Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold80
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: 1499392
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.28
Warning! 217494 characters in sequence are not A, C, G, or T
File 6 of 8
Found at i:821137 original size:19 final size:19
Alignment explanation
Indices: 821094--821166 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
821084 CACACCTAGA
*
821094 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
821114 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
821133 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
821153 TGTATCGATACATG
1 TGTATCGATACATG
821167 AAACTGACAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:821319 original size:19 final size:20
Alignment explanation
Indices: 821295--821332 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
821285 ATAATTTCAA
*
821295 ATCAA-TGTTTCGATACATT
1 ATCAATTGTATCGATACATT
821314 ATCAATTGTATCGATACAT
1 ATCAATTGTATCGATACAT
821333 GGCTACGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
ATCAATTGTATCGATACATT
Found at i:822104 original size:4 final size:4
Alignment explanation
Indices: 822090--822121 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
822080 CCAATTAAAT
822090 ATAA GATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATA
822122 TAAAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:822466 original size:165 final size:166
Alignment explanation
Indices: 822257--822719 Score: 510
Period size: 165 Copynumber: 2.8 Consensus size: 166
822247 ATATATGCAA
* * * * * * * * *
822257 AAAAATTCAAAATTCATG-AAATAATTTGAAATTTTCAAAACTGATTTAATGTGGATTTAATAAC
1 AAAAATTGAAAACTCATGAAAATAA-ATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
* *
822321 AATATTAGATGAATTTTAAAAATTTAAAACTAAGAAAAATCTTTCTAAAAACATTTACGGAGTAG
65 AATATTTGATGAATTTTAAAAATTTAAAACTAAAAAAAATCTTTCTAAAAACATTTACGGAGTAG
* * * * *
822386 AAAATTCAGTTTTTTGGTAATA-AAGAAATT-TGAAAG
130 AAAACTCAGTATTTCGGAAATAGAAAAAATTCT-AAAG
* * *
822422 AAAAATTGAAAACTCACGAAAATAAGTGAATTTTTGAAAACTGATTTAATATGAATGAAATAATA
1 AAAAATTGAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATA
* * * * * *
822487 ATATTTGATGAATTTTAAAAATTAAAAACCAAAAAAAATC-TCCTCAAAACATTTACCGAATAGA
66 ATATTTGATGAATTTTAAAAATTTAAAACTAAAAAAAATCTTTCTAAAAACATTTACGGAGTAGA
* *
822551 AAACTCCGTATTTCGGAAATAGAAAAAATTCTAAGG
131 AAACTCAGTATTTCGGAAATAGAAAAAATTCTAAAG
* *
822587 AAAAA-TGAAAAACTCATGAAAATAAATGAATTTTTGAAAATTGA-TTAGTATGAATTAAATAAT
1 AAAAATTG-AAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
* * * * * *
822650 AATATTTGATGAATTTTAAAAATTTTAAA-TCAATAAAAATCCTCTCGAAAAA-ATTTACGAAGA
65 AATATTTGATGAATTTTAAAAATTTAAAACT-AAAAAAAAT-CTTTCTAAAAACATTTACGGAGT
822713 AGAAAAC
128 AGAAAAC
822720 CTCGTAATTT
Statistics
Matches: 248, Mismatches: 43, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
164 90 0.36
165 146 0.59
166 12 0.05
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (166 bp):
AAAAATTGAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATA
ATATTTGATGAATTTTAAAAATTTAAAACTAAAAAAAATCTTTCTAAAAACATTTACGGAGTAGA
AAACTCAGTATTTCGGAAATAGAAAAAATTCTAAAG
Found at i:822775 original size:164 final size:164
Alignment explanation
Indices: 822283--822832 Score: 397
Period size: 165 Copynumber: 3.3 Consensus size: 164
822273 TGAAATAATT
* * * * * * * * *
822283 TGAAATTTTCAAAACTGATTTAATGTGGATTTAATAACAATATTAGATGAATTTTAAAAATTTAA
1 TGAATTTTTGAAAACTGA-TTAGTATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAA
* * * * ** * * * * ** * *
822348 AACTAAGAAAAATCT-TTCTAAAAACATTTACGGAGTAGAAAATTCAGTTTTTTGGTAATA-AAG
65 AACCAAAAAAAATCTCCTC-AAAAA-ATTTACCGAAAAGAAAACTCCGTATTTCGAAAACAGAAA
** * *
822411 AAATTTGAAAGAAAAATTG-AAAACTCA-CGAAAATAAG
128 AAATTCAAAAGAAAAA-TGAAAAACACATC-AAAATAAA
* *
822448 TGAATTTTTGAAAACTGATTTAATATGAATGAAATAATAATATTTGATGAATTTTAAAAATTAAA
1 TGAATTTTTGAAAACTGA-TTAGTATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAA
* * * *
822513 AACCAAAAAAAATCTCCTCAAAACATTTACCGAATAGAAAACTCCGTATTTCGGAAATAGAAAAA
65 AACCAAAAAAAATCTCCTCAAAAAATTTACCGAAAAGAAAACTCCGTATTTCGAAAACAGAAAAA
* * * *
822578 ATTCTAAGGAAAAATGAAAAACTCATGAAAATAAA
130 ATTCAAAAGAAAAATGAAAAACACATCAAAATAAA
* **
822613 TGAATTTTTGAAAATTGATTAGTATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTTAA
1 TGAATTTTTGAAAACTGATTAGTATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAA
* *
822678 ATCAATAAAAATC-CTCTCGAAAAAATTTA-CGAAGAAGAAAAC-CTCGTAATTT-GAAAACATG
66 ACCAAAAAAAATCTC-CTC-AAAAAATTTACCGAA-AAGAAAACTC-CGT-ATTTCGAAAACA-G
** *
822739 -AGGAATTCCAAAAG-AAAATCG-ATAACACA-CAAAATAAA
125 AAAAAATT-CAAAAGAAAAAT-GAAAAACACATCAAAATAAA
* * * * * *
822777 AGCAATTTTTCAAAACTGATTTG-ATGGAAATTAAATGATAATATTGGAAGAATTTT
1 TG-AATTTTTGAAAACTGATTAGTAT-G-AATTAAATAATAATATTTGATGAATTTT
822833 GATGTTTGAA
Statistics
Matches: 319, Mismatches: 51, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
163 1 0.00
164 103 0.32
165 178 0.56
166 37 0.12
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.31
Consensus pattern (164 bp):
TGAATTTTTGAAAACTGATTAGTATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAA
ACCAAAAAAAATCTCCTCAAAAAATTTACCGAAAAGAAAACTCCGTATTTCGAAAACAGAAAAAA
TTCAAAAGAAAAATGAAAAACACATCAAAATAAA
Found at i:824852 original size:21 final size:21
Alignment explanation
Indices: 824819--824861 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
824809 CAAACTAGTC
824819 AAAATAAATAAA-TAAAAAAT
1 AAAATAAATAAATTAAAAAAT
*
824839 AAAATTAATTAAATTTAAAAAAT
1 AAAA-TAAATAAA-TTAAAAAAT
824862 TCTCCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 7 0.37
23 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATAAATAAATTAAAAAAT
Found at i:833825 original size:20 final size:20
Alignment explanation
Indices: 833800--833894 Score: 138
Period size: 20 Copynumber: 4.7 Consensus size: 20
833790 ATTTGCCTGC
833800 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
833820 ATGTATCGATACATTTGAATA
1 ATGTATCGATACA-TTGAATA
* *
833841 ATGTATTGATACATTGAATG
1 ATGTATCGATACATTGAATA
833861 ATGTATCGATACAATT-AATA
1 ATGTATCGATAC-ATTGAATA
*
833881 ATGTATCGCTACAT
1 ATGTATCGATACAT
833895 CTGGGTAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
19 2 0.03
20 44 0.65
21 22 0.32
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:833852 original size:41 final size:40
Alignment explanation
Indices: 833800--833894 Score: 145
Period size: 41 Copynumber: 2.4 Consensus size: 40
833790 ATTTGCCTGC
*
833800 ATGTATCGATACATTGAATAATGTATCGATACATTTGAATA
1 ATGTATCGATACATTGAATAATGTATCGATACAATT-AATA
* *
833841 ATGTATTGATACATTGAATGATGTATCGATACAATTAATA
1 ATGTATCGATACATTGAATAATGTATCGATACAATTAATA
*
833881 ATGTATCGCTACAT
1 ATGTATCGATACAT
833895 CTGGGTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 16 0.33
41 33 0.67
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (40 bp):
ATGTATCGATACATTGAATAATGTATCGATACAATTAATA
Found at i:834331 original size:20 final size:20
Alignment explanation
Indices: 834305--834359 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
834295 CTGCCAGTTT
834305 CATGTATCGATACAATTGAA-
1 CATGTATCGATACAATT-AAG
* *
834325 TATGTATCTATACAA-TAAG
1 CATGTATCGATACAATTAAG
834344 CATGTATCGATACAAT
1 CATGTATCGATACAAT
834360 GTATTCATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 14 0.48
20 13 0.45
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTAAG
Found at i:1032915 original size:20 final size:19
Alignment explanation
Indices: 1032868--1032917 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
1032858 ACAGAGAATT
* *
1032868 TATCGATACATTCACACAG
1 TATCGATACATTCAAAAAG
* *
1032887 TATCAATACATTGAAAAATG
1 TATCGATACATTCAAAAA-G
1032907 TATCGATACAT
1 TATCGATACAT
1032918 CTGGTAGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (19 bp):
TATCGATACATTCAAAAAG
Found at i:1040725 original size:20 final size:21
Alignment explanation
Indices: 1040700--1040742 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1040690 TCTTTTCCAA
1040700 AAAAGAA-ACAAAAAAAAAAG
1 AAAAGAAGACAAAAAAAAAAG
* *
1040720 AAAAGAAGAGAAGAAAAAAAG
1 AAAAGAAGACAAAAAAAAAAG
1040741 AA
1 AA
1040743 GGGAAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAGAAGACAAAAAAAAAAG
Found at i:1046372 original size:17 final size:17
Alignment explanation
Indices: 1046350--1046383 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1046340 ACATCGATTC
*
1046350 TTGACTGTGGCTTCCTT
1 TTGACTGTGCCTTCCTT
*
1046367 TTGACTTTGCCTTCCTT
1 TTGACTGTGCCTTCCTT
1046384 CTTACCTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.26, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGACTGTGCCTTCCTT
Found at i:1053200 original size:79 final size:79
Alignment explanation
Indices: 1053089--1053292 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 79
1053079 GAGATAATAA
* * * * * ** * *
1053089 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCTCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
*
1053154 -TTAGAAAAAAAAAT
65 TTTAGAAAAAAAAAC
*
1053168 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
* ** * *
1053233 TTTGGGAATAAAGC
66 TTAGAAAAAAAAAC
* *
1053247 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
1053293 GATGAAATAA
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 104 0.99
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
TTAGAAAAAAAAAC
Found at i:1053287 original size:28 final size:28
Alignment explanation
Indices: 1053247--1053318 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1053237 GGAATAAAGC
** *
1053247 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1053275 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1053303 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1053319 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1053310 original size:107 final size:110
Alignment explanation
Indices: 1053168--1053403 Score: 302
Period size: 108 Copynumber: 2.2 Consensus size: 110
1053158 AAAAAAAAAT
* * * *
1053168 CGGGATTGGAGTATCCCC--TCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT
1 CGGGGTTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGTATCCCCAACTATGAAAAATCAAT
* * * *
1053231 A-TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAA
66 ATTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
* * * ***
1053275 CGGGGTTGGAGTATCCCCGAT-G-AAATAACGAGGTTGGAGTATCCTCGACTGTGAAAAATTGGT
1 CGGGGTTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGTATCCCCAACTATGAAAAATCAAT
*
1053338 ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAA
66 ATTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
1053383 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1053404 TGTGAAGAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
107 50 0.45
108 60 0.54
109 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (110 bp):
CGGGGTTGGAGTATCCCCGATCGAAAATAACGAGGTTGGAGTATCCCCAACTATGAAAAATCAAT
ATTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAA
Found at i:1053452 original size:82 final size:80
Alignment explanation
Indices: 1053279--1053456 Score: 275
Period size: 80 Copynumber: 2.2 Consensus size: 80
1053269 AAGTAACGGG
* *
1053279 GTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTT
1 GTTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCCCGACTGTGAAAAATTGGTATTTTT
1053344 GGAAATAAAATCGGA
66 GGAAATAAAATCGGA
** * * *
1053359 GTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTT
1 GTTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCCCGACTGTGAA-AAATTGGT-ATTT
1053424 TTGGAAATAAAATCGGA
64 TTGGAAATAAAATCGGA
1053441 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
1053457 TTATAGAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 45 0.52
81 8 0.09
82 34 0.39
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (80 bp):
GTTGGAGTATCCCCGAGGAAATAACGAGGTTGGAGTATCCCCGACTGTGAAAAATTGGTATTTTT
GGAAATAAAATCGGA
Found at i:1053454 original size:54 final size:51
Alignment explanation
Indices: 1053387--1053517 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 51
1053377 AAATAACGGG
* * *
1053387 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TCTTGAAAATAAAATCGGA
*
1053441 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGTGTCTTGAAAATAAAATCGGA
*
1053492 GTTGGAATATCCCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
1053518 TTGAGAAACT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
51 35 0.51
52 4 0.06
53 10 0.15
54 19 0.28
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGTGTCTTGAAAATAAAATCGGA
Found at i:1055895 original size:13 final size:13
Alignment explanation
Indices: 1055877--1055902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1055867 ATAAAGATCC
1055877 ATGTATCGATACA
1 ATGTATCGATACA
1055890 ATGTATCGATACA
1 ATGTATCGATACA
1055903 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1056497 original size:52 final size:52
Alignment explanation
Indices: 1056419--1056612 Score: 234
Period size: 52 Copynumber: 3.8 Consensus size: 52
1056409 GATTGGCGTT
* *
1056419 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAAC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGTCATC
* *
1056471 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGTCATC
** * * *
1056520 TTTAACACCAGTATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGTCATC
* * *
1056572 TTTAA-TACCCAATGTCGTTGGCTTTGAATCAGCACATTGGC
1 TTTAAGT--CCAATATCGCTGGCCTTGAATCAGCACATTGGC
1056613 ATTCTTCTCA
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
49 40 0.33
50 1 0.01
51 1 0.01
52 50 0.41
53 29 0.24
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (52 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCGCCTTTGTCATC
Found at i:1056553 original size:101 final size:97
Alignment explanation
Indices: 1056292--1056613 Score: 394
Period size: 91 Copynumber: 3.4 Consensus size: 97
1056282 TCTACAAAGA
* *
1056292 CCAATGTCGCTGGCCTTCAATCAGCACATTGGCA--C-CTTTAAGTCCAATATCGCTGGACTTGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTCTCTTTAAGTCCAATATCGCTGGCCTTGA
* * *
1056354 ATCAGCATATTGGC-ACTTTGT--CTGTAAGA
66 ATCAGCATATTGGCGCCTTTGTCACTTTAAGT
* *
1056383 CCAATGTCGCTGGCCTTGAATCAGCAGATTGGC-GT-T-TTTAAGTCCAATATCGCTGGCCTTGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTCTCTTTAAGTCCAATATCGCTGGCCTTGA
1056445 ATCAGCATATTGGCGCCTTTGTCAACTTTAAGT
66 ATCAGCATATTGGCGCCTTTGTC-ACTTTAAGT
** * *
1056478 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAACACCAGTATCGTTGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-TC-TCTTTAAGTCCAATATCGCTGGCCT
1056543 TGAATCAGCATATTGGCGCCTTTGTCATCTTTAA-T
63 TGAATCAGCATATTGGCGCCTTTGTCA-CTTTAAGT
* *
1056578 ACCCAATGTCGTTGGCTTTGAATCAGCACATTGGCA
1 --CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1056614 TTCTTCTCAT
Statistics
Matches: 201, Mismatches: 14, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
91 70 0.35
92 6 0.03
95 38 0.19
98 1 0.00
100 3 0.01
101 51 0.25
102 32 0.16
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (97 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTCTCTTTAAGTCCAATATCGCTGGCCTTGA
ATCAGCATATTGGCGCCTTTGTCACTTTAAGT
Found at i:1056626 original size:53 final size:49
Alignment explanation
Indices: 1056291--1056613 Score: 213
Period size: 43 Copynumber: 6.7 Consensus size: 49
1056281 GTCTACAAAG
* * *
1056291 ACCAATGTCGCTGGCCTTCAATCAGCACATTGGCA----C--CTTTAAG
1 ACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAC
* * * * * * * *
1056334 TCCAATATCGCTGGACTTGAATCAGCATATTGGCACTTT-GTCTGTAAG
1 ACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAC
* * * *
1056382 ACCAATGTCGCTGGCCTTGAATCAGCAGATTGG--C-GT--T-TTTAAG
1 ACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAC
* * * * * * *
1056425 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAACTTTAAG
1 ACCAATGTCGTTGGCCTTGAATCAGCACATTGGC-AC-TT-TCATCTTTAAC
* * *
1056477 TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAC
1 ACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAC
* * * * *
1056526 ACCAGTATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAT
1 ACCAATGTCGTTGGCCTTGAATCAGCACATTGGC-AC-TT-TCATCTTTAAC
*
1056578 ACCCAATGTCGTTGGCTTTGAATCAGCACATTGGCA
1 A-CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1056614 TTCTTCTCAT
Statistics
Matches: 225, Mismatches: 36, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
43 65 0.29
44 1 0.00
45 1 0.00
46 2 0.01
48 35 0.16
49 39 0.17
50 2 0.01
51 2 0.01
52 49 0.22
53 29 0.13
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (49 bp):
ACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAC
Found at i:1057426 original size:19 final size:21
Alignment explanation
Indices: 1057381--1057434 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1057371 TTTCAACAAT
1057381 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACAAATAGTAA
* *
1057402 TTGTATCGATACATA-AGT-G
1 TTGTATCGATACAAATAGTAA
1057421 TTGTATCGATACAA
1 TTGTATCGATACAA
1057435 TGTACCGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (21 bp):
TTGTATCGATACAAATAGTAA
Found at i:1057503 original size:13 final size:13
Alignment explanation
Indices: 1057485--1057512 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1057475 CATTACTCAA
1057485 TGTATCGATACAT
1 TGTATCGATACAT
1057498 TGTATCGATACAT
1 TGTATCGATACAT
1057511 TG
1 TG
1057513 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1057507 original size:33 final size:33
Alignment explanation
Indices: 1057465--1057531 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1057455 GCCAAGGAAA
1057465 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
1057498 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
1057531 T
1 T
1057532 TGGGAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:1059295 original size:13 final size:13
Alignment explanation
Indices: 1059277--1059302 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1059267 CAATTTTTTG
1059277 TGTATCGATACAT
1 TGTATCGATACAT
1059290 TGTATCGATACAT
1 TGTATCGATACAT
1059303 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1059314 original size:32 final size:33
Alignment explanation
Indices: 1059257--1059320 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1059247 TACAAGCCAA
**
1059257 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
1059290 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
1059321 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:1061387 original size:21 final size:20
Alignment explanation
Indices: 1061357--1061400 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1061347 GCGACTAGTG
*
1061357 TGGGACTGCCCGGTTGTGACC
1 TGGGACTG-CCGGTCGTGACC
*
1061378 TGGGAGTGCCGGTCGTGACC
1 TGGGACTGCCGGTCGTGACC
1061398 TGG
1 TGG
1061401 TGGTGCTGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.09, C:0.25, G:0.43, T:0.23
Consensus pattern (20 bp):
TGGGACTGCCGGTCGTGACC
Found at i:1061849 original size:13 final size:13
Alignment explanation
Indices: 1061831--1061855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1061821 ATAATCCCCC
1061831 TGTATCGATACAT
1 TGTATCGATACAT
1061844 TGTATCGATACA
1 TGTATCGATACA
1061856 AAGAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1063947 original size:15 final size:15
Alignment explanation
Indices: 1063927--1063972 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
1063917 ATTTCGTTTG
1063927 GAGCTTCTTCATTTT
1 GAGCTTCTTCATTTT
1063942 GAGCTTCTTCATTTT
1 GAGCTTCTTCATTTT
*
1063957 GAGCTTCCTCATTTT
1 GAGCTTCTTCATTTT
1063972 G
1 G
1063973 GACATTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.13, C:0.22, G:0.15, T:0.50
Consensus pattern (15 bp):
GAGCTTCTTCATTTT
Found at i:1068055 original size:20 final size:20
Alignment explanation
Indices: 1068030--1068081 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
1068020 TACAAGCCAA
**
1068030 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
1068050 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
1068069 TGTATCGATACAA
1 TGTATCGATACAA
1068082 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:1074496 original size:1 final size:1
Alignment explanation
Indices: 1074485--1074546 Score: 61
Period size: 1 Copynumber: 62.0 Consensus size: 1
1074475 ACACACAAAC
* * * * * * *
1074485 AAAAAACAAAAAAAAAAAGAAAACAAAACAAAAAAAAAAACAAAAAACAACAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1074547 GAGAGTGCAA
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.89, C:0.10, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:1074509 original size:17 final size:16
Alignment explanation
Indices: 1074485--1074546 Score: 81
Period size: 17 Copynumber: 3.7 Consensus size: 16
1074475 ACACACAAAC
1074485 AAAAAACAAAAAAAAA
1 AAAAAACAAAAAAAAA
1074501 AAGAAAACAAAACAAAAA
1 AA-AAAACAAAA-AAAAA
1074519 AAAAAACAAAAAACAACA
1 AAAAAACAAAAAA-AA-A
1074537 AAAAAA-AAAA
1 AAAAAACAAAA
1074547 GAGAGTGCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.10
17 24 0.57
18 14 0.33
ACGTcount: A:0.89, C:0.10, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAACAAAAAAAAA
Found at i:1074515 original size:22 final size:21
Alignment explanation
Indices: 1074485--1074548 Score: 101
Period size: 22 Copynumber: 3.0 Consensus size: 21
1074475 ACACACAAAC
1074485 AAAAAACAAAAAAAAAAAGAA
1 AAAAAACAAAAAAAAAAAGAA
*
1074506 AACAAAACAAAAAAAAAAACAA
1 AA-AAAACAAAAAAAAAAAGAA
1074528 AAAACAACAAAAAAAAAAAGA
1 AAAA-AACAAAAAAAAAAAGA
1074549 GAGTGCAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 4 0.10
22 35 0.90
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (21 bp):
AAAAAACAAAAAAAAAAAGAA
Found at i:1074519 original size:24 final size:24
Alignment explanation
Indices: 1074481--1074546 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
1074471 GTAAACACAC
1074481 AAACAAAA-AACAAAAAAAAA-AAGA
1 AAACAAAACAA-AAAAAAAAACAA-A
1074505 AAACAAAACAAAAAAAAAAACAAA
1 AAACAAAACAAAAAAAAAAACAAA
1074529 AAAC--AACAAAAAAAAAAA
1 AAACAAAACAAAAAAAAAAA
1074547 GAGAGTGCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
22 14 0.35
24 22 0.55
25 4 0.10
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (24 bp):
AAACAAAACAAAAAAAAAAACAAA
Found at i:1075877 original size:30 final size:30
Alignment explanation
Indices: 1075832--1075944 Score: 138
Period size: 30 Copynumber: 3.7 Consensus size: 30
1075822 ATACCTTCTT
1075832 AAAGTCCACGACTCAGTGGCATTTTGTCCC
1 AAAGTCCACGACTCAGTGGCATTTTGTCCC
*
1075862 AAAG-CCAATGACTCAGTGGCATTTTGTCCC
1 AAAGTCC-ACGACTCAGTGGCATTTTGTCCC
* * *
1075892 AAAGTCCGCGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTGTC-CC
* * *
1075923 AAAGCCCACAACTCCGTGGCAT
1 AAAGTCCACGACTCAGTGGCAT
1075945 CCTTTTAAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
29 2 0.03
30 48 0.68
31 21 0.30
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCCC
Found at i:1075983 original size:34 final size:34
Alignment explanation
Indices: 1075944--1076265 Score: 216
Period size: 33 Copynumber: 9.8 Consensus size: 34
1075934 CTCCGTGGCA
* * *
1075944 TCCTTTTAAAGTCCACAAGC-CCGTGGCACCTTGT
1 TCCTTTTAAAGTCCACAA-CTCTGTGGCATCTTTT
*
1075978 TCCTTTT-AAGTCCATAACTCTGTGGCATCTTTT
1 TCCTTTTAAAGTCCACAACTCTGTGGCATCTTTT
**
1076011 TCC-TTTAAAACCCACAACTCTGTGGCAATCTTTT
1 TCCTTTTAAAGTCCACAACTCTGTGGC-ATCTTTT
* *
1076045 TCTTTTTAAAGTCCACAACT-TCGTGGCATCTCTT
1 TCCTTTTAAAGTCCACAACTCT-GTGGCATCTTTT
* * *
1076079 TCC-CTCAAAGTCCACAACTCAGTGGCATCCCTTTT
1 TCCTTTTAAAGTCCACAACTCTGTGGCAT--CTTTT
* *
1076114 TCC-TGT-AAGTCCACAACTCAGTGGCATCTCTTT
1 TCCTTTTAAAGTCCACAACTCTGTGGCATCT-TTT
* * *
1076147 T-C---T-AAGTCCACGATTCCGTGGCA-CTTTTT
1 TCCTTTTAAAGTCCACAACTCTGTGGCATC-TTTT
* * *
1076176 TCTTTTTAAAGCCCACAACTCCGTGGCA-C----
1 TCCTTTTAAAGTCCACAACTCTGTGGCATCTTTT
* *
1076205 -CCTTTT-AAGTCCACAACTCCGTGGCATCTTTC
1 TCCTTTTAAAGTCCACAACTCTGTGGCATCTTTT
* * *
1076237 TCCTTTTCAAAGCCCACAAGTCAGTGGCA
1 TCCTTTT-AAAGTCCACAACTCTGTGGCA
1076266 ACCTTCAAAA
Statistics
Matches: 234, Mismatches: 31, Indels: 45
0.75 0.10 0.15
Matches are distributed among these distances:
27 19 0.08
28 6 0.03
29 5 0.02
30 19 0.08
32 7 0.03
33 71 0.30
34 64 0.27
35 43 0.18
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.34
Consensus pattern (34 bp):
TCCTTTTAAAGTCCACAACTCTGTGGCATCTTTT
Found at i:1076143 original size:67 final size:64
Alignment explanation
Indices: 1075872--1076265 Score: 232
Period size: 61 Copynumber: 6.2 Consensus size: 64
1075862 AAAGCCAATG
* * * *
1075872 ACTCAGTGGCAT-T-TTGTCC-CAAAGTCCGCGACTCAGTGGCAT-TTTTT-CTTCAAAGCCCAC
1 ACTCAGTGGCATCTCTT-TCCTCAAAGTCCACAACTCAGTGGCATCTTTTTCCTT-TAAGTCCAC
1075932 A
64 A
* * * * *
1075933 ACTCCGTGGCATC-CTTT--T-AAAGTCCACAAGC-CCGTGGCACCTTGTTCCTTTTAAGTCCAT
1 ACTCAGTGGCATCTCTTTCCTCAAAGTCCACAA-CTCAGTGGCATCTTTTTCC-TTTAAGTCCAC
1075993 A
64 A
* * * ** * *
1075994 ACTCTGTGGCATCTTTTTCCTTTAAAACCCACAACTCTGTGGCAATCTTTTTCTTTTTAAAGTCC
1 ACTCAGTGGCATCTCTTTCC-TCAAAGTCCACAACTCAGTGGC-ATCTTTTTC-CTTT-AAGTCC
1076059 ACA
62 ACA
*
1076062 ACTTC-GTGGCATCTCTTTCCCTCAAAGTCCACAACTCAGTGGCATCCCTTTTTCCTGTAAGTCC
1 AC-TCAGTGGCATCTCTTT-CCTCAAAGTCCACAACTCAGTGGCAT--CTTTTTCCTTTAAGTCC
1076126 ACA
62 ACA
* * * * * *
1076129 ACTCAGTGGCATCTCTTT--TCTAAGTCCACGATTCCGTGGCA-CTTTTTTCTTTTTAAAGCCCA
1 ACTCAGTGGCATCTCTTTCCTCAAAGTCCACAACTCAGTGGCATC-TTTTTC-CTTT-AAGTCCA
1076191 CA
63 CA
* * * * *
1076193 ACTCCGTGGCA-CCCTTT--T--AAGTCCACAACTCCGTGGCATCTTTCTCCTTTTCAAAGCCCA
1 ACTCAGTGGCATCTCTTTCCTCAAAGTCCACAACTCAGTGGCATCTTTTTCC-TTT--AAGTCCA
1076253 CA
63 CA
*
1076255 AGTCAGTGGCA
1 ACTCAGTGGCA
1076266 ACCTTCAAAA
Statistics
Matches: 266, Mismatches: 40, Indels: 53
0.74 0.11 0.15
Matches are distributed among these distances:
59 16 0.06
60 5 0.02
61 59 0.22
62 33 0.12
63 8 0.03
64 37 0.14
65 2 0.01
66 17 0.06
67 36 0.14
68 42 0.16
69 11 0.04
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.33
Consensus pattern (64 bp):
ACTCAGTGGCATCTCTTTCCTCAAAGTCCACAACTCAGTGGCATCTTTTTCCTTTAAGTCCACA
Found at i:1076372 original size:49 final size:49
Alignment explanation
Indices: 1076302--1077032 Score: 644
Period size: 49 Copynumber: 14.8 Consensus size: 49
1076292 GGCATCTTAT
* *
1076302 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGCC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGCC
*
1076351 TTT-AGTACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA------CC
1 TTTAAGT-CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGCC
* * * * *
1076394 TTTAAGTCCAATATTGCTGGCCTTGAATTAGCATATTGGCACCGTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGCC
* *
1076443 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA------CC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGCC
* **
1076486 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTG-C--C
* *
1076538 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGCC
* * **
1076587 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGTCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTG-C--C
* * * ***
1076639 TTTAAGTCCGATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGCC
* * * *
1076688 TTTAAGTTCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTG-C--C
* * ***
1076740 TTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGCC
* * * **
1076789 TTTAAGACCAGTATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTG-C--C
* ***
1076841 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGCC
* * * * **
1076890 TTTAAGACCAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTTATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-T--TTGCC
** * * *
1076942 TTTAAAACCTAATGTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCT-CATC
1 TTTAAGTCC-AATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTT-TGC--C
* * * * *
1076995 TTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
1077033 ACGTCCTTTT
Statistics
Matches: 550, Mismatches: 98, Indels: 65
0.77 0.14 0.09
Matches are distributed among these distances:
43 73 0.13
44 3 0.01
48 3 0.01
49 230 0.42
50 3 0.01
51 2 0.00
52 201 0.37
53 34 0.06
54 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGCC
Found at i:1076563 original size:52 final size:52
Alignment explanation
Indices: 1076485--1077037 Score: 610
Period size: 52 Copynumber: 10.8 Consensus size: 52
1076475 ACATTGGCAC
* *
1076485 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* * *
1076537 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-ACCTT-T-AC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* * *
1076586 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGTCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* * * *
1076638 CTTTAAGTCCGATGTCGCTAGCCTTGAATCAGCACATTGGC-AC-CT-TCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* * * * *
1076687 CTTTAAGTTCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* * *
1076739 CTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGC-AC-CT-TCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* * * *
1076788 CTTTAAGACCAGTATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* *
1076840 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGC-AC-CT-TCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
* * * * * * *
1076889 CTTTAAGACCAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTTAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
** * * *
1076941 CTTTAAAACCTAATGTCGTTGGCCTTGAATCAGCACATTGGCAT-TCTTCTCAT
1 CTTTAAGTCC-AATGTCGCTGGCCTTGAATCAGCACATTGGCGTCT-TTGTCAT
* * * * *
1076994 CTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACGTC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGTC
1077038 CTTTTTCTCA
Statistics
Matches: 413, Mismatches: 73, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
49 159 0.38
50 10 0.02
51 9 0.02
52 198 0.48
53 37 0.09
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGTCTTTGTCAT
Found at i:1076632 original size:101 final size:101
Alignment explanation
Indices: 1076302--1077037 Score: 943
Period size: 101 Copynumber: 7.4 Consensus size: 101
1076292 GGCATCTTAT
* **
1076302 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTG-C--CTTT-AGTACCAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGT-CCAAT
1076363 GTCGCTGGCCTTGAATCAGCACATTGG------CACC
65 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * ** * *
1076394 TTTAAGTCCAATATTGCTGGCCTTGAATTAGCATATTGGCACCGTTG---TCTTTAAGACCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATG
1076456 TCGCTGGCCTTGAATCAGCACATTGG------CACC
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
1076486 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATG
*
1076551 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTACC
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* *
1076587 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCGTCTTTGTCATCTTTAAGTCCGATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATG
* *
1076652 TCGCTAGCCTTGAATCAGCACATTGGCACCTTCATC
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * *
1076688 TTTAAGTTCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATG
* *
1076753 TCGCTGGCCTTGAATTAGCACATTGGCACCTTCATC
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* *
1076789 TTTAAGACCAGTATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATG
*
1076854 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
66 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * * * * **
1076890 TTTAAGACCAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTTATCTTTAAAACCTAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCC-AAT
* * *
1076955 GTCGTTGGCCTTGAATCAGCACATTGGCATTCTTCTCATC
65 GTCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCACC
* * * * * * *
1076995 TTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTC
1077038 CTTTTTCTCA
Statistics
Matches: 582, Mismatches: 47, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
92 125 0.21
93 2 0.00
95 40 0.07
101 344 0.59
102 31 0.05
104 2 0.00
105 38 0.07
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (101 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATG
TCGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
Found at i:1077753 original size:21 final size:21
Alignment explanation
Indices: 1077729--1077803 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1077719 TTTCAACAAT
1077729 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
*
1077750 TTGTATCGATACAAACAATAA
1 TTGTATCGATACAAACAGTAA
* * *
1077771 TTGTATCAATACATA-AGT-G
1 TTGTATCGATACAAACAGTAA
1077790 TTGTATCGATACAA
1 TTGTATCGATACAA
1077804 TGTATCGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.26
20 2 0.04
21 33 0.70
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:1077795 original size:19 final size:19
Alignment explanation
Indices: 1077729--1077834 Score: 80
Period size: 21 Copynumber: 5.7 Consensus size: 19
1077719 TTTCAACAAT
* *
1077729 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACATA-AGT-G
* * *
1077750 TTGTATCGATACAAACAATAA
1 TTGTATCGATACATA-AGT-G
*
1077771 TTGTATCAATACATAAGTG
1 TTGTATCGATACATAAGTG
1077790 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1077804 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1077822 TTGTATCGATACA
1 TTGTATCGATACA
1077835 ATGTATCGCT
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
13 11 0.15
15 2 0.03
17 2 0.03
19 23 0.32
20 2 0.03
21 33 0.45
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1077809 original size:13 final size:13
Alignment explanation
Indices: 1077791--1077815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1077781 ACATAAGTGT
1077791 TGTATCGATACAA
1 TGTATCGATACAA
1077804 TGTATCGATACA
1 TGTATCGATACA
1077816 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1077842 original size:32 final size:32
Alignment explanation
Indices: 1077772--1077842 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1077762 AAACAATAAT
*
1077772 TGTATCAATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1077804 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1077836 TGTATCG
1 TGTATCG
1077843 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1077904 original size:13 final size:13
Alignment explanation
Indices: 1077886--1077913 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1077876 CATTACTCAA
1077886 TGTATCGATACAT
1 TGTATCGATACAT
1077899 TGTATCGATACAT
1 TGTATCGATACAT
1077912 TG
1 TG
1077914 ATCTTTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1082214 original size:21 final size:20
Alignment explanation
Indices: 1082188--1082226 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1082178 CGTCCTTCGT
1082188 AAAAAAATGAAAAAACAAACC
1 AAAAAAAT-AAAAAACAAACC
*
1082209 AAAAAAATCAAAAACAAA
1 AAAAAAATAAAAAACAAA
1082227 AAACAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.79, C:0.13, G:0.03, T:0.05
Consensus pattern (20 bp):
AAAAAAATAAAAAACAAACC
Found at i:1082220 original size:14 final size:13
Alignment explanation
Indices: 1082197--1082309 Score: 97
Period size: 14 Copynumber: 8.4 Consensus size: 13
1082187 TAAAAAAATG
1082197 AAAAAACAAACCAA
1 AAAAAACAAA-CAA
*
1082211 AAAAATCAAAAACAA
1 AAAAA--ACAAACAA
1082226 AAAACAACAAACAA
1 AAAA-AACAAACAA
1082240 AAAAAACAAA-AA
1 AAAAAACAAACAA
* *
1082252 GACAAA-AAA-AA
1 AAAAAACAAACAA
*
1082263 CAAAAACAAACAA
1 AAAAAACAAACAA
*
1082276 AAAAAACACAAAAA
1 AAAAAACA-AACAA
1082290 AACAACAACAAACAA
1 AA-AA-AACAAACAA
1082305 AAAAA
1 AAAAA
1082310 GGGAAGAAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
11 9 0.11
12 9 0.11
13 16 0.20
14 24 0.29
15 15 0.18
16 9 0.11
ACGTcount: A:0.81, C:0.17, G:0.01, T:0.01
Consensus pattern (13 bp):
AAAAAACAAACAA
Found at i:1082235 original size:30 final size:28
Alignment explanation
Indices: 1082197--1082306 Score: 95
Period size: 30 Copynumber: 3.8 Consensus size: 28
1082187 TAAAAAAATG
1082197 AAAAAACAAACCAAAAAAATCAAAA-ACAA
1 AAAAAACAAA-CAAAAAAA-CAAAACACAA
*
1082226 AAAACAACAAACAAAAAAAACAAAAAGACAA
1 AAAA-AACAAAC-AAAAAAAC-AAAACACAA
1082257 AAAAAACAAAAACAAACAAAA-AAAACAC-A
1 AAAAAAC--AAACAAA-AAAACAAAACACAA
*
1082286 AAAAAAC-AAC-AACAAACAAAA
1 AAAAAACAAACAAAAAAACAAAA
1082307 AAAGGGAAGA
Statistics
Matches: 71, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
24 3 0.04
25 6 0.08
26 3 0.04
29 14 0.20
30 26 0.37
31 11 0.15
32 8 0.11
ACGTcount: A:0.81, C:0.17, G:0.01, T:0.01
Consensus pattern (28 bp):
AAAAAACAAACAAAAAAACAAAACACAA
Found at i:1082240 original size:29 final size:29
