Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 268 of 344
Found at i:89425171 original size:9 final size:9
Alignment explanation
Indices: 89425109--89425175 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
89425099 AAAAAATTAG
89425109 TATGTATAT
1 TATGTATAT
* **
89425118 CATGTACGT
1 TATGTATAT
89425127 TATGTATAT
1 TATGTATAT
* *
89425136 TACTATTTAT
1 TA-TGTATAT
89425146 ATATGTATAT
1 -TATGTATAT
* *
89425156 TAGGTATGT
1 TATGTATAT
89425165 TATGTATAT
1 TATGTATAT
89425174 TA
1 TA
89425176 CAATTTACAT
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
9 30 0.71
10 10 0.24
11 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.51
Consensus pattern (9 bp):
TATGTATAT
Found at i:89431910 original size:3 final size:3
Alignment explanation
Indices: 89431902--89431938 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
89431892 GATATCAGTT
89431902 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
89431939 TTATTGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:89435202 original size:62 final size:62
Alignment explanation
Indices: 89435124--89435248 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
89435114 AGAGGAATTA
*
89435124 AATCAATTTGATAGAAGCAATGTATGGACCCTTGTAGAAAGACCATGTGAAAAATTTACTAT
1 AATCAATTTGAAAGAAGCAATGTATGGACCCTTGTAGAAAGACCATGTGAAAAATTTACTAT
*
89435186 AATCAATTTGAAAGAAGCAATGTATGGACCTTTGTAGAAAGACCATGTGAAAAATTTACTAT
1 AATCAATTTGAAAGAAGCAATGTATGGACCCTTGTAGAAAGACCATGTGAAAAATTTACTAT
89435248 A
1 A
89435249 GCTACTAAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.29
Consensus pattern (62 bp):
AATCAATTTGAAAGAAGCAATGTATGGACCCTTGTAGAAAGACCATGTGAAAAATTTACTAT
Found at i:89437896 original size:37 final size:37
Alignment explanation
Indices: 89437811--89437917 Score: 105
Period size: 37 Copynumber: 2.9 Consensus size: 37
89437801 CAAGATAAAC
**
89437811 ATTAAATTAA-ATTTAA-TATTAAAATAATCACTTTAAT
1 ATTAAATTAATATAAAACTATTAAAATAAT-A-TTTAAT
*
89437848 ATTAAATTAATA-AAATACTATTAAGATAAGTATTTAAT
1 ATTAAATTAATATAAA-ACTATTAAAATAA-TATTTAAT
* *
89437886 -TTAATTTAATATTAAACTATTAAAATAATATT
1 ATTAAATTAATATAAAACTATTAAAATAATATT
89437918 ATTTTTGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
36 4 0.07
37 33 0.56
38 10 0.17
39 11 0.19
40 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (37 bp):
ATTAAATTAATATAAAACTATTAAAATAATATTTAAT
Found at i:89446290 original size:22 final size:22
Alignment explanation
Indices: 89446265--89446311 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
89446255 TCAGCTCTAT
89446265 CTTCCTTTCCATATCTCTTAAC
1 CTTCCTTTCCATATCTCTTAAC
*
89446287 CTTCCTTTCTATATCTCTTAAC
1 CTTCCTTTCCATATCTCTTAAC
89446309 CTT
1 CTT
89446312 GGCTCTTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (22 bp):
CTTCCTTTCCATATCTCTTAAC
Found at i:89447024 original size:33 final size:33
Alignment explanation
Indices: 89446982--89447049 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
89446972 CAATTGTTGA
89446982 AGTAACCATAGAGTAGAAATGAAATAGAAATAG
1 AGTAACCATAGAGTAGAAATGAAATAGAAATAG
*
89447015 AGTAACCATAGAGTAGAAATGGAATAGAAATAG
1 AGTAACCATAGAGTAGAAATGAAATAGAAATAG
89447048 AG
1 AG
89447050 AACAAATTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (33 bp):
AGTAACCATAGAGTAGAAATGAAATAGAAATAG
Found at i:89451564 original size:11 final size:12
Alignment explanation
Indices: 89451546--89451572 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
89451536 AATGAAATTG
89451546 GAAAAAAAAAGT
1 GAAAAAAAAAGT
89451558 GAAAAAAAAAGT
1 GAAAAAAAAAGT
89451570 GAA
1 GAA
89451573 TGATACAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (12 bp):
GAAAAAAAAAGT
Found at i:89453147 original size:16 final size:17
Alignment explanation
Indices: 89453112--89453149 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
89453102 TACTCAACAA
*
89453112 ATTTCCACATTGACTCAT
1 ATTTCCACAATGA-TCAT
89453130 ATTTCCACAATG-TCAT
1 ATTTCCACAATGATCAT
89453146 ATTT
1 ATTT
89453150 GCCAAAGCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.42
Consensus pattern (17 bp):
ATTTCCACAATGATCAT
Found at i:89455289 original size:40 final size:40
Alignment explanation
Indices: 89455245--89455325 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
89455235 CAAGCAATAA
89455245 TATCATGAACAAAATGATACTAAATATTGATGTGTTTTGT
1 TATCATGAACAAAATGATACTAAATATTGATGTGTTTTGT
89455285 TATCATGAACAAAATGATACTAAATATTGATGTGTTTTGT
1 TATCATGAACAAAATGATACTAAATATTGATGTGTTTTGT
89455325 T
1 T
89455326 CTCTCATGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (40 bp):
TATCATGAACAAAATGATACTAAATATTGATGTGTTTTGT
Found at i:89455778 original size:57 final size:57
Alignment explanation
Indices: 89455715--89455829 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
