Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold19
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: 2266706
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17655 characters in sequence are not A, C, G, or T
File 10 of 15
Found at i:1330768 original size:57 final size:59
Alignment explanation
Indices: 1330680--1330790 Score: 183
Period size: 57 Copynumber: 1.9 Consensus size: 59
1330670 ATTTGCATCG
*
1330680 TATCTCAATTCATGATATATTTTACATAATTTATTATAATAATTTAATTTAAAATATCA
1 TATCTCAATTCATGATATATTTTACATAATTTATTATAATAATTTAATTAAAAATATCA
1330739 TATCTCAATTCATGACT-T-TTTT-CATAATTTATTATAATAATTTAATTAAAAA
1 TATCTCAATTCATGA-TATATTTTACATAATTTATTATAATAATTTAATTAAAAA
1330791 AAATTTATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
57 29 0.58
58 4 0.08
59 16 0.32
60 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (59 bp):
TATCTCAATTCATGATATATTTTACATAATTTATTATAATAATTTAATTAAAAATATCA
Found at i:1331026 original size:16 final size:15
Alignment explanation
Indices: 1331008--1331100 Score: 74
Period size: 14 Copynumber: 6.5 Consensus size: 15
1330998 CTATATAATT
1331008 TTTTATATAATTAAA
1 TTTTATATAATTAAA
*
1331023 TTTTA-AT-TTTAAA
1 TTTTATATAATTAAA
*
1331036 -TTTAT-TTATTAAA
1 TTTTATATAATTAAA
*
1331049 TATTT-T-TAAATAAA
1 T-TTTATATAATTAAA
1331063 TTTTAT-TAATTATAA
1 TTTTATATAATTA-AA
*
1331078 TTTTATTTAATTAAAA
1 TTTTATATAATT-AAA
1331094 TTTTATA
1 TTTTATA
1331101 AATATCAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.08
13 13 0.20
14 16 0.25
15 16 0.25
16 13 0.20
17 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTATATAATTAAA
Found at i:1331580 original size:32 final size:35
Alignment explanation
Indices: 1331521--1331585 Score: 100
Period size: 32 Copynumber: 1.9 Consensus size: 35
1331511 TTAAAAAATT
1331521 ATATTTAATAAATTTAACTTTAAATCTCAATTTTA
1 ATATTTAATAAATTTAACTTTAAATCTCAATTTTA
*
1331556 ATATTT-AT-AATTTTA-TTTAAATCTCAATTT
1 ATATTTAATAAATTTAACTTTAAATCTCAATTT
1331586 ACTATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.52
33 6 0.21
34 2 0.07
35 6 0.21
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (35 bp):
ATATTTAATAAATTTAACTTTAAATCTCAATTTTA
Found at i:1331772 original size:52 final size:52
Alignment explanation
Indices: 1331668--1331772 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
1331658 ACCCACTTGT
* * * *
1331668 TTAATGTATCTAGATGGATTACTGACCAAGAGAGCATGGGATATGGTAAAAA
1 TTAATGTATCTAGATGAAATACTGACCAAGAGAGCATGGGACATAGTAAAAA
* *
1331720 TTAATGTATCTGGATGAAATACTGACCAAGAGAGCATGGGACATAGTGAAAA
1 TTAATGTATCTAGATGAAATACTGACCAAGAGAGCATGGGACATAGTAAAAA
1331772 T
1 T
1331773 CATGTATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (52 bp):
TTAATGTATCTAGATGAAATACTGACCAAGAGAGCATGGGACATAGTAAAAA
Found at i:1335369 original size:32 final size:30
Alignment explanation
Indices: 1335289--1335386 Score: 110
Period size: 32 Copynumber: 3.2 Consensus size: 30
1335279 AAGTTAAATG
*
1335289 TAGTCTTTATACTTATAG-CATAATGTGAATT
1 TAGTC-TTATACTTAT-GTCAAAATGTGAATT
1335320 TAGTCTTATA-TTAATGTCAAAATGTGAATT
1 TAGTCTTATACTT-ATGTCAAAATGTGAATT
* *
1335350 TATGTCCTTATACTTATGTCAAACTGTGGATT
1 TA-GT-CTTATACTTATGTCAAAATGTGAATT
1335382 TAGTC
1 TAGTC
1335387 ACTATAATTT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
29 3 0.05
30 22 0.37
31 9 0.15
32 23 0.39
33 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (30 bp):
TAGTCTTATACTTATGTCAAAATGTGAATT
Found at i:1336726 original size:26 final size:26
Alignment explanation
Indices: 1336697--1336750 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1336687 AGTTTAAATT
*
1336697 AATTATATTA-AATAATAAATTAATAA
1 AATTAT-TTATAAAAATAAATTAATAA
**
1336723 AATTATTTATAAAAATATTTTAATAA
1 AATTATTTATAAAAATAAATTAATAA
1336749 AA
1 AA
1336751 ATTAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
AATTATTTATAAAAATAAATTAATAA
Found at i:1336726 original size:30 final size:30
Alignment explanation
Indices: 1336692--1336762 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 30
1336682 ATATCAGTTT
1336692 AAATTAATTATATTAAATAATAAATTAAT-A
1 AAATTAATTATATTAAA-AATAAATTAATAA
**
1336722 AAATT-ATT-TA-TAAAAATATTTTAATAA
1 AAATTAATTATATTAAAAATAAATTAATAA
1336749 AAATTAATATATAT
1 AAATTAAT-TATAT
1336763 ATATATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 9 0.26
27 10 0.29
28 4 0.12
29 4 0.12
30 7 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
AAATTAATTATATTAAAAATAAATTAATAA
Found at i:1336773 original size:34 final size:36
Alignment explanation
Indices: 1336707--1336783 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 36
1336697 AATTATATTA
*
1336707 AATAATAAATTAATAAAATTATTTATAAAAATATTTT
1 AATAA-AAATTAATAAAATTATATATAAAAATATTTT
* *
1336744 AATAAAAATTAAT-ATA-TATATATATAAATATTTT
1 AATAAAAATTAATAAAATTATATATAAAAATATTTT
*
1336778 TATAAA
1 AATAAA
1336784 TTATATTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 21 0.58
35 2 0.06
36 8 0.22
37 5 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (36 bp):
AATAAAAATTAATAAAATTATATATAAAAATATTTT
Found at i:1336882 original size:36 final size:38
Alignment explanation
Indices: 1336831--1336924 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 38
1336821 AATATTCCTT
1336831 AATATAT-AAAT-ATATTTTACAT-AAGATACTTA-TA
1 AATATATAAAATAATATTTTACATAAAGATACTTATTA
* ** * *
1336865 TATATATAAAATAATATTAAATATAAAGATATTTATTA
1 AATATATAAAATAATATTTTACATAAAGATACTTATTA
1336903 AATATATAAAAATAATAATTTT
1 AATATAT-AAAATAAT-ATTTT
1336925 TTAATTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
34 6 0.13
35 4 0.09
36 8 0.17
37 9 0.20
38 8 0.17
39 8 0.17
40 3 0.07
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (38 bp):
AATATATAAAATAATATTTTACATAAAGATACTTATTA
Found at i:1336888 original size:19 final size:19
Alignment explanation
Indices: 1336866--1336919 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
1336856 ATACTTATAT
1336866 ATATATAAAATAATATTAA
1 ATATATAAAATAATATTAA
* *
1336885 ATATA-AAGATATTTATTAA
1 ATATATAAAATA-ATATTAA
1336904 ATATATAAAAATAATA
1 ATATAT-AAAATAATA
1336920 ATTTTTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 5 0.18
19 16 0.57
20 2 0.07
21 5 0.18
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
ATATATAAAATAATATTAA
Found at i:1336909 original size:21 final size:20
Alignment explanation
Indices: 1336853--1336912 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 20
1336843 TATTTTACAT
*
1336853 AAGATACTTA-TATATATATA
1 AAGATA-TTATTAAATATATA
*
1336873 AA-ATAATATT-AA-ATATA
1 AAGATATTATTAAATATATA
1336890 AAGATATTTATTAAATATATA
1 AAGATA-TTATTAAATATATA
1336911 AA
1 AA
1336913 AATAATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
17 7 0.22
18 6 0.19
19 8 0.25
20 4 0.12
21 7 0.22
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (20 bp):
AAGATATTATTAAATATATA
Found at i:1338064 original size:2 final size:2
Alignment explanation
Indices: 1338057--1338082 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1338047 AAAATCGAAA
1338057 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
1338083 TTTTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:1342514 original size:16 final size:16
Alignment explanation
Indices: 1342495--1342531 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
1342485 CCTGGTATCG
*
1342495 TCATGCCTAGGTGTTA
1 TCATGCCTAGGTATTA
1342511 TCATGCCTAGGTATTA
1 TCATGCCTAGGTATTA
1342527 TCATG
1 TCATG
1342532 ACTACCTTGA
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:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (16 bp):
TCATGCCTAGGTATTA
Found at i:1347353 original size:20 final size:20
Alignment explanation
Indices: 1347307--1347361 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1347297 AAATTCCCAG
**
1347307 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
*
1347327 ATATATCGATACATTGAGT-A
1 ATGTATCGATACATTGA-TCA
1347347 ATGTATCGATACATT
1 ATGTATCGATACATT
1347362 TCCTTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:1347428 original size:13 final size:13
Alignment explanation
Indices: 1347410--1347436 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1347400 ACAACACTTA
1347410 TGTATCGATACAT
1 TGTATCGATACAT
1347423 TGTATCGATACAT
1 TGTATCGATACAT
1347436 T
1 T
1347437 TACTGTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1348317 original size:20 final size:20
Alignment explanation
Indices: 1348292--1348335 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1348282 ACTAGAAAGG
* *
1348292 AAAAAAATAAGGAGAAGACT
1 AAAAAAAAAAAGAGAAGACT
*
1348312 AAAAAAAAAAAGAGAAGATT
1 AAAAAAAAAAAGAGAAGACT
1348332 AAAA
1 AAAA
1348336 TCAACCATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (20 bp):
AAAAAAAAAAAGAGAAGACT
Found at i:1348372 original size:15 final size:15
Alignment explanation
Indices: 1348354--1348384 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1348344 TTTACTAGAG
1348354 TTTCTTTTTTCTCTT
1 TTTCTTTTTTCTCTT
*
1348369 TTTCTTTTTTTTCTT
1 TTTCTTTTTTCTCTT
1348384 T
1 T
1348385 CATTCTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTCTTTTTTCTCTT
Found at i:1356348 original size:24 final size:24
Alignment explanation
Indices: 1356303--1356349 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1356293 ATTTCTACAC
*
1356303 TTTTTATTTTTATTTTTTGTTATG
1 TTTTTATTTTTATTTTTAGTTATG
1356327 TTTTGTATTTTTA-TTTTAGTTAT
1 TTTT-TATTTTTATTTTTAGTTAT
1356350 TTATGTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.77
Consensus pattern (24 bp):
TTTTTATTTTTATTTTTAGTTATG
Found at i:1364507 original size:166 final size:165
Alignment explanation
Indices: 1364281--1364791 Score: 543
Period size: 166 Copynumber: 3.1 Consensus size: 165
1364271 TTTAAACATC
* * * * * * *
1364281 AAAATTCCTCAATTATTATCATTTCA-TTTATATTAAATCAGTTCTCAAAAATTTATTCATTTTC
1 AAAATTCATCAAATATTATTATTT-ATTTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTC
* *
1364345 ATAAATTATGAATTTTTTCCTTGAAATTCTCTTTTTTCTAAAATAAGAAGTTTTATAATTCATAA
65 ATAAATTTTGAATTTTTTCCTTGAAATT-TCTTTTTTC-AAAATAAGAAGTTTTATAATCCATAA
* *
1364410 TTTTTTTC--GAGGAGATTTTTCTTGATTTTTTATTTTT
128 ATTTTTTCGGGAGGAG-TTTTTCTTGATTTTTGATTTTT
* * *
1364447 GAAGTTCTTCAAATATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCA
* * * * * * * * *
1364512 TAAATTTTGAA-TTTTTCTTTGAAATTTTTTTTTTCGAAATACGGATTTTTTTACTCCGTAAATT
66 TAAATTTTGAATTTTTTCCTTGAAATTTCTTTTTTCAAAATAAGAAGTTTTATAATCCATAAATT
*
1364576 TTTTCGGGAGGAGTTTTTCTTGGTTTTTGATTTTT
131 TTTTCGGGAGGAGTTTTTCTTGATTTTTGATTTTT
** * *
1364611 AAAATTCAAAAAATATTATTATTTATTTCATATTAATTTA-TTTTCAAAAATTCATTCATTTCCA
1 AAAATTCATCAAATATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCA
* * * * *
1364675 TGAATTTTGAATTTTTTCCCTTGAAATTTCTTTTCTCGAAATAATCG-AGTTTTCTACTCCATAA
66 TAAATTTTGAATTTTTT-CCTTGAAATTTCTTTTTTCAAAATAA--GAAGTTTTATAATCCATAA
** * ***
1364739 ATTTTTTTAGG-GGAGTTTTTCTCGATTTAAAATTTTT
128 ATTTTTTCGGGAGGAGTTTTTCTTGATTTTTGATTTTT
*
1364776 -AAATTCATCTAATATT
1 AAAATTCATCAAATATT
1364792 GTAATTGAAC
Statistics
Matches: 290, Mismatches: 48, Indels: 16
0.82 0.14 0.05
Matches are distributed among these distances:
163 58 0.20
164 80 0.28
165 64 0.22
166 87 0.30
167 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.52
Consensus pattern (165 bp):
AAAATTCATCAAATATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCA
TAAATTTTGAATTTTTTCCTTGAAATTTCTTTTTTCAAAATAAGAAGTTTTATAATCCATAAATT
TTTTCGGGAGGAGTTTTTCTTGATTTTTGATTTTT
Found at i:1364776 original size:165 final size:162
Alignment explanation
Indices: 1364294--1364782 Score: 538
Period size: 164 Copynumber: 3.0 Consensus size: 162
1364284 ATTCCTCAAT
* * * * * *
1364294 TATTATCATTTCATTTATATTAAATCAGTTCTCAAAAATTTATTCATTTTCATAAATTATGAATT
1 TATTATTATTT-ATTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATAAATTTTGAATT
* * * * *
1364359 TTTTCCTTGAAATTCTCTTTTTTCTAAAATAA-GAAGTTTTATAATTCAT-AATTTTTTTCGAGG
65 TTTTCCTTGAAATT-TCTTTTTTC-GAAATAACG-AGTTTTATACTCCATAAATTTTTTTAGGGG
* * ***
1364422 AGATTTTTCTTGATTTTTTATTTTTGAAGTTCTTCAAA
127 AG-TTTTTCTTGATTTTTAATTTTT-AAATTCAAAAAA
1364460 TATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATAAATTTTGAA-T
1 TATTATTATTTA-TTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATAAATTTTGAATT
* * * * * **
1364524 TTTTCTTTGAAATTTTTTTTTTCGAAAT-ACGGATTTTTTTACTCCGTAAATTTTTTCGGGAGGA
65 TTTTCCTTGAAATTTCTTTTTTCGAAATAAC-GAGTTTTATACTCCATAAATTTTTTTAGG-GGA
* *
1364588 GTTTTTCTTGGTTTTTGATTTTTAAAATTCAAAAAA
128 GTTTTTCTTGATTTTTAATTTTT-AAATTCAAAAAA
* *
1364624 TATTATTATTTATTTCATATTAATTTA-TTTTCAAAAATTCATTCATTTCCATGAATTTTGAATT
1 TATTATTATTTATTT-ATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATAAATTTTGAATT
* *
1364688 TTTTCCCTTGAAATTTCTTTTCTCGAAATAATCGAGTTTTCTACTCCATAAATTTTTTTAGGGGA
65 TTTT-CCTTGAAATTTCTTTTTTCGAAATAA-CGAGTTTTATACTCCATAAATTTTTTTAGGGGA
* **
1364753 GTTTTTCTCGATTTAAAATTTTTAAATTCA
128 GTTTTTCTTGATTTTTAATTTTTAAATTCA
1364783 TCTAATATTG
Statistics
Matches: 274, Mismatches: 39, Indels: 22
0.82 0.12 0.07
Matches are distributed among these distances:
162 1 0.00
163 50 0.18
164 81 0.30
165 61 0.22
166 80 0.29
167 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.52
Consensus pattern (162 bp):
TATTATTATTTATTTATATTAATTTAGTTTTCAAAAATTCATTCATTTTCATAAATTTTGAATTT
TTTCCTTGAAATTTCTTTTTTCGAAATAACGAGTTTTATACTCCATAAATTTTTTTAGGGGAGTT
TTTCTTGATTTTTAATTTTTAAATTCAAAAAA
Found at i:1365014 original size:14 final size:14
Alignment explanation
Indices: 1364981--1365025 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1364971 GATTTCAGCC
*
1364981 TTTTATTTT-TTAA
1 TTTTATTTTATTTA
*
1364994 ATTTATTTTATTTA
1 TTTTATTTTATTTA
1365008 TTTTATTTTAATTTA
1 TTTTATTTT-ATTTA
1365023 TTT
1 TTT
1365026 AGTCATTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 8 0.30
14 11 0.41
15 8 0.30
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:1365297 original size:52 final size:52
Alignment explanation
Indices: 1365227--1365896 Score: 550
Period size: 52 Copynumber: 12.8 Consensus size: 52
1365217 TTTCTAAGCT
* *
1365227 CAATGTCGTTGGCCTTGAATCAGCACATTGGTACCTTTGTCATCTTTAAGTC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTC
* * * * *
1365279 CAATGTCGCTGGCATTGAATAAGCACGTTGGCACCTTCT-TCTTTTTTAAGTC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TGTCATCTTTAAGTC
* ** *
1365331 TAATGTCGCTAACCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTC
* * * *
1365383 CAATGTCACTAGCATTGAATTAGCACATTGGCACCTTTGTCATCTTTAAGTC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTC
* * * * *
1365435 TAATGTCACTGACCTTGAATCAGCACATTGACACCTTCT-TC-TTTCTTAAGTC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TGTCATCT-TTAAGTC
* * * *
1365487 CAATATCGCTGGCCTTGAATTAGCATAATGGCACCTTTGTCATCTTCTAAG-C
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT-TAAGTC
** * *
1365539 CTAATGTCATTGGCCTTGAATCAGCACATTAGCACCTCTT-TC-TTTCTTAAGTC
1 C-AATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TTGTCATCT-TTAAGTC
* ** * * * *
1365592 TAAAATCACTAGCCTTGAATCAGCATATTGGCACCCTTGTCATCTTTTAAGTC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATC-TTTAAGTC
* * * * * *
1365645 CGATATCCCTGGCCTTGAATCAACATATTGGCACCCTTGTCATCTTTTAAGTC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATC-TTTAAGTC
* * * * * *
1365698 CGATATCGCTGGCCTTGAATCAACATATTGGCATCTTTATCAT-TCTTAAG-C
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCT-TTAAGTC
* * * * *
1365749 CTAATGTCGCTAGCCTTGAATCAGCATATTGGCA-TTATTCTCATCTTCAAGTC
1 C-AATGTCGCTGGCCTTGAATCAGCACATTGGCACCT-TTGTCATCTTTAAGTC
* * * * * * *
1365802 TAATATCGCTGGCCGTGAATCAACACATTGGCATTCTTCG-CATCTTTAAGCC
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTTGTCATCTTTAAGTC
** * * * * * *
1365854 CAACATCGTTGGCCTTAAATCAACATATTGGCAACTTTATCAT
1 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
1365897 ACTTCTTATC
Statistics
Matches: 504, Mismatches: 92, Indels: 44
0.79 0.14 0.07
Matches are distributed among these distances:
51 13 0.03
52 350 0.69
53 137 0.27
54 4 0.01
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (52 bp):
CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTC
Found at i:1365712 original size:158 final size:155
Alignment explanation
Indices: 1365227--1365834 Score: 573
Period size: 158 Copynumber: 3.9 Consensus size: 155
1365217 TTTCTAAGCT
** * * * * * *
1365227 CAATGTCGTTGGCCTTGAATCAGCACATTGGTACCTTTGTCATCTTTAAGTCCAATGTCGCTGGC
1 CAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTATCTTC-TTAAGTCTAATGTCACTAGC
* * ** * * * ** *
1365292 ATTGAATAAGCACGTTGGCACCTTCTTC-TTTTTTAAGTCTAATGTCGCTAACCTTGAATCAGCA
65 CTTGAATCAGCATATTGGCACC-T-TTCATCTTTTAAGTCCAATATCGCTGGCCTTGAATCAACA
1365356 TATTGGCACCTTTGTCATC-TTTAAGTC
128 TATTGGCACCTTTGTCATCTTTTAAGTC
* * * * *
1365383 CAATGTCACTAGCATTGAATTAGCACATTGGCACCTTTGTCATCTTTAAGTCTAATGTCACT-GA
1 CAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTATCTTC-TTAAGTCTAATGTCACTAG-
* * * * *
1365447 CCTTGAATCAGCACATTGACACC-TTCTTCTTTCTTAAGTCCAATATCGCTGGCCTTGAATTAGC
64 CCTTGAATCAGCATATTGGCACCTTTCATC-TT-TTAAGTCCAATATCGCTGGCCTTGAATCAAC
* *
1365511 ATAATGGCACCTTTGTCATCTTCTAAG-C
127 ATATTGGCACCTTTGTCATCTTTTAAGTC
* * **
1365539 CTAATGTCATTGGCCTTGAATCAGCACATTAGCACCTCTT-TCTTTCTTAAGTCTAAAATCACTA
1 C-AATGTCACTGGCCTTGAATCAGCACATTGGCACCT-TTATC-TTCTTAAGTCTAATGTCACTA
* *
1365603 GCCTTGAATCAGCATATTGGCACCCTTGTCATCTTTTAAGTCCGATATCCCTGGCCTTGAATCAA
63 GCCTTGAATCAGCATATTGGCA-CCTT-TCATCTTTTAAGTCCAATATCGCTGGCCTTGAATCAA
*
1365668 CATATTGGCACCCTTGTCATCTTTTAAGTC
126 CATATTGGCACCTTTGTCATCTTTTAAGTC
* * * * * * * *
1365698 CGATATCGCTGGCCTTGAATCAACATATTGGCATCTTTATCATTCTTAAGCCTAATGTCGCTAGC
1 CAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTATC-TTCTTAAGTCTAATGTCACTAGC
** * * *
1365763 CTTGAATCAGCATATTGGCATTATTCTCATC-TTCAAGTCTAATATCGCTGGCCGTGAATCAACA
65 CTTGAATCAGCATATTGGCA-CCTT-TCATCTTTTAAGTCCAATATCGCTGGCCTTGAATCAACA
*
1365827 CATTGGCA
128 TATTGGCA
1365835 TTCTTCGCAT
Statistics
Matches: 377, Mismatches: 61, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
153 3 0.01
154 1 0.00
155 3 0.01
156 120 0.32
157 108 0.29
158 133 0.35
159 5 0.01
160 4 0.01
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (155 bp):
CAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTATCTTCTTAAGTCTAATGTCACTAGCC
TTGAATCAGCATATTGGCACCTTTCATCTTTTAAGTCCAATATCGCTGGCCTTGAATCAACATAT
TGGCACCTTTGTCATCTTTTAAGTC
Found at i:1366720 original size:21 final size:19
Alignment explanation
Indices: 1366690--1366744 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
1366680 CTCTACAATT
*
1366690 TGTATTGATACAAATAGTAAA
1 TGTATCGATACAAA-AGT-AA
* **
1366711 TGTATCGATACATAAGTTT
1 TGTATCGATACAAAAGTAA
1366730 TGTATCGATACAAAA
1 TGTATCGATACAAAA
1366745 CTACCCTGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 14 0.48
20 3 0.10
21 12 0.41
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAAGTAA
Found at i:1366840 original size:20 final size:21
Alignment explanation
Indices: 1366767--1366843 Score: 58
Period size: 20 Copynumber: 3.8 Consensus size: 21
1366757 CTGTCAAGAA
1366767 AATT-TATCGATACATTATTA-
1 AATTGTATCGATACATT-TTAC
*
1366787 AA--ATATCGATACATATTTAC
1 AATTGTATCGATACAT-TTTAC
**
1366807 AATTGTATTAATACATTTCT-C
1 AATTGTATCGATACATTT-TAC
1366828 -ATTGTATCGATACATT
1 AATTGTATCGATACATT
1366844 ATGGGTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 14 0.30
20 19 0.41
21 3 0.07
22 10 0.22
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (21 bp):
AATTGTATCGATACATTTTAC
Found at i:1370190 original size:13 final size:12
Alignment explanation
Indices: 1370174--1370218 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 12
1370164 CTGAAAGAAG
1370174 AGAGAGAAAATA
1 AGAGAGAAAATA
1370186 TAGAGAGAAAA-A
1 -AGAGAGAAAATA
1370198 AGAGA-AAAAT-
1 AGAGAGAAAATA
1370208 AGA-AGAAAATA
1 AGAGAGAAAATA
1370219 GGTAGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 1 0.03
10 12 0.41
11 5 0.17
12 1 0.03
13 10 0.34
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (12 bp):
AGAGAGAAAATA
Found at i:1370229 original size:22 final size:21
Alignment explanation
Indices: 1370176--1370216 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1370166 GAAAGAAGAG
1370176 AGAGAAAATATAGAGAGAAAAA
1 AGAGAAAA-ATAGAGAGAAAAA
1370198 AGAGAAAAATAGA-AGAAAA
1 AGAGAAAAATAGAGAGAAAA
1370217 TAGGTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 5 0.26
22 8 0.42
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.07
Consensus pattern (21 bp):
AGAGAAAAATAGAGAGAAAAA
Found at i:1372080 original size:79 final size:78
Alignment explanation
Indices: 1372007--1372390 Score: 414
Period size: 79 Copynumber: 4.9 Consensus size: 78
1371997 CCCCTCAGAT
* * * *
1372007 ATAATGGGGTTGGAGTATCCCCTATGGTGAAAAATCGATGTTTTAGAAATAAAATCGGGGTTAGA
1 ATAATGGGGTTGGAGTATCCCCGATTGTGAAAAAT-TATGTTTTAGAAATAAAACCGGGGTTAGA
1372072 GTATCCCCTCGAAA
65 GTATCCCCTCGAAA
** * * * ***
1372086 ATAATGGGGTTCCAATATCCCCGATTGTGAAAAATTAGTATTTTAAAAATAAAATTAGGGTT-GA
1 ATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTA-TGTTTTAGAAATAAAACCGGGGTTAG-
1372150 AGTATCCCCTCGAAA
64 AGTATCCCCTCGAAA
** * *
1372165 ATAAAAGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGAGGTTGGA
1 ATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTA-TGTTTTAGAAATAAAACCGGGGTTAGA
*
1372230 GTATCCCTTCGAAA
65 GTATCCCCTCGAAA
* * * ** * * *
1372244 ATAATAGGGTTGGAGTATCCCCGACTGTGAACAATCGTGTTTTGGAAATAAAACCGAGTTTAGAG
1 ATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTATGTTTTAGAAATAAAACCGGGGTTAGAG
* *
1372309 TATCCCCTTGGAA
66 TATCCCCTCGAAA
* * * *
1372322 ATAACGGGGTTGGAGTATCTCTGATTGTGAAAAATTA-GCATTTTAGAAAT-AAACCGGGGTTGG
1 ATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTATG--TTTTAGAAATAAAACCGGGGTTAG
1372385 AGTATC
64 AGTATC
1372391 TCCAATTGTG
Statistics
Matches: 255, Mismatches: 45, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
77 1 0.00
78 82 0.32
79 171 0.67
80 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (78 bp):
ATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTATGTTTTAGAAATAAAACCGGGGTTAGAG
TATCCCCTCGAAA
Found at i:1372392 original size:50 final size:50
Alignment explanation
Indices: 1372319--1372441 Score: 160
Period size: 50 Copynumber: 2.5 Consensus size: 50
1372309 TATCCCCTTG
**
1372319 GAAAT-AA-CGGGGTTGGAGTATCTCTGATTGTGAAAAATTAGCATTTTA
1 GAAATAAACCGGGGTTGGAGTATCTCCAATTGTGAAAAATTAGCATTTTA
* ** *
1372367 GAAATAAACCGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTG
1 GAAATAAACCGGGGTTGGAGTATCTCCAATTGTGAAAAATTAGCATTTTA
*
1372417 GAAATAAAACTGGGGTTGGAGTATC
1 GAAAT-AAACCGGGGTTGGAGTATC
1372442 CCCTGGGAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 5 0.08
49 2 0.03
50 40 0.62
51 18 0.28
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.31
Consensus pattern (50 bp):
GAAATAAACCGGGGTTGGAGTATCTCCAATTGTGAAAAATTAGCATTTTA
Found at i:1372415 original size:207 final size:206
Alignment explanation
Indices: 1372161--1372599 Score: 580
Period size: 207 Copynumber: 2.1 Consensus size: 206
1372151 GTATCCCCTC
* *
1372161 GAAAATAAAA--GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGAG
1 GAAAATAAAACGGGGTTGGAGTATCTCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGAG
* * * * *
1372224 GTTGGAGTATCCCTTCGAAAATAATAGGGTTGGAGTATCCCCGACTGTGAACAATCGTGTTTTGG
66 GTTGGAGTATCCCCTCGAAAATAACAGGGTTGAAGTATCCCCGACTGTGAAAAATCGTGTTTTGA
* * * *
1372289 AAATAAAACCGAGTTTAGAGTATCCCCTTGGAAATAACGGGGTTGGAGTA-TCTCTGATTGTGAA
131 AAATAAAACCG-GGTTAGAGTATCCCCTCGGAAATAACGGAGTTAGAGTATTCTC-GATTGTGAA
1372353 AAATTAGCATTTT
194 AAATTAGCATTTT
* * * * *
1372366 -AGAAATAAACCGGGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGG
1 GA-AAATAAAACGGGGTTGGAGTATCTCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGA
* * * *
1372430 GGTTGGAGTATCCCCTGGGAAATAACAGGGTTGAAGTATCCCCGATTGTGAAAAATGGTGTTTTG
65 GGTTGGAGTATCCCCTCGAAAATAACAGGGTTGAAGTATCCCCGACTGTGAAAAATCGTGTTTTG
* * *
1372495 AAAATAAAACTGGGTTGGAGTATCTCCTCGGAAATAACGGAGTTAGAGTATTCTCGATTGTGAAA
130 AAAATAAAACCGGGTTAGAGTATCCCCTCGGAAATAACGGAGTTAGAGTATTCTCGATTGTGAAA
* **
1372560 AATTGGTGTTTT
195 AATTAGCATTTT
*
1372572 GAAAATAAAACTGGGTTGGAGTATCTCC
1 GAAAATAAAACGGGGTTGGAGTATCTCC
1372600 TCGGAAATAA
Statistics
Matches: 201, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
204 1 0.00
205 7 0.03
206 75 0.37
207 118 0.59
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (206 bp):
GAAAATAAAACGGGGTTGGAGTATCTCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGAG
GTTGGAGTATCCCCTCGAAAATAACAGGGTTGAAGTATCCCCGACTGTGAAAAATCGTGTTTTGA
AAATAAAACCGGGTTAGAGTATCCCCTCGGAAATAACGGAGTTAGAGTATTCTCGATTGTGAAAA
ATTAGCATTTT
Found at i:1372418 original size:129 final size:127
Alignment explanation
Indices: 1372250--1372521 Score: 339
Period size: 129 Copynumber: 2.1 Consensus size: 127
1372240 GAAAATAATA
* * * *
1372250 GGGTTGGAGTATCCCCGACTGTGAACAATCGTGTTTTGGAAATAAAACCGAGTTTAGAGTATCCC
1 GGGTTGGAGTATCTCCAACTGTGAAAAATCGTGTTTTGGAAATAAAACCGAGGTTAGAGTATCCC
* * * * * *
1372315 CTTGGAAATAACGGGGTTGGAGTATCTCTGATTGTGAAAAATTAGCATTTT-AGAAATAAACCG
66 CTGGGAAATAACAGGGTTGAAGTATCCCCGATTGTGAAAAA-TAGCATTTTGA-AAATAAAACG
* * * * *
1372378 GGGTTGGAGTATCTCCAATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCTCCAACTGTGAAAAA-TCGTGTTTTGGAAATAAAACCGAGGTTAGAGTATCC
* ** *
1372443 CCTGGGAAATAACAGGGTTGAAGTATCCCCGATTGTGAAAAATGGTGTTTTGAAAATAAAACT
65 CCTGGGAAATAACAGGGTTGAAGTATCCCCGATTGTGAAAAATAGCATTTTGAAAATAAAACG
1372506 GGGTTGGAGTATCTCC
1 GGGTTGGAGTATCTCC
1372522 TCGGAAATAA
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
128 54 0.44
129 69 0.56
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (127 bp):
GGGTTGGAGTATCTCCAACTGTGAAAAATCGTGTTTTGGAAATAAAACCGAGGTTAGAGTATCCC
CTGGGAAATAACAGGGTTGAAGTATCCCCGATTGTGAAAAATAGCATTTTGAAAATAAAACG
Found at i:1372567 original size:78 final size:78
Alignment explanation
Indices: 1372395--1372688 Score: 443
Period size: 78 Copynumber: 3.8 Consensus size: 78
1372385 AGTATCTCCA
* * *
1372395 ATTGTGAAAAATTGGTGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTGGGAAATAACAGG-
1 ATTGTGAAAAATTGGTGTTTTGAAAATAAAACT-GGGTTGGAGTATCTCCTCGGAAATAAC-GGA
* *
1372459 GTT-GAAGTATCCCCG
64 GTTAG-AGTATTCTCG
1372474 ATTGTGAAAAA-TGGTGTTTTGAAAATAAAACTGGGTTGGAGTATCTCCTCGGAAATAACGGAGT
1 ATTGTGAAAAATTGGTGTTTTGAAAATAAAACTGGGTTGGAGTATCTCCTCGGAAATAACGGAGT
1372538 TAGAGTATTCTCG
66 TAGAGTATTCTCG
1372551 ATTGTGAAAAATTGGTGTTTTGAAAATAAAACTGGGTTGGAGTATCTCCTCGGAAATAACGGAGT
1 ATTGTGAAAAATTGGTGTTTTGAAAATAAAACTGGGTTGGAGTATCTCCTCGGAAATAACGGAGT
1372616 TAGAGTATTCTCG
66 TAGAGTATTCTCG
** *
1372629 ATTGTGAAAAATTGGTGTTTTGAAAATAAAACCAAGGTTGGAATATC-CCATCGGAAATAA
1 ATTGTGAAAAATTGGTGTTTTGAAAATAAAA-CTGGGTTGGAGTATCTCC-TCGGAAATAA
1372689 AAACATGAAT
Statistics
Matches: 202, Mismatches: 8, Indels: 10
0.92 0.04 0.05
Matches are distributed among these distances:
76 2 0.01
77 47 0.23
78 120 0.59
79 33 0.16
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (78 bp):
ATTGTGAAAAATTGGTGTTTTGAAAATAAAACTGGGTTGGAGTATCTCCTCGGAAATAACGGAGT
TAGAGTATTCTCG
Found at i:1375112 original size:25 final size:25
Alignment explanation
Indices: 1375078--1375129 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1375068 CATCTGGGTA
1375078 AAACCCAGAATGTATCGATACAATG
1 AAACCCAGAATGTATCGATACAATG
1375103 AAACCCAGAATGTATCGATACAATG
1 AAACCCAGAATGTATCGATACAATG
1375128 AA
1 AA
1375130 CAATGTATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.19
Consensus pattern (25 bp):
AAACCCAGAATGTATCGATACAATG
Found at i:1375136 original size:20 final size:23
Alignment explanation
Indices: 1375086--1375145 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 23
1375076 TAAAACCCAG
1375086 AATGTATCGATACAATGAAACCCA
1 AATGTATCGATACAATGAAA-CCA
1375110 GAATGTATCGATACAATG-AA-C-
1 -AATGTATCGATACAATGAAACCA
1375131 AATGTATCGATACAA
1 AATGTATCGATACAA
1375146 ATTGTGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 15 0.43
22 1 0.03
24 2 0.06
25 17 0.49
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (23 bp):
AATGTATCGATACAATGAAACCA
Found at i:1375545 original size:3 final size:3
Alignment explanation
Indices: 1375537--1375568 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1375527 AACATTCAAT
1375537 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1375569 TTGGGAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1375823 original size:43 final size:40
Alignment explanation
Indices: 1375776--1375856 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 40
1375766 GAGTACGTCT
1375776 TGCTCTTCAAGGACAAAAGAAAAAAAGGAAATTAAATGTGCCA
1 TGCTCTTCAAGGACAAAAG-AAAAAAGGAAA-TAAA-GTGCCA
** *
1375819 TGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAAGTGC
1 TGCTCTTCAAGGACAAAAGAAAAAAGGAAATAAAGTGC
1375857 GTCATACTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 4 0.11
41 4 0.11
42 10 0.29
43 17 0.49
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (40 bp):
TGCTCTTCAAGGACAAAAGAAAAAAGGAAATAAAGTGCCA
Found at i:1375867 original size:42 final size:43
Alignment explanation
Indices: 1375785--1375873 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 43
1375775 TTGCTCTTCA
*
1375785 AGGACAAAAGAAAAAAAGGAAATTAAATGTGCCATGCTCTTTG
1 AGGACAAAAGAAAAAAAGGAAATTAAATGTGCCATACTCTTTG
*
1375828 AGGACAAAAG-AGAAAAGGAAA-TAAA-GTGCGTCATACTCTTTG
1 AGGACAAAAGAAAAAAAGGAAATTAAATGTGC--CATACTCTTTG
1375870 AGGA
1 AGGA
1375874 AAAGGGAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
40 4 0.10
41 4 0.10
42 24 0.57
43 10 0.24
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (43 bp):
AGGACAAAAGAAAAAAAGGAAATTAAATGTGCCATACTCTTTG
Found at i:1375905 original size:40 final size:41
Alignment explanation
Indices: 1375821--1375909 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 41
1375811 ATGTGCCATG
* *
1375821 CTCTTTGAGGACAAAAGAGAAAAGGAAATAAAGTGCGTCATA
1 CTCTTTGAGGA-AAAAGAGAAAAAGAAATAAAGCGCGTCATA
* * *
1375863 CTCTTTGAGG-AAAAGGGAAAAAGAAA-AGAAGCGTGTCCTA
1 CTCTTTGAGGAAAAAGAGAAAAAGAAATA-AAGCGCGTCATA
1375903 CTCTTTG
1 CTCTTTG
1375910 GGGACTAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.02
40 30 0.73
42 10 0.24
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.21
Consensus pattern (41 bp):
CTCTTTGAGGAAAAAGAGAAAAAGAAATAAAGCGCGTCATA
Found at i:1376001 original size:61 final size:61
Alignment explanation
Indices: 1375897--1376262 Score: 393
Period size: 61 Copynumber: 6.0 Consensus size: 61
1375887 AAAGAAGCGT
* * * * *
1375897 GTCCTACTCTTTGGGGACTAGAAA-GTGCCACTAACTTATGTGGGCTTTACAAGGAGAAA-GC
1 GTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGC
* * * * *
1375958 ATCCTGCTCTTTGAAGATTAAAAGGTGCCACC-AGTTCGTGTGGGCTTTAAAA-AAGAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTT-GTGTGGGCTTTAAAAGGA-AAAGGC
* * * * * * * *
1376019 ATCCTACTCCTTGAAGACTGAAAGGTGCCACCAACTTGTGTAGGTTTTAAAAGGAAAATGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
1376080 GTCCTGCTCTTTGTGGACTAGAAGGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAAGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
1376141 GTCCTACTCTTT-AGGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGA-GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
*
1376202 GTCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1376263 ATTATGCTCT
Statistics
Matches: 256, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
60 11 0.04
61 237 0.93
62 8 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:1376223 original size:183 final size:183
Alignment explanation
Indices: 1375897--1376259 Score: 471
Period size: 183 Copynumber: 2.0 Consensus size: 183
1375887 AAAGAAGCGT
* * *
1375897 GTCCTACTCTTTGGGGACTAGAAAGTGCCACTAACTTATGTGGGCTTTACAAGGAGAAAGCATCC
1 GTCCTACTCTTTGGGGACTAGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAGCATCC
* * * *
1375962 TGCTCTTTGAAGATTAAAAGGTGCCACCAGTTCGTGTGGGCTTTAAAAAAGAAAGGCATCCTACT
66 TACTCTTTGAAGACTAAAAGGTGCCACCACTTCGTATGGGCTTTAAAAAAGAAAGGCATCCTACT
* *
1376027 CCTTGAAGACTGAAAGGTGCCACCAACTTGTGTAGGTTTTAAAAGGAAAATGC
131 CCTTGAAGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAATGC
* * * * * **
1376080 GTCCTGCTCTTTGTGGACTAGAAGGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAAGTGTCC
1 GTCCTACTCTTTGGGGACTAGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAGCATCC
* * * *
1376145 TACTCTTT-AGGGACTAGAAGGTGCCACCAACTT-GTATGGGCTTT-AAAAGGAAAAGGCGTCCT
66 TACTCTTTGA-AGACTAAAAGGTGCCACC-ACTTCGTATGGGCTTTAAAAAAG-AAAGGCATCCT
* * *
1376207 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAA
128 ACTCCTTGAAGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAA
1376260 GGCATTATGC
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
182 6 0.04
183 145 0.94
184 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (183 bp):
GTCCTACTCTTTGGGGACTAGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAAGCATCC
TACTCTTTGAAGACTAAAAGGTGCCACCACTTCGTATGGGCTTTAAAAAAGAAAGGCATCCTACT
CCTTGAAGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAATGC
Found at i:1377263 original size:9 final size:8
Alignment explanation
Indices: 1377237--1377318 Score: 50
Period size: 7 Copynumber: 10.5 Consensus size: 8
1377227 GGTTCTTTTC
1377237 TTTTCTATT
1 TTTTCT-TT
1377246 TTTTC-TT
1 TTTTCTTT
*
1377253 TTCTC-TT
1 TTTTCTTT
1377260 TTTTC-TT
1 TTTTCTTT
1377267 TTTTC-TT
1 TTTTCTTT
1377274 TTTTCATTT
1 TTTTC-TTT
*
1377283 TTTTGTTGT
1 TTTTCTT-T
1377292 TTTT-TTT
1 TTTTCTTT
*
1377299 TTGTT-TTG
1 TT-TTCTTT
*
1377307 TTTTGTTT
1 TTTTCTTT
1377315 TTTT
1 TTTT
1377319 GAAAAAAAGG
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
7 31 0.49
8 16 0.25
9 16 0.25
ACGTcount: A:0.02, C:0.09, G:0.06, T:0.83
Consensus pattern (8 bp):
TTTTCTTT
Found at i:1377294 original size:11 final size:11
Alignment explanation
Indices: 1377280--1377319 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
1377270 TCTTTTTTCA
1377280 TTTTTTTGTTG
1 TTTTTTTGTTG
*
1377291 TTTTTTTTTTG
1 TTTTTTTGTTG
*
1377302 TTTTGTT-TTG
1 TTTTTTTGTTG
1377312 TTTTTTTG
1 TTTTTTTG
1377320 AAAAAAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTTTTGTTG
Found at i:1377305 original size:19 final size:18
Alignment explanation
Indices: 1377283--1377319 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1377273 TTTTTCATTT
*
1377283 TTTTGTTGTTTTTTTTTTG
1 TTTTGTT-TTGTTTTTTTG
1377302 TTTTGTTTTGTTTTTTTG
1 TTTTGTTTTGTTTTTTTG
1377320 AAAAAAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (18 bp):
TTTTGTTTTGTTTTTTTG
Found at i:1377317 original size:7 final size:7
Alignment explanation
Indices: 1377232--1377285 Score: 72
Period size: 7 Copynumber: 7.6 Consensus size: 7
1377222 CAGTAGGTTC
1377232 TTTTCTT
1 TTTTCTT
* *
1377239 TTCTATT
1 TTTTCTT
1377246 TTTTCTT
1 TTTTCTT
*
1377253 TTCTCTT
1 TTTTCTT
1377260 TTTTCTT
1 TTTTCTT
1377267 TTTTCTT
1 TTTTCTT
1377274 TTTTCATT
1 TTTTC-TT
1377282 TTTT
1 TTTT
1377286 TGTTGTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
7 34 0.85
8 6 0.15
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:1388399 original size:62 final size:62
Alignment explanation
Indices: 1388302--1388441 Score: 219
Period size: 62 Copynumber: 2.3 Consensus size: 62
1388292 ATACAAATAT
* *
1388302 GGAGGGTTACTCACAAGAGACATAGGTAATTTACATCCC-AGAAGGTCTTGCTATGCCTATGC
1 GGAGGGTTACTCACGAGAGACATAGGTAATTTACATCCCGA-AAGGTCTTGCCATGCCTATGC
* *
1388364 GGAGGGTTACTCACGAGAGACATAGGTAATTTACATCCCGAAATGTCTTGCCATGCCTATGT
1 GGAGGGTTACTCACGAGAGACATAGGTAATTTACATCCCGAAAGGTCTTGCCATGCCTATGC
*
1388426 GGAAGGTTACTCACGA
1 GGAGGGTTACTCACGA
1388442 AGGTGGATGG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 71 0.99
63 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (62 bp):
GGAGGGTTACTCACGAGAGACATAGGTAATTTACATCCCGAAAGGTCTTGCCATGCCTATGC
Found at i:1389904 original size:79 final size:79
Alignment explanation
Indices: 1389812--1390333 Score: 426
Period size: 79 Copynumber: 6.6 Consensus size: 79
1389802 GGAAAATCGA
** * ** * *
1389812 TGTTTTGGTAATAAAATTGGAGTTGAAGTATTTCCTC-AGAAATAA-TAGGGTTAAAGTATCCCC
1 TGTTTTGAAAATAAAATCGGAGTTGAAGTATCCCCTCGA-AAATAACGA-GGTTGAAGTATCCCC
* *
1389875 AATTGTGAAAAATTGG
64 GATTGTGAAAAATTAG
* ** *
1389891 TGTTTTGAAAATAACA-CCAAGGTTGGAGTA-CCCCTTCGAAAATAACGAGGTTGAAGTATCCTC
1 TGTTTTGAAAATAAAATCGGA-GTTGAAGTATCCCC-TCGAAAATAACGAGGTTGAAGTATCC-C
1389954 CGATTGTGAAAAATTAG
63 CGATTGTGAAAAATTAG
* *
1389971 TGTTTTGAAAATAAAATCGG-GATTGAAGTATCCCCTCGGAAATAACGGGGTTTG-AGTATCCCC
1 TGTTTTGAAAATAAAATCGGAG-TTGAAGTATCCCCTCGAAAATAACGAGG-TTGAAGTATCCCC
1390034 GATTGTGAAAAATTAG
64 GATTGTGAAAAATTAG
* * * *
1390050 TGTTTTGGAAATAAAA-CTGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCG
1 TGTTTTGAAAATAAAATC-GGAGTTGAAGTATCCCCTCGAAAATAACGAGGTTGAAGTATCCCCG
1390114 ATTGTGAAAAATTAG
65 ATTGTGAAAAATTAG
* ** * *
1390129 TGTTTT-AGAAATAAAATCAGG-GTTGGAGTAT-CCCTTTAGAAATAACGAGGTTGGAGTATCCT
1 TGTTTTGA-AAATAAAATC-GGAGTTGAAGTATCCCCTCGA-AAATAACGAGGTTGAAGTATCCC
* **
1390191 CGTTATT-TCTAAAGGTTAG
63 CG--ATTGT-GAAAAATTAG
* ** * * *
1390210 TGTTTTGAAAATAAAATC-GAGGTTGGAGTATTTCCTCTAAAATAAC-AGAGTTGGAGTATCCCT
1 TGTTTTGAAAATAAAATCGGA-GTTGAAGTATCCCCTCGAAAATAACGAG-GTTGAAGTATCCCC
* *
1390273 GATTGTGAAAATTTGG
64 GATTGTGAAAAATTAG
* * * *
1390289 TATTTTGGAAATAAAACTAGG-GTTGGAA-TATCCCCTCGGAAATAA
1 TGTTTTGAAAATAAAA-TCGGAGTT-GAAGTATCCCCTCGAAAATAA
1390334 AAACATGAAT
Statistics
Matches: 369, Mismatches: 47, Indels: 54
0.79 0.10 0.11
Matches are distributed among these distances:
78 12 0.03
79 215 0.58
80 71 0.19
81 65 0.18
82 6 0.02
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (79 bp):
TGTTTTGAAAATAAAATCGGAGTTGAAGTATCCCCTCGAAAATAACGAGGTTGAAGTATCCCCGA
TTGTGAAAAATTAG
Found at i:1390189 original size:238 final size:238
Alignment explanation
Indices: 1389771--1390333 Score: 622
Period size: 238 Copynumber: 2.4 Consensus size: 238
1389761 TACCCCTTCA
* * * * * * *
1389771 GAAATAACGGGATTGGAGTATCCCC-AGTGGTGGAAAA-TCGATGTTTTGGTAATAAAATTGGAG
1 GAAATAACGGGGTTGGAGTATCCCCGA-TTGTGAAAAATTAG-TGTTTTGGAAATAAAACTGGGG
* ** * *
1389834 TTGAAGTATTTCCTC-AGAAATAATAGGGTTAAAGTATCCCCAATTGTGAAAAATTGGTGTTTTG
64 TTGGAGTATCCCCTCGA-AAATAAGAGGGTTAAAGTATCCCCAATTGTGAAAAATTAGTGTTTTG
* *
1389898 AAAATAACACCAAGGTTGGAGTACCCCTTCGAAAATAACGAGGTTGAAGTATCCTCCG-ATTGT-
128 AAAATAAAACCAAGGTTGGAGTACCCCTTAGAAAATAACGAGGTTGAAGTATCCT-CGTATT-TC
1389961 GAAAAATTAGTGTTTTGAAAATAAAATCG-GGATTGAAGTATCCCCTCG
191 GAAAAATTAGTGTTTTGAAAATAAAATCGAGG-TTGAAGTATCCCCTCG
*
1390009 GAAATAACGGGGTTTGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACTGGGGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACTGGGGTT
** *
1390074 GGAGTATCCCCTCGAAAATAACGA-GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT-AG
66 GGAGTATCCCCTCGAAAATAA-GAGGGTTAAAGTATCCCCAATTGTGAAAAATTAGTGTTTTGA-
* * * * *
1390137 AAATAAAATCAGGGTTGGAGTATCCCTTTAG-AAATAACGAGGTTGGAGTATCCTCGTTATTTCT
129 AAATAAAACCAAGGTTGGAGTA-CCCCTTAGAAAATAACGAGGTTGAAGTATCCTCG-TATTTCG
** * ** *
1390201 AAAGGTTAGTGTTTTGAAAATAAAATCGAGGTTGGAGTATTTCCTCT
192 AAAAATTAGTGTTTTGAAAATAAAATCGAGGTTGAAGTATCCCCTCG
* * * * * * * *
1390248 AAAATAACAGAGTTGGAGTATCCCTGATTGTGAAAATTTGGTATTTTGGAAATAAAACTAGGGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACTGGGGTT
* *
1390313 GGAATATCCCCTCGGAAATAA
66 GGAGTATCCCCTCGAAAATAA
1390334 AAACATGAAT
Statistics
Matches: 275, Mismatches: 40, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
237 3 0.01
238 143 0.52
239 127 0.46
240 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (238 bp):
GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACTGGGGTT
GGAGTATCCCCTCGAAAATAAGAGGGTTAAAGTATCCCCAATTGTGAAAAATTAGTGTTTTGAAA
ATAAAACCAAGGTTGGAGTACCCCTTAGAAAATAACGAGGTTGAAGTATCCTCGTATTTCGAAAA
ATTAGTGTTTTGAAAATAAAATCGAGGTTGAAGTATCCCCTCG
Found at i:1390253 original size:81 final size:79
Alignment explanation
Indices: 1389866--1390333 Score: 504
Period size: 79 Copynumber: 5.9 Consensus size: 79
1389856 ATAGGGTTAA
* * * * *
1389866 AGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAACACCAAGGTTGGAGTA-CCCCTTCGA
1 AGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCC-TCGA
*
1389930 AAATAACGAGGTTGA
65 AAATAACGAGGTTGG
*
1389945 AGTATCCTCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCG-GGATTGAAGTATCCCCTCG
1 AGTATCC-CCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCGAGG-TTGGAGTATCCCCTCG
* * *
1390009 GAAATAACGGGGTTTG
64 AAAATAACGAGGTTGG
* *
1390025 AGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAA-CTGGGGTTGGAGTATCCCCTCGA
1 AGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATC-GAGGTTGGAGTATCCCCTCGA
1390089 AAATAACGAGGTTGG
65 AAATAACGAGGTTGG
**
1390104 AGTATCCCCGATTGTGAAAAATTAGTGTTTT-AGAAATAAAATC-AGGGTTGGAGTAT-CCCTTT
1 AGTATCCCCGATTGTGAAAAATTAGTGTTTTGA-AAATAAAATCGA-GGTTGGAGTATCCCCTCG
1390166 AGAAATAACGAGGTTGG
64 A-AAATAACGAGGTTGG
* * ** **
1390183 AGTATCCTCGTTATT-TCTAAAGGTTAGTGTTTTGAAAATAAAATCGAGGTTGGAGTATTTCCTC
1 AGTATCCCCG--ATTGT-GAAAAATTAGTGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
*
1390247 TAAAATAAC-AGAGTTGG
63 GAAAATAACGAG-GTTGG
* * * * * * * *
1390264 AGTATCCCTGATTGTGAAAATTTGGTATTTTGGAAATAAAA-CTAGGGTTGGAATATCCCCTCGG
1 AGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCGA-GGTTGGAGTATCCCCTCGA
1390328 AAATAA
65 AAATAA
1390334 AAACATGAAT
Statistics
Matches: 332, Mismatches: 39, Indels: 36
0.82 0.10 0.09
Matches are distributed among these distances:
78 8 0.02
79 188 0.57
80 68 0.20
81 61 0.18
82 7 0.02
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (79 bp):
AGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTCGAA
AATAACGAGGTTGG
Found at i:1390280 original size:160 final size:156
Alignment explanation
Indices: 1389772--1390333 Score: 541
Period size: 159 Copynumber: 3.5 Consensus size: 156
1389762 ACCCCTTCAG
* * * * *
1389772 AAATAACG-GGATTGGAGTATCCCC-AGTGGTGGAAAA-TCGATGTTTTGGTAATAAAAT-TGGA
1 AAATAACGAGG-TTGGAGTATCCCCGA-TTGTGAAAAATTAG-TGTTTT-GAAATAAAATCAGG-
* ** * ** * *
1389833 GTTGAAGTATTTCCTCAGAAATAA-TAGGGTTAAAGTATCCCCAATTGTGAAAAATTGGTGTTTT
61 GTTGGAGTATCCCCTCAGAAATAACGA-GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT
* *
1389897 GAAAATAACACCAAGGTTGGAGTA-CCCCTTCGA
125 GAAAATAA-AACGAGGTTGGAGTATCCCC-TCGA
*
1389930 AAATAACGAGGTTGAAGTATCCTCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATC-GGGAT
1 AAATAACGAGGTTGGAGTATCC-CCGATTGTGAAAAATTAGTGTTTTG-AAATAAAATCAGGG-T
* * * * *
1389994 TGAAGTATCCCCTCGGAAATAACGGGGTTTGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGA
63 TGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAA
*
1390059 AATAAAACTGGGGTTGGAGTATCCCCTCGA
128 AATAAAAC-GAGGTTGGAGTATCCCCTCGA
1390089 AAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCAGGGTTG
1 AAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT-GAAATAAAATCAGGGTTG
* * * * **
1390154 GAGTATCCCTTTAGAAATAACGAGGTTGGAGTATCCTCGTTATT-TCTAAAGGTTAGTGTTTTGA
65 GAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCG--ATTGT-GAAAAATTAGTGTTTTGA
** *
1390218 AAATAAAATCGAGGTTGGAGTATTTCCTCTA
127 AAATAAAA-CGAGGTTGGAGTATCCCCTCGA
* * * *
1390249 AAATAAC-AGAGTTGGAGTATCCCTGATTGTGAAAATTTGGTATTTTGGAAATAAAA-CTAGGGT
1 AAATAACGAG-GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT-GAAATAAAATC-AGGGT
* *
1390312 TGGAATATCCCCTCGGAAATAA
63 TGGAGTATCCCCTCAGAAATAA
1390334 AAACATGAAT
Statistics
Matches: 343, Mismatches: 43, Indels: 34
0.82 0.10 0.08
Matches are distributed among these distances:
158 91 0.27
159 131 0.38
160 120 0.35
161 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (156 bp):
AAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAATAAAATCAGGGTTGG
AGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAAT
AAAACGAGGTTGGAGTATCCCCTCGA
Found at i:1390303 original size:239 final size:238
Alignment explanation
Indices: 1389866--1390333 Score: 613
Period size: 239 Copynumber: 2.0 Consensus size: 238
1389856 ATAGGGTTAA
* * *
1389866 AGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAACACCAAGGTTGGAGTACCCCTTCGAA
1 AGTATCCCCAATTGTGAAAAATTAGTGTTTTGAAAATAAAACCAAGGTTGGAGTACCCCTTAGAA
1389931 AATAACGAGGTTGAAGTATCCTCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCGGGATTG
66 AATAACGAGGTTGAAGTATCCTCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCGGGATTG
* * * * *
1389996 AAGTATCCCCTCGGAAATAACGGGGTTTGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAA
131 AAGTATCCCCTCGAAAATAACAGAGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTGGAAA
* *
1390061 TAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGG
196 TAAAACTAGGGTTGGAATATCCCCTCGAAAATAACGAGGTTGG
* * * *
1390104 AGTATCCCCGATTGTGAAAAATTAGTGTTTT-AGAAATAAAATCAGGGTTGGAGTATCCCTTTAG
1 AGTATCCCCAATTGTGAAAAATTAGTGTTTTGA-AAATAAAACCAAGGTTGGAGTA-CCCCTTAG
* * **
1390168 -AAATAACGAGGTTGGAGTATCCT-CGTTATT-TCTAAAGGTTAGTGTTTTGAAAATAAAATCGA
64 AAAATAACGAGGTTGAAGTATCCTCCG--ATTGT-GAAAAATTAGTGTTTTGAAAATAAAATCG-
* ** * * * *
1390230 GG-TTGGAGTATTTCCTCTAAAATAACAGAGTTGGAGTATCCCTGATTGTGAAAATTTGGTATTT
125 GGATTGAAGTATCCCCTCGAAAATAACAGAGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTT
*
1390294 TGGAAATAAAACTAGGGTTGGAATATCCCCTCGGAAATAA
190 TGGAAATAAAACTAGGGTTGGAATATCCCCTCGAAAATAA
1390334 AAACATGAAT
Statistics
Matches: 198, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
237 3 0.02
238 71 0.36
239 122 0.62
240 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (238 bp):
AGTATCCCCAATTGTGAAAAATTAGTGTTTTGAAAATAAAACCAAGGTTGGAGTACCCCTTAGAA
AATAACGAGGTTGAAGTATCCTCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCGGGATTG
AAGTATCCCCTCGAAAATAACAGAGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTGGAAA
TAAAACTAGGGTTGGAATATCCCCTCGAAAATAACGAGGTTGG
Found at i:1393064 original size:162 final size:163
Alignment explanation
Indices: 1392792--1393088 Score: 490
Period size: 162 Copynumber: 1.8 Consensus size: 163
1392782 TAAAATTAAA
* * *
1392792 TAATATTTATTTTTTTCTAATCTTTTATATTTCTATGGGAATCCGTAGGAGTATAAAAGATTTTA
1 TAATATTTATTTTTTTCTAATCTTTTATATTCCTATGAGAATCCGTAGGAGTATAAAAGATTTCA
*
1392857 AAAACCTTTCGTATTCTTTCGGGTTTCCATTAGAGTACCAAATGGTATTTACAAAAATAAATAAA
66 AAAACCTTTCGTATTCTTTCGGGCTTCCATTAGAGTACCAAATGGTATTTACAAAAATAAATAAA
1392922 ATTAACTTAAATTGGTATTATTGGGATAAATTC
131 ATTAACTTAAATTGGTATTATTGGGATAAATTC
*
1392955 TAATATTTA-TTTTTTCTAATCTTTTATATTCCTATGAGCATCCGTAGG-GATATAAAAGATTTC
1 TAATATTTATTTTTTTCTAATCTTTTATATTCCTATGAGAATCCGTAGGAG-TATAAAAGATTTC
* * * *
1393018 AAAAACCTTTCGTATTCTTTCGGGCTTCTATTAGGGTACGAAATGGTATTTTCAAAAATAAATAA
65 AAAAACCTTTCGTATTCTTTCGGGCTTCCATTAGAGTACCAAATGGTATTTACAAAAATAAATAA
1393083 AATTAA
130 AATTAA
1393089 ATTGAATTAA
Statistics
Matches: 124, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
161 1 0.01
162 114 0.92
163 9 0.07
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (163 bp):
TAATATTTATTTTTTTCTAATCTTTTATATTCCTATGAGAATCCGTAGGAGTATAAAAGATTTCA
AAAACCTTTCGTATTCTTTCGGGCTTCCATTAGAGTACCAAATGGTATTTACAAAAATAAATAAA
ATTAACTTAAATTGGTATTATTGGGATAAATTC
Found at i:1398096 original size:17 final size:17
Alignment explanation
Indices: 1398074--1398106 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1398064 AGGAATGAAA
1398074 TAAAATTTCTTAAAGTG
1 TAAAATTTCTTAAAGTG
*
1398091 TAAAATTTCTTCAAGT
1 TAAAATTTCTTAAAGT
1398107 TTTATAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (17 bp):
TAAAATTTCTTAAAGTG
Found at i:1400477 original size:21 final size:20
Alignment explanation
Indices: 1400450--1400515 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 20
1400440 ATTTTTATGC
1400450 ATAAATATATTTATTATTTA
1 ATAAATATATTTATTATTTA
* * **
1400470 ATTAAATACAATTATTAAATA
1 A-TAAATATATTTATTATTTA
*
1400491 ATAAATAT-TTTACATATTTA
1 ATAAATATATTTA-TTATTTA
1400511 A-AAAT
1 ATAAAT
1400516 TTTCAAAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
19 7 0.20
20 12 0.34
21 16 0.46
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAATATATTTATTATTTA
Found at i:1400745 original size:20 final size:20
Alignment explanation
Indices: 1400720--1400759 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1400710 TGTTTGCCAA
1400720 TTTTG-ACTAATTTCTCATGT
1 TTTTGAACT-ATTTCTCATGT
*
1400740 TTTTGAACTATTTTTCATGT
1 TTTTGAACTATTTCTCATGT
1400760 AATTAACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (20 bp):
TTTTGAACTATTTCTCATGT
Found at i:1405529 original size:30 final size:30
Alignment explanation
Indices: 1405494--1405552 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
1405484 TTTTATTTGG
* * *
1405494 ATCAATTTGATCTTCATGTTATTATTTTTT
1 ATCAATTTAACCTTCATATTATTATTTTTT
*
1405524 ATCAATTTAACCTTTATATTATTATTTTT
1 ATCAATTTAACCTTCATATTATTATTTTT
1405553 GGCCTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.59
Consensus pattern (30 bp):
ATCAATTTAACCTTCATATTATTATTTTTT
Found at i:1406825 original size:22 final size:22
Alignment explanation
Indices: 1406782--1406851 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 22
1406772 TCAGTTTGTA
*
1406782 ATTATAAAATAATGAAAATTTAATT
1 ATTATAAAAT--T-AAATTTTAATT
* *
1406807 AGTTATAAGATT-ATTTTTAATT
1 A-TTATAAAATTAAATTTTAATT
1406829 ATTATAAAATTAAATTTTAATT
1 ATTATAAAATTAAATTTTAATT
1406851 A
1 A
1406852 AATTATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 9 0.24
22 19 0.50
24 1 0.03
25 1 0.03
26 8 0.21
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
ATTATAAAATTAAATTTTAATT
Found at i:1406833 original size:21 final size:23
Alignment explanation
Indices: 1406800--1406851 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
1406790 ATAATGAAAA
* *
1406800 TTTAATTAGTTATAAGATT-ATT
1 TTTAATTAGTTATAAAATTAAAT
1406822 TTTAATTA-TTATAAAATTAAAT
1 TTTAATTAGTTATAAAATTAAAT
1406844 TTTAATTA
1 TTTAATTA
1406852 AATTATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTAATTAGTTATAAAATTAAAT
Found at i:1406854 original size:16 final size:16
Alignment explanation
Indices: 1406835--1406866 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1406825 AATTATTATA
1406835 AAATTAAATTTTAATT
1 AAATTAAATTTTAATT
*
1406851 AAATTATATTTTAATT
1 AAATTAAATTTTAATT
1406867 TAGGTACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTAAATTTTAATT
Found at i:1407111 original size:24 final size:24
Alignment explanation
Indices: 1407038--1407111 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
1407028 AAACATTTTA
1407038 AAATTATCTTTAATCCAATTTATT
1 AAATTATCTTTAATCCAATTTATT
* * * *
1407062 AAACTACACATGCTAA-AC-ATTT-TT
1 AAATTA-TC-T-TTAATCCAATTTATT
1407086 AAATTATCTTTAATCCAATTTATT
1 AAATTATCTTTAATCCAATTTATT
1407110 AA
1 AA
1407112 TTTTAAGATG
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
21 3 0.08
22 2 0.06
23 5 0.14
24 16 0.44
25 5 0.14
26 2 0.06
27 3 0.08
ACGTcount: A:0.41, C:0.15, G:0.01, T:0.43
Consensus pattern (24 bp):
AAATTATCTTTAATCCAATTTATT
Found at i:1407415 original size:2 final size:2
Alignment explanation
Indices: 1407408--1407434 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1407398 CTTTTATCTT
1407408 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 T
1407435 TATTTTAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1409970 original size:51 final size:51
Alignment explanation
Indices: 1409910--1410006 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
1409900 AATAGCCGAG
* *
1409910 GCATTTGATATGGAATTTTGTTATGTCAAGTCCTT-GATGGCAATATTCTAA
1 GCATCTGATATGGAACTTTGTTATGTCAAGT-CTTCGATGGCAATATTCTAA
* * *
1409961 GCATCTGATATGGTACTTTGTTATGTGAAGTTTTCGATGGCAATAT
1 GCATCTGATATGGAACTTTGTTATGTCAAGTCTTCGATGGCAATAT
1410007 CCAAAGGATC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 2 0.05
51 38 0.95
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (51 bp):
GCATCTGATATGGAACTTTGTTATGTCAAGTCTTCGATGGCAATATTCTAA
Found at i:1410639 original size:52 final size:52
Alignment explanation
Indices: 1410582--1410684 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
1410572 TCGATTTAGT
* * * *
1410582 AAAGTTTTCAGTAGTGATATCCGAAGCATCTGACAATGAACTTTATTTTGGA
1 AAAGTTTTCAATAGTGATACCCGAAGCATCTAACAAGGAACTTTATTTTGGA
*
1410634 AAAGTTTTCAATGGTGATACCCGAAGCATCTAACAAGGAACTTTATTTTGG
1 AAAGTTTTCAATAGTGATACCCGAAGCATCTAACAAGGAACTTTATTTTGG
1410685 TAAATCCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (52 bp):
AAAGTTTTCAATAGTGATACCCGAAGCATCTAACAAGGAACTTTATTTTGGA
Found at i:1413900 original size:78 final size:79
Alignment explanation
Indices: 1413797--1413956 Score: 304
Period size: 78 Copynumber: 2.0 Consensus size: 79
1413787 CTTCTTTGCC
1413797 TATGTCCTTTTATTTAGTCTCGCTTATTAAAGAGTTTTTCAATGCACTAATTTAAATTGTTTACC
1 TATGTCCTTTTATTTAGTCTCGCTTATTAAAGAGTTTTTCAATGCACTAATTTAAATTGTTTACC
1413862 TTTTAAGGAT-AAG
66 TTTTAAGGATAAAG
*
1413875 TATGTCCTTTTATTTAGTCTTGCTTATTAAAGAGTTTTTCAATGCACTAATTTAAATTGTTTACC
1 TATGTCCTTTTATTTAGTCTCGCTTATTAAAGAGTTTTTCAATGCACTAATTTAAATTGTTTACC
1413940 TTTTAAGGATAAAG
66 TTTTAAGGATAAAG
1413954 TAT
1 TAT
1413957 AACTTTTACA
Statistics
Matches: 80, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
78 74 0.93
79 6 0.08
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (79 bp):
TATGTCCTTTTATTTAGTCTCGCTTATTAAAGAGTTTTTCAATGCACTAATTTAAATTGTTTACC
TTTTAAGGATAAAG
Found at i:1416530 original size:3 final size:3
Alignment explanation
Indices: 1416524--1416567 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1416514 TAAAAACATA
1416524 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1416568 AAGAAATTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1417285 original size:154 final size:151
Alignment explanation
Indices: 1416961--1417304 Score: 350
Period size: 154 Copynumber: 2.2 Consensus size: 151
1416951 ATACAATGAC
* * * * * *
1416961 GACCTAAGACTTAATTCTAAGGGAATTACCAAAATGCCTTTGAGTGTACCTTTGACATGAAAGTA
1 GACCTAGGACTTAATTCTAA-GGAATTACCAAAATACCTTTAAGTATACCTTCGACATAAAAGTA
* * * * *
1417026 TCCTAGTACCTTAGAGGACACGAAAAGATAATAAAAGGATAAACCTACCCTAAATGCACATCTTT
65 TCCTAGTACCTTAAAAGACACGAAAAAAGAATAAAAGGATAAACCTACCCTAAATGCACACCTTT
* * *
1417091 GGCATAGAAGCGACCTAGTGAT
130 GGCATAAAAGCAACCTACTGAT
* * ** *
1417113 GATCTAGAACTTGGTTCTAAGGAAATTACCAAAATACCTTTAAGGTATACCTTCGACGTAAAAGT
1 GACCTAGGACTTAATTCTAAGG-AATTACCAAAATACCTTTAA-GTATACCTTCGACATAAAAGT
* * * * * * * * * *
1417178 AT-CTTGATAACTTTAAAAGACATGAAAAAAGGATAAGAGGATGAACCTATCCTAGATGTATACC
64 ATCCTAG-T-ACCTTAAAAGACACGAAAAAAGAATAAAAGGATAAACCTACCCTAAATGCACACC
1417242 TTTGGCATAAAAGCAACCTTACT-AT
127 TTTGGCATAAAAGCAACC-TACTGAT
1417267 GACCTAGGACTTAATTCTAGAGGAATTACCAAAATACC
1 GACCTAGGACTTAATTCTA-AGGAATTACCAAAATACC
1417305 CATAGAGTAT
Statistics
Matches: 153, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
151 2 0.01
152 36 0.24
153 20 0.13
154 89 0.58
155 6 0.04
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (151 bp):
GACCTAGGACTTAATTCTAAGGAATTACCAAAATACCTTTAAGTATACCTTCGACATAAAAGTAT
CCTAGTACCTTAAAAGACACGAAAAAAGAATAAAAGGATAAACCTACCCTAAATGCACACCTTTG
GCATAAAAGCAACCTACTGAT
Found at i:1419147 original size:13 final size:13
Alignment explanation
Indices: 1419131--1419164 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1419121 AAAAATATAA
1419131 AATTAAAATAATT
1 AATTAAAATAATT
**
1419144 AATTAATTTAATT
1 AATTAAAATAATT
1419157 AATTAAAA
1 AATTAAAA
1419165 AGAAAAGAAT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTAAAATAATT
Found at i:1422144 original size:32 final size:32
Alignment explanation
Indices: 1422108--1422176 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
1422098 TAGAACAACC
*
1422108 TAAATGTA-ATTTTGATTGTTTACTATTTTTAA
1 TAAAT-TATATTTTGACTGTTTACTATTTTTAA
* * *
1422140 TAAATTATTTTTTTACTGTTTACTATTTTTGA
1 TAAATTATATTTTGACTGTTTACTATTTTTAA
1422172 TAAAT
1 TAAAT
1422177 ATTAATGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 2 0.06
32 30 0.94
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.58
Consensus pattern (32 bp):
TAAATTATATTTTGACTGTTTACTATTTTTAA
Found at i:1427310 original size:27 final size:27
Alignment explanation
Indices: 1427258--1427310 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
1427248 ATATTACTCA
*
1427258 AATTAATAATAAATTTATTAAAATATT
1 AATTAATAATAAATTTATAAAAATATT
1427285 AATTATATAA-AAA-TTATAAAATATAT
1 AATTA-ATAATAAATTTATAAAA-ATAT
1427311 AAAATTAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 7 0.30
27 12 0.52
28 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
AATTAATAATAAATTTATAAAAATATT
Found at i:1427869 original size:18 final size:18
Alignment explanation
Indices: 1427848--1427882 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1427838 TTTTTTTTCA
* *
1427848 AATAATTTTTTTTTAATG
1 AATAAATTTTTGTTAATG
1427866 AATAAATTTTTGTTAAT
1 AATAAATTTTTGTTAAT
1427883 AAAAAAATGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
AATAAATTTTTGTTAATG
Found at i:1428553 original size:15 final size:15
Alignment explanation
Indices: 1428507--1428554 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
1428497 AAGTTGAAAT
*
1428507 TTTAAAGTATTTGAG
1 TTTAAAATATTTGAG
1428522 ATTTAAAAT-TTTGAG
1 -TTTAAAATATTTGAG
* *
1428537 TTTAAATTATTTAAG
1 TTTAAAATATTTGAG
1428552 TTT
1 TTT
1428555 TAAGTTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 7 0.25
15 14 0.50
16 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
TTTAAAATATTTGAG
Found at i:1428556 original size:16 final size:16
Alignment explanation
Indices: 1428506--1428557 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
1428496 TAAGTTGAAA
*
1428506 TTTTAAAGTATTTGAG
1 TTTTAAAATATTTGAG
*
1428522 ATTTAAAAT-TTTGAG
1 TTTTAAAATATTTGAG
* *
1428537 -TTTAAATTATTTAAG
1 TTTTAAAATATTTGAG
1428552 TTTTAA
1 TTTTAA
1428558 GTTTTAGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.23
15 11 0.37
16 12 0.40
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTTAAAATATTTGAG
Found at i:1429791 original size:29 final size:31
Alignment explanation
Indices: 1429753--1429813 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 31
1429743 TTTTATTTAC
*
1429753 TTTAATTTTAA-ATATATAAAAATAAAA-ATA
1 TTTAATTTTAATA-ATAAAAAAATAAAATATA
1429783 TTTAA-TTTAATAATAAAAAAATAAAATATA
1 TTTAATTTTAATAATAAAAAAATAAAATATA
1429813 T
1 T
1429814 CTTTAACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
TTTAATTTTAATAATAAAAAAATAAAATATA
Found at i:1432126 original size:2 final size:2
Alignment explanation
Indices: 1432119--1432148 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1432109 TACGAATGTG
1432119 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
1432149 AAAACAGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1433520 original size:22 final size:22
Alignment explanation
Indices: 1433494--1433555 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
1433484 TTATTATTTT
1433494 TTTAAATAAATTAAAAATAA-TA
1 TTTAAATAAATTAAAAA-AATTA
* *
1433516 TTTAATTAACTTTAAAAAAATTA
1 TTTAAATAA-ATTAAAAAAATTA
*
1433539 TATATAATAAATTAAAA
1 TTTA-AATAAATTAAAA
1433556 TATTAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 10 0.31
23 18 0.56
24 4 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAATAAATTAAAAAAATTA
Found at i:1433560 original size:22 final size:21
Alignment explanation
Indices: 1433498--1433560 Score: 54
Period size: 25 Copynumber: 2.8 Consensus size: 21
1433488 TATTTTTTTA
* *
1433498 AATAAATTAAAAATAATATTT
1 AATAAATTAAAAATTATATAT
*
1433519 AATTAACTTTAAAAAAATTATATAT
1 AA-TAA-ATT--AAAAATTATATAT
1433544 AATAAATTAAAATATTA
1 AATAAATTAAAA-ATTA
1433561 ATTATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
21 6 0.18
22 7 0.21
23 4 0.12
24 3 0.09
25 13 0.39
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAAATTAAAAATTATATAT
Found at i:1433638 original size:21 final size:21
Alignment explanation
Indices: 1433613--1433670 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1433603 ATTATTATTT
1433613 TTTAATAAAATTAAAAAAATA
1 TTTAATAAAATTAAAAAAATA
* * *
1433634 TTTAATTAAGTTAAAAAATTA
1 TTTAATAAAATTAAAAAAATA
*
1433655 TATTAA-CAAATTAAAA
1 T-TTAATAAAATTAAAA
1433671 TATTAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
TTTAATAAAATTAAAAAAATA
Found at i:1433651 original size:118 final size:117
Alignment explanation
Indices: 1433389--1433791 Score: 459
Period size: 118 Copynumber: 3.4 Consensus size: 117
1433379 TATTTTTTAA
* *
1433389 TAAAAATAATATTTAATTAACTTTAAAAAAATTTACATTATAAATTAAAATATTAATTA-TTTTT
1 TAAAAATAATATTTAATTAACTTTAAAAAAATTTACATAACAAATTAAAATATTAATTATTTTTT
* *
1433453 AAAAATAAAAAATTAAATTAAAAA-GAGTTTATTATTATT-TTTTTAAAT-AAAT
66 TAAAAT-AAAAATTAAATTAAAAATG-G-TTATTATTATTATTTTTTAATAAAAT
* *
1433505 TAAAAATAATATTTAATTAACTTTAAAAAAATTATATATAATAAATTAAAATATTAATTATTTTT
1 TAAAAATAATATTTAATTAACTTTAAAAAAATT-TACATAACAAATTAAAATATTAATTATTTTT
1433570 TTAAAATAAAAATTAAATTAAAAATGGTTCATTATTATTATTTTTTAATAAAAT
65 TTAAAATAAAAATTAAATTAAAAATGGTT-ATTATTATTATTTTTTAATAAAAT
* *
1433624 TAAAAA-AATATTTAATTAA-GTT-AAAAAATTATA-TTAACAAATTAAAATATTAATTATTATG
1 TAAAAATAATATTTAATTAACTTTAAAAAAATT-TACATAACAAATTAAAATATT-A--ATTAT-
* * ** ** *
1433685 TTTTTATAAAAATAAAAAGT--ATTTATTATTATTATTATTATTATTTTTTAATAACA-
61 TTTTT-T-AAAATAAAAATTAAATTAAAAATGGTTATTATTATTATTTTTTAATAAAAT
* *
1433741 TAAAAATGATATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAAA
1 TAAAAATAATATTTAATTAACTTTAAAAAAATTTACA-TAACAAATTAAAA
1433792 AAATAATATT
Statistics
Matches: 253, Mismatches: 17, Indels: 29
0.85 0.06 0.10
Matches are distributed among these distances:
115 16 0.06
116 47 0.19
117 59 0.23
118 71 0.28
119 27 0.11
120 9 0.04
121 24 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (117 bp):
TAAAAATAATATTTAATTAACTTTAAAAAAATTTACATAACAAATTAAAATATTAATTATTTTTT
TAAAATAAAAATTAAATTAAAAATGGTTATTATTATTATTTTTTAATAAAAT
Found at i:1433721 original size:115 final size:117
Alignment explanation
Indices: 1433389--1433791 Score: 425
Period size: 117 Copynumber: 3.4 Consensus size: 117
1433379 TATTTTTTAA
* *
1433389 TAAAAATAATATTTAATTAACTTTAAAAAAATTTACATT-ATAAATTAAAATATTAATTATTTTT
1 TAAAAATAATATTTAATTAA-TTTAAAAAAA-TTATATTAACAAATTAAAATATTAATTATTTTT
** * *
1433453 AAAAATAAAAAATTAAA-T-TAAAAA-GAGT-TTATTATTATTTTTTTAA-ATAAAT
64 TTAAAT-AAAAATAAAAGTATAAAAATGATTATTATTATTA-TTTTTTAATA-AAAT
*
1433505 TAAAAATAATATTTAATTAACTTTAAAAAAATTATATATAATAAATTAAAATATTAATTATTTTT
1 TAAAAATAATATTTAATTAA-TTTAAAAAAATTATAT-TAACAAATTAAAATATTAATTATTTTT
* *
1433570 TTAAAATAAAAATTAAA-T-TAAAAATGGTTCATTATTATTATTTTTTAATAAAAT
64 TT-AAATAAAAATAAAAGTATAAAAATGATT-ATTATTATTATTTTTTAATAAAAT
*
1433624 TAAAAA-AATATTTAATTAAGTT-AAAAAATTATATTAACAAATTAAAATATTAATTATTATGTT
1 TAAAAATAATATTTAATTAATTTAAAAAAATTATATTAACAAATTAAAATATTAATTATT-T-TT
* * ** * *
1433687 TT-TATAAAAATAAAAAGTATTTATTATTATTATTATTATTATTTTTTAATAACA-
64 TTAAATAAAAAT-AAAAGTA-TAAAAATGATTATTATTATTATTTTTTAATAAAAT
* *
1433741 TAAAAATGATATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAAA
1 TAAAAATAATATTTAATT-AATTTAAAAAAA-TTATATTAACAAATTAAAA
1433792 AAATAATATT
Statistics
Matches: 252, Mismatches: 18, Indels: 29
0.84 0.06 0.10
Matches are distributed among these distances:
115 36 0.14
116 48 0.19
117 55 0.22
118 51 0.20
119 28 0.11
120 16 0.06
121 18 0.07
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (117 bp):
TAAAAATAATATTTAATTAATTTAAAAAAATTATATTAACAAATTAAAATATTAATTATTTTTTT
AAATAAAAATAAAAGTATAAAAATGATTATTATTATTATTTTTTAATAAAAT
Found at i:1433804 original size:23 final size:22
Alignment explanation
Indices: 1433742--1433817 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 22
1433732 TTAATAACAT
*
1433742 AAAAATGATATTTAATTAAATTTAA
1 AAAAAT-ATATTTAA-CAAA-TTAA
* *
1433767 AAAAATTTACATTAACAAATTAA
1 AAAAATATA-TTTAACAAATTAA
**
1433790 AAAAATAATATTTAAGGAATTAA
1 AAAAAT-ATATTTAACAAATTAA
1433813 AAAAA
1 AAAAA
1433818 ATTTATTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
23 25 0.60
24 7 0.17
25 10 0.24
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (22 bp):
AAAAATATATTTAACAAATTAA
Found at i:1433817 original size:121 final size:118
Alignment explanation
Indices: 1433600--1433817 Score: 278
Period size: 121 Copynumber: 1.8 Consensus size: 118
1433590 AAAATGGTTC
*
1433600 ATTATTATTATTTTTTAATAAAATTAAAAAAATATTTAATTAAGTTAAAAAATTATATTAACAAA
1 ATTATTATTATTTTTTAATAAAATTAAAAAAATATTTAATTAAGTTAAAAAATTACATTAACAAA
* * * *** *
1433665 TTAAAATATTAATTATTATGTTTTTATAAAAATAAAAAGTATTTATTATTATT
66 TTAAAAAAATAATTATTAAGGAATTAAAAAAATAAAAAGTATTTATTATTATT
* * *
1433718 ATTATTATTATTTTTTAATAACA-TAAAAATGATATTTAATTAAATTTAAAAAAATTTACATTAA
1 ATTATTATTATTTTTTAATAAAATTAAAAA-AATATTTAATT-AAGTT-AAAAAA-TTACATTAA
1433782 CAAATTAAAAAAATAA-TATTTAAGGAATTAAAAAAA
62 CAAATTAAAAAAATAATTA-TTAAGGAATTAAAAAAA
1433818 ATTTATTATT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
117 6 0.07
118 32 0.38
119 4 0.05
120 8 0.10
121 34 0.40
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.43
Consensus pattern (118 bp):
ATTATTATTATTTTTTAATAAAATTAAAAAAATATTTAATTAAGTTAAAAAATTACATTAACAAA
TTAAAAAAATAATTATTAAGGAATTAAAAAAATAAAAAGTATTTATTATTATT
Found at i:1433824 original size:23 final size:22
Alignment explanation
Indices: 1433763--1433824 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
1433753 TTAATTAAAT
*
1433763 TTAAAAAAATTTACATTAACAAA
1 TTAAAAAAATTTA-TTTAACAAA
* **
1433786 TTAAAAAAATAATATTTAAGGAA
1 TTAAAAAAAT-TTATTTAACAAA
1433809 TTAAAAAAAATTTATT
1 TT-AAAAAAATTTATT
1433825 ATTATTCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 22 0.69
24 10 0.31
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
TTAAAAAAATTTATTTAACAAA
Found at i:1434261 original size:19 final size:20
Alignment explanation
Indices: 1434238--1434282 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 20
1434228 TAAAATTATC
1434238 ATAAAAACTTTTTT-TTATTT
1 ATAAAAACTTTTTTATT-TTT
1434258 -T-AAAA-TTTTTTATTTTT
1 ATAAAAACTTTTTTATTTTT
1434275 ATAAAAAC
1 ATAAAAAC
1434283 ATAATAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 8
0.72 0.00 0.28
Matches are distributed among these distances:
17 9 0.43
18 7 0.33
19 5 0.24
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (20 bp):
