Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 195 of 199
Found at i:56728212 original size:50 final size:43
Alignment explanation
Indices: 56728158--56728262 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 43
56728148 TAATACTAAG
56728158 TAACAATAATTATTAACTAACAATAATAACTAAACTTATACAAAAATAAC
1 TAACAATAATTATTAACTAAC--TAA-AA-T-AA-TTATACAAAAAT-AC
*
56728208 TAACAATAGTTA-T-ACTAACTAAAATAATTATACAAAAATAC
1 TAACAATAATTATTAACTAACTAAAATAATTATACAAAAATAC
*
56728249 TAA-AATAATAATTA
1 TAACAATAATTATTA
56728263 CGGTTTTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
40 6 0.12
41 6 0.12
42 12 0.24
43 2 0.04
44 1 0.02
45 2 0.04
46 3 0.06
48 6 0.12
49 1 0.02
50 11 0.22
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.30
Consensus pattern (43 bp):
TAACAATAATTATTAACTAACTAAAATAATTATACAAAAATAC
Found at i:56728238 original size:18 final size:19
Alignment explanation
Indices: 56728150--56728240 Score: 60
Period size: 17 Copynumber: 5.2 Consensus size: 19
56728140 ACTAACAATA
*
56728150 ATACTAAGTAACAATAATT
1 ATACTAACTAACAATAATT
56728169 AT--TAACTAACAATAA-T
1 ATACTAACTAACAATAATT
56728185 A-ACTAAACTTATAC-A-AA--
1 ATACT-AAC-TA-ACAATAATT
*
56728202 A-A-TAACTAACAATAGTT
1 ATACTAACTAACAATAATT
56728219 ATACTAACTAA-AATAATT
1 ATACTAACTAACAATAATT
56728237 ATAC
1 ATAC
56728241 AAAAATACTA
Statistics
Matches: 58, Mismatches: 3, Indels: 23
0.69 0.04 0.27
Matches are distributed among these distances:
13 2 0.03
14 3 0.05
15 4 0.07
16 3 0.05
17 16 0.28
18 16 0.28
19 12 0.21
20 2 0.03
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACTAACTAACAATAATT
Found at i:56728253 original size:22 final size:22
Alignment explanation
Indices: 56728193--56728257 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
56728183 ATAACTAAAC
*
56728193 TTATACAAAAATAACTAACAATAG
1 TTATACAAAAAT-ACTAA-AATAA
*
56728217 TTATAC---TA-ACTAAAATAA
1 TTATACAAAAATACTAAAATAA
56728235 TTATACAAAAATACTAAAATAA
1 TTATACAAAAATACTAAAATAA
56728257 T
1 T
56728258 AATTACGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
18 10 0.29
19 5 0.15
21 2 0.06
22 11 0.32
24 6 0.18
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (22 bp):
TTATACAAAAATACTAAAATAA
Found at i:56728296 original size:60 final size:59
Alignment explanation
Indices: 56728223--56728408 Score: 203
Period size: 57 Copynumber: 3.2 Consensus size: 59
56728213 ATAGTTATAC
56728223 TAACTAA-AATAATTATACAAAAATACTAAAATAATAATTACGGTTTTTATTAATCTTAA
1 TAACTAACAATAATTATACAAAAATACTAAAATAATAATTA-GGTTTTTATTAATCTTAA
* * * *
56728282 TAACTAACAATAATTATACAAAAATACTAAGTAACAATAATTA----TTAACTAA-CAATAA
1 TAACTAACAATAATTATACAAAAATACTAA--AATAATAATTAGGTTTTTATTAATC-TTAA
* *
56728339 TAACTAACAATAATAATAC---TA-ACTAAAATAATAATTAGGGTTTTTATTAATCTTAA
1 TAACTAACAATAATTATACAAAAATACTAAAATAATAATTA-GGTTTTTATTAATCTTAA
56728395 TAACTAACAATAAT
1 TAACTAACAATAAT
56728409 AACTAAACTA
Statistics
Matches: 107, Mismatches: 10, Indels: 23
0.76 0.07 0.16
Matches are distributed among these distances:
51 10 0.09
53 5 0.05
54 1 0.01
56 24 0.22
57 28 0.26
59 7 0.07
60 22 0.21
62 10 0.09
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (59 bp):
TAACTAACAATAATTATACAAAAATACTAAAATAATAATTAGGTTTTTATTAATCTTAA
Found at i:56728342 original size:13 final size:13
Alignment explanation
Indices: 56728279--56728354 Score: 64
Period size: 13 Copynumber: 5.5 Consensus size: 13
56728269 TTATTAATCT
56728279 TAATAACTAACAA
1 TAATAACTAACAA
*
56728292 TAATTATAC-AAAAA
1 TAA-TA-ACTAACAA
* *
56728306 TACTAAGTAACAA
1 TAATAACTAACAA
56728319 TAATTATTAACTAACAA
1 T-A--A-TAACTAACAA
56728336 TAATAACTAACAA
1 TAATAACTAACAA
56728349 TAATAA
1 TAATAA
56728355 TACTAACTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
12 1 0.02
13 26 0.52
14 10 0.20
15 2 0.04
16 1 0.02
17 10 0.20
ACGTcount: A:0.59, C:0.12, G:0.01, T:0.28
Consensus pattern (13 bp):
TAATAACTAACAA
Found at i:56728361 original size:19 final size:18
Alignment explanation
Indices: 56728334--56728373 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
56728324 ATTAACTAAC
56728334 AATAATAACTAACAATAAT
1 AATAATAACTAA-AATAAT
*
56728353 AATACTAACTAAAATAAT
1 AATAATAACTAAAATAAT
56728371 AAT
1 AAT
56728374 TAGGGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (18 bp):
AATAATAACTAAAATAAT
Found at i:56731868 original size:30 final size:31
Alignment explanation
Indices: 56731830--56731916 Score: 101
Period size: 30 Copynumber: 2.9 Consensus size: 31
56731820 GGGTAATTTC
56731830 GATATAATGTCAGATTGTGTGAGCAATA-CT
1 GATATAATGTCAGATTGTGTGAGCAATACCT
*
56731860 -ATTATAATGTCA-ACTTGTGTGAACAA-ACCT
1 GA-TATAATGTCAGA-TTGTGTGAGCAATACCT
* *
56731890 GATATACTGTCAGCTTGTGTGAGCAAT
1 GATATAATGTCAGATTGTGTGAGCAAT
56731917 TTATCTCGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
29 3 0.06
30 43 0.91
31 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (31 bp):
GATATAATGTCAGATTGTGTGAGCAATACCT
Found at i:56737785 original size:17 final size:17
Alignment explanation
Indices: 56737763--56737795 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56737753 AAAATGAATA
*
56737763 TGATTGATATGTGATTC
1 TGATTGATATATGATTC
56737780 TGATTGATATATGATT
1 TGATTGATATATGATT
56737796 GATATGGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.48
Consensus pattern (17 bp):
TGATTGATATATGATTC
Found at i:56742317 original size:13 final size:11
Alignment explanation
Indices: 56742289--56742331 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
56742279 AGTTAAATAT
56742289 TATTTTATTAA
1 TATTTTATTAA
56742300 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
56742313 TA-TTTATTAT
1 TATTTTATTAA
56742323 TATTTTATT
1 TATTTTATT
56742332 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:56742318 original size:23 final size:23
Alignment explanation
Indices: 56742292--56742335 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
56742282 TAAATATTAT
56742292 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
56742315 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
56742336 AAATGGTAGT
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:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:56743113 original size:20 final size:20
Alignment explanation
Indices: 56743088--56743184 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
56743078 AGGGGCACTG
56743088 AAGTGCAAACAGAGGCA-CA
1 AAGTGCAAACAGAGGCACCA
* * * *
56743107 AATGTGCAAGCAAAGGCATCG
1 AA-GTGCAAACAGAGGCACCA
* *
56743128 TAGTACAAACA-AGGACACCA
1 AAGTGCAAACAGAGG-CACCA
* * *
56743148 AAGTGTATACAGAAGCACCA
1 AAGTGCAAACAGAGGCACCA
56743168 AAGTGCAAACAGAGGCA
1 AAGTGCAAACAGAGGCA
56743185 TCGGAGTGCA
Statistics
Matches: 58, Mismatches: 16, Indels: 7
0.72 0.20 0.09
Matches are distributed among these distances:
19 5 0.09
20 49 0.84
21 4 0.07
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (20 bp):
AAGTGCAAACAGAGGCACCA
Found at i:56748524 original size:56 final size:56
Alignment explanation
Indices: 56748455--56748605 Score: 239
Period size: 56 Copynumber: 2.7 Consensus size: 56
56748445 TCACAGAAGA
* * * *
56748455 TGCCATGGGTCTTAATCTCATGGTCTTACATACATTCATTCAATCATTTCATATCT
1 TGCCATAGGTCTTAACCACATGGTCTTACAAACATTCATTCAATCATTTCATATCT
* *
56748511 TGCCATAGATCTTAACCACATGGTCTTACAAACATTCATTCAGTCATTTCATATCT
1 TGCCATAGGTCTTAACCACATGGTCTTACAAACATTCATTCAATCATTTCATATCT
*
56748567 TGCCATAGGTCTTAACCACATGGTCTTATAAACATTCAT
1 TGCCATAGGTCTTAACCACATGGTCTTACAAACATTCAT
56748606 GTATCGCAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 87 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (56 bp):
TGCCATAGGTCTTAACCACATGGTCTTACAAACATTCATTCAATCATTTCATATCT
Found at i:56755519 original size:20 final size:21
Alignment explanation
Indices: 56755471--56755519 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
56755461 TTTTTGCAAT
*
56755471 AAAGAATATGAGAAGAGAGAA
1 AAAGAAAATGAGAAGAGAGAA
* *
56755492 AAA-TAAATGGGAAGA-AGAA
1 AAAGAAAATGAGAAGAGAGAA
56755511 AAAGAAAAT
1 AAAGAAAAT
56755520 AAAAAAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.30
20 13 0.57
21 3 0.13
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.10
Consensus pattern (21 bp):
AAAGAAAATGAGAAGAGAGAA
Found at i:56755630 original size:21 final size:20
Alignment explanation
Indices: 56755606--56755654 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
56755596 CAACTACGTT
* *
56755606 AAAAGAAATGGAGAAGAAAGG
1 AAAAGAAAGGGAGAAGAAA-A
* *
56755627 AAAACAGAGGGAGAAGAAAA
1 AAAAGAAAGGGAGAAGAAAA
56755647 AAAAGAAA
1 AAAAGAAA
56755655 ATTCAAAGAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (20 bp):
AAAAGAAAGGGAGAAGAAAA
Found at i:56755987 original size:12 final size:12
Alignment explanation
Indices: 56755967--56756054 Score: 65
Period size: 12 Copynumber: 7.4 Consensus size: 12
56755957 TAAATAAAAA
*
