Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 41 of 185
Found at i:11482318 original size:43 final size:43
Alignment explanation
Indices: 11482265--11482616 Score: 263
Period size: 43 Copynumber: 8.2 Consensus size: 43
11482255 TGGTGGCCTT
* *
11482265 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTC
1 TTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTC
* ** * * *
11482308 TTTAGCGGCGTTTGTGGAAAAAGTGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTC
* *
11482351 TTTAGCGGCGTTTGTGAG--AAAGCGCCGCTAAAGATCAGAGTC
1 TTTAGCGGCGTTTTTG-GTCAAAGCGCCGCTAAAGATCAGGGTC
* ** *
11482393 TATT-GCGGCGTTTTAGGGGAAAGCGCCGCTAAAGAAT-A-AGTC
1 T-TTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAG-ATCAGGGTC
* *
11482435 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGAAT-AGGTTC
1 TTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAG-ATCAGGGTC
* * * *
11482478 TTTAGTGGCGTTTGTGGT-ATAAACGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTTTGGTCA-AAGCGCCGCTAAAGATCAGGGTC
* * * * * * * ** *
11482521 TATT-GCGACGTTTTAGATAAAAACGCCTCTAAAGACCCTGATC
1 T-TTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTC
* ** * *
11482564 TTTAGCGGCGCTTTT-CCCAAAAACGTCGCTAAAGATCAGGGTC
1 TTTAGCGGCGTTTTTGGTC-AAAGCGCCGCTAAAGATCAGGGTC
11482607 TTTAGCGGCG
1 TTTAGCGGCG
11482617 CTTAAACTAA
Statistics
Matches: 249, Mismatches: 47, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
41 3 0.01
42 71 0.29
43 169 0.68
44 6 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTC
Found at i:11482505 original size:85 final size:83
Alignment explanation
Indices: 11482265--11482515 Score: 253
Period size: 85 Copynumber: 2.9 Consensus size: 83
11482255 TGGTGGCCTT
11482265 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAA
1 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAA-GGTCTTTAGCGGCGTTTGTGG-AAAA
* * *
11482330 GTGCCACTAAAGATCATGGTC
64 -CGCCGCTAAAGATCATAGTC
* * * *
11482351 TTTAGCGGCGTTTGTGAG--AAAGCGCCGCTAAAGATCAGAGTCTATT-GCGGCGTTTTAGGGGA
1 TTTAGTGGCGTTTTTG-GTCAAAGCGCCGCTAAAGATAAG-GTCT-TTAGCGGCG-TTT-GTGGA
*
11482413 AAGCGCCGCTAAAGA--ATAAGTC
61 AAACGCCGCTAAAGATCAT-AGTC
*
11482435 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGA-ATAGGTTCTTTAGTGGCGTTTGTGGTATA
1 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATA-AGG-TCTTTAGCGGCGTTTGTGG-A-A
*
11482499 AACGCCGCTATAGATCA
62 AACGCCGCTAAAGATCA
11482516 GGGTCTATTG
Statistics
Matches: 135, Mismatches: 15, Indels: 29
0.75 0.08 0.16
Matches are distributed among these distances:
83 6 0.04
84 25 0.19
85 77 0.57
86 22 0.16
87 5 0.04
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (83 bp):
TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGTCTTTAGCGGCGTTTGTGGAAAACG
CCGCTAAAGATCATAGTC
Found at i:11487717 original size:22 final size:21
Alignment explanation
Indices: 11487691--11487737 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
11487681 AATAGATATG
11487691 TTAAAAAATCATAATAATTA-
1 TTAAAAAATCATAATAATTAT
*
11487711 TT-ATAAATCATAATAATTAT
1 TTAAAAAATCATAATAATTAT
11487731 TTAAAAA
1 TTAAAAA
11487738 TTTTAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 16 0.70
20 4 0.17
21 3 0.13
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAAAAATCATAATAATTAT
Found at i:11488427 original size:20 final size:20
Alignment explanation
Indices: 11488404--11488443 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11488394 AATATTTTTT
11488404 TTTTTA-CAATTTTTCACAAA
1 TTTTTATCAATTTTT-ACAAA
*
11488424 TTTTTATGAATTTTTACAAA
1 TTTTTATCAATTTTTACAAA
11488444 GCTAGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTTATCAATTTTTACAAA
Found at i:11489010 original size:16 final size:16
Alignment explanation
Indices: 11488989--11489025 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
11488979 TTAGTTCGCT
11488989 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
11489005 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
11489021 GTAAT
1 GTAAT
11489026 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:11489058 original size:46 final size:44
Alignment explanation
Indices: 11489005--11489095 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 44
11488995 GAATAGAGGC
11489005 GTAATGGAATAGAGGCGTAATAGGTAATTCTTT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAAT-GGT-ATT-TTTGTGTTTGGTTGAAT
11489051 GTAATGGAATAGAGGCGTAATGGTATTTTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATGGTATTTTTGTGTTTGGTTGAAT
11489095 G
1 G
11489096 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
43 3 0.07
44 17 0.39
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.03, G:0.31, T:0.40
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATGGTATTTTTGTGTTTGGTTGAAT
Found at i:11489274 original size:15 final size:15
Alignment explanation
Indices: 11489254--11489292 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
11489244 CATAATTGTT
11489254 ATAAAATATAATTTA
1 ATAAAATATAATTTA
11489269 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
11489286 ATAAAAT
1 ATAAAAT
11489293 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:11489299 original size:17 final size:17
Alignment explanation
Indices: 11489259--11489292 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11489249 TTGTTATAAA
11489259 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11489276 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11489293 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11489304 original size:43 final size:43
Alignment explanation
Indices: 11489247--11489422 Score: 141
Period size: 43 Copynumber: 4.4 Consensus size: 43
11489237 ATTTTAACAT
11489247 AATTGTT-ATAAAATATAATTTAATAAAATATATAATTTAATAA
1 AATTGTTAAT-AAATATAATTTAATAAAATATATAATTTAATAA
* *
11489290 AATTGTTAATAAATAT--TCTT-ATATGAAT-T-T-A-CTAATAA
1 AATTGTTAATAAATATAAT-TTAATA-AAATATATAATTTAATAA
** *
11489328 AA-TCATAAT--ATATAA--TACT-AAA-ATATAATTTAA-AA
1 AATTGTTAATAAATATAATTTAATAAAATATATAATTTAATAA
* *
11489363 TAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAA
1 -AATTGTTAATAAATATAATTTAATAAAATATATAATTTAATAA
11489407 AATTGTTAATAAATAT
1 AATTGTTAATAAATAT
11489423 TCTTATATGA
Statistics
Matches: 101, Mismatches: 13, Indels: 38
0.66 0.09 0.25
Matches are distributed among these distances:
33 3 0.03
34 2 0.02
35 8 0.08
36 5 0.05
37 9 0.09
38 8 0.08
39 7 0.07
40 1 0.01
41 8 0.08
42 8 0.08
43 38 0.38
44 4 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (43 bp):
AATTGTTAATAAATATAATTTAATAAAATATATAATTTAATAA
Found at i:11489364 original size:20 final size:21
Alignment explanation
Indices: 11489325--11489364 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11489315 AATTTACTAA
*
11489325 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
11489346 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
11489365 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:11489380 original size:117 final size:117
Alignment explanation
Indices: 11489239--11489611 Score: 588
Period size: 117 Copynumber: 3.3 Consensus size: 117
11489229 TTAATCATAT
* * *
11489239 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
11489304 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
11489356 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
11489421 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* * *
11489473 TTTAAAATAATAATTATTAAATATAATTTAATAATAATAGATAATTTAATAAAA---TT-CT---
1 TTTAAAATAATTATTATTAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAA
11489531 TATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
11489583 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
11489612 TAATCTACTT
Statistics
Matches: 246, Mismatches: 7, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
108 21 0.09
109 25 0.10
110 13 0.05
111 19 0.08
114 1 0.00
115 2 0.01
117 147 0.60
118 18 0.07
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:11489416 original size:17 final size:17
Alignment explanation
Indices: 11489376--11489409 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11489366 TTATTATTAA
11489376 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11489393 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11489410 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11489481 original size:20 final size:21
Alignment explanation
Indices: 11489442--11489481 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11489432 AATTTACTAA
*
11489442 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
11489463 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
11489482 ATAATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:11489485 original size:26 final size:27
Alignment explanation
Indices: 11489449--11489511 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 27
11489439 TAATAAAATC
11489449 ATAATATATAA-TACTAAAATATAATTTA
1 ATAATA-ATAATTA-TAAAATATAATTTA
*
11489477 A-AATAATAATTATTAAATATAATTTA
1 ATAATAATAATTATAAAATATAATTTA
11489503 ATAATAATA
1 ATAATAATA
11489512 GATAATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 18 0.56
27 13 0.41
28 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
ATAATAATAATTATAAAATATAATTTA
Found at i:11489500 original size:13 final size:12
Alignment explanation
Indices: 11489463--11489508 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
11489453 TATATAATAC
11489463 TAAAATATAATT
1 TAAAATATAATT
11489475 TAAAATAATAATT
1 TAAAAT-ATAATT
*
11489488 ATTAAATATAATT
1 -TAAAATATAATT
11489501 TAATAATA
1 TAA-AATA
11489509 ATAGATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 8 0.28
13 16 0.55
14 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:11489607 original size:32 final size:32
Alignment explanation
Indices: 11489571--11489635 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
11489561 TATATAATAC
*
11489571 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
11489603 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
11489635 T
1 T
11489636 TGCAATACAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:11494167 original size:26 final size:26
Alignment explanation
Indices: 11494138--11494187 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
11494128 CGTAAAATAC
11494138 TGCAGCTAATACCAATGACAAAAACA
1 TGCAGCTAATACCAATGACAAAAACA
*
11494164 TGCAGCTAATATCAATGACAAAAA
1 TGCAGCTAATACCAATGACAAAAA
11494188 TAAATGCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.18
Consensus pattern (26 bp):
TGCAGCTAATACCAATGACAAAAACA
Found at i:11495169 original size:23 final size:22
Alignment explanation
Indices: 11495125--11495169 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11495115 ATAAAAAATC
*
11495125 TATTTAAAAAAAGGTCAAATTT
1 TATTTAAAAAAAGGTAAAATTT
11495147 TATTTAAAATAAAGG-AAATATTT
1 TATTTAAAA-AAAGGTAAA-ATTT
11495170 CCACTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
TATTTAAAAAAAGGTAAAATTT
Found at i:11498921 original size:20 final size:20
Alignment explanation
Indices: 11498879--11498922 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11498869 TCAAACAATA
*
11498879 ATTCAAATAATATTATAACT
1 ATTCAAATAATATTAGAACT
*
11498899 ATTCAAATATTATTCAGAA-T
1 ATTCAAATAATATT-AGAACT
11498919 ATTC
1 ATTC
11498923 TTTGGCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTCAAATAATATTAGAACT
Found at i:11499016 original size:23 final size:23
Alignment explanation
Indices: 11498915--11499016 Score: 102
Period size: 23 Copynumber: 4.5 Consensus size: 23
11498905 ATATTATTCA
*
11498915 GAATATTCTTTGGCATGAGTAGT
1 GAATATTCTCTGGCATGAGTAGT
** ** *
11498938 AGAA-A-TCTCTGGCAAAAACAAT
1 -GAATATTCTCTGGCATGAGTAGT
* *
11498960 -AAGATTCTCTAGCATGAGTAGT
1 GAATATTCTCTGGCATGAGTAGT
11498982 GAATATTCTCTGGCATGAGTAGT
1 GAATATTCTCTGGCATGAGTAGT
11499005 GAATATTCTCTG
1 GAATATTCTCTG
11499017 TATTTTTGTA
Statistics
Matches: 61, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.03
21 1 0.02
22 22 0.36
23 33 0.54
24 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (23 bp):
GAATATTCTCTGGCATGAGTAGT
Found at i:11499211 original size:15 final size:15
Alignment explanation
Indices: 11499193--11499228 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11499183 CTCGTTTCTC
11499193 CAAATTTTAAGTTTT
1 CAAATTTTAAGTTTT
*
11499208 CAAAATTTAAGTTTT
1 CAAATTTTAAGTTTT
*
11499223 TAAATT
1 CAAATT
11499229 ATTTTCCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (15 bp):
CAAATTTTAAGTTTT
Found at i:11502607 original size:15 final size:15
Alignment explanation
Indices: 11502587--11502617 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11502577 ACATCTATCG
11502587 AAATAGATGAATTAC
1 AAATAGATGAATTAC
11502602 AAATAGATGAATTAC
1 AAATAGATGAATTAC
11502617 A
1 A
11502618 TACTACATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (15 bp):
AAATAGATGAATTAC
Found at i:11507897 original size:11 final size:11
Alignment explanation
Indices: 11507867--11507899 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11507857 TTGATATGTT
11507867 AGTGAAGAGAA
1 AGTGAAGAGAA
*
11507878 AAT-AAGAGAA
1 AGTGAAGAGAA
11507888 AGTGAAGAGAA
1 AGTGAAGAGAA
11507899 A
1 A
11507900 TAGTGTAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.30, T:0.09
Consensus pattern (11 bp):
AGTGAAGAGAA
Found at i:11509869 original size:138 final size:141
Alignment explanation
Indices: 11509695--11509984 Score: 523
Period size: 138 Copynumber: 2.1 Consensus size: 141
11509685 GCCATTGGAT
11509695 TCTAAAAAATCCAACAATATTATGAAAACATACTGGTTCAAACACTATATAGACCCAAAAGATCC
1 TCTAAAAAATCCAACAATATTATGAAAACATACTGGTTCAAACACTATATAGACCCAAAAGATCC
11509760 AAATTTTATTACCCATTCAACAGCCCAAATATTAAAAATTCTTTGACC-AAAGGATTAGG-TGAA
66 AAATTTTATTACCCATTCAACAGCCCAAATATTAAAAATTCTTTGACCAAAAGGATTAGGATGAA
11509823 AACCCAAATTC
131 AACCCAAATTC
* *
11509834 TCTAAAACA-CCAGCAATATTATGAAAACATACTGGTTCAAACACTATATAGACCCAAAAGATCC
1 TCTAAAAAATCCAACAATATTATGAAAACATACTGGTTCAAACACTATATAGACCCAAAAGATCC
*
11509898 AAATTTTATTACCCATTCAACAGCCCAAATATTAAAAATTCTTTGACCAAAAGGATTGGGATGAA
66 AAATTTTATTACCCATTCAACAGCCCAAATATTAAAAATTCTTTGACCAAAAGGATTAGGATGAA
11509963 AACCCAAATTC
131 AACCCAAATTC
11509974 TCTAAAGAAAT
1 TCTAAA-AAAT
11509985 TTCTAGCCAA
Statistics
Matches: 143, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
138 102 0.71
139 18 0.13
140 21 0.15
141 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (141 bp):
TCTAAAAAATCCAACAATATTATGAAAACATACTGGTTCAAACACTATATAGACCCAAAAGATCC
AAATTTTATTACCCATTCAACAGCCCAAATATTAAAAATTCTTTGACCAAAAGGATTAGGATGAA
AACCCAAATTC
Found at i:11510809 original size:23 final size:23
Alignment explanation
Indices: 11510783--11510840 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
11510773 AGTGAACAGG
11510783 AAATATTCTCTGGCATGAATAGT
1 AAATATTCTCTGGCATGAATAGT
* *
11510806 AAATATTCTCTGGTATGAGTAGT
1 AAATATTCTCTGGCATGAATAGT
* *
11510829 GAGTATTCTCTG
1 AAATATTCTCTG
11510841 TAGTTTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (23 bp):
AAATATTCTCTGGCATGAATAGT
Found at i:11512048 original size:22 final size:22
Alignment explanation
Indices: 11512002--11512049 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11511992 TTTGTTAATT
*
11512002 TAAATTTAATTATAAAAACATA
1 TAAATTTAATTATAAAAACAAA
*
11512024 TAAATATTAA-TATAAAAATAAA
1 TAAAT-TTAATTATAAAAACAAA
11512046 TAAA
1 TAAA
11512050 AATTTCTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATTTAATTATAAAAACAAA
Found at i:11514358 original size:36 final size:36
Alignment explanation
Indices: 11514307--11514387 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
11514297 AAATGTGATA
* * *
11514307 TTAATATATTTTATATTTATTTAAGTTTTGTTCGGT
1 TTAAAATATTTTATATTTATTCAAGTTTTATTCGGT
*
11514343 TTAAAATATTTTATATTTGTTCAAGTTTTATTCGGT
1 TTAAAATATTTTATATTTATTCAAGTTTTATTCGGT
11514379 TTAAAATAT
1 TTAAAATAT
11514388 GAGTTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.57
Consensus pattern (36 bp):
TTAAAATATTTTATATTTATTCAAGTTTTATTCGGT
Found at i:11514487 original size:27 final size:27
Alignment explanation
Indices: 11514456--11514518 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
11514446 TTACTTCCCC
*
11514456 ATATTATTTTTTAT-TTTGAAAATATTT
1 ATATTATTTTTAATATTT-AAAATATTT
* *
11514483 ATATTATATTTAATATTTAAAATTTTT
1 ATATTATTTTTAATATTTAAAATATTT
11514510 ATA-TATTTT
1 ATATTATTTT
11514519 CATTTATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 5 0.16
27 23 0.74
28 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATTATTTTTAATATTTAAAATATTT
Found at i:11520581 original size:3 final size:3
Alignment explanation
Indices: 11520575--11520599 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11520565 AAGTTAAAAA
11520575 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
11520600 TTATATGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11525199 original size:15 final size:14
Alignment explanation
Indices: 11525178--11525213 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
11525168 ATAATCCTTA
*
11525178 ATAATTATCTTAAT
1 ATAATTATCCTAAT
11525192 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
11525207 ATAATTA
1 ATAATTA
11525214 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:11526090 original size:30 final size:30
Alignment explanation
Indices: 11526056--11526118 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11526046 ACTTATTTTA
11526056 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* * *
11526086 TTGTTAATTTTGTTATTCTTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
11526116 TTG
1 TTG
11526119 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:11526218 original size:18 final size:18
Alignment explanation
Indices: 11526197--11526236 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
11526187 GAAATATTTA
*
11526197 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
11526215 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
11526233 TTTT
1 TTTT
11526237 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:11526515 original size:31 final size:31
Alignment explanation
Indices: 11526480--11526560 Score: 162
Period size: 31 Copynumber: 2.6 Consensus size: 31
11526470 ATCTCAAAAT
11526480 TATACATGAACTTTAATTTAATGTACAATTC
1 TATACATGAACTTTAATTTAATGTACAATTC
11526511 TATACATGAACTTTAATTTAATGTACAATTC
1 TATACATGAACTTTAATTTAATGTACAATTC
11526542 TATACATGAACTTTAATTT
1 TATACATGAACTTTAATTT
11526561 GGTGCAATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.43
Consensus pattern (31 bp):
TATACATGAACTTTAATTTAATGTACAATTC
Found at i:11528143 original size:26 final size:26
Alignment explanation
Indices: 11528112--11528181 Score: 99
Period size: 25 Copynumber: 2.7 Consensus size: 26
11528102 AACATTATCC
11528112 GGTTGCTAACACTAGCTTCGGATT-AA
1 GGTTGCTAACACTAGCTTCGG-TTCAA
11528138 GGTTGCTAACACTAGCTT-GGTTCAA
1 GGTTGCTAACACTAGCTTCGGTTCAA
* *
11528163 TGCTGCTAACACTAGCTTC
1 GGTTGCTAACACTAGCTTC
11528182 AGAGAATCCG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 2 0.05
25 20 0.50
26 18 0.45
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (26 bp):
GGTTGCTAACACTAGCTTCGGTTCAA
Found at i:11529258 original size:10 final size:10
Alignment explanation
Indices: 11529243--11529272 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11529233 ACTTGGATTA
11529243 AATTATAATT
1 AATTATAATT
11529253 AATTATAATT
1 AATTATAATT
*
11529263 AACTATAATT
1 AATTATAATT
11529273 GACTAACGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTATAATT
Found at i:11540305 original size:18 final size:18
Alignment explanation
Indices: 11540284--11540334 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
11540274 AAAAAATAAG
11540284 AAAATATAT-TAAAAATT
1 AAAATATATATAAAAATT
* * *
11540301 AAAA-AAATCTCAAAATT
1 AAAATATATATAAAAATT
*
11540318 AAAATGTATATAAAAAT
1 AAAATATATATAAAAAT
11540335 ACACCAATAG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 3 0.12
17 15 0.58
18 8 0.31
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATATATATAAAAATT
Found at i:11541551 original size:18 final size:17
Alignment explanation
Indices: 11541528--11541566 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11541518 GAAAACATAT
*
11541528 AACCATTCCCACTATTTC
1 AACCATT-CAACTATTTC
*
11541546 AACCATTTAACTATTTC
1 AACCATTCAACTATTTC
11541563 AACC
1 AACC
11541567 TACTTATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (17 bp):
AACCATTCAACTATTTC
Found at i:11544300 original size:9 final size:9
Alignment explanation
Indices: 11544282--11544321 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
11544272 CTAACTTGAA
11544282 TTTTAGATTT
1 TTTTA-ATTT
11544292 TTTTAATTT
1 TTTTAATTT
* *
11544301 TTGTAATAT
1 TTTTAATTT
11544310 TTTTAATTT
1 TTTTAATTT
11544319 TTT
1 TTT
11544322 AGATATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 21 0.81
10 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (9 bp):
TTTTAATTT
Found at i:11544327 original size:18 final size:18
Alignment explanation
Indices: 11544282--11544327 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
11544272 CTAACTTGAA
*
11544282 TTTTAGATTTTTTTAATT
1 TTTTAGATATTTTTAATT
11544300 TTTGTA-ATATTTTTAATT
1 TTT-TAGATATTTTTAATT
11544318 TTTTAGATAT
1 TTTTAGATAT
11544328 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTAGATATTTTTAATT
Found at i:11551152 original size:12 final size:12
Alignment explanation
Indices: 11551128--11551164 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
11551118 TAAATAAACC
*
11551128 AAAT-ATAAAAA
1 AAATAATAATAA
11551139 AAATAATAATAA
1 AAATAATAATAA
11551151 AAATAA-AATAA
1 AAATAATAATAA
11551162 AAA
1 AAA
11551165 AGTTATCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 12 0.50
12 12 0.50
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:11551158 original size:17 final size:17
Alignment explanation
Indices: 11551129--11551161 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11551119 AAATAAACCA
11551129 AATATAAAAAAAATAAT
1 AATATAAAAAAAATAAT
11551146 AATA-AAAATAAAATAA
1 AATATAAAA-AAAATAA
11551162 AAAAGTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AATATAAAAAAAATAAT
Found at i:11551553 original size:14 final size:14
Alignment explanation
Indices: 11551534--11551561 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11551524 AGGCAGCAAA
11551534 AAAAACAGAAATAG
1 AAAAACAGAAATAG
11551548 AAAAACAGAAATAG
1 AAAAACAGAAATAG
11551562 CAGAGAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAACAGAAATAG
Found at i:11552491 original size:40 final size:41
Alignment explanation
Indices: 11552435--11552534 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 41
11552425 ATTTTTTTAA
* * *
11552435 TTTTAAAATATTTTTTTTAAAATTTTTAAAATTTT-TAATTT
1 TTTTAAAATA-CTTTTTTAAAATTTTTAAAATTTTAAAATAT
* **
11552476 TTTTAAAATAC-TTTTTAAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAAATTTTTAAAATTTTAAAATAT
11552516 TTTTAAAATACTTTTTTAA
1 TTTTAAAATACTTTTTTAA
11552535 TTTTTGTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
39 19 0.37
40 15 0.29
41 17 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (41 bp):
TTTTAAAATACTTTTTTAAAATTTTTAAAATTTTAAAATAT
Found at i:11552510 original size:17 final size:17
Alignment explanation
Indices: 11552488--11552521 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11552478 TTAAAATACT
* *
11552488 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
11552505 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
11552522 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:11552533 original size:41 final size:41
Alignment explanation
Indices: 11552435--11552557 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 41
11552425 ATTTTTTTAA
* * ** * *
11552435 TTTTAAAATATTTTTTTTAAAATTTTTAAAATTTT-TAATTT
1 TTTTAAAATA-CTTTTTTAAATTTTTTTTAATTTTAAAATAT
11552476 TTTTAAAATAC-TTTTTAAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAATTTTTTTTAATTTTAAAATAT
*
11552516 TTTTAAAATACTTTTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTTAAAATACTTTTTTAAATTTT-TTTTAA-TTTTAAAATA
11552558 AATTTTTTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
39 19 0.27
40 15 0.21
41 21 0.30
42 6 0.08
43 10 0.14
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (41 bp):
TTTTAAAATACTTTTTTAAATTTTTTTTAATTTTAAAATAT
Found at i:11552537 original size:40 final size:40
Alignment explanation
Indices: 11552435--11552557 Score: 131
Period size: 40 Copynumber: 3.0 Consensus size: 40
11552425 ATTTTTTTAA
* * ** * *
11552435 TTTTAAAATATTTTTTTTAAAATTTTTAAAATTTT-TAATTT
1 TTTTAAAATA-CTTTTTT-AATTTTTTTTAATTTTAAAATAT
*
11552476 TTTTAAAATACTTTTTAAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATAT
11552516 TTTTAAAATACTTTTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTTAAAATACTTTTTTAA-TTTT-TTTTAA-TTTTAAAATA
11552558 AATTTTTTGT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 13 0.19
40 27 0.39
41 14 0.20
42 6 0.09
43 10 0.14
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATAT
Found at i:11552892 original size:18 final size:19
Alignment explanation
Indices: 11552861--11552900 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
11552851 AATTATTTTC
**
11552861 ATTTTTATTGCTA-TTATT
1 ATTTTTATCACTATTTATT
11552879 ATTTTTATCACTATTTATT
1 ATTTTTATCACTATTTATT
11552898 ATT
1 ATT
11552901 GTTCTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTTTATCACTATTTATT
Found at i:11553048 original size:17 final size:17
Alignment explanation
Indices: 11553026--11553058 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11553016 TATTATTTAA
11553026 TTTTTA-ACTATATATAT
1 TTTTTATAC-ATATATAT
11553043 TTTTTATACATATATA
1 TTTTTATACATATATA
11553059 ACTTTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTATACATATATAT
Found at i:11569443 original size:21 final size:20
Alignment explanation
Indices: 11569396--11569450 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
11569386 ACCATTGTTT
*
11569396 CTAATCTCACTGCTACAGTA
1 CTAATCTCACCGCTACAGTA
* *
11569416 TTCAATCTCACCGCTATAGTAA
1 CT-AATCTCACCGCTACAGT-A
11569438 CTAATCTCACCGC
1 CTAATCTCACCGC
11569451 CACCGCTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 26 0.90
22 2 0.07
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (20 bp):
CTAATCTCACCGCTACAGTA
Found at i:11572846 original size:83 final size:82
Alignment explanation
Indices: 11572698--11572854 Score: 224
Period size: 83 Copynumber: 1.9 Consensus size: 82
11572688 TCATATACAG
* * * * *
11572698 AGACTTCAAAACTTCGAATATCTTGCTTGATTCGGTATGCAAACATGTTTAATTATTGAAATTTT
1 AGACTTCAAAACGTAGAATATCTTGCTTGATTCGGTATGCAAACATGCTTAAGTATCGAAATTTT
11572763 CATTGACTCTGTACATCA
66 CA-TGACTCTGTACATCA
* * * *
11572781 AGACTTTAAAACGTAGAATATCTTGCTTGATTTGGTCTGCAAACATGCTTAAGTATCGAAGTTTT
1 AGACTTCAAAACGTAGAATATCTTGCTTGATTCGGTATGCAAACATGCTTAAGTATCGAAATTTT
11572846 CATGACTCT
66 CATGACTCT
11572855 ATATCGAGCA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 7 0.11
83 58 0.89
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (82 bp):
AGACTTCAAAACGTAGAATATCTTGCTTGATTCGGTATGCAAACATGCTTAAGTATCGAAATTTT
CATGACTCTGTACATCA
Found at i:11574561 original size:21 final size:21
Alignment explanation
Indices: 11574527--11574567 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11574517 TTAATAATTT
*
11574527 TTAAAATTAAAAAATTAAAAA
1 TTAAAATTAAAAAAATAAAAA
**
11574548 TTAAAATTCTAAAAATAAAA
1 TTAAAATTAAAAAAATAAAA
11574568 GTAAAACAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAAAATTAAAAAAATAAAAA
Found at i:11575122 original size:3 final size:3
Alignment explanation
Indices: 11575114--11575151 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11575104 TACATGATGT
11575114 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11575152 TGCAGCTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11577336 original size:21 final size:21
Alignment explanation
Indices: 11577272--11577353 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
11577262 CCACACGACG
*
11577272 CTGGTTCCCTCTGCTGTTACA
1 CTGGTTCCCTCTGCTGCTACA
* **
11577293 CT-G--CTCTCTGCT-CTTTA
1 CTGGTTCCCTCTGCTGCTACA
*
11577310 CTGGTTCCCTCTGCTGCTACG
1 CTGGTTCCCTCTGCTGCTACA
11577331 CTGGTTCCCTCTGCTGCTACA
1 CTGGTTCCCTCTGCTGCTACA
11577352 CT
1 CT
11577354 ACTCTCTGCT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
17 4 0.08
18 9 0.19
20 9 0.19
21 26 0.54
ACGTcount: A:0.07, C:0.37, G:0.18, T:0.38
Consensus pattern (21 bp):
CTGGTTCCCTCTGCTGCTACA
Found at i:11578499 original size:13 final size:13
Alignment explanation
Indices: 11578481--11578507 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11578471 ATTTTTGTTC
11578481 ATGTATATAGTTA
1 ATGTATATAGTTA
11578494 ATGTATATAGTTA
1 ATGTATATAGTTA
11578507 A
1 A
11578508 ATTTTTGTTC
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:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (13 bp):
ATGTATATAGTTA
Found at i:11578526 original size:24 final size:24
Alignment explanation
Indices: 11578494--11578590 Score: 90
Period size: 24 Copynumber: 3.8 Consensus size: 24
11578484 TATATAGTTA
11578494 ATGTATATAGTTAAATTTTTGTTC
1 ATGTATATAGTTAAATTTTTGTTC
11578518 ATGTATATAGTTAAATTTTT-TAT-
1 ATGTATATAGTTAAATTTTTGT-TC
* * *
11578541 ACTGTTTTTTGTTAATACTGTTTTTTGTTC
1 A-TGTATATAGTTAA-A----TTTTTGTTC
11578571 ATGTATATAGTTAAATTTTT
1 ATGTATATAGTTAAATTTTT
11578591 TATACATATG
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
23 2 0.03
24 36 0.62
25 1 0.02
28 1 0.02
29 16 0.28
30 2 0.03
ACGTcount: A:0.27, C:0.04, G:0.11, T:0.58
Consensus pattern (24 bp):
ATGTATATAGTTAAATTTTTGTTC
Found at i:11578560 original size:16 final size:16
Alignment explanation
Indices: 11578539--11578569 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11578529 TAAATTTTTT
11578539 ATACTGTTTTTTGTTA
1 ATACTGTTTTTTGTTA
11578555 ATACTGTTTTTTGTT
1 ATACTGTTTTTTGTT
11578570 CATGTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.13, T:0.65
Consensus pattern (16 bp):
ATACTGTTTTTTGTTA
Found at i:11579903 original size:72 final size:72
Alignment explanation
Indices: 11579774--11579937 Score: 213
Period size: 72 Copynumber: 2.3 Consensus size: 72
11579764 CGAAGTATGT
* * * * * * **
11579774 TTTTATCAATAGTTATTTATGTTTAGTTTTTAGATATTGAACTTATGTTCTATTTATTTATGTGT
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAACTTAGGTTCCACTTATTTATGACT
11579839 -AATCTAG
66 AAAT-TAG
* * *
11579846 TTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTAGGTTCCACTTATTTTTGACT
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAACTTAGGTTCCACTTATTTATGACT
11579911 AAATTAG
66 AAATTAG
11579918 TTTTATTAATAGTTGTTTAT
1 TTTTATTAATAGTTGTTTAT
11579938 ATGTGATTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
72 77 0.96
73 3 0.04
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.55
Consensus pattern (72 bp):
TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAACTTAGGTTCCACTTATTTATGACT
AAATTAG
Found at i:11583984 original size:28 final size:27
Alignment explanation
Indices: 11583933--11583990 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
11583923 ACGTAACTTC
*
11583933 AAATGTAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGATTTCATTA
11583960 AAATGTAAAAA-CTTCAATGATTTCATTA
1 AAATGTAAAAACCTT--ATGATTTCATTA
11583988 AAA
1 AAA
11583991 CATAGCAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 3 0.11
27 11 0.39
28 14 0.50
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATGTAAAAACCTTATGATTTCATTA
Found at i:11585077 original size:25 final size:26
Alignment explanation
Indices: 11585030--11585082 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
11585020 TTTTTATTTT
*
11585030 AAAAATCTAAACTTTATCTTTTTAAAAA
1 AAAAATCAAAACTTTA--TTTTTAAAAA
11585058 AAAAATCAAAACTTTA-TTTTAAAAA
1 AAAAATCAAAACTTTATTTTTAAAAA
11585083 TTTGAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 9 0.38
28 15 0.62
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAAATCAAAACTTTATTTTTAAAAA
Found at i:11585113 original size:99 final size:99
Alignment explanation
Indices: 11584957--11585167 Score: 309
Period size: 99 Copynumber: 2.1 Consensus size: 99
11584947 GAAAGAGTTG
* *
11584957 AAAAAGATCAAAAAGTTGTTTTAAAAAATTTAAACTTTTCCTTAAAAATGACTAAAAAACATATT
1 AAAAAAATCAAAAAGTTATTTTAAAAAATTTAAACTTTTCCTTAAAAATGACTAAAAAACATATT
11585022 TTTATTTTAAAAATCTAAACTTTATCTTTTTAAA
66 TTTATTTTAAAAATCTAAACTTTATCTTTTTAAA
** * **
11585056 AAAAAAATCAAAACTTTATTTT-AAAAATTTGAAC-TTTCCTTTGAAATGACTAAAAAAAACATA
1 AAAAAAATCAAAAAGTTATTTTAAAAAATTTAAACTTTTCCTTAAAAATGACT--AAAAAACATA
* *
11585119 TTTTTATTTTTAAAATCTAAACTTTCTCTTTTTAAA
64 TTTTTATTTTAAAAATCTAAACTTTATCTTTTTAAA
11585155 AAAAAAATCAAAA
1 AAAAAAATCAAAA
11585168 TTTTTCTTAA
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
97 15 0.15
98 11 0.11
99 75 0.74
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.38
Consensus pattern (99 bp):
AAAAAAATCAAAAAGTTATTTTAAAAAATTTAAACTTTTCCTTAAAAATGACTAAAAAACATATT
TTTATTTTAAAAATCTAAACTTTATCTTTTTAAA
Found at i:11589250 original size:37 final size:36
Alignment explanation
Indices: 11589197--11589272 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
11589187 ATTCCAAAAA
*
11589197 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
11589233 TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
11589270 TAA
1 TAA
11589273 AGTGATTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:11589272 original size:11 final size:11
Alignment explanation
Indices: 11589197--11589272 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
11589187 ATTCCAAAAA
*
11589197 TAATATTATTT
1 TAATATTAATT
11589208 TAATAGTTTAATAT
1 TAATA--TTAAT-T
11589222 TAA-ATTTAATT
1 TAATA-TTAATT
*
11589233 TAATATTTATCT
1 TAATATTAAT-T
*
11589245 TAATAGT-ATT
1 TAATATTAATT
11589255 T--TATTAATT
1 TAATATTAATT
11589264 TAATATTAA
1 TAATATTAA
11589273 AGTGATTAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:11591774 original size:24 final size:24
Alignment explanation
Indices: 11591729--11591774 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11591719 ATTCTTTTTT
**
11591729 TTTCAAGTAATTTGCAGGATTGGA
1 TTTCAAGTAATTTGCAAAATTGGA
11591753 TTTCAAGTAATCTT-CAAAATTG
1 TTTCAAGTAAT-TTGCAAAATTG
11591775 TCTCAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (24 bp):
TTTCAAGTAATTTGCAAAATTGGA
Found at i:11595362 original size:37 final size:37
Alignment explanation
Indices: 11595321--11595396 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
11595311 TCTTATTGGA
11595321 CTGCCCAACTGGTTGGTTTGTTAATAAATATTGAAAT
1 CTGCCCAACTGGTTGGTTTGTTAATAAATATTGAAAT
11595358 CTGCCCAACTGGTTGGTTTGTTAATAAATATTGAAAT
1 CTGCCCAACTGGTTGGTTTGTTAATAAATATTGAAAT
11595395 CT
1 CT
11595397 AGGTCGTACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (37 bp):
CTGCCCAACTGGTTGGTTTGTTAATAAATATTGAAAT
Found at i:11599289 original size:18 final size:18
Alignment explanation
Indices: 11599268--11599306 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11599258 GATTGAGAGT
* *
11599268 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
11599286 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
11599304 GAA
1 GAA
11599307 GTTGAAGAAA
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:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:11605381 original size:23 final size:23
Alignment explanation
Indices: 11605355--11605452 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
11605345 ATAAGTGCCA
11605355 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11605378 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11605401 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11605423 CATTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11605446 CACTGAT
1 CACTGAT
11605453 CAATAACACT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.28
23 48 0.72
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11605420 original size:45 final size:45
Alignment explanation
Indices: 11605362--11605450 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
11605352 CCACACTGAT
* *
11605362 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
*
11605407 ATGTAGCCAAAGCTACCATTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
11605451 ATCAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:11612753 original size:23 final size:23
Alignment explanation
Indices: 11612727--11612824 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
11612717 ATAAGTGCCA
11612727 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11612750 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11612773 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11612795 CATTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11612818 CACTGAT
1 CACTGAT
11612825 CAATAACACT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.28
23 48 0.72
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11612792 original size:45 final size:45
Alignment explanation
Indices: 11612734--11612822 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
11612724 CCACACTGAT
* *
11612734 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
*
11612779 ATGTAGCCAAAGCTACCATTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
11612823 ATCAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:11615110 original size:42 final size:42
Alignment explanation
Indices: 11615060--11615165 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
11615050 CTACGGGTCA
** *
11615060 CACCACAACACCACTTACCAATCTTCCTACTCCTATGGACCC
1 CACCACAACACCACCCACCAATCTTCCCACTCCTATGGACCC
* * *
11615102 CATCACAACACCACCCACCAATCTTCCCACTCTTATGGATCC
1 CACCACAACACCACCCACCAATCTTCCCACTCCTATGGACCC
*
11615144 CACCACAACACCATCCACCAAT
1 CACCACAACACCACCCACCAAT
11615166 TTCACATCTC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.31, C:0.46, G:0.04, T:0.19
Consensus pattern (42 bp):
CACCACAACACCACCCACCAATCTTCCCACTCCTATGGACCC
Found at i:11618206 original size:41 final size:41
Alignment explanation
Indices: 11617962--11618200 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
11617952 TTAAATAGAT
** * * *
11617962 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
11618004 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
11618044 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
11618085 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
11618126 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
11618165 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
11618201 TATTACATTC
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 167 0.92
42 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:11625640 original size:41 final size:41
Alignment explanation
Indices: 11625582--11625779 Score: 226
Period size: 41 Copynumber: 4.8 Consensus size: 41
11625572 TTAAACAGAT
** * * *
11625582 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
11625624 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
*
11625664 TCACCGGCATTAAGCCTGCTAGACTTAAAGTTTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
11625705 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
11625744 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
11625780 TATTACATTC
Statistics
Matches: 138, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
39 2 0.01
40 8 0.06
41 124 0.90
42 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:11629966 original size:91 final size:91
Alignment explanation
Indices: 11629860--11630028 Score: 329
Period size: 91 Copynumber: 1.9 Consensus size: 91
11629850 CTTCTCTTGT
*
11629860 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACGCTCCTT
1 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
11629925 GTGACCCTTGAGATCCGTGACCGAGC
66 GTGACCCTTGAGATCCGTGACCGAGC
11629951 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
1 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
11630016 GTGACCCTTGAGA
66 GTGACCCTTGAGA
11630029 GATGAAATTG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 77 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (91 bp):
TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
GTGACCCTTGAGATCCGTGACCGAGC
Found at i:11651196 original size:41 final size:41
Alignment explanation
Indices: 11651042--11651186 Score: 217
Period size: 41 Copynumber: 3.6 Consensus size: 41
11651032 CTATTCAGTA
11651042 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
11651083 CACC-GCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
11651123 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TACTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA--T
11651164 CACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
11651187 GTAACGTCTG
Statistics
Matches: 98, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
39 4 0.04
40 40 0.41
41 54 0.55
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:11651202 original size:41 final size:40
Alignment explanation
Indices: 11651042--11651207 Score: 173
Period size: 41 Copynumber: 4.0 Consensus size: 40
11651032 CTATTCAGTA
11651042 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA--T
1 CACCGGCA-TTAAGCCTGCTAGACATA-AGTCTG-AAT-TACTT
11651083 CACC-GCATTAAGCCTGCTAGACATATAGTCTGAAATGTA--T
1 CACCGGCATTAAGCCTGCTAGACATA-AGTCTG-AAT-TACTT
*
11651123 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTACTT
1 CACCGGCATTAAGCCTGCTAGACAT-AAGTCTGAATTACTT
* *
11651164 CACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTACATT
1 CACCGGCATTAAGCCTGCTAGACATAA-GTCTGAATTAC-TT
11651206 CA
1 CA
11651208 ATCACTTTAT
Statistics
Matches: 115, Mismatches: 3, Indels: 13
0.88 0.02 0.10
Matches are distributed among these distances:
39 4 0.03
40 42 0.37
41 64 0.56
42 5 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATAAGTCTGAATTACTT
Found at i:11655322 original size:90 final size:91
Alignment explanation
Indices: 11655206--11655373 Score: 320
Period size: 90 Copynumber: 1.9 Consensus size: 91
11655196 CTTCTCTTGT
*
11655206 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACGCTCCTT
1 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
11655271 GTGACCCTTGAGATCCGTGACCGAGC
66 GTGACCCTTGAGATCCGTGACCGAGC
11655297 TTGTTTCCT-AATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
1 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
11655361 GTGACCCTTGAGA
66 GTGACCCTTGAGA
11655374 GATGAAATTG
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
90 67 0.88
91 9 0.12
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (91 bp):
TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
GTGACCCTTGAGATCCGTGACCGAGC
Found at i:11667036 original size:14 final size:15
Alignment explanation
Indices: 11667017--11667054 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
11667007 TCTTTCATTG
11667017 AAAATGACTTT-TGA
1 AAAATGACTTTCTGA
*
11667031 AAAATGA-TTTCTGG
1 AAAATGACTTTCTGA
11667045 AAAATGACTT
1 AAAATGACTT
11667055 ACTCTCCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 16 0.76
15 2 0.10
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (15 bp):
AAAATGACTTTCTGA
Found at i:11673608 original size:19 final size:18
Alignment explanation
Indices: 11673546--11673610 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 18
11673536 ATAATTTAAT
*
11673546 AATTATAAAATAT-TAAAA
1 AATTA-AAAATTTATAAAA
11673564 AATT-AAAATTTA-AATAA
1 AATTAAAAATTTATAA-AA
11673581 AATTATAAAAATTTCATAAAA
1 AA-T-TAAAAATTT-ATAAAA
11673602 AATTAAAAA
1 AATTAAAAA
11673611 GTTAGTATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
16 8 0.21
17 4 0.10
18 5 0.13
19 7 0.18
20 8 0.21
21 5 0.13
22 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTAAAAATTTATAAAA
Found at i:11675180 original size:28 final size:29
Alignment explanation
Indices: 11675135--11675195 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
11675125 CTCCTCGGTT
11675135 CTTTTTTTTTTCTCG-TTTAGTTTTTTCTG
1 CTTTTTTTTTTCTCGTTTTAG-TTTTTCTG
11675164 CTTTTTGTTTTT-T-GTTTTAGTTTTTCTG
1 CTTTTT-TTTTTCTCGTTTTAGTTTTTCTG
11675192 -TTTT
1 CTTTT
11675196 GTATATGGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 4 0.13
28 9 0.30
29 12 0.40
30 5 0.17
ACGTcount: A:0.03, C:0.10, G:0.11, T:0.75
Consensus pattern (29 bp):
CTTTTTTTTTTCTCGTTTTAGTTTTTCTG
Found at i:11677619 original size:12 final size:12
Alignment explanation
Indices: 11677602--11677626 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11677592 TTTGTCAGAC
11677602 TTGCTCGGACCA
1 TTGCTCGGACCA
11677614 TTGCTCGGACCA
1 TTGCTCGGACCA
11677626 T
1 T
11677627 AATGCTATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.24, T:0.28
Consensus pattern (12 bp):
TTGCTCGGACCA
Found at i:11678758 original size:13 final size:13
Alignment explanation
Indices: 11678740--11678764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11678730 CAAGTATTCA
11678740 ACCCAACCCAATT
1 ACCCAACCCAATT
11678753 ACCCAACCCAAT
1 ACCCAACCCAAT
11678765 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:11689595 original size:37 final size:37
Alignment explanation
Indices: 11689549--11689623 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
11689539 ATTACTTGAA
*
11689549 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTAAATAAGTCT
*
11689586 TTGAATCACTACATAATTAAAAACATTAAATATGTCT
1 TTGAATCACTACATAATTAAAAACATTAAATAAGTCT
11689623 T
1 T
11689624 GAAATTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTAAATAAGTCT
Found at i:11689637 original size:37 final size:37
Alignment explanation
Indices: 11689549--11689640 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
11689539 ATTACTTGAA
* *
11689549 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTAAATAAGTCT
* *
11689586 TTGAATCACTACATAATTAAAAACATTAAATATGTC-
1 TTGAATAACTACATAATTAAAAACATTAAATAAGTCT
11689622 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
11689641 GAAATGTAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 3 0.06
37 44 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTAAATAAGTCT
Found at i:11693757 original size:38 final size:38
Alignment explanation
Indices: 11693715--11693831 Score: 198
Period size: 39 Copynumber: 3.0 Consensus size: 38
11693705 GTTAGAGACT
*
11693715 TAGACTTTAGTTTTAGTTTTATTGGGTTGGTTATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
*
11693753 TAGACTTTAGTTTTAGTTTTATTGGGTTCGGTAATTAGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTT-GGTAATTGGG
11693792 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTG-GTAATTGGG
11693831 T
1 T
11693832 TGGGTTGGAT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
38 29 0.39
39 45 0.61
ACGTcount: A:0.19, C:0.03, G:0.27, T:0.50
Consensus pattern (38 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
Found at i:11697266 original size:36 final size:36
Alignment explanation
Indices: 11697226--11697296 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
11697216 ATCAAAGGCT
**
11697226 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCCGTATACAATTAGAACTCTAAGAC
*
11697262 ACAATTAGAAGCCGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCCGTATACAATTAGAACTCTAAGA
11697297 TTACATAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCCGTATACAATTAGAACTCTAAGAC
Found at i:11702866 original size:21 final size:21
Alignment explanation
Indices: 11702829--11702871 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11702819 AAGTGTATCT
*
11702829 ATATAAAATTGTAAAATGAAA
1 ATATAAAATTGTAAAATAAAA
*
11702850 ATATAAAGTTGGT-AAATAAAA
1 ATATAAAATT-GTAAAATAAAA
11702871 A
1 A
11702872 AGATATGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (21 bp):
ATATAAAATTGTAAAATAAAA
Found at i:11718081 original size:15 final size:15
Alignment explanation
Indices: 11718061--11718090 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11718051 TTCCTTTAAT
11718061 GCTACTTCAAGGAGA
1 GCTACTTCAAGGAGA
11718076 GCTACTTCAAGGAGA
1 GCTACTTCAAGGAGA
11718091 AGAAGAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (15 bp):
GCTACTTCAAGGAGA
Found at i:11718961 original size:31 final size:30
Alignment explanation
Indices: 11718926--11719010 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 30
11718916 ATTTAATTCG
11718926 AATATATAAATAAATATATTTTAAATAATAA
1 AATATATAAATAAATA-ATTTTAAATAATAA
* *
11718957 AATATA-ACCAATAAA-AATTTTAAAATATTAT
1 AATATATA--AATAAATAATTTT-AAATAATAA
*
11718988 ATTATATAAA-AAATAAATTTTAA
1 AATATATAAATAAAT-AATTTTAA
11719011 TAAGAAACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
29 3 0.07
30 10 0.22
31 25 0.56
32 7 0.16
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (30 bp):
AATATATAAATAAATAATTTTAAATAATAA
Found at i:11722275 original size:16 final size:16
Alignment explanation
Indices: 11722254--11722297 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
11722244 TTGGTTGAAA
*
11722254 AAATTATTTAATTGAG
1 AAATTAATTAATTGAG
11722270 AAATTAATTAATT--G
1 AAATTAATTAATTGAG
*
11722284 AATTTAATTAATTG
1 AAATTAATTAATTG
11722298 TTTAAGTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 13 0.52
16 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (16 bp):
AAATTAATTAATTGAG
Found at i:11722562 original size:17 final size:17
Alignment explanation
Indices: 11722540--11722577 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
11722530 TGTAAATAAT
11722540 GTAAAATTCGTTTTAAC
1 GTAAAATTCGTTTTAAC
11722557 GTAAAATTCGTTTTAAC
1 GTAAAATTCGTTTTAAC
11722574 GTAA
1 GTAA
11722578 CTAGATGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (17 bp):
GTAAAATTCGTTTTAAC
Found at i:11728302 original size:13 final size:13
Alignment explanation
Indices: 11728284--11728310 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11728274 AAAGTATTTC
11728284 AGAAATTGAATTG
1 AGAAATTGAATTG
11728297 AGAAATTGAATTG
1 AGAAATTGAATTG
11728310 A
1 A
11728311 TTATTATTGT
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:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (13 bp):
AGAAATTGAATTG
Found at i:11731083 original size:22 final size:22
Alignment explanation
Indices: 11731053--11731096 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
11731043 AATCCTATCC
11731053 ATTACTTTAAATCCCATTTTTT
1 ATTACTTTAAATCCCATTTTTT
*
11731075 ATTATTTTAAATCCCATTTTTT
1 ATTACTTTAAATCCCATTTTTT
11731097 CTTTAATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTACTTTAAATCCCATTTTTT
Found at i:11731105 original size:27 final size:25
Alignment explanation
Indices: 11731053--11731123 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 25
11731043 AATCCTATCC
11731053 ATTACTTTAAATCCCA---TTTTTT
1 ATTACTTTAAATCCCATTTTTTTTT
*
11731075 ATTATTTTAAATCCCATTTTTTCTTT
1 ATTACTTTAAATCCCATTTTTT-TTT
* *
11731101 AATTACTTTAATTCCTATTTTTT
1 -ATTACTTTAAATCCCATTTTTT
11731124 AATCTGTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 15 0.38
25 3 0.08
26 3 0.08
27 19 0.47
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTACTTTAAATCCCATTTTTTTTT
Found at i:11731333 original size:17 final size:17
Alignment explanation
Indices: 11731311--11731344 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
11731301 AATTATTAGG
11731311 TTTTTTAATTAAAATAAT
1 TTTTTTAA-TAAAATAAT
11731329 TTTTTTAATAAAATAA
1 TTTTTTAATAAAATAA
11731345 ATTTATTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTTTAATAAAATAAT
Found at i:11731334 original size:18 final size:18
Alignment explanation
Indices: 11731311--11731418 Score: 62
Period size: 18 Copynumber: 5.9 Consensus size: 18
11731301 AATTATTAGG
11731311 TTTTTTAATTAAAATAAT
1 TTTTTTAATTAAAATAAT
11731329 TTTTTTAA-TAAAATAAAT
1 TTTTTTAATTAAAAT-AAT
* *** * *
11731347 TTATTCCTTTAAATTGAT
1 TTTTTTAATTAAAATAAT
* **
11731365 TTATCATTTAATT--ATTAGG
1 TT-T--TTTAATTAAAATAAT
11731384 TTTTTTAATTAAAATAAAT
1 TTTTTTAATTAAAAT-AAT
11731403 TTTTTTAA-TAAAATAA
1 TTTTTTAATTAAAATAA
11731419 ATTTATTCCT
Statistics
Matches: 66, Mismatches: 16, Indels: 17
0.67 0.16 0.17
Matches are distributed among these distances:
16 7 0.11
17 8 0.12
18 28 0.42
19 19 0.29
21 4 0.06
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTTTAATTAAAATAAT
Found at i:11731419 original size:18 final size:19
Alignment explanation
Indices: 11731384--11731422 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
11731374 AATTATTAGG
11731384 TTTTTTAATTAAAATAAAT
1 TTTTTTAATTAAAATAAAT
11731403 TTTTTTAA-TAAAATAAAT
1 TTTTTTAATTAAAATAAAT
11731421 TT
1 TT
11731423 ATTCCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTTAATTAAAATAAAT
Found at i:11731432 original size:74 final size:74
Alignment explanation
Indices: 11731196--11731517 Score: 514
Period size: 74 Copynumber: 4.4 Consensus size: 74
11731186 TTTTTAAAGA
***
11731196 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATT-TCATTTTTAATTAAAATCAAA
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAAT-AAA
*
11731260 ----TTTCA-
65 TTTTTTTAAT
11731265 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAAT-AAT
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAATAAAT
11731329 TTTTTTAAT
66 TTTTTTAAT
*
11731338 AAAATAAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAATAAAT
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAATAAAT
11731403 TTTTTTAAT
66 TTTTTTAAT
* * *
11731412 AAAATAAATTTATTCCTTTAAATTGATTCATCATTTAATTATTACGTTTTTTAATTAAAATAAAT
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAATAAAT
11731477 TTTTTTAAT
66 TTTTTTAAT
11731486 AAAATCAATTTATTCCTTTAAATTGATTTATC
1 AAAATCAATTTATTCCTTTAAATTGATTTATC
11731518 TTGTAAAACA
Statistics
Matches: 237, Mismatches: 9, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
68 2 0.01
69 43 0.18
70 14 0.06
72 4 0.02
73 60 0.25
74 114 0.48
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (74 bp):
AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAATAAAT
TTTTTTAAT
Found at i:11731473 original size:147 final size:143
Alignment explanation
Indices: 11731196--11731517 Score: 504
Period size: 147 Copynumber: 2.2 Consensus size: 143
11731186 TTTTTAAAGA
*
11731196 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTTCATTTTTAATTAAAATCAAAT
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTGCATTTTTAATTAAAATCAAAT
* * * *
11731261 TTCAAAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAAT
66 TTAAAAAATAAATTTATTCCTTTAAATTGATTCATCATTTAATTATTACGTTTTTTAATTAAAAT
11731326 -AATTTTTTTAAT
131 AAATTTTTTTAAT
* **
11731338 AAAATAAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAAT-AAA
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATT-GCATTTTTAATTAAAATCAAA
11731402 TTTTTTTAATAAAATAAATTTATTCCTTTAAATTGATTCATCATTTAATTATTACGTTTTTTAAT
65 ----TTTAA-AAAATAAATTTATTCCTTTAAATTGATTCATCATTTAATTATTACGTTTTTTAAT
11731467 TAAAATAAATTTTTTTAAT
125 TAAAATAAATTTTTTTAAT
11731486 AAAATCAATTTATTCCTTTAAATTGATTTATC
1 AAAATCAATTTATTCCTTTAAATTGATTTATC
11731518 TTGTAAAACA
Statistics
Matches: 164, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
142 45 0.27
143 14 0.09
146 4 0.02
147 58 0.35
148 43 0.26
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (143 bp):
AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTGCATTTTTAATTAAAATCAAAT
TTAAAAAATAAATTTATTCCTTTAAATTGATTCATCATTTAATTATTACGTTTTTTAATTAAAAT
AAATTTTTTTAAT
Found at i:11731482 original size:19 final size:18
Alignment explanation
Indices: 11731458--11731496 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
11731448 AATTATTACG
11731458 TTTTTTAATTAAAATAAAT
1 TTTTTTAA-TAAAATAAAT
*
11731477 TTTTTTAATAAAATCAAT
1 TTTTTTAATAAAATAAAT
11731495 TT
1 TT
11731497 ATTCCTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTAATAAAATAAAT
Found at i:11742678 original size:27 final size:27
Alignment explanation
Indices: 11742642--11742726 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
11742632 ATACAGTAGA
*
11742642 AAAAGAAAGCTTTTGTGGCGATCTATG
1 AAAAGGAAGCTTTTGTGGCGATCTATG
* * *
11742669 AAAAGGAAGCCTTTGTAGCGACCTATG
1 AAAAGGAAGCTTTTGTGGCGATCTATG
* *
11742696 AAAATGAAG-TCTTTGTGGCGATTTATG
1 AAAAGGAAGCT-TTTGTGGCGATCTATG
11742723 AAAA
1 AAAA
11742727 ATGAAGTCTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (27 bp):
AAAAGGAAGCTTTTGTGGCGATCTATG
Found at i:11742822 original size:27 final size:27
Alignment explanation
Indices: 11742792--11742854 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
11742782 TTCCTTTACA
*
11742792 GCGTATTCT-GTAAGGGAAGCCTTTGTG
1 GCGTATTCTAGTAA-GAAAGCCTTTGTG
11742819 GCGTATT-TAGTAAGAAAGCCTTTGTG
1 GCGTATTCTAGTAAGAAAGCCTTTGTG
*
11742845 GTGTATTCTA
1 GCGTATTCTA
11742855 ATAGATTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.37
Consensus pattern (27 bp):
GCGTATTCTAGTAAGAAAGCCTTTGTG
Found at i:11745039 original size:16 final size:18
Alignment explanation
Indices: 11745013--11745045 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11745003 TTAAATTAGA
11745013 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
11745030 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
11745046 CCCAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:11748843 original size:14 final size:15
Alignment explanation
Indices: 11748819--11748847 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11748809 TAAAAATAAA
11748819 AAAAATGATTATTAT
1 AAAAATGATTATTAT
11748834 AAAAAT-ATTATTAT
1 AAAAATGATTATTAT
11748848 TAAATTAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AAAAATGATTATTAT
Found at i:11749570 original size:25 final size:24
Alignment explanation
Indices: 11749526--11749573 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
11749516 AAATATATCA
*
11749526 AATTATTTTATATTAGATAAATAT
1 AATTATTTTATATCAGATAAATAT
11749550 AATTATTTTTATATGCA-ATAAATA
1 AATTA-TTTTATAT-CAGATAAATA
11749574 AACATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 15 0.71
26 1 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
AATTATTTTATATCAGATAAATAT
Found at i:11750975 original size:22 final size:21
Alignment explanation
Indices: 11750951--11751029 Score: 122
Period size: 22 Copynumber: 3.7 Consensus size: 21
11750941 ATTTTCACAA
11750951 AAAAATTCTCTCAATTTCTTC
1 AAAAATTCTCTCAATTTCTTC
*
11750972 AAAAATTCTCTCAATTCCCTTC
1 AAAAATTCTCTCAATT-TCTTC
11750994 AAAAATTCTCTCAATTTCCTTC
1 AAAAATTCTCTCAATTT-CTTC
*
11751016 CAAAATTCTCTCAA
1 AAAAATTCTCTCAA
11751030 ACTCTCAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
21 16 0.30
22 37 0.70
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATTCTCTCAATTTCTTC
Found at i:11751035 original size:30 final size:30
Alignment explanation
Indices: 11751001--11751059 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
11750991 TTCAAAAATT
* *
11751001 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
11751031 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
11751060 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:11751036 original size:52 final size:51
Alignment explanation
Indices: 11750979--11751081 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 51
11750969 TTCAAAAATT
* * *
11750979 CTCTC-AATTCCCTTCAAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATT-CCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTC-CAAA
*
11751031 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTCAAATTCCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
11751082 TCCATATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
51 4 0.09
52 38 0.83
53 4 0.09
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (51 bp):
CTCTCAAATTCCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:11751070 original size:21 final size:22
Alignment explanation
Indices: 11751031--11751072 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11751021 TTCTCTCAAA
11751031 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
11751053 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
11751073 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:11751158 original size:29 final size:28
Alignment explanation
Indices: 11751114--11751169 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
11751104 ATTAAATTTC
* *
11751114 ATTTTTTAAGAAAATTATACAATTTTTT
1 ATTTTTTAAAAAAATTATAAAATTTTTT
*
11751142 ATTTTTTAAAAATAATTTTAAAATTTTT
1 ATTTTTTAAAAA-AATTATAAAATTTTT
11751170 AAAATTTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (28 bp):
ATTTTTTAAAAAAATTATAAAATTTTTT
Found at i:11751297 original size:14 final size:15
Alignment explanation
Indices: 11751268--11751301 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11751258 AAATTTTAAA
11751268 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
11751283 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
11751297 TTTTA
1 TTTTA
11751302 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:11753962 original size:23 final size:23
Alignment explanation
Indices: 11753932--11754198 Score: 98
Period size: 23 Copynumber: 10.6 Consensus size: 23
11753922 AAACCCTAAG
11753932 ACCCTAACCTAACTTAATTAAAA
1 ACCCTAACCTAACTTAATTAAAA
11753955 ACCCTAACCTAACCTAATTTAATTAAAA
1 ACCCTAACCTAA-C----TTAATTAAAA
11753983 ACCCTAAACCCTAACTTAATTAATTAAAA
1 ACCCT-AA-CCTAAC----TTAATTAAAA
* **
11754012 ACCCTAACCTAACCTAACTTAATTT
1 ACCCTAACCTAACTTAA-TTAA-AA
*
11754037 A-CTTAAAAACCCTAACCTAATTGAATTAAAA
1 ACCCT---AA-CCTAA-C---TT-AATTAAAA
*
11754068 ACCCTAACCTAACCTAATTTAATTAA
1 ACCCTAACCTAACTTAA-TTAA--AA
** *
11754094 A-ATTAAAAACCTAACTTAATTTAAA
1 ACCCT---AACCTAACTTAATTAAAA
****
11754119 ACCCTAACCTAACTTAACCCTAA
1 ACCCTAACCTAACTTAATTAAAA
11754142 ACCCTAACCTAACTTAATGT-AAA
1 ACCCTAACCTAACTTAAT-TAAAA
11754165 ACCCTAACCCTAAGC-TAA-T--AA
1 ACCCTAA-CCTAA-CTTAATTAAAA
11754186 ACCCTAACCTAAC
1 ACCCTAACCTAAC
11754199 ATACAACAGC
Statistics
Matches: 191, Mismatches: 24, Indels: 62
0.69 0.09 0.22
Matches are distributed among these distances:
19 1 0.01
20 5 0.03
21 9 0.05
22 1 0.01
23 57 0.30
24 20 0.10
25 6 0.03
26 4 0.02
27 12 0.06
28 38 0.20
29 23 0.12
30 5 0.03
31 1 0.01
32 7 0.04
33 2 0.01
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (23 bp):
ACCCTAACCTAACTTAATTAAAA
Found at i:11754135 original size:18 final size:18
Alignment explanation
Indices: 11754096--11754158 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 18
11754086 TTAATTAAAA
* * *
11754096 TTAAAAACCTAACTTAAT
1 TTAAAACCCTAACCTAAC
11754114 TTAAAACCCTAACCTAAC
1 TTAAAACCCTAACCTAAC
11754132 TTAACCCTAAACCCTAACCTAAC
1 TT-A----AAACCCTAACCTAAC
11754155 TTAA
1 TTAA
11754159 TGTAAAACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 18 0.49
19 1 0.03
22 1 0.03
23 17 0.46
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (18 bp):
TTAAAACCCTAACCTAAC
Found at i:11754136 original size:28 final size:28
Alignment explanation
Indices: 11753435--11754135 Score: 800
Period size: 28 Copynumber: 25.0 Consensus size: 28
11753425 GTTTGACATT
* *
11753435 ATTTGATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
11753463 ATTGAATT-AAAACCCTAA-C---C-TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
11753485 ATTGAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
11753513 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
11753544 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
11753572 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
11753600 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
11753628 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
11753656 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
* * *
11753687 ATTGAATTAAAAACCTTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
11753715 ACTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
11753743 ATTGAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
11753771 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
11753799 ATTTAATTAAAAACCCTAACCTAA-TTGA
1 ATTTAATTAAAAACCCTAACCTAACTT-A
***
11753827 A---CCCT--AAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
11753853 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
11753884 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
11753912 ATTTAATTAAAAACCCTAAGACCCTAACCTA
1 ATTTAATTAAAAACCCT-A-A-CCTAACTTA
* *
11753943 ACTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
11753971 ATTTAATTAAAAACCCTAAACCCTAACTTA
1 ATTTAATTAAAAACCCT-AA-CCTAACTTA
11754001 A-TTAATTAAAAACCCTAACCTAACCTAACTTA
1 ATTTAATTAAAAA--C---CCTAACCTAACTTA
*
11754033 ATTTACTTAAAAACCCTAA-C---C-TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
11754056 ATTGAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* * *
11754084 ATTTAATT-AAAA--TTAA--AAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
11754107 ACTTAATTTAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
11754135 A
1 A
11754136 CCCTAAACCC
Statistics
Matches: 597, Mismatches: 33, Indels: 86
0.83 0.05 0.12
Matches are distributed among these distances:
22 10 0.02
23 50 0.08
24 7 0.01
25 6 0.01
26 11 0.02
27 20 0.03
28 317 0.53
29 22 0.04
30 15 0.03
31 114 0.19
32 10 0.02
33 12 0.02
34 3 0.01
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.29
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACTTA
Found at i:11754151 original size:46 final size:44
Alignment explanation
Indices: 11754101--11754198 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 44
11754091 TAAAATTAAA
*
11754101 AACCTAACTTAATTTAAAACCCTAA-CCTAA-CTTAACCCTAAACCCT
1 AACCTAACTTAATGTAAAACCCTAACCCTAAGC-TAA---TAAACCCT
11754147 AACCTAACTTAATGTAAAACCCTAACCCTAAGCTAATAAACCCT
1 AACCTAACTTAATGTAAAACCCTAACCCTAAGCTAATAAACCCT
11754191 AACCTAAC
1 AACCTAAC
11754199 ATACAACAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
44 16 0.33
46 24 0.49
47 8 0.16
48 1 0.02
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (44 bp):
AACCTAACTTAATGTAAAACCCTAACCCTAAGCTAATAAACCCT
Found at i:11754381 original size:27 final size:27
Alignment explanation
Indices: 11754351--11754410 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
11754341 TTATCAATTA
11754351 ATAATTGAATAAAAGGTAGCTTTTTCT
1 ATAATTGAATAAAAGGTAGCTTTTTCT
11754378 ATAATTGAATAAAAGGTAGCTTTTTCT
1 ATAATTGAATAAAAGGTAGCTTTTTCT
11754405 ATAATT
1 ATAATT
11754411 ACATTCAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (27 bp):
ATAATTGAATAAAAGGTAGCTTTTTCT
Found at i:11757652 original size:125 final size:125
Alignment explanation
Indices: 11757430--11757696 Score: 367
Period size: 125 Copynumber: 2.1 Consensus size: 125
11757420 CCACGAGGGC
11757430 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGCG
* * *
11757495 AAATCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
66 AAATCGCATCCACGAGGCCACGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
* * **
11757555 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAATTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGC
* * ** * **
11757619 GAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTTAA-ATAGCATCCTAGTAGAA
65 GAAATCGCATCCACGAGGCCACGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
**
11757679 GCGATTTCCCACTATTTG
1 GCGATTTGACACTATTTG
11757697 ACCGGATACG
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
124 29 0.23
125 65 0.52
126 30 0.24
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (125 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGCG
AAATCGCATCCACGAGGCCACGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
Found at i:11758043 original size:28 final size:29
Alignment explanation
Indices: 11757993--11758047 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
11757983 CGCGGAAAAT
11757993 GGCCCATTCCGGTAAATAATTAAAAAACC
1 GGCCCATTCCGGTAAATAATTAAAAAACC
* * *
11758022 GGCCCATTTCTGT-AATTATTAAAAAA
1 GGCCCATTCCGGTAAATAATTAAAAAA
11758048 AGGGGCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATAATTAAAAAACC
Found at i:11758137 original size:8 final size:8
Alignment explanation
Indices: 11758124--11758151 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
11758114 AATTTAAGTT
11758124 AAATTTAA
1 AAATTTAA
11758132 AAATTTAA
1 AAATTTAA
11758140 AAATTTAA
1 AAATTTAA
11758148 AAAT
1 AAAT
11758152 ATGAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATTTAA
Found at i:11760160 original size:505 final size:506
Alignment explanation
Indices: 11758659--11760178 Score: 2988
Period size: 506 Copynumber: 3.0 Consensus size: 506
11758649 ATCTTAAAAT
*
11758659 AATACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGCTATTGAGTGG
1 AATACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGTTATTGAGTGG
*
11758724 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTTAAAATTTCA
66 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
11758789 AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
131 AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
11758854 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
196 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
*
11758919 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGACAGTAAAAATATAAATTTTAA
261 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
11758984 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
326 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
11759049 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
391 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
11759114 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
456 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
*
11759165 AGTACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGTTATTGAGTGG
1 AATACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGTTATTGAGTGG
11759230 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
66 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
11759295 AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
131 AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
11759360 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
196 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
11759425 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
261 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
11759490 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
326 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
11759555 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
391 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
11759620 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
456 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
*
11759671 AATACGTACAATCAACCCATTCTATAATAACCTCCTTTGACAAAATTTCAGATGTTATTGAGTGG
1 AATACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGTTATTGAGTGG
11759736 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
66 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
11759801 AATTAAAAAATT-AAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
131 AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
11759865 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
196 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
11759930 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
261 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
11759995 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
326 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
11760060 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
391 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
11760125 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
456 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
11760176 AAT
1 AAT
11760179 GTAATTTTAG
Statistics
Matches: 1008, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
505 366 0.36
506 642 0.64
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (506 bp):
AATACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGTTATTGAGTGG
TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
Found at i:11761658 original size:23 final size:25
Alignment explanation
Indices: 11761605--11761660 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
11761595 CCCTCCATCA
11761605 TCTTCAATCACATGCTCTTTCCCAT
1 TCTTCAATCACATGCTCTTTCCCAT
* *
11761630 TTTTCACTCACATGC-C-TTCCC-T
1 TCTTCAATCACATGCTCTTTCCCAT
11761652 CTCTTCAAT
1 -TCTTCAAT
11761661 TTGTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 11 0.42
24 1 0.04
25 13 0.50
ACGTcount: A:0.18, C:0.38, G:0.04, T:0.41
Consensus pattern (25 bp):
TCTTCAATCACATGCTCTTTCCCAT
Done.