Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 58 of 345
Found at i:16213158 original size:14 final size:14
Alignment explanation
Indices: 16213139--16213172 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16213129 AAATTACACG
16213139 TTAGAATAGTATCA
1 TTAGAATAGTATCA
*
16213153 TTAGAATAGTTTCA
1 TTAGAATAGTATCA
16213167 TTAGAA
1 TTAGAA
16213173 AAAAAATGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:16214934 original size:5 final size:5
Alignment explanation
Indices: 16214924--16214953 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
16214914 CTTTCTTTTT
*
16214924 CCCTC CCCTC CCCTC CCTTC CCCTC CCCTC
1 CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC
16214954 ATGCCCTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.77, G:0.00, T:0.23
Consensus pattern (5 bp):
CCCTC
Found at i:16214982 original size:15 final size:15
Alignment explanation
Indices: 16214964--16215016 Score: 83
Period size: 15 Copynumber: 3.6 Consensus size: 15
16214954 ATGCCCTCTC
16214964 CTTCTCCTTCT-TCTT
1 CTTCTCCTTCTCT-TT
16214979 CTTCT-CTTCTCTTT
1 CTTCTCCTTCTCTTT
16214993 CTTCTCCTTCTCTTT
1 CTTCTCCTTCTCTTT
16215008 CTTCTCCTT
1 CTTCTCCTT
16215017 TACTCACTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.33
15 24 0.67
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (15 bp):
CTTCTCCTTCTCTTT
Found at i:16214989 original size:20 final size:20
Alignment explanation
Indices: 16214964--16215006 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
16214954 ATGCCCTCTC
*
16214964 CTTCTCCTTCTTCTTCTTCT
1 CTTCTCCTTCTTCTCCTTCT
*
16214984 CTTCTCTTTCTTCTCCTTCT
1 CTTCTCCTTCTTCTCCTTCT
16215004 CTT
1 CTT
16215007 TCTTCTCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (20 bp):
CTTCTCCTTCTTCTCCTTCT
Found at i:16215013 original size:9 final size:9
Alignment explanation
Indices: 16214964--16215013 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
16214954 ATGCCCTCTC
*
16214964 CTTCTCCTT
1 CTTCTCTTT
16214973 CTTCTTCTTCT
1 CTTC-TCTT-T
16214984 CTTCTCTTT
1 CTTCTCTTT
16214993 CTTCTC---
1 CTTCTCTTT
16214999 CTTCTCTTT
1 CTTCTCTTT
16215008 CTTCTC
1 CTTCTC
16215014 CTTTACTCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
6 6 0.17
9 17 0.49
10 7 0.20
11 5 0.14
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (9 bp):
CTTCTCTTT
Found at i:16218432 original size:6 final size:7
Alignment explanation
Indices: 16218417--16218442 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16218407 CGCTTTGAAA
16218417 TTTTATT
1 TTTTATT
16218424 TTTTATT
1 TTTTATT
16218431 TTTTATT
1 TTTTATT
16218438 TTTTA
1 TTTTA
16218443 AAAGGGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:16219013 original size:2 final size:2
Alignment explanation
Indices: 16219008--16219037 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
16218998 TCAAAAAATG
16219008 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16219038 TATGTGCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16219479 original size:19 final size:20
Alignment explanation
Indices: 16219448--16219485 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
16219438 TATATGTATA
16219448 AAAATAAAGAAAA-TAAAAT
1 AAAATAAAGAAAATTAAAAT
16219467 AAAATAACA-AAAATTAAAA
1 AAAATAA-AGAAAATTAAAA
16219486 ATGAACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (20 bp):
AAAATAAAGAAAATTAAAAT
Found at i:16219743 original size:9 final size:9
Alignment explanation
Indices: 16219712--16219752 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
16219702 AGAGGTTAGG
16219712 TTTTTTTC-
1 TTTTTTTCA
16219720 TTTTTCTTCA
1 TTTTT-TTCA
16219730 TTTTTTTCA
1 TTTTTTTCA
16219739 TTTTTTT-A
1 TTTTTTTCA
16219747 TTTTTT
1 TTTTTT
16219753 ATTTTGGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 12 0.39
9 14 0.45
10 5 0.16
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:16220106 original size:44 final size:44
Alignment explanation
Indices: 16220030--16220808 Score: 1154
Period size: 44 Copynumber: 17.8 Consensus size: 44
16220020 TGCTATATTT
* ** * *
16220030 GATCTGCTCCCCGCCTAATACAGAGATGCCAAATCCGTTATCTTC
1 GATCTGCTCTCCGCC-GCTACAGAGACGCCAAATCTGTTATCTTC
*
16220075 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTT
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* *
16220119 GATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTT
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * *
16220163 GATATGTTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
*
16220207 GATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* *
16220247 GATCTGCTCTCCGCCGCTACAGAGAGGCCAAATCTGTTATCCTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
*
16220291 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT-TCTATCTTT
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGT-TATCTTC
*
16220335 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGCTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * *
16220379 GATCTGCTCTCCGCTGCTAAAGAGACGCCAAATCTGCTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
*
16220423 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGCTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
** * *
16220467 GATCTGCTCTCCATCGCTACAGAGACGTCAAATCTGTTATTTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * *
16220511 GATCTGTTCTCCACCGCTACAGAGACGCTAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* *
16220555 GATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGCTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * *
16220599 GATCTGCTCTCCACCGCTACAGAGACACCAAATCTATTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* *
16220643 GATCTGCTCCCCGCTGCTACAGAGACGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
*
16220687 GATCTGCTCCCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* *
16220731 GATCTGCTCCCCGCCGCTACAGAGACGCTAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* *
16220775 GATCTGTTCTCCGCCGCTACAGAGATGCCAAATC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
16220809 ATCTTGGATT
Statistics
Matches: 672, Mismatches: 56, Indels: 13
0.91 0.08 0.02
Matches are distributed among these distances:
40 39 0.06
43 1 0.00
44 618 0.92
45 14 0.02
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (44 bp):
GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
Found at i:16220884 original size:88 final size:87
Alignment explanation
Indices: 16220770--16220988 Score: 334
Period size: 88 Copynumber: 2.5 Consensus size: 87
16220760 AAATCTGTTA
* * *
16220770 TCTTCGATCTGTTCTCCGCC-GCTACAGAGATGCCAAATCATCTTGGATTTACTTTAACGTAAAC
1 TCTTCGATCTGCTC-CCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTTAACGTAAAC
*
16220834 ACGTGAAATCCAAATCAGCTATG
65 ACGTGAAAGCCAAATCAGCTATG
*
16220857 TCTTCGATCTGCTCCCTGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTTAACGTAAAC
1 TCTTCGATCTGCTCCC-GCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTTAACGTAAAC
*
16220922 ACGTGAAAGCCAAATTAGCTATG
65 ACGTGAAAGCCAAATCAGCTATG
*
16220945 TCTTCGAT-TACTCCCCGCCTGATACAGAGATGCCAAATCATCTT
1 TCTTCGATCTGCT-CCCGCCTGATACAGAGATGCCAAATCATCTT
16220989 AGATATCTTC
Statistics
Matches: 122, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
86 2 0.02
87 47 0.39
88 73 0.60
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTTAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:16221204 original size:61 final size:65
Alignment explanation
Indices: 16221092--16221212 Score: 187
Period size: 61 Copynumber: 1.9 Consensus size: 65
16221082 GTATCCATAC
16221092 TTATGCCAAATAATTAGGATGCTATAATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
1 TTATGCCAAATAATTAGGATGCTATAATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
* * *
16221157 TTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGCTTCTAACTAGATGTG
1 TTATGCCAAATAATTAGGATGCTATAATTGAAATGAATCAAATGCTCCTAACTAAATGTG
16221213 TTATTATATG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
61 30 0.57
62 1 0.02
63 1 0.02
64 1 0.02
65 20 0.38
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.34
Consensus pattern (65 bp):
TTATGCCAAATAATTAGGATGCTATAATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
Found at i:16224993 original size:19 final size:19
Alignment explanation
Indices: 16224969--16225016 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
16224959 GGGAAAATCT
16224969 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
16224988 AATGCACATGATGCAATGC
1 AATGCAAATGATGCAATGC
16225007 AATGCAAATG
1 AATGCAAATG
16225017 CATGGGATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:16225029 original size:24 final size:24
Alignment explanation
Indices: 16224979--16225032 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
16224969 AATGCAAATG
*
16224979 ATGCAATGCAATGCACATGATGCA
1 ATGCAATGCAATGCACAGGATGCA
**
16225003 ATGCAATGCAAATGCATGGGATG-A
1 ATGCAATGC-AATGCACAGGATGCA
16225027 ATGCAA
1 ATGCAA
16225033 AGGAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (24 bp):
ATGCAATGCAATGCACAGGATGCA
Found at i:16227046 original size:6 final size:7
Alignment explanation
Indices: 16227031--16227056 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16227021 AGCTTTGAAA
16227031 TTTTATT
1 TTTTATT
16227038 TTTTATT
1 TTTTATT
16227045 TTTTATT
1 TTTTATT
16227052 TTTTA
1 TTTTA
16227057 AAAGGGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:16228104 original size:19 final size:20
Alignment explanation
Indices: 16228071--16228110 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
16228061 ATATATGTAT
16228071 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
16228090 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
16228110 A
1 A
16228111 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:16228368 original size:9 final size:9
Alignment explanation
Indices: 16228354--16228386 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
16228344 AGAGGTTAGG
16228354 TTTTTTTCT-
1 TTTTTTT-TA
16228363 TTTTTTTTA
1 TTTTTTTTA
16228372 TTTTTTTTA
1 TTTTTTTTA
16228381 TTTTTT
1 TTTTTT
16228387 ATTTTGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 1 0.04
9 22 0.96
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:16228369 original size:10 final size:10
Alignment explanation
Indices: 16228354--16228386 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
16228344 AGAGGTTAGG
*
16228354 TTTTTTTCTT
1 TTTTTTTATT
16228364 TTTTTTTA-T
1 TTTTTTTATT
16228373 TTTTTTTATT
1 TTTTTTTATT
16228383 TTTT
1 TTTT
16228387 ATTTTGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:16228384 original size:16 final size:17
Alignment explanation
Indices: 16228355--16228391 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
16228345 GAGGTTAGGT
*
16228355 TTTTTTCTTTTTTTTTA
1 TTTTTTCTTATTTTTTA
16228372 TTTTTT-TTATTTTTTA
1 TTTTTTCTTATTTTTTA
16228388 TTTT
1 TTTT
16228392 GGGTTGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.08, C:0.03, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTTCTTATTTTTTA
Found at i:16236442 original size:18 final size:17
Alignment explanation
Indices: 16236415--16236472 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
16236405 TATTATTTAT
16236415 ATTA-TATTATTGTTAGC
1 ATTATTATTATT-TTAGC
16236432 ATTATTATTATTATTTAG-
1 ATTATTATTA-T-TTTAGC
* *
16236450 TTTATTATTATTTTATC
1 ATTATTATTATTTTAGC
16236467 ATTATT
1 ATTATT
16236473 TTCCATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 4 0.12
17 10 0.29
18 14 0.41
19 5 0.15
20 1 0.03
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (17 bp):
ATTATTATTATTTTAGC
Found at i:16236448 original size:35 final size:35
Alignment explanation
Indices: 16236405--16236472 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 35
16236395 TCTTTTGTCG
16236405 TATTATTTA-TATTA-TATTATTGTTAGCATTATTAT
1 TATTATTTAGT-TTATTATTATT-TTAGCATTATTAT
*
16236440 TATTATTTAGTTTATTATTATTTTATCATTATT
1 TATTATTTAGTTTATTATTATTTTAGCATTATT
16236473 TTCCATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 22 0.73
36 8 0.27
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.63
Consensus pattern (35 bp):
TATTATTTAGTTTATTATTATTTTAGCATTATTAT
Found at i:16241332 original size:23 final size:23
Alignment explanation
Indices: 16241294--16241338 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
16241284 TATTTAATTG
*
16241294 ATTTAGGGTTAAGGTTTTTTAAA
1 ATTTAGGATTAAGGTTTTTTAAA
*
16241317 ATTTAGGATTAGGGTTTTTTAA
1 ATTTAGGATTAAGGTTTTTTAA
16241339 GTTAGGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (23 bp):
ATTTAGGATTAAGGTTTTTTAAA
Found at i:16241474 original size:34 final size:36
Alignment explanation
Indices: 16241431--16241510 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 36
16241421 AATACTAAAT
16241431 ATTAAATT-AGA-G-TTTAGGGTATTAGGGTTAATTG
1 ATTAAATTAAGACGATTTAGGGT-TTAGGGTTAATTG
16241465 ATTAAATTAGAGATCGATTTAGGGTTTAGGGTTAATTG
1 ATTAAATTA-AGA-CGATTTAGGGTTTAGGGTTAATTG
16241503 ATTAAATT
1 ATTAAATT
16241511 TAGGGTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
34 8 0.20
36 3 0.07
38 22 0.54
39 8 0.20
ACGTcount: A:0.34, C:0.01, G:0.24, T:0.41
Consensus pattern (36 bp):
ATTAAATTAAGACGATTTAGGGTTTAGGGTTAATTG
Found at i:16242286 original size:126 final size:127
Alignment explanation
Indices: 16242056--16242313 Score: 394
Period size: 126 Copynumber: 2.0 Consensus size: 127
16242046 TTTCTGCAAG
*
16242056 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGCCAAAAAACTCTTCAAGCAAGATGCACTAT
1 AATAATTCTAAGTAGACGTTTCTAAACAAATAGTGCCAAAAAACTCTTCAAGCAAGATGCACTAT
* *
16242121 CAGCAAAGTTTCTGGAAAAAGCTCCCACGTTGACACTCTTTTGCTACAGTAGTTCGTAGAAA
66 CAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTCGTAGAAA
* * * * *
16242183 AATAATTCTAAGTAGACGTTTCTGAACAAATAGTGTC-GAAAA-TGCTTCAAGCAGGATGCACTG
1 AATAATTCTAAGTAGACGTTTCTAAACAAATAGTGCCAAAAAACT-CTTCAAGCAAGATGCACTA
* * *
16242246 TCAGCAAAATTTCTGGAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTTGTAGAAA
65 TCAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTCGTAGAAA
16242309 AATAA
1 AATAA
16242314 GGCTATAGAT
Statistics
Matches: 119, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
125 1 0.01
126 84 0.71
127 34 0.29
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (127 bp):
AATAATTCTAAGTAGACGTTTCTAAACAAATAGTGCCAAAAAACTCTTCAAGCAAGATGCACTAT
CAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:16258097 original size:12 final size:12
Alignment explanation
Indices: 16258082--16258112 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16258072 TTCTCTTTTA
16258082 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
16258094 TTTTTCTTTCTC
1 TTTTTCTTTCCC
16258106 TTTTTCT
1 TTTTTCT
16258113 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:16258212 original size:16 final size:16
Alignment explanation
Indices: 16258191--16258221 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16258181 CTTATTATTT
16258191 TATTAACATAATATAA
1 TATTAACATAATATAA
*
16258207 TATTAATATAATATA
1 TATTAACATAATATA
16258222 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:16259461 original size:49 final size:47
Alignment explanation
Indices: 16259349--16259494 Score: 168
Period size: 49 Copynumber: 3.0 Consensus size: 47
16259339 ATTAATAAAA
* *
16259349 TATAATTGCATAAATTAATAAAAAAAATCAAGTAGTATTGAAATTTTAAT
1 TATAATTGCATAAATTAAT--AAAATATCAAATAGTATTGAAA-TTTAAT
*
16259399 TATAATTGCATAAATGAATAAAATATCAAATAGTATTGCAAATTTAAT
1 TATAATTGCATAAATTAATAAAATATCAAATAGTATTG-AAATTTAAT
* * *
16259447 TA-AATTTTGCATAAATTAAAAAAATATCGAATAGTATTAAAAATTTAA
1 TATAA--TTGCATAAATTAATAAAATATCAAATAGTATT-GAAATTTAA
16259495 AGTTATCACT
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
47 2 0.02
48 25 0.29
49 40 0.47
50 18 0.21
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.36
Consensus pattern (47 bp):
TATAATTGCATAAATTAATAAAATATCAAATAGTATTGAAATTTAAT
Found at i:16259644 original size:11 final size:11
Alignment explanation
Indices: 16259628--16259691 Score: 67
Period size: 11 Copynumber: 5.9 Consensus size: 11
16259618 ATTTAAACAA
16259628 AGAATTTTGAT
1 AGAATTTTGAT
16259639 AGAATTTTGAT
1 AGAATTTTGAT
*
16259650 AGAATTTTGAG
1 AGAATTTTGAT
* **
16259661 AAAATTTCAAT
1 AGAATTTTGAT
*
16259672 -GAAATTTGAT
1 AGAATTTTGAT
*
16259682 AGATTTTTGA
1 AGAATTTTGA
16259692 AGGGAATATT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
10 6 0.15
11 35 0.85
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.42
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:16261223 original size:15 final size:15
Alignment explanation
Indices: 16261203--16261237 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
16261193 GCCAAATTGG
*
16261203 TGTGTTAGTTGGTTC
1 TGTGTTAGTTGGGTC
16261218 TGTGTTAGTTGGGTC
1 TGTGTTAGTTGGGTC
16261233 TGTGT
1 TGTGT
16261238 ATCAGTCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.06, G:0.37, T:0.51
Consensus pattern (15 bp):
TGTGTTAGTTGGGTC
Found at i:16261340 original size:17 final size:17
Alignment explanation
Indices: 16261312--16261352 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16261302 ACATGGTTGA
* *
16261312 GAAATGGAAATGAGATGT
1 GAAAT-GAAATGAAATAT
16261330 GAAATGAAATGAAATAT
1 GAAATGAAATGAAATAT
16261347 GAAATG
1 GAAATG
16261353 GTAGATTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (17 bp):
GAAATGAAATGAAATAT
Found at i:16262318 original size:13 final size:13
Alignment explanation
Indices: 16262300--16262333 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
16262290 ATTCGAGAGG
16262300 CACATGGCTCAGA
1 CACATGGCTCAGA
16262313 CACATGGCTCAGA
1 CACATGGCTCAGA
16262326 CACATGGC
1 CACATGGC
16262334 CTTGTGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (13 bp):
CACATGGCTCAGA
Found at i:16263777 original size:14 final size:13
Alignment explanation
Indices: 16263760--16263805 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
16263750 AATATTTAAT
16263760 AATAAATTAAATA
1 AATAAATTAAATA
*
16263773 TAATAAAATAAATA
1 -AATAAATTAAATA
* *
16263787 AGTAAATGAAATA
1 AATAAATTAAATA
16263800 AATAAA
1 AATAAA
16263806 GAAAAGAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (13 bp):
AATAAATTAAATA
Found at i:16268288 original size:31 final size:31
Alignment explanation
Indices: 16268253--16268316 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
16268243 CCTTTTGTTT
16268253 TATGGCTATTCGACTGTTCAAAAGGGTTACA
1 TATGGCTATTCGACTGTTCAAAAGGGTTACA
16268284 TATGGCTATTCGACTGTTCAAAAGGGTTACA
1 TATGGCTATTCGACTGTTCAAAAGGGTTACA
16268315 TA
1 TA
16268317 CTTTTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (31 bp):
TATGGCTATTCGACTGTTCAAAAGGGTTACA
Found at i:16277224 original size:32 final size:32
Alignment explanation
Indices: 16277145--16277351 Score: 181
Period size: 33 Copynumber: 6.3 Consensus size: 32
16277135 ATGGTACAAT
* *
16277145 TTGAAAAGGAAAGGTACA-TTATATGTGTACAC
1 TTGAAAAGGAAAGGTACACTT-TGTGTATACAC
** * *
16277177 TTGAAAAGGTTATGTACACTTTGTGTGTACAC
1 TTGAAAAGGAAAGGTACACTTTGTGTATACAC
* *
16277209 TTGAAAAGGAAATGTATACTTTGTGTATAC-C
1 TTGAAAAGGAAAGGTACACTTTGTGTATACAC
*
16277240 ATATGAAAAGGAAAGGTATACTTTGTGTATAC-C
1 -T-TGAAAAGGAAAGGTACACTTTGTGTATACAC
16277273 ATATGAAAAGGAAAGGTACACTTTGTGTATACTA-
1 -T-TGAAAAGGAAAGGTACACTTTGTGTATAC-AC
* * *
16277307 TAT-ATAAAGGAAAGGTATACTTTTTGTGTACCAC
1 T-TGA-AAAGGAAAGGTACACTTTGTGTATA-CAC
*
16277341 TTGGAAAGGAA
1 TTGAAAAGGAA
16277352 TGTACACCTC
Statistics
Matches: 152, Mismatches: 14, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
31 1 0.01
32 53 0.35
33 96 0.63
34 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (32 bp):
TTGAAAAGGAAAGGTACACTTTGTGTATACAC
Found at i:16277297 original size:66 final size:66
Alignment explanation
Indices: 16277145--16277351 Score: 228
Period size: 66 Copynumber: 3.2 Consensus size: 66
16277135 ATGGTACAAT
* * ** * *
16277145 TTGAAAAGGAAAGGTACA-TTATATGTGTA-CACT-TGAAAAGGTTATGTACACTTTGTGTGTA-
1 TTGAAAAGGAAAGGTACACTT-TGTGTATACCA-TATGAAAAGGAAAGGTATACTTTGTGTGTAC
16277206 CAC
64 CAC
* * *
16277209 TTGAAAAGGAAATGTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCA
1 TTGAAAAGGAAAGGTACACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTGTACCA
16277274 -
66 C
* *
16277274 TATGAAAAGGAAAGGTACACTTTGTGTATACTATAT-ATAAAGGAAAGGTATACTTTTTGTGTAC
1 T-TGAAAAGGAAAGGTACACTTTGTGTATACCATATGA-AAAGGAAAGGTATACTTTGTGTGTAC
16277338 CAC
64 CAC
*
16277341 TTGGAAAGGAA
1 TTGAAAAGGAA
16277352 TGTACACCTC
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
64 23 0.19
65 29 0.24
66 68 0.56
67 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (66 bp):
TTGAAAAGGAAAGGTACACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTGTACCA
C
Found at i:16295004 original size:33 final size:29
Alignment explanation
Indices: 16294961--16295030 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 29
16294951 GTTCCAAAAA
*
16294961 TAATATTATTTTAATAGTTTTAATATTAAATT
1 TAATATTATTTTAATAGTATT--TATT-AATT
16294993 TAATACTTATTTTAATAGTATTTATTAATT
1 TAATA-TTATTTTAATAGTATTTATTAATT
16295023 TAATATTA
1 TAATATTA
16295031 AAGTGATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 3 0.08
30 9 0.25
31 4 0.11
32 5 0.14
33 15 0.42
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (29 bp):
TAATATTATTTTAATAGTATTTATTAATT
Found at i:16295014 original size:11 final size:11
Alignment explanation
Indices: 16294961--16295015 Score: 51
Period size: 12 Copynumber: 5.0 Consensus size: 11
16294951 GTTCCAAAAA
16294961 TAATATTATTT
1 TAATATTATTT
*
16294972 TAATA--GTTT
1 TAATATTATTT
*
16294981 TAATATTAAATT
1 TAATATT-ATTT
16294993 TAATACTTATTT
1 TAATA-TTATTT
*
16295005 TAATAGTATTT
1 TAATATTATTT
16295016 ATTAATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
9 8 0.23
11 10 0.29
12 15 0.43
13 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (11 bp):
TAATATTATTT
Found at i:16296750 original size:85 final size:85
Alignment explanation
Indices: 16296649--16296815 Score: 264
Period size: 85 Copynumber: 2.0 Consensus size: 85
16296639 ATTACAGCAA
* * **
16296649 ATTTGTAGTTACTACCACTTGTTGT-GGATGCACAACATATTTTCAAATTAAACAAACTGCCACT
1 ATTTGCAGTTACTACCACTTGTTGTAGG-TGCACAACATATTTGCAAATTAAACAAACTAACACT
16296713 TGGTTCGTGATCAAACCACAT
65 TGGTTCGTGATCAAACCACAT
*
16296734 ATTTGCAGTTACTACCACTTGTTGTAGGTGCACAACATATTTGCAGATTAAACAAACTAACACTT
1 ATTTGCAGTTACTACCACTTGTTGTAGGTGCACAACATATTTGCAAATTAAACAAACTAACACTT
*
16296799 GGTTCGTGATTAAACCA
66 GGTTCGTGATCAAACCA
16296816 TATTTTATGC
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
85 73 0.97
86 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (85 bp):
ATTTGCAGTTACTACCACTTGTTGTAGGTGCACAACATATTTGCAAATTAAACAAACTAACACTT
GGTTCGTGATCAAACCACAT
Found at i:16300960 original size:2 final size:2
Alignment explanation
Indices: 16300955--16300995 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
16300945 AAAAAAAAAA
16300955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16300996 AAATGTAACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16303311 original size:11 final size:11
Alignment explanation
Indices: 16303297--16303338 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
16303287 GTCCTCTCAC
*
16303297 AATTCTCTCTA
1 AATTCTCTCCA
16303308 AATTCTCTCCA
1 AATTCTCTCCA
16303319 AATTCTCTCCA
1 AATTCTCTCCA
16303330 AATTCTCTC
1 AATTCTCTC
16303339 AATTTTCTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.40
Consensus pattern (11 bp):
AATTCTCTCCA
Found at i:16303314 original size:9 final size:10
Alignment explanation
Indices: 16303290--16303351 Score: 70
Period size: 11 Copynumber: 5.7 Consensus size: 10
16303280 CACAATAGTC
16303290 CTCTCACAATT
1 CTCTCA-AATT
16303301 CTCTCTAAATT
1 CTCTC-AAATT
16303312 CTCTCCAAATT
1 CTCT-CAAATT
16303323 CTCTCCAAATT
1 CTCT-CAAATT
*
16303334 CTCTCAATTTT
1 CTCTCAA-ATT
16303345 CTCTCAA
1 CTCTCAA
16303352 TTTTTTCAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
10 3 0.06
11 42 0.89
12 2 0.04
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:16303367 original size:20 final size:21
Alignment explanation
Indices: 16303344--16303382 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16303334 CTCTCAATTT
*
16303344 TCTC-TCAATTTTTTCAAAGC
1 TCTCTTCAATTTTTGCAAAGC
*
16303364 TCTCTTTAATTTTTGCAAA
1 TCTCTTCAATTTTTGCAAA
16303383 AAAGCTCTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.49
Consensus pattern (21 bp):
TCTCTTCAATTTTTGCAAAGC
Found at i:16304537 original size:7 final size:7
Alignment explanation
Indices: 16304517--16304595 Score: 131
Period size: 7 Copynumber: 11.0 Consensus size: 7
16304507 CATAATAAAA
16304517 TAGTCATT
1 TAGT-ATT
*
16304525 TTGTATT
1 TAGTATT
16304532 TAGTATTT
1 TAGTA-TT
16304540 TAGTATT
1 TAGTATT
16304547 TAGTATT
1 TAGTATT
16304554 TAGTATT
1 TAGTATT
16304561 TAGTATT
1 TAGTATT
16304568 TAGTATT
1 TAGTATT
16304575 TAGTATT
1 TAGTATT
16304582 TAGTATT
1 TAGTATT
16304589 TAGTATT
1 TAGTATT
16304596 ACGTATATAA
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
7 58 0.85
8 10 0.15
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.58
Consensus pattern (7 bp):
TAGTATT
Found at i:16308547 original size:18 final size:18
Alignment explanation
Indices: 16308524--16308567 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
16308514 ATGCCAGGTG
*
16308524 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
*
16308542 TGTATCCTAACCCTTTTA
1 TGTATCCTAACCCTTATA
*
16308560 TGTTTCCT
1 TGTATCCT
16308568 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:16308850 original size:21 final size:22
Alignment explanation
Indices: 16308812--16308875 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
16308802 CAACACCCAT
*
16308812 AACCA-AATCCCCTGCCGGAAG-
1 AACCACAATCCCC-ACCGGAAGC
16308833 AACCACAATCCCCACCGG-AGC
1 AACCACAATCCCCACCGGAAGC
*
16308854 AACCACAACCCCCACCGGAAGC
1 AACCACAATCCCCACCGGAAGC
16308876 TGAACTAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 2 0.05
21 26 0.68
22 10 0.26
ACGTcount: A:0.34, C:0.45, G:0.16, T:0.05
Consensus pattern (22 bp):
AACCACAATCCCCACCGGAAGC
Found at i:16309325 original size:129 final size:129
Alignment explanation
Indices: 16308977--16309482 Score: 811
Period size: 129 Copynumber: 3.9 Consensus size: 129
16308967 TGTAGAAACT
* *
16308977 TTTTTTATATAG-TTTCATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACTTTACTT
1 TTTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
* *
16309041 TTTTTAATTTTATTAAAATAAATATTCTTTTAAATTAGGC-AATATTTTTTATTATTTTTATATT
65 TTTTTAACTTTATTAAAATAAATGTTCTTTTAAATTA-GCTAATA-TTTTTATTATTTTTATATT
16309105 TAA
128 T-A
* * *
16309108 TTTTTTATATAGTTTCAATTAGTAAAATAAAAGTTGTTTTTAATATTTTAATTATACTTTAC-TT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
*
16309172 TTTTAACTTTATTAAAATAAATGTTCTTTTTAATTAGCTAATATTTTTATTATTTTTATATTTA
66 TTTTAACTTTATTAAAATAAATGTTCTTTTAAATTAGCTAATATTTTTATTATTTTTATATTTA
16309236 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* *
16309301 TTTTAACTTTATTAAAATAAATGTTCTTTTTAATTAGATAATATTTTTATTATTTTTATATTTA
66 TTTTAACTTTATTAAAATAAATGTTCTTTTAAATTAGCTAATATTTTTATTATTTTTATATTTA
16309365 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
* * * * *
16309430 TTTAAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
66 TTTTAACTTTATTAAAATAAATGTTCTTTTAAATTAGCTAAT-ATTTTTATTA
16309483 AAATAAATGT
Statistics
Matches: 352, Mismatches: 19, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
128 60 0.17
129 187 0.53
130 49 0.14
131 52 0.15
132 4 0.01
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (129 bp):
TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAACTTTATTAAAATAAATGTTCTTTTAAATTAGCTAATATTTTTATTATTTTTATATTTA
Found at i:16309479 original size:259 final size:259
Alignment explanation
Indices: 16308977--16309482 Score: 829
Period size: 259 Copynumber: 2.0 Consensus size: 259
16308967 TGTAGAAACT
*
16308977 TTTTTTATATAGTTTCATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTAATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACTTTACTTT
* *
16309042 TTTTAATTTTATTAAAATAAATATTCTTTTAAATTAGGCAATATTTTTTATTATTTTTATATTTA
66 TTTTAACTTTATTAAAATAAATATTCTTTTAAATTAGACAATATTTTTTATTATTTTTATATTTA
*
16309107 ATTTTTTATATAGTTTCAATTAGTAAAATAAAAGTTGTTTTTAATATTTTAATTATACTTTACTT
131 ATTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTATACTTTACTT
* * *
16309172 TTTTAACTTTATTAAAATAAATGTTCTTTTTAATTAGCTAATATTTTTATTATTTTTATATTTA
196 TTTTAACTTTAATAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTA
*
16309236 TTTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
1 TTTTTTATATAG-TTTAATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACTTTACTT
* * *
16309300 TTTTTAACTTTATTAAAATAAATGTTCTTTTTAATTAGATAATA-TTTTTATTATTTTTATATTT
65 TTTTTAACTTTATTAAAATAAATATTCTTTTAAATTAGACAATATTTTTTATTATTTTTATATTT
* *
16309364 -ATTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACT
130 AATTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTATACTTTACT
* *
16309428 TTTTTAAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
195 TTTTT-AACTTTAATAAAATAAATGTTCTTTTAAATTAGCCAAT-ATTTTTATTA
16309483 AAATAAATGT
Statistics
Matches: 229, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
257 66 0.29
258 53 0.23
259 105 0.46
260 5 0.02
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (259 bp):
TTTTTTATATAGTTTAATATAATAAAATAAAAGTTATTTTTAATATTTTAATTGTACTTTACTTT
TTTTAACTTTATTAAAATAAATATTCTTTTAAATTAGACAATATTTTTTATTATTTTTATATTTA
ATTTTTTATATAGTTTCAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTATACTTTACTT
TTTTAACTTTAATAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTA
Found at i:16311092 original size:273 final size:272
Alignment explanation
Indices: 16310484--16311306 Score: 1227
Period size: 273 Copynumber: 3.0 Consensus size: 272
16310474 TTAATAAAGA
* * * *
16310484 TTAAATACCCATGTTGGTCACTTGCCGTCGTTCAGTTGTAGATCGATATTGCCCATTGTAGTTAG
1 TTAAATACCCATGTTGGTCACTTGCCATCGTTCAGTTGTAGATCGATATTGCCCGTAGTAGTTGG
* * * * * * *
16310549 ATGCAATGTGTCTTAGGCAATACCAATGGTGTGTGTGATGCCATTGGCTTCAATGACATTCAATG
66 ACGCAACGTGCCTTAGGCAATACCGATGGTGTGTGCGATGCCATTGGCTTCATTGTCATTCAAT-
* * *
16310614 GCGGCTAGTATTGCAGTACCCCGATCTGATATAACGCATATATCAGGTTGGGGGCAGACATGCCT
130 TCGGCTAGTATTCCAGTACCCC-ATCCGATATAACGCATATATCAGGTTGGGGGCAGACATGCCT
** *
16310679 CCTTAACCTAGAAAGAAAGAAATCCTAGTCATCAGCTGACTCCATTGGTGTTATTGCAAATGCAA
194 CCTTAACCTAGAAAGAAAGAAATCCTAGTCATCAGCTGACTCC-CCGGTGTTATTGCAAACGCAA
*
16310744 TTAGAATGATTTTCC
258 TTAGAATGATTCTCC
* * *
16310759 TTAAATAACTATGTTGGTCACTTGTCATCGTTCAGTTGTAGATCGATATTGCCCGTAGTAGTTGG
1 TTAAATACCCATGTTGGTCACTTGCCATCGTTCAGTTGTAGATCGATATTGCCCGTAGTAGTTGG
*
16310824 ACGCAACGTGCCTTAGGCAATACCGATGGTGTGTGCGATGTCATTGGCTTCATTGTCATTCAATT
66 ACGCAACGTGCCTTAGGCAATACCGATGGTGTGTGCGATGCCATTGGCTTCATTGTCATTCAATT
* *
16310889 CGGCTAGTATTCCAGTACCCCTATCCGATATAACGCATATATCAGGTTAGGGGCAAACATGCCTC
131 CGGCTAGTATTCCAGTACCCC-ATCCGATATAACGCATATATCAGGTTGGGGGCAGACATGCCTC
* * * *
16310954 CTTAACTTAGAAAGAAAGAAATCCTAGTCATCAGCTGTCTCCCCGGTGTTATTGTAAACGTAATT
195 CTTAACCTAGAAAGAAAGAAATCCTAGTCATCAGCTGACTCCCCGGTGTTATTGCAAACGCAATT
16311019 AGAATGATTCTCC
260 AGAATGATTCTCC
* * *
16311032 TTAAATACCCATGTTGGTCACTTGCCATCGTTCAGTTGTAGATTGATATTGTCTGTAGTAGTTGG
1 TTAAATACCCATGTTGGTCACTTGCCATCGTTCAGTTGTAGATCGATATTGCCCGTAGTAGTTGG
*
16311097 ACGCAACGTGCCTTAGGCAATACCGATGGTGTGTGCGATGCCATTGGCTCCATTGTCATTCAATT
66 ACGCAACGTGCCTTAGGCAATACCGATGGTGTGTGCGATGCCATTGGCTTCATTGTCATTCAATT
* * *
16311162 -GTGACTAGTATTCCAGTACCCCATTCTATATAACTCATATATCAGGTTGGGGGCAGACATGCCT
131 CG-G-CTAGTATTCCAGTACCCCATCCGATATAACGCATATATCAGGTTGGGGGCAGACATGCCT
* *
16311226 CCTTAACCTAGAAAGAAAGAAATCCTAGTCATCAACTGACTCTGCCGGTGTTATTGCAAACGCAA
194 CCTTAACCTAGAAAGAAAGAAATCCTAGTCATCAGCTGACTC-CCCGGTGTTATTGCAAACGCAA
16311291 TT-GCAATGATTCTCC
258 TTAG-AATGATTCTCC
16311306 T
1 T
16311307 ACTGCTACCT
Statistics
Matches: 496, Mismatches: 48, Indels: 9
0.90 0.09 0.02
Matches are distributed among these distances:
272 1 0.00
273 230 0.46
274 151 0.30
275 114 0.23
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (272 bp):
TTAAATACCCATGTTGGTCACTTGCCATCGTTCAGTTGTAGATCGATATTGCCCGTAGTAGTTGG
ACGCAACGTGCCTTAGGCAATACCGATGGTGTGTGCGATGCCATTGGCTTCATTGTCATTCAATT
CGGCTAGTATTCCAGTACCCCATCCGATATAACGCATATATCAGGTTGGGGGCAGACATGCCTCC
TTAACCTAGAAAGAAAGAAATCCTAGTCATCAGCTGACTCCCCGGTGTTATTGCAAACGCAATTA
GAATGATTCTCC
Found at i:16313349 original size:126 final size:123
Alignment explanation
Indices: 16313100--16313405 Score: 416
Period size: 126 Copynumber: 2.5 Consensus size: 123
16313090 AGTCTAACGC
* * * ** * *
16313100 TTTTTCAAATACTACTGTAGTAAAAAAGTGTCCACGTGGGAGCTTTTTCTGTAATTTTGCTGACA
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCCGTAATTTTACTGACA
*
16313165 GTGCATCTTGCTTGAAGCATTTTGACACTTTTGTTCAGAAACATCTTTTCAAAATTAT
66 GTGCATCTTGCTTGAAGCATTTTGACACTTTTATTCAGAAACATCTTTTCAAAATTAT
* * *
16313223 TTTTTCAGATACTACTATAGCAAAAGAGCATCCACGTTGGAGCATTTTTCCGTAATTTTACTGGC
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGC-TTTTTCCGTAATTTTACTGAC
* * *
16313288 AGTGCATCATT-TTTGAAGCGTTTTTGACACTATTTATTCAGAAATATCTTTTCAAAATTAT
65 AGTGCATC-TTGCTTGAAGC-ATTTTGACACT-TTTATTCAGAAACATCTTTTCAAAATTAT
* *
16313349 TTTTTCAGATACTACTGTAGGAAAAGAGCTTCCACGTGGGAGCTTTTTTCCGTAATT
1 TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGC-TTTTTCCGTAATT
16313406 AATAGTTAAT
Statistics
Matches: 160, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
123 36 0.22
124 33 0.21
125 12 0.08
126 79 0.49
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (123 bp):
TTTTTCAGATACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTCCGTAATTTTACTGACA
GTGCATCTTGCTTGAAGCATTTTGACACTTTTATTCAGAAACATCTTTTCAAAATTAT
Found at i:16313536 original size:12 final size:13
Alignment explanation
Indices: 16313519--16313547 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16313509 ATTGATTTTT
16313519 TTAATTTAA-TAA
1 TTAATTTAATTAA
16313531 TTAATTTAATTAA
1 TTAATTTAATTAA
16313544 TTAA
1 TTAA
16313548 CCCTTAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAATTTAATTAA
Found at i:16313541 original size:56 final size:56
Alignment explanation
Indices: 16313435--16313575 Score: 225
Period size: 56 Copynumber: 2.6 Consensus size: 56
16313425 AAACCCTAAA
*
16313435 AACCCT-AAGCCCTAATTTAATTGA-TTTTTTAATTTAATAGTTAATTTAATTAATT
1 AACCCTCAA-CCCTAATTTAATTGATTTTTTTAATTTAATAATTAATTTAATTAATT
*
16313490 AACCCTCAATCCTAATTTAATTGATTTTTTTAATTTAATAATTAATTTAATTAATT
1 AACCCTCAACCCTAATTTAATTGATTTTTTTAATTTAATAATTAATTTAATTAATT
*
16313546 AACCCTTAACCCTAATTTAATT-ATTTTTTT
1 AACCCTCAACCCTAATTTAATTGATTTTTTT
16313576 CCTTAAAACA
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
55 28 0.35
56 52 0.65
ACGTcount: A:0.35, C:0.13, G:0.03, T:0.49
Consensus pattern (56 bp):
AACCCTCAACCCTAATTTAATTGATTTTTTTAATTTAATAATTAATTTAATTAATT
Found at i:16317942 original size:18 final size:19
Alignment explanation
Indices: 16317910--16317948 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
16317900 TAAACGCAAT
16317910 AATATAACAATAAGA-AAA
1 AATATAACAATAAGATAAA
16317928 AATATAA-AATAAAGATAAA
1 AATATAACAAT-AAGATAAA
16317947 AA
1 AA
16317949 GCCAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 11 0.58
19 5 0.26
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (19 bp):
AATATAACAATAAGATAAA
Found at i:16319972 original size:2 final size:2
Alignment explanation
Indices: 16319965--16319996 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
16319955 AAATACTATT
16319965 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16319997 CATTTGTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16320806 original size:131 final size:131
Alignment explanation
Indices: 16320569--16320826 Score: 426
Period size: 131 Copynumber: 2.0 Consensus size: 131
16320559 TAATTATTCA
* *
16320569 TTTAAAAATTCTTTAAAACGAAGGCAATGTTTAATGCTTGGCAATTCGGGGAATCGTGCCCAATC
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTTAATGCTTGGCAATTCGGAGAATCGTGCCCAATC
16320634 GTGCTAGGTTGCAATTTCCCATTTGTTCAAAATAATAGAATATTCCTTTGGAATTTCACTCATGT
66 GTGCTAGGTTGCAATTTCCCATTTGTTCAAAATAATAGAATATTCCTTTGGAATTTCACTCATGT
16320699 C
131 C
* * *
16320700 TTTAAAAATTCTTTAAAACGAAGGAAATGTTTGATGTTTGGCAATTCGGAGAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTTAATGCTTGGCAATTCGGAGAATCGTGCCCAATC
* * * * *
16320765 GTGCTGGGTTGCAATTTTCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTTACTCA
66 GTGCTAGGTTGCAATTTCCCATTTGTTCAAAATAATAGAATATTCCTTTGGAATTTCACTCA
16320827 CATTTTCTAA
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 117 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAGGAAATGTTTAATGCTTGGCAATTCGGAGAATCGTGCCCAATC
GTGCTAGGTTGCAATTTCCCATTTGTTCAAAATAATAGAATATTCCTTTGGAATTTCACTCATGT
C
Found at i:16322061 original size:18 final size:18
Alignment explanation
Indices: 16322038--16322072 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
16322028 GAATTTCTTA
16322038 ACAAAGTTGAGGATAATG
1 ACAAAGTTGAGGATAATG
16322056 ACAAAGTTGAGGATAAT
1 ACAAAGTTGAGGATAAT
16322073 ACAGCCGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.06, G:0.26, T:0.23
Consensus pattern (18 bp):
ACAAAGTTGAGGATAATG
Found at i:16331468 original size:2 final size:2
Alignment explanation
Indices: 16331463--16331491 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16331453 ATGTACACAC
16331463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16331492 ATTTAGCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16331783 original size:19 final size:19
Alignment explanation
Indices: 16331759--16331796 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16331749 TTGAGATTGC
*
16331759 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
16331778 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
16331797 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:16331891 original size:6 final size:7
Alignment explanation
Indices: 16331874--16331898 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16331864 TCCCTTTTAA
16331874 AAAAAAT
1 AAAAAAT
16331881 AAAAAAT
1 AAAAAAT
16331888 AAAAAAT
1 AAAAAAT
16331895 AAAA
1 AAAA
16331899 TTTCAAAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:16333840 original size:23 final size:23
Alignment explanation
Indices: 16333792--16333859 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
16333782 GTATGGGTAC
* *
16333792 ATTTATAATTTAAATATTTAATT
1 ATTTATAATTTAAATATTAAAAT
*
16333815 ATTTATAATTTAAGTA-TAAAGAT
1 ATTTATAATTTAAATATTAAA-AT
*
16333838 ATTTGTTAA-TTAAATAATTAAA
1 ATTT-ATAATTTAAAT-ATTAAA
16333860 TTATAAGATT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
22 3 0.08
23 25 0.69
24 4 0.11
25 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
ATTTATAATTTAAATATTAAAAT
Found at i:16334212 original size:22 final size:21
Alignment explanation
Indices: 16334164--16334204 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
16334154 ATGAAATAAT
*
16334164 AAAAG-AATAAAAAGAAAGAC
1 AAAAGAAATAAAAAGAAACAC
16334184 AAAAGAAATAAAGAAGAAACA
1 AAAAGAAATAAA-AAGAAACA
16334205 GAACAGAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.76, C:0.05, G:0.15, T:0.05
Consensus pattern (21 bp):
AAAAGAAATAAAAAGAAACAC
Found at i:16336500 original size:40 final size:39
Alignment explanation
Indices: 16336393--16336560 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 39
16336383 CGGGATTTAA
* * * * *
16336393 CCGGATACAACCACAAGCACAATTGCCTTTGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
* *** * *
16336433 CCGGATTTGGTAACTTGCACCATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCA-CAATGCCTTCGGGTCTTAGC
16336473 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
*
16336513 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGAT-TTAGC
1 CCGGATATAA-CAACTAGCA-CAATGCCTTCGGG-TCTTAGC
16336553 CCGGATAT
1 CCGGATAT
16336561 CATTTAAATG
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
39 1 0.01
40 100 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:16338454 original size:27 final size:29
Alignment explanation
Indices: 16338420--16338488 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 29
16338410 ATGCCTTATT
*
16338420 GGTGTGTTTGGGAGGA-TATATTATACC-
1 GGTGTGTTTGGGAGGATTATAATATACCA
*
16338447 GGTGTGTTAT-GGAGGATTTATAATATTCCA
1 GGTGTGTT-TGGGAGGA-TTATAATATACCA
16338477 GGTGTGTTTGGG
1 GGTGTGTTTGGG
16338489 TTGGATATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 14 0.40
28 1 0.03
29 10 0.29
30 10 0.29
ACGTcount: A:0.20, C:0.06, G:0.35, T:0.39
Consensus pattern (29 bp):
GGTGTGTTTGGGAGGATTATAATATACCA
Found at i:16349073 original size:53 final size:54
Alignment explanation
Indices: 16349016--16349120 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 54
16349006 TATTTTACCT
* *
16349016 AAAAAAGGAAAGGCCGAGGTGAAAACCCGC-AAAGGGCGCTTTGAGACCAAAAA
1 AAAAAAGGAAAGGCCAAGGTGAAAACCCGCAAAAGGGCACTTTGAGACCAAAAA
*
16349069 AAAAAATGAAAGGCCAAGGTGAAAACCCGCAAAAGGGCACTTTGAGACCAAA
1 AAAAAAGGAAAGGCCAAGGTGAAAACCCGCAAAAGGGCACTTTGAGACCAAA
16349121 GGGTTTTTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 28 0.58
54 20 0.42
ACGTcount: A:0.47, C:0.19, G:0.26, T:0.09
Consensus pattern (54 bp):
AAAAAAGGAAAGGCCAAGGTGAAAACCCGCAAAAGGGCACTTTGAGACCAAAAA
Found at i:16350114 original size:87 final size:88
Alignment explanation
Indices: 16349968--16350190 Score: 360
Period size: 87 Copynumber: 2.6 Consensus size: 88
16349958 AGCTGAAGAT
*
16349968 ATCCAAGATGATTTGGCATTTCTATATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTATATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
* *
16350033 TTCATGTGTTTACGTTGAA-CAG
66 TTCACGTGTTTACGTTGAAGCAA
*
16350055 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTATATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
16350120 TTCACGTGTTTACGTTGAAGCAA
66 TTCACGTGTTTACGTTGAAGCAA
* * * *
16350143 ATCCAAGATGATTTGGCGTCTCTATAGC-GGCAGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTATATCAGGCGGGGAGCAGATCGAAGA
16350191 TAACAGATTT
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
87 99 0.79
88 27 0.21
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTATATCAGGCGGGGAGCAGATCGAAGACATAGCTGATTTGGCT
TTCACGTGTTTACGTTGAAGCAA
Found at i:16350365 original size:43 final size:44
Alignment explanation
Indices: 16350152--16351188 Score: 1579
Period size: 43 Copynumber: 24.4 Consensus size: 44
16350142 AATCCAAGAT
* *
16350152 GATTTGGCGTCTCTATAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
16350196 GATTTGGCGTCTCTATAGCGGC-GA-AGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
16350238 GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
16350282 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGGTCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
16350326 GATTTGGCGTCTCTGTAGC-GCGGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
16350369 GATTTGGCATCTCTGTAGCAGC-GAGAGCAGATCGAAGAT---A
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
16350409 -ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-ACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
16350451 GATTTGGCGTCTCTGTAGC-GCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** * *
16350494 GATTTGGCGTCTCTGTAGCGGTAGAGAGCAGA-CAAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
16350537 GATTTGGTGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
16350581 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** *
16350625 -ATTTGGCGTCTCTGTAGCAACAGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
16350664 GATTTGGCATCT-TGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
16350707 GATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
16350750 GATTTGACGTCTCTGTAGCGGC-GAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
16350793 GATTTGGC-TCTCTGTAGCGGCAGAGAGCAGATC-AAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
16350835 GATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
16350874 GATTTGGCATCTCTGTA--GGC-GAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
16350915 GATTTGGCGTCTCTGTAGCGG-GGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
16350958 -ATTTGGCGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
16351001 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
16351045 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
16351088 GATTTGGCGTCTCTGTA---GCGG-GAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
16351128 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
16351172 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
16351189 TTAGACGGGG
Statistics
Matches: 919, Mismatches: 41, Indels: 66
0.90 0.04 0.06
Matches are distributed among these distances:
37 20 0.02
39 77 0.08
40 49 0.05
41 16 0.02
42 117 0.13
43 349 0.38
44 291 0.32
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:16350444 original size:256 final size:259
Alignment explanation
Indices: 16350138--16351169 Score: 1567
Period size: 256 Copynumber: 4.1 Consensus size: 259
16350128 TTTACGTTGA
* * * * * *
16350138 AGCAAATCCAAGATGATTTGGCGTCTCTATAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGG
1 AGCAGATCGAAGATAATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
* * *
16350203 CGTCTCTATAGCGGC-GA-AGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGACGGAGAG
66 CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* *
16350266 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGGTCGAAGATAACAGATTT
131 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT
*
16350331 GGCGTCTCTGTAGCGCGGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTAGCAGC-GAG
196 GGCGTCTCTGTAGCGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCAGCAGAG
16350394 AGCAGATCGAAGATAATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-ACAGATTTGG
1 AGCAGATCGAAGATAATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
**
16350458 CGTCTCTGTAGC-GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGTAGAGAG
66 CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* * *
16350522 CAGA-CAAAGATAGCAGATTTGGTGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT
131 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT
* *
16350586 GGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA-ATTTGGCGTCTCTGTAGCAACAGAG
196 GGCGTCTCTGTAGC-GCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCAGCAGAG
*
16350650 AGCAGATCGAAGATGATTTGGCATCT-TGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
1 AGCAGATCGAAGATAATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
*
16350714 CGTCTCTGTAGCGGC-GAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGC-GAGAG
66 CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* *
16350777 CAGATCGAAGATAACAGATTTGGC-TCTCTGTAGCGGCAGAGAGCAGATC-AAGATAATAGATTT
131 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT
16350840 GGCGTCTCTGTAGCG-GCGAGAGCAGATCGAAGAT----GATTTGGCATCTCTGTAG--GC-GAG
196 GGCGTCTCTGTAGCGCG-GAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCAGCAGAG
*
16350897 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG-GGAGAGCAGATCGAAGATAACA-AT
1 AGCAGATCGAAGAT---A-ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
*
16350960 TTGGCGTCTCCGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG
62 TTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG
16351025 AGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-G
127 AGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAG
* * * *
16351089 ATTTGGCGTCTCTGTA--GCGG-GAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCG
192 ATTTGGCGTCTCTGTAGCGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCAGCA
16351151 GAG
257 GAG
16351154 AGCAGATCGAAGATAA
1 AGCAGATCGAAGATAA
16351170 CGGATTTGGC
Statistics
Matches: 713, Mismatches: 37, Indels: 55
0.89 0.05 0.07
Matches are distributed among these distances:
247 17 0.02
248 1 0.00
250 50 0.07
251 76 0.11
252 39 0.05
253 60 0.08
254 54 0.08
255 171 0.24
256 226 0.32
257 19 0.03
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (259 bp):
AGCAGATCGAAGATAATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTT
GGCGTCTCTGTAGCGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCAGCAGAG
Found at i:16352703 original size:19 final size:19
Alignment explanation
Indices: 16352679--16352716 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16352669 TTGAGATTGC
*
16352679 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
16352698 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
16352717 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:16357948 original size:89 final size:89
Alignment explanation
Indices: 16357798--16358281 Score: 518
Period size: 89 Copynumber: 5.5 Consensus size: 89
16357788 CGATATTGGC
* **
16357798 GAAGATTGCAGATCTTGTCTCCCT-GAAGTTGCAGCAGAGCAGATCGAAGAAAGCAAGCCTTAAC
1 GAAGATTGCAAATCTTGTCTCCCTAG-AGTTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAAC
* * *
16357862 CCCCAAAATAGTAGGGTAACAGGCC
65 CCCCTAAGTAGTAGGGTAACAGGCT
* * * ** ** **
16357887 GAAGATTGCAAATCTTATCTTCCT-GAAGTTACAGTGGAATAGATCGAAGACGGTGAGCCTTAA-
1 GAAGATTGCAAATCTTGTCTCCCTAG-AGTTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAAC
* **
16357950 CCCCTCAGTAGTAGGGTAACACACT
65 CCCCTAAGTAGTAGGGTAACAGGCT
* * *
16357975 GAAGATTG-AAGATTTTGTCTCCCTATATTTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAAC
1 GAAGATTGCAA-ATCTTGTCTCCCTAGAGTTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAAC
16358039 CCCCTAAGTAGTAGGGTAACAGGCT
65 CCCCTAAGTAGTAGGGTAACAGGCT
* * *
16358064 GAAGATTGGAGATTTTGTCTCCCTAGAGTTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAACC
1 GAAGATTGCAAATCTTGTCTCCCTAGAGTTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAACC
16358129 CCCTAAGTAGTAGGGTAACAGGCT
66 CCCTAAGTAGTAGGGTAACAGGCT
* * *** * * * *
16358153 GAAGATTGTAGATCTTGTCTCCCTA-AACAGTAGTGGAGCAAATCGGAG-AAGTAAGCCTTAA-C
1 GAAGATTGCAAATCTTGTCTCCCTAGAGTTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAACC
* *
16358215 CCCTAAGCAGTAGGGTAATAGGCT
66 CCCTAAGTAGTAGGGTAACAGGCT
* * *
16358239 GTAA-ATTACAAGTCTTATCTCCCT-GAGGTTGCAGTGGAGCAGA
1 G-AAGATTGCAAATCTTGTCTCCCTAGA-GTTGCAGTGGAGCAGA
16358282 CTAAAGTTAG
Statistics
Matches: 331, Mismatches: 57, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
86 40 0.12
87 27 0.08
88 83 0.25
89 180 0.54
90 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (89 bp):
GAAGATTGCAAATCTTGTCTCCCTAGAGTTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAACC
CCCTAAGTAGTAGGGTAACAGGCT
Found at i:16358101 original size:177 final size:177
Alignment explanation
Indices: 16357798--16358281 Score: 555
Period size: 177 Copynumber: 2.7 Consensus size: 177
16357788 CGATATTGGC
* * **
16357798 GAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGCAGAGCAGATCGAAGAAAGCAAGCCTTAACC
1 GAAGATTGAAGATCTTGTCTCCCT-AAATTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAACC
* * * * *
16357863 CCCAAAATAGTAGGGTAACAGGCCGAAGATTGCAAATCTTATCTTCCTGAAGTTACAGTGGAATA
65 CCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAAATCTTATCTCCCTGAAGTTACAGTGGAACA
** ** *
16357928 GATCGAAGACGGTGAGCCTTAA-CCCCTCAGTAGTAGGGTAACACACT
130 GATCGAAGAAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACACACT
* *
16357975 GAAGATTGAAGATTTTGTCTCCCTATATTTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAACC
1 GAAGATTGAAGATCTTGTCTCCCTA-AATTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAACC
* * * * * *
16358040 CCCTAAGTAGTAGGGTAACAGGCTGAAGATTGGAGATTTTGTCTCCCT-AGAGTTGCAGTGGAGC
65 CCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAAATCTTATCTCCCTGA-AGTTACAGTGGAAC
**
16358104 AGATCGAAGAAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCT
129 AGATCGAAGAAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACACACT
* ** * * * *
16358153 GAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGGAG-AAGTAAGCCTTAA-CC
1 GAAGATTGAAGATCTTGTCTCCCTAAATTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAACCC
* * * * * * *
16358216 CCTAAGCAGTAGGGTAATAGGCTGTAA-ATTACAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCA
66 CCTAAGTAGTAGGGTAACAGGCTG-AAGATTGCAAATCTTATCTCCCTGAAGTTACAGTGGAACA
16358280 GA
130 GA
16358282 CTAAAGTTAG
Statistics
Matches: 261, Mismatches: 41, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
175 54 0.21
176 17 0.07
177 145 0.56
178 45 0.17
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (177 bp):
GAAGATTGAAGATCTTGTCTCCCTAAATTGCAGTGGAGCAGATCGAAGAAAGCAAGCCTTAACCC
CCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAAATCTTATCTCCCTGAAGTTACAGTGGAACAG
ATCGAAGAAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACACACT
Found at i:16358177 original size:44 final size:44
Alignment explanation
Indices: 16358040--16358178 Score: 104
Period size: 44 Copynumber: 3.1 Consensus size: 44
16358030 AGCCTTAACC
* *
16358040 CCCTAAGTAGTAGGGTAACAGGCTGAAGATTGGAGATTTTGTCT
1 CCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCT
* * * * ** * ** *
16358084 CCCTAGAGTTGCAGTGG-AGCA-GATCGAAGAAAGCA-AGCCTTAACC
1 CCCTA-AGTAGTAG-GGTAACAGGCT-GAAGATTGCAGA-TCTTGTCT
*
16358129 CCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCT
1 CCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCT
16358173 CCCTAA
1 CCCTAA
16358179 ACAGTAGTGG
Statistics
Matches: 65, Mismatches: 23, Indels: 14
0.64 0.23 0.14
Matches are distributed among these distances:
43 2 0.03
44 34 0.52
45 27 0.42
46 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (44 bp):
CCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCT
Found at i:16358357 original size:44 final size:45
Alignment explanation
Indices: 16358251--16358369 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 45
16358241 AAATTACAAG
* *
16358251 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTAAAGTTAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTCAGCAGA
*
16358296 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCGAAGTCA-CA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAGTCAGCAGA
* * *
16358339 TCCTTATCTCTCTGAAGTTACAGTAGAGCAG
1 T-CTTATCTCCCTGAAGTTGCAGTGGAGCAG
16358370 GATGAAAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
43 2 0.03
44 29 0.44
45 35 0.53
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGTCAGCAGA
Found at i:16360125 original size:3 final size:3
Alignment explanation
Indices: 16360117--16360162 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
16360107 TATCTTTTGA
16360117 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
16360163 GATGCCTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:16361255 original size:131 final size:130
Alignment explanation
Indices: 16361018--16361348 Score: 463
Period size: 131 Copynumber: 2.6 Consensus size: 130
16361008 TAATTATTCA
* *
16361018 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGCTTGGCAATTCGGGGAATCGTGCCCAATC
1 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * *
16361083 GTGCTGGGTTGCAATTTTCTGTTTGTTCAAAGTAATAGAATATTCCTTTGGAATTTCACTCATGT
66 GTGCTGGGTTGCAATTTTCCGTTTGTTCAAAATAATAGAATATTCCTTTGGAATTTCACTCACGT
* *
16361148 CTTTAAAAATTCTTTAAAACGAAGGAAATGTTTGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
1 -TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* *
16361213 CGTGCTGGGTTGCAATTTTCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTTACTCACG
65 CGTGCTGGGTTGCAATTTTCCGTTTGTTCAAAATAATAGAATATTCCTTTGGAATTTCACTCACG
16361278 T
130 T
** * * * * **
16361279 TTTCTAAATTC--TAAAAC-AAGGCAATGTTCAATGTCTAGAAATTCAAGGAATCGTGCCCTA-C
1 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
16361340 TGTGCTGGG
66 -GTGCTGGG
16361349 CTTCGATTTT
Statistics
Matches: 180, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
126 1 0.01
127 43 0.24
128 6 0.03
130 9 0.05
131 121 0.67
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (130 bp):
TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTGCAATTTTCCGTTTGTTCAAAATAATAGAATATTCCTTTGGAATTTCACTCACGT
Found at i:16361947 original size:21 final size:22
Alignment explanation
Indices: 16361923--16362006 Score: 70
Period size: 21 Copynumber: 3.9 Consensus size: 22
16361913 AATAACAACG
16361923 ATAAAAGAAATAAATAAAA-AT
1 ATAAAAGAAATAAATAAAATAT
**
16361944 ATAAAAG-AGGAAATAAAATAT
1 ATAAAAGAAATAAATAAAATAT
*
16361965 ATATAAAAAAAGTAAA-AAAATAT
1 ATA-AAAGAAA-TAAATAAAATAT
16361988 GATAAGAA-AAA-AAATAAAA
1 -ATAA-AAGAAATAAATAAAA
16362007 ATAAAGACAA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
20 9 0.18
21 15 0.29
22 7 0.14
23 12 0.24
24 8 0.16
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (22 bp):
ATAAAAGAAATAAATAAAATAT
Found at i:16362008 original size:23 final size:22
Alignment explanation
Indices: 16361925--16362009 Score: 75
Period size: 23 Copynumber: 3.7 Consensus size: 22
16361915 TAACAACGAT
*
16361925 AAAAGAAATAAATAAAAATATAAA
1 AAAAGAAAT-AA-AAATATATAAA
* *
16361949 AGAGGAAATAAAATATATATAAA
1 AAAAGAAATAAAA-ATATATAAA
*
16361972 AAAAGTAA-AAAAATATGATAAGA
1 AAAAGAAATAAAAATAT-ATAA-A
16361995 AAAA-AAATAAAAATA
1 AAAAGAAATAAAAATA
16362010 AAGACAATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
21 4 0.08
22 12 0.24
23 27 0.54
24 7 0.14
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (22 bp):
AAAAGAAATAAAAATATATAAA
Found at i:16362086 original size:7 final size:6
Alignment explanation
Indices: 16362066--16362103 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
16362056 CTAAATAGGC
16362066 AAATAA AAATAA AATATAA AAATACA AAAT-A AAATAA A
1 AAATAA AAATAA AA-ATAA AAATA-A AAATAA AAATAA A
16362104 GTACATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.17
6 13 0.45
7 11 0.38
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:16362086 original size:13 final size:12
Alignment explanation
Indices: 16362066--16362103 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
16362056 CTAAATAGGC
16362066 AAATAAAAATAA
1 AAATAAAAATAA
16362078 AATATAAAAATACA
1 AA-ATAAAAATA-A
16362092 AAAT-AAAATAA
1 AAATAAAAATAA
16362103 A
1 A
16362104 GTACATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 8 0.33
13 11 0.46
14 3 0.12
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:16363365 original size:17 final size:18
Alignment explanation
Indices: 16363331--16363390 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 18
16363321 CAATTTTATT
*
16363331 TTTAT-ATATTAT-AAAA
1 TTTATAATACTATAAAAA
16363347 TTTATAATAC-ATAAAAA
1 TTTATAATACTATAAAAA
16363364 -TTA-AAT-CTATAAAAA
1 TTTATAATACTATAAAAA
*
16363379 TATATAATACTA
1 TTTATAATACTA
16363391 CTATAATGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 1 0.03
15 10 0.28
16 12 0.33
17 10 0.28
18 3 0.08
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTATAATACTATAAAAA
Found at i:16364664 original size:33 final size:32
Alignment explanation
Indices: 16364595--16364673 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 32
16364585 ATCCATCAAA
* *
16364595 TTTTTGAAAATTCTTATTATATCTTTTAATTG
1 TTTTTGAAAATTCTAATTATATCTCTTAATTG
*
16364627 TTTTTGAAAATTCTAATTA-AGTTCTCTTAATTT
1 TTTTTGAAAATTCTAATTATA--TCTCTTAATTG
*
16364660 TTTTTAAAAATTCT
1 TTTTTGAAAATTCT
16364674 CTTTACTCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
31 1 0.02
32 18 0.44
33 22 0.54
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (32 bp):
TTTTTGAAAATTCTAATTATATCTCTTAATTG
Found at i:16367081 original size:3 final size:3
Alignment explanation
Indices: 16367073--16367120 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
16367063 TATTTTAATG
16367073 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16367121 ATGCATATTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16367332 original size:3 final size:3
Alignment explanation
Indices: 16367324--16367380 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
16367314 TTAATTTAAC
16367324 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
16367373 TTG TTA TT
1 TTA TTA TT
16367381 TCGAATATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16371359 original size:19 final size:18
Alignment explanation
Indices: 16371323--16371361 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
16371313 ACTTTTTTGT
16371323 ATTCATTGCATCCATTGC
1 ATTCATTGCATCCATTGC
16371341 ATTCA-TGCATCAACATTGC
1 ATTCATTGCATC--CATTGC
16371360 AT
1 AT
16371362 CATACGCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 8 0.42
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (18 bp):
ATTCATTGCATCCATTGC
Found at i:16374601 original size:16 final size:16
Alignment explanation
Indices: 16374580--16374616 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
16374570 ACTTGAGAAG
16374580 AAGCAAGAGAGAAGGA
1 AAGCAAGAGAGAAGGA
*
16374596 AAGCAAGAGAGAGGGA
1 AAGCAAGAGAGAAGGA
16374612 AAGCA
1 AAGCA
16374617 CGATTGAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.08, G:0.38, T:0.00
Consensus pattern (16 bp):
AAGCAAGAGAGAAGGA
Found at i:16379516 original size:87 final size:85
Alignment explanation
Indices: 16379407--16380042 Score: 686
Period size: 87 Copynumber: 7.3 Consensus size: 85
16379397 GAACTCACAA
** *
16379407 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTCACAGATCTTGTCTCCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTC-CAGATCTTAACCCCCTAAGCAGTAG
* * *
16379472 TGGAGCAAATCAAAGACGAAGG
65 -GGAACAAATCGAAGATGAAGG
* * *
16379494 GCCTT-AACACCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAATCTCCTAAGCAGTA
1 GCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCTAAA-TTCCAGATCTTAACCCCCTAAGCAGTA
*
16379558 GGGAA-ATAGATCGAAGATGATGG
64 GGGAACA-A-ATCGAAGATGAAGG
* * * * * *
16379581 GCCCTAACCCCCTAAGCAATAGGGTAACAGGTTGAATTTCTAGATCTTAACCCCCTAAGCAGTAA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AAATTCCAGATCTTAACCCCCTAAGCAGT-A
* * **
16379646 GGAAACAGATCGAAGGCGAAGG
64 GGGAACAAATCGAAGATGAAGG
* * *
16379668 GCCTTAAACCCCTAAGCGGTAGGGTAACAAGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTAT
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AAATTCCAGATCTTAACCCCCTAAGCAGTA-
*
16379733 GGAAACAAATCGAAGATGAAGG
64 GGGAACAAATCGAAGATGAAGG
* * **
16379755 GCCTTAAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTTTAGATCTTAACCCCCTAAGCAGTAA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AAATTCCAGATCTTAACCCCCTAAGCAGT-A
* * *
16379820 GGAAACAGATCGAAGATGACGG
64 GGGAACAAATCGAAGATGAAGG
* * *
16379842 GCCTTAAACCCCTAAGCGGTAGGGTAACAAGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AAATTCCAGATCTTAACCCCCTAAGCAGTAG
* *
16379907 GGAAACAGATCGAAGGTGAAGG
65 GG-AACAAATCGAAGATGAAGG
* * *
16379929 GCCTTAAACCCCTAAGCAGTAAGGTAACAGGCTAAATTTACAGA--TTAGATCTCCCTAAGCAGT
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAA-TTCCAGATCTTA-A-CCCCCTAAGCAGT
* * *
16379992 AGTGGACCATATCGAAGACGAAGG
63 AG-GGAACAAATCGAAGATGAAGG
* *
16380016 GCCTTGAACCCCTATGCAGTAGGGTAA
1 GCCTTAAACCCCTAAGCAGTAGGGTAA
16380043 TAGGTCAGAA
Statistics
Matches: 472, Mismatches: 62, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
85 4 0.01
86 14 0.03
87 439 0.93
88 14 0.03
89 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (85 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTCCAGATCTTAACCCCCTAAGCAGTAGG
GAACAAATCGAAGATGAAGG
Found at i:16379640 original size:43 final size:43
Alignment explanation
Indices: 16379496--16379914 Score: 212
Period size: 43 Copynumber: 9.7 Consensus size: 43
16379486 GACGAAGGGC
* * * *
16379496 CTTAACACCCTAAGCAGTAGGGTAACAGGCTAAATTT-ACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTCA-AGAT
* * * * * ** * * **
16379539 CTTAATCTCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTCA-AGAT
* * * *
16379583 CCTAACCCCCTAAGCAATAGGGTAACAGGTTGAATTTCTAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTCAAGAT
* * * ** **
16379626 CTTAACCCCCTAAGCAGTAAGGAAACAGATCGAA-GGCGAAGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTC-AA-GAT
* * * * * *
16379670 CTTAAACCCCTAAGCGGTAGGGTAACAAGCTGAATTTCCAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTCAAGAT
* ** * ** * **
16379713 CTTAACCCCCTAAGCAGTATGGAAACAAATCGAAGATGAAGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTCAA-GAT
* * * * **
16379757 CTTAAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTTTAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTCAAGAT
* * * ** * * **
16379800 CTTAACCCCCTAAGCAGTAAGGAAACAGATCGAAGATGACGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTCA-AGAT
* * * * * *
16379844 CTTAAACCCCTAAGCGGTAGGGTAACAAGCTGAATTTCCAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTCAAGAT
16379887 CTTAACCCCCTAAGCAGTAGGGAAACAG
1 CTTAACCCCCTAAGCAGTAGGGAAACAG
16379915 ATCGAAGGTG
Statistics
Matches: 256, Mismatches: 114, Indels: 12
0.67 0.30 0.03
Matches are distributed among these distances:
42 1 0.00
43 140 0.55
44 114 0.45
45 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTCAAGAT
Found at i:16379684 original size:44 final size:44
Alignment explanation
Indices: 16379547--16379958 Score: 262
Period size: 44 Copynumber: 9.5 Consensus size: 44
16379537 ATCTTAATCT
* * * * *
16379547 CCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCCCTAACCC
1 CCTAAGCAGTAGGGAAACAGATCGAAGTTGAAGGGCCTTAAACC
* * * * * ** ** *
16379591 CCTAAGCAATAGGGTAACAGGTTGAATTTCTA-GATCTTAACCC
1 CCTAAGCAGTAGGGAAACAGATCGAAGTTGAAGGGCCTTAAACC
* **
16379634 CCTAAGCAGTAAGGAAACAGATCGAAGGCGAAGGGCCTTAAACC
1 CCTAAGCAGTAGGGAAACAGATCGAAGTTGAAGGGCCTTAAACC
* * * * ** ** *
16379678 CCTAAGCGGTAGGGTAACA-AGCTGAATTTCCA-GATCTTAACCC
1 CCTAAGCAGTAGGGAAACAGATC-GAAGTTGAAGGGCCTTAAACC
* * *
16379721 CCTAAGCAGTATGGAAACAAATCGAAGATGAAGGGCCTTAAACC
1 CCTAAGCAGTAGGGAAACAGATCGAAGTTGAAGGGCCTTAAACC
* * * * ** ** *
16379765 CTTAAGCAGTAGGGTAACAG-GCTGAATTTTTA-GATCTTAACCC
1 CCTAAGCAGTAGGGAAACAGATC-GAAGTTGAAGGGCCTTAAACC
* * *
16379808 CCTAAGCAGTAAGGAAACAGATCGAAGATGACGGGCCTTAAACC
1 CCTAAGCAGTAGGGAAACAGATCGAAGTTGAAGGGCCTTAAACC
* * * * ** ** *
16379852 CCTAAGCGGTAGGGTAACA-AGCTGAATTTCCA-GATCTTAACCC
1 CCTAAGCAGTAGGGAAACAGATC-GAAGTTGAAGGGCCTTAAACC
*
16379895 CCTAAGCAGTAGGGAAACAGATCGAAGGTGAAGGGCCTTAAACC
1 CCTAAGCAGTAGGGAAACAGATCGAAGTTGAAGGGCCTTAAACC
* *
16379939 CCTAAGCAGTAAGGTAACAG
1 CCTAAGCAGTAGGGAAACAG
16379959 GCTAAATTTA
Statistics
Matches: 261, Mismatches: 97, Indels: 20
0.69 0.26 0.05
Matches are distributed among these distances:
43 123 0.47
44 138 0.53
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (44 bp):
CCTAAGCAGTAGGGAAACAGATCGAAGTTGAAGGGCCTTAAACC
Found at i:16379714 original size:174 final size:174
Alignment explanation
Indices: 16379407--16380042 Score: 818
Period size: 174 Copynumber: 3.7 Consensus size: 174
16379397 GAACTCACAA
* * ** *
16379407 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AAATTCACAGATCTTGTCTCCCTAAGCAGTA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTC-TAGATCTTAACCCCCTAAGCAGTA
* * * * * * *
16379471 GTGGAGCAAATCAAAGACGAAGGGCCTT-AACACCCTAAGCAGTAGGGTAACAGGCTAAATTTAC
65 GTGAAACAGATCGAAGACGAAGGGCCTTAAAC-CCCTAAGCAGTAGGGTAACAAGCTGAATTTCC
* * * *
16379535 AGATCTTAATCTCCTAAGCAGTAGGGAAATAGATCGAAGATGATGG
129 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGG
* * * *
16379581 GCCCTAACCCCCTAAGCAATAGGGTAACAGGTTGAATTTCTAGATCTTAACCCCCTAAGCAGTAA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCTAGATCTTAACCCCCTAAGCAGT-A
* *
16379646 G-GAAACAGATCGAAGGCGAAGGGCCTTAAACCCCTAAGCGGTAGGGTAACAAGCTGAATTTCCA
65 GTGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTCCA
* *
16379710 GATCTTAACCCCCTAAGCAGTATGGAAACAAATCGAAGATGAAGG
130 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGG
* *
16379755 GCCTTAAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTTTAGATCTTAACCCCCTAAGCAGTAA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCTAGATCTTAACCCCCTAAGCAGT-A
* * *
16379820 G-GAAACAGATCGAAGATGACGGGCCTTAAACCCCTAAGCGGTAGGGTAACAAGCTGAATTTCCA
65 GTGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTCCA
*
16379884 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGAAGG
130 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGG
* * *
16379929 GCCTTAAACCCCTAAGCAGTAAGGTAACAGGCTAAATTTAC-AGA--TTAGATCTCCCTAAGCAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTT-CTAGATCTTA-A-CCCCCTAAGCAG
* * * * *
16379991 TAGTGGACCATATCGAAGACGAAGGGCCTTGAACCCCTATGCAGTAGGGTAA
63 TAGTGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAA
16380043 TAGGTCAGAA
Statistics
Matches: 406, Mismatches: 49, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
172 3 0.01
173 3 0.01
174 390 0.96
175 10 0.02
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (174 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCTAGATCTTAACCCCCTAAGCAGTAG
TGAAACAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTCCAG
ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGG
Found at i:16379880 original size:261 final size:259
Alignment explanation
Indices: 16379407--16380042 Score: 882
Period size: 261 Copynumber: 2.4 Consensus size: 259
16379397 GAACTCACAA
* **
16379407 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTCACAGATCTTGTCTCCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAATTTC-CAGATCTTAACTCCCTAAGCAGTAG
* *
16379472 TGGAGCAAATCAAAGACGAAGGGCCTTAACACCCTAAGCAGTAGGGTAACAGGCTAAATTTACAG
65 TGGAACAAATCGAAGACGAAGGGCCTTAA-ACCCTAAGCAGTAGGGTAACAGGCTAAATTTACAG
* * * * * *
16379537 ATCTTAATCTCCTAAGCAGTAGGGAAATAGATCGAAGATGATGGGCCCTAACCCCCTAAGCAATA
129 ATCTTAACCCCCTAAGCAGTAAGGAAACAGATCGAAGATGACGGGCCCTAAACCCCTAAGCAATA
* * *
16379602 GGGTAACAGGTTGAATTTCTAGATCTTAACCCCCTAAGCAGTAAGGAAACAGATCGAAGGCGAAG
194 GGGTAACAAGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTAAGGAAACAGATCGAAGGCGAAG
16379667 G
259 G
* * *
16379668 GCCTTAAACCCCTAAGCGGTAGGGTAACAAGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTA-
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AATTTCCAGATCTTAACTCCCTAAGCAGTAG
* * **
16379732 TGGAAACAAATCGAAGATGAAGGGCCTTAAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTTTA
65 TGG-AACAAATCGAAGACGAAGGGCCTTAAACCC-TAAGCAGTAGGGTAACAGGCTAAATTTACA
* **
16379797 GATCTTAACCCCCTAAGCAGTAAGGAAACAGATCGAAGATGACGGGCCTTAAACCCCTAAGCGGT
128 GATCTTAACCCCCTAAGCAGTAAGGAAACAGATCGAAGATGACGGGCCCTAAACCCCTAAGCAAT
* *
16379862 AGGGTAACAAGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGAA
193 AGGGTAACAAGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTAAGGAAACAGATCGAAGGCGAA
16379927 GG
258 GG
* *
16379929 GCCTTAAACCCCTAAGCAGTAAGGTAACAGGCTAAATTTACAGA--TTAGATCTCCCTAAGCAGT
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-AATTTCCAGATCTTA-A-CTCCCTAAGCAGT
* * * *
16379992 AGTGGACCATATCGAAGACGAAGGGCCTTGAACCCCTATGCAGTAGGGTAA
63 AGTGGAACAAATCGAAGACGAAGGGCCTT-AAACCCTAAGCAGTAGGGTAA
16380043 TAGGTCAGAA
Statistics
Matches: 331, Mismatches: 37, Indels: 14
0.87 0.10 0.04
Matches are distributed among these distances:
259 3 0.01
260 8 0.02
261 307 0.93
262 13 0.04
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (259 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAATTTCCAGATCTTAACTCCCTAAGCAGTAGT
GGAACAAATCGAAGACGAAGGGCCTTAAACCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
CTTAACCCCCTAAGCAGTAAGGAAACAGATCGAAGATGACGGGCCCTAAACCCCTAAGCAATAGG
GTAACAAGCTGAATTTCCAGATCTTAACCCCCTAAGCAGTAAGGAAACAGATCGAAGGCGAAGG
Found at i:16382620 original size:26 final size:26
Alignment explanation
Indices: 16382583--16382666 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
16382573 TGATACAAAT
* *
16382583 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
16382609 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
16382635 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
16382661 TGATAA
1 TGATAA
16382667 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:16385826 original size:9 final size:9
Alignment explanation
Indices: 16385799--16385836 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
16385789 AAATAAGTAC
16385799 ATAATATAT
1 ATAATATAT
16385808 ATATATATAT
1 ATA-ATATAT
16385818 ATAATATAT
1 ATAATATAT
*
16385827 ACAATATAT
1 ATAATATAT
16385836 A
1 A
16385837 CCTATATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (9 bp):
ATAATATAT
Found at i:16386059 original size:22 final size:20
Alignment explanation
Indices: 16386034--16386078 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
16386024 TGTACGTAAT
16386034 ATACATAAATATATATATATAC
1 ATACAT-AATATA-ATATATAC
*
16386056 ATACATAATATAATATTTAC
1 ATACATAATATAATATATAC
16386076 ATA
1 ATA
16386079 ATGTATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 6 0.27
22 6 0.27
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (20 bp):
ATACATAATATAATATATAC
Found at i:16386152 original size:19 final size:20
Alignment explanation
Indices: 16386118--16386156 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
16386108 AATACTACAT
16386118 AAATATATACGTATATATAAA
1 AAATATATACG-ATATATAAA
16386139 AAATATATAC-ATATATAA
1 AAATATATACGATATATAA
16386157 TATTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
AAATATATACGATATATAAA
Found at i:16386152 original size:27 final size:26
Alignment explanation
Indices: 16386130--16386191 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
16386120 ATATATACGT
16386130 ATATATAAAAAA-TATATACATATATA
1 ATAT-TAAAAAAGTATATACATATATA
16386156 ATATTAAAAAATGTATATACATA-ATA
1 ATATTAAAAAA-GTATATACATATATA
*
16386182 TATATGAAAA
1 -ATATTAAAA
16386192 CATAATATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
25 7 0.22
26 7 0.22
27 18 0.56
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (26 bp):
ATATTAAAAAAGTATATACATATATA
Found at i:16386191 original size:25 final size:23
Alignment explanation
Indices: 16386129--16386200 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 23
16386119 AATATATACG
16386129 TATATATAAAAAATATATACATA
1 TATATATAAAAAATATATACATA
16386152 TATAATATTAAAAAATGTATATACATAA
1 TAT-ATA-TAAAAAA--TATATACAT-A
*
16386180 TATATATGAAAACATAATATA
1 TATATAT-AAAAAAT-ATATA
16386201 GTATTAGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
23 3 0.07
24 3 0.07
25 8 0.20
26 6 0.15
27 17 0.41
28 4 0.10
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (23 bp):
TATATATAAAAAATATATACATA
Found at i:16386295 original size:82 final size:80
Alignment explanation
Indices: 16386141--16386303 Score: 184
Period size: 82 Copynumber: 2.0 Consensus size: 80
16386131 TATATAAAAA
* * * *
16386141 ATATATACATATATAATATTAAAAAATGTATATACATAATATATATGAAAACATAATATAGTATT
1 ATATATAAAGATATAATATTAAAAAATGTATATACATAATAAAAATGAAAACATAATATAGTATT
16386206 AGAAATATATACATGGC
66 --AAATATATACATGGC
* * *
16386223 ATATATAAAGATATAATATTAAAAGATATGTATATATATAAATAAAAATGTATACATAATA-AGG
1 ATATATAAAGATATAATATTAAAA-A-ATGTATATACAT-AATAAAAATGAAAACATAATATA-G
*
16386287 TATTAATATATTTACAT
62 TATTAA-ATATATACAT
16386304 AGTTTATACA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
82 22 0.32
83 3 0.04
84 21 0.31
85 22 0.32
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (80 bp):
ATATATAAAGATATAATATTAAAAAATGTATATACATAATAAAAATGAAAACATAATATAGTATT
AAATATATACATGGC
Found at i:16386405 original size:16 final size:19
Alignment explanation
Indices: 16386371--16386406 Score: 51
Period size: 16 Copynumber: 2.1 Consensus size: 19
16386361 ATAAGTATAC
16386371 ACATATATATATATATAAA
1 ACATATATATATATATAAA
16386390 ACATA-ATAT-TAT-TAAA
1 ACATATATATATATATAAA
16386406 A
1 A
16386407 ATACGTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.29
17 3 0.18
18 4 0.24
19 5 0.29
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
ACATATATATATATATAAA
Found at i:16386517 original size:15 final size:15
Alignment explanation
Indices: 16386494--16386523 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16386484 AACACAATAT
*
16386494 ATATGGTATTAAAAA
1 ATATAGTATTAAAAA
16386509 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
16386524 CATAAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:16386641 original size:3 final size:3
Alignment explanation
Indices: 16386629--16386751 Score: 130
Period size: 3 Copynumber: 41.0 Consensus size: 3
16386619 TATACTAACG
*
16386629 ATA A-A ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
16386676 ATA ATA ATA ATA ATA ATA ATA ATA CTA GTGA A-A ATAA ATA AT- CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA ATA
16386721 ATA ATA A-A TATA ATA ATA TATGA A-A ATA ATA
1 ATA ATA ATA -ATA ATA ATA -AT-A ATA ATA ATA
16386752 CTATACATAA
Statistics
Matches: 103, Mismatches: 7, Indels: 20
0.79 0.05 0.15
Matches are distributed among these distances:
2 8 0.08
3 86 0.83
4 8 0.08
5 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:16387005 original size:18 final size:19
Alignment explanation
Indices: 16386961--16387009 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
16386951 TATATGTAAC
*
16386961 TAATAACAT-TAAAATACA
1 TAATAATATATAAAATACA
16386979 TACATAATATATAAAATACA
1 TA-ATAATATATAAAATACA
16386999 T-ATAATATATA
1 TAATAATATATA
16387010 TATTAGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 12 0.43
19 6 0.21
20 10 0.36
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAATATATAAAATACA
Found at i:16387010 original size:20 final size:20
Alignment explanation
Indices: 16386970--16387011 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16386960 CTAATAACAT
*
16386970 TAAAATACATACATAATATA
1 TAAAATACATAAATAATATA
16386990 TAAAATACATATAAT-ATATA
1 TAAAATACATA-AATAATATA
16387010 TA
1 TA
16387012 TTAGAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAATACATAAATAATATA
Found at i:16387102 original size:19 final size:19
Alignment explanation
Indices: 16387078--16387114 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16387068 TATAAATAAT
*
16387078 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
16387097 AATGATATTAGAAATATA
1 AATGATATTAGAAATATA
16387115 TATAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:16387212 original size:24 final size:24
Alignment explanation
Indices: 16387171--16387226 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
16387161 AAACAATAAT
*
16387171 ATATATAACATACAATAT-TGAAAA
1 ATATAT-ACATACAATATACGAAAA
16387195 CATATATACATA-ATATATACGAAAA
1 -ATATATACATACA-ATATACGAAAA
16387220 ATATATA
1 ATATATA
16387227 GATATACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 16 0.57
25 11 0.39
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (24 bp):
ATATATACATACAATATACGAAAA
Found at i:16387251 original size:30 final size:30
Alignment explanation
Indices: 16387198--16387272 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
16387188 TTGAAAACAT
*
16387198 ATATACATAATATATACGAAAAATATATAG
1 ATATACATAATATATACGAAAAATATATAC
** *
16387228 ATATACATAATATAATA-TTAAAATATTTAC
1 ATATACATAATAT-ATACGAAAAATATATAC
16387258 ATAATACATAA-ATAT
1 AT-ATACATAATATAT
16387273 TAGGAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 2 0.05
30 26 0.67
31 11 0.28
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.35
Consensus pattern (30 bp):
ATATACATAATATATACGAAAAATATATAC
Found at i:16389251 original size:27 final size:30
Alignment explanation
Indices: 16389189--16389262 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 30
16389179 ATTAAAATAA
*
16389189 TTTCATATAGTTATTATATTATATACCTTCTTT
1 TTTCATAT--TTATT-TATTATATACCTTCTAT
16389222 TTTCATATTTATTTATT-TATA-CTTC-AT
1 TTTCATATTTATTTATTATATACCTTCTAT
*
16389249 TTTCA-ATTAATTTA
1 TTTCATATTTATTTA
16389263 ACTTATTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 8 0.21
27 6 0.15
28 4 0.10
29 4 0.10
30 4 0.10
31 5 0.13
33 8 0.21
ACGTcount: A:0.28, C:0.11, G:0.01, T:0.59
Consensus pattern (30 bp):
TTTCATATTTATTTATTATATACCTTCTAT
Found at i:16389273 original size:3 final size:3
Alignment explanation
Indices: 16389265--16389313 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
16389255 TTAATTTAAC
*
16389265 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
16389311 TTA
1 TTA
16389314 CAAATATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16391361 original size:17 final size:19
Alignment explanation
Indices: 16391336--16391372 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
16391326 ATTTTAGATG
16391336 AGTTCAAAA-CTA-AAAAA
1 AGTTCAAAACCTATAAAAA
*
16391353 AGTTTAAAACCTATAAAAA
1 AGTTCAAAACCTATAAAAA
16391372 A
1 A
16391373 TGTTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 3 0.18
19 6 0.35
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (19 bp):
AGTTCAAAACCTATAAAAA
Found at i:16392383 original size:49 final size:49
Alignment explanation
Indices: 16392329--16392422 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
16392319 TTAAATATAT
16392329 ATAAATTAATAAAAA-ATAATATATAAATATATAAAAGAACTAAAATTTC
1 ATAAATTAATAAAAATAT-ATATATAAATATATAAAAGAACTAAAATTTC
* *
16392378 ATAAATTTATAAAAATATATATATAAATATTTAAAAGAACTAAAA
1 ATAAATTAATAAAAATATATATATAAATATATAAAAGAACTAAAA
16392423 AAAACATGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
49 40 0.95
50 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (49 bp):
ATAAATTAATAAAAATATATATATAAATATATAAAAGAACTAAAATTTC
Found at i:16392540 original size:27 final size:28
Alignment explanation
Indices: 16392492--16392550 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
16392482 TGTAAAAATC
* **
16392492 TTTTATAAATTTTTTATTAATTTATATA
1 TTTTATAAATTTATTAAAAATTTATATA
*
16392520 TTTTA-AAATTTATTAAAAATTTATTTA
1 TTTTATAAATTTATTAAAAATTTATATA
16392547 TTTT
1 TTTT
16392551 TAATTTCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTATAAATTTATTAAAAATTTATATA
Found at i:16396432 original size:4 final size:4
Alignment explanation
Indices: 16396423--16396476 Score: 63
Period size: 4 Copynumber: 13.5 Consensus size: 4
16396413 GGTTTTTACC
* * * * *
16396423 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAT TAAT TAAT TAAT TAAT
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
16396471 TAAA TA
1 TAAA TA
16396477 GGTTGTTAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (4 bp):
TAAA
Found at i:16396651 original size:26 final size:24
Alignment explanation
Indices: 16396610--16396679 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
16396600 TTATAAATTT
16396610 AAATATTTTTAATA-AAAATAAAATAA
1 AAATA-TTTTAATATAAAA-AAAA-AA
* * *
16396636 TAATATTTT-ATTTAAAAAACAAA
1 AAATATTTTAATATAAAAAAAAAA
16396659 AAATATTTTAATATAAAAAAA
1 AAATATTTTAATATAAAAAAA
16396680 GGTGTTGCGC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
23 10 0.28
24 14 0.39
25 8 0.22
26 4 0.11
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATATTTTAATATAAAAAAAAAA
Found at i:16400204 original size:18 final size:18
Alignment explanation
Indices: 16400178--16400228 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
16400168 TTTTTTAAAT
*
16400178 TATTAAAATTATAAAAAA
1 TATTTAAATTATAAAAAA
**
16400196 TATTTAAA-TATCATTAAA
1 TATTTAAATTAT-AAAAAA
16400214 TATTATAAATTATAA
1 TATT-TAAATTATAA
16400229 TTAAAATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 3 0.12
18 15 0.58
19 5 0.19
20 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TATTTAAATTATAAAAAA
Found at i:16400859 original size:10 final size:10
Alignment explanation
Indices: 16400827--16400881 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
16400817 AGGTGTAGCA
16400827 ATTTT-TAAT
1 ATTTTATAAT
16400836 -TTTTAT-AT
1 ATTTTATAAT
16400844 -TTTTATAAT
1 ATTTTATAAT
16400853 ATTTTATTAA-
1 ATTTTA-TAAT
16400863 ATTTTAT-AT
1 ATTTTATAAT
16400872 AATTTTATAA
1 -ATTTTATAA
16400882 AAAAATTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
8 13 0.33
9 4 0.10
10 18 0.46
11 4 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTATAAT
Found at i:16400988 original size:17 final size:18
Alignment explanation
Indices: 16400968--16401008 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
16400958 AATTTATACT
16400968 TTTTTTAAAATTAGAA-A
1 TTTTTTAAAATTAGAATA
* *
16400985 TTTTTT-GAATTATAATA
1 TTTTTTAAAATTAGAATA
16401002 TTTTTTA
1 TTTTTTA
16401009 CTTAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTTTAAAATTAGAATA
Found at i:16403985 original size:2 final size:2
Alignment explanation
Indices: 16403978--16404008 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16403968 CATAAATGTG
16403978 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16404009 TTACTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16404996 original size:5 final size:6
Alignment explanation
Indices: 16404978--16405031 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
16404968 TAACAAGAAG
* * * *
16404978 AATAAA AATAAA AATAAA AGATAAA AATAAA GACAAA TATAAA CATAAA
1 AATAAA AATAAA AATAAA A-ATAAA AATAAA AATAAA AATAAA AATAAA
16405027 AATAA
1 AATAA
16405032 TCGGACTCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:16410450 original size:25 final size:25
Alignment explanation
Indices: 16410422--16410491 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
16410412 CTCTTTTAAT
*
16410422 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
16410447 AACTGGGGCAAAGCCCTTTCCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
16410472 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
16410492 AGCACCTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:16411362 original size:26 final size:27
Alignment explanation
Indices: 16411303--16411377 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
16411293 TCATATTCGT
16411303 CATTTTACCATACAGGGGTATTACGGC
1 CATTTTACCATACAGGGGTATTACGGC
* * * *
16411330 CACTTTACCCTACAGGGG-CTTACGGT
1 CATTTTACCATACAGGGGTATTACGGC
* *
16411356 CTTTTTACC-TATTAGGGGTATT
1 CATTTTACCATA-CAGGGGTATT
16411378 TTAGTCATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 2 0.05
26 18 0.47
27 18 0.47
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (27 bp):
CATTTTACCATACAGGGGTATTACGGC
Found at i:16411448 original size:27 final size:26
Alignment explanation
Indices: 16411422--16411551 Score: 109
Period size: 27 Copynumber: 4.8 Consensus size: 26
16411412 ATCTACAAAC
*
16411422 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTT-TAAAT
*
16411449 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTT--AAA-T
*
16411478 CAAGGGTATTTCTGTAATTTTTTAAAT
1 CAAGGGTATTTCAGTAA-TTTTTAAAT
* ** *
16411505 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTT-TAAAT
**
16411532 TGAGGGTATTTCAGTAATTT
1 CAAGGGTATTTCAGTAATTT
16411552 CACAAACCAG
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
26 5 0.06
27 52 0.63
28 7 0.08
29 14 0.17
30 5 0.06
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (26 bp):
CAAGGGTATTTCAGTAATTTTTAAAT
Found at i:16411566 original size:27 final size:27
Alignment explanation
Indices: 16411416--16411596 Score: 87
Period size: 27 Copynumber: 6.6 Consensus size: 27
16411406 TGGTAAATCT
* *
16411416 ACAAACCAAGGGTATTTCAGTAATTTT
1 ACAAACCAGGGGTATTTCAGTAATTTC
** ** *
16411443 GTAAACCAATGGTATTTCTA-TAATTTTT
1 ACAAACCAGGGGTATTTC-AGTAA-TTTC
* * * * *
16411471 AGAAAGTCAAGGGTATTTCTGTAATTTT
1 ACAAA-CCAGGGGTATTTCAGTAATTTC
** * ** *
16411499 TTAAATCAGGGGTATTTTGGTAATTTT
1 ACAAACCAGGGGTATTTCAGTAATTTC
**
16411526 ACAAA-TTGAGGGTATTTCAGTAATTTC
1 ACAAACCAG-GGGTATTTCAGTAATTTC
* ** *
16411553 ACAAACCAGTGGTATTTTGGTAATTTT
1 ACAAACCAGGGGTATTTCAGTAATTTC
*
16411580 ACAAACTAGGGGTATTT
1 ACAAACCAGGGGTATTT
16411597 TGGTAATTCT
Statistics
Matches: 120, Mismatches: 28, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
26 1 0.01
27 89 0.74
28 16 0.13
29 14 0.12
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
ACAAACCAGGGGTATTTCAGTAATTTC
Found at i:16411593 original size:54 final size:54
Alignment explanation
Indices: 16411398--16411596 Score: 202
Period size: 54 Copynumber: 3.6 Consensus size: 54
16411388 CATCCTACAA
* * * * * *
16411398 TGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAA
1 TGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACCAG
* * * * * *
16411452 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTTTAAATCAG
1 TGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCAGTAATTTTATAAACCAG
* * * * *
16411508 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAG
1 TGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACCAG
*
16411562 TGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 TGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
16411597 TGGTAATTCT
Statistics
Matches: 116, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
54 64 0.55
55 17 0.15
56 35 0.30
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (54 bp):
TGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACCAG
Done.