89455705 CTTTACTAGG
*
89455715 ATTCGCCATGTATTTGCTAACTGCACTGACTGCATATGATAAATCTAGACGTGAACA
1 ATTCGCCATGTATTTGCTAACTGCACTGACTACATATGATAAATCTAGACGTGAACA
89455772 ATTCGCCATGTATTTGCTAACTGCACTGACTACATATGATAAATCTAGACGTGAACA
1 ATTCGCCATGTATTTGCTAACTGCACTGACTACATATGATAAATCTAGACGTGAACA
89455829 A
1 A
89455830 ACCATAGCAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (57 bp):
ATTCGCCATGTATTTGCTAACTGCACTGACTACATATGATAAATCTAGACGTGAACA
Found at i:89458518 original size:20 final size:19
Alignment explanation
Indices: 89458474--89458511 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
89458464 GTTGTGTGTT
89458474 TAATTAAGCTTTAATTAAG
1 TAATTAAGCTTTAATTAAG
*
89458493 TGAATTTAGC-TTAATTAAG
1 T-AATTAAGCTTTAATTAAG
89458512 AATAATTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (19 bp):
TAATTAAGCTTTAATTAAG
Found at i:89459003 original size:17 final size:18
Alignment explanation
Indices: 89458971--89459005 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
89458961 ATTAATAAAT
*
89458971 TAAATAAACATAAAAGAA
1 TAAAGAAACATAAAAGAA
89458989 TAAAGAAAC-TAAAAGAA
1 TAAAGAAACATAAAAGAA
89459006 GAGAAGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.14
Consensus pattern (18 bp):
TAAAGAAACATAAAAGAA
Found at i:89459012 original size:18 final size:18
Alignment explanation
Indices: 89458976--89459014 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
89458966 TAAATTAAAT
*
89458976 AAACATAAAAGAATAAAG
1 AAACATAAAAGAAGAAAG
89458994 AAAC-TAAAAGAAGAGAAG
1 AAACATAAAAGAAGA-AAG
89459012 AAA
1 AAA
89459015 GAAATGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.72, C:0.05, G:0.15, T:0.08
Consensus pattern (18 bp):
AAACATAAAAGAAGAAAG
Found at i:89459465 original size:17 final size:18
Alignment explanation
Indices: 89459443--89459476 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
89459433 TAAATGAGTT
89459443 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
89459460 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
89459477 AAAAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:89459846 original size:36 final size:37
Alignment explanation
Indices: 89459755--89459851 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 37
89459745 ATATGTGCAG
*
89459755 AATTGAATTGAATAT-TGATTTGAAAATGGAAAAGTGA
1 AATTGAATTGAA-ATGTGATTTGAAAATGAAAAAGTGA
* * *
89459792 ATTTTGAATTGAATTGTGA-TTGAAAGTGAAAAAGTGA
1 A-ATTGAATTGAAATGTGATTTGAAAATGAAAAAGTGA
89459829 AATTGAATTGAAATGTGAATTTG
1 AATTGAATTGAAATGTG-ATTTG
89459852 GAGACCCTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
36 14 0.28
37 20 0.40
38 16 0.32
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (37 bp):
AATTGAATTGAAATGTGATTTGAAAATGAAAAAGTGA
Found at i:89463143 original size:40 final size:40
Alignment explanation
Indices: 89463000--89463183 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
89462990 TAACTCATAC
* * *
89463000 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTTGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* * *
89463040 AATGCCTTCGGGACTTAACTCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
89463080 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
89463120 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
89463161 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
89463184 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 102 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:89463167 original size:80 final size:79
Alignment explanation
Indices: 89462998--89463183 Score: 211
Period size: 80 Copynumber: 2.3 Consensus size: 79
89462988 AGTAACTCAT
* * * *
89462998 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTTGCACGAATGCCTTCGGGACTTAACTCGG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACTCGG
*
89463063 AATTAGTATCTCGC
66 AATTAGTATCTAGC
*
89463077 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTT-AGT
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGGA-CTTAACT
89463139 CCGG-ATATAGTCA-CTTAGC
63 -CGGAAT-TAGT-ATC-TAGC
*
89463158 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
89463184 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
79 15 0.16
80 69 0.74
81 9 0.10
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (79 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACTCGG
AATTAGTATCTAGC
Found at i:89465024 original size:93 final size:93
Alignment explanation
Indices: 89464909--89465079 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
89464899 GCCCATAAGT
* *
89464909 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
89464974 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