ATAAAAACTTTTTTATTTTT
Found at i:1434448 original size:129 final size:124
Alignment explanation
Indices: 1434132--1434472 Score: 460
Period size: 125 Copynumber: 2.7 Consensus size: 124
1434122 AACTTTTTAA
1434132 ATTTAAATTTTTTTATTTTAAAAAACATAATAATTAATATTTTAATTTGTTAATATAATTTTTTT
1 ATTTAAATTTTTTTATTTT-AAAAACATAATAATTAATATTTTAATTTGTTAATATAATTTTTTT
* * *
1434197 AAAATTAATTAAATATTATTTTTTATTTTATTAAAATTATCATAAAAACTTTTTTTTATT
65 AAAATTAATTAAATATTATTTTTAATTTTATTAAAATAATAATAAAAACTTTTTTTTATT
* * *
1434257 -TTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAA-TTTTT
1 ATTTAAATTTTTT-TATTT-TAAAAACATAATAATTAATATTTTAATTTGTTAATATAATTTTTT
* *
1434320 TAAACTTAGTTAAATATTATTTTTAATTTTATTAAAAAATAATAATAATAAACCCTTTTTATTT-
64 TAAAATTAATTAAATATTATTTTTAATTTTATT--AAAATAATAATAA-AAA--CTTTTT-TTTA
1434384 TT
123 TT
1434386 ATTTAAATTTTTTTATTTT-AAAA-A-AATAATTAATATTTTAATTTGTTAATATAAATATTTTT
1 ATTTAAATTTTTTTATTTTAAAAACATAATAATTAATATTTTAATTTGTTAATAT-AAT-TTTTT
1434448 TAAAAGTTAATTAAATATTATTTTT
64 TAAAA-TTAATTAAATATTATTTTT
1434473 TATTAAAAAT
Statistics
Matches: 190, Mismatches: 13, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
124 46 0.24
125 68 0.36
126 15 0.08
127 7 0.04
128 10 0.05
129 30 0.16
130 14 0.07
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (124 bp):
ATTTAAATTTTTTTATTTTAAAAACATAATAATTAATATTTTAATTTGTTAATATAATTTTTTTA
AAATTAATTAAATATTATTTTTAATTTTATTAAAATAATAATAAAAACTTTTTTTTATT
Found at i:1435335 original size:179 final size:178
Alignment explanation
Indices: 1435028--1435715 Score: 876
Period size: 179 Copynumber: 3.8 Consensus size: 178
1435018 TAAGAAATAA
1435028 ACTAATGCATGAATTATATCTGAGAATCAATTCTTTTTTATAGAAAAAAAGAAAAGTTGATTGAT
1 ACTAATGCATGAATTATATCTGAGAATCAATTCTTTTTTAT---AAAAAA-AAAAGTTGATTGAT
* * **
1435093 TGTAAATGTTAGACTGCAAGGATTAGACTGATGCATAAATTATATTTGAGAATCGCTTTCTTTTT
62 TGTAAATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATTTGAGAATCGGATTCTTTTT
* * * *
1435158 TATAGGAAAAAATAAAAGTTGACTGATTATAAATATCAGACTGTAAAGATTAG
127 TATAGGAAAAAAGAAAAGTTGATTGATTGTAAAT-TCAGACTGCAAAGATTAG
* *
1435211 ACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTAT-AAAAAAAAAGCTGACTGATTGT
1 ACTAATGCATGAATTATATCTGAGAATCA-ATTCTTTTTTATAAAAAAAAAAGTTGATTGATTGT
* * *
1435275 AAATGTTAGACTGCAAGGATTAGACTAATGCATGAATTATGTTTGAGAATCGGATTCTTTTTTAT
65 AAATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATTTGAGAATCGGATTCTTTTTTAT
* ** * *
1435340 AGAAAAAAAGATTAGACT-ATTAATTGTAAATGTCAGACTGCAAAGATTAG
130 AGGAAAAAAGAAAAG-TTGATTGATTGTAAAT-TCAGACTGCAAAGATTAG
* * * * * * *
1435390 ATTGATGTATGAATTATATTTGAGAATCAATTTTTTTTTATAGAAAAAAAAGTTGATTGATCGTA
1 ACTAATGCATGAATTATATCTGAGAATCAATTCTTTTTTATAAAAAAAAAAGTTGATTGATTGTA
* ** * * * * *
1435455 AATATCAGACTGCAAATATTAGACTAATGCATGAATTATATATGATAATCGAATTCTTTTTTATG
66 AATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATTTGAGAATCGGATTCTTTTTTATA
* * *
1435520 GGAAAAAAGAAAAGTTGATTGATTGTAAATGCCGAATTGCAAAGATTAG
131 GGAAAAAAGAAAAGTTGATTGATTGTAAATTCAG-ACTGCAAAGATTAG
*
1435569 ACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGATTGATTGA
1 ACTAATGCATGAATTATATCTGAGAATC-AATTCTTTTTTAT--AAAAAAA-AAAG-TTGATTGA
* *
1435634 TTGTAAATGTCAGACTGCAAGGATTAGACTAATGTATAAATTATATTTGAGAATCAGATTCTTTT
61 TTGTAAATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATTTGAGAATCGGATTCTTTT
*
1435699 TTATAGGTAAAAAGAAA
126 TTATAGGAAAAAAGAAA
1435716 GACTGCAAAG
Statistics
Matches: 433, Mismatches: 62, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
178 14 0.03
179 273 0.63
180 17 0.04
182 6 0.01
183 33 0.08
184 90 0.21
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (178 bp):
ACTAATGCATGAATTATATCTGAGAATCAATTCTTTTTTATAAAAAAAAAAGTTGATTGATTGTA
AATGTCAGACTGCAAGGATTAGACTAATGCATAAATTATATTTGAGAATCGGATTCTTTTTTATA
GGAAAAAAGAAAAGTTGATTGATTGTAAATTCAGACTGCAAAGATTAG
Found at i:1435545 original size:271 final size:268
Alignment explanation
Indices: 1435000--1435704 Score: 956
Period size: 271 Copynumber: 2.6 Consensus size: 268
1434990 TAATATATAA
* * * * *
1435000 ATTGTAAATGTCAGATTGTAAGAAATAAACTAATGCATGAATTATATCTGAGAATC-AATTCTTT
1 ATTGTAAATGTCAGATTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTT
* *
1435064 TTTATAGAAAAAAAGAAA-AGTTGATTGATTGTAAATGTTAGACTGCAAGGATTAGACTGATGCA
66 TTTATAGAAAAAAAGAAAGA-TTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTGATGTA
** *
1435128 TAAATTATATTTGAGAATCGCTTTCTTTTTTATAGGAAAAAATAAAAGTTGACTGATTATAAATA
130 TAAATTATATTTGAGAATCAATTT-TTTTTTATA-G-AAAAATAAAAGTTGACTGATCATAAATA
* *
1435193 TCAGACTGTAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAAAAA
192 TCAGACTGCAAAGATTAGACTAATGCATGAATTATATATGAGAATCAGATTCTTTTTTATAAAAA
1435258 AAAAGCTGACTG
257 AAAAGCTGACTG
* * * *
1435270 ATTGTAAATGTTAGACTGCAAGGATTAGACTAATGCATGAATTATGTTTGAGAATCGGATTCTTT
1 ATTGTAAATGTCAGATTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTT
* * * * *
1435335 TTTATAGAAAAAAAGATTAGACT-ATTAATTGTAAATGTCAGACTGCAAAGATTAGATTGATGTA
66 TTTATAGAAAAAAAGA-AAGATTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTGATGTA
* * *
1435399 TGAATTATATTTGAGAATCAATTTTTTTTTATAG-AAAA-AAAAGTTGATTGATCGTAAATATCA
130 TAAATTATATTTGAGAATCAATTTTTTTTTATAGAAAAATAAAAGTTGACTGATCATAAATATCA
* *
1435462 GACTGCAAATATTAGACTAATGCATGAATTATATATGATAATC-GAATTCTTTTTTATGGGAAAA
195 GACTGCAAAGATTAGACTAATGCATGAATTATATATGAGAATCAG-ATTCTTTTTTAT----AAA
* *
1435526 AAGAAAAGTTGATTG
255 AA-AAAAGCTGACTG
* *
1435541 ATTGTAAATG-CCGAATTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTT
1 ATTGTAAATGTCAG-ATTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTT
*
1435605 TTTTATAGAAAAAAAGAAAGATTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGTA
65 TTTTATAGAAAAAAAGAAAGATTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTGATGTA
*
1435670 TAAATTATATTTGAGAATCAGATTCTTTTTTATAG
130 TAAATTATATTTGAGAATCA-ATTTTTTTTTATAG
1435705 GTAAAAAGAA
Statistics
Matches: 381, Mismatches: 42, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
265 1 0.00
266 73 0.19
267 4 0.01
269 1 0.00
270 67 0.18
271 219 0.57
272 15 0.04
273 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (268 bp):
ATTGTAAATGTCAGATTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTT
TTTATAGAAAAAAAGAAAGATTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTGATGTAT
AAATTATATTTGAGAATCAATTTTTTTTTATAGAAAAATAAAAGTTGACTGATCATAAATATCAG
ACTGCAAAGATTAGACTAATGCATGAATTATATATGAGAATCAGATTCTTTTTTATAAAAAAAAA
GCTGACTG
Found at i:1435717 original size:92 final size:92
Alignment explanation
Indices: 1435000--1435717 Score: 817
Period size: 92 Copynumber: 7.9 Consensus size: 92
1434990 TAATATATAA
* * * * *
1435000 ATTGTAAATGTCAGATTG-TAAGAAATAAACTAATGCATGAATTATATCTGAGAATCA-ATTCTT
1 ATTGTAAATGTCAGACTGCAAAG-ATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTT
*
1435063 TTTTATAGAAAAAAAGAAA-AGTTGATTG
65 TTTTATAGGAAAAAAGAAAGA-TTGATTG
* * * * *
1435091 ATTGTAAATGTTAGACTGCAAGGATTAGACTGATGCATAAATTATATTTGAGAATC-GCTTTCTT
1 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAG-ATTCTT
* *
1435155 TTTTATAGGAAAAAATAAA-AGTTGACTG
65 TTTTATAGGAAAAAAGAAAGA-TTGATTG
* * * *
1435183 ATTATAAATATCAGACTGTAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTT
1 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTT
* *
1435248 TTTAT---AAAAAA-AAAG-CTGACTG
66 TTTATAGGAAAAAAGAAAGATTGATTG
* * * *
1435270 ATTGTAAATGTTAGACTGCAAGGATTAGACTAATGCATGAATTATGTTTGAGAATCGGATTCTTT
1 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTT
* * * *
1435335 TTTATAGAAAAAAAGATTAGACT-ATTA
66 TTTATAGGAAAAAAGA-AAGATTGATTG
* * * *
1435362 ATTGTAAATGTCAGACTGCAAAGATTAGATTGATGTATGAATTATATTTGAGAATCA-ATTTTTT
1 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTT
1435426 TTTATA-G-AAAAA-AAAG-TTGATTG
66 TTTATAGGAAAAAAGAAAGATTGATTG
* * * * *
1435449 ATCGTAAATATCAGACTGCAAATATTAGACTAATGCATGAATTATATATGATAATC-GAATTCTT
1 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAG-ATTCTT
*
1435513 TTTTATGGGAAAAAAGAAA-AGTTGATTG
65 TTTTATAGGAAAAAAGAAAGA-TTGATTG
* * * *
1435541 ATTGTAAATG-CCGAATTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTT
1 ATTGTAAATGTCAG-ACTGCAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTT
*
1435605 TTTTATAGAAAAAAAGAAAGATTGATTG
65 TTTTATAGGAAAAAAGAAAGATTGATTG
* * *
1435633 ATTGTAAATGTCAGACTGCAAGGATTAGACTAATGTATAAATTATATTTGAGAATCAGATTCTTT
1 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTT
*
1435698 TTTATAGGTAAAAAGAAAGA
66 TTTATAGGAAAAAAGAAAGA
1435718 CTGCAAAGAT
Statistics
Matches: 530, Mismatches: 74, Indels: 45
0.82 0.11 0.07
Matches are distributed among these distances:
86 1 0.00
87 121 0.23
88 15 0.03
89 12 0.02
90 11 0.02
91 62 0.12
92 301 0.57
93 7 0.01
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (92 bp):
ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATTTGAGAATCAGATTCTTT
TTTATAGGAAAAAAGAAAGATTGATTG
Found at i:1435823 original size:161 final size:162
Alignment explanation
Indices: 1435557--1435865 Score: 426
Period size: 161 Copynumber: 1.9 Consensus size: 162
1435547 AATGCCGAAT
* *
1435557 TGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAAGA
1 TGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTCTTTTATAGAAAAAAAGA
* * * * * **
1435622 AAGATTGATTGATTGTAAATGTCAGACTGCAAGGATTAGACTAATGTATAAATTATATTTGAGAA
66 AAAATTGATTGATTATAAATATCACACTGCAAAGATTAGACTAATACATAAATTATATTTGAGAA
* *
1435687 TCAGATTCTTTTTTATAGGTAAAAAGAAAGAC
131 TCAGATTCCTTTTGATAGGTAAAAAGAAAGAC
* *
1435719 TGCAAAGATTATACTAATGCATGAATTGTA-CATGAGAATCAGATT-TCTTTTAGTA-AAAAAAA
1 TGCAAAGATTAGACTAATGCATGAATTATATC-TGAGAATCAGATTCTCTTTTA-TAGAAAAAAA
* * * *
1435781 GAAAAATTGATTGATTATAAGTATGACACTGCAAATATTAGACTAATACATAAGTTATATTTGAG
64 GAAAAATTGATTGATTATAAATATCACACTGCAAAGATTAGACTAATACATAAATTATATTTGAG
1435846 AATCAGATTCCTTTTGATAG
129 AATCAGATTCCTTTTGATAG
1435866 AAAAACTGAA
Statistics
Matches: 128, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
161 86 0.67
162 42 0.33
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.34
Consensus pattern (162 bp):
TGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTCTTTTATAGAAAAAAAGA
AAAATTGATTGATTATAAATATCACACTGCAAAGATTAGACTAATACATAAATTATATTTGAGAA
TCAGATTCCTTTTGATAGGTAAAAAGAAAGAC
Found at i:1435940 original size:253 final size:253
Alignment explanation
Indices: 1435461--1435924 Score: 528
Period size: 253 Copynumber: 1.8 Consensus size: 253
1435451 CGTAAATATC
* * * * **
1435461 AGACTGCAAATATTAGACTAATGCATGAATTATATATGATAATCGAATTCTTTTTTATGGGAAAA
1 AGACTGCAAAGATTAGACTAATGCATGAATTATACATGAGAATCGAATTCTCTTTTATGAAAAAA
* * * * *
1435526 AAGAAAAGTTGATTGATTGTAAATGCCGAATTGCAAAGATTAGACTAATGCATGAATTATATCTG
66 AAGAAAAATTGATTGATTATAAATGAC-AACTGCAAAGATTAGACTAATACATGAATTATATCTG
* * * * * *
1435591 AGAATCGGATTCTTTTTTATAGAAAAAAAGAAAGATTGATTGATTGTAAATGTCAGACTGCAAGG
130 AGAATCAGATTCCTTTTGATAGAAAAAAAGAAAGATTGATTGATTGCAAATATCAGACTGCAAAG
* * * * *
1435656 ATTAGACTAATGTATAAATTATATTTGAGAATCAGATTCTTTTTTATAGGTAAAAAGAA
195 ATGAGACAAATGCAGAAATTATATATGAGAATCAGATTCTTTTTTATAGGTAAAAAGAA
* *
1435715 AGACTGCAAAGATTATACTAATGCATGAATTGTACATGAGAATC-AGATT-TCTTTTA-GTAAAA
1 AGACTGCAAAGATTAGACTAATGCATGAATTATACATGAGAATCGA-ATTCTCTTTTATG-AAAA
*
1435777 AAAAGAAAAATTGATTGATTATAAGTATGAC-ACTGCAAATATTAGACTAATACAT-AAGTTATA
64 AAAAGAAAAATTGATTGATTATAA--ATGACAACTGCAAAGATTAGACTAATACATGAA-TTATA
* ** * *
1435840 TTTGAGAATCAGATTCCTTTTGATAGAAAAACTGAAA-AGTTGATTGATTGCAAATATCATAGTT
126 TCTGAGAATCAGATTCCTTTTGATAGAAAAAAAGAAAGA-TTGATTGATTGCAAATATCAGA-CT
*
1435904 G-AAAGATGGGACAAATGCAGA
189 GCAAAGATGAGACAAATGCAGA
1435925 TATTTTGAAT
Statistics
Matches: 173, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
252 4 0.02
253 121 0.70
254 44 0.25
255 4 0.02
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (253 bp):
AGACTGCAAAGATTAGACTAATGCATGAATTATACATGAGAATCGAATTCTCTTTTATGAAAAAA
AAGAAAAATTGATTGATTATAAATGACAACTGCAAAGATTAGACTAATACATGAATTATATCTGA
GAATCAGATTCCTTTTGATAGAAAAAAAGAAAGATTGATTGATTGCAAATATCAGACTGCAAAGA
TGAGACAAATGCAGAAATTATATATGAGAATCAGATTCTTTTTTATAGGTAAAAAGAA
Found at i:1439333 original size:33 final size:33
Alignment explanation
Indices: 1439279--1439342 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
1439269 ATTCTCATAT
*
1439279 GTATCGATACAAAGATCAATGTATCTATACAAA
1 GTATCGATACAAAGATCAATGTATCGATACAAA
**
1439312 GTATCGATACATTGAAT-AATGTATCGATACA
1 GTATCGATACAAAG-ATCAATGTATCGATACA
1439343 TTTCCTTGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
GTATCGATACAAAGATCAATGTATCGATACAAA
Found at i:1440306 original size:52 final size:50
Alignment explanation
Indices: 1440198--1440702 Score: 336
Period size: 52 Copynumber: 10.6 Consensus size: 50
1440188 CGAAGAATGA
* * * * *
1440198 CAATGTGCTGATTCATGACCAGCGACATTAGACTTAAA-GA-AGA-ATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATAAAGATGC
* ** * *
1440245 CAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTA--AATGATAAAGATGC
* * **
1440297 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAA-GATAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATAAAGATGC
* * * ** **
1440346 CAATGTGCTGATTCAAGACCAGCGACATTGGTCTTAGAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-A-ATGATAAAGATGC
* *
1440398 CAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAA-GATAAA-AGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATAAAGA-TGC
* * * * *
1440447 TAATGTGCTGATTCAAGGCCGGCGACATTGGACTTAAAGATGACAAAGACGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA-ATGATAAAGATGC
* *
1440499 CAATATGCTGATTCAAGGCCAGCGATATTAGAC-----T--T---G-TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATAAAGATGC
* * * *
1440538 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA-GA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATAAAGATGC
* * *
1440586 AAATATGCTGATTCAAGGCCAGCGATATTGGGC-----T--T---G-TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATAAAGATGC
* * * * *
1440625 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGA-GA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATAAAGATGC
*
1440673 CAATATGCTGATTCAAGGCCAGCGATATTG
1 CAATATGCTGATTCAAGGCCAGCGACATTG
1440703 TGTTTGCGCC
Statistics
Matches: 356, Mismatches: 65, Indels: 73
0.72 0.13 0.15
Matches are distributed among these distances:
39 63 0.18
40 2 0.01
45 1 0.00
47 32 0.09
48 63 0.18
49 77 0.22
50 7 0.02
51 5 0.01
52 105 0.29
53 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (50 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGATAAAGATGC
Found at i:1440376 original size:101 final size:100
Alignment explanation
Indices: 1440198--1440838 Score: 529
Period size: 87 Copynumber: 6.9 Consensus size: 100
1440188 CGAAGAATGA
* * * * * **
1440198 CAATGTGCTGATTCATGACCAGCGACATTAGACTTAAAGA-AGAATGCCAATGTGCTGAGACAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAAAATGCCAATGTGCTGATTCAAG
* ** *
1440262 GCCAGCGACATTGGGCTTAG-GAATGTTAAAGATGC
66 GCCAGCGACATTGGTCTTAGAG-ATGACAAAGACGC
* *
1440297 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAAA-ATGCCAATGTGCTGATTCAA
* * *
1440362 GACCAGCGACATTGGTCTTAGAGATGACGAAGGCGC
65 GGCCAGCGACATTGGTCTTAGAGATGACAAAGACGC
* * *
1440398 CAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAAGTGCTAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAAAA-TGCCAATGTGCTGATTCAA
* * *
1440463 GGCCGGCGACATTGGACTTAAAGATGACAAAGACGC
65 GGCCAGCGACATTGGTCTTAGAGATGACAAAGACGC
1440499 CAATATGCTGATTCAAGGCCAGCGATATTAGACTT---G------TGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAAAATGCCAATGTGCTGATTCAAG
**
1440555 GCCAGCGACATTGGTCTTA-A-A-GAC-AAGGTGC
66 GCCAGCGACATTGGTCTTAGAGATGACAAAGACGC
* * *
1440586 AAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---G------TGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAAAATGCCAATGTGCTGATTCAAG
**
1440642 GCCAGCGACATTGGTCTT--AGA-GAC-AAGGTGC
66 GCCAGCGACATTGGTCTTAGAGATGACAAAGACGC
****
1440673 CAATATGCTGATTCAAGGCCAGCGATATT-G---T---G-T-TTGCGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAAAATGCCAATGTGCTGATTCAAG
* *
1440729 GCCAGTGACATTGGTCTT--AGA-GACAAGGTA--C
66 GCCAGCGACATTGGTCTTAGAGATGACAAAG-ACGC
* * * **
1440760 CAATATGTTGATTCAAGGCCAACGATATT-GAGTT-----T---GCGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAAAATGCCAATGTGCTGATTCAAG
1440816 GCCAGCGACATTGGTCTTAGAGA
66 GCCAGCGACATTGGTCTTAGAGA
1440839 CAAGGTACCA
Statistics
Matches: 481, Mismatches: 45, Indels: 42
0.85 0.08 0.07
Matches are distributed among these distances:
83 2 0.00
86 2 0.00
87 224 0.47
88 5 0.01
89 5 0.01
90 2 0.00
91 36 0.07
98 1 0.00
99 34 0.07
100 3 0.01
101 166 0.35
102 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (100 bp):
CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATAAAATGCCAATGTGCTGATTCAAG
GCCAGCGACATTGGTCTTAGAGATGACAAAGACGC
Found at i:1440551 original size:39 final size:39
Alignment explanation
Indices: 1440497--1440733 Score: 161
Period size: 39 Copynumber: 5.6 Consensus size: 39
1440487 TGACAAAGAC
1440497 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTGT
* * **
1440536 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCG--A----TATT--AGAC-TTGT
* * *
1440584 GCAAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTGT
* * **
1440623 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCG--A----TATT--AGAC-TTGT
** *
1440671 GCCAATATGCTGATTCAAGGCCAGCGATATT-GTGTTTGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTAG-ACTTGT
*
1440710 GCCAATGTGCTGATTCAAGGCCAG
1 GCCAATATGCTGATTCAAGGCCAG
1440734 TGACATTGGT
Statistics
Matches: 153, Mismatches: 26, Indels: 38
0.71 0.12 0.18
Matches are distributed among these distances:
39 76 0.50
40 2 0.01
41 2 0.01
42 6 0.04
45 6 0.04
46 2 0.01
47 6 0.04
48 53 0.35
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTGT
Found at i:1440616 original size:48 final size:47
Alignment explanation
Indices: 1440534--1441149 Score: 418
Period size: 48 Copynumber: 13.9 Consensus size: 47
1440524 TATTAGACTT
* *
1440534 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT-AAGACAAG
* *
1440582 GTGCAAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--------
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAGACAAG
* *
1440621 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTA-AGACAAG
1440669 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGTGT-TT--G-C---
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTG-GTCTTAAGACAAG
* * *
1440710 --GCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTA-AGACAAG
* * *
1440756 GTACCAATATGTTGATTCAAGGCCAACGATATTGAGT-TT--G-C---
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTG-GTCTTAAGACAAG
* *
1440797 --GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTA-AGACAAG
* *
1440843 GTACCAATATGTTGATTCAAGG-C--CGATATTGGGT-TT--G-C---
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGTCTTAAGACAAG
* * * * * *
1440881 --GCCAATGTGCTAATTCAAGGCCAACAACATTGGTCTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT-AAGA-CAAG
** *
1440928 GTGCCAATATGCTGATTCAAGGCCAATGATATTGGGCTT--------
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAGACAAG
* *
1440967 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT---A-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAGACAAG
* *
1441010 GTGCCAATGTGCTGATTCAAGGCTAGCGATATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT-AAGACAAG
* * *
1441058 GTACCAATATGCTGATTTAAGGCCAGTGATATTGGGT-TCTAGATGGTA-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGTCT-TA-A--G-ACAAG
* *
1441109 GTACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAA
1441150 AGGTGCCACG
Statistics
Matches: 451, Mismatches: 55, Indels: 123
0.72 0.09 0.20
Matches are distributed among these distances:
36 16 0.04
37 1 0.00
38 7 0.02
39 137 0.30
41 1 0.00
42 4 0.01
43 39 0.09
44 2 0.00
45 10 0.02
46 3 0.01
47 2 0.00
48 147 0.33
49 41 0.09
50 4 0.01
51 36 0.08
52 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (47 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAGACAAG
Found at i:1440626 original size:87 final size:87
Alignment explanation
Indices: 1440443--1441044 Score: 788
Period size: 87 Copynumber: 7.0 Consensus size: 87
1440433 AAAGATAAAA
* * * **
1440443 GTGCTAATGTGCTGATTCAAGGCCGGCGACATTGGACTTAAAGATGACAAAGACGCCAATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCT
* *
1440508 GATTCAAGGCCAGCGATATTAGACTT
62 GATTCAAGGCCAGCGATATTGGGCTT
*
1440534 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCAAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1440599 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
*
1440621 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
1440686 CAAGGCCAGCGATATTGTGTTT
66 CAAGGCCAGCGATATTGGGCTT
* * * * *
1440708 GCGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAGAGACAAGGTACCAATATGTTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* * *
1440773 CAAGGCCAACGATATTGAGTTT
66 CAAGGCCAGCGATATTGGGCTT
* * * *
1440795 GCGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTACCAATATGTTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1440860 CAAGG-C--CGATATTGGGTTT
66 CAAGGCCAGCGATATTGGGCTT
* * * * *
1440879 GCGCCAATGTGCTAATTCAAGGCCAACAACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
**
1440944 TCAAGGCCAATGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * *
1440967 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATGTGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1441027 CAAGGCTAGCGATATTGG
66 CAAGGCCAGCGATATTGG
1441045 TCTTAAAGAC
Statistics
Matches: 468, Mismatches: 39, Indels: 17
0.89 0.07 0.03
Matches are distributed among these distances:
82 34 0.07
84 53 0.11
85 23 0.05
86 2 0.00
87 270 0.58
88 47 0.10
89 1 0.00
90 2 0.00
91 36 0.08
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:1440813 original size:39 final size:38
Alignment explanation
Indices: 1440759--1441045 Score: 121
Period size: 39 Copynumber: 6.9 Consensus size: 38
1440749 AGACAAGGTA
* *
1440759 CCAATATGTTGATTCAAGGCCAACGATATTGAGTTTGCG
1 CCAATGTGCTGATTCAAGGCCAACGATATTG-GTTTGCG
* *
1440798 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGG
1 CCAATGTGCTGATTCAAGGCCAACGATATTGGT-TT---G-C---G
* *
1440844 TACCAATATGTTGATTCAAGG-C--CGATATTGGGTTTGCG
1 --CCAATGTGCTGATTCAAGGCCAACGATATT-GGTTTGCG
* * * *
1440882 CCAATGTGCTAATTCAAGGCCAACAACATTGGTCTTAAAGATGAAGGTG
1 CCAATGTGCTGATTCAAGGCCAACGATATTGG--TT-----T----GCG
* * * *
1440931 CCAATATGCTGATTCAAGGCCAATGATATTGGGCTTGTG
1 CCAATGTGCTGATTCAAGGCCAACGATATT-GGTTTGCG
* * *
1440970 CCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
1 CCAATGTGCTGATTCAAGGCCAACGATATTGG--TT---TGCG
* *
1441013 CCAATGTGCTGATTCAAGGCTAGCGATATTGGT
1 CCAATGTGCTGATTCAAGGCCAACGATATTGGT
1441046 CTTAAAGACA
Statistics
Matches: 192, Mismatches: 25, Indels: 60
0.69 0.09 0.22
Matches are distributed among these distances:
36 16 0.08
37 1 0.01
38 7 0.04
39 64 0.33
40 3 0.02
41 2 0.01
42 2 0.01
43 36 0.19
45 9 0.05
46 4 0.02
47 1 0.01
48 18 0.09
49 27 0.14
50 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (38 bp):
CCAATGTGCTGATTCAAGGCCAACGATATTGGTTTGCG
Found at i:1441131 original size:51 final size:49
Alignment explanation
Indices: 1440970--1441151 Score: 177
Period size: 51 Copynumber: 3.8 Consensus size: 49
1440960 TGGGCTTGTG
* * *
1440970 CCAATGTGCTGATTCAAGGCCAGCGATATT-GGAC-T----TAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGTCTTAAAGTAAAGGTA
* *
1441013 CCAATGTGCTGATTCAAGGCTAGCGATATT-GGTCTTAAAG-ACAAGGTA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGTCTTAAAGTA-AAGGTA
* * *
1441061 CCAATATGCTGATTTAAGGCCAGTGATATTGGGT-TCTAGATGGTAAAGGTA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGTCT-TA-A-AGTAAAGGTA
*
1441112 CCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGGTCTTAAAG
1441152 GTGCCACGGA
Statistics
Matches: 115, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
43 32 0.28
44 1 0.01
47 1 0.01
48 33 0.29
49 6 0.05
50 5 0.04
51 36 0.31
52 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.27
Consensus pattern (49 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGGTCTTAAAGTAAAGGTA
Found at i:1441191 original size:34 final size:33
Alignment explanation
Indices: 1441148--1441869 Score: 397
Period size: 34 Copynumber: 22.8 Consensus size: 33
1441138 TATTGGACTT
* *
1441148 AAAGGTGCCACGGAGTTGTGGCCTT-ACAGGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-AA
* * *
1441181 AAAGGATGCCACAGAAG-TGTGGGCTTAAAAGGGAG
1 AAAGG-TGCCAC-GGAGTTGTGGACTTAAAA-GGAA
* *
1441216 AAATGTGCCACGGAGTTGTGGATTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1441249 AAAGATGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1441279 ---GGTGCCATGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1441309 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
1441344 AAAGGGTGCCACGGAGTTATGGACTTAAAA-G--
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1441375 ---GGTGTCACAGAGTGGTGGACTTTGAAAA-G-A
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* ** *
1441405 AAATGTGCCATAGAGTTGTGGACTTAAGAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
1441438 CAAGGGTGCCACGAAGTCGTGGACTTAAAAAG-A
1 -AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1441471 AAATGTGCCATGGAGTTGTGGACTTATAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1441501 ---GGTGCCACAGAGTTATGGACTTAAAAGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
1441531 AAAGATGCCACGTAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* * *
1441565 AAAGGTACCACGGAGTTATGGACTT------AC
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
1441592 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1441625 AAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* *
1441660 AAAGGGTGCCAAGGAGTTGTAGACTT-------A
1 AAA-GGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1441687 AAA-G-GCCACAGAGTGGTGGACTTTGAAAA-G-A
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
** *
1441718 AAAGGTGCCATAGAGTTGTGGACTTAAGAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * **
1441751 CAAGGGTGCCACAGAGTTGTGGACTTGGAA-G-A
1 -AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1441783 AAAGGATGCCACTGAGTCGTGGACTT---A-GAA
1 AAAGG-TGCCACGGAGTTGTGGACTTAAAAGGAA
* * **
1441813 AAGAGATGCCACTGAGTTGTGGACTTTGAA-G-A
1 AA-AGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1441845 AAAGATGCCACCGAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
1441870 TGAAGAAAAG
Statistics
Matches: 543, Mismatches: 89, Indels: 116
0.73 0.12 0.16
Matches are distributed among these distances:
24 13 0.02
25 3 0.01
27 88 0.16
28 3 0.01
29 7 0.01
30 22 0.04
31 38 0.07
32 53 0.10
33 98 0.18
34 147 0.27
35 67 0.12
36 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:1441285 original size:27 final size:27
Alignment explanation
Indices: 1441254--1441622 Score: 110
Period size: 27 Copynumber: 12.0 Consensus size: 27
1441244 AGGAAAAAGA
1441254 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1441281 TGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAA-G-----G-G
*
1441315 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGG
1 TGCCACGGAGTTGTGGAC-TT-------AAAAGGG
*
1441350 TGCCACGGAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * * *
1441377 TGTCACAGAGTGGTGGACTTTGAAAAGAAAATG
1 TGCCACGGAGTTGTGGAC-TT-AAAAG----GG
**
1441410 TGCCATAGAGTTGTGGACTTAAGAGGAACAAGGG
1 TGCCACGGAGTTGTGGACTT------AA-AAGGG
* * *
1441444 TGCCACGAAGTCGTGGACTTAAAAAGAAAATG
1 TGCCACGGAGTTGTGGACTT-AAAAG----GG
* *
1441476 TGCCATGGAGTTGTGGACTTATAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
1441503 TGCCACAGAGTTATGGACTTAAAAGAAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAG------GG
* *
1441536 TGCCACGTAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AAAAG-----GG
* *
1441570 TACCACGGAGTTATGGACTTACAAA-GG
1 TGCCACGGAGTTGTGGACTTA-AAAGGG
*
1441597 TGCCACGGAGTTGTGGGCTTAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGG
1441623 AAAAAGAGTG
Statistics
Matches: 259, Mismatches: 42, Indels: 82
0.68 0.11 0.21
Matches are distributed among these distances:
26 3 0.01
27 87 0.34
28 6 0.02
29 7 0.03
31 4 0.02
32 21 0.08
33 37 0.14
34 58 0.22
35 24 0.09
36 1 0.00
37 3 0.01
38 3 0.01
41 1 0.00
42 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:1441292 original size:60 final size:62
Alignment explanation
Indices: 1441220--1441655 Score: 246
Period size: 60 Copynumber: 7.0 Consensus size: 62
1441210 AGGGAGAAAT
*
1441220 GTGCCACGGAGTTGTGGATTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGG
* *
1441280 GTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTT-------AA
1441345 AAGG
59 AAGG
* * * *
1441349 GTGCCACGGAGTTATGGACTTAAAA-G-----G-GTGTCACAGAGTGGTGGACTTTGAAAAGAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTT-AAAAG---
*
1441407 AT
62 -G
** * * * * * *
1441409 GTGCCATAGAGTTGTGGACTTAAGAGGAACAAGGGTGCCACGAAGTCGTGGACTTAAAAAGAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG----
*
1441474 T
62 G
* * * *
1441475 GTGCCATGGAGTTGTGGACTTATAA-G-----G-GTGCCACAGAGTTATGGAC-TTAAAAGAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAG----
1441532 AAG
62 --G
* * * * * *
1441535 ATGCCACGTAGTTGTGGGCTTTAAAAAGAAAAAG-GTACCACGGAGTTATGGAC-TTACAAA-G
1 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTA-AAAGG
* * *
1441596 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAA
1441656 AGAAAAAGGG
Statistics
Matches: 301, Mismatches: 43, Indels: 63
0.74 0.11 0.15
Matches are distributed among these distances:
56 5 0.02
58 6 0.02
59 15 0.05
60 86 0.29
61 59 0.20
62 24 0.08
63 1 0.00
65 1 0.00
66 33 0.11
67 38 0.13
68 4 0.01
69 29 0.10
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.22
Consensus pattern (62 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGG
Found at i:1441413 original size:129 final size:124
Alignment explanation
Indices: 1441280--1441622 Score: 356
Period size: 126 Copynumber: 2.7 Consensus size: 124
1441270 ACTTAAAAGG
*
1441280 GTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 GTGCCATGGAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAG-AA
* * *
1441345 AAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGTCACAGAGTGGTGGACTTTGAAAAG-AAAAT
63 AA-GGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTGATGGAC-TT-AAAAGAAAAAA
* * * * *
1441409 GTGCCATAGAGTTGTGGACTTAAGAGGAACAAGGGTGCCACGAAGTCGTGGACTTAAAAAGAAAA
1 GTGCCATGGAGTTGTGGACTTAAAAGGAA-AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAA
* * * * *
1441474 TGTGCCATGGAGTTGTGGACTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGAAAAAA
65 GGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTGATGGACTTAAAAGAAAAAA
* * * * * * *
1441534 GATGCCACGTAGTTGTGGGCTTTAAAAAGAAAAAGGTACCACGGAGTTATGGACTT----A-CAA
1 G-TGCCATGGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* *
1441594 AGGTGCCACGGAGTTGTGGGCTTAAAAGG
64 AGGTGCCACGGAGTTATGGACTTAAAAGG
1441623 AAAAAGAGTG
Statistics
Matches: 180, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
121 27 0.15
122 1 0.01
124 5 0.03
125 7 0.04
126 74 0.41
127 12 0.07
128 8 0.04
129 43 0.24
130 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (124 bp):
GTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAG
GTGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTGATGGACTTAAAAGAAAAAA
Found at i:1441513 original size:126 final size:127
Alignment explanation
Indices: 1441280--1441531 Score: 339
Period size: 129 Copynumber: 2.0 Consensus size: 127
1441270 ACTTAAAAGG
* * * *
1441280 GTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAA
1 GTGCCATAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTCGTGGACTTTAAAAAGAAA
* *
1441345 AAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGTCACAGAGTGGTGGACTTTGAAAAGAAAAT
66 AAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTGATGGAC-TT-AAAAGAAAAT
* * *
1441409 GTGCCATAGAGTTGTGGACTTAAGAGGAACAAGGGTGCCACGAAGTCGTGGAC-TTAAAAAG-AA
1 GTGCCATAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTCGTGGACTTTAAAAAGAAA
* * * * *
1441472 AA-TGTGCCATGGAGTTGTGGACTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGAAAA
66 AAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTGATGGACTTAAAAGAAAA
1441532 AAGATGCCAC
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
124 9 0.08
125 2 0.02
126 40 0.37
127 4 0.04
128 8 0.07
129 46 0.42
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (127 bp):
GTGCCATAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTCGTGGACTTTAAAAAGAAA
AAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTGATGGACTTAAAAGAAAAT
Found at i:1441608 original size:94 final size:93
Alignment explanation
Indices: 1441404--1441720 Score: 336
Period size: 94 Copynumber: 3.4 Consensus size: 93
1441394 CTTTGAAAAG
* * * * * * * *
1441404 AAAATGTGCCATAGAGTTGTGGACTTAAGAGGAACAAGGGTGCCACGAAGTCGTGGAC-TTAAAA
1 AAAAGGTGCCACAGAGTTGTGGACTTAA-AAGAAAAAAGATGCCACGAAGTTGTGGGCTTTAAAA
* *
1441468 AG-AAAATGTGCCATGGAGTTGTGGACTT
65 AGAAAAAGGTGCCAAGGAGTTGTGGACTT
* * *
1441496 ATAAGGGTGCCACAGAGTTATGGACTTAAAAGAAAAAAGATGCCACGTAGTTGTGGGCTTTAAAA
1 A-AAAGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGATGCCACGAAGTTGTGGGCTTTAAAA
* * *
1441561 AGAAAAAGGTACCACGGAGTTATGGACTT
65 AGAAAAAGGTGCCAAGGAGTTGTGGACTT
* * * * *
1441590 ACAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAA
1 A-AAAGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGA-TGCCACGAAGTTGTGGGCTTTAAA
*
1441655 AAGAAAAAGGGTGCCAAGGAGTTGTAGACTT
64 AAGAAAAA-GGTGCCAAGGAGTTGTGGACTT
*
1441686 AAAA-G-GCCACAGAGTGGTGGACTTTGAAAAGAAAA
1 AAAAGGTGCCACAGAGTTGTGGAC-TT-AAAAGAAAA
1441721 GGTGCCATAG
Statistics
Matches: 187, Mismatches: 31, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
92 23 0.12
93 45 0.24
94 59 0.32
95 41 0.22
96 19 0.10
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (93 bp):
AAAAGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAAGATGCCACGAAGTTGTGGGCTTTAAAAA
GAAAAAGGTGCCAAGGAGTTGTGGACTT
Found at i:1441722 original size:31 final size:31
Alignment explanation
Indices: 1441686--1442086 Score: 260
Period size: 31 Copynumber: 12.8 Consensus size: 31
1441676 TTGTAGACTT
*
1441686 AAAAG-GCCACAGAGTGGTGGACTTTGAAAAG
1 AAAAGTGCCACAGAGTCGTGGACTTTG-AAAG
* *
1441717 AAAAGGTGCCATAGAGTTGTGGAC-TT-AAGAGG
1 AAAA-GTGCCACAGAGTCGTGGACTTTGAA-A-G
* *
1441749 AACAAGGGTGCCACAGAGTTGTGGAC-TTGGAAG
1 AA-AA--GTGCCACAGAGTCGTGGACTTTGAAAG
* *
1441782 AAAAGGATGCCACTGAGTCGTGGACTTAG-AA-
1 AAAA-G-TGCCACAGAGTCGTGGACTTTGAAAG
* * *
1441813 AAGAGATGCCACTGAGTTGTGGACTTTG-AAG
1 AAAAG-TGCCACAGAGTCGTGGACTTTGAAAG
*
1441844 AAAAGATGCCACCGAGTCGTGGACTTTG-AAG
1 AAAAG-TGCCACAGAGTCGTGGACTTTGAAAG
** *
1441875 AAAAGATGCCATTGAGTCGTGGACTTTG--GG
1 AAAAG-TGCCACAGAGTCGTGGACTTTGAAAG
** * *
1441905 AAGGGATGCCACTGAGTCATGGACTTTG-AAG
1 AAAAG-TGCCACAGAGTCGTGGACTTTGAAAG
* *
1441936 AAAAAATGCCACAGAGTCGTGGATTTTG-AAG
1 -AAAAGTGCCACAGAGTCGTGGACTTTGAAAG
* *
1441967 AAAAAATGCCACAGAGTCGTGGATTTTG-AAG
1 -AAAAGTGCCACAGAGTCGTGGACTTTGAAAG
1441998 AAAAGATGCCACAGAGTCGTGGACTTTG-AAG
1 AAAAG-TGCCACAGAGTCGTGGACTTTGAAAG
* *
1442029 AAAAGGATGCCA-ATGAGTCATGGACTTAG-AA-
1 AAAA-G-TGCCACA-GAGTCGTGGACTTTGAAAG
* * *
1442060 AAGAGATGCCACTGAGTTGTGGACTTT
1 AAAAG-TGCCACAGAGTCGTGGACTTT
1442087 CAGAAGAGAG
Statistics
Matches: 318, Mismatches: 36, Indels: 33
0.82 0.09 0.09
Matches are distributed among these distances:
30 73 0.23
31 150 0.47
32 50 0.16
33 22 0.07
34 22 0.07
35 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (31 bp):
AAAAGTGCCACAGAGTCGTGGACTTTGAAAG
Found at i:1441776 original size:187 final size:186
Alignment explanation
Indices: 1441417--1441776 Score: 399
Period size: 187 Copynumber: 1.9 Consensus size: 186
1441407 ATGTGCCATA
* * * * *
1441417 GAGTTGTGGACTTAAGAGGAACAAGGGTGCCACGAAGTCGTGGACTTAAAAAGAAAATGTGCCAT
1 GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTCGTGGACTTAAAAAGAAAAGGTGCCAA
* * * *
1441482 GGAGTTGTGGACTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGAAAAAAGATGCCACGTAGT
66 GGAGTTGTAGACTTATAAGAGTGCCACAGAGTGATGGACTTAAAAG-AAAAAGATGCCAAGTAGT
* *
1441547 TGTGGGCTTTAAAAAGAAAAAGGTACCACGGAGTTATGGACTTACAAAGGTGCCACG
130 TGTGGACTTTAAAAAGAAAAAGGTACCACAGAGTTATGGACTTACAAAGGTGCCACG
* * * * *
1441604 GAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGC
1 GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTCGTGGAC-TTAAAAAG-AAAA-GGTGC
* *
1441669 CAAGGAGTTGTAGACTTA-AA-AG-GCCACAGAGTGGTGGACTTTGAAAAG-AAAAGGTGCCATA
63 CAAGGAGTTGTAGACTTATAAGAGTGCCACAGAGTGATGGAC-TT-AAAAGAAAAAGATGCCA-A
* * * * *
1441730 G-AGTTGTGGAC-TTAAGAGGAACAAGGGTGCCACAGAGTTGTGGACTT
125 GTAGTTGTGGACTTTAAAAAGAA-AAAGGTACCACAGAGTTATGGACTT
1441777 GGAAGAAAAG
Statistics
Matches: 143, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
186 8 0.06
187 92 0.64
188 12 0.08
189 11 0.08
190 20 0.14
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.21
Consensus pattern (186 bp):
GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAAGTCGTGGACTTAAAAAGAAAAGGTGCCAA
GGAGTTGTAGACTTATAAGAGTGCCACAGAGTGATGGACTTAAAAGAAAAAGATGCCAAGTAGTT
GTGGACTTTAAAAAGAAAAAGGTACCACAGAGTTATGGACTTACAAAGGTGCCACG
Found at i:1441834 original size:62 final size:63
Alignment explanation
Indices: 1441691--1442086 Score: 430
Period size: 62 Copynumber: 6.3 Consensus size: 63
1441681 GACTTAAAAG
* * * *
1441691 GCCACAGAGTGGTGGACTTTGAAAAGAAAAGG-TGCCA-TAGAGTTGTGGACTTAAGAGGAACAA
1 GCCACAGAGTCGTGGACTTTG--AAGAAAAGGATGCCACT-GAGTCGTGGACTT-TGAAGAA-AA
*
1441754 GGGT
61 -GAT
* * * *
1441758 GCCACAGAGTTGTGGACTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTTAGAA-AAGAGAT
1 GCCACAGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAT
* * *
1441820 GCCACTGAGTTGTGGACTTTGAAGAAAA-GATGCCACCGAGTCGTGGACTTTGAAGAAAAGAT
1 GCCACAGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAT
** * * * *
1441882 GCCATTGAGTCGTGGACTTTG--GGAAGGGATGCCACTGAGTCATGGACTTTGAAGAAAAAAT
1 GCCACAGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAT
* * * *
1441943 GCCACAGAGTCGTGGATTTTGAAGAAAA-AATGCCACAGAGTCGTGGATTTTGAAGAAAAGAT
1 GCCACAGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAT
* * * *
1442005 GCCACAGAGTCGTGGACTTTGAAGAAAAGGATGCCAATGAGTCATGGACTTAGAA-AAGAGAT
1 GCCACAGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAT
* *
1442067 GCCACTGAGTTGTGGACTTT
1 GCCACAGAGTCGTGGACTTT
1442087 CAGAAGAGAG
Statistics
Matches: 284, Mismatches: 38, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
60 3 0.01
61 73 0.26
62 133 0.47
63 24 0.08
64 2 0.01
65 12 0.04
66 17 0.06
67 20 0.07
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (63 bp):
GCCACAGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGAT
Found at i:1441838 original size:316 final size:312
Alignment explanation
Indices: 1441180--1441866 Score: 913
Period size: 316 Copynumber: 2.2 Consensus size: 312
1441170 CTTACAGGAA
* *
1441180 AAAAGGATGCCACAGAAG-TGTGGGCTTAAAAGGGAGAAATG-TGCCACGGAGTTGTGGATTTAA
1 AAAAGGATGCCACAG-AGTTATGGACTTAAAA--GA-AAA-GATGCCACGGAGTTGTGGATTTAA
* * * *
1441243 AAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGA
61 AAAGAAAAAGATACCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
1441308 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCACGGAGTTATGGACTTAAA
126 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCAAGGAGTTATAGACTTAAA
* *
1441373 AGGGTGTCACAGAGTGGTGGACTTTGAAAAGAAAATGTGCCATAGAGTTGTGGACTTAAGAGGAA
191 A-GGTGCCACAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCATAGAGTTGTGGACTTAAGAGGAA
* *
1441438 CAAGGGTGCCACGAAGTCGTGGACTTAAAAAGAAAATGTGCCATGGAGTTGTGGACTT
255 CAAGGGTGCCACGAAGTCGTGGACTTAAAAAGAAAAGGTGCCATGGAGTCGTGGACTT
* * * *
1441496 ATAAGGGTGCCACAGAGTTATGGACTTAAAAGAAAAAAGATGCCACGTAGTTGTGGGCTTTAAAA
1 AAAAGGATGCCACAGAGTTATGGACTTAAAAG--AAAAGATGCCACGGAGTTGT-GGATTTAAAA
* *
1441561 AGAAAAAGGTACCACGGAGTTATGGACTTACAAA-GGTGCCACGGAGTTGTGGGCTTAAAAGGAA
63 AGAAAAAGATACCACGGAGTTATGGACTTA-AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
1441625 AAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCAAGGAGTTGTAGACTTAAAA
127 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCAAGGAGTTATAGACTTAAAA
1441690 -G-GCCACAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCATAGAGTTGTGGACTTAAGAGGAACA
192 GGTGCCACAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCATAGAGTTGTGGACTTAAGAGGAACA
* **
1441753 AGGGTGCCAC-AGAGTTGTGGACTT-GGAAGAAAAGGATGCCACT-GAGTCGTGGACTT
257 AGGGTGCCACGA-AGTCGTGGACTTAAAAAGAAAAGG-TGCCA-TGGAGTCGTGGACTT
* * ** * *
1441809 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACCGAGTCGTGGA
1 --AAAAG-GATGCCACAGAGTTATGGACTTAAAAGAAAAGATGCCACGGAGTTGTGGA
1441867 CTTTGAAGAA
Statistics
Matches: 326, Mismatches: 33, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
312 9 0.03
313 100 0.31
314 21 0.06
315 22 0.07
316 171 0.52
317 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.21
Consensus pattern (312 bp):
AAAAGGATGCCACAGAGTTATGGACTTAAAAGAAAAGATGCCACGGAGTTGTGGATTTAAAAAGA
AAAAGATACCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
AGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCAAGGAGTTATAGACTTAAAAGGTG
CCACAGAGTGGTGGACTTTGAAAAGAAAAGGTGCCATAGAGTTGTGGACTTAAGAGGAACAAGGG
TGCCACGAAGTCGTGGACTTAAAAAGAAAAGGTGCCATGGAGTCGTGGACTT
Found at i:1441913 original size:92 final size:93
Alignment explanation
Indices: 1441752--1442095 Score: 426
Period size: 92 Copynumber: 3.7 Consensus size: 93
1441742 TAAGAGGAAC
* * * * *
1441752 AAGGGTGCCACAGAGTTGTGGACTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTTAGAAAAGA
1 AAGGATGCCACAGAGTCGTGGACTTTGAAGAAAA-GATGCCACTGAGTCGTGGACTTTGAGAAGA
*
1441817 GATGCCACTGAGTTGTGGACTTTGAAGAA
65 GATGCCACTGAGTCGTGGACTTTGAAGAA
* * * *
1441846 AA-GATGCCACCGAGTCGTGGACTTTGAAGAAAAGATGCCATTGAGTCGTGGACTTTGGGAAGGG
1 AAGGATGCCACAGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAG
*
1441910 ATGCCACTGAGTCATGGACTTTGAAGAA
66 ATGCCACTGAGTCGTGGACTTTGAAGAA
* * * * * *
1441938 AA-AATGCCACAGAGTCGTGGATTTTGAAGAAAAAATGCCACAGAGTCGTGGATTTTGAAGAAAA
1 AAGGATGCCACAGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTG-AGAAGA
*
1442002 GATGCCACAGAGTCGTGGACTTTGAAGAA
65 GATGCCACTGAGTCGTGGACTTTGAAGAA
* * * * *
1442031 AAGGATGCCA-ATGAGTCATGGACTTAGAA-AAGAGATGCCACTGAGTTGTGGACTTTCAGAAGA
1 AAGGATGCCACA-GAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGA
1442094 GA
65 GA
1442096 GATTTGAAGA
Statistics
Matches: 213, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
92 109 0.51
93 82 0.38
94 22 0.10
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (93 bp):
AAGGATGCCACAGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAG
ATGCCACTGAGTCGTGGACTTTGAAGAA
Found at i:1443126 original size:17 final size:19
Alignment explanation
Indices: 1443096--1443130 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1443086 CACCGAGATT
1443096 TTCTATTTTATTTTTCTTC
1 TTCTATTTTATTTTTCTTC
1443115 TTCT-TTTT-TTTTTCTT
1 TTCTATTTTATTTTTCTT
1443131 TTTTTGTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (19 bp):
TTCTATTTTATTTTTCTTC
Found at i:1451168 original size:49 final size:49
Alignment explanation
Indices: 1451011--1451880 Score: 489
Period size: 39 Copynumber: 18.8 Consensus size: 49
1451001 CGAAGAATTA
* * *
1451011 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTAAAGAAG-A-ATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
** * * * *
1451058 CAATGTGCTGAGACAAGGTCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGAAGATGC
* * * **
1451110 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * * *
1451159 CAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGAGATGACGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-A-A-GATGAAGATGC
* * * * *
1451211 CAATATGTTGATTCCAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * *
1451260 CAATGTGCTGATTCAAGGCCGGCAACATTGGACTTAAAGATGTCCAAGACGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGATGC
* *
1451312 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---G-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * * *
1451351 CAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * *
1451399 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T---G-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * * *
1451438 CAATGTGCTGATTCAGGGCCAGCGACATTGGTCTTAGAGAT-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * * * * *
1451486 CAATATGCAGATTTAAGGCCAGCGATATTGG-GTT-----T---G-CGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * * * *
1451525 CAATGTGCTGATTCAAAGCCAGCGACATTGGTCTTAGAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * *
1451573 CAATATGCTGATTCAAGGCCAGCGATATTGG-GTT-----T---G-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * * * *
1451612 CAATGTGCTGATTCAAGGCTAGCAACATTGGTCTTAAAGATGAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * * * *
1451661 CAATATGCTAATTCAAGGCCAGGGATATTGGGC-T-----T---G-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
*
1451700 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * * * * *
1451743 CAATGTGCTGATTTAAGGCCAGCGATATTGGTCTTAAAGA-CATGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
* * * ** *
1451791 CAATATGCTGATTCAAGGCCAGCGATATTGG-GTTCTAGATGGTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGATGC
* *
1451842 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
1451881 GTGCCACGGA
Statistics
Matches: 646, Mismatches: 110, Indels: 129
0.73 0.12 0.15
Matches are distributed among these distances:
39 152 0.24
40 12 0.02
42 1 0.00
43 38 0.06
44 2 0.00
45 3 0.00
46 1 0.00
47 44 0.07
48 125 0.19
49 114 0.18
50 5 0.01
51 41 0.06
52 108 0.17
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
Found at i:1451195 original size:101 final size:100
Alignment explanation
Indices: 1451011--1451880 Score: 558
Period size: 87 Copynumber: 9.4 Consensus size: 100
1451001 CGAAGAATTA
* * * * **
1451011 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTAAAGAAGA-ATGCCAATGTGCTGAGACAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAGATGCCAATGTGCTGATTCAAG
* * * *
1451075 GTCAGCGACATTGGGCTTAG-GAATGTTAAAGATGC
66 GCCAGCAACATTGGTCTTAGAG-ATGTCAAAGATGC
* *
1451110 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATG-AGATGCCAATGTGCTGATTCAA
* * *
1451175 GGCCAGCAACATTGGTCTTAGAGATGACGAAGGTGC
65 GGCCAGCAACATTGGTCTTAGAGATGTCAAAGATGC
* * * *
1451211 CAATATGTTGATTCCAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATG-AGATGCCAATGTGCTGATTCAA
* * * * *
1451276 GGCCGGCAACATTGGACTTAAAGATGTCCAAGACGC
65 GGCCAGCAACATTGGTCTTAGAGATGTCAAAGATGC
*
1451312 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--G-TGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAGATGCCAATGTGCTGATTCAAG
** * *
1451368 GCCAGTGACATTGGTCTTA-A-A-GAC-AAGGTGC
66 GCCAGCAACATTGGTCTTAGAGATGTCAAAGATGC
* * *
1451399 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T--G-TGCCAATGTGCTGATTCAGG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAGATGCCAATGTGCTGATTCAAG
* *
1451455 GCCAGCGACATTGGTCTTAGAGA--T--AAGGTGC
66 GCCAGCAACATTGGTCTTAGAGATGTCAAAGATGC
* * ** * *
1451486 CAATATGCAGATTTAAGGCCAGCGATATT-GGGTT-----T--G-CGCCAATGTGCTGATTCAAA
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAGATGCCAATGTGCTGATTCAAG
* *
1451542 GCCAGCGACATTGGTCTTAGAGA---C-AAGGTGC
66 GCCAGCAACATTGGTCTTAGAGATGTCAAAGATGC
**
1451573 CAATATGCTGATTCAAGGCCAGCGATATT-GGGTT-----T--G-TGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAGATGCCAATGTGCTGATTCAAG
* * * *
1451629 GCTAGCAACATTGGTCTTAAAGATG---AAGGTGT
66 GCCAGCAACATTGGTCTTAGAGATGTCAAAGATGC
* * * *
1451661 CAATATGCTAATTCAAGGCCAGGGATATTGGGC-T-----T--G-TGCCAATGTGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAGATGCCAATGTGCTGATTCAAG
* * *
1451717 GCCAGCGATATTGGACTTA-A-A-G-----G-TGC
66 GCCAGCAACATTGGTCTTAGAGATGTCAAAGATGC
* * * * *
1451743 CAATGTGCTGATTTAAGGCCAGCGATATTGGTCTTAAAGACATG-G-TGCCAATATGCTGATTCA
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAG--ATGAGATGCCAATGTGCTGATTCA
* * * ** *
1451806 AGGCCAGCGATATTGG-GTTCTAGATGGT-AAAGGTGC
64 AGGCCAGCAACATTGGTCTTAGAGAT-GTCAAAGATGC
*
1451842 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAG
1451881 GTGCCACGGA
Statistics
Matches: 669, Mismatches: 74, Indels: 56
0.84 0.09 0.07
Matches are distributed among these distances:
82 30 0.04
83 2 0.00
85 1 0.00
86 3 0.00
87 234 0.35
88 74 0.11
89 4 0.01
90 4 0.01
91 70 0.10
92 2 0.00
94 1 0.00
95 1 0.00
98 1 0.00
99 75 0.11
100 2 0.00
101 164 0.25
102 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (100 bp):
CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAGATGCCAATGTGCTGATTCAAG
GCCAGCAACATTGGTCTTAGAGATGTCAAAGATGC
Found at i:1451418 original size:48 final size:46
Alignment explanation
Indices: 1451347--1451878 Score: 412
Period size: 48 Copynumber: 11.9 Consensus size: 46
1451337 TATTGGACTT
* * *
1451347 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT-AAGA-AAG
*
1451395 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAGAAAG
* * *
1451434 GTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGTCTTAGAGATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTA-AGA-AAG
* *
1451482 GTGCCAATATGCAGATTTAAGGCCAGCGATATTGGGT-TT-------
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGTCTTAAGAAAG
* * * *
1451521 GCGCCAATGTGCTGATTCAAAGCCAGCGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTA-AGA-AAG
1451569 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGT-TT-------
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGTCTTAAGAAAG
* * * *
1451608 GTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGTCTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT-AAGA--AAG
* * * *
1451657 GTGTCAATATGCTAATTCAAGGCCAGGGATATTGGGCTT-------
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAGAAAG
* *
1451696 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT---AAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAGAAAG
* * *
1451739 GTGCCAATGTGCTGATTTAAGGCCAGCGATATTGGTCTTAAAGACATG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT-AAGA-AAG
1451787 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGT-TCTAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGTCT-TA-A--G-AAAG
*
1451838 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAA
1451879 AGGTGCCACG
Statistics
Matches: 389, Mismatches: 47, Indels: 95
0.73 0.09 0.18
Matches are distributed among these distances:
38 6 0.02
39 129 0.33
43 37 0.10
47 1 0.00
48 131 0.34
49 43 0.11
50 4 0.01
51 37 0.10
52 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (46 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAGAAAG
Found at i:1451436 original size:87 final size:87
Alignment explanation
Indices: 1451256--1451872 Score: 735
Period size: 87 Copynumber: 7.0 Consensus size: 87
1451246 AAAGATGAAG
* * * **
1451256 GTGCCAATGTGCTGATTCAAGGCCGGCAACATTGGACTTAAAGATGTCCAAGACGCCAATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA----CAAGGTGCCAATATGCT
*
1451321 GATTCAAGGCCAGCGATATTGGACTT
62 GATTCAAGGCCAGCGATATTGGGCTT
*
1451347 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1451412 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * *
1451434 GTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGTCTTAGAGATAAGGTGCCAATATGCAGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
1451499 TAAGGCCAGCGATATTGGGTTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
1451521 GCGCCAATGTGCTGATTCAAAGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1451586 CAAGGCCAGCGATATTGGGTTT
66 CAAGGCCAGCGATATTGGGCTT
* * * * *
1451608 GTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGTCTTAAAGATGAAGGTGTCAATATGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
*
1451673 TCAAGGCCAGGGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * *
1451696 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATGTGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
1451756 TAAGGCCAGCGATATTGGTCTTAAAGACATG
66 CAAGGCCAGCGATATTGG-------G-C-TT
* * *
1451787 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGT-TCTAGATGGTA-AAGGTGCCAATATGC
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGTCT-TA-A-AG-ACAAGGTGCCAATATGC
1451850 TGATTCAAGGCCAGCGATATTGG
61 TGATTCAAGGCCAGCGATATTGG
1451873 ACTTAAAGGT
Statistics
Matches: 463, Mismatches: 44, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
82 33 0.07
84 1 0.00
87 240 0.52
88 73 0.16
89 1 0.00
90 1 0.00
91 74 0.16
92 3 0.01
99 37 0.08
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:1451858 original size:51 final size:49
Alignment explanation
Indices: 1451696--1451880 Score: 201
Period size: 51 Copynumber: 3.9 Consensus size: 49
1451686 TATTGGGCTT
* *
1451696 GTGCCAATGTGCTGATTCAAGGCCAGCGATATT-GGAC-T----TAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTCTTAAAGTAAAG
* * *
1451739 GTGCCAATGTGCTGATTTAAGGCCAGCGATATT-GGTCTTAAAG-ACATG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTCTTAAAGTA-AAG
*
1451787 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGT-TCTAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTCT-TA-A-AGTAAAG
*
1451838 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTCTTAAAG
1451881 GTGCCACGGA
Statistics
Matches: 121, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
43 35 0.29
44 1 0.01
47 1 0.01
48 35 0.29
49 6 0.05
50 5 0.04
51 37 0.31
52 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTCTTAAAGTAAAG
Found at i:1452020 original size:27 final size:27
Alignment explanation
Indices: 1451990--1452128 Score: 109
Period size: 27 Copynumber: 4.6 Consensus size: 27
1451980 AGATGTCACT
1451990 GAGTTGTGGACTTAAAAGGGTGCCACG
1 GAGTTGTGGACTTAAAAGGGTGCCACG
*
1452017 GAGTTGTGGACTTAAAAGGAAAAAAAGTGCTACG
1 GAGTTGTGGACTTAAAAGG-------GTGCCACG
*
1452051 GAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACG
1 GAGTTGTGGAC-TT-AAAAG-----GGTGCCACG
1452085 GAGTTGTGGACTTACAAA-GGTGCCACG
1 GAGTTGTGGACTTA-AAAGGGTGCCACG
*
1452112 GAGTTGTGGGCTTAAAA
1 GAGTTGTGGACTTAAAA
1452129 AGAAAAAAAG
Statistics
Matches: 92, Mismatches: 5, Indels: 31
0.72 0.04 0.24
Matches are distributed among these distances:
26 3 0.03
27 41 0.45
32 1 0.01
33 5 0.05
34 34 0.37
35 2 0.02
36 5 0.05
41 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.33, T:0.22
Consensus pattern (27 bp):
GAGTTGTGGACTTAAAAGGGTGCCACG
Found at i:1452052 original size:34 final size:33
Alignment explanation
Indices: 1452003--1452669 Score: 409
Period size: 34 Copynumber: 20.8 Consensus size: 33
1451993 TTGTGGACTT
*
1452003 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * * *
1452036 AAAAAAAGTGCTACGGAGTTGTGGGCTTTAAAAAG
1 -AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
1452071 AAAAAGGTGCCACGGAGTTGTGGACTT------
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
1452098 ACAAAGGTGCCACGGAGTTGTGGGCTTAAAAAGA
1 AAAAAGGTGCCACGGAGTTGTGGACTT-AAAAGG
* * * *
1452132 AAAAAAGTGCCACGAAGTTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
**
1452166 AAAAAGGGTGCCACAAAGTTGTGGACTTAAAA-G
1 AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
1452199 -----GGTGCCACAGAGTGGTCGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* * *
1452228 -AAAATGTGCCACAGAGTTGTGGACTTAAGAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * * *
1452260 AACAAGGGTGCTACGGAGTCGTGGACTTAAAAAG
1 AA-AAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
1452294 -AAAAGGTGCCACGAAGTTGTGGGCTTATAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
1452325 -----GGTGCCACAGAGTTATGGACTTAAAAGA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * * *
1452353 AAAAAGATGCCACAGAGTTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
*
1452387 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* ** *
1452420 AAAAAGAGTGCCATGGAGTTGTGGGTTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGT-GGACTTAAAAGG
1452455 AAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-G
1 AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
* *
1452488 -----GGTGCCACAGAGTGGTGGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* *
1452517 -AAAAGGTGCCACAGAGTTGTGGACTTAAGAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * * **
1452549 AACAAGGGCGCCACGGAGTCGTGGACTTGGAA-G
1 AA-AAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
1452582 -AAAAGAGTGCCACTGAGTCGTGGACTT---A-G
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
* * **
1452611 AAAAGAGATGCCACTGAGTTGTGGACTTTGAA-G
1 AAAA-AGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
1452644 -AAAAGATGCCACTGAGTCGTGGACTT
1 AAAAAGGTGCCACGGAGTTGTGGACTT
1452670 TGAAGAAAAG
Statistics
Matches: 513, Mismatches: 76, Indels: 91
0.75 0.11 0.13
Matches are distributed among these distances:
27 81 0.16
28 4 0.01
29 12 0.02
30 22 0.04
31 34 0.07
32 52 0.10
33 76 0.15
34 177 0.35
35 54 0.11
36 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.20
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:1452089 original size:95 final size:95
Alignment explanation
Indices: 1451908--1452576 Score: 530
Period size: 95 Copynumber: 7.0 Consensus size: 95
1451898 CCTTACAGGA
* * * * * ** *
1451908 AAAAGGGATGCGACGGAGGTGGGGGCTTAAAAGGGAGAAGGGTGCCACGGAGTTGT-GAATTTAA
1 AAAAGGG-TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGACTTTAA
* * * *
1451972 AAGGAAAAAGATGTCACTGAGTTGTGGACTT
65 AAAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
1452003 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAGTGCTACGGAGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGACTTTAAA
1452068 AAGAAAAAGGTGCCACGGAGTTGTGGACTT
66 AAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
1452098 ACAAA-GGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAAAGTGCCACGAAGTTGTGGGCTTTAA
1 A-AAAGGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGACTTTAA
**
1452162 AAAGAAAAAGGGTGCCACAAAGTTGTGGACTT
65 AAAGAAAAA-GGTGCCACGGAGTTGTGGACTT
* * * * * *
1452194 AAAAGGGTGCCACAGAGTGGTCGACTTTGAAAA-G--AAAATGTGCCACAGAGTTGTGGAC-TTA
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT-AAAAGGAAAAAAAGTGCCACGGAGTTGTGGACTTTA
* * * * *
1452255 AGAGGAACAAGGGTGCTACGGAGTCGTGGACTT
64 AAAAGAA-AAAGGTGCCACGGAGTTGTGGACTT
* * * *
1452288 AAAAAGAAAAGGTGCCACGAAGTTGTGGGCTTATAAGG-------GTGCCACAGAGTTATGGAC-
1 -AAAAG----GGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGACT
* * *
1452345 TT-AAAAGAAAAAAGATGCCACAGAGTTGTGGGCTTT
61 TTAAAAAG-AAAAAGGTGCCACGGAGTTGTGGAC-TT
* * **
1452381 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGT
1 -AAAAG-----GGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGAC
1452446 TTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGACTT
60 TTTAAAAAGAAAAA-GGTGCCACGGAGTTGTGGACTT
* * * * *
1452483 AAAAGGGTGCCACAGAGTGGTGGACTTTGAAAA-G--AAAAGGTGCCACAGAGTTGTGGAC-TTA
1 AAAAGGGTGCCACGGAGTTGTGGGC-TT-AAAAGGAAAAAAAGTGCCACGGAGTTGTGGACTTTA
* * * * *
1452544 AGAGGAACAAGGGCGCCACGGAGTCGTGGACTT
64 AAAAGAA-AAAGGTGCCACGGAGTTGTGGACTT
1452577 GGAAGAAAAG
Statistics
Matches: 470, Mismatches: 75, Indels: 59
0.78 0.12 0.10
Matches are distributed among these distances:
92 20 0.04
93 30 0.06
94 123 0.26
95 155 0.33
96 57 0.12
97 9 0.02
98 11 0.02
99 15 0.03
101 19 0.04
102 9 0.02
103 22 0.05
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.20
Consensus pattern (95 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGACTTTAAA
AAGAAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:1452246 original size:60 final size:58
Alignment explanation
Indices: 1452161--1452384 Score: 189
Period size: 60 Copynumber: 3.6 Consensus size: 58
1452151 GTGGGCTTTA
* * *
1452161 AAAAGAAAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACAGAGTGGTCGACTTT
1 AAAAGAAAAA--GTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTCGTGGAC-TT
* * *
1452222 GAAAAGAAAATGTGCCACAGAGTTGTGGACTTAAGAGGAACAAGGGTGCTACGGAGTCGTGGACT
1 -AAAAGAAAAAGTGCCACAGAGTTGTGGACTT------AA-AAGGGTGCCACAGAGTCGTGGACT
1452287 T
58 T
* * * **
1452288 AAAAAGAAAAGGTGCCAC-GAAGTTGTGGGCTTATAAGGGTGCCACAGAGTTATGGACTT
1 -AAAAGAAAAAGTGCCACAG-AGTTGTGGACTTAAAAGGGTGCCACAGAGTCGTGGACTT
*
1452347 AAAAGAAAAAAGATGCCACAGAGTTGTGGGCTTTAAAA
1 AAAAG-AAAAAG-TGCCACAGAGTTGTGGAC-TTAAAA
1452385 AGAAAAAGGT
Statistics
Matches: 134, Mismatches: 16, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
58 5 0.04
59 26 0.19
60 37 0.28
61 6 0.04
62 9 0.07
65 1 0.01
66 31 0.23
67 19 0.14
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (58 bp):
AAAAGAAAAAGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTCGTGGACTT
Found at i:1452326 original size:126 final size:125
Alignment explanation
Indices: 1452104--1452444 Score: 407
Period size: 126 Copynumber: 2.7 Consensus size: 125
1452094 ACTTACAAAG
* * *
1452104 GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAAAGTGCCACGAAGTTGTGGGCTTTAAAAAGAAA
1 GTGCCACAGAGTTGTGGGCTTAAAAAG-AAAAAGGTGCCACGGAGTTGTGGGC-TTAAAAAGAAA
* * * *
1452169 AAGGGTGCCACAAAGTTGTGGACTTAAAAGGGTGCCACAGAGTGGTCGACTTTGAAAAG-AAAAT
64 AA-GGTGCCACGAAGTTGTGGGCTTAAAAGGGTGCCACAGAGTGATCGAC-TT-AAAAGAAAAAA
* * * * * * *
1452233 GTGCCACAGAGTTGTGGACTTAAGAGGAACAAGGGTGCTACGGAGTCGTGGACTTAAAAAG-AAA
1 GTGCCACAGAGTTGTGGGCTTAAAAAGAA-AAAGGTGCCACGGAGTTGTGGGCTTAAAAAGAAAA
* * *
1452297 AGGTGCCACGAAGTTGTGGGCTTATAAGGGTGCCACAGAGTTATGGACTTAAAAGAAAAAA
65 AGGTGCCACGAAGTTGTGGGCTTAAAAGGGTGCCACAGAGTGATCGACTTAAAAGAAAAAA
*
1452358 GATGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAAA
1 G-TGCCACAGAGTTGTGGGC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAGAAA
* *
1452423 AAGAGTGCCATGGAGTTGTGGG
64 AAG-GTGCCACGAAGTTGTGGG
1452445 TTTTAAAAAG
Statistics
Matches: 179, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
124 5 0.03
125 7 0.04
126 84 0.47
127 17 0.09
128 26 0.15
129 40 0.22
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (125 bp):
GTGCCACAGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAA
GGTGCCACGAAGTTGTGGGCTTAAAAGGGTGCCACAGAGTGATCGACTTAAAAGAAAAAA
Found at i:1452346 original size:93 final size:94
Alignment explanation
Indices: 1452233--1452419 Score: 252
Period size: 93 Copynumber: 2.0 Consensus size: 94
1452223 AAAAGAAAAT
* * * * * * *
1452233 GTGCCACAGAGTTGTGGACTTAAGAGGAACAAGGGTGCTACGGAGTCGTGGAC-TTAAAAAG-AA
1 GTGCCACAGAGTTATGGACTTAA-AAGAAAAAAGATGCCACAGAGTCGTGGACTTTAAAAAGAAA
*
1452296 AAGGTGCCACGAAGTTGTGGGCTTATAAGG
65 AAGGTGCCACGAAGTTGTGGGCTTAAAAGG
* *
1452326 GTGCCACAGAGTTATGGACTTAAAAGAAAAAAGATGCCACAGAGTTGTGGGCTTTAAAAAGAAAA
1 GTGCCACAGAGTTATGGACTTAAAAGAAAAAAGATGCCACAGAGTCGTGGACTTTAAAAAGAAAA
*
1452391 AGGTGCCACGGAGTTGTGGGCTTAAAAGG
66 AGGTGCCACGAAGTTGTGGGCTTAAAAGG
1452420 AAAAAGAGTG
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
92 21 0.26
93 30 0.37
94 30 0.37
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.20
Consensus pattern (94 bp):
GTGCCACAGAGTTATGGACTTAAAAGAAAAAAGATGCCACAGAGTCGTGGACTTTAAAAAGAAAA
AGGTGCCACGAAGTTGTGGGCTTAAAAGG
Found at i:1452567 original size:129 final size:128
Alignment explanation
Indices: 1452003--1452792 Score: 409
Period size: 129 Copynumber: 6.2 Consensus size: 128
1451993 TTGTGGACTT
* * * * * *
1452003 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAGTGCTACGGAGTTGTGGGCTTTAAA
1 AAAA-GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGCGCCACGGAGTCGTGGAC-TT-AA
* * * * *
1452068 AAGAAAA-AGGTGCCACGGAGTTGTGGACTTACAAAG-G-TGCCACGGAGTTGTGGGC-TTAAAA
63 AAGAAAAGA-GTGCCACGGAGTCGTGGACTTAAAAAGAGATGCCACAGAGTTGTGGACTTTGAAA
1452129 AG
127 AG
* * * * * ** *
1452131 AAAAAAAGTGCCAC-GAAGTTGTGGGCTTTAAAAAGAAAAAGGGTGCCACAAAGTTGTGGACTTA
1 --AAAAGGTGCCACAG-AGTTGTGGAC-TTAAAAGGAAAAAGAGCGCCACGGAGTCGTGGACTTA
* * * * *
1452195 AAAG----G-GTGCCACAGAGTGGTCGACTTTGAAAAGAAAATGTGCCACAGAGTTGTGGAC-TT
62 AAAGAAAAGAGTGCCACGGAGTCGTGGAC-TTAAAAAG-AGA--TGCCACAGAGTTGTGGACTTT
*
1452254 -AAGAGG
123 GAA-AAG
* * * * * * * * *
1452260 AACAAGGGTGCTACGGAGTCGTGGACTTAAAAAG-AAAAG-GTGCCACGAAGTTGTGGGCTTATA
1 AA-AA-GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGCGCCACGGAGTCGTGGACTTAAA
* ** * * *
1452323 AG----G-GTGCCACAGAGTTATGGACTTAAAAGAAAAAAGATGCCACAGAGTTGTGGGCTTTAA
64 AGAAAAGAGTGCCACGGAGTCGTGGACTT---A-AAAAGAGATGCCACAGAGTTGTGGACTTTGA
1452383 AAAG
125 AAAG
* * * * * **
1452387 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATGGAGTTGTGGGTTTTAAA
1 -AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGCGCCACGGAGTCGT-GGACTT-AA
* * * *
1452452 AAGAAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAG-GGTGCCACAGAGTGGTGGACTTTGAAA
63 AAG-AAAAGAGTGCCACGGAGTCGTGGACTTAAAAAGAGATGCCACAGAGTTGTGGACTTTGAAA
1452515 AG
127 AG
* * * **
1452517 AAAAGGTGCCACAGAGTTGTGGACTTAAGAGGAACAAGGGCGCCACGGAGTCGTGGACTTGGAAG
1 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGCGCCACGGAGTCGTGGACTTAAAAG
* *
1452582 AAAAGAGTGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTG--AAG
66 AAAAGAGTGCCACGGAGTCGTGGACTTA-AAAAGAGATGCCACAGAGTTGTGGACTTTGAAAAG
* * * ** * * * ***
1452644 AAAAGATGCCACTGAGTCGTGGACTTTGAA-G-AAAAGA-TGCCACTGAGTCATGGACTT-TGGG
1 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGCGCCACGGAGTCGTGGACTTAAAAG
** * * * * *
1452705 AAGGGA-TGCCACTGAGTTGTGGACTTTGAAGAAA-AAATGCCATAGAGTCGTGGACTTTG--AA
66 AAAAGAGTGCCACGGAGTCGTGGAC-TT-AA-AAAGAGATGCCACAGAGTTGTGGACTTTGAAAA
1452766 G
128 G
* * *
1452767 AAAAGATGCCACGGAGTCGTGGACTT
1 AAAAGGTGCCACAGAGTTGTGGACTT
1452793 TGAAGAAAAG
Statistics
Matches: 535, Mismatches: 89, Indels: 79
0.76 0.13 0.11
Matches are distributed among these distances:
122 17 0.03
123 73 0.14
124 27 0.05
125 6 0.01
126 106 0.20
127 48 0.09
128 46 0.09
129 127 0.24
130 61 0.11
131 4 0.01
135 1 0.00
136 19 0.04
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.21
Consensus pattern (128 bp):
AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGCGCCACGGAGTCGTGGACTTAAAAG
AAAAGAGTGCCACGGAGTCGTGGACTTAAAAAGAGATGCCACAGAGTTGTGGACTTTGAAAAG
Done.