56755967 TTTTCAAATAAT
1 TTTTTAAATAAT
56755979 TTTTTAAATAAT
1 TTTTTAAATAAT
56755991 TTTTTAAAATAAT
1 TTTTT-AAATAAT
** *
56756004 TTAATGAAT-A-
1 TTTTTAAATAAT
* *
56756014 TTTGTAATTCAAT
1 TTTTTAAAT-AAT
*
56756027 TATTTAAATAAT
1 TTTTTAAATAAT
*
56756039 TTTTTTAAT-AT
1 TTTTTAAATAAT
56756050 TTTTT
1 TTTTT
56756055 TCATCATTTA
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
10 5 0.08
11 8 0.14
12 30 0.51
13 16 0.27
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (12 bp):
TTTTTAAATAAT
Found at i:56755994 original size:13 final size:13
Alignment explanation
Indices: 56755967--56756005 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
56755957 TAAATAAAAA
*
56755967 TTTTCAAATAATT
1 TTTTAAAATAATT
56755980 TTTT-AAATAATT
1 TTTTAAAATAATT
56755992 TTTTAAAATAATT
1 TTTTAAAATAATT
56756005 T
1 T
56756006 AATGAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAAAATAATT
Found at i:56765363 original size:18 final size:20
Alignment explanation
Indices: 56765340--56765377 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
56765330 TAAGTACTTG
56765340 AATTTGGT-TTTAAA-TTTT
1 AATTTGGTATTTAAAGTTTT
56765358 AATTTGGTATTTAAAGTTTT
1 AATTTGGTATTTAAAGTTTT
56765378 TTTTTATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 6 0.33
20 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (20 bp):
AATTTGGTATTTAAAGTTTT
Found at i:56766854 original size:23 final size:23
Alignment explanation
Indices: 56766828--56766890 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
56766818 GCCGATCAGA
56766828 CACTTTATGTGTCGTA-CATCAAG
1 CACTTTATGTGTCGTATC-TCAAG
* *
56766851 CACTTTATGTGTTGTATCTCACG
1 CACTTTATGTGTCGTATCTCAAG
56766874 CACTTTATGTGTCGTAT
1 CACTTTATGTGTCGTAT
56766891 TAGGCACCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (23 bp):
CACTTTATGTGTCGTATCTCAAG
Found at i:56767118 original size:6 final size:6
Alignment explanation
Indices: 56767107--56767136 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
56767097 AAATTGTGGT
56767107 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAAA
56767137 GGCATGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
TTGAAA
Found at i:56771246 original size:13 final size:13
Alignment explanation
Indices: 56771228--56771252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56771218 ATTACGACTC
56771228 TAAAAATATTTAA
1 TAAAAATATTTAA
56771241 TAAAAATATTTA
1 TAAAAATATTTA
56771253 CAACCTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATATTTAA
Found at i:56773326 original size:43 final size:42
Alignment explanation
Indices: 56773260--56773416 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 42
56773250 TTTTAGAAAT
* *
56773260 AAACGCCGCTATAGACCATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTT-CCAC
* *
56773303 AAACGTCGCTATAGTTCAGGACCTTTAGCGGCACTTTTTCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCAC-TTTTCCAC
* * * * *
56773346 CAACGCAGTTATAGATCAGGACCTTTAGCGGCGCTTTTGCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTTCCAC
* * *
56773388 AAACACCGCTATAGAACA-AACCTTTAGCG
1 AAACGCCGCTATAGATCAGGACCTTTAGCG
56773417 ACGCTTCTTG
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 10 0.10
42 20 0.21
43 62 0.65
44 4 0.04
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCACTTTTCCAC
Found at i:56776794 original size:8 final size:8
Alignment explanation
Indices: 56776781--56776809 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
56776771 TCTGTTACAA
56776781 TATTAATT
1 TATTAATT
56776789 TATTAATT
1 TATTAATT
56776797 TATTAATT
1 TATTAATT
56776805 T-TTAA
1 TATTAA
56776810 AAAAATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTAATT
Found at i:56776965 original size:21 final size:21
Alignment explanation
Indices: 56776941--56776992 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
56776931 CCCTAAATCA
56776941 CTAACTCTTAACCT-CTAACCC
1 CTAACTCTTAA-CTACTAACCC
* *
56776962 CTAACCCCTAACTACTAACCC
1 CTAACTCTTAACTACTAACCC
*
56776983 CTAAATCTTA
1 CTAACTCTTA
56776993 TTTAATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (21 bp):
CTAACTCTTAACTACTAACCC
Found at i:56777043 original size:63 final size:61
Alignment explanation
Indices: 56776962--56777092 Score: 181
Period size: 61 Copynumber: 2.1 Consensus size: 61
56776952 CCTCTAACCC
* * * *
56776962 CTAACCCCTAACTACTAACCCCTAAATCTTATTTAATATATAAATTAAAAAACATTAATTAAT
1 CTAAACCCTAACCACTAACCCCTAAACCTTATTT-A-ATATAAATTAAAAAACACTAATTAAT
* **
56777025 CTAAACCCTAACCCCTAACCCCTAAACCTTATTTAATATAAATTAAAATGCACTAATTAAT
1 CTAAACCCTAACCACTAACCCCTAAACCTTATTTAATATAAATTAAAAAACACTAATTAAT
56777086 CTAAACC
1 CTAAACC
56777093 TTAAACCTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 30 0.49
62 1 0.02
63 30 0.49
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.31
Consensus pattern (61 bp):
CTAAACCCTAACCACTAACCCCTAAACCTTATTTAATATAAATTAAAAAACACTAATTAAT
Found at i:56777763 original size:40 final size:41
Alignment explanation
Indices: 56777663--56777819 Score: 174
Period size: 41 Copynumber: 3.9 Consensus size: 41
56777653 GCTAAATCCC
* ** * *
56777663 AGCATTAGCGGCGCTTCTTGGAAAACGACGCTAAAAGCCTG
1 AGCATTAGCGGCGCTTTTTTAAAAATGCCGCTAAAAGCCTG
*
56777704 AGCATTAGCGGCGCTTTTTTAAAACTGCCGCTAAAAGCCTG
1 AGCATTAGCGGCGCTTTTTTAAAAATGCCGCTAAAAGCCTG
* * *
56777745 CGCATTAGCGGCGCTTTTTTAAAAATTCCGCT-AAAGCTCTA
1 AGCATTAGCGGCGCTTTTTTAAAAATGCCGCTAAAAGC-CTG
* * * *
56777786 AGCAATAGCAGTGC-TTTTTAAAAAAGCCGCTAAA
1 AGCATTAGCGGCGCTTTTTTAAAAATGCCGCTAAA
56777820 GCCCCGAAAG
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 20 0.20
41 78 0.80
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTTTTAAAAATGCCGCTAAAAGCCTG
Found at i:56779066 original size:107 final size:107
Alignment explanation
Indices: 56778875--56779074 Score: 337
Period size: 107 Copynumber: 1.9 Consensus size: 107
56778865 ACAAAAATAA
* * * *
56778875 GTGTAAGGCTATGTGGTTGAGACCCTTGGCATAATATAATATAAAGACACTCATGGTGATGCCTC
1 GTGTAAGGCCATGTGGCTGAGACCCATGGCATAATATAATATAAAAACACTCATGGTGATGCCTC
*
56778940 TAGTAAGATGAAAGTTGGACTGGTAGATCACCACATGAGAAT
66 TAGTAAGATGAAAGCTGGACTGGTAGATCACCACATGAGAAT
* *
56778982 GTGTAAGTCCATGTGGCTGAGACCCATGGCATAATATGATATAAAAACACTCATGGTGATGCCTC
1 GTGTAAGGCCATGTGGCTGAGACCCATGGCATAATATAATATAAAAACACTCATGGTGATGCCTC
56779047 TAGTAAGATGAAAGCTGGACTGGTAGAT
66 TAGTAAGATGAAAGCTGGACTGGTAGAT
56779075 ATGATTGTAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 86 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (107 bp):
GTGTAAGGCCATGTGGCTGAGACCCATGGCATAATATAATATAAAAACACTCATGGTGATGCCTC
TAGTAAGATGAAAGCTGGACTGGTAGATCACCACATGAGAAT
Found at i:56779927 original size:18 final size:18
Alignment explanation
Indices: 56779896--56779946 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 18
56779886 ATTGGGGGGT
56779896 TAAA-TTGT-GAAAATGC
1 TAAATTTGTGGAAAATGC
*
56779912 TAAATTTGTGGAAAATTC
1 TAAATTTGTGGAAAATGC
* *
56779930 TAATTTTTGTGAAAAAT
1 TAA-ATTTGTGGAAAAT
56779947 ATGTGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 4 0.14
17 4 0.14
18 10 0.34
19 11 0.38
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (18 bp):
TAAATTTGTGGAAAATGC
Found at i:56779934 original size:17 final size:17
Alignment explanation
Indices: 56779896--56779944 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
56779886 ATTGGGGGGT
56779896 TAAA-TTGTGAAAATGC
1 TAAATTTGTGAAAATGC
*
56779912 TAAATTTGTGGAAAATTC
1 TAAATTTGT-GAAAATGC
*
56779930 TAATTTTTGTGAAAA
1 TAA-ATTTGTGAAAA
56779945 ATATGTGCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 4 0.14
17 4 0.14
18 15 0.54
19 5 0.18
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (17 bp):
TAAATTTGTGAAAATGC
Found at i:56788469 original size:84 final size:84
Alignment explanation
Indices: 56788321--56788478 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 84
56788311 ATATGTGTTA
* * *
56788321 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACGTGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGA
56788386 CATTGGCATCGTATTTGAT
66 CATTGGCATCGTATTTGAT
* *
56788405 TCGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGA-TATGTGATTACATGTAAGACCACGTTTG
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTACATGTAAGACCACGTCTG
*
56788467 GGACGTTGGCAT
63 GGACATTGGCAT
56788479 TGTACGAGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 62 0.95
85 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (84 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGA
CATTGGCATCGTATTTGAT
Found at i:56788480 original size:43 final size:43
Alignment explanation
Indices: 56788309--56788478 Score: 199
Period size: 43 Copynumber: 4.0 Consensus size: 43
56788299 ATAGGATTTC
56788309 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
56788352 CGACT-TGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGA-TATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
*
56788395 CG-TATTTGATT-CGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* * *
56788436 TGATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
56788479 TGTACGAGTC
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
41 28 0.26
42 14 0.13
43 61 0.56
44 5 0.05
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:56788657 original size:16 final size:17
Alignment explanation
Indices: 56788628--56788659 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
56788618 TGAATTGATG
56788628 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
56788645 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
56788660 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:56791497 original size:19 final size:19
Alignment explanation
Indices: 56791473--56791510 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
56791463 TGATGGAAGG
56791473 AGTATGAGAATTTAGTTAA
1 AGTATGAGAATTTAGTTAA
56791492 AGTATGAGAATTTAGTTAA
1 AGTATGAGAATTTAGTTAA
56791511 GGCCCGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (19 bp):
AGTATGAGAATTTAGTTAA
Found at i:56801485 original size:25 final size:25
Alignment explanation
Indices: 56801434--56801490 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
56801424 TTAGAGTTTT
56801434 CCGTTA-AGTGCTCTTAGGAGCTAC
1 CCGTTATAGTGCTCTTAGGAGCTAC
* *
56801458 CCGTTATAG-GCTCTTTGTGAGCTTC
1 CCGTTATAGTGCTCTTAG-GAGCTAC
56801483 CCGTTATA
1 CCGTTATA
56801491 TTGTCCGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (25 bp):
CCGTTATAGTGCTCTTAGGAGCTAC
Found at i:56806979 original size:44 final size:44
Alignment explanation
Indices: 56806923--56807331 Score: 179
Period size: 44 Copynumber: 9.1 Consensus size: 44
56806913 TTGTCGCTTC
* *
56806923 AATCTACTCCACTGCAACTTTGAGGAGATAAGATTAGTATCTTT
1 AATCTGCTCCACTGCAACTTTAAGGAGATAAGATTAGTATCTTT
* * * * * *
56806967 AATTTGCTCCACTACATCTTCAAGGATATAAGATTAGTAACTTT
1 AATCTGCTCCACTGCAACTTTAAGGAGATAAGATTAGTATCTTT
* * * *
56807011 -ATCCTGCTCCACTGCATCTTT-AGGAAGATATGGTTTA-TAGCTTT
1 AAT-CTGCTCCACTGCAACTTTAAGG-AGATA-AGATTAGTATCTTT
* * * *
56807055 AATCTGCTCTATTGCAAC-TTCAGAGAGATAAGATCT-GCTATCTTC
1 AATCTGCTCCACTGCAACTTTAAG-GAGATAAGAT-TAG-TATCTTT
* * * * * *
56807100 AGTCTACTCCACTGCAACTTCAAGTAGATATGACTT-GTATCTTC
1 AATCTGCTCCACTGCAACTTTAAGGAGATAAGA-TTAGTATCTTT
* * * * * *
56807144 AATCTGCTTCACTGCAA-TTTCAGGGAGATCCGATTGTAATTTGTAGCCTT
1 AATCTGCTCCACTGCAACTTT-AAGGAGAT---A-AG--ATTAGTATCTTT
* * * * * *
56807194 AATCTGTTCCACTGTAACTTCAGGGAAATAAGATTCACTATCTTT
1 AATCTGCTCCACTGCAACTTTAAGGAGATAAGATT-AGTATCTTT
* * * * * * * *
56807239 AGTCTGCTCCACTGCAACATCAGGGAGATAAGACTCGTAACTTC
1 AATCTGCTCCACTGCAACTTTAAGGAGATAAGATTAGTATCTTT
* * * * *
56807283 AA-CTTGCCCCACTGCAACTTCAGGGAGATAATGTTTA-TAGCTTT
1 AATC-TGCTCCACTGCAACTTTAAGGAGATAA-GATTAGTATCTTT
56807327 AATCT
1 AATCT
56807332 ACTAATGCAA
Statistics
Matches: 274, Mismatches: 67, Indels: 48
0.70 0.17 0.12
Matches are distributed among these distances:
43 12 0.04
44 150 0.55
45 72 0.26
46 5 0.02
47 2 0.01
48 2 0.01
49 2 0.01
50 27 0.10
51 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTTAAGGAGATAAGATTAGTATCTTT
Found at i:56815559 original size:236 final size:237
Alignment explanation
Indices: 56815138--56815594 Score: 686
Period size: 236 Copynumber: 1.9 Consensus size: 237
56815128 AACAAATCAT
* * * * *
56815138 AAACAACCAGCCTTTAAATGCTTAAAGCGAAGACATTGACCCCTTTTTTTCATATCTGGGTGTGT
1 AAACAACCAGCCTATAAATGCTCAAAGCGAAGACATTCAACCCTTTTTTTCATA--TGGGTGTGC
* * *
56815203 TAAAATCAAATCTCGCAAGCTATTCCAAGGGATACATTTACCATCTCCCTTTGCTTGATCCGGCC
64 TAAAATCAAATCTCGCAAACTATTCCAAGGAATACATTTACCATCTCCCTTTGCTTAATCCGGCC
* * * *
56815268 TACAACCCATTGCTCACTCATCCCTGTTATTTTCATTAGTTTCTTTAGGAAGGTCGGGATGTTGG
129 TACAACCCATTGCTCACTCATCCCTGTTATGTTCATTAGTTTCTTTAGAAAGGTCGAGACGTTGG
*
56815333 CGGCTCTGGAATAAACCTTGTCAGGTGCCCTAGTGCTTTAGAGA
194 CGGCTCTGAAATAAACCTTGTCAGGTGCCCTAGTGCTTTAGAGA
56815377 AAACAACCAGCCTATAAATGCTCAAAGCGAAGACA-TCAACCCTTTTTTTCATA-GGGTGTGCTA
1 AAACAACCAGCCTATAAATGCTCAAAGCGAAGACATTCAACCCTTTTTTTCATATGGGTGTGCTA
* * * *
56815440 AGATCAAATCTCGTAAACTATTCCAAGGAATACATTTACCATTTCCCTTTTGCTTAATCCGGGCT
66 AAATCAAATCTCGCAAACTATTCCAAGGAATACATTTACCATCTCCC-TTTGCTTAATCCGGCCT
* *
56815505 GCAACTCATTGCTCACTCATCCCT-TTGATGTTCATTAGTTTCTTTAGAAAGGTCGAGACGTTGG
130 ACAACCCATTGCTCACTCATCCCTGTT-ATGTTCATTAGTTTCTTTAGAAAGGTCGAGACGTTGG
56815569 CGGCTCTGAAATAAACCTTGTCAGGT
194 CGGCTCTGAAATAAACCTTGTCAGGT
56815595 TAAATTTTCA
Statistics
Matches: 197, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
235 53 0.27
236 95 0.48
238 16 0.08
239 33 0.17
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (237 bp):
AAACAACCAGCCTATAAATGCTCAAAGCGAAGACATTCAACCCTTTTTTTCATATGGGTGTGCTA
AAATCAAATCTCGCAAACTATTCCAAGGAATACATTTACCATCTCCCTTTGCTTAATCCGGCCTA
CAACCCATTGCTCACTCATCCCTGTTATGTTCATTAGTTTCTTTAGAAAGGTCGAGACGTTGGCG
GCTCTGAAATAAACCTTGTCAGGTGCCCTAGTGCTTTAGAGA
Found at i:56817663 original size:12 final size:12
Alignment explanation
Indices: 56817633--56817674 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
56817623 GATAAAATGG
56817633 AATA-ATAAAAA
1 AATATATAAAAA
56817644 ATATTATATAAAAA
1 A-A-TATATAAAAA
56817658 AATATATAAAAA
1 AATATATAAAAA
56817670 GAATA
1 -AATA
56817675 CACCATAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.04
12 11 0.41
13 7 0.26
14 8 0.30
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (12 bp):
AATATATAAAAA
Found at i:56824994 original size:15 final size:15
Alignment explanation
Indices: 56824974--56825002 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56824964 GTGAAATAAA
56824974 CTGAAATAATAAAAG
1 CTGAAATAATAAAAG
56824989 CTGAAATAATAAAA
1 CTGAAATAATAAAA
56825003 TATTGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (15 bp):
CTGAAATAATAAAAG
Found at i:56825087 original size:110 final size:110
Alignment explanation
Indices: 56824949--56825207 Score: 518
Period size: 110 Copynumber: 2.4 Consensus size: 110
56824939 GCAAAATATG
56824949 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
1 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
56825014 GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
66 GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
56825059 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
1 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
56825124 GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
66 GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
56825169 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAA
1 CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAA
56825208 TATTATAATA
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 149 1.00
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.31
Consensus pattern (110 bp):
CTTAAAATAAATATTGTGAAATAAACTGAAATAATAAAAGCTGAAATAATAAAATATTGTGAAAT
GAACTGAAATAATAAAATAAATATTAATGTATAATATATCTAATA
Found at i:56825104 original size:15 final size:15
Alignment explanation
Indices: 56825084--56825112 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56825074 GTGAAATAAA
56825084 CTGAAATAATAAAAG
1 CTGAAATAATAAAAG
56825099 CTGAAATAATAAAA
1 CTGAAATAATAAAA
56825113 TATTGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (15 bp):
CTGAAATAATAAAAG
Found at i:56826669 original size:33 final size:33
Alignment explanation
Indices: 56826571--56826680 Score: 166
Period size: 33 Copynumber: 3.3 Consensus size: 33
56826561 TCAATTATAA
*
56826571 CAATTATACATACACCAACAATTAATTTTAGGG
1 CAATTATACATACACCAACAATTAATTTTAGGT
* * * * *
56826604 CAAATAAAAATAAACCAAGAATTAATTTTAGGT
1 CAATTATACATACACCAACAATTAATTTTAGGT
56826637 CAATTATACATACACCAACAATTAATTTTAGGT
1 CAATTATACATACACCAACAATTAATTTTAGGT
56826670 CAATTATACAT
1 CAATTATACAT
56826681 GCTTTATAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (33 bp):
CAATTATACATACACCAACAATTAATTTTAGGT
Found at i:56829904 original size:120 final size:120
Alignment explanation
Indices: 56829707--56830570 Score: 1638
Period size: 120 Copynumber: 7.2 Consensus size: 120
56829697 TTTTCAAGTT
*
56829707 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
56829772 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
56829827 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
56829892 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
56829947 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
56830012 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
56830067 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
56830132 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
56830187 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
56830252 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTATTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAA
56830308 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
56830373 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
56830428 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
56830493 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
56830548 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
56830571 TAAATATGAT
Statistics
Matches: 734, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
120 614 0.84
121 120 0.16
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:56830553 original size:16 final size:16
Alignment explanation
Indices: 56830532--56830573 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
56830522 TTATTAAATT
*
56830532 ATATATTTTAATTATA
1 ATATATTTTAATAATA
56830548 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
56830563 AT-TATGTTTAA
1 ATATAT-TTTAA
56830574 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:56830558 original size:15 final size:15
Alignment explanation
Indices: 56830523--56830564 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
56830513 TTAAGAATTT
*
56830523 TATTAAATTAT-ATA
1 TATTTAATTATAATA
56830537 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
56830551 TATTTAATAATAAT
1 TATTTAATTATAAT
56830565 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:56830710 original size:155 final size:157
Alignment explanation
Indices: 56830507--56830821 Score: 544
Period size: 155 Copynumber: 2.0 Consensus size: 157
56830497 ATAAGAATAT
* *
56830507 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATATTAATTAAAATATATTTAATAATAATTATGTTT
* * *
56830572 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
56830637 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
56830664 TAATTA-TAAGAATTTTATTAAATTATAT-TATTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATATTAATTAAAATATATTTAATAATAATTATGTTT
56830727 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
56830792 TAATCATTTACCAAAACAATTTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
56830819 TAA
1 TAA
56830822 GGGTATTCTA
Statistics
Matches: 150, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
155 122 0.81
156 22 0.15
157 6 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATATTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:56830938 original size:44 final size:45
Alignment explanation
Indices: 56830873--56830963 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
56830863 ACCTCTATTC
* * *
56830873 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
56830917 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
56830962 CA
1 CA
56830964 CTTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:56830969 original size:16 final size:16
Alignment explanation
Indices: 56830944--56831012 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
56830934 GATTAGCTAT
56830944 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
56830960 TACACTTCTAATCCCAA
1 TACACCTCTAAT-CCAA
56830977 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
56830993 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
56831009 TACA
1 TACA
56831013 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 33 0.69
17 15 0.31
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:56830986 original size:33 final size:32
Alignment explanation
Indices: 56830944--56831012 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
56830934 GATTAGCTAT
*
56830944 TACACCTCTAATCCAATACACTTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
56830977 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
56831009 TACA
1 TACA
56831013 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:56831356 original size:11 final size:10
Alignment explanation
Indices: 56831331--56831378 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
56831321 TTTTTTAAAA
56831331 TTAAAAAATT
1 TTAAAAAATT
*
56831341 ATAAAAATATT
1 TTAAAAA-ATT
*
56831352 TTAAAAAAAT
1 TTAAAAAATT
*
56831362 TTAAAAAAAT
1 TTAAAAAATT
56831372 TTAAAAA
1 TTAAAAA
56831379 TATAATATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TTAAAAAATT
Found at i:56831356 original size:21 final size:19
Alignment explanation
Indices: 56831327--56831378 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
56831317 TTAATTTTTT
56831327 AAAA-TTAAAAAATTATAAA
1 AAAATTTAAAAAATT-TAAA
*
56831346 AATATTTTAAAAAAATTTAAA
1 AA-AATTT-AAAAAATTTAAA
56831367 AAAATTTAAAAA
1 AAAATTTAAAAA
56831379 TATAATATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 7 0.25
20 5 0.18
21 8 0.29
22 8 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATTTAAAAAATTTAAA
Found at i:56833349 original size:18 final size:18
Alignment explanation
Indices: 56833328--56833366 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
56833318 ATTCGGGTAA
56833328 AATTGAAAAAATTCGGTT
1 AATTGAAAAAATTCGGTT
***
56833346 AATTGATCGAATTCGGTT
1 AATTGAAAAAATTCGGTT
56833364 AAT
1 AAT
56833367 CGATCGGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (18 bp):
AATTGAAAAAATTCGGTT
Found at i:56833371 original size:18 final size:18
Alignment explanation
Indices: 56833337--56833372 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
56833327 AAATTGAAAA
*
56833337 AATTCGGTTAATTGATCG
1 AATTCGGTTAATCGATCG
56833355 AATTCGGTTAATCGATCG
1 AATTCGGTTAATCGATCG
56833373 GTTAACCGAA
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:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (18 bp):
AATTCGGTTAATCGATCG
Found at i:56833576 original size:13 final size:13
Alignment explanation
Indices: 56833560--56833584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56833550 AAGTATTCAA
56833560 CCCAACCCAATTG
1 CCCAACCCAATTG
56833573 CCCAACCCAATT
1 CCCAACCCAATT
56833585 ATAAAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.48, G:0.04, T:0.16
Consensus pattern (13 bp):
CCCAACCCAATTG
Found at i:56833700 original size:9 final size:9
Alignment explanation
Indices: 56833686--56833752 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
56833676 GTAGTGATTC
56833686 AATTCGGTT
1 AATTCGGTT
56833695 AATTCGGTT
1 AATTCGGTT
*
56833704 AATTCGGGT
1 AATTCGGTT
*
56833713 AATCCGGTT
1 AATTCGGTT
*
56833722 AATTCTGTT
1 AATTCGGTT
*
56833731 AATTCGGGT
1 AATTCGGTT
56833740 AATTCGGTT
1 AATTCGGTT
56833749 AATT
1 AATT
56833753 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:56833722 original size:27 final size:27
Alignment explanation
Indices: 56833690--56833752 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
56833680 TGATTCAATT
56833690 CGGTTAATTCGGTTAATTCGGGTAATC
1 CGGTTAATTCGGTTAATTCGGGTAATC
* *
56833717 CGGTTAATTCTGTTAATTCGGGTAATT
1 CGGTTAATTCGGTTAATTCGGGTAATC
56833744 CGGTTAATT
1 CGGTTAATT
56833753 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (27 bp):
CGGTTAATTCGGTTAATTCGGGTAATC
Found at i:56835882 original size:13 final size:13
Alignment explanation
Indices: 56835864--56835890 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56835854 TTAATTTATA
56835864 TGTGTGAAAATTT
1 TGTGTGAAAATTT
56835877 TGTGTGAAAATTT
1 TGTGTGAAAATTT
56835890 T
1 T
56835891 ATCGTTTGTA
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:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:56837136 original size:43 final size:42
Alignment explanation
Indices: 56836979--56837137 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 42
56836969 TATGTGATAT
*
56836979 CGTGTAAGACCACGTCTGGGACGTTGACATCG-ATTTGATATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTG--A-TTA
* * * * *
56837023 CGTGTAAGACCATGTCTGGGACATTGGCATCATATATGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTA
56837065 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGTTATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTGATTA
* *
56837108 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
56837138 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
42 30 0.31
43 33 0.34
44 29 0.30
45 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTA
Found at i:56841601 original size:21 final size:21
Alignment explanation
Indices: 56841575--56841616 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
56841565 AGAGAGAGAA
56841575 ATCTAGAAGGCGATGATGATG
1 ATCTAGAAGGCGATGATGATG
56841596 ATCTAGAAGGCGATGATGATG
1 ATCTAGAAGGCGATGATGATG
56841617 TTGGTGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.24
Consensus pattern (21 bp):
ATCTAGAAGGCGATGATGATG
Found at i:56841687 original size:11 final size:13
Alignment explanation
Indices: 56841663--56841694 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
56841653 TAGTTTATTA
56841663 ATATTTTAATATG
1 ATATTTTAATATG
56841676 AT-TTTTAA-ATG
1 ATATTTTAATATG
56841687 ATATTTTA
1 ATATTTTA
56841695 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:56844872 original size:17 final size:18
Alignment explanation
Indices: 56844846--56844881 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
56844836 AACCTTTTAT
*
56844846 TTTATTTTATTTTT-AAA
1 TTTATATTATTTTTCAAA
56844863 TTTATATTATTTTTCAAA
1 TTTATATTATTTTTCAAA
56844881 T
1 T
56844882 CACTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATATTATTTTTCAAA
Found at i:56845232 original size:16 final size:16
Alignment explanation
Indices: 56845211--56845279 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
56845201 TTTGGTTCGC
56845211 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
56845227 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
56845243 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
56845260 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
56845276 TGTA
1 TGTA
56845280 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:56845257 original size:33 final size:32
Alignment explanation
Indices: 56845211--56845279 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
56845201 TTTGGTTCGC
56845211 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
56845243 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
56845276 TGTA
1 TGTA
56845280 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:56845344 original size:44 final size:45
Alignment explanation
Indices: 56845260--56845350 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
56845250 GGATTAGAGG
* * *
56845260 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
56845305 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
56845349 TG
1 TG
56845351 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:56845602 original size:157 final size:157
Alignment explanation
Indices: 56845413--56845718 Score: 551
Period size: 157 Copynumber: 1.9 Consensus size: 157
56845403 TAGCATAAAA
* *
56845413 TTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAAT
1 TTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAAT
* *
56845478 AAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAATAATATATAATTT
66 AAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA-AATATATAATTT
56845543 AATAAAATTCTT-ATAATTAGAAGAAAT
130 AATAAAATTCTTAATAATTAGAAGAAAT
*
56845570 TTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAAT
1 TTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAAT
56845635 AAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTA
66 AAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTA
56845700 ATAAAATTCTTAATAATTA
131 ATAAAATTCTTAATAATTA
56845719 ATATTCTTAT
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
156 24 0.17
157 119 0.83
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAAT
AAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTA
ATAAAATTCTTAATAATTAGAAGAAAT
Found at i:56845689 original size:16 final size:16
Alignment explanation
Indices: 56845652--56845693 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
56845642 TTAATCATAT
*
56845652 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
56845668 TT-AAATATATTATAA
1 TTAAAATATATTATAA
56845683 TTAAAATATAT
1 TTAAAATATAT
56845694 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:56845700 original size:14 final size:15
Alignment explanation
Indices: 56845661--56845702 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
56845651 TTTAAACATA
*
56845661 ATTATTATTAAATAT
1 ATTATAATTAAATAT
56845676 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
56845690 A-TATAATTTAATA
1 ATTATAATTAAATA
56845703 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:56845789 original size:120 final size:121
Alignment explanation
Indices: 56845655--56845947 Score: 493
Period size: 120 Copynumber: 2.4 Consensus size: 121
56845645 ATCATATTTA
56845655 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
56845720 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA-AGT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AATAGTG
56845775 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
**
56845840 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAATTTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAATAGTG
* * *
56845896 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
56845948 TAAAATAATT
Statistics
Matches: 164, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 2 0.01
120 160 0.98
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAATAGTG
Found at i:56845820 original size:14 final size:15
Alignment explanation
Indices: 56845781--56845822 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
56845771 AAGTAACATA
*
56845781 ATTATTATTAAATAT
1 ATTATAATTAAATAT
56845796 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
56845810 A-TATAATTTAATA
1 ATTATAATTAAATA
56845823 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:56845909 original size:66 final size:64
Alignment explanation
Indices: 56845702--56845909 Score: 172
Period size: 66 Copynumber: 3.3 Consensus size: 64
56845692 ATAATTTAAT
*
56845702 AAAATTCTT-AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAA
1 AAAATT-TTAAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAA
** * ** * * *
56845766 ATATAA-AGTAACATAATTATTATT-AAATAT--A-TTA-T--AAT--TAAAATAT-ATAATTTA
1 A-A-AATTTTAA-ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATA
*
56845820 AT
63 AA
56845822 AAAATTCTT-AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAA
1 AAAATT-TTAAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAA
56845886 AGAAATTTTGAAATAATTAATATT
1 A-AAATTTT-AAATAATTAATATT
56845910 AAATATATTT
Statistics
Matches: 107, Mismatches: 18, Indels: 36
0.66 0.11 0.22
Matches are distributed among these distances:
54 13 0.12
55 6 0.06
56 9 0.08
57 8 0.07
58 3 0.03
59 4 0.04
61 4 0.04
62 3 0.03
63 8 0.07
64 12 0.11
65 11 0.10
66 26 0.24
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (64 bp):
AAAATTTTAAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAA
Found at i:56857832 original size:13 final size:13
Alignment explanation
Indices: 56857814--56857838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56857804 ATCTAATTTA
56857814 TGTAGTTTCTTTT
1 TGTAGTTTCTTTT
56857827 TGTAGTTTCTTT
1 TGTAGTTTCTTT
56857839 GATCTGTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (13 bp):
TGTAGTTTCTTTT
Found at i:56863953 original size:9 final size:9
Alignment explanation
Indices: 56863936--56863972 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
56863926 TGAGTTTTCG
56863936 AATTCGAAT
1 AATTCGAAT
*
56863945 AACTCGAAT
1 AATTCGAAT
56863954 AATTCGAAT
1 AATTCGAAT
56863963 AATTCGAAT
1 AATTCGAAT
56863972 A
1 A
56863973 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:56864985 original size:5 final size:5
Alignment explanation
Indices: 56864975--56865000 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
56864965 CTCGAAAATT
56864975 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
56865001 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:56868466 original size:20 final size:20
Alignment explanation
Indices: 56868435--56868483 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
56868425 AAATTTTTTT
*
56868435 TCAAATCAAGTCGAG-TGAAA
1 TCAAATCGAGTCGAGTTG-AA
*
56868455 TGAAATCGAGTCGAGTTGAA
1 TCAAATCGAGTCGAGTTGAA
56868475 TCAAATCGA
1 TCAAATCGA
56868484 ACCGAATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (20 bp):
TCAAATCGAGTCGAGTTGAA
Found at i:56868854 original size:9 final size:9
Alignment explanation
Indices: 56868840--56868878 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
56868830 ACACCAACCT
56868840 ATTATTCGA
1 ATTATTCGA
*
56868849 ATTATTTGA
1 ATTATTCGA
56868858 ATTATTCGA
1 ATTATTCGA
*
56868867 GTTATTCGA
1 ATTATTCGA
56868876 ATT
1 ATT
56868879 TTGAAATTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.49
Consensus pattern (9 bp):
ATTATTCGA
Found at i:56872660 original size:16 final size:17
Alignment explanation
Indices: 56872633--56872682 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
56872623 TAAAAATAAT
*
56872633 AATTTAAATTTTTTTAA
1 AATTTAATTTTTTTTAA
**
56872650 AA-TTAATTTTTAATAA
1 AATTTAATTTTTTTTAA
*
56872666 AATTTAATTATTTTTAA
1 AATTTAATTTTTTTTAA
56872683 TAAAATACTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTAATTTTTTTTAA
Found at i:56872680 original size:20 final size:21
Alignment explanation
Indices: 56872650--56872688 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
56872640 ATTTTTTTAA
56872650 AATTAATTTTTAATAAAATTT
1 AATTAATTTTTAATAAAATTT
56872671 AATT-ATTTTTAATAAAAT
1 AATTAATTTTTAATAAAAT
56872689 ACTATTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTAATTTTTAATAAAATTT
Found at i:56874551 original size:20 final size:19
Alignment explanation
Indices: 56874512--56874551 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
56874502 GGATGTCGCT
*
56874512 AGAGAACACAAAAGAAGTC
1 AGAGAACACAAAAAAAGTC
*
56874531 AGAGAACATATAAAAAAGTC
1 AGAGAACACA-AAAAAAGTC
56874551 A
1 A
56874552 ACGGTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.10
Consensus pattern (19 bp):
AGAGAACACAAAAAAAGTC
Found at i:56878359 original size:176 final size:183
Alignment explanation
Indices: 56878085--56878601 Score: 687
Period size: 176 Copynumber: 2.8 Consensus size: 183
56878075 AATCCGCAAT
* *
56878085 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTATCTATGAATATCTGCGAAATCGGAAAG
1 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCAAAATCGGAAAG
*
56878150 TTTTAGGTCATATTAAGCGGCAATAGGCGTCTGTCTTAGCATATTGTGTGCAGGTTTGTTGGATC
66 TTTTAGGTCATATTAAGTGGCAATAGGCGTCTGTCTTAGCATATTGTGTGCAGGTTTGTTGGATC
* *
56878215 ATTATATTTGTTGGTTTCCGTCGAT-T-GAT-A-TC-CTG-G-AATCCACATA
131 ATTATATATGTTGGTTTCCGTCGATATCAATAATTCACTGAGAAATCCACATA
56878261 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCAAAATCGGAAAG
1 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCAAAATCGGAAAG
* *
56878326 TTTTAGGTCATATTAAGTGGAAATAGGCGTCTGTCTTAGCAT-TTGGTGTGCCGGTTTGTTGGAT
66 TTTTAGGTCATATTAAGTGGCAATAGGCGTCTGTCTTAGCATATT-GTGTGCAGGTTTGTTGGAT
* **
56878390 CATTATATGTGTTGGTTTCCGTTTATAATCAATACATTGTCGACTGATATCCGCAAATCCACATA
130 CATTATATATGTTGGTTTCCGTCGAT-ATCAATA-A-T-TC-ACTG--A---G-AAATCCACATA
*
56878455 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCCAAATC-GATAA
1 GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCAAAATCGGA-AA
* * * * *
56878519 GTTTTAGGACATGTTAAGCT-GCAATAGGCTTCTGTCTTAGCATATGGTGTGAAGGTTTGTTGGA
65 GTTTTAGGTCATATTAAG-TGGCAATAGGCGTCTGTCTTAGCATATTGTGTGCAGGTTTGTTGGA
56878583 TCATTATATATGTT-GTTTC
129 TCATTATATATGTTGGTTTC
56878602 GGTTTATTGT
Statistics
Matches: 301, Mismatches: 18, Indels: 27
0.87 0.05 0.08
Matches are distributed among these distances:
175 2 0.01
176 144 0.48
178 1 0.00
179 2 0.01
181 1 0.00
184 2 0.01
186 3 0.01
192 1 0.00
193 7 0.02
194 136 0.45
195 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (183 bp):
GTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTGTCTATGAATATCTGCAAAATCGGAAAG
TTTTAGGTCATATTAAGTGGCAATAGGCGTCTGTCTTAGCATATTGTGTGCAGGTTTGTTGGATC
ATTATATATGTTGGTTTCCGTCGATATCAATAATTCACTGAGAAATCCACATA
Found at i:56878569 original size:194 final size:193
Alignment explanation
Indices: 56878234--56878608 Score: 585
Period size: 194 Copynumber: 1.9 Consensus size: 193
56878224 GTTGGTTTCC
* *
56878234 GTCGATTGATATCCTGGAATCCACATAGTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTG
1 GTCGACTGATATCCTGAAATCCACATAGTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTG
*
56878299 TCTATGAATATCTGCAAAATCGGAAAGTTTTAGGTCATATTAAGTGGAAATAGGCGTCTGTCTTA
66 TCTATGAATATCTGCAAAATCGGAAAGTTTTAGGACATATTAAGTGGAAATAGGCGTCTGTCTTA
* ** *
56878364 GCATTTGGTGTGCCGGTTTGTTGGATCATTATATGTGTTGGTTTCCGTTTATAATCAATACATT
131 GCATATGGTGTGAAGGTTTGTTGGATCATTATATATGTT-GTTTCCGTTTATAATCAATACATT
56878428 GTCGACTGATATCC-GCAAATCCACATAGTTTTATGTCATACTTAAGCCGAAATAGGTTGATATT
1 GTCGACTGATATCCTG-AAATCCACATAGTTTTATGTCATACTTAAGCCGAAATAGGTTGATATT
* * * *
56878492 GTCTATGAATATCTGCCAAATC-GATAAGTTTTAGGACATGTTAAGCT-GCAATAGGCTTCTGTC
65 GTCTATGAATATCTGCAAAATCGGA-AAGTTTTAGGACATATTAAG-TGGAAATAGGCGTCTGTC
*
56878555 TTAGCATATGGTGTGAAGGTTTGTTGGATCATTATATATGTTGTTTCGGTTTAT
128 TTAGCATATGGTGTGAAGGTTTGTTGGATCATTATATATGTTGTTTCCGTTTAT
56878609 TGTCGATGAA
Statistics
Matches: 166, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
193 14 0.08
194 151 0.91
195 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (193 bp):
GTCGACTGATATCCTGAAATCCACATAGTTTTATGTCATACTTAAGCCGAAATAGGTTGATATTG
TCTATGAATATCTGCAAAATCGGAAAGTTTTAGGACATATTAAGTGGAAATAGGCGTCTGTCTTA
GCATATGGTGTGAAGGTTTGTTGGATCATTATATATGTTGTTTCCGTTTATAATCAATACATT
Found at i:56881069 original size:92 final size:92
Alignment explanation
Indices: 56880962--56881171 Score: 241
Period size: 92 Copynumber: 2.3 Consensus size: 92
56880952 TTAATATAAC
* * *
56880962 ATTTGGTACTTAAACTTGATTTTGTTTTCTTAATTTGGTACTT-AAT-TTTTTAT-GGGTCCAAT
1 ATTTGGTACCTAAACTT-ATTTTGTTTTATTAAGTTGGTACTTAAATCTTTTT-TGGGGTCCAAT
*
56881024 TTGGTACCTAAATTTGACAT-TTTCCCCCTA
64 TTGGTACCTAAATTT-AAATCTTT-CCCCTA
* ***
56881054 ATTTGATACCTAAACTTTACACT-TTTTATTAAGTTGGTACTTAAATCTTTTTTGGGGTCCAATT
1 ATTTGGTACCTAAAC-TTATTTTGTTTTATTAAGTTGGTACTTAAATCTTTTTTGGGGTCCAATT
*
56881118 TGGTACCTAAATTTAAATCTTTCTCCTA
65 TGGTACCTAAATTTAAATCTTTCCCCTA
* *
56881146 ATTTGGTACCTAATCTTTTTTTGTTT
1 ATTTGGTACCTAAACTTATTTTGTTT
56881172 GATTTTGTAC
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
91 20 0.21
92 43 0.44
93 34 0.35
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (92 bp):
ATTTGGTACCTAAACTTATTTTGTTTTATTAAGTTGGTACTTAAATCTTTTTTGGGGTCCAATTT
GGTACCTAAATTTAAATCTTTCCCCTA
Found at i:56881114 original size:93 final size:90
Alignment explanation
Indices: 56880986--56881163 Score: 243
Period size: 93 Copynumber: 1.9 Consensus size: 90
56880976 CTTGATTTTG
* * *
56880986 TTTTCTTAATTTGGTACTTAATTTTTTATGGGTCCAATTTGGTACCTAAATTTGACAT-TTTCCC
1 TTTTATTAAGTTGGTACTTAATTTTTTATGGGTCCAATTTGGTACCTAAATTT-AAATCTTT-CC
56881050 CCTAATTTGATACCTAAACTTTACACT
64 CCTAATTTGATACCTAAACTTTACACT
56881077 TTTTATTAAGTTGGTACTTAAATCTTTTT-TGGGGTCCAATTTGGTACCTAAATTTAAATCTTTC
1 TTTTATTAAGTTGGTACTT-AAT-TTTTTAT-GGGTCCAATTTGGTACCTAAATTTAAATCTTTC
* * *
56881141 TCCTAATTTGGTACCTAATCTTT
63 CCCTAATTTGATACCTAAACTTT
56881164 TTTTGTTTGA
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
91 17 0.22
92 28 0.36
93 32 0.42
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (90 bp):
TTTTATTAAGTTGGTACTTAATTTTTTATGGGTCCAATTTGGTACCTAAATTTAAATCTTTCCCC
TAATTTGATACCTAAACTTTACACT
Found at i:56885594 original size:16 final size:18
Alignment explanation
Indices: 56885555--56885588 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56885545 TAAGTTTATA
56885555 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
56885572 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
56885589 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:56885636 original size:31 final size:31
Alignment explanation
Indices: 56885596--56885675 Score: 78
Period size: 31 Copynumber: 2.6 Consensus size: 31
56885586 TGTAATTTAG
*
56885596 AACA-TATTAAAAAAAATA-AACTTATATTATA
1 AACATTATTAAAAAAAATATAA--TATAATATA
56885627 AA-ATTATTAAATATAAAA-ATAATATAATATA
1 AACATTATTAAA-A-AAAATATAATATAATATA
*
56885658 AACATTTTTAAAAAAAAT
1 AACATTATTAAAAAAAAT
56885676 GAAAAAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
30 5 0.12
31 20 0.49
32 10 0.24
33 6 0.15
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (31 bp):
AACATTATTAAAAAAAATATAATATAATATA
Found at i:56885655 original size:16 final size:16
Alignment explanation
Indices: 56885618--56885659 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
56885608 AAAATAAACT
* * *
56885618 TATATTATAAAATTAT
1 TATAATATAAAAATAA
56885634 TA-AATATAAAAATAA
1 TATAATATAAAAATAA
56885649 TATAATATAAA
1 TATAATATAAA
56885660 CATTTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TATAATATAAAAATAA
Found at i:56885909 original size:18 final size:19
Alignment explanation
Indices: 56885876--56885911 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
56885866 TCTCAAAATT
*
56885876 ATACATGAATTTTAATTTA
1 ATACATGAACTTTAATTTA
56885895 ATACAT-AACTTTAATTT
1 ATACATGAACTTTAATTT
56885912 GGTGCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (19 bp):
ATACATGAACTTTAATTTA
Found at i:56889604 original size:2 final size:2
Alignment explanation
Indices: 56889599--56889626 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56889589 GTGTGTGTGT
56889599 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
56889627 ACCGGCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:56892538 original size:12 final size:13
Alignment explanation
Indices: 56892515--56892544 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
56892505 GTTGCGATTG
56892515 AAAAATATTTTTA
1 AAAAATATTTTTA
56892528 AAAAATATTTTTA
1 AAAAATATTTTTA
56892541 AAAA
1 AAAA
56892545 GTACAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAATATTTTTA
Found at i:56897198 original size:20 final size:20
Alignment explanation
Indices: 56897161--56897198 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56897151 CTAAACCGAT
*
56897161 ATTAATTTTTATTCTTCACA
1 ATTAATTTATATTCTTCACA
56897181 ATTAATCTTATATT-TTCA
1 ATTAAT-TTATATTCTTCA
56897199 TACAAATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTAATTTATATTCTTCACA
Found at i:56897571 original size:19 final size:20
Alignment explanation
Indices: 56897536--56897578 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
56897526 ACCTTACGTC
*
56897536 TTTCTTTCTCTTTTTTCT-T
1 TTTCTTTCTCTTCTTTCTGT
56897555 TTTCTTTCT-TTCCTTTCTGT
1 TTTCTTTCTCTT-CTTTCTGT
56897575 TTTC
1 TTTC
56897579 GTTTGGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 14 0.67
20 5 0.24
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTCTTTCTCTTCTTTCTGT
Found at i:56897717 original size:15 final size:16
Alignment explanation
Indices: 56897691--56897725 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
56897681 AAACTTATTT
*
56897691 TATTATAATATATATA
1 TATTATAATATATAAA
56897707 TATTA-AATATATAAA
1 TATTATAATATATAAA
56897722 TATT
1 TATT
56897726 TTACCTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTATAATATATAAA
Found at i:56912468 original size:11 final size:11
Alignment explanation
Indices: 56912454--56912578 Score: 73
Period size: 11 Copynumber: 12.4 Consensus size: 11
56912444 ATTTTTTTAA
56912454 TTTTAAAATAT
1 TTTTAAAATAT
56912465 TTTTAAAATACT
1 TTTTAAAATA-T
*
56912477 TTTT---TTAT
1 TTTTAAAATAT
*
56912485 TTTT--TA-AT
1 TTTTAAAATAT
56912493 -TTTAAAATAT
1 TTTTAAAATAT
56912503 TTTTAAAATACT
1 TTTTAAAATA-T
56912515 TTTTAAAAT-T
1 TTTTAAAATAT
*
56912525 TTTT----TAA
1 TTTTAAAATAT
56912532 TTTTAAAATAT
1 TTTTAAAATAT
56912543 TTTTAAAATACT
1 TTTTAAAATA-T
*
56912555 TTTT--TA-AT
1 TTTTAAAATAT
56912563 TTTTAAAATAAT
1 TTTTAAAAT-AT
56912575 TTTT
1 TTTT
56912579 TGGTATTTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 33
0.69 0.05 0.25
Matches are distributed among these distances:
6 1 0.01
7 7 0.08
8 12 0.13
9 4 0.04
10 9 0.10
11 31 0.34
12 26 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:56912528 original size:40 final size:39
Alignment explanation
Indices: 56912437--56912566 Score: 226
Period size: 38 Copynumber: 3.3 Consensus size: 39
56912427 AATATATTTA
56912437 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
56912476 TTTTTTTA-TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
56912514 TTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTT-TAATTTTTTTAATTTTAAAATATTTTTAAAATAC
56912554 TTTTTTAATTTTT
1 TTTTTTAATTTTT
56912567 AAAATAATTT
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
38 35 0.41
39 15 0.18
40 35 0.41
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (39 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:56912564 original size:20 final size:20
Alignment explanation
Indices: 56912541--56912579 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56912531 ATTTTAAAAT
*
56912541 ATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATAATTTTTTA
56912561 ATTTTTAAAATAATTTTTT
1 ATTTTTAAAATAATTTTTT
56912580 GGTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTAAAATAATTTTTTA
Found at i:56914238 original size:21 final size:21
Alignment explanation
Indices: 56914186--56914238 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
56914176 AGTGTTAAAT
* * **
56914186 GGAAACCCATAAGGGTTGAGT
1 GGAAACCCATAAGAGCTGAAC
* *
56914207 GGAAGCTCATAAGAGCTGAAC
1 GGAAACCCATAAGAGCTGAAC
56914228 GGAAACCCATA
1 GGAAACCCATA
56914239 GGGGTTAAAC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (21 bp):
GGAAACCCATAAGAGCTGAAC
Found at i:56914307 original size:42 final size:42
Alignment explanation
Indices: 56914186--56914307 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
56914176 AGTGTTAAAT
* * ** *
56914186 GGAAACCCATAAGGGTTGAGTGGAAGCTCATAAGAGCTGAAC
1 GGAAACCCATTAGGGTTAAACGGAAGCTCATAAGAGTTGAAC
* * *
56914228 GGAAACCCA-TAGGGGTTAAACTGAAGCTCAAAAGAGTTGAAT
1 GGAAACCCATTA-GGGTTAAACGGAAGCTCATAAGAGTTGAAC
* * *
56914270 TGAAACCCATTAGGGTTAAACGGAAACTCATATGAGTT
1 GGAAACCCATTAGGGTTAAACGGAAGCTCATAAGAGTT
56914308 AACTGGAGCT
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 1 0.02
42 62 0.95
43 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (42 bp):
GGAAACCCATTAGGGTTAAACGGAAGCTCATAAGAGTTGAAC
Found at i:56918465 original size:13 final size:13
Alignment explanation
Indices: 56918447--56918471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56918437 AAATTCAATG
56918447 TCAATTTCATATA
1 TCAATTTCATATA
56918460 TCAATTTCATAT
1 TCAATTTCATAT
56918472 CCAAACATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TCAATTTCATATA
Found at i:56919376 original size:20 final size:20
Alignment explanation
Indices: 56919325--56919377 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
56919315 TAATAATAGA
* *
56919325 AATTTATCCGTATCAACAGT
1 AATTCATCCATATCAACAGT
* *
56919345 AA-CCTATACATATCAACAGT
1 AATTC-ATCCATATCAACAGT
56919365 AATTCATCCATAT
1 AATTCATCCATAT
56919378 AATTACATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.32
Consensus pattern (20 bp):
AATTCATCCATATCAACAGT
Found at i:56919584 original size:23 final size:22
Alignment explanation
Indices: 56919549--56919711 Score: 123
Period size: 22 Copynumber: 7.0 Consensus size: 22
56919539 CTGAGCTAAT
* *
56919549 AAACAGTAGGCTCTATTGAGCTG
1 AAACAGTAAGCTCTA-CGAGCTG
*
56919572 AAACGGTAAGCTCTGACGAGCT-
1 AAACAGTAAGCTCT-ACGAGCTG
* *
56919594 AGACAGTAAGCTCTGACAAGCT-
1 AAACAGTAAGCTCT-ACGAGCTG
* *
56919616 AGACAGTAAGCTCATATGAGCTG
1 AAACAGTAAGCTC-TACGAGCTG
56919639 AAACAGTAAGCTCTAACGAGCTG
1 AAACAGTAAGCTCT-ACGAGCTG
* *
56919662 AAAACAATAGGCTCTTACGAGCTG
1 -AAACAGTAAGCTC-TACGAGCTG
*
56919686 AAATATCGGTAAGCTCATACGAGCTG
1 -AA-A-CAGTAAGCTC-TACGAGCTG
56919712 TGGTGAGTCC
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
22 38 0.33
23 37 0.32
24 23 0.20
25 2 0.02
26 16 0.14
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (22 bp):
AAACAGTAAGCTCTACGAGCTG
Found at i:56919675 original size:24 final size:24
Alignment explanation
Indices: 56919633--56919688 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
56919623 AAGCTCATAT
*
56919633 GAGCTG-AAACAGTAAGCTCTAAC
1 GAGCTGAAAACAATAAGCTCTAAC
* *
56919656 GAGCTGAAAACAATAGGCTCTTAC
1 GAGCTGAAAACAATAAGCTCTAAC
56919680 GAGCTGAAA
1 GAGCTGAAA
56919689 TATCGGTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (24 bp):
GAGCTGAAAACAATAAGCTCTAAC
Found at i:56919944 original size:49 final size:49
Alignment explanation
Indices: 56919890--56919983 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 49
56919880 ATCTATTCAT
56919890 TTAAATACATACATTTAAATACTCAATTCGCATACCTTCTCAAATTTAA
1 TTAAATACATACATTTAAATACTCAATTCGCATACCTTCTCAAATTTAA
*
56919939 TTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAAT
1 TTAAATACATACATTTAAATACTCAATTCGCATACCTTCTCAAAT
56919984 CACATATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.40, C:0.20, G:0.02, T:0.37
Consensus pattern (49 bp):
TTAAATACATACATTTAAATACTCAATTCGCATACCTTCTCAAATTTAA
Found at i:56920010 original size:67 final size:67
Alignment explanation
Indices: 56919933--56920229 Score: 531
Period size: 67 Copynumber: 4.4 Consensus size: 67
56919923 ACCTTCTCAA
56919933 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
1 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
56919998 CG
66 CG
* * *
56920000 ATTTAATTAAATACATGCATTTAAGTACTCAATTCACATACTTTCTCAAATCACATATATATAAT
1 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
56920065 CG
66 CG
* * *
56920067 ATTTAATTAAATACATACATTTAAATTCTCAAATCGCATACTTTCTCAAATCACATACATATAAT
1 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
56920132 CG
66 CG
56920134 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
1 ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
56920199 CG
66 CG
*
56920201 ATTTAATTAAATACATACATTTAATTACT
1 ATTTAATTAAATACATACATTTAAATACT
56920230 ATTGCAATTG
Statistics
Matches: 217, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 217 1.00
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.38
Consensus pattern (67 bp):
ATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCACATATATATAAT
CG
Found at i:56920114 original size:17 final size:17
Alignment explanation
Indices: 56920092--56920124 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56920082 TACATTTAAA
*
56920092 TTCTCAAATCGCATACT
1 TTCTCAAATCACATACT
56920109 TTCTCAAATCACATAC
1 TTCTCAAATCACATAC
56920125 ATATAATCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (17 bp):
TTCTCAAATCACATACT
Found at i:56924466 original size:30 final size:30
Alignment explanation
Indices: 56924422--56924482 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
56924412 TCCTTATTAA
*
56924422 CCCACTAAAACACAACTACTCAGAATTTTG
1 CCCACTAAAACACAACTACTCAAAATTTTG
* *
56924452 CCCATTAAAGCACAACTACTCAAAATTTTG
1 CCCACTAAAACACAACTACTCAAAATTTTG
56924482 C
1 C
56924483 AAAAAATACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.30, G:0.07, T:0.25
Consensus pattern (30 bp):
CCCACTAAAACACAACTACTCAAAATTTTG
Found at i:56926392 original size:21 final size:21
Alignment explanation
Indices: 56926363--56926430 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
56926353 ACTCATTTGA
* *
56926363 GTTTTCGTTCAACCCTAATGG
1 GTTTCCGTTCAACCCTTATGG
* * *
56926384 GTTTCCGTTCAGCTCTTATGA
1 GTTTCCGTTCAACCCTTATGG
* *
56926405 GCTTCCCTTCAACCCTTATGG
1 GTTTCCGTTCAACCCTTATGG
56926426 GTTTC
1 GTTTC
56926431 TATTTAGCAC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.40
Consensus pattern (21 bp):
GTTTCCGTTCAACCCTTATGG
Found at i:56926444 original size:42 final size:42
Alignment explanation
Indices: 56926370--56926451 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
56926360 TGAGTTTTCG
* *
56926370 TTCAACCCTAATGGGTTTCCGTTCAGCTCTTATGAGCTTCCC
1 TTCAACCCTAATGGGTTTCCATTCAGCACTTATGAGCTTCCC
* * * *
56926412 TTCAACCCTTATGGGTTTCTATTTAGCACTTATGTGCTTC
1 TTCAACCCTAATGGGTTTCCATTCAGCACTTATGAGCTTC
56926452 TGTTCAGCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.17, C:0.27, G:0.16, T:0.40
Consensus pattern (42 bp):
TTCAACCCTAATGGGTTTCCATTCAGCACTTATGAGCTTCCC
Found at i:56944252 original size:30 final size:30
Alignment explanation
Indices: 56944218--56944274 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
56944208 CTTTATAGTT
*
56944218 TTTTAGGAGGAG-TAAATCAAAATTTTATTA
1 TTTTAAGAGGAGATAAAT-AAAATTTTATTA
* *
56944248 TTTTAAGAGGGGATAAATATAATTTTA
1 TTTTAAGAGGAGATAAATAAAATTTTA
56944275 CCATGTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (30 bp):
TTTTAAGAGGAGATAAATAAAATTTTATTA
Found at i:56951410 original size:3 final size:3
Alignment explanation
Indices: 56951402--56951427 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
56951392 AATATTAAAA
56951402 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
56951428 AAGATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:56958668 original size:17 final size:17
Alignment explanation
Indices: 56958622--56958668 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
56958612 TGAAAAGCCA
56958622 AAAACCCGAAAATAACTC
1 AAAACCCG-AAATAACTC
* * *
56958640 AAAACTCAAAATAACTT
1 AAAACCCGAAATAACTC
56958657 AAAACCCGAAAT
1 AAAACCCGAAAT
56958669 GAGCTAAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.57, C:0.23, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAACCCGAAATAACTC
Found at i:56967402 original size:3 final size:3
Alignment explanation
Indices: 56967394--56967428 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
56967384 TATACACACA
56967394 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56967429 ATAGACTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:56971256 original size:4 final size:4
Alignment explanation
Indices: 56971247--56971272 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
56971237 AACAGAGTGT
56971247 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
56971273 AAGAAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:56977737 original size:12 final size:12
Alignment explanation
Indices: 56977720--56977750 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
56977710 AACCACACGC
56977720 CCGTGTGCATAA
1 CCGTGTGCATAA
56977732 CCGTGTGCATAA
1 CCGTGTGCATAA
56977744 CCGTGTG
1 CCGTGTG
56977751 TCACGAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.26
Consensus pattern (12 bp):
CCGTGTGCATAA
Found at i:56983621 original size:15 final size:15
Alignment explanation
Indices: 56983601--56983629 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56983591 GGTTAAAATG
56983601 TGATCTAGTAATAAA
1 TGATCTAGTAATAAA
56983616 TGATCTAGTAATAA
1 TGATCTAGTAATAA
56983630 CAAAATGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (15 bp):
TGATCTAGTAATAAA
Found at i:57003820 original size:34 final size:34
Alignment explanation
Indices: 57003782--57003847 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
57003772 CTCTAATAAA
57003782 TGATAGAATTAAAAGTTATTATGTGATAAAATTG
1 TGATAGAATTAAAAGTTATTATGTGATAAAATTG
*
57003816 TGATATAATTAAAAGTTATTATGTGATAAAAT
1 TGATAGAATTAAAAGTTATTATGTGATAAAAT
57003848 CGTGCTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (34 bp):
TGATAGAATTAAAAGTTATTATGTGATAAAATTG
Found at i:57003845 original size:17 final size:17
Alignment explanation
Indices: 57003791--57003846 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
57003781 ATGATAGAAT
57003791 TAAAAGTTATTATGTGA
1 TAAAAGTTATTATGTGA
* * * *
57003808 TAAAA-TTGTGATATAA
1 TAAAAGTTATTATGTGA
57003824 TTAAAAGTTATTATGTGA
1 -TAAAAGTTATTATGTGA
57003842 TAAAA
1 TAAAA
57003847 TCGTGCTTTG
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
16 7 0.24
17 15 0.52
18 7 0.24
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.39
Consensus pattern (17 bp):
TAAAAGTTATTATGTGA
Found at i:57008054 original size:23 final size:22
Alignment explanation
Indices: 57008023--57008077 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
57008013 ATGTTCTTCT
* *
57008023 AAAATTATTATTACACAA-ATCAA
1 AAAAATATT-TTACAAAACATC-A
*
57008046 AAAAATATTTTATAAAACATCA
1 AAAAATATTTTACAAAACATCA
57008068 AAAAATATTT
1 AAAAATATTT
57008078 ATAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAATATTTTACAAAACATCA
Found at i:57013395 original size:24 final size:24
Alignment explanation
Indices: 57013344--57013389 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
57013334 CAGCTCGAAA
* * *
57013344 GAGCATCCCGTTATTATCTCTCAT
1 GAGCATCACGTTATTAGCCCTCAT
57013368 GAGCATCACGTTATTAGCCCTC
1 GAGCATCACGTTATTAGCCCTC
57013390 TCGAGCTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (24 bp):
GAGCATCACGTTATTAGCCCTCAT
Found at i:57013517 original size:25 final size:25
Alignment explanation
Indices: 57013489--57013741 Score: 88
Period size: 25 Copynumber: 10.1 Consensus size: 25
57013479 ACACACCACA
*
57013489 GCTCTTATGAGCGTCCCGATATATG
1 GCTCTTATGAGCTTCCCGATATATG
* *
57013514 GCTCTTAGTGAGCTTCCCAAT-TAAAG
1 GCTCTTA-TGAGCTTCCCGATAT-ATG
* *
57013540 GCTCTTTGTGAACTTCCCGATATATG
1 GCTC-TTATGAGCTTCCCGATATATG
* * *
57013566 GCTATCT-GGAGCTTCCAGATAT-TG
1 GCTCT-TATGAGCTTCCCGATATATG
* *
57013590 GCTCGCTTA--AACTTCCTGATATATG
1 GCT--CTTATGAGCTTCCCGATATATG
* ** * *
57013615 GCTATTCGGAGCTTTCTGAT-TATTG
1 GCTCTTATGAGCTTCCCGATATA-TG
*** * * *
57013640 GCTCACGTGAACTTTCTGAT-TATG
1 GCTCTTATGAGCTTCCCGATATATG
* * **
57013664 GCTTTTATGAGCTTCCCGTTATACA
1 GCTCTTATGAGCTTCCCGATATATG
* ** * * *
57013689 GCCCGGATAAGCTTCCCGTTACATG
1 GCTCTTATGAGCTTCCCGATATATG
** *
57013714 GCTCACATGAGCTTCCCGTTATATG
1 GCTCTTATGAGCTTCCCGATATATG
57013739 GCT
1 GCT
57013742 TGAGAGAGAG
Statistics
Matches: 168, Mismatches: 47, Indels: 26
0.70 0.20 0.11
Matches are distributed among these distances:
23 2 0.01
24 32 0.19
25 96 0.57
26 35 0.21
27 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCCGATATATG
Found at i:57013531 original size:26 final size:26
Alignment explanation
Indices: 57013489--57013593 Score: 94
Period size: 26 Copynumber: 4.2 Consensus size: 26
57013479 ACACACCACA
*
57013489 GCTCTTA-TGAGCGTCCCGATATATG
1 GCTCTTAGTGAGCTTCCCGATATATG
* *
57013514 GCTCTTAGTGAGCTTCCCAAT-TAAAG
1 GCTCTTAGTGAGCTTCCCGATAT-ATG
* *
57013540 GCTCTTTGTGAACTTCCCGATATATG
1 GCTCTTAGTGAGCTTCCCGATATATG
* *
57013566 GCTATCT-G-GAGCTTCCAGATAT-TG
1 GCTCT-TAGTGAGCTTCCCGATATATG
57013590 GCTC
1 GCTC
57013594 GCTTAAACTT
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
24 5 0.08
25 20 0.31
26 38 0.58
27 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (26 bp):
GCTCTTAGTGAGCTTCCCGATATATG
Found at i:57013614 original size:49 final size:50
Alignment explanation
Indices: 57013550--57013666 Score: 141
Period size: 49 Copynumber: 2.4 Consensus size: 50
57013540 GCTCTTTGTG
* * *
57013550 AACTTCCCGATATATGGCTA-TCTGGAGCTTCCAGA-TATTGGCTCGCTTA
1 AACTTCCTGATATATGGCTATTC-GGAGCTTCCAGATTATTGGCTCACGTA
* * *
57013599 AACTTCCTGATATATGGCTATTCGGAGCTTTCTGATTATTGGCTCACGTG
1 AACTTCCTGATATATGGCTATTCGGAGCTTCCAGATTATTGGCTCACGTA
*
57013649 AACTTTCTGAT-TATGGCT
1 AACTTCCTGATATATGGCT
57013667 TTTATGAGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 36 0.61
50 23 0.39
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (50 bp):
AACTTCCTGATATATGGCTATTCGGAGCTTCCAGATTATTGGCTCACGTA
Found at i:57021129 original size:13 final size:13
Alignment explanation
Indices: 57021113--57021152 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
57021103 TTCACAAAAA
57021113 TTTTATAATTTATT
1 TTTTATAATTT-TT
*
57021127 TTTTATAAATTTT
1 TTTTATAATTTTT
*
57021140 GTTTATAATTTTT
1 TTTTATAATTTTT
57021153 CTGTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (13 bp):
TTTTATAATTTTT
Found at i:57025648 original size:23 final size:22
Alignment explanation
Indices: 57025593--57025648 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
57025583 AGATATTTTG
57025593 AATA-ATTTAT-TTAATTAAAT
1 AATATATTTATATTAATTAAAT
*
57025613 AATATATTAATATTAATTAAATT
1 AATATATTTATATTAATTAAA-T
* *
57025636 AATTTTTTTATAT
1 AATATATTTATAT
57025649 ATTTTAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.14
21 5 0.17
22 9 0.31
23 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATATTTATATTAATTAAAT
Done.