89465002 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
89465067 CGAGTTCGGATGC
66 CGAGTTCGGATGC
89465080 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:89465076 original size:46 final size:46
Alignment explanation
Indices: 89464901--89465076 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
89464891 TGTAACCCGC
* * *
89464901 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
89464947 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
89464997 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
89465040 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
89465077 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:89467513 original size:30 final size:30
Alignment explanation
Indices: 89467469--89467557 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
89467459 CAAAGATAAC
*
89467469 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAATCCAGAATAAAGAAATCCAAGATA
* *
89467498 GAGAAA-CTCAGAATAAAGGAATCC-AGAATA
1 AAGAAATC-CAGAATAAAGAAATCCAAG-ATA
* * *
89467528 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAATCCAGAATAAAGAAATCCAAGATA
89467558 CGATACTATG
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
28 1 0.02
29 8 0.17
30 36 0.75
31 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.18, T:0.11
Consensus pattern (30 bp):
AAGAAATCCAGAATAAAGAAATCCAAGATA
Found at i:89467557 original size:15 final size:15
Alignment explanation
Indices: 89467480--89467557 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
89467470 AGAAAACCGA
89467480 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
89467495 ATAGAGAAA-CTC-AG
1 ATAAAGAAATC-CAAG
*
89467509 AATAAAGGAATCC-AG
1 -ATAAAGAAATCCAAG
* *
89467524 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
89467540 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
89467555 ATA
1 ATA
89467558 CGATACTATG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
14 3 0.06
15 45 0.90
16 2 0.04
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:89470613 original size:93 final size:93
Alignment explanation
Indices: 89470454--89470624 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
89470444 GCCCATAAGT
* * *
89470454 GAACTCGGACTCAACTCAACGATCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGATCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89470519 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
89470547 GAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGA-TCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
89470611 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
89470625 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGATCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:89470621 original size:46 final size:46
Alignment explanation
Indices: 89470446--89470621 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
89470436 TGTAACCCGC
* * *
89470446 CCATAAGTGAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCAT
*
89470492 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
89470542 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
89470585 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
89470622 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 63 0.57
47 30 0.27
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:89472216 original size:12 final size:12
Alignment explanation
Indices: 89472175--89472216 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
89472165 TTAAATAGAA
89472175 ATGAATGAAATT
1 ATGAATGAAATT
*
89472187 ATCAAT-AAATT
1 ATGAATGAAATT
* *
89472198 TTGAATGATATT
1 ATGAATGAAATT
89472210 ATGAATG
1 ATGAATG
89472217 TTTATTTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.38
Consensus pattern (12 bp):
ATGAATGAAATT
Found at i:89473572 original size:24 final size:24
Alignment explanation
Indices: 89473557--89473608 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
89473547 AATCAAAGTC
89473557 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
89473581 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
89473605 AAAT
1 AAAT
89473609 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:89474561 original size:10 final size:10
Alignment explanation
Indices: 89474538--89474573 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
89474528 ACTTTTAAAT
*
89474538 TTTTTTATATA
1 TTTTTTAGA-A
89474549 TTTTTTAGAA
1 TTTTTTAGAA
89474559 TTTTTTAGAA
1 TTTTTTAGAA
89474569 TTTTT
1 TTTTT
89474574 ATAATTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (10 bp):
TTTTTTAGAA
Found at i:89476173 original size:9 final size:8
Alignment explanation
Indices: 89476154--89476178 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
89476144 CAATTGTCCG
89476154 AAAAAAGA
1 AAAAAAGA
89476162 AAAAAAGA
1 AAAAAAGA
89476170 AAAAAAGA
1 AAAAAAGA
89476178 A
1 A
89476179 GAGGGAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:89477428 original size:10 final size:9
Alignment explanation
Indices: 89477392--89477466 Score: 55
Period size: 10 Copynumber: 8.0 Consensus size: 9
89477382 TCCATTAATT
89477392 TATA-AAAA
1 TATATAAAA
*
89477400 TCATAAAAAA
1 T-ATATAAAA
89477410 T-TATAAAA
1 TATATAAAA
89477418 TATATAGAAA
1 TATATA-AAA
*
89477428 TATAGAAAAA
1 TATA-TAAAA
*
89477438 AATTATAAAA
1 TA-TATAAAA
89477448 TATATAGAAA
1 TATATA-AAA
*
89477458 TATAGAAAA
1 TATATAAAA
89477467 AAATTATAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
8 8 0.15
9 14 0.26
10 29 0.54
11 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (9 bp):
TATATAAAA
Found at i:89477440 original size:30 final size:30
Alignment explanation
Indices: 89477404--89477478 Score: 150
Period size: 30 Copynumber: 2.5 Consensus size: 30
89477394 TAAAAATCAT
89477404 AAAAAATTATAAAATATATAGAAATATAGA
1 AAAAAATTATAAAATATATAGAAATATAGA
89477434 AAAAAATTATAAAATATATAGAAATATAGA
1 AAAAAATTATAAAATATATAGAAATATAGA
89477464 AAAAAATTATAAAAT
1 AAAAAATTATAAAAT
89477479 TCTATAAAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (30 bp):
AAAAAATTATAAAATATATAGAAATATAGA
Found at i:89477539 original size:40 final size:40
Alignment explanation
Indices: 89477463--89477546 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
89477453 AGAAATATAG
* *
89477463 AAAAAAATTATAAAATTCTATAAAGTCATAAGAAAATTAT
1 AAAAAAATTATAAAAATCTATAAAGTCATAAAAAAATTAT
*
89477503 AAAAAAATTA-AAGAAATCTA-AAATTCATAAAAAAAATTAT
1 AAAAAAATTATAA-AAATCTATAAAGTCAT-AAAAAAATTAT
89477543 AAAA
1 AAAA
89477547 GTTATCGTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
39 9 0.23
40 30 0.77
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (40 bp):
AAAAAAATTATAAAAATCTATAAAGTCATAAAAAAATTAT
Found at i:89477777 original size:9 final size:9
Alignment explanation
Indices: 89477733--89477855 Score: 54
Period size: 9 Copynumber: 14.4 Consensus size: 9
89477723 ATTTGATGCA
89477733 TTTTATAAAT
1 TTTTAT-AAT
*
89477743 TTTTAT-TT
1 TTTTATAAT
89477751 TTTTAT-A-
1 TTTTATAAT
**
89477758 TTTTACGAT
1 TTTTATAAT
89477767 TTTTATAA-
1 TTTTATAAT
89477775 -TTTAT--T
1 TTTTATAAT
89477781 TTTTATAA-
1 TTTTATAAT
89477789 TTTT-TAAT
1 TTTTATAAT
89477797 ATTTTAT-AT
1 -TTTTATAAT
*
89477806 TTTTATTAAAA
1 TTTTA-T-AAT
* *
89477817 TTTAATAAA
1 TTTTATAAT
*
89477826 TTTTATTGAT
1 TTTTA-TAAT
89477836 TTTTAT--T
1 TTTTATAAT
89477843 TTTTATAAT
1 TTTTATAAT
89477852 TTTT
1 TTTT
89477856 TGTCACATTT
Statistics
Matches: 88, Mismatches: 10, Indels: 31
0.68 0.08 0.24
Matches are distributed among these distances:
7 25 0.28
8 17 0.19
9 26 0.30
10 15 0.17
11 5 0.06
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:89477778 original size:23 final size:24
Alignment explanation
Indices: 89477752--89477808 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
89477742 TTTTTATTTT
*
89477752 TTTATATTTTACGATTTTT-ATAA
1 TTTATATTTTACAATTTTTAATAA
* * *
89477775 TTTATTTTTTATAATTTTTAATAT
1 TTTATATTTTACAATTTTTAATAA
89477799 TTTATATTTT
1 TTTATATTTT
89477809 TATTAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTATATTTTACAATTTTTAATAA
Found at i:89477809 original size:8 final size:8
Alignment explanation
Indices: 89477741--89477811 Score: 60
Period size: 8 Copynumber: 9.0 Consensus size: 8
89477731 CATTTTATAA
89477741 ATTTTTAT
1 ATTTTTAT
*
89477749 TTTTTTAT
1 ATTTTTAT
*
89477757 A-TTTTACG
1 ATTTTTA-T
89477765 ATTTTTAT
1 ATTTTTAT
*
89477773 A-ATTTAT
1 ATTTTTAT
89477780 -TTTTTAT
1 ATTTTTAT
89477787 AATTTTTA-
1 -ATTTTTAT
89477795 ATATTTTAT
1 AT-TTTTAT
89477804 ATTTTTAT
1 ATTTTTAT
89477812 TAAAATTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
7 17 0.34
8 20 0.40
9 13 0.26
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (8 bp):
ATTTTTAT
Found at i:89480486 original size:25 final size:24
Alignment explanation
Indices: 89480417--89480534 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 24
89480407 TCAATATGAT
*
89480417 TCTTGCGAGCTTCCCGAATAA-TAGC
1 TCTTG-GAGCTTCCCG-ATAATTGGC
*
89480442 TCTCTGGAGCTTCCCAATAATTGGC
1 TCT-TGGAGCTTCCCGATAATTGGC
* *
89480467 TCCTTGGAGCTTCCCGATAAATGAC
1 T-CTTGGAGCTTCCCGATAATTGGC
**
89480492 TCTTATAAGCTTCCCGAT-ATTGGC
1 TCTT-GGAGCTTCCCGATAATTGGC
*
89480516 TCACTT-GAACTTCCCGATA
1 T--CTTGGAGCTTCCCGATA
89480535 TTAGCTAGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
24 22 0.29
25 46 0.61
26 7 0.09
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (24 bp):
TCTTGGAGCTTCCCGATAATTGGC
Found at i:89482213 original size:20 final size:20
Alignment explanation
Indices: 89482190--89482241 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
89482180 GAAGTTAACT
89482190 TTAACGGTCAACTATTAAAG
1 TTAACGGTCAACTATTAAAG
*
89482210 TTAAATGGTCAACTATTAAAG
1 TT-AACGGTCAACTATTAAAG
*
89482231 TTAGCGGTCAA
1 TTAACGGTCAA
89482242 AGGGCCTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (20 bp):
TTAACGGTCAACTATTAAAG
Found at i:89482359 original size:31 final size:32
Alignment explanation
Indices: 89482324--89482392 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
89482314 ATTATTGATC
* * * *
89482324 TTGAAAAAGTTTGAGGGCCTTTTTGATG-TTT
1 TTGAAAAAATTTGAAGGCATTTTTGATGCATT
*
89482355 TTGAAAAAATTTGAAGGCATTTTTTATGCATT
1 TTGAAAAAATTTGAAGGCATTTTTGATGCATT
89482387 TTGAAA
1 TTGAAA
89482393 GTCCAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 24 0.75
32 8 0.25
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.43
Consensus pattern (32 bp):
TTGAAAAAATTTGAAGGCATTTTTGATGCATT
Found at i:89484145 original size:21 final size:21
Alignment explanation
Indices: 89484119--89484179 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
89484109 GAAGCTTGAA
89484119 GGCTAAACAGAAGCACATAAG
1 GGCTAAACAGAAGCACATAAG
* *
89484140 GGCTAAACAGAAACCCAT-AG
1 GGCTAAACAGAAGCACATAAG
* * *
89484160 GGTTGAACAGAAGCTCATAA
1 GGCTAAACAGAAGCACATAA
89484180 AAGCTGAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (21 bp):
GGCTAAACAGAAGCACATAAG
Found at i:89484169 original size:41 final size:42
Alignment explanation
Indices: 89484122--89484215 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 42
89484112 GCTTGAAGGC
**
89484122 TAAACAGAAGCACATAAGGGCTAAAC-AGAAACCCAT-AGGGT
1 TAAACAGAAGCACATAAAAGCTAAACGA-AAACCCATAAGGGT
* * *
89484163 TGAACAGAAGCTCATAAAAGCTGAACGAAAACCCATAAGGGT
1 TAAACAGAAGCACATAAAAGCTAAACGAAAACCCATAAGGGT
*
89484205 TAAACAAAAGC
1 TAAACAGAAGC
89484216 TTAATAGAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 29 0.66
42 15 0.34
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (42 bp):
TAAACAGAAGCACATAAAAGCTAAACGAAAACCCATAAGGGT
Found at i:89484178 original size:20 final size:20
Alignment explanation
Indices: 89484119--89484178 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
89484109 GAAGCTTGAA
89484119 GGCTAAACAGAAGCACATAAG
1 GGCTAAACAGAAGCACAT-AG
* *
89484140 GGCTAAACAGAAACCCATAG
1 GGCTAAACAGAAGCACATAG
* * *
89484160 GGTTGAACAGAAGCTCATA
1 GGCTAAACAGAAGCACATA
89484179 AAAGCTGAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (20 bp):
GGCTAAACAGAAGCACATAG
Found at i:89484227 original size:42 final size:41
Alignment explanation
Indices: 89484150--89484258 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 41
89484140 GGCTAAACAG
* *
89484150 AAACCCAT-AGGGTTGAACAGAAGCTCATAAAAGCTGAACGA
1 AAACCCATAAGGGTTAAACAAAAGCT-ATAAAAGCTGAACGA
89484191 AAACCCATAAGGGTTAAACAAAAGCT-TAATAGAGCTGAACGA
1 AAACCCATAAGGGTTAAACAAAAGCTATAA-A-AGCTGAACGA
* * * *
89484233 AAACTCATATGAGTTAAATAAAAGCT
1 AAACCCATAAGGGTTAAACAAAAGCT
89484259 CGTGAGAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 3 0.05
41 9 0.15
42 47 0.80
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.18
Consensus pattern (41 bp):
AAACCCATAAGGGTTAAACAAAAGCTATAAAAGCTGAACGA
Found at i:89488956 original size:18 final size:18
Alignment explanation
Indices: 89488933--89488968 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
89488923 AGTAGACCCA
89488933 GGGTCGATCAATTCATAT
1 GGGTCGATCAATTCATAT
89488951 GGGTCGATCAATTCATAT
1 GGGTCGATCAATTCATAT
89488969 ACAGTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
GGGTCGATCAATTCATAT
Found at i:89490655 original size:221 final size:220
Alignment explanation
Indices: 89490272--89490707 Score: 827
Period size: 221 Copynumber: 2.0 Consensus size: 220
89490262 TCATCATTAA
*
89490272 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATTACACTATCACAGA
1 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
89490337 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
66 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
* *
89490402 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAGTCGTTGAAATAGGGTTACAAAGC
131 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAGTCGTCGAAACAGGGTTACAAAGC
89490467 ATTACCGAACATGTTCAGATCTTTCT
196 ATTACCGAAC-TGTTCAGATCTTTCT
89490493 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
1 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
89490558 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
66 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
89490623 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAGTCGTCGAAACAGGGTTACAAAGC
131 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAGTCGTCGAAACAGGGTTACAAAGC
*
89490688 ATTACCGAACTTTTCAGATC
196 ATTACCGAACTGTTCAGATC
89490708 AAATACAAAT
Statistics
Matches: 211, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
220 9 0.04
221 202 0.96
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (220 bp):
GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAGTCGTCGAAACAGGGTTACAAAGC
ATTACCGAACTGTTCAGATCTTTCT
Found at i:89492339 original size:15 final size:14
Alignment explanation
Indices: 89492305--89492364 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
89492295 TATAGATAAC
* *
89492305 AAGAAAACCAGGATT
1 AAGAAATCCAAGA-T
*
89492320 AAGAAGTCCAAGAT
1 AAGAAATCCAAGAT
89492334 AGAGAAATCCAAGAT
1 A-AGAAATCCAAGAT
89492349 AAGGAAATCCAAGAT
1 AA-GAAATCCAAGAT
89492364 A
1 A
89492365 CAATATCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 3 0.08
15 36 0.92
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (14 bp):
AAGAAATCCAAGAT
Found at i:89492340 original size:30 final size:30
Alignment explanation
Indices: 89492306--89492364 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
89492296 ATAGATAACA
* *
89492306 AGAAAACCAGGATTAA-GAAGTCCAAGATAG
1 AGAAAACCAAGA-TAAGGAAATCCAAGATAG
*
89492336 AGAAATCCAAGATAAGGAAATCCAAGATA
1 AGAAAACCAAGATAAGGAAATCCAAGATA
89492365 CAATATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.53, C:0.14, G:0.20, T:0.14
Consensus pattern (30 bp):
AGAAAACCAAGATAAGGAAATCCAAGATAG
Found at i:89494346 original size:19 final size:20
Alignment explanation
Indices: 89494308--89494347 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
89494298 TAGGCCGTGT
89494308 CCTCCACACGGGCAGAGACA
1 CCTCCACACGGGCAGAGACA
*
89494328 CCTCCACAC-GGCTGAGACA
1 CCTCCACACGGGCAGAGACA
89494347 C
1 C
89494348 ATGGCCGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.28, C:0.42, G:0.23, T:0.07
Consensus pattern (20 bp):
CCTCCACACGGGCAGAGACA
Found at i:89495676 original size:16 final size:16
Alignment explanation
Indices: 89495657--89495688 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89495647 AATTGTTTTA
89495657 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
89495673 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
89495689 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:89497994 original size:21 final size:21
Alignment explanation
Indices: 89497970--89498009 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
89497960 AGCTCGAAGG
*
89497970 CTAAACAGAAGCACATAAGTT
1 CTAAACAGAAACACATAAGTT
* *
89497991 CTAAATAGAAACCCATAAG
1 CTAAACAGAAACACATAAG
89498010 GTTGAACGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.17
Consensus pattern (21 bp):
CTAAACAGAAACACATAAGTT
Found at i:89498049 original size:21 final size:20
Alignment explanation
Indices: 89497998--89498051 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
89497988 GTTCTAAATA
*
89497998 GAAACCCATAAGGTTGAACG
1 GAAACCCATAAGGCTGAACG
* ** *
89498018 GAAGCTTATAAGAGCTGAATG
1 GAAACCCATAAG-GCTGAACG
89498039 GAAACCCATAAGG
1 GAAACCCATAAGG
89498052 GTTAAACTGA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.17
Consensus pattern (20 bp):
GAAACCCATAAGGCTGAACG
Found at i:89498076 original size:42 final size:42
Alignment explanation
Indices: 89497998--89498099 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
89497988 GTTCTAAATA
* *
89497998 GAAACCCATAA-GGTTGAACGGAAGCTTATAAGAGCTGAATG
1 GAAACCCATAAGGGTTAAACGGAAGCTAATAAGAGCTGAATG
*
89498039 GAAACCCATAAGGGTTAAACTGAAGCTCAAT-AGAGCTGAATG
1 GAAACCCATAAGGGTTAAACGGAAGCT-AATAAGAGCTGAATG
* * * *
89498081 AAAACTCATATGAGTTAAA
1 GAAACCCATAAGGGTTAAA
89498100 TAAAAGCTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 11 0.21
42 39 0.75
43 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACGGAAGCTAATAAGAGCTGAATG
Found at i:89500705 original size:249 final size:249
Alignment explanation
Indices: 89500001--89500884 Score: 1190
Period size: 250 Copynumber: 3.6 Consensus size: 249
89499991 CCAATATAAT
*
89500001 AATAACATACAATAGATAATG-AACGTATGGTTTGAAACTAATTAACAATAACACATGAAATATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
** * * * * *
89500065 TACAATGTTAAAATTG-AAAAATTTAGGTTAAAAATGGTTATCATGGTGTTGGCATCAATCTTGA
66 TACAATGTTAAAA-TGAAAAAAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGA
* * *
89500129 GTGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATACTAGAATCCCTA
130 GTGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTCTTA
* * *
89500194 TCACATGCATATGCGTGTGAAAA-GAAAAATTTGTAAACACAAATATGTGATTAAA
195 TCACATGCATATGCGTGTGAAAACAAAAAATTT-TGAACACAAATATGTGTTTAAA
* * *
89500249 AAGAGCATACAATAGATAATGAAACGTATGGTTTGAAAATAATTAATAATAACACATGAAATATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
* *
89500314 TACAATGTTAAAATAATAAAAAAATAGATTAAAATTGTTTATCATGGTGTTGTCATCAATCTTGA
66 TACAATGTTAAAATGA-AAAAAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGA
* *
89500379 GTGGGTGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAGTAGAA-TCTTT
130 GTGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTC-TT
* *
89500443 ATCACATGCATATGTGTGTGAAAACAAAAAATTTTGAACACAAATGTGTGTTTAAA
194 ATCACATGCATATGCGTGTGAAAACAAAAAATTTTGAACACAAATATGTGTTTAAA
* * * * * *
89500499 AATAACAGAAAATAGATAATGAAATGTATGGTTTGAAATTAATTAATAATAACACACGAAACATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
** * *
89500564 TATGATGTTAAAATGAAAAAAAATAAATTAAAATTTTTTATCATGATGTTGTCATCAATCTTGAG
66 TACAATGTTAAAATGAAAAAAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGAG
* ** * * * *
89500629 TTGATGTCGAGTTAACTTATGTTACCAAATCAATCAAACACATTTATATATAATACAATTCTTAT
131 TGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTCTTAT
* * * * *
89500694 CACACGCATATGCGTGTGAATACAAAAAA-ATTGAACACAAATCTGTGTTCAAA
196 CACATGCATATGCGTGTGAAAACAAAAAATTTTGAACACAAATATGTGTTTAAA
* * **
89500747 TATAACATACAATAGATAACGAAATATATGGTTTGAAACTAATTAATAATAACACATGAAATATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
* * *
89500812 TACAATGTTAAAAT-AAACAAAA-AGATTAAAATTTTTTATCAT-AGTTTTGTCATCAATCTTGA
66 TACAATGTTAAAATGAAAAAAAATAGATTAAAATTGTTTATCATGA-TGTTGTCATCAATCTTGA
*
89500874 GTTGATGTCGA
130 GTGGATGTCGA
89500885 TTACACACAC
Statistics
Matches: 567, Mismatches: 62, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
245 1 0.00
246 47 0.08
247 7 0.01
248 110 0.19
249 180 0.32
250 214 0.38
251 8 0.01
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (249 bp):
AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
TACAATGTTAAAATGAAAAAAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGAG
TGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTCTTAT
CACATGCATATGCGTGTGAAAACAAAAAATTTTGAACACAAATATGTGTTTAAA
Found at i:89507357 original size:28 final size:28
Alignment explanation
Indices: 89507324--89507379 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
89507314 AATATAATTA
*
89507324 TTTTATATTAAATAATATTAAAATATTT
1 TTTTATATAAAATAATATTAAAATATTT
* *
89507352 TTTTATATAAAATTATATTACAATATTT
1 TTTTATATAAAATAATATTAAAATATTT
89507380 AAAATATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTTATATAAAATAATATTAAAATATTT
Found at i:89508598 original size:3 final size:3
Alignment explanation
Indices: 89508590--89508633 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
89508580 TCACCTCTAG
89508590 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
89508634 AGTAGAATGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:89510779 original size:21 final size:21
Alignment explanation
Indices: 89510749--89510793 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
89510739 AAATTGGAGC
89510749 TCCCCCCTCCCCTCTCTTCT-T
1 TCCCCCCT-CCCTCTCTTCTCT
* *
89510770 TCCCCGCTCCCTCTTTTCTCT
1 TCCCCCCTCCCTCTCTTCTCT
89510791 TCC
1 TCC
89510794 TCCTCTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.00, C:0.58, G:0.02, T:0.40
Consensus pattern (21 bp):
TCCCCCCTCCCTCTCTTCTCT
Found at i:89511300 original size:20 final size:20
Alignment explanation
Indices: 89511266--89511312 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
89511256 ATATTGTTAC
89511266 TATTATTTTTATTAATA-TAT
1 TATTATTTTTATTAA-AGTAT
89511286 TAATTATTTTT-TTAAAGTAT
1 T-ATTATTTTTATTAAAGTAT
89511306 TATTATT
1 TATTATT
89511313 ACTAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTATTTTTATTAAAGTAT
Found at i:89511309 original size:23 final size:21
Alignment explanation
Indices: 89511267--89511312 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
89511257 TATTGTTACT
89511267 ATTATTTTTATTAATATATTA
1 ATTATTTTTATTAATATATTA
89511288 ATTATTTTT-TTAA-AGTATT-
1 ATTATTTTTATTAATA-TATTA
89511307 ATTATT
1 ATTATT
89511313 ACTAATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTATTTTTATTAATATATTA
Found at i:89511375 original size:13 final size:14
Alignment explanation
Indices: 89511351--89511381 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
89511341 ATTATTATCA
89511351 ATATTAATATATGT
1 ATATTAATATATGT
89511365 ATATT-ATATATGT
1 ATATTAATATATGT
89511378 ATAT
1 ATAT
89511382 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:89516579 original size:21 final size:21
Alignment explanation
Indices: 89516557--89516596 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
89516547 TAACTCAGTA
*
89516557 AAATACTTA-ATAAATAATAT
1 AAATACATACATAAATAATAT
*
89516577 AAATACATACATTAATAATA
1 AAATACATACATAAATAATA
89516597 GTATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATACATACATAAATAATAT
Found at i:89517170 original size:8 final size:9
Alignment explanation
Indices: 89517093--89517307 Score: 66
Period size: 9 Copynumber: 22.7 Consensus size: 9
89517083 AAAAAATCAT
89517093 TAAAAATTA
1 TAAAAATTA
89517102 TAAAAATT-
1 TAAAAATTA
*
89517110 TAAAAATAA
1 TAAAAATTA
89517119 T-AAAATTGA
1 TAAAAATT-A
* *
89517128 CATAAACTTA
1 TA-AAAATTA
** *
89517138 TGGAACTTA
1 TAAAAATTA
*
89517147 CAAAAAATTA
1 -TAAAAATTA
89517157 TAAAAATTA
1 TAAAAATTA
*
89517166 TAAAACATCA
1 TAAAA-ATTA
**
89517176 TCAAATTTTA
1 T-AAAAATTA
* *
89517186 TAGATATTA
1 TAAAAATTA
89517195 TAAAAAATT-
1 T-AAAAATTA
89517204 TATAAAATTA
1 TA-AAAATTA
89517214 -AGAAAGCA-TA
1 TA-AAA--ATTA
*
89517224 TAAAACATATT
1 TAAAA-AT-TA
*
89517235 TAAAATTTTA
1 TAAAA-ATTA
89517245 TAAAAAAAATTA
1 T---AAAAATTA
89517257 TAAAAACTTA
1 TAAAAA-TTA
89517267 TAAAAA--A
1 TAAAAATTA
89517274 TAAAAATTA
1 TAAAAATTA
* *
89517283 AAAAAATTC
1 TAAAAATTA
*
89517292 TAAAAAATTC
1 T-AAAAATTA
89517302 TAAAAA
1 TAAAAA
89517308 AATTCTAAAT
Statistics
Matches: 155, Mismatches: 29, Indels: 44
0.68 0.13 0.19
Matches are distributed among these distances:
7 7 0.05
8 13 0.08
9 67 0.43
10 43 0.28
11 17 0.11
12 4 0.03
13 4 0.03
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:89517260 original size:22 final size:21
Alignment explanation
Indices: 89517222--89517273 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
89517212 TAAGAAAGCA
* * **
89517222 TATAAAACATATTTAAAATTT
1 TATAAAAAAAATTTAAAAACT
89517243 TATAAAAAAAATTATAAAAACT
1 TATAAAAAAAATT-TAAAAACT
89517265 TATAAAAAA
1 TATAAAAAA
89517274 TAAAAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
TATAAAAAAAATTTAAAAACT
Found at i:89517261 original size:10 final size:10
Alignment explanation
Indices: 89517248--89517308 Score: 60
Period size: 10 Copynumber: 6.6 Consensus size: 10
89517238 AATTTTATAA
89517248 AAAAAATTAT
1 AAAAAATTAT
*
89517258 AAAAACTTAT
1 AAAAAATTAT
89517268 -AAAAA--AT
1 AAAAAATTAT
89517275 -AAAAATTA-
1 AAAAAATTAT
*
89517283 AAAAAATTCT
1 AAAAAATTAT
*
89517293 AAAAAATTCT
1 AAAAAATTAT
89517303 AAAAAA
1 AAAAAA
89517309 ATTCTAAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
7 7 0.16
9 12 0.27
10 25 0.57
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:89517278 original size:17 final size:15
Alignment explanation
Indices: 89517256--89517289 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
89517246 AAAAAAAATT
89517256 ATAAAAACTTATAAAAA
1 ATAAAAA-TTA-AAAAA
89517273 ATAAAAATTAAAAAA
1 ATAAAAATTAAAAAA
89517288 AT
1 AT
89517290 TCTAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAAAATTAAAAAA
Found at i:89517286 original size:25 final size:26
Alignment explanation
Indices: 89517249--89517299 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
89517239 ATTTTATAAA
*
89517249 AAAAATTATAAAAACTTATAAAAAAT
1 AAAAATTATAAAAAATTATAAAAAAT
*
89517275 AAAAATTA-AAAAAATTCTAAAAAAT
1 AAAAATTATAAAAAATTATAAAAAAT
89517300 TCTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAAATTATAAAAAATTATAAAAAAT
Found at i:89517287 original size:16 final size:17
Alignment explanation
Indices: 89517256--89517288 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
89517246 AAAAAAAATT
*
89517256 ATAAAAACTTATAAAAA
1 ATAAAAACTTAAAAAAA
89517273 ATAAAAA-TTAAAAAAA
1 ATAAAAACTTAAAAAAA
89517289 TTCTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
ATAAAAACTTAAAAAAA
Found at i:89517297 original size:11 final size:11
Alignment explanation
Indices: 89517281--89517316 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
89517271 AAATAAAAAT
89517281 TAAAAAAATTC
1 TAAAAAAATTC
89517292 T-AAAAAATTC
1 TAAAAAAATTC
89517302 TAAAAAAATTC
1 TAAAAAAATTC
89517313 TAAA
1 TAAA
89517317 TCATAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAAAAAATTC
Found at i:89520137 original size:20 final size:20
Alignment explanation
Indices: 89520108--89520148 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
89520098 AGTTAGCATT
89520108 TATTTAAAAATTA-TAAAAA
1 TATTTAAAAATTACTAAAAA
89520127 TATTATAAAAATTACTAAAAA
1 TATT-TAAAAATTACTAAAAA
89520148 T
1 T
89520149 GTATGTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TATTTAAAAATTACTAAAAA
Found at i:89522550 original size:22 final size:21
Alignment explanation
Indices: 89522508--89522550 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
89522498 TATAATAGTT
*
89522508 CAAATAAATAAGTTTTCTAAA
1 CAAATAAATAAATTTTCTAAA
89522529 CAAATTAAATAAATGTTT-TAAA
1 CAAA-TAAATAAAT-TTTCTAAA
89522551 AGGACCGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 12 0.63
23 3 0.16
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (21 bp):
CAAATAAATAAATTTