682656 original size:32 final size:29
Alignment explanation
Indices: 118682620--118682705 Score: 82
Period size: 34 Copynumber: 2.8 Consensus size: 29
118682610 TTTGTGTGAT
*
118682620 TAATTAAAATTTTTAAAAATTTGAGAGAGA
1 TAATTAAAATTTTTAAAAATTTCA-AGAGA
* *
118682650 CCTAATTAAATTTTTTTTTAAAATTTCAAGAGA
1 --TAATTAAA--ATTTTTAAAAATTTCAAGAGA
*
118682683 TAAATAAAATTTTCTAAAAATTT
1 TAATTAAAATTTT-TAAAAATTT
118682706 TAGGGGGCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
29 4 0.09
30 8 0.18
31 7 0.16
32 8 0.18
33 5 0.11
34 13 0.29
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (29 bp):
TAATTAAAATTTTTAAAAATTTCAAGAGA
Found at i:118694386 original size:15 final size:17
Alignment explanation
Indices: 118694353--118694395 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
118694343 TTTAATTAAT
118694353 AATATATTTAAAAAGTA
1 AATATATTTAAAAAGTA
*
118694370 AATATA-TTATAAA-TA
1 AATATATTTAAAAAGTA
*
118694385 AATAGATTTAA
1 AATATATTTAA
118694396 TTAGTATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 7 0.32
16 9 0.41
17 6 0.27
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (17 bp):
AATATATTTAAAAAGTA
Found at i:118700726 original size:28 final size:29
Alignment explanation
Indices: 118700690--118700751 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
118700680 TCACTCAAGT
* *
118700690 ATTAGGAAATA-TACACTTT-AGTCACTTA
1 ATTATGAAATATTACAATTTGA-TCACTTA
*
118700718 ATTATGAAATATTATAATTTGATCACTTA
1 ATTATGAAATATTACAATTTGATCACTTA
118700747 ATTAT
1 ATTAT
118700752 TTGAAATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 10 0.34
29 18 0.62
30 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (29 bp):
ATTATGAAATATTACAATTTGATCACTTA
Found at i:118700781 original size:21 final size:21
Alignment explanation
Indices: 118700727--118700786 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
118700717 AATTATGAAA
* *
118700727 TATTATAATTTGATCACTTAAT
1 TATT-TAAATTGATCATTTAAT
118700749 TATTTGAAATTGATCATTTAAT
1 TATTT-AAATTGATCATTTAAT
*
118700771 TATTTAAATTGCTCAT
1 TATTTAAATTGATCAT
118700787 CTGGTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.32
22 23 0.68
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (21 bp):
TATTTAAATTGATCATTTAAT
Found at i:118714413 original size:6 final size:6
Alignment explanation
Indices: 118714392--118714427 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
118714382 TCCTCCACGC
* *
118714392 CCTCTA CCCCTA CCTCTC CCTCTA CCTCTA CCTCTA
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA
118714428 TTAGCTGATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.14, C:0.56, G:0.00, T:0.31
Consensus pattern (6 bp):
CCTCTA
Found at i:118714414 original size:18 final size:18
Alignment explanation
Indices: 118714391--118714426 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
118714381 TTCCTCCACG
118714391 CCCTCTACCCCTACCTCT
1 CCCTCTACCCCTACCTCT
*
118714409 CCCTCTACCTCTACCTCT
1 CCCTCTACCCCTACCTCT
118714427 ATTAGCTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.58, G:0.00, T:0.31
Consensus pattern (18 bp):
CCCTCTACCCCTACCTCT
Found at i:118716603 original size:32 final size:32
Alignment explanation
Indices: 118716567--118716630 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
118716557 ATTACATGAC
118716567 AAGTATAAATATATGCTCGATCAAGGTAAAGG
1 AAGTATAAATATATGCTCGATCAAGGTAAAGG
* *
118716599 AAGTATAAATATATGTTTGATCAAGGTAAAGG
1 AAGTATAAATATATGCTCGATCAAGGTAAAGG
118716631 TTTTGTTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (32 bp):
AAGTATAAATATATGCTCGATCAAGGTAAAGG
Found at i:118717443 original size:19 final size:21
Alignment explanation
Indices: 118717415--118717457 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
118717405 TTAAAACATG
*
118717415 ACATGAGT-AATATATT-ATT
1 ACATGAGTAAACATATTGATT
*
118717434 ACATGTGTAAACATATTGATT
1 ACATGAGTAAACATATTGATT
118717455 ACA
1 ACA
118717458 CACAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (21 bp):
ACATGAGTAAACATATTGATT
Found at i:118720418 original size:7 final size:7
Alignment explanation
Indices: 118720406--118720430 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
118720396 GTTAGCCAAC
118720406 TAGCGAG
1 TAGCGAG
118720413 TAGCGAG
1 TAGCGAG
118720420 TAGCGAG
1 TAGCGAG
118720427 TAGC
1 TAGC
118720431 AAGTCGCTAA
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:0.28, C:0.16, G:0.40, T:0.16
Consensus pattern (7 bp):
TAGCGAG
Found at i:118720742 original size:30 final size:31
Alignment explanation
Indices: 118720686--118720747 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
118720676 TCTTGGGACT
* *
118720686 AAATTTTGGGAGGTTTAGTAATTTTTTTTAA
1 AAATTTTAGGAGGTTTAATAATTTTTTTTAA
118720717 AAATTTTAGGA-GTTTAATGAATTTTTTTTAA
1 AAATTTTAGGAGGTTTAAT-AATTTTTTTTAA
118720748 TTTGGGAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (31 bp):
AAATTTTAGGAGGTTTAATAATTTTTTTTAA
Found at i:118720755 original size:27 final size:28
Alignment explanation
Indices: 118720685--118720761 Score: 77
Period size: 31 Copynumber: 2.7 Consensus size: 28
118720675 GTCTTGGGAC
*
118720685 TAAATTTTGGGAGGTTTAGTAATTTTTTT
1 TAAATTTTGGGA-GTTTAATAATTTTTTT
*
118720714 TAAAAATTTTAGGAGTTTAATGAATTTTTTT
1 T--AAATTTTGGGAGTTTAAT-AATTTTTTT
*
118720745 T-AA-TTTGGGAGTCTAAT
1 TAAATTTTGGGAGTTTAAT
118720762 TAAAATTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
27 12 0.29
28 2 0.05
29 1 0.02
30 6 0.15
31 20 0.49
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.51
Consensus pattern (28 bp):
TAAATTTTGGGAGTTTAATAATTTTTTT
Found at i:118721456 original size:31 final size:31
Alignment explanation
Indices: 118721421--118721481 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
118721411 GCTTAGTGAT
* *
118721421 TTAAATAAAAACATTT-GAATAGTTCAATAAC
1 TTAAATAAAAAC-TTTCAAATAATTCAATAAC
*
118721452 TTAAATGAAAACTTTCAAATAATTCAATAA
1 TTAAATAAAAACTTTCAAATAATTCAATAA
118721482 TCATATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (31 bp):
TTAAATAAAAACTTTCAAATAATTCAATAAC
Found at i:118723674 original size:31 final size:31
Alignment explanation
Indices: 118723636--118723694 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
118723626 CAATCAAGTG
118723636 ACTTAAATAAAAACTTTCTG-ATAATTCAATA
1 ACTTAAATAAAAA-TTTCTGAATAATTCAATA
* *
118723667 ACTTAAATGAAAATTTTTGAATAATTCA
1 ACTTAAATAAAAATTTCTGAATAATTCA
118723695 GTAATCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (31 bp):
ACTTAAATAAAAATTTCTGAATAATTCAATA
Found at i:118725180 original size:15 final size:15
Alignment explanation
Indices: 118725162--118725202 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
118725152 CTTTTCTAGA
118725162 TCTTCCTCTTCTTCC
1 TCTTCCTCTTCTTCC
* *
118725177 TCTTTCTTTTCTTCC
1 TCTTCCTCTTCTTCC
*
118725192 TCTTCTTCTTC
1 TCTTCCTCTTC
118725203 ATTTTCTTCG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (15 bp):
TCTTCCTCTTCTTCC
Found at i:118725201 original size:21 final size:21
Alignment explanation
Indices: 118725171--118725211 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
118725161 ATCTTCCTCT
118725171 TCTTCCTCTTTC-TTTTCTTCC
1 TCTTCCTC-TTCATTTTCTTCC
*
118725192 TCTTCTTCTTCATTTTCTTC
1 TCTTCCTCTTCATTTTCTTC
118725212 GGGAGGATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.63
Consensus pattern (21 bp):
TCTTCCTCTTCATTTTCTTCC
Found at i:118728677 original size:38 final size:39
Alignment explanation
Indices: 118728593--118728727 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
118728583 ACCAATATGG
*
118728593 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
118728632 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
118728670 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
118728711 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
118728728 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:118730306 original size:5 final size:5
Alignment explanation
Indices: 118730296--118730323 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
118730286 TTTATATATA
118730296 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
118730324 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:118736459 original size:38 final size:39
Alignment explanation
Indices: 118736375--118736509 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
118736365 ACCAATATGG
*
118736375 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
118736414 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
118736452 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
118736493 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
118736510 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:118743945 original size:31 final size:29
Alignment explanation
Indices: 118743847--118743946 Score: 78
Period size: 31 Copynumber: 3.3 Consensus size: 29
118743837 TTCATTTGAG
* *
118743847 TACCAAATTAAATATTAAGATCAAATTTAA
1 TACCAAATT-AATATTAAAATAAAATTTAA
** *
118743877 GTATTAAATTAA-AATAAAA-AAAATTTATA
1 -TACCAAATTAATATTAAAATAAAATTTA-A
* *
118743906 TACAAAATTACATATTAAAATTAAATTTAGA
1 TACCAAATTA-ATATTAAAATAAAATTTA-A
118743937 TACCAAATTA
1 TACCAAATTA
118743947 TAAAGTTAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
28 15 0.28
29 7 0.13
30 8 0.15
31 24 0.44
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (29 bp):
TACCAAATTAATATTAAAATAAAATTTAA
Found at i:118744394 original size:116 final size:116
Alignment explanation
Indices: 118744172--118744397 Score: 312
Period size: 116 Copynumber: 1.9 Consensus size: 116
118744162 TATTTGTGAT
* ** *
118744172 GCTATGGAATTTTTAAGAAGATTACTTGTTTAAAATTAGAAATTAAGGAAGTTAATTTCTCTTTG
1 GCTATGGAATTTTCAAGAAGATTACTTGTTTAAAATTAGAAACAAAGGAAGTTAATTGCTCTTTG
*
118744237 CTTTGATTTCATGGAAAACCCAAATTGACTTCTTATATGAAAGCCGCAGTA
66 CTTTGATTTCATGGAAAACCCAAATTGACTTATTATATGAAAGCCGCAGTA
* * *
118744288 GCTATGGCATTTTCAAG-AGATTTCTTGTTTAAAATTAGATACAAAGGAAGTTAATTGCTCTTT-
1 GCTATGGAATTTTCAAGAAGATTACTTGTTTAAAATTAGAAACAAAGGAAGTTAATTGCTCTTTG
* ** *
118744351 CTTTTAGCTTTCATGGAAAATTCAAATTGACTTATTATTTGAAAGCC
66 C-TTT-GATTTCATGGAAAACCCAAATTGACTTATTATATGAAAGCC
118744398 TCGCTAACTC
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
114 1 0.01
115 44 0.46
116 51 0.53
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.38
Consensus pattern (116 bp):
GCTATGGAATTTTCAAGAAGATTACTTGTTTAAAATTAGAAACAAAGGAAGTTAATTGCTCTTTG
CTTTGATTTCATGGAAAACCCAAATTGACTTATTATATGAAAGCCGCAGTA
Found at i:118746070 original size:24 final size:24
Alignment explanation
Indices: 118746038--118746083 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
118746028 TGTAACATAG
118746038 ATGTATTAACAATCTGAATTATAA
1 ATGTATTAACAATCTGAATTATAA
118746062 ATGTATTAACAATCTGAATTAT
1 ATGTATTAACAATCTGAATTAT
118746084 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (24 bp):
ATGTATTAACAATCTGAATTATAA
Found at i:118746098 original size:5 final size:6
Alignment explanation
Indices: 118746080--118746105 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
118746070 ACAATCTGAA
118746080 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
118746106 TGTATTTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:118750401 original size:18 final size:18
Alignment explanation
Indices: 118750374--118750448 Score: 53
Period size: 18 Copynumber: 4.6 Consensus size: 18
118750364 TTAAGATTGA
118750374 ATTT-ATATTATTAAATT
1 ATTTGATATTATTAAATT
118750391 ATTTGATATTACTT--ATT
1 ATTTGATATTA-TTAAATT
*
118750408 -TTTG--A--A-TAAATGA
1 ATTTGATATTATTAAAT-T
118750421 ATTT-ATATTATTAAATT
1 ATTTGATATTATTAAATT
118750438 ATTTGATATTA
1 ATTTGATATTA
118750449 CTTATTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 23
0.64 0.03 0.33
Matches are distributed among these distances:
10 1 0.02
12 3 0.07
14 4 0.09
15 1 0.02
16 4 0.09
17 12 0.27
18 17 0.39
19 2 0.05
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (18 bp):
ATTTGATATTATTAAATT
Found at i:118750751 original size:16 final size:17
Alignment explanation
Indices: 118750730--118750767 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
118750720 AAATTATGAA
*
118750730 TTTTATTCGTA-ATTTT
1 TTTTATTCATATATTTT
118750746 TTTTATTCATATATTTT
1 TTTTATTCATATATTTT
118750763 TTTTA
1 TTTTA
118750768 ATTTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTATTCATATATTTT
Found at i:118751094 original size:19 final size:19
Alignment explanation
Indices: 118751070--118751106 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
118751060 TATAGGGATT
* *
118751070 AAAATTGACTAATTTAAAA
1 AAAATTAACTAAATTAAAA
118751089 AAAATTAACTAAATTAAA
1 AAAATTAACTAAATTAAA
118751107 GTATATAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAATTAACTAAATTAAAA
Found at i:118752408 original size:7 final size:7
Alignment explanation
Indices: 118752393--118752432 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
118752383 TTTTTCTCGA
*
118752393 ATTTCAG
1 ATTTAAG
118752400 ATTTAAG
1 ATTTAAG
*
118752407 ATTTATG
1 ATTTAAG
*
118752414 ATTTAGG
1 ATTTAAG
118752421 ATTTAAG
1 ATTTAAG
118752428 ATTTA
1 ATTTA
118752433 TATTGGGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (7 bp):
ATTTAAG
Found at i:118754567 original size:18 final size:19
Alignment explanation
Indices: 118754544--118754580 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
118754534 ATTATTAATT
*
118754544 AATATATTA-TTTTTATTA
1 AATATAATATTTTTTATTA
118754562 AATATAATATTTTTTATTA
1 AATATAATATTTTTTATTA
118754581 TATGTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATATAATATTTTTTATTA
Found at i:118754590 original size:20 final size:20
Alignment explanation
Indices: 118754553--118754596 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
118754543 TAATATATTA
118754553 TTTTTATTAAATATAAT-AT
1 TTTTTATTAAATATAATAAT
* *
118754572 TTTTTATTATATGTGAATAAT
1 TTTTTATTAAATAT-AATAAT
118754593 TTTT
1 TTTT
118754597 CAAAATGTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
20 3 0.14
21 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTTATTAAATATAATAAT
Found at i:118756155 original size:39 final size:39
Alignment explanation
Indices: 118756102--118756179 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
118756092 GGTGGTCAAC
*
118756102 ATAATAAAGGGCAACAAAATCCACCAGATTCAGAACCCA
1 ATAATAAAGGGCAACAAAATCCAACAGATTCAGAACCCA
*
118756141 ATAATCAAGGGCAACAAAATCCAACAGATTCAGAACCCA
1 ATAATAAAGGGCAACAAAATCCAACAGATTCAGAACCCA
118756180 TTCCTCCACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.49, C:0.26, G:0.13, T:0.13
Consensus pattern (39 bp):
ATAATAAAGGGCAACAAAATCCAACAGATTCAGAACCCA
Found at i:118759792 original size:19 final size:19
Alignment explanation
Indices: 118759768--118759806 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
118759758 ATGTAACAAA
118759768 ACAGAACTATAAAAACTTT
1 ACAGAACTATAAAAACTTT
118759787 ACAGAACTATAAAAACTTT
1 ACAGAACTATAAAAACTTT
118759806 A
1 A
118759807 TAAATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.26
Consensus pattern (19 bp):
ACAGAACTATAAAAACTTT
Found at i:118765974 original size:22 final size:22
Alignment explanation
Indices: 118765932--118765974 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
118765922 AAAATTATCG
* *
118765932 AATTGAATTCAAGTTATTTTTA
1 AATTGAATTCAAGATACTTTTA
118765954 AATTGAATTCAA-ATAGCTTTT
1 AATTGAATTCAAGATA-CTTTT
118765975 GAGTGCTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (22 bp):
AATTGAATTCAAGATACTTTTA
Found at i:118768280 original size:12 final size:12
Alignment explanation
Indices: 118768263--118768294 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
118768253 CGAACAAATC
*
118768263 ATGATGATCATG
1 ATGATGATCACG
118768275 ATGATGATCACG
1 ATGATGATCACG
118768287 ATGATGAT
1 ATGATGAT
118768295 GATCATAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.31
Consensus pattern (12 bp):
ATGATGATCACG
Found at i:118774202 original size:18 final size:17
Alignment explanation
Indices: 118774162--118774204 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
118774152 GAATTAAATT
118774162 TTATTTATTTTTTTAAAA
1 TTATTT-TTTTTTTAAAA
* *
118774180 ATATTTTTTTTGTTTAAA
1 TTATTTTTTTT-TTAAAA
118774198 TTATTTT
1 TTATTTT
118774205 ATTCCAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
TTATTTTTTTTTTAAAA
Found at i:118776980 original size:21 final size:20
Alignment explanation
Indices: 118776936--118776974 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
118776926 GAATAACAGC
*
118776936 AAAAAAAAAAAAAAGCGCAG
1 AAAAAAAAAAAAAAGAGCAG
118776956 AAAAAAAAAAAAGAAGAGC
1 AAAAAAAAAAAA-AAGAGC
118776975 TAAAAAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAAAGAGCAG
Found at i:118781071 original size:57 final size:57
Alignment explanation
Indices: 118780972--118781082 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 57
118780962 ATTGAATCTT
* *
118780972 AAATTTGAGTGTAACACGGGGATCAAAATTGAAATTTGACCATTATTA-TATAAATTG
1 AAATTTGAGTGTAACACGAGGATCAAAATTAAAATTTGACCATT-TTACTATAAATTG
* * * *
118781029 AAATTTGTGTGTAGCATGAGGATTAAAATTTAAAATTT-ACCATTTTACTATAAA
1 AAATTTGAGTGTAACACGAGGATCAAAA-TTAAAATTTGACCATTTTACTATAAA
118781083 ATGTAAATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
56 3 0.07
57 35 0.76
58 8 0.17
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (57 bp):
AAATTTGAGTGTAACACGAGGATCAAAATTAAAATTTGACCATTTTACTATAAATTG
Found at i:118788974 original size:641 final size:641
Alignment explanation
Indices: 118787753--118788977 Score: 2450
Period size: 641 Copynumber: 1.9 Consensus size: 641
118787743 AATTGAAATT
118787753 AGCATTTCAAATTAGACATGTCATTCTATCAAACCCAACCCCATAGTAACTATCTTCAAATTCTT
1 AGCATTTCAAATTAGACATGTCATTCTATCAAACCCAACCCCATAGTAACTATCTTCAAATTCTT
118787818 GCCCAATTTGATAAGTGATAACAGCTTCAAGACCAAGATGCAATGTTGTCCTTAGTGAACAGTAC
66 GCCCAATTTGATAAGTGATAACAGCTTCAAGACCAAGATGCAATGTTGTCCTTAGTGAACAGTAC
118787883 CACAAGTCCATTCATCATACCCAACACATATCAATGGCATTTGACACAAAACACAACCTGTTTTA
131 CACAAGTCCATTCATCATACCCAACACATATCAATGGCATTTGACACAAAACACAACCTGTTTTA
118787948 CTAAAAAAAATTAACCCCAACAATGATCCAAGATTGCACTCATACCAACATTCCTTCATCAAGAC
196 CTAAAAAAAATTAACCCCAACAATGATCCAAGATTGCACTCATACCAACATTCCTTCATCAAGAC
118788013 CCAAGTTCTTGCAGGAAACACTCACAGCTGTAACACACAACAGCAAAATTCATTTGCAACTCAAT
261 CCAAGTTCTTGCAGGAAACACTCACAGCTGTAACACACAACAGCAAAATTCATTTGCAACTCAAT
118788078 ACACCATAAGGGTATTAGATCCATTTGCTCGACATGCAACATAAGGAAGAGATAACAGGTTGTAC
326 ACACCATAAGGGTATTAGATCCATTTGCTCGACATGCAACATAAGGAAGAGATAACAGGTTGTAC
118788143 AATCCCAACTGTTGTGTAACTATTACATAGACACTGAACAAACATCATTGAACTGGAATAGTTAC
391 AATCCCAACTGTTGTGTAACTATTACATAGACACTGAACAAACATCATTGAACTGGAATAGTTAC
118788208 CAAATAATGTTCACATAAACATCTAAGCATTTAAAAAGGGCTACAAGACCCATATGCAAATAAAT
456 CAAATAATGTTCACATAAACATCTAAGCATTTAAAAAGGGCTACAAGACCCATATGCAAATAAAT
118788273 CATATAGAAACAAGGTACGAGGAATACTAGAAGTAAAACAACATGAAGAGCGGGTCTGTTTACAC
521 CATATAGAAACAAGGTACGAGGAATACTAGAAGTAAAACAACATGAAGAGCGGGTCTGTTTACAC
118788338 TGAACAAACATCATTGAACTGGAATAGTTACCAAATAATGTTCACATAAACATCTA
586 TGAACAAACATCATTGAACTGGAATAGTTACCAAATAATGTTCACATAAACATCTA
118788394 AGCATTTCAAATTAGACATGTCATTCTATCAAACCCAACCCCATAGTAACTATCTTCAAATTCTT
1 AGCATTTCAAATTAGACATGTCATTCTATCAAACCCAACCCCATAGTAACTATCTTCAAATTCTT
118788459 GCCCAATTTGATAAGTGATAACAGCTTCAAGACCAAGATGCAATGTTGTCCTTAGTGAACAGTAC
66 GCCCAATTTGATAAGTGATAACAGCTTCAAGACCAAGATGCAATGTTGTCCTTAGTGAACAGTAC
118788524 CACAAGTCCATTCATCATACCCAACACATATCAATGGCATTTGACACAAAACACAACCTGTTTTA
131 CACAAGTCCATTCATCATACCCAACACATATCAATGGCATTTGACACAAAACACAACCTGTTTTA
118788589 CTAAAAAAAATTAACCCCAACAATGATCCAAGATTGCACTCATACCAACATTCCTTCATCAAGAC
196 CTAAAAAAAATTAACCCCAACAATGATCCAAGATTGCACTCATACCAACATTCCTTCATCAAGAC
118788654 CCAAGTTCTTGCAGGAAACACTCACAGCTGTAACACACAACAGCAAAATTCATTTGCAACTCAAT
261 CCAAGTTCTTGCAGGAAACACTCACAGCTGTAACACACAACAGCAAAATTCATTTGCAACTCAAT
118788719 ACACCATAAGGGTATTAGATCCATTTGCTCGACATGCAACATAAGGAAGAGATAACAGGTTGTAC
326 ACACCATAAGGGTATTAGATCCATTTGCTCGACATGCAACATAAGGAAGAGATAACAGGTTGTAC
118788784 AATCCCAACTGTTGTGTAACTATTACATAGACACTGAACAAACATCATTGAACTGGAATAGTTAC
391 AATCCCAACTGTTGTGTAACTATTACATAGACACTGAACAAACATCATTGAACTGGAATAGTTAC
118788849 CAAATAATGTTCACATAAACATCTAAGCATTTAAAAAGGGCTACAAGACCCATATGCAAATAAAT
456 CAAATAATGTTCACATAAACATCTAAGCATTTAAAAAGGGCTACAAGACCCATATGCAAATAAAT
118788914 CATATAGAAACAAGGTACGAGGAATACTAGAAGTAAAACAACATGAAGAGCGGGTCTGTTTACA
521 CATATAGAAACAAGGTACGAGGAATACTAGAAGTAAAACAACATGAAGAGCGGGTCTGTTTACA
118788978 TGACATTGGA
Statistics
Matches: 584, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
641 584 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (641 bp):
AGCATTTCAAATTAGACATGTCATTCTATCAAACCCAACCCCATAGTAACTATCTTCAAATTCTT
GCCCAATTTGATAAGTGATAACAGCTTCAAGACCAAGATGCAATGTTGTCCTTAGTGAACAGTAC
CACAAGTCCATTCATCATACCCAACACATATCAATGGCATTTGACACAAAACACAACCTGTTTTA
CTAAAAAAAATTAACCCCAACAATGATCCAAGATTGCACTCATACCAACATTCCTTCATCAAGAC
CCAAGTTCTTGCAGGAAACACTCACAGCTGTAACACACAACAGCAAAATTCATTTGCAACTCAAT
ACACCATAAGGGTATTAGATCCATTTGCTCGACATGCAACATAAGGAAGAGATAACAGGTTGTAC
AATCCCAACTGTTGTGTAACTATTACATAGACACTGAACAAACATCATTGAACTGGAATAGTTAC
CAAATAATGTTCACATAAACATCTAAGCATTTAAAAAGGGCTACAAGACCCATATGCAAATAAAT
CATATAGAAACAAGGTACGAGGAATACTAGAAGTAAAACAACATGAAGAGCGGGTCTGTTTACAC
TGAACAAACATCATTGAACTGGAATAGTTACCAAATAATGTTCACATAAACATCTA
Found at i:118790970 original size:25 final size:25
Alignment explanation
Indices: 118790936--118790986 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
118790926 AAGAAGTAAT
118790936 TGGTTCTTTGACACAAAACGGAACA
1 TGGTTCTTTGACACAAAACGGAACA
*
118790961 TGGTTCTTTGATACAAAACGGAACA
1 TGGTTCTTTGACACAAAACGGAACA
118790986 T
1 T
118790987 ATTCGCTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (25 bp):
TGGTTCTTTGACACAAAACGGAACA
Found at i:118796236 original size:166 final size:166
Alignment explanation
Indices: 118795974--118796286 Score: 475
Period size: 166 Copynumber: 1.9 Consensus size: 166
118795964 CACCACATTC
* * * *
118795974 CAATACATAGATGACAATCAAAGATGGATATAGATAAAAATCCAAGAGCGAAAACAAGATTTTAA
1 CAATACATAGATGACAAACAAAAATGAATACAGATAAAAATCCAAGAGCGAAAACAAGATTTTAA
* * * *
118796039 GCATTCAACACACCATATTTCAATGCATTGATCTAGTGTGCAAAAATTATAACACATAATTTAAT
66 ACATTCAACACACCATATTTCAATACATTGATCTAGTATGCAAAAATTAAAACACATAATTTAAT
* *
118796104 AAGTCGACGAACAAAGACATTCAAGATGCTACAGTT
131 AAGTCAACAAACAAAGACATTCAAGATGCTACAGTT
* * *
118796140 CAATACATAGATGACAAACAAAAATGAATGCAGATCAAAATCCAAGAGC-AAAGACACGATTTTA
1 CAATACATAGATGACAAACAAAAATGAATACAGATAAAAATCCAAGAGCGAAA-ACAAGATTTTA
* *
118796204 AACATTCAACACACCATATTTCGATACATTGATCTAGTATGCAAAATTTAAAACACATAATTTAA
65 AACATTCAACACACCATATTTCAATACATTGATCTAGTATGCAAAAATTAAAACACATAATTTAA
118796269 TAAGTCAACAAACAAAGA
130 TAAGTCAACAAACAAAGA
118796287 TGAATATAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
165 3 0.02
166 128 0.98
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (166 bp):
CAATACATAGATGACAAACAAAAATGAATACAGATAAAAATCCAAGAGCGAAAACAAGATTTTAA
ACATTCAACACACCATATTTCAATACATTGATCTAGTATGCAAAAATTAAAACACATAATTTAAT
AAGTCAACAAACAAAGACATTCAAGATGCTACAGTT
Found at i:118799611 original size:24 final size:25
Alignment explanation
Indices: 118799567--118799617 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
118799557 TTTATTTATA
118799567 TTATATTATTTTAATATTTAATAATT
1 TTATATTATTTTAATATTTAA-AATT
*
118799593 TTATATT-TTTTATTA-TTAAAATT
1 TTATATTATTTTAATATTTAAAATT
118799616 TT
1 TT
118799618 TTATATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 4 0.17
25 7 0.29
26 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TTATATTATTTTAATATTTAAAATT
Found at i:118801119 original size:21 final size:20
Alignment explanation
Indices: 118801093--118801180 Score: 83
Period size: 21 Copynumber: 4.3 Consensus size: 20
118801083 GACGATGATG
118801093 ATAAAAAGAGTAAAAAGAAGA
1 ATAAAAAGAG-AAAAAGAAGA
*
118801114 ATAAAAAGAAGAACAAGAAGA
1 ATAAAAAG-AGAAAAAGAAGA
* *
118801135 ATAAGAAGGAGAAAAAGGAGA
1 ATAA-AAAGAGAAAAAGAAGA
*
118801156 A-AAAGAAGAGCAAAA-AAGA
1 ATAAA-AAGAGAAAAAGAAGA
118801175 A-AAAAA
1 ATAAAAA
118801181 TACGATGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.04
19 8 0.14
20 10 0.18
21 32 0.56
22 5 0.09
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.05
Consensus pattern (20 bp):
ATAAAAAGAGAAAAAGAAGA
Found at i:118804267 original size:19 final size:19
Alignment explanation
Indices: 118804245--118804292 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
118804235 TATTTCATCT
118804245 AAATATTTTTATTTTAAAA
1 AAATATTTTTATTTTAAAA
** *
118804264 AAAT-TTTAAATTTTTAAA
1 AAATATTTTTATTTTAAAA
118804282 AAATATTTTTA
1 AAATATTTTTA
118804293 CCTACCATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AAATATTTTTATTTTAAAA
Found at i:118809039 original size:436 final size:432
Alignment explanation
Indices: 118808101--118809395 Score: 1745
Period size: 436 Copynumber: 3.0 Consensus size: 432
118808091 TTTTTTCATT
* * * * * * * * *
118808101 AAAAGTTCTTACTGTTAGTGGTGTTCGCGATTCTCTAGTGGATT-GCCTCGCATTAATACCTACA
1 AAAAGTTCATAATGTTAGTAGCGTTCCCGATTCTCCAATGGATTGGCC-CACAATAATACCTACA
* * *
118808165 ACTTCTCCCAATTCAACTAGGTCACCATGAGTGGGGCT-TCGACAATATCATAATAGTGATATGT
65 ACTTCTCCCAATTCAACTA-GTCA-CTTGAGTGGGGCTCT-GACCATAACATAATAGTGATATGT
** * * * * * *
118808229 CTAAATTGCAAGTTGATATGACATTACTAGTAATAATATGTTTGTAATATGATATTTTGGAAATA
127 GAAAATAGCAAGTTGATATAACATTA-TAATAATAATATGTTAGTAGTATCATATTTTGGAAATA
* * * *
118808294 TTAGAATTGAACTTAATTAATTTATCATTTACTGTTTGATCATGATTAAAATTTTAAAATTCACA
191 ATAGAATTGAACTTAATGAATTTAACATTTATTGTTTGATCATGATTAAAATTTTAAAATTCACA
* * * *
118808359 AAGCATAAGACTAAAATTAAG-GTGTGGGACTAAATCCATAATTTAAATATAATATAGGGATTAA
256 AAGCATATGACTAAAATTAAGTGTG-GGGACTAAATCCATAATTTAAACATAATATAGGGACTGA
* * *
118808423 TAGCAAAATTTAACCTTTTATTAACTAATCTTCTTGTAAACACGGAGTGCTAATAAAAAAAACCC
320 TAGTAAAATTTAACCTTTTATTAACTAATCTTCTTGTAAACAAGGAGAGCTAATAAAAAAAACCC
*
118808488 AAAATATTTTTATTAAGGTCAAATTCTACTAAATACTATATCGATATG
385 AAAATATTTTTATTAAGGTCAAATTCTACTAAATACTATACCGATATG
* * * * * *
118808536 AAAAGTTCATAATCTTAGTTGCGTCCCCAATTCTCCAATAGATTGCCCCACAATAATACCTACAA
1 AAAAGTTCATAATGTTAGTAGCGTTCCCGATTCTCCAATGGATTGGCCCACAATAATACCTACAA
* *
118808601 CTTCTCCCAATTCAATTACGTCATTGTGAGTGGGGCTCTGACCATAACATAATAGTGATATGTGA
66 CTTCTCCCAATTCAACTA-GTCACT-TGAGTGGGGCTCTGACCATAACATAATAGTGATATGTGA
* *
118808666 AAATAGCAAGTTGATATAACATTATACATAATAATATGTTAGTAGCATCATGTTTTGGAAATAAT
129 AAATAGCAAGTTGATATAACATTATA-ATAATAATATGTTAGTAGTATCATATTTTGGAAATAAT
* * *
118808731 AGAATTGACCTTAATGAATTTAACATTTATTCTTTGATCATGATTAAAATTTTAAAATTCATAAA
193 AGAATTGAACTTAATGAATTTAACATTTATTGTTTGATCATGATTAAAATTTTAAAATTCACAAA
118808796 GCATATGACTAAAATTAGAGTGTGGGGACTAAATCCATAATTTAAACATAATATAGGGACTGATA
258 GCATATGACTAAAATTA-AGTGTGGGGACTAAATCCATAATTTAAACATAATATAGGGACTGATA
* *
118808861 GTAAAATTTAACATTTTATTAACTAACCTTCTTGTAAACAAGGAGAGCTAATAAAAAAAACCCAA
322 GTAAAATTTAACCTTTTATTAACTAATCTTCTTGTAAACAAGGAGAGCTAATAAAAAAAACCCAA
* * *
118808926 AATAATTTTATTAAGGTCAAATTCTACTAAATACTCTGCC-AGTATG
387 AATATTTTTATTAAGGTCAAATTCTACTAAATACTATACCGA-TATG
* *
118808972 AAAAGTTCCTAATGTTAGTAGCGTTCCCGATTCTCCAATGGATTGGCCCACAGTAATACCTACAA
1 AAAAGTTCATAATGTTAGTAGCGTTCCCGATTCTCCAATGGATTGGCCCACAATAATACCTACAA
*
118809037 CTTCTCCCAATTCAACTAGATCACCTTGAGTGGGGCTCTGACCATAACATAATACTGATATGTGA
66 CTTCTCCCAATTCAACTAG-TCA-CTTGAGTGGGGCTCTGACCATAACATAATAGTGATATGTGA
* * *
118809102 ATATAACAAGTTGATATAACATTACATATAATAATATGTTAGTAGTATCATATTTTGGAAATAAT
129 AAATAGCAAGTTGATATAACATTATA-ATAATAATATGTTAGTAGTATCATATTTTGGAAATAAT
*
118809167 AGAATTGAACTTAATGAATTTAACATTTTTTTGTTTGATCATGATTAAAATTTTAAAATTCACAA
193 AGAATTGAACTTAATGAATTTAACA-TTTATTGTTTGATCATGATTAAAATTTTAAAATTCACAA
* * * *
118809232 AGTATATGACGTACTAAAATTAAAGTGTGAGGACTAAATCTATAATTTAAACATAGTATAGGGAC
257 AGCATAT---G-ACTAAAATT-AAGTGTGGGGACTAAATCCATAATTTAAACATAATATAGGGAC
* * * * * * *
118809297 TGATAATAAAATTGAACCTTTTATTAACTAATCTTCCTCTAAACAAGGA-ACTCTATTAGAAAAA
317 TGATAGTAAAATTTAACCTTTTATTAACTAATCTTCTTGTAAACAAGGAGA-GCTAATAAAAAAA
*
118809361 ACCCAAAATATTTTTGTTAAGGTCAAATTCTACTA
381 ACCCAAAATATTTTTATTAAGGTCAAATTCTACTA
118809396 TTTGTTCATT
Statistics
Matches: 758, Mismatches: 86, Indels: 26
0.87 0.10 0.03
Matches are distributed among these distances:
434 2 0.00
435 232 0.31
436 341 0.45
437 46 0.06
440 2 0.00
441 134 0.18
442 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (432 bp):
AAAAGTTCATAATGTTAGTAGCGTTCCCGATTCTCCAATGGATTGGCCCACAATAATACCTACAA
CTTCTCCCAATTCAACTAGTCACTTGAGTGGGGCTCTGACCATAACATAATAGTGATATGTGAAA
ATAGCAAGTTGATATAACATTATAATAATAATATGTTAGTAGTATCATATTTTGGAAATAATAGA
ATTGAACTTAATGAATTTAACATTTATTGTTTGATCATGATTAAAATTTTAAAATTCACAAAGCA
TATGACTAAAATTAAGTGTGGGGACTAAATCCATAATTTAAACATAATATAGGGACTGATAGTAA
AATTTAACCTTTTATTAACTAATCTTCTTGTAAACAAGGAGAGCTAATAAAAAAAACCCAAAATA
TTTTTATTAAGGTCAAATTCTACTAAATACTATACCGATATG
Found at i:118809696 original size:63 final size:64
Alignment explanation
Indices: 118809612--118809733 Score: 158
Period size: 64 Copynumber: 1.9 Consensus size: 64
118809602 ATTTACACAT
* * * * *
118809612 AATATAGGGACTAATAGC-AAA-ATTTAACCTTTTTATTAACTAAACTTCCTCTAAACAAGGAAC
1 AATAAAGGGACTAACAACAAAATATTTAA-CATTTTACTAACTAAACTTCCTCTAAACAAGGAAC
* *
118809675 AATAAAGGGACTAACAACAAAATATTTAACATTTTACTAACTAATCTTCCTTTAAACAA
1 AATAAAGGGACTAACAACAAAATATTTAACATTTTACTAACTAAACTTCCTCTAAACAA
118809734 AGAGCAATCA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 15 0.30
64 29 0.58
65 6 0.12
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.30
Consensus pattern (64 bp):
AATAAAGGGACTAACAACAAAATATTTAACATTTTACTAACTAAACTTCCTCTAAACAAGGAAC
Found at i:118813015 original size:30 final size:30
Alignment explanation
Indices: 118812960--118813021 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
118812950 CTTAACAAGC
*
118812960 AAATACCTCTAAAATAATAATAAAATTAAT
1 AAATACCTCTAAAATAATAAAAAAATTAAT
* * *
118812990 AAATGCCTTTAAAGTAATAAAAAAATTAAT
1 AAATACCTCTAAAATAATAAAAAAATTAAT
118813020 AA
1 AA
118813022 TAAAATAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.08, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAAAAAAATTAAT
Found at i:118818091 original size:42 final size:42
Alignment explanation
Indices: 118817993--118818122 Score: 158
Period size: 42 Copynumber: 3.1 Consensus size: 42
118817983 TCATATAAAT
* *
118817993 TTCAGTTTAACCCTA-AGGGTTTTCCGTTTAGCTCTTTTGGAGC
1 TTCAGTTTAACCCTATTGGGTTTT-CGTTCAGCTCTTTT-GAGC
*
118818036 TTCGGTTTAACCCTATTGGG-TTTCAGTTCAGCTCTTTTGAGC
1 TTCAGTTTAACCCTATTGGGTTTTC-GTTCAGCTCTTTTGAGC
* *
118818078 TTCAGTTTAACCCT-TCTGGGTTTTCGTTCAGGTCTTATGAGC
1 TTCAGTTTAACCCTAT-TGGGTTTTCGTTCAGCTCTTTTGAGC
118818120 TTC
1 TTC
118818123 CGATCTACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 40 0.52
43 33 0.43
44 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.43
Consensus pattern (42 bp):
TTCAGTTTAACCCTATTGGGTTTTCGTTCAGCTCTTTTGAGC
Found at i:118820087 original size:18 final size:18
Alignment explanation
Indices: 118820059--118820108 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
118820049 AAATTAACCG
* **
118820059 AATTAATCGAATTACCTT
1 AATTAACCGAATTACCCA
* *
118820077 AATTACCCGAAGTACCCA
1 AATTAACCGAATTACCCA
118820095 AATTAACCGAATTA
1 AATTAACCGAATTA
118820109 TTTGTATAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (18 bp):
AATTAACCGAATTACCCA
Found at i:118823617 original size:120 final size:118
Alignment explanation
Indices: 118823444--118823676 Score: 351
Period size: 120 Copynumber: 2.0 Consensus size: 118
118823434 TTTCCAATTT
* * *
118823444 AAATTTATTTAAAATTTTAATATTTAAATCTTGACTCATGAAAAAGGATATATTACATGATTTAT
1 AAATTTAATTAAAATATTAATATTTAAATCTTGACTCATGAAAAAGGAAATATTACATGATTTAT
*
118823509 TTATTTTCAAGATTAAATAGAAATGTATTTT-TAAAAATTATATAAAAATAAAA
66 TTATTTTCAAGATTAAATAGAAATGCATTTTCT-AAAATTATATAAAAATAAAA
* *
118823562 AAATTATAATTAAAATATTAACTATTTAAATCTTGACTCATGGAACAGGAAATATTACATGATTT
1 AAATT-TAATTAAAATATTAA-TATTTAAATCTTGACTCATGAAAAAGGAAATATTACATGATTT
* **
118823627 GTTTATTTTCAAGATTAAATAGAAATGCATTTTCTTGAATTATATAAAAA
64 ATTTATTTTCAAGATTAAATAGAAATGCATTTTCTAAAATTATATAAAAA
118823677 ATTATAATTT
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
118 5 0.05
119 13 0.13
120 84 0.82
121 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.40
Consensus pattern (118 bp):
AAATTTAATTAAAATATTAATATTTAAATCTTGACTCATGAAAAAGGAAATATTACATGATTTAT
TTATTTTCAAGATTAAATAGAAATGCATTTTCTAAAATTATATAAAAATAAAA
Found at i:118827139 original size:32 final size:33
Alignment explanation
Indices: 118827089--118827154 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
118827079 CTATGAAAGA
* *
118827089 ATGTCGTATTTTTTTACCTAATCGAAGCCAATT
1 ATGTCATATTTTTTTACCTAACCGAAGCCAATT
118827122 ATGTCATA-TTTTTTACCTAACCGAAGCCAATT
1 ATGTCATATTTTTTTACCTAACCGAAGCCAATT
118827154 A
1 A
118827155 GTTCTCGCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 24 0.77
33 7 0.23
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (33 bp):
ATGTCATATTTTTTTACCTAACCGAAGCCAATT
Found at i:118834515 original size:7 final size:7
Alignment explanation
Indices: 118834503--118834538 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
118834493 ATTATAGTAA
118834503 TATTTTT
1 TATTTTT
118834510 TATTTTT
1 TATTTTT
118834517 TATTTTT
1 TATTTTT
118834524 TATTTTT
1 TATTTTT
118834531 TATTTTT
1 TATTTTT
118834538 T
1 T
118834539 GTGTGATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TATTTTT
Found at i:118834548 original size:21 final size:21
Alignment explanation
Indices: 118834502--118834548 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
118834492 TATTATAGTA
* *
118834502 ATATTTTTTATTTTTTATTTT
1 ATATTTTTTATTTTTTATGTG
* *
118834523 TTATTTTTTATTTTTTGTGTG
1 ATATTTTTTATTTTTTATGTG
118834544 ATATT
1 ATATT
118834549 AAAATTTTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (21 bp):
ATATTTTTTATTTTTTATGTG
Found at i:118834691 original size:23 final size:21
Alignment explanation
Indices: 118834659--118834717 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 21
118834649 AATTGATATG
*
118834659 TATATATAAAATATTTACTATAA
1 TATATTTAAAATATTT--TATAA
*
118834682 TATATTTAAAAATGATTTTATAT
1 TATATTT-AAAAT-ATTTTATAA
118834705 TATATTTAAAATA
1 TATATTTAAAATA
118834718 AAAAGTAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 1 0.03
22 5 0.16
23 17 0.53
24 5 0.16
25 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
TATATTTAAAATATTTTATAA
Found at i:118834877 original size:40 final size:40
Alignment explanation
Indices: 118834832--118834912 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
118834822 TTTTATTTTT
118834832 AGTTTCTAACTC-AAAAAATGTGAACCGTTCTTTTATAATC
1 AGTTTCTAACTCAAAAAAATGTGAACCGTTC-TTTATAATC
118834872 AGTTTCTAACTCAAAAAAATGTGAACCGTTCTTTATAATC
1 AGTTTCTAACTCAAAAAAATGTGAACCGTTCTTTATAATC
118834912 A
1 A
118834913 AGGCCTAATC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 22 0.55
41 18 0.45
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (40 bp):
AGTTTCTAACTCAAAAAAATGTGAACCGTTCTTTATAATC
Found at i:118836359 original size:47 final size:47
Alignment explanation
Indices: 118836295--118836405 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
118836285 GACATTGAGA
*
118836295 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
118836342 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
118836389 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
118836406 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:118840975 original size:17 final size:15
Alignment explanation
Indices: 118840928--118840979 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
118840918 ATTTAGTTTG
*
118840928 ATTTGGGTTATTTTGA
1 ATTT-GGTTATTTTTA
* *
118840944 ATTTGGTCATATTTA
1 ATTTGGTTATTTTTA
118840959 GATTTGAGTTATTTTTA
1 -ATTTG-GTTATTTTTA
118840976 ATTT
1 ATTT
118840980 TAATTAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 8 0.28
16 13 0.45
17 8 0.28
ACGTcount: A:0.23, C:0.02, G:0.17, T:0.58
Consensus pattern (15 bp):
ATTTGGTTATTTTTA
Found at i:118843412 original size:10 final size:10
Alignment explanation
Indices: 118843372--118843412 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
118843362 AACATAATTC
118843372 TCATAAAAAAA
1 TCAT-AAAAAA
*
118843383 T-AAAAAAAA
1 TCATAAAAAA
118843392 TCATAAAAAA
1 TCATAAAAAA
118843402 TCATAAAAAA
1 TCATAAAAAA
118843412 T
1 T
118843413 AATTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 7 0.26
10 19 0.70
11 1 0.04
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (10 bp):
TCATAAAAAA
Found at i:118843423 original size:23 final size:22
Alignment explanation
Indices: 118843372--118843425 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
118843362 AACATAATTC
118843372 TCATAAAAAA--ATAAAAAAAA
1 TCATAAAAAATCATAAAAAAAA
118843392 TCATAAAAAATCATAAAAAATAA
1 TCATAAAAAATCATAAAAAA-AA
*
118843415 TTATTAAAAAA
1 TCA-TAAAAAA
118843426 AACAAAACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.34
22 8 0.28
23 4 0.14
24 7 0.24
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (22 bp):
TCATAAAAAATCATAAAAAAAA
Found at i:118848267 original size:155 final size:155
Alignment explanation
Indices: 118848058--118848370 Score: 599
Period size: 155 Copynumber: 2.0 Consensus size: 155
118848048 ACACCATTTC
118848058 TCATCACTTTCTCTTATTTTCTCTTCACTAACATATCAAGAACATAGGACCTTATGTAAGAAAAC
1 TCATCACTTTCTCTTATTTTCTCTTCACTAACATATCAAGAACATAGGACCTTATGTAAGAAAAC
* *
118848123 TGTACTATAACATTATTTCCATGCTTTGTTAATAATAAGAAACTTAAAAACATATTGAAATCTTG
66 TCTACTATAACATTATTTCCATGCTTTGTTAATAATAACAAACTTAAAAACATATTGAAATCTTG
118848188 ATGTACTTACCTTTTCTTATTGACT
131 ATGTACTTACCTTTTCTTATTGACT
118848213 TCATCACTTTCTCTTATTTTCTCTTCACTAACATATCAAGAACATAGGACCTTATGTAAGAAAAC
1 TCATCACTTTCTCTTATTTTCTCTTCACTAACATATCAAGAACATAGGACCTTATGTAAGAAAAC
*
118848278 TCTACTATAACATTATTTCCATGCTTTGTTAATAATAACAAACTTAAAAACATGTTGAAATCTTG
66 TCTACTATAACATTATTTCCATGCTTTGTTAATAATAACAAACTTAAAAACATATTGAAATCTTG
118848343 ATGTACTTACCTTTTCTTATTGACT
131 ATGTACTTACCTTTTCTTATTGACT
118848368 TCA
1 TCA
118848371 ATCTTTAACT
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 155 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (155 bp):
TCATCACTTTCTCTTATTTTCTCTTCACTAACATATCAAGAACATAGGACCTTATGTAAGAAAAC
TCTACTATAACATTATTTCCATGCTTTGTTAATAATAACAAACTTAAAAACATATTGAAATCTTG
ATGTACTTACCTTTTCTTATTGACT
Found at i:118849676 original size:22 final size:20
Alignment explanation
Indices: 118849640--118849679 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
118849630 TTGATTATAT
118849640 TTAAAATATTAAATATTTAA
1 TTAAAATATTAAATATTTAA
118849660 TTAAAATAGTTTAAATATTT
1 TTAAAATA--TTAAATATTT
118849680 TTTTATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TTAAAATATTAAATATTTAA
Found at i:118854436 original size:16 final size:16
Alignment explanation
Indices: 118854415--118854450 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
118854405 TTAGATTGGT
* *
118854415 AATTAAGATATATTTA
1 AATTAAAATAAATTTA
118854431 AATTAAAATAAATTTA
1 AATTAAAATAAATTTA
118854447 AATT
1 AATT
118854451 TAAACATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AATTAAAATAAATTTA
Found at i:118861523 original size:19 final size:19
Alignment explanation
Indices: 118861484--118861524 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
118861474 CTTTACAATG
* *
118861484 TTTTATAAATAAAGTATTT
1 TTTTATAAAAAAAGTAATT
*
118861503 TTTTATAAAAAAATTAATT
1 TTTTATAAAAAAAGTAATT
118861522 TTT
1 TTT
118861525 AAGTAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTTATAAAAAAAGTAATT
Found at i:118864586 original size:14 final size:15
Alignment explanation
Indices: 118864567--118864595 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
118864557 ATTTTTTATA
118864567 TAAATTT-TATTTTT
1 TAAATTTATATTTTT
118864581 TAAATTTATATTTTT
1 TAAATTTATATTTTT
118864596 ATTCAAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TAAATTTATATTTTT
Found at i:118868253 original size:26 final size:26
Alignment explanation
Indices: 118868223--118868272 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
118868213 GTCATTAAAG
118868223 TTGATAGAAATATTCAATAAAAAAAA
1 TTGATAGAAATATTCAATAAAAAAAA
118868249 TTGATAGAAATATTCAATAAAAAA
1 TTGATAGAAATATTCAATAAAAAA
118868273 GTTGGCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
TTGATAGAAATATTCAATAAAAAAAA
Found at i:118869954 original size:14 final size:14
Alignment explanation
Indices: 118869935--118869964 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
118869925 TAAAAATTAT
*
118869935 AAATAATGGTAGTA
1 AAATAATAGTAGTA
118869949 AAATAATAGTAGTA
1 AAATAATAGTAGTA
118869963 AA
1 AA
118869965 CGGTAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.27
Consensus pattern (14 bp):
AAATAATAGTAGTA
Found at i:118874339 original size:23 final size:23
Alignment explanation
Indices: 118874309--118874352 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
118874299 TTAATCTATG
118874309 TATATTTAGTTTTAAAAATTTCA
1 TATATTTAGTTTTAAAAATTTCA
* *
118874332 TATATTTATTTTTTAAAATTT
1 TATATTTAGTTTTAAAAATTT
118874353 AAAATTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TATATTTAGTTTTAAAAATTTCA
Found at i:118886090 original size:21 final size:20
Alignment explanation
Indices: 118886048--118886102 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
118886038 ATTTTTAGGC
* *
118886048 AATTTAATAAAAAAATTGAA
1 AATTTAATAAAAAAACTAAA
*
118886068 AATTTAAGAAAAAGAACTAAA
1 AATTTAATAAAAA-AACTAAA
*
118886089 AATTAAATAAAAAA
1 AATTTAATAAAAAA
118886103 TTTTAATAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (20 bp):
AATTTAATAAAAAAACTAAA
Found at i:118886883 original size:3 final size:3
Alignment explanation
Indices: 118886875--118886916 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
118886865 GTTTTAACAG
118886875 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
118886917 GCAATAACAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:118888607 original size:26 final size:25
Alignment explanation
Indices: 118888565--118888621 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
118888555 TAAAAATTTA
*
118888565 TTAATAAAATATTTTTATAATTAAAT
1 TTAA-AAAATATATTTATAATTAAAT
* *
118888591 TTAAAAAATTATATTTATTATTTAAT
1 TTAAAAAA-TATATTTATAATTAAAT
118888617 TTAAA
1 TTAAA
118888622 TTGGACTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TTAAAAAATATATTTATAATTAAAT
Found at i:118889328 original size:16 final size:15
Alignment explanation
Indices: 118889275--118889329 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
118889265 TTCGAAATTG
*
118889275 TAATTTTTTTAAAAAT
1 TAATTTTTTT-AATAT
*
118889291 TAA-TTATTTAAT-T
1 TAATTTTTTTAATAT
118889304 TAGATTTTTTTCAATAT
1 TA-ATTTTTTT-AATAT
118889321 TAATTTTTT
1 TAATTTTTT
118889330 GGGTTTGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.09
14 3 0.09
15 10 0.31
16 13 0.41
17 3 0.09
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TAATTTTTTTAATAT
Found at i:118890292 original size:36 final size:36
Alignment explanation
Indices: 118890223--118890307 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 36
118890213 CTACCTTCAT
* * *
118890223 CCGATTTGCTTCCTTGTTTCTTTGTTTTTCTTTTCTG
1 CCGATTTGC-TCCTAGTTTATTTGTTTTTCTTTTCTA
*
118890260 TCGATTTGCTCCTAGTTTATTT-TCTTTTCTTTTCTA
1 CCGATTTGCTCCTAGTTTATTTGT-TTTTCTTTTCTA
118890296 CCGATTTGCTCC
1 CCGATTTGCTCC
118890308 CCCCGTTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 1 0.02
36 33 0.79
37 8 0.19
ACGTcount: A:0.07, C:0.24, G:0.12, T:0.58
Consensus pattern (36 bp):
CCGATTTGCTCCTAGTTTATTTGTTTTTCTTTTCTA
Found at i:118893557 original size:91 final size:91
Alignment explanation
Indices: 118893410--118893617 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 91
118893400 TTGATTTTAG
* *
118893410 TAAATTCATATAAGAACATTTTATTATTAAGAATGTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTAT
* * *
118893475 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* * * *
118893502 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTATA
118893567 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
118893593 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
118893618 GTTATAATTA
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 88 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:118893578 original size:44 final size:43
Alignment explanation
Indices: 118893448--118893592 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 43
118893438 AAGAATGTTA
* *
118893448 TGAAATTATATATCATTATTAAATTATATTTAATATTAATTATT
1 TGAAATTATATATAATTATTAAATTATA-TTAATAATAATTATT
* * * *
118893492 TTAAATTGTATA-AATTCATATAAGA-AAAATTATTATCAATAATT-TT
1 TGAAATTATATATAATT-AT-TAA-ATTATATTA--AT-AATAATTATT
*
118893538 ATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATT
1 -TGAAATTATATATAATTATTAAATTATAT-TAATAATAATTATT
*
118893583 TTAAATTATA
1 TGAAATTATA
118893593 CAAATTCATA
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.40
45 10 0.13
46 11 0.14
47 20 0.26
48 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
TGAAATTATATATAATTATTAAATTATATTAATAATAATTATT
Found at i:118893584 original size:47 final size:46
Alignment explanation
Indices: 118893445--118893585 Score: 114
Period size: 47 Copynumber: 3.1 Consensus size: 46
118893435 ATTAAGAATG
* *
118893445 TTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTA-T
1 TTATGAAATTATATATAATTATTAAATTATA-TTAATAATAATTATT
* * * * *
118893491 TT-T-AAATTGTATA-AATTCATATAAGA-AAAATT-ATTATCAATAATT
1 TTATGAAATTATATATAATT-AT-TAA-ATTATATTAATAAT-AATTATT
*
118893536 TTATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATT
1 TTATGAAATTATATATAATTATTAAATTATAT-TAATAATAATTATT
118893583 TTA
1 TTA
118893586 AATTATACAA
Statistics
Matches: 71, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
43 6 0.08
44 17 0.24
45 10 0.14
46 10 0.14
47 21 0.30
48 7 0.10
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (46 bp):
TTATGAAATTATATATAATTATTAAATTATATTAATAATAATTATT
Found at i:118893586 original size:26 final size:28
Alignment explanation
Indices: 118893532--118893592 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
118893522 TATTATCAAT
* *
118893532 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
118893560 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
118893586 AATTATA
1 AATTATA
118893593 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:118893788 original size:16 final size:16
Alignment explanation
Indices: 118893767--118893808 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
118893757 TTATTAAATT
*
118893767 ATATATTTTAATTATA
1 ATATATTTTAATAATA
118893783 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
118893798 AT-TATGTTTAA
1 ATATAT-TTTAA
118893809 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:118893793 original size:15 final size:15
Alignment explanation
Indices: 118893758--118893799 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
118893748 TTAAGAATTT
*
118893758 TATTAAATTAT-ATA
1 TATTTAATTATAATA
118893772 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
118893786 TATTTAATAATAAT
1 TATTTAATTATAAT
118893800 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:118894045 original size:16 final size:16
Alignment explanation
Indices: 118894024--118894075 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
118894014 GATTTGCTAT
118894024 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
118894040 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
118894056 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
118894072 TACA
1 TACA
118894076 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:118896027 original size:17 final size:17
Alignment explanation
Indices: 118896005--118896038 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
118895995 ATCCACTAAT
*
118896005 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
118896022 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
118896039 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:118900666 original size:17 final size:17
Alignment explanation
Indices: 118900644--118900677 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
118900634 ATCCACTAAT
*
118900644 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
118900661 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
118900678 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:118902263 original size:21 final size:21
Alignment explanation
Indices: 118902234--118902280 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
118902224 TTACATGTTG
*
118902234 ATTTATTTAATT-ATGAAATTT
1 ATTTTTTTAATTAAT-AAATTT
* *
118902255 ATTTTTTTAGTTAATAATTTT
1 ATTTTTTTAATTAATAAATTT
118902276 ATTTT
1 ATTTT
118902281 AATTTATTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
ATTTTTTTAATTAATAAATTT
Found at i:118912949 original size:24 final size:23
Alignment explanation
Indices: 118912922--118912970 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
118912912 TTTGAGTGAG
118912922 TTAAAAG-TAAAATTTTATAATTTT
1 TTAAAAGATAAAA--TTATAATTTT
* *
118912946 TTAAGAGATGAAATTATAATTTT
1 TTAAAAGATAAAATTATAATTTT
118912969 TT
1 TT
118912971 TTATTTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 12 0.55
24 6 0.27
25 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (23 bp):
TTAAAAGATAAAATTATAATTTT
Found at i:118918125 original size:22 final size:22
Alignment explanation
Indices: 118918100--118918142 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
118918090 AAAGTTTTAC
*
118918100 CAGTTAAATTCAGGTTTATTAT
1 CAGTTAAATTCAGATTTATTAT
118918122 CAGTTAAATTCAGATTTATTA
1 CAGTTAAATTCAGATTTATTA
118918143 CAATATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (22 bp):
CAGTTAAATTCAGATTTATTAT
Found at i:118919056 original size:103 final size:101
Alignment explanation
Indices: 118918649--118919103 Score: 333
Period size: 103 Copynumber: 4.5 Consensus size: 101
118918639 CACAATACGT
* * * * * ** *
118918649 TTGACTAAAGCTATATATAAAACAAAAGGAAGAGAAAGAAAGAGAAGAGGTTATCATCGTTATCA
1 TTGACTAAGGCTATATGTAAAGCAAAAGGAAGAGAAAGAAAAAGAAGAGGGTATCATCAATATTA
* * *
118918714 ATATTTTAATATCTGTTAAATCCAT-AATTACGATACCC
66 ATATTCTAATATTTGTTAAAT--ATGAATCACGATA-CC
* * ** * *
118918752 TTGACTAAGACTATATGTAAAATC-AAA-GACAGAGAAA-AGGAAGAA-AAGGTCT-ATCAATAT
1 TTGACTAAGGCTATATGT-AAAGCAAAAGGA-AGAGAAAGAAAAAGAAGAGGGTATCATCAATAT
** * *
118918812 GGATATTCTAATATTTGTTAAATCCA-CAATCACGACATCC
64 TAATATTCTAATATTTGTTAAAT--ATGAATCACGATA-CC
* * * * *
118918852 TTAATTAAGGTTATATGTAAAGTAAAAAGGGAA-AGAAAGGAAAAAG-AG-GGGATACCATCAAT
1 TTGACTAAGGCTATATGTAAAG-CAAAA-GGAAGAGAAA-GAAAAAGAAGAGGG-TATCATCAAT
* * * * *
118918914 ATTAATATCCTAATATATGTTAAATCTGAGATTATGATACAC
62 ATTAATATTCTAATATTTGTTAAATATGA-ATCACGATAC-C
* *
118918956 TTGACTAAGGCTATATGTAAAGCAAAAGGTAGATAAA-AAAAAGAAGAGGAGTATCATCAATATT
1 TTGACTAAGGCTATATGTAAAGCAAAAGGAAGAGAAAGAAAAAGAAGAGG-GTATCATCAATATT
* *
118919020 GATATTTTAATATTTGTTAAATATGCAATCACGATACTC
65 AATATTCTAATATTTGTTAAATATG-AATCACGATAC-C
*
118919059 TTGACTAAGGCTATATGTAAAGCAAAA-AAAGA-AAAGAAAGAAGAA
1 TTGACTAAGGCTATATGTAAAGCAAAAGGAAGAGAAAGAAA-AAGAA
118919104 ATGGTACTAT
Statistics
Matches: 274, Mismatches: 56, Indels: 44
0.73 0.15 0.12
Matches are distributed among these distances:
99 3 0.01
100 52 0.19
101 21 0.08
102 22 0.08
103 117 0.43
104 59 0.22
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (101 bp):
TTGACTAAGGCTATATGTAAAGCAAAAGGAAGAGAAAGAAAAAGAAGAGGGTATCATCAATATTA
ATATTCTAATATTTGTTAAATATGAATCACGATACC
Found at i:118927349 original size:26 final size:26
Alignment explanation
Indices: 118927270--118927356 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
118927260 AAGTTTTAAC
* *
118927270 ATTTATTTAT-AATTAATTATTATCT
1 ATTTATTTATAAATTAATTATTTTTT
* *
118927295 AATTATGTT-TAAA-TAA-AATTTTTAGT
1 ATTTAT-TTATAAATTAATTATTTTT--T
118927321 ATTTATTTATAAATTAATTATTTTTT
1 ATTTATTTATAAATTAATTATTTTTT
118927347 ATTTTATTTA
1 A-TTTATTTA
118927357 ATAATGACGT
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
24 4 0.08
25 11 0.23
26 16 0.33
27 11 0.23
28 6 0.12
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTATTTATAAATTAATTATTTTTT
Found at i:118940023 original size:19 final size:17
Alignment explanation
Indices: 118940001--118940060 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
118939991 ATTATCTTCT
118940001 TCATTATTTTAATGTATTA
1 TCATTATTTT-AT-TATTA
*
118940020 TCATT-TATTATTATTA
1 TCATTATTTTATTATTA
*
118940036 TTATTATTTCTATTATTA
1 TCATTATTT-TATTATTA
*
118940054 TTATTAT
1 TCATTAT
118940061 GTACATTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 9 0.25
17 4 0.11
18 18 0.50
19 5 0.14
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
TCATTATTTTATTATTA
Found at i:118940032 original size:3 final size:3
Alignment explanation
Indices: 118940024--118940091 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
118940014 GTATTATCAT
*
118940024 TTA TTA TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA TGTA -CA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA
* * *
118940069 CTG TTA CTTA TCA TTA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA T
118940092 GTGATAGCTT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
2 2 0.04
3 44 0.85
4 6 0.12
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:118951166 original size:1 final size:1
Alignment explanation
Indices: 118951160--118951188 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
118951150 TTTGCTTCCT
118951160 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
118951189 CTTTGGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:118952667 original size:41 final size:41
Alignment explanation
Indices: 118952620--118952902 Score: 142
Period size: 41 Copynumber: 6.6 Consensus size: 41
118952610 GATTAAAGGA
* *
118952620 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGG
1 TCTTATCTCCCTGAAGTTACAGTAGAGAAGATCAAATCAGG
* * *
118952661 TCTTATCTCCCTG-AGATTACAGTGGA-ACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAAG-TTACAGTAGAGA-AGATC--A-AA--TCAGG
* ** * **
118952707 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAA
1 TCTTATCTCCCTGAAGTTACAGTAGAGAAGATC-AA-ATCA-GG
* * ** * *
118952750 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 TCTTATCTCCCTGAAGTTACAGTAGAGAAGA-TCAAAT-CAGG
* * **
118952793 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 -TCTTATCTCCCTGAAGTTACAGTAGAGAAGATCAAATCAGG
* * * * *
118952835 TCTTATCTCTCTGAGGTTACAGTAGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAAGTTACAGTAGAGAAGATC--A-AA-T-CAGG
118952881 TCTTATC-CCCTGAAGTTACAGT
1 TCTTATCTCCCTGAAGTTACAGT
118952903 GGACAGATTG
Statistics
Matches: 188, Mismatches: 34, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
40 3 0.02
41 56 0.30
42 6 0.03
43 35 0.19
44 31 0.16
45 16 0.09
46 40 0.21
47 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTACAGTAGAGAAGATCAAATCAGG
Done.