Alignment explanation
Indices: 1082197--1082309 Score: 113
Period size: 29 Copynumber: 3.7 Consensus size: 29
1082187 TAAAAAAATG
*
1082197 AAAA-AACAAACCAAAAAAATCAAAAACAA
1 AAAACAACAAA-CAAAAAAAACAAAAACAA
1082226 AAAACAACAAACAAAAAAAACAAAAAGACAAAA
1 AAAACAACAAACAAAAAAAAC-AAAA-AC--AA
*
1082259 AAAACAAAAACAAACAAAAAAAACACAAA-AA
1 AAAAC---AACAAACAAAAAAAACAAAAACAA
1082290 AACAACAACAAACAAAAAAA
1 AA-AACAACAAACAAAAAAA
1082310 GGGAAGAAAG
Statistics
Matches: 73, Mismatches: 2, Indels: 18
0.78 0.02 0.19
Matches are distributed among these distances:
29 27 0.37
30 10 0.14
31 6 0.08
32 3 0.04
33 7 0.10
34 1 0.01
35 3 0.04
36 16 0.22
ACGTcount: A:0.81, C:0.17, G:0.01, T:0.01
Consensus pattern (29 bp):
AAAACAACAAACAAAAAAAACAAAAACAA
Found at i:1082270 original size:46 final size:48
Alignment explanation
Indices: 1082201--1082309 Score: 145
Period size: 46 Copynumber: 2.3 Consensus size: 48
1082191 AAAATGAAAA
*
1082201 AACAAACCAAAAAAATCAAAAACAAA-AAACAACAAACA-AAAAAAACAA-
1 AACAAA-CAAAAAAAACAAAAACAAACAAA-AA-AAACACAAAAAAACAAC
*
1082249 AA-AGACAAAAAAAACAAAAACAAACAAAAAAAACACAAAAAAACAAC
1 AACAAACAAAAAAAACAAAAACAAACAAAAAAAACACAAAAAAACAAC
1082296 AACAAACAAAAAAA
1 AACAAACAAAAAAA
1082310 GGGAAGAAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
45 5 0.09
46 30 0.56
47 7 0.13
48 12 0.22
ACGTcount: A:0.81, C:0.17, G:0.01, T:0.01
Consensus pattern (48 bp):
AACAAACAAAAAAAACAAAAACAAACAAAAAAAACACAAAAAAACAAC
Found at i:1083682 original size:28 final size:28
Alignment explanation
Indices: 1083649--1083714 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
1083639 AGCCCACTAG
*
1083649 TCAGTGGCAC-CTCTTCGAAATCCACAAA
1 TCAGTGGCACTATCTTCGAAATCCAC-AA
*
1083677 TCAGTGGC-CTATTTTCGAAATCCACAA
1 TCAGTGGCACTATCTTCGAAATCCACAA
1083704 TCAGTGGCACT
1 TCAGTGGCACT
1083715 TGCTGTATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 11 0.32
28 23 0.68
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
TCAGTGGCACTATCTTCGAAATCCACAA
Found at i:1083928 original size:32 final size:32
Alignment explanation
Indices: 1083884--1084174 Score: 315
Period size: 32 Copynumber: 9.0 Consensus size: 32
1083874 CTAGTGGAGA
* *
1083884 AACCTTCCTCAAAGCCTACACAAGTTGGTGGC
1 AACCTTCTTCAAAGCCCACACAAGTTGGTGGC
1083916 AACCTTCTTCAAAGCCCACACAAGTTGGTGGC
1 AACCTTCTTCAAAGCCCACACAAGTTGGTGGC
* * *
1083948 AA-CATCTTCAAAAGCCCACACATA-TCGATGGC
1 AACCTTCTTC-AAAGCCCACACA-AGTTGGTGGC
*
1083980 AACCCCTTCTT-AAAGCCCACACAAGTTGGTGAC
1 AA--CCTTCTTCAAAGCCCACACAAGTTGGTGGC
* * *
1084013 AACCTTCCTCAAAGCCCACATAAGTTGATGGC
1 AACCTTCTTCAAAGCCCACACAAGTTGGTGGC
*
1084045 AACCTTCTTCAAAGCCCACACAAGTTGGTGAC
1 AACCTTCTTCAAAGCCCACACAAGTTGGTGGC
* * *
1084077 AA-CTTTTTCAAAGGCCCACATAAGTCGGTGGC
1 AACCTTCTTCAAA-GCCCACACAAGTTGGTGGC
* *
1084109 AACCGCTTCTT-AAAGCCCACACAAGTTGATGGT
1 AA-C-CTTCTTCAAAGCCCACACAAGTTGGTGGC
* *
1084142 AACCCT-TTCAAAAGCCCACACATGTTGGTGGC
1 AACCTTCTTC-AAAGCCCACACAAGTTGGTGGC
1084174 A
1 A
1084175 TCTCCTTCTA
Statistics
Matches: 216, Mismatches: 30, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
30 2 0.01
31 23 0.11
32 141 0.65
33 37 0.17
34 3 0.01
35 10 0.05
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (32 bp):
AACCTTCTTCAAAGCCCACACAAGTTGGTGGC
Found at i:1084118 original size:129 final size:129
Alignment explanation
Indices: 1083884--1084136 Score: 400
Period size: 129 Copynumber: 2.0 Consensus size: 129
1083874 CTAGTGGAGA
* * *
1083884 AACCTTCCTCAAAGCCTACACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCA
1 AACCTTCCTCAAAGCCCACACAAGTTGATGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGACA
1083949 ACATCTTCAAAAGCCCACACATATCGATGGCAACCCCTTCTTAAAGCCCACACAAGTTGGTGAC
66 ACATCTTCAAAAGCCCACACATATCGATGGCAACCCCTTCTTAAAGCCCACACAAGTTGGTGAC
*
1084013 AACCTTCCTCAAAGCCCACATAAGTTGATGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGACA
1 AACCTTCCTCAAAGCCCACACAAGTTGATGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGACA
* * * * * *
1084078 ACTTTTTCAAAGGCCCACATA-AGTCGGTGGCAACCGCTTCTTAAAGCCCACACAAGTTG
66 ACATCTTCAAAAGCCCACACATA-TCGATGGCAACCCCTTCTTAAAGCCCACACAAGTTG
1084137 ATGGTAACCC
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
128 1 0.01
129 112 0.99
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (129 bp):
AACCTTCCTCAAAGCCCACACAAGTTGATGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGACA
ACATCTTCAAAAGCCCACACATATCGATGGCAACCCCTTCTTAAAGCCCACACAAGTTGGTGAC
Found at i:1084156 original size:129 final size:128
Alignment explanation
Indices: 1083884--1084174 Score: 388
Period size: 129 Copynumber: 2.2 Consensus size: 128
1083874 CTAGTGGAGA
* * *
1083884 AACCTTCCTCAAAGCCTACACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCA
1 AACCTT-CTCAAAGCCCACACAAGTTGATGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGACA
*
1083949 ACATCTTCAAAAGCCCACACATATCGATGGCAACCCCTTCTTAAAGCCCACACAAGTTGGTGAC
65 ACATCTTCAAAAGCCCACACATATCGATGGCAACCCCTTCTTAAAGCCCACACAAGTTGATGAC
*
1084013 AACCTTCCTCAAAGCCCACATAAGTTGATGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGACA
1 AACCTT-CTCAAAGCCCACACAAGTTGATGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGACA
* * * * * * **
1084078 ACTTTTTCAAAGGCCCACATA-AGTCGGTGGCAACCGCTTCTTAAAGCCCACACAAGTTGATGGT
65 ACATCTTCAAAAGCCCACACATA-TCGATGGCAACCCCTTCTTAAAGCCCACACAAGTTGATGAC
* *
1084142 AACCCTT-TCAAAAGCCCACACATGTTGGTGGCA
1 AA-CCTTCTC-AAAGCCCACACAAGTTGATGGCA
1084175 TCTCCTTCTA
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
128 3 0.02
129 136 0.95
130 4 0.03
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (128 bp):
AACCTTCTCAAAGCCCACACAAGTTGATGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGACAA
CATCTTCAAAAGCCCACACATATCGATGGCAACCCCTTCTTAAAGCCCACACAAGTTGATGAC
Found at i:1084169 original size:97 final size:96
Alignment explanation
Indices: 1083884--1084171 Score: 325
Period size: 97 Copynumber: 3.0 Consensus size: 96
1083874 CTAGTGGAGA
* * *
1083884 AACCTTCCTCAAAGCCTACACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCA
1 AACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCTTCTT-AAAGCCCACACAAGTTGATGGCA
* * * *
1083949 A-CATCTTCAAAAGCCCACACATATCGATGGC
65 ACCATCTTCAAAAGCCCACACATGTTGGTGAC
* * *
1083980 AACCCCTTCTT-AAAGCCCACACAAGTTGGTGACAACCTTCCTCAAAGCCCACATAAGTTGATGG
1 AA--CCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCTT-CTTAAAGCCCACACAAGTTGATGG
* *
1084044 CAACCTTCTTC-AAAGCCCACACAAGTTGGTGAC
63 CAACCATCTTCAAAAGCCCACACATGTTGGTGAC
* * *
1084077 AA-CTTTTTCAAAGGCCCACATAAGTCGGTGGCAACCGCTTCTTAAAGCCCACACAAGTTGATGG
1 AACCTTCTTCAAA-GCCCACACAAGTTGGTGGCAA-C-CTTCTTAAAGCCCACACAAGTTGATGG
* *
1084141 TAACCCT-TTCAAAAGCCCACACATGTTGGTG
63 CAACCATCTTCAAAAGCCCACACATGTTGGTG
1084172 GCATCTCCTT
Statistics
Matches: 162, Mismatches: 21, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
94 5 0.03
95 3 0.02
96 23 0.14
97 114 0.70
98 17 0.10
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (96 bp):
AACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCTTCTTAAAGCCCACACAAGTTGATGGCAA
CCATCTTCAAAAGCCCACACATGTTGGTGAC
Found at i:1084243 original size:43 final size:43
Alignment explanation
Indices: 1084188--1084417 Score: 172
Period size: 52 Copynumber: 4.9 Consensus size: 43
1084178 CCTTCTAAAC
* *
1084188 CCAATGTCGCTGGCCTTCAATCAGCACATTGGCACCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
* * * *
1084231 CCAATATTGCTGGCCATGAATCAGTATATTGGCGCATTTTTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATT-G-GCA-----C--CTTTAAGT
* * *
1084283 CCAATATCGCTGGCCTTAAATCAGCACAGTGGCACTTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
* * * *
1084326 CCAATGTCACTAGCCTTGGATCAGCACATTGGCACCTTTAACATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGG---C----AC--CTTTAAGT
*
1084378 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1084418 TCTTTAAGTT
Statistics
Matches: 146, Mismatches: 23, Indels: 36
0.71 0.11 0.18
Matches are distributed among these distances:
43 62 0.42
44 1 0.01
45 6 0.04
46 1 0.01
49 1 0.01
50 6 0.04
51 1 0.01
52 68 0.47
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
Found at i:1084357 original size:95 final size:95
Alignment explanation
Indices: 1084188--1084417 Score: 307
Period size: 95 Copynumber: 2.4 Consensus size: 95
1084178 CCTTCTAAAC
* ** *
1084188 CCAATGTCGCTGGCCTTCAATCAGCACATTGGCACCTTTAAGTCCAATATTGCTGGCCATGAATC
1 CCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTTAAGTCCAATATCACTAGCCATGAATC
* * * **
1084253 AGTATATTGGCGCATTTTTCATCTTTAAGT
66 AGCACATTGGCACATTTAACATCTTTAAGT
* * * * * *
1084283 CCAATATCGCTGGCCTTAAATCAGCACAGTGGCACTTTTAAGTCCAATGTCACTAGCCTTGGATC
1 CCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTTAAGTCCAATATCACTAGCCATGAATC
*
1084348 AGCACATTGGCACCTTTAACATCTTTAAGT
66 AGCACATTGGCACATTTAACATCTTTAAGT
*
1084378 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
1 CCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTTA
1084418 TCTTTAAGTT
Statistics
Matches: 115, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
95 115 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (95 bp):
CCAATGTCGCTGGCCTTAAATCAGCACATTGGCACCTTTAAGTCCAATATCACTAGCCATGAATC
AGCACATTGGCACATTTAACATCTTTAAGT
Found at i:1084401 original size:52 final size:50
Alignment explanation
Indices: 1084319--1084724 Score: 264
Period size: 52 Copynumber: 7.9 Consensus size: 50
1084309 CAGTGGCACT
* * * *
1084319 TTTAAGTCCAATGTCACTAGCCTTGGATCAGCACATTGGCACCTTTAACATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTT--CATC
*
1084371 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT-ATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTCATC
* * * * * *
1084420 TTTAAGTTCGATCTCGCTGGCCTTGAATCAACATATTGACATCTTTAACAT-
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTT--CATC
* * * * * * *
1084471 TCCTCAGCCCAATGTTGCTTGCATTGAATCACCACATTGGCATTCTTCTCATC
1 T-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTT-TCATC
* * * * * *
1084524 TTCAAGTCTAATGTCGCTGGCCATGAATCAGCATATTGACATTCTTCGCAT-
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTT-TCATC
* * * ** * *
1084575 TCCTAGGCCCAATGTTACTGGCCTTGAATCAGCACATTGGTATTCTTCTTATC
1 T-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCTT-TCATC
* * * * * * *
1084628 TTCAAGTCTAATGTCGCTAG-CTGTGAATCAACACGTTGACATTCTTTGCACC
1 TTTAAGTCCAATGTCGCTGGCCT-TGAATCAGCACATTGGCA-TCTTT-CATC
* * * *
1084680 TTTAAGCCCAATATCGCTGGTCTTGAATCAGCATATTGGCA-CTTT
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTT
1084725 TATCATCCTT
Statistics
Matches: 271, Mismatches: 71, Indels: 26
0.74 0.19 0.07
Matches are distributed among these distances:
49 42 0.15
50 4 0.01
51 5 0.02
52 211 0.78
53 8 0.03
54 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (50 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTTCATC
Found at i:1084689 original size:104 final size:104
Alignment explanation
Indices: 1084373--1084720 Score: 345
Period size: 104 Copynumber: 3.4 Consensus size: 104
1084363 TTAACATCTT
* * * * *
1084373 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TTATCTTTAAGT-TCGATCT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCT-AATGT
* *
1084434 CGCTGGCCTTGAATCAACATATTGACA-TCTTT-AACATTCC
65 CGCTGG-CTTGAATCAACATATTGACATTCTTTGCACCTT-C
* * * * * *
1084474 TCAGCCCAATGTTGCTTGCATTGAATCACCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTC
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCTAATGTC
* * *
1084539 GCTGGCCATGAATCAGCATATTGACATTCTTCGCA--TTCC
66 GCTGG-CTTGAATCAACATATTGACATTCTTTGCACCTT-C
* ** *
1084578 TAGGCCCAATGTTACTGGCCTTGAATCAGCACATTGGTATTCTTCTTATCTTCAAGTCTAATGTC
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCTAATGTC
* **
1084643 GCTAGCTGTGAATCAACACGTTGACATTCTTTGCACCTT-
66 GCTGGCT-TGAATCAACATATTGACATTCTTTGCACCTTC
* * *
1084682 TAAGCCCAATATCGCTGGTCTTGAATCAGCATATTGGCA
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1084721 CTTTTATCAT
Statistics
Matches: 202, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
101 33 0.16
103 3 0.01
104 158 0.78
105 5 0.02
106 3 0.01
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (104 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTTATCTTCAAGTCTAATGTC
GCTGGCTTGAATCAACATATTGACATTCTTTGCACCTTC
Found at i:1085508 original size:20 final size:20
Alignment explanation
Indices: 1085482--1085536 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1085472 TTACCTAGAC
1085482 GTATCAATACATTCTTCATT
1 GTATCAATACATTCTTCATT
* *
1085502 TTATCAATGCATTCTTCATT
1 GTATCAATACATTCTTCATT
*
1085522 GTATCGATACATTCT
1 GTATCAATACATTCT
1085537 GGGTTTTTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.45
Consensus pattern (20 bp):
GTATCAATACATTCTTCATT
Found at i:1089287 original size:69 final size:69
Alignment explanation
Indices: 1089211--1089433 Score: 356
Period size: 69 Copynumber: 3.2 Consensus size: 69
1089201 TCAGAGGAAT
* * *
1089211 GGGGTTGGAGTATCCCTGACAATGATAATTTGGACAAAATAAGACTTAAATTTTCATGAGTTTAA
1 GGGGTTGGAGTATCCTTGACAATGATAATTTGGACAAAATAAGATTTAAATTTTGATGAGTTTAA
1089276 AAAC
66 AAAC
* * *
1089280 GGGGTTGGAGTATACTTGATAATGATAATTTGGAAAAAATAAGATTTAAATTTTGATGAGTTTAA
1 GGGGTTGGAGTATCCTTGACAATGATAATTTGGACAAAATAAGATTTAAATTTTGATGAGTTTAA
1089345 AAAC
66 AAAC
* * *
1089349 GGGATTGGAGTATCCTTAACAATGATAATTTGGACAAAATAAGATTTAAAATTTGATGAGTTTAA
1 GGGGTTGGAGTATCCTTGACAATGATAATTTGGACAAAATAAGATTTAAATTTTGATGAGTTTAA
*
1089414 AAAT
66 AAAC
1089418 GGGGTTGGAGTATCCT
1 GGGGTTGGAGTATCCT
1089434 CTCGGAGGAA
Statistics
Matches: 140, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 140 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (69 bp):
GGGGTTGGAGTATCCTTGACAATGATAATTTGGACAAAATAAGATTTAAATTTTGATGAGTTTAA
AAAC
Found at i:1089822 original size:98 final size:97
Alignment explanation
Indices: 1089384--1089853 Score: 536
Period size: 97 Copynumber: 4.8 Consensus size: 97
1089374 TAATTTGGAC
* * * * *
1089384 AAAATAAGATTTAAAATTTGATGAGTTTAAAAATGGGGTTGGAGTATCCTCTCGGAGGAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGAGGTTGGAGTATCCCCTCGGAGGAATGGGG
* * * * * *
1089449 TT-TTAGTGTCTCCGACGATGAAAATTTAACCG
66 TTGGT-GTATCCCCGATGATGACAATTTAACCA
*
1089481 AAAATAAGAATTAAATTTTGATAAGTTTAAAAACGAGGTTGGAGTATCCCCTCGGAGGAATGGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGAGGTTGGAGTATCCCCTCGGAGGAATGGGG
* * * * **
1089546 TTGGAGT-GCCCTCGATTATGACACTTTAACTG
66 TTGGTGTATCCC-CGATGATGACAATTTAACCA
* * * *
1089578 AAAATAAGATTTAAATTCTGATAAGTTTAAAAAC-AGGGTTAGATTATCCCCTCAGAGGAATGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGA-GGTTGGAGTATCCCCTCGGAGGAATGGG
* *
1089642 GTTGGAGTATCCCCAATGATGACAATTTAACCA
65 GTTGGTGTATCCCCGATGATGACAATTTAACCA
* * *
1089675 AAAATAAGATTTAAATTTTGATAAGTTT-AAAA-GTAGTGTTAGAGTATCCCCACGGAGAAATGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACG-AG-GTTGGAGTATCCCCTCGGAGGAATGG
**
1089738 GGTTGGTGTATTTCCGATGATGACAATTTTAACCA
64 GGTTGGTGTATCCCCGATGATGACAA-TTTAACCA
* * * *
1089773 AAAATAAGATTTAAATTTTGATAAGTTTAAAAGCGAGGTTGGAGCATCCCTTCGGAGGAATAGGG
1 AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGAGGTTGGAGTATCCCCTCGGAGGAATGGGG
* *
1089838 TTAGTGTATCCTCGAT
66 TTGGTGTATCCCCGAT
1089854 AAACAAAAAC
Statistics
Matches: 317, Mismatches: 46, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
96 8 0.03
97 230 0.73
98 73 0.23
99 5 0.02
100 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (97 bp):
AAAATAAGATTTAAATTTTGATAAGTTTAAAAACGAGGTTGGAGTATCCCCTCGGAGGAATGGGG
TTGGTGTATCCCCGATGATGACAATTTAACCA
Found at i:1091327 original size:13 final size:13
Alignment explanation
Indices: 1091309--1091334 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1091299 TACAGCAAGT
1091309 ATGTATCGATACA
1 ATGTATCGATACA
1091322 ATGTATCGATACA
1 ATGTATCGATACA
1091335 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1093584 original size:21 final size:21
Alignment explanation
Indices: 1093551--1093595 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1093541 TTGCAAGTTG
*
1093551 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1093573 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1093593 AAA
1 AAA
1093596 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1095418 original size:15 final size:15
Alignment explanation
Indices: 1095398--1095428 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1095388 TAAAAATGTC
*
1095398 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1095413 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1095428 C
1 C
1095429 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1097465 original size:20 final size:20
Alignment explanation
Indices: 1097439--1097516 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
1097429 AATGTCCAAA
1097439 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
1097459 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T-G--TTTCT
*
1097484 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
1097504 TTGTATCGATACA
1 ATGTATCGATACA
1097517 GGGTGATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 28 0.60
22 1 0.02
23 2 0.04
25 16 0.34
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:1099983 original size:20 final size:20
Alignment explanation
Indices: 1099960--1100033 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1099950 ACAATTCAAA
1099960 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
1099980 GTATTGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1100001 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1100021 GTATCGATACATG
1 GTATCGATACATG
1100034 AAAAAGATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1100004 original size:21 final size:21
Alignment explanation
Indices: 1099978--1100053 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1099968 ACATGTTGCA
*
1099978 ATGTATTGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1099999 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
1100019 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
1100040 ATGTATCGATACAT
1 ATGTATCGATACAT
1100054 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1100006 original size:41 final size:41
Alignment explanation
Indices: 1099960--1100053 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1099950 ACAATTCAAA
*
1099960 GTATCGATACATGTTGCAATGTATTGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1100001 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1100042 GTATCGATACAT
1 GTATCGATACAT
1100054 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:1100110 original size:13 final size:13
Alignment explanation
Indices: 1100092--1100117 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1100082 TACAGCAAGT
1100092 ATGTATCGATACA
1 ATGTATCGATACA
1100105 ATGTATCGATACA
1 ATGTATCGATACA
1100118 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1101010 original size:24 final size:25
Alignment explanation
Indices: 1100960--1101010 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
1100950 TTTTGTGTAA
1100960 CTTGCTGTTTCATGCTTGTTTTTTG
1 CTTGCTGTTTCATGCTTGTTTTTTG
*
1100985 CTTGCTG-TTC-TGTCTTTTTTTTTG
1 CTTGCTGTTTCATG-CTTGTTTTTTG
1101009 CT
1 CT
1101011 GCTATCTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 2 0.08
24 15 0.62
25 7 0.29
ACGTcount: A:0.02, C:0.18, G:0.18, T:0.63
Consensus pattern (25 bp):
CTTGCTGTTTCATGCTTGTTTTTTG
Found at i:1102370 original size:32 final size:33
Alignment explanation
Indices: 1102284--1102372 Score: 101
Period size: 36 Copynumber: 2.6 Consensus size: 33
1102274 CAAAGTGATT
1102284 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGG
1 GAGAGGTTCTATCTTAGCCTTT-AAAAAGATA-GG
* *
1102319 AGAGAGGTTATATCTTAGCCTGTT-AAAAGATATG
1 -GAGAGGTTCTATCTTAGCCT-TTAAAAAGATAGG
*
1102353 GAG-GTTTCTATCTTAGCCTT
1 GAGAGGTTCTATCTTAGCCTT
1102373 GAAAGATAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
31 1 0.02
32 14 0.29
33 3 0.06
34 1 0.02
35 8 0.17
36 19 0.40
37 2 0.04
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (33 bp):
GAGAGGTTCTATCTTAGCCTTTAAAAAGATAGG
Found at i:1103703 original size:12 final size:12
Alignment explanation
Indices: 1103686--1103711 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1103676 TCTAATCTAG
1103686 TTTATTATTGAA
1 TTTATTATTGAA
1103698 TTTATTATTGAA
1 TTTATTATTGAA
1103710 TT
1 TT
1103712 AAATTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTTATTATTGAA
Found at i:1105556 original size:76 final size:77
Alignment explanation
Indices: 1105423--1105812 Score: 291
Period size: 76 Copynumber: 5.1 Consensus size: 77
1105413 TTTTTGAATT
** * * * * * * * *
1105423 AGTTTGTTTTGGTTATTAATGGGAAATTGTAGAATCCTCATATTCCTCTTTAAGTTCCTTTCTTT
1 AGTTTGTTTTGACTATTAATGGAAAATTTTAGAAACCACATATTCCCCATCATGTTCCTTTCTTT
*
1105488 CAGCTCATTATC
66 CAGCTCGTTATC
* * * ** *
1105500 AGTTTATTTTGGCTATTAATAG-AAATTTGGGAAACCACATATTCCCCGTCATGTTCCTTT-TCT
1 AGTTTGTTTTGACTATTAATGGAAAATTTTAGAAACCACATATTCCCCATCATGTTCCTTTCT-T
*
1105563 TCAAGC-CGTTATT
65 TC-AGCTCGTTATC
* * * *
1105576 AG-TTGGTTTGACTATTAATGG-AAATTATA-AAGACCACATATTCCCCTATCATATT-CTTCTT
1 AGTTTGTTTTGACTATTAATGGAAAATTTTAGAA-ACCACATATTCCCC-ATCATGTTCCTT-TC
*
1105637 TTTCAGGCT-ATTA-C
63 TTTCA-GCTCGTTATC
** * * *
1105651 TAGTTTGTTCCGACTATTAA-GGAAAATTTTAGAAACTACATATTCCCCATCACGTTCTTTTCTT
1 -AGTTTGTTTTGACTATTAATGGAAAATTTTAGAAACCACATATTCCCCATCATGTTCCTTTCTT
*
1105715 TCAGCTTGTTATC
65 TCAGCTCGTTATC
* * * * *
1105728 AGTTTGTTTTGGCTATTGAT-GAAAATTTTAGAAATCATATATTCCCCATCATGTT-CTTTCCTT
1 AGTTTGTTTTGACTATTAATGGAAAATTTTAGAAACCACATATTCCCCATCATGTTCCTTTCTTT
* *
1105791 CAACTTGTTATC
66 CAGCTCGTTATC
* *
1105803 AATTTATTTT
1 AGTTTGTTTT
1105813 AGCCATTGAT
Statistics
Matches: 249, Mismatches: 48, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
74 2 0.01
75 67 0.27
76 119 0.48
77 59 0.24
78 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (77 bp):
AGTTTGTTTTGACTATTAATGGAAAATTTTAGAAACCACATATTCCCCATCATGTTCCTTTCTTT
CAGCTCGTTATC
Found at i:1105821 original size:75 final size:76
Alignment explanation
Indices: 1105672--1105888 Score: 260
Period size: 75 Copynumber: 2.9 Consensus size: 76
1105662 GACTATTAAG
* * * * *
1105672 GAAAATTTTAGAAA-CTACATATTCCCCATCACGTTCTTTTCTTTCAGCTTGTTATCAGTTTGTT
1 GAAAATTTTAGAAATC-ATATATTCCCCATCATGTTCTTTTCCTTCAACTTGTTATCAATTTGTT
* *
1105736 TTGGCTATTGAT
65 TTAGCCATTGAT
*
1105748 GAAAATTTTAGAAATCATATATTCCCCATCATGTTC-TTTCCTTCAACTTGTTATCAATTTATTT
1 GAAAATTTTAGAAATCATATATTCCCCATCATGTTCTTTTCCTTCAACTTGTTATCAATTTGTTT
1105812 TAGCCATTGAT
66 TAGCCATTGAT
* * ** * * *
1105823 -AAAAGTTTTAAAAATCATATATTCCCTATTGTGTTCTTTTTCTCCAACTTGTCATCAATTTGTT
1 GAAAA-TTTTAGAAATCATATATTCCCCATCATGTTCTTTTCCTTCAACTTGTTATCAATTTGTT
1105887 TT
65 TT
1105889 GACTGTTGAT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
74 4 0.03
75 60 0.49
76 57 0.47
77 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.46
Consensus pattern (76 bp):
GAAAATTTTAGAAATCATATATTCCCCATCATGTTCTTTTCCTTCAACTTGTTATCAATTTGTTT
TAGCCATTGAT
Found at i:1106435 original size:67 final size:67
Alignment explanation
Indices: 1106351--1106587 Score: 278
Period size: 67 Copynumber: 3.5 Consensus size: 67
1106341 CCCAATTTTA
* * * ** * *
1106351 ACTTAGGTTTTATCCTAGTCATTTTTAGTTGACTTCATCGAGTTCACCCTAGTTAACACCCCTTT
1 ACTTAGGTTTTACCCTAGTCACTTTTAGTTGACTTTATCGAGTTTGCCCTAGTCAACACCCATTT
1106416 CG
66 CG
* * * * * *
1106418 ACTTAGGTTTTACCCTAGTCTCTTTTAATTGACTTTAT-TAGTTTTGCCTTAGTCAATACCCTTT
1 ACTTAGGTTTTACCCTAGTCACTTTTAGTTGACTTTATCGAG-TTTGCCCTAGTCAACACCCATT
*
1106482 TTG
65 TCG
* * * * *
1106485 ACTTAGGTTTTACCCTAGTCACTTTTAGTTGACTTTATCGATTTTGCCCTGGCCAACATCTATTT
1 ACTTAGGTTTTACCCTAGTCACTTTTAGTTGACTTTATCGAGTTTGCCCTAGTCAACACCCATTT
1106550 CG
66 CG
*
1106552 ACTTAGGTTTTACCTTAGTCACTTTTAGTTGACTTT
1 ACTTAGGTTTTACCCTAGTCACTTTTAGTTGACTTT
1106588 TAGGTTTCTC
Statistics
Matches: 142, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
66 2 0.01
67 139 0.98
68 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (67 bp):
ACTTAGGTTTTACCCTAGTCACTTTTAGTTGACTTTATCGAGTTTGCCCTAGTCAACACCCATTT
CG
Found at i:1107487 original size:27 final size:27
Alignment explanation
Indices: 1107456--1107508 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
1107446 TCAGATTTTG
1107456 AAGAAAAGTGGGGTTGGAGTATCCCCT
1 AAGAAAAGTGGGGTTGGAGTATCCCCT
*
1107483 AAGAAGAGTGGGGTTGGAGTATCCCC
1 AAGAAAAGTGGGGTTGGAGTATCCCC
1107509 GACGATCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.21
Consensus pattern (27 bp):
AAGAAAAGTGGGGTTGGAGTATCCCCT
Found at i:1110056 original size:21 final size:20
Alignment explanation
Indices: 1110009--1110059 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1109999 CATTTGAGAC
* * *
1110009 ATGTATTGACACATTCACTT
1 ATGTATCGATACATTCACTA
1110029 ATGTATCGATACATTCACTA
1 ATGTATCGATACATTCACTA
1110049 ATTGTATCGAT
1 A-TGTATCGAT
1110060 GCAAATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:1110793 original size:31 final size:31
Alignment explanation
Indices: 1110758--1110875 Score: 112
Period size: 31 Copynumber: 3.8 Consensus size: 31
1110748 CTTAAACTTA
* *
1110758 GGTGCCACCAACTCATGTGGGCTTTAACTTG
1 GGTGCCACCAACTCGTGTGGGCTTTAACTAG
** * * ** *
1110789 GGTGCTGCCACCTTGTACGGGTTTTAACTAG
1 GGTGCCACCAACTCGTGTGGGCTTTAACTAG
* *
1110820 GGTGCC-CCTAACTCGTATGGGCTTTGACTAG
1 GGTGCCACC-AACTCGTGTGGGCTTTAACTAG
*
1110851 GGTGCAACCAACTCGTGTGGGCTTT
1 GGTGCCACCAACTCGTGTGGGCTTT
1110876 GACATTCTAA
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
30 2 0.03
31 64 0.94
32 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.29, T:0.30
Consensus pattern (31 bp):
GGTGCCACCAACTCGTGTGGGCTTTAACTAG
Found at i:1111205 original size:42 final size:41
Alignment explanation
Indices: 1111059--1111206 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 41
1111049 CCTTGAGTAC
* *
1111059 AAAAGGAAA-AAAAGTATGTCCTGCTCTTCGAGGACAAAGGA
1 AAAAGGAAATAAAA-TATGTCCTGCTCTTTGAGGACAAAAGA
* * * * * *
1111100 AAAAGAAGAATAAAATGTGTCTTGTTCTTTGAGGCCAAAGAAA
1 AAAAGGA-AATAAAATATGTCCTGCTCTTTGAGGACAAA-AGA
* * *
1111143 AAAATGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAAGA
1 AAAAGGAAATAAAATATGTCCTGCTCTTTGAGGACAAAAGA
*
1111184 GAAAAGGAAATAAAACATGTCCT
1 -AAAAGGAAATAAAATATGTCCT
1111207 ATTTTTTAAG
Statistics
Matches: 84, Mismatches: 19, Indels: 7
0.76 0.17 0.06
Matches are distributed among these distances:
41 8 0.10
42 66 0.79
43 10 0.12
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.22
Consensus pattern (41 bp):
AAAAGGAAATAAAATATGTCCTGCTCTTTGAGGACAAAAGA
Found at i:1120122 original size:21 final size:21
Alignment explanation
Indices: 1120075--1120128 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1120065 CAAGGTGGTT
* * *
1120075 TTGTATCGGTACATTCATTTA
1 TTGTATCGATACATTCACTAA
1120096 -TGTATCGATACATTCACTAA
1 TTGTATCGATACATTCACTAA
*
1120116 TTGTATCAATACA
1 TTGTATCGATACA
1120129 AATCATAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (21 bp):
TTGTATCGATACATTCACTAA
Found at i:1120729 original size:87 final size:87
Alignment explanation
Indices: 1120634--1120974 Score: 502
Period size: 87 Copynumber: 3.9 Consensus size: 87
1120624 TTCAGTTTTT
** *
1120634 TAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCGGACTTAGGTGCCACTA
1 TAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGCCACCA
* * *
1120699 ATTCATATAGACTTTGACATTC
66 ATTCATATGGGCTTTAACATTC
* **
1120721 TAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAAACTTAGCTGCTGCCA
1 TAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGCCACCA
* *
1120786 ATTTATTTGGGCTTTAACATTC
66 ATTCATATGGGCTTTAACATTC
*
1120808 TAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAAACTTAAGTGCCACCA
1 TAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGCCACCA
* *
1120873 ACTCATGTGGGCTTTAACATTC
66 ATTCATATGGGCTTTAACATTC
* * * *
1120895 TAGGGCTTAACCTCCTTAGATAGGTGCCAACTAATATGGACTTGACTTAAACTTAGGTGCCACCA
1 TAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGCCACCA
* *
1120960 ACTCATGTGGGCTTT
66 ATTCATATGGGCTTT
1120975 GACTTAGCTA
Statistics
Matches: 231, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 231 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (87 bp):
TAAGGCTTAACCTCCTTAGACAGGTGCCAACTAATGTGGACTTGACTCAAACTTAGGTGCCACCA
ATTCATATGGGCTTTAACATTC
Found at i:1121085 original size:51 final size:51
Alignment explanation
Indices: 1121018--1121125 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
1121008 CGGGGTGCCA
* *
1121018 CCAACTTGTGTAGGCTTCAGA-ATTCTAAGGCTTAACCTCCTTAGATAGGTG
1 CCAACTCGTGTAGGCTTCA-ACATTCTAAGGCTTAACCTCCTTAGACAGGTG
* * **
1121069 CCAACTCGTGTGGGCTTTAACATTCTAAGGCTTAACCTTTTTAGACAGGTG
1 CCAACTCGTGTAGGCTTCAACATTCTAAGGCTTAACCTCCTTAGACAGGTG
1121120 CCAACT
1 CCAACT
1121126 AATATGGATT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 49 0.98
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (51 bp):
CCAACTCGTGTAGGCTTCAACATTCTAAGGCTTAACCTCCTTAGACAGGTG
Found at i:1121192 original size:31 final size:31
Alignment explanation
Indices: 1121157--1121216 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1121147 TAGGTGCCAC
1121157 CAACTCGTGTGGGCTTTGACTCGGGTGCCGT
1 CAACTCGTGTGGGCTTTGACTCGGGTGCCGT
* *
1121188 CAACTTGTGTGGGCTTTGACTGGGGTGCC
1 CAACTCGTGTGGGCTTTGACTCGGGTGCC
1121217 ATATGGGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.10, C:0.23, G:0.37, T:0.30
Consensus pattern (31 bp):
CAACTCGTGTGGGCTTTGACTCGGGTGCCGT
Found at i:1121227 original size:23 final size:23
Alignment explanation
Indices: 1121197--1121240 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1121187 TCAACTTGTG
*
1121197 TGGGCTTTGACTGGGGTGCCATA
1 TGGGCTTTGACTAGGGTGCCATA
1121220 TGGGCTTTGACTAGGGTGCCA
1 TGGGCTTTGACTAGGGTGCCA
1121241 CCAACTTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.30
Consensus pattern (23 bp):
TGGGCTTTGACTAGGGTGCCATA
Found at i:1121805 original size:13 final size:13
Alignment explanation
Indices: 1121787--1121811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1121777 TTCAACAATT
1121787 TGTATCGATACAA
1 TGTATCGATACAA
1121800 TGTATCGATACA
1 TGTATCGATACA
1121812 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1121824 original size:19 final size:19
Alignment explanation
Indices: 1121800--1121849 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1121790 ATCGATACAA
1121800 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1121819 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
1121838 TGTATCGATACA
1 TGTATCGATACA
1121850 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1126489 original size:24 final size:24
Alignment explanation
Indices: 1126431--1126489 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
1126421 TTGCTATTAC
1126431 CTTTTTTGTT-TTTGCCTTTTCAT
1 CTTTTTTGTTGTTTGCCTTTTCAT
* **
1126454 -TTTTTTGTTTGTTTGCTTTTTTTT
1 CTTTTTTG-TTGTTTGCCTTTTCAT
1126478 CTTTTTTGTTGT
1 CTTTTTTGTTGT
1126490 CTTATGTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 7 0.23
23 2 0.07
24 14 0.47
25 7 0.23
ACGTcount: A:0.02, C:0.10, G:0.12, T:0.76
Consensus pattern (24 bp):
CTTTTTTGTTGTTTGCCTTTTCAT
Found at i:1131402 original size:21 final size:21
Alignment explanation
Indices: 1131376--1131447 Score: 78
Period size: 20 Copynumber: 3.5 Consensus size: 21
1131366 GGTGCTTCTA
* *
1131376 TATCGATACATTTGAGATATG
1 TATCGATACATTTCACATATG
*
1131397 TATCGATACA-TTCACTTATG
1 TATCGATACATTTCACATATG
1131417 TATCGATACA-TTCAC-TAATTG
1 TATCGATACATTTCACAT-A-TG
1131438 TATCGATACA
1 TATCGATACA
1131448 AATCATTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
19 1 0.02
20 23 0.50
21 22 0.48
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
TATCGATACATTTCACATATG
Found at i:1131418 original size:20 final size:20
Alignment explanation
Indices: 1131393--1131447 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
1131383 ACATTTGAGA
1131393 TATGTATCGATACATTCACT
1 TATGTATCGATACATTCACT
1131413 TATGTATCGATACATTCACT
1 TATGTATCGATACATTCACT
*
1131433 AATTGTATCGATACA
1 TA-TGTATCGATACA
1131448 AATCATTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (20 bp):
TATGTATCGATACATTCACT
Found at i:1138444 original size:13 final size:13
Alignment explanation
Indices: 1138426--1138452 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1138416 ACATTATGCC
1138426 TTGTATCGATACA
1 TTGTATCGATACA
1138439 TTGTATCGATACA
1 TTGTATCGATACA
1138452 T
1 T
1138453 GGACAATTAT
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):
TTGTATCGATACA
Found at i:1144712 original size:13 final size:13
Alignment explanation
Indices: 1144694--1144720 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1144684 ACAATATTCC
1144694 TTGTATCGATACA
1 TTGTATCGATACA
1144707 TTGTATCGATACA
1 TTGTATCGATACA
1144720 T
1 T
1144721 GGGTTACTAT
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):
TTGTATCGATACA
Found at i:1146235 original size:33 final size:33
Alignment explanation
Indices: 1146193--1146256 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1146183 CGAGAGTTGA
*
1146193 TCACTTCACTTTCACAACACATGAATGAGCAAT
1 TCACTTCACTCTCACAACACATGAATGAGCAAT
* * *
1146226 TCACTTCACTCTCACAGCATATGGATGAGCA
1 TCACTTCACTCTCACAACACATGAATGAGCA
1146257 CTTTGGTGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (33 bp):
TCACTTCACTCTCACAACACATGAATGAGCAAT
Found at i:1147275 original size:20 final size:19
Alignment explanation
Indices: 1147229--1147285 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1147219 TTGTATCGAT
* *
1147229 ACATTGTATCGATATATGT
1 ACATTGTATCGATACATGG
*
1147248 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
1147267 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
1147286 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1150800 original size:3 final size:3
Alignment explanation
Indices: 1150792--1150825 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1150782 CTAGTCAACT
*
1150792 TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1150826 TGATGGTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:1153133 original size:20 final size:20
Alignment explanation
Indices: 1153017--1153134 Score: 125
Period size: 20 Copynumber: 5.8 Consensus size: 20
1153007 TTTTATGCAG
*
1153017 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
*
1153037 ATGTATCGATACATTACCT-A
1 ATGTATCGATACATT-CTTCA
*
1153057 GATGTATCGATTCA-TCTTCCA
1 -ATGTATCGATACATTCTT-CA
* *
1153078 ATGTATCGATACATAT-ATAA
1 ATGTATCGATACAT-TCTTCA
1153098 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
1153118 ATGTATCGATTCATTCT
1 ATGTATCGATACATTCT
1153135 ATCATTTTAC
Statistics
Matches: 81, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.04
20 62 0.77
21 15 0.19
22 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:1156433 original size:33 final size:34
Alignment explanation
Indices: 1156391--1156454 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
1156381 GTGACAGTGT
*
1156391 GTATCGATACCAA-GAACATGTATTGATACAATG
1 GTATCGATACCAACGAACATGTATCGATACAATG
*
1156424 GTATCGATACCAACGAATATGTATCGATACA
1 GTATCGATACCAACGAACATGTATCGATACA
1156455 TTTGGGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (34 bp):
GTATCGATACCAACGAACATGTATCGATACAATG
Found at i:1157059 original size:46 final size:45
Alignment explanation
Indices: 1157006--1157156 Score: 130
Period size: 45 Copynumber: 3.3 Consensus size: 45
1156996 TAATACTTGT
1157006 ATTTGCATCATTTCACATGCATTTGCACCATTTAGATGATATTGGC
1 ATTTGCATCATTTCACATGCATTTGCACCATTTAGATGATATT-GC
* * * **
1157052 ATTTGCATAATTTCACATGCATTT--ATCTTTTTCATGGATACTTGC
1 ATTTGCATCATTTCACATGCATTTGCACCATTTAGAT-GATA-TTGC
* * * * *
1157097 ATTTTCATCGTTTC-CTATGTATCTGCACCA-TTAGATGATATTAAC
1 ATTTGCATCATTTCAC-ATGCATTTGCACCATTTAGATGATATT-GC
*
1157142 ATTTGCATCGTTTCA
1 ATTTGCATCATTTCA
1157157 TGAGCATTTG
Statistics
Matches: 82, Mismatches: 16, Indels: 14
0.73 0.14 0.12
Matches are distributed among these distances:
44 10 0.12
45 41 0.50
46 29 0.35
47 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (45 bp):
ATTTGCATCATTTCACATGCATTTGCACCATTTAGATGATATTGC
Found at i:1157623 original size:20 final size:21
Alignment explanation
Indices: 1157577--1157628 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
1157567 TTCTACAATT
* *
1157577 TGTATCGATACAATAAGTTAA
1 TGTATCGATACAATAAATGAA
*
1157598 TTTATCGATAC-ATAAATGAA
1 TGTATCGATACAATAAATGAA
1157618 TGTATCGATAC
1 TGTATCGATAC
1157629 TGCACCATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACAATAAATGAA
Found at i:1160456 original size:154 final size:155
Alignment explanation
Indices: 1160249--1160528 Score: 393
Period size: 154 Copynumber: 1.8 Consensus size: 155
1160239 TCTAAGGGAT
* *
1160249 TTAAAAAAGAATATAGATGGGATGAACCTATCCTAAATACCCACCCTCAGCATAAAAACGAACCT
1 TTAAAAAAGAATATAGAAGGGATGAACCTATCCTAAATACCCACCCTCAGCATAAAAACGAACCC
* * **
1160314 GGTGACAACCT-AGACTCGATTATGAAAAATTATGAAAATATCCC-TAAGGGATACCTTCGATTC
66 AGTGACAACCTAAGACTCGATTATAAAAAATTACAAAAATA-CCCTTAAGGGATACCTTCGATTC
1160377 AGAAATGCTCGACACCCCTAACGAAC
130 AGAAATGCTCGACACCCCTAACGAAC
* * * * ** ** *
1160403 TTAAAAAGGAATATGGAAGGGATGGACCTATCCTAAATACCCATCCTTGGCATAAAAGTGGACCC
1 TTAAAAAAGAATATAGAAGGGATGAACCTATCCTAAATACCCACCCTCAGCATAAAAACGAACCC
*
1160468 AGTGACAACCTAAGACTCGATTTTAAAAAATTACAAAAATACCCTTAAGGGATACCTTCGA
66 AGTGACAACCTAAGACTCGATTATAAAAAATTACAAAAATACCCTTAAGGGATACCTTCGA
1160529 CATAGAAGCA
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
154 67 0.62
155 41 0.38
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (155 bp):
TTAAAAAAGAATATAGAAGGGATGAACCTATCCTAAATACCCACCCTCAGCATAAAAACGAACCC
AGTGACAACCTAAGACTCGATTATAAAAAATTACAAAAATACCCTTAAGGGATACCTTCGATTCA
GAAATGCTCGACACCCCTAACGAAC
Found at i:1160754 original size:88 final size:88
Alignment explanation
Indices: 1160628--1160804 Score: 309
Period size: 88 Copynumber: 2.0 Consensus size: 88
1160618 GAAGGGTGAG
* *
1160628 AAAGTGGCATTAAAGTTGTAAATTTCAAAAATCTCATTTTGTACCTTAATGGAGAACCGAAAAGA
1 AAAGTGGCATTAAAGTTGTAAATTTCAAAAATCTCATTTCGTACCTTAATGGAGAACCAAAAAGA
*
1160693 TATGAAAAGTTTTGAAAATTTCT
66 TAGGAAAAGTTTTGAAAATTTCT
*
1160716 AAAGTGGTATTAAAGTTGTAAATTTCAAAAATCTCATTTCGTACCTTAATGGAGAACCAAAAAGA
1 AAAGTGGCATTAAAGTTGTAAATTTCAAAAATCTCATTTCGTACCTTAATGGAGAACCAAAAAGA
*
1160781 TAGGAAAAGTTTTGAAGATTTCT
66 TAGGAAAAGTTTTGAAAATTTCT
1160804 A
1 A
1160805 TACCCCTACA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.32
Consensus pattern (88 bp):
AAAGTGGCATTAAAGTTGTAAATTTCAAAAATCTCATTTCGTACCTTAATGGAGAACCAAAAAGA
TAGGAAAAGTTTTGAAAATTTCT
Found at i:1160876 original size:9 final size:9
Alignment explanation
Indices: 1160862--1160892 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
1160852 GATAATAATT
1160862 TTTATTTAA
1 TTTATTTAA
1160871 TTTATTTAA
1 TTTATTTAA
1160880 TTTTATTTAA
1 -TTTATTTAA
1160890 TTT
1 TTT
1160893 CTAAAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTATTTAA
Found at i:1160886 original size:10 final size:10
Alignment explanation
Indices: 1160861--1160892 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
1160851 AGATAATAAT
1160861 TTTTATTTAA
1 TTTTATTTAA
1160871 -TTTATTTAA
1 TTTTATTTAA
1160880 TTTTATTTAA
1 TTTTATTTAA
1160890 TTT
1 TTT
1160893 CTAAAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTATTTAA
Found at i:1161020 original size:153 final size:152
Alignment explanation
Indices: 1160736--1161022 Score: 425
Period size: 153 Copynumber: 1.9 Consensus size: 152
1160726 TAAAGTTGTA
*
1160736 AATTTCAAAAATCTCATTTCGTACCTTAATGGAGAACCAAAAAGATAGGAAAAGTTTTGAAGATT
1 AATTTCAAAAATCTCATTTCGTACCTTAATAGAGAACCAAAAAGATAGGAAAAGTTTTGAAGATT
* * *
1160801 TCTATACCCCTACAAAAAACCATAGGAATATTAAAAATTTTGAAAAATTAAGATAATAATTTTTA
66 TCTATACCCCTACAAAAAACCATAGGAATATTAAAAATCTTGAAAAATTAAGAAAATAAATTTTA
1160866 TTTAATTTATTTAATTTTATTT
131 TTTAATTTATTTAATTTTATTT
* ** * * *
1160888 AATTTCTAAAAA-CATCATTTGGTAGTTTAATAGAGAATCGAAAAGATATGAAAAGTTTTGAAGA
1 AATTTC-AAAAATC-TCATTTCGTACCTTAATAGAGAACCAAAAAGATAGGAAAAGTTTTGAAGA
* *
1160952 TTTCTATACCCCTATAAAAAACCATAGGAATATTAGAAATCTT-AAAAATTTAAGAAAATAAATT
64 TTTCTATACCCCTACAAAAAACCATAGGAATATTAAAAATCTTGAAAAA-TTAAGAAAATAAATT
1161016 TTATTTA
128 TTATTTA
1161023 GTGATAAAAT
Statistics
Matches: 120, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
152 12 0.10
153 108 0.90
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (152 bp):
AATTTCAAAAATCTCATTTCGTACCTTAATAGAGAACCAAAAAGATAGGAAAAGTTTTGAAGATT
TCTATACCCCTACAAAAAACCATAGGAATATTAAAAATCTTGAAAAATTAAGAAAATAAATTTTA
TTTAATTTATTTAATTTTATTT
Found at i:1162441 original size:20 final size:20
Alignment explanation
Indices: 1162416--1162561 Score: 85
Period size: 20 Copynumber: 6.8 Consensus size: 20
1162406 TTTTACCCAG
1162416 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1162436 ATGTATCGATACGTGTATGA
1 ATGTATCGATACATTTTTCA
1162456 ATGTATCGATACATGTTATCTTTTTACCCA
1 ATGTATCGATAC-----A--TTTTT---CA
1162486 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * * * *
1162507 ATGTATTGATACCTGTATGA
1 ATGTATCGATACATTTTTCA
* *
1162527 TTGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1162547 ATGTATCGATCCATT
1 ATGTATCGATACATT
1162562 CTGTCTTTTT
Statistics
Matches: 93, Mismatches: 22, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
20 69 0.74
21 2 0.02
24 5 0.05
26 1 0.01
27 3 0.03
30 1 0.01
31 12 0.13
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1162524 original size:71 final size:71
Alignment explanation
Indices: 1162405--1162540 Score: 245
Period size: 71 Copynumber: 1.9 Consensus size: 71
1162395 AAAAGGCACA
*
1162405 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACGTGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACCTGTATGAATGTATCGATACAT
1162470 GTTATC
66 GTTATC
* *
1162476 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATTGATACCTGTATGATTGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACCTGTATGAATGTATCGATACAT
1162541 TCTTCAATGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (71 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACCTGTATGAATGTATCGATACAT
GTTATC
Found at i:1164140 original size:55 final size:55
Alignment explanation
Indices: 1164050--1164280 Score: 229
Period size: 55 Copynumber: 4.2 Consensus size: 55
1164040 CAAAAAATAG
*
1164050 GTCTTT-GTGGTATATCCAAAGCTTCTGGTGGTGGTAACTAGAATAAGTTTCAAA
1 GTCTTTAGTGGTATATCCAAAGCTTCTGGTGTTGGTAACTAGAATAAGTTTCAAA
* * * * *
1164104 GTTTTTAGTGGTAAATCCAAATCTT-TAGGTGTTGGTAA-TCAAAATAATTTTCAAA
1 GTCTTTAGTGGTATATCCAAAGCTTCT-GGTGTTGGTAACT-AGAATAAGTTTCAAA
* * *
1164159 GTCTTTGGTGGTGTATCCAAAGCTTCTGGTTGTT-GTAACTAGTATAAGTTTCAAA
1 GTCTTTAGTGGTATATCCAAAGCTTCTGG-TGTTGGTAACTAGAATAAGTTTCAAA
* * * * * * *
1164214 ATCTTTGGTGGTATATCTAAAGCATATGGTAG-TAGTAACTAGTATAAGTTTCAAA
1 GTCTTTAGTGGTATATCCAAAGCTTCTGGT-GTTGGTAACTAGAATAAGTTTCAAA
* *
1164269 ATCTTTGGTGGT
1 GTCTTTAGTGGT
1164281 GGTAACCGAA
Statistics
Matches: 150, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
54 9 0.06
55 135 0.90
56 6 0.04
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.39
Consensus pattern (55 bp):
GTCTTTAGTGGTATATCCAAAGCTTCTGGTGTTGGTAACTAGAATAAGTTTCAAA
Found at i:1164266 original size:110 final size:110
Alignment explanation
Indices: 1164050--1164281 Score: 265
Period size: 110 Copynumber: 2.1 Consensus size: 110
1164040 CAAAAAATAG
* * *
1164050 GTCTTT-GTGGTATATCCAAAGCTTCTGGTGGTGGTAACTAGAATAAGTTTCAAAGTTTTTAGTG
1 GTCTTTGGTGGTGTATCCAAAGCTTCTGGTGGTGGTAACTAGAATAAGTTTCAAAATCTTTAGTG
* * * *
1164114 GTAAATCCAAATCTTTAGGTGTTGGTAATCAAAATAATTTTCAAA
66 GTAAATCCAAAGCTATAGGTGTTAGTAATCAAAATAAGTTTCAAA
* * * *
1164159 GTCTTTGGTGGTGTATCCAAAGCTTCTGGTTGTTGTAACTAGTATAAGTTTCAAAATCTTTGGTG
1 GTCTTTGGTGGTGTATCCAAAGCTTCTGGTGGTGGTAACTAGAATAAGTTTCAAAATCTTTAGTG
* * **
1164224 GTATATCTAAAGC-ATATGGTAG-TAGTAA-CTAGTATAAGTTTCAAA
66 GTAAATCCAAAGCTATA-GGT-GTTAGTAATC-AAAATAAGTTTCAAA
*
1164269 ATCTTTGGTGGTG
1 GTCTTTGGTGGTG
1164282 GTAACCGAAA
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
109 9 0.09
110 93 0.90
111 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (110 bp):
GTCTTTGGTGGTGTATCCAAAGCTTCTGGTGGTGGTAACTAGAATAAGTTTCAAAATCTTTAGTG
GTAAATCCAAAGCTATAGGTGTTAGTAATCAAAATAAGTTTCAAA
Found at i:1165027 original size:79 final size:79
Alignment explanation
Indices: 1164896--1165088 Score: 287
Period size: 79 Copynumber: 2.4 Consensus size: 79
1164886 TATTATAGTT
* * * **
1164896 TTTTAGGGTCACCAGGATATTTTCATGTTGAAGGTATTCTTAAAGTGATATTTTAGTAATTTTAC
1 TTTTAAGGTCACCAAGATATTTTCATGTCGAAGGTATTCTTAAAAAGATATTTTAGTAATTTTAC
1164961 CTTAAAACTAAGTC
66 CTTAAAACTAAGTC
* * * *
1164975 TTTTAAGGTCACCACGATATTTTCATGTCGAATGTATTCTTAAAAAGGTATTTTAGTAATTTTAT
1 TTTTAAGGTCACCAAGATATTTTCATGTCGAAGGTATTCTTAAAAAGATATTTTAGTAATTTTAC
*
1165040 CTTAAAACTGAGTC
66 CTTAAAACTAAGTC
*
1165054 TTTTAAGGTCACCAAGATACTTTCATGTCGAAGGT
1 TTTTAAGGTCACCAAGATATTTTCATGTCGAAGGT
1165089 GTACTTTAGA
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 102 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (79 bp):
TTTTAAGGTCACCAAGATATTTTCATGTCGAAGGTATTCTTAAAAAGATATTTTAGTAATTTTAC
CTTAAAACTAAGTC
Found at i:1166494 original size:20 final size:19
Alignment explanation
Indices: 1166469--1166542 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
1166459 TTTACCCAGA
1166469 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
1166489 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
1166509 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
1166529 TGTATCGATACATT
1 TGTATCGATACATT
1166543 CAGGCATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:1178186 original size:121 final size:121
Alignment explanation
Indices: 1178023--1180155 Score: 1980
Period size: 121 Copynumber: 17.7 Consensus size: 121
1178013 TATTCGATCC
* * * * *
1178023 AGTCTTTGCTCATTTGACTATACTC-AGTCAAATCTTACCCCTCTTAACTGTATTCGATTAACAC
1 AGTCTTTCCTCATTTGACTGTACTCGA-TCAAATCTTACCCCTCTTGACTGTATTCGATCAAGAC
* * *
1178087 TATCTTCA-TTGACTGTATTCGATCAAATTTCACCCTCATTTAACTGTATTCAGTGA
65 TATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
* * * * * *
1178143 AGACTTTTCCTTATTTGACTATACTCGATCAAATCTCT-CCCCTCTTGACTATTTTTGATCAAGA
1 AGTC-TTTCCTCATTTGACTGTACTCGATCAAATCT-TACCCCTCTTGACTGTATTCGATCAAGA
* * * * * *
1178207 CTATCCTTATTTGACTGTGTTTGATCAAATTTCACCCAT-GCTTGACTGTATTCAATCA
64 CTATCCTCATTTGACTGTATTCGATCAAATTTCACCC-TCGTTTAACTGTATTCAGTCA
* * * * * * *
1178265 AGTATTTCCTCATTTGACTATACTCGATCAAATCTAATCCCTTTTCACTGTATTCAATCAAGACT
1 AGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCGATCAAGACT
* * * * * ** *
1178330 ATCCTTATTTG-TTGCATTCGATCAAATTTCAACCTTGCTAGAACTGTATTCAGTAA
66 ATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCG-TTTAACTGTATTCAGTCA
* * * *
1178386 AGTCTTTCCTCATTTGATTGTACTCGGTCAAATCTTACCCCTTTTGACTGTATTCGGTCAAGACT
1 AGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCGATCAAGACT
* * * * *
1178451 ATCCTCATTTGATTGTATTCGATCAAATTTCACCCTCGCTTGATTATATTCAGTCA
66 ATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
* * * * * *
1178507 AGTCTTTCCTCATTTGACTATACTC-AGTCAAATCTTACCCCTCTTAACTGTTTTTGGTTAAGAC
1 AGTCTTTCCTCATTTGACTGTACTCGA-TCAAATCTTACCCCTCTTGACTGTATTCGATCAAGAC
* * * * *
1178571 TATCCTCATTTGACTATATTCGATCAAATTTCACCCTCATTGAACTATATTCGGTCA
65 TATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
* * * * * *
1178628 AGAC-TTCACTTATTTGACTGTACTTTG-CCAAATCTCT-CCCCTCTTGACTATTTTCCG-TCAA
1 AGTCTTTC-CTCATTTGACTGTAC-TCGATCAAATCT-TACCCCTCTTGACTGTATT-CGATCAA
* * * *
1178689 GATTATCCTCATTTGATTGTGTTCGATCAAATTTCACCCTCATTTAACTGTATTCAGTCA
62 GACTATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
* * * * * *
1178749 AGACTTTCCTCATTTGACTGTACTCGATCAAATCTCTTCCCC-CTTGACTATTTTCGGTCAAAAC
1 AGTCTTTCCTCATTTGACTGTACTCGATCAAATCT-TACCCCTCTTGACTGTATTCGATCAAGAC
* * * * *
1178813 TATCCTCATTTGACTGTGTTTGATCAAATTTCACCCTCGCTTGACTGTATTCAATCA
65 TATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
* * * * * * *
1178870 AGTATTTCCTCACTTGACTATACTCGATCAAATCTTATCCCTCTTCACTCTATTCAATCAAGACT
1 AGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCGATCAAGACT
* * * * ** *
1178935 ATCCTTATTTG-TTGTATTCGATCAAATTTAAACCTTAC-TAGAACTGTATTCAGTAA
66 ATCCTCATTTGACTGTATTCGATCAAATTT-CACCCT-CGTTTAACTGTATTCAGTCA
* * * * * *
1178991 AGTCTTTCCTCATTTGATTGTACTC-AGTCAAATCTTACCCCTTTTGATTATATTCGGTCAAGGC
1 AGTCTTTCCTCATTTGACTGTACTCGA-TCAAATCTTACCCCTCTTGACTGTATTCGATCAAGAC
* * * * *
1179055 TATCCTCATTTGACTGTATTCGATCAAATTTCACCCTTGCTTGATTGTATTTAGTCA
65 TATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
* * * * * * * *
1179112 AGTCTTTTCTCATTCGACTGTAGTCGGTAAAATCTCACCCCTCTTGACTGTATTCGGTTAAGACT
1 AGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCGATCAAGACT
** * * * * * * *
1179177 ATAGTCATTTGGCTATATTTGATCAAATTTCACCTTCGCTGAACAGTATTC-GATCA
66 ATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAG-TCA
* * * * ** ** * ** *
1179233 AGACTTTCCTTATTTGACTATA-TAGGCCAAATCTCCCCCCTCTTGACTAT-TTTTAGTCAAGAT
1 AGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCGA-TCAAGAC
* * ** *
1179296 TATCCTCAGTTGACTGTGTTCGATCAAATTTCACCCTCCCTTAACTGTATTCAGTTA
65 TATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
* * * * * *
1179353 AGACTTTCCTCATTTGATTGTACTCGAACAAATCTCT-CCCCTCTTAACTATTTTCGATCAAGAC
1 AGTCTTTCCTCATTTGACTGTACTCGATCAAATCT-TACCCCTCTTGACTGTATTCGATCAAGAC
* * * *
1179417 TATCCTCATTTGACTGTGTTTGATCAAATTTCACCCTCGCTTAACTGTATTCAATCA
65 TATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
* * * * * *
1179474 AGTATTTCCTCATTTGACTGTACTCGATCAAATCTTATCCCTCTTCACTTTATTCAATCAA-AAT
1 AGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCGATCAAGACT
* * * ** * * *
1179538 ATCCTTATTTG-TTGTATTCGATCAAATTTCAACCTCGCTAGAATTGTATTTAGTAA
66 ATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCG-TTTAACTGTATTCAGTCA
* * * *
1179594 AGTCTTTCCTCATTTGATTGTACTCGGTCAAATCTTACCCCTTTTGATTGTATTC-AGTCAAGAC
1 AGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCGA-TCAAGAC
* * * * * *
1179658 TATCCTTATTTGACTGTATTCGATTAAATTTCACTCTCGCTTAATTGTATTTAGTCA
65 TATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
* * * * *
1179715 AGTCTTTCCTCATTTGACTGTACTTGGTCAAATCTCACCCCTCTTGACTGTATTCAATTAAGACT
1 AGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCGATCAAGACT
* * * * *
1179780 ATCGTCATTTGACTATATTCGATCAAATTTCACCCTCGCTTAATTGTATTCGGTCA
66 ATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
* * * * ** * * * *
1179836 AGACTTTCCTTATTTGACTATACTTGGCCAAATCTCT-CCCCTCTTGACTGTTTTTGGTCAAGAT
1 AGTCTTTCCTCATTTGACTGTACTCGATCAAATCT-TACCCCTCTTGACTGTATTCGATCAAGAC
* * * *
1179900 TATCCTCATTTGACTATGTTCGATCAAATTTCACCTTCGTTTATCTGTATTCAGT-A
65 TATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
* *
1179956 AGTATTTCCTCATTTGACTGTACTCTG-TCAAATCTTATCCCTCTTGACTGTATTC-AGTCAAGA
1 AGTCTTTCCTCATTTGACTGTACTC-GATCAAATCTTACCCCTCTTGACTGTATTCGA-TCAAGA
* * * * **
1180019 CTATCCTCATTTG-TTGGATTCAATCAAATTTCAACCTCGCTAGAACTGTATTCAGT-A
64 CTATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCG-TTTAACTGTATTCAGTCA
* * * * * *
1180076 ATGTCTTTCCTCATTTGATTGTACTTGGTCAAATCTTACCCCTCTTAACTGTGTTCGGTCAAGAC
1 A-GTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCGATCAAGAC
* *
1180141 TATTCTCATTCGACT
65 TATCCTCATTTGACT
1180156 CTGTGGACAC
Statistics
Matches: 1647, Mismatches: 319, Indels: 92
0.80 0.16 0.04
Matches are distributed among these distances:
119 46 0.03
120 292 0.18
121 1187 0.72
122 121 0.07
123 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (121 bp):
AGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCCTCTTGACTGTATTCGATCAAGACT
ATCCTCATTTGACTGTATTCGATCAAATTTCACCCTCGTTTAACTGTATTCAGTCA
Found at i:1178443 original size:30 final size:30
Alignment explanation
Indices: 1178372--1178547 Score: 101
Period size: 30 Copynumber: 5.8 Consensus size: 30
1178362 CCTTGCTAGA
* *
1178372 ACTGTATTCAGT-AAAGTCTTTCCTCATTTG
1 ACTGTATTCAGTCAAA-TCTTACCCCATTTG
* * * *
1178402 ATTGTACTCGGTCAAATCTTACCCCTTTTG
1 ACTGTATTCAGTCAAATCTTACCCCATTTG
* *
1178432 ACTGTATTCGGTCAAGA-C-TATCCTCATTTG
1 ACTGTATTCAGTCAA-ATCTTA-CCCCATTTG
* **
1178462 ATTGTATTC-GATCAAAT-TTCACCCTCGCTTG
1 ACTGTATTCAG-TCAAATCTT-ACCC-CATTTG
* * * * *
1178493 ATTATATTCAGTCAAGTCTTTCCTCATTTG
1 ACTGTATTCAGTCAAATCTTACCCCATTTG
* *
1178523 ACTATACTCAGTCAAATCTTACCCC
1 ACTGTATTCAGTCAAATCTTACCCC
1178548 TCTTAACTGT
Statistics
Matches: 111, Mismatches: 25, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
29 4 0.04
30 80 0.72
31 24 0.22
32 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (30 bp):
ACTGTATTCAGTCAAATCTTACCCCATTTG
Found at i:1178826 original size:30 final size:30
Alignment explanation
Indices: 1178392--1178829 Score: 136
Period size: 30 Copynumber: 14.5 Consensus size: 30
1178382 GTAAAGTCTT
* * *
1178392 TCCTCATTTGATTGTACTCGGTCAAATCT-
1 TCCTCATTTGACTGTATTCGGTCAAAACTA
* * *
1178421 TACCCCTTTTGACTGTATTCGGTCAAGACTA
1 T-CCTCATTTGACTGTATTCGGTCAAAACTA
* * **
1178452 TCCTCATTTGATTGTATTCGATCAAATTTCA
1 TCCTCATTTGACTGTATTCGGTCAAAACT-A
* ** * * * ** *
1178483 CCCTCGCTTGATTATATTCAGTCAAGTCTT
1 TCCTCATTTGACTGTATTCGGTCAAAACTA
* * * *
1178513 TCCTCATTTGACTATACTCAGTCAAATCT-
1 TCCTCATTTGACTGTATTCGGTCAAAACTA
* * * * * *
1178542 TACC-CCTCTTAACTGTTTTTGGTTAAGACTA
1 T-CCTCAT-TTGACTGTATTCGGTCAAAACTA
* * **
1178573 TCCTCATTTGACTATATTCGATCAAATTTCA
1 TCCTCATTTGACTGTATTCGGTCAAAACT-A
* * *
1178604 CCCTCA-TTGAACTATATTCGGTCAAGACT-
1 TCCTCATTTG-ACTGTATTCGGTCAAAACTA
* * * * *
1178633 TCACTTATTTGACTGTACTT-TGCCAAATCTC
1 TC-CTCATTTGACTGTA-TTCGGTCAAAACTA
* * * * * *
1178664 TCC-CCTCTTGACTATTTTCCGTCAAGATTA
1 TCCTCAT-TTGACTGTATTCGGTCAAAACTA
* * * **
1178694 TCCTCATTTGATTGTGTTCGATCAAATTTCA
1 TCCTCATTTGACTGTATTCGGTCAAAACT-A
* * * * *
1178725 CCCTCATTTAACTGTATTCAGTCAAGACTT
1 TCCTCATTTGACTGTATTCGGTCAAAACTA
* * * *
1178755 TCCTCATTTGACTGTACTCGATCAAATCTCT
1 TCCTCATTTGACTGTATTCGGTCAAAACT-A
** * *
1178786 TCC-CCCTTGACTATTTTCGGTCAAAACTA
1 TCCTCATTTGACTGTATTCGGTCAAAACTA
1178815 TCCTCATTTGACTGT
1 TCCTCATTTGACTGT
1178830 GTTTGATCAA
Statistics
Matches: 284, Mismatches: 106, Indels: 37
0.67 0.25 0.09
Matches are distributed among these distances:
29 11 0.04
30 192 0.68
31 81 0.29
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.40
Consensus pattern (30 bp):
TCCTCATTTGACTGTATTCGGTCAAAACTA
Found at i:1183075 original size:79 final size:78
Alignment explanation
Indices: 1182842--1183223 Score: 439
Period size: 79 Copynumber: 4.8 Consensus size: 78
1182832 GTCTCCTTGT
* * * *
1182842 AACCTTGATTTTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCCAACGCCGTTATTTT
1 AACCCTGATTTTATTTCTAAAACATCGATTTTCCACCATTAGGGATACTCTAAC-CCGTTATTTT
* *
1182907 TGAGAGGATACTTC
65 TGAAAGGATACTCC
* *
1182921 AACCCCT-ATTTTATTTCTAAAAACATCAATTTTCCACCATTAGGGATACACTAATCCCGTTATT
1 AA-CCCTGATTTTATTTCT-AAAACATCGATTTTCCACCATTAGGGATACTCTAA-CCCGTTATT
* **
1182985 TTCGAGCGGATACTCC
63 TTTGAAAGGATACTCC
* * * *
1183001 AACCTTGATTTTATTTCTAAAACATTGATTTTCCACCATCAGGGATACTCTAACCCTGTTATTTC
1 AACCCTGATTTTATTTCTAAAACATCGATTTTCCACCATTAGGGATACTCTAACCC-GTTATTTT
1183066 TGAAAGGATACTCC
65 TGAAAGGATACTCC
* *
1183080 AACCCCT-ATTTTATTTCTAAAACATCGATTTTCTACCATTAGGGATACTCCAACCCCGTTATTT
1 AA-CCCTGATTTTATTTCTAAAACATCGATTTTCCACCATTAGGGATACTCTAA-CCCGTTATTT
* *
1183144 TTG-AGGGAATACTTC
64 TTGAAAGG-ATACTCC
* * * *
1183159 AACCCCGATCTTATTTCTAAAACATCGATTTTTCACCATTGGGGATACT-TCAACCCCGTTATTT
1 AACCCTGATTTTATTTCTAAAACATCGATTTTCCACCATTAGGGATACTCT-AA-CCCGTTATTT
1183223 T
64 T
1183224 GTTTCCAAAA
Statistics
Matches: 261, Mismatches: 32, Indels: 20
0.83 0.10 0.06
Matches are distributed among these distances:
78 9 0.03
79 178 0.68
80 73 0.28
81 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (78 bp):
AACCCTGATTTTATTTCTAAAACATCGATTTTCCACCATTAGGGATACTCTAACCCGTTATTTTT
GAAAGGATACTCC
Found at i:1183182 original size:158 final size:158
Alignment explanation
Indices: 1182852--1183222 Score: 514
Period size: 158 Copynumber: 2.3 Consensus size: 158
1182842 AACCTTGATT
* * *
1182852 TTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCCAACGCCGTTATTTTTGAGAGGATA
1 TTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCTAAC-CCGTTATTTCTGAAAGGATA
* * *
1182917 CTTCAACCCCTATTTTATTTCTAAAAACATCAATTTTCCACCATTAGGGATACACTAATCCCGTT
65 CTCCAACCCCTATTTTATTTCTAAAAACATCAATTTTCCACCATTAGGGATACACCAACCCCGTT
** *
1182982 ATTTTCGAGCGGATACTCCAACCTTGATT
130 ATTTTCGAGCGGATACTCCAACCCCGATC
* *
1183011 TTATTTCTAAAACATTGATTTTCCACCATCAGGGATACTCTAACCCTGTTATTTCTGAAAGGATA
1 TTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCTAACCC-GTTATTTCTGAAAGGATA
* * *
1183076 CTCCAACCCCTATTTTATTTCT-AAAACATCGATTTTCTACCATTAGGGATACTCCAACCCCGTT
65 CTCCAACCCCTATTTTATTTCTAAAAACATCAATTTTCCACCATTAGGGATACACCAACCCCGTT
* *
1183140 ATTTTTGAG-GGAATACTTCAACCCCGATC
130 ATTTTCGAGCGG-ATACTCCAACCCCGATC
**
1183169 TTATTTCTAAAACATCGATTTTTCACCATTGGGGATACT-TCAACCCCGTTATTT
1 TTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCT-AA-CCCGTTATTT
1183223 TGTTTCCAAA
Statistics
Matches: 188, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
157 3 0.02
158 104 0.55
159 81 0.43
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (158 bp):
TTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCTAACCCGTTATTTCTGAAAGGATAC
TCCAACCCCTATTTTATTTCTAAAAACATCAATTTTCCACCATTAGGGATACACCAACCCCGTTA
TTTTCGAGCGGATACTCCAACCCCGATC
Found at i:1183325 original size:49 final size:50
Alignment explanation
Indices: 1183169--1183366 Score: 218
Period size: 49 Copynumber: 3.9 Consensus size: 50
1183159 AACCCCGATC
* * * * * * *
1183169 TTATTTCTAAAACATCGATTTTTCACCATTGGGGATACTTCAACCCCGTTATT
1 TTATTTCCAAAATATCAATTTCTCACCATCGGGGATACTCCAA-CCC-AT-TT
* * * * * * *
1183222 TTGTTTCCAAAATATCGACTTGTCACCATCGGGGATATTCCAACTCGTTT
1 TTATTTCCAAAATATCAATTTCTCACCATCGGGGATACTCCAACCCATTT
* *
1183272 TTATTTCCAAAATATCAATTTCTTACCATC-AGGATACTCCAACCCATTT
1 TTATTTCCAAAATATCAATTTCTCACCATCGGGGATACTCCAACCCATTT
1183321 TTATTTCCAAAATATCAATTTCTCACCATCGGGGATACTCCAACCC
1 TTATTTCCAAAATATCAATTTCTCACCATCGGGGATACTCCAACCC
1183367 TATTGTTTTC
Statistics
Matches: 123, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 44 0.36
50 41 0.33
51 1 0.01
52 2 0.02
53 35 0.28
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (50 bp):
TTATTTCCAAAATATCAATTTCTCACCATCGGGGATACTCCAACCCATTT
Found at i:1184488 original size:60 final size:60
Alignment explanation
Indices: 1184389--1184619 Score: 229
Period size: 60 Copynumber: 3.9 Consensus size: 60
1184379 TATTGCGACA
** * * * *
1184389 GACTATACTCGATCAAATCTTACCTTTCTT-GACTGTATTCGGTCAAGACTATCCTCATTT
1 GACTATACTCGATCAAATCTTACC-CGCTTCGACTATATTCGGTCAAGACTTTCTTTATTT
* * * *
1184449 GACTGTACTCGATCAAATCTTACCCGGTTCAACTATATTCGATCAA-ATCTTTCTTTATTT
1 GACTATACTCGATCAAATCTTACCCGCTTCGACTATATTCGGTCAAGA-CTTTCTTTATTT
* * * * *
1184509 AACTATACTCGATCAAATCTTACCTTGCTT-GACTCTATTTGGTCAAGTCTTTCTTTATTT
1 GACTATACTCGATCAAATCTTACC-CGCTTCGACTATATTCGGTCAAGACTTTCTTTATTT
* * *
1184569 GACTATACTTGATCAAATCTTACCTTGCTT-GATTATATTCGGTCAAG-CTTT
1 GACTATACTCGATCAAATCTTACC-CGCTTCGACTATATTCGGTCAAGACTTT
1184620 TCCTCATTTA
Statistics
Matches: 143, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
59 7 0.05
60 133 0.93
61 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (60 bp):
GACTATACTCGATCAAATCTTACCCGCTTCGACTATATTCGGTCAAGACTTTCTTTATTT
Found at i:1184493 original size:30 final size:30
Alignment explanation
Indices: 1184454--1184532 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
1184444 CATTTGACTG
*
1184454 TACTCGATCAAATCTTACCCGGTTCAACTA
1 TACTCGATCAAATCTTACCCGATTCAACTA
* * *** *
1184484 TATTCGATCAAATCTTTCTTTATTTAACTA
1 TACTCGATCAAATCTTACCCGATTCAACTA
1184514 TACTCGATCAAATCTTACC
1 TACTCGATCAAATCTTACC
1184533 TTGCTTGACT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.38
Consensus pattern (30 bp):
TACTCGATCAAATCTTACCCGATTCAACTA
Found at i:1184993 original size:36 final size:31
Alignment explanation
Indices: 1184910--1185005 Score: 97
Period size: 36 Copynumber: 2.9 Consensus size: 31
1184900 CTTGTAACAC
1184910 TATC-TTTCAAGGCTAAGATAGAAACCTC-CT
1 TATCTTTTCAAGGCTAAGATAG-AACCTCTCT
*
1184940 TATCTTTTCACGAGCTAAGATAGAACCTCTCT
1 TATCTTTTCAAG-GCTAAGATAGAACCTCTCT
*
1184972 CCCTATCTTTTTCAAAGGCTAAGATAAAACCTCT
1 ---TATC-TTTTC-AAGGCTAAGATAGAACCTCT
1185006 TAAACACTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
30 4 0.07
31 12 0.22
32 12 0.22
35 4 0.07
36 21 0.38
37 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (31 bp):
TATCTTTTCAAGGCTAAGATAGAACCTCTCT
Found at i:1185586 original size:13 final size:13
Alignment explanation
Indices: 1185568--1185592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1185558 ACAATTCATG
1185568 ATGTATCGATACA
1 ATGTATCGATACA
1185581 ATGTATCGATAC
1 ATGTATCGATAC
1185593 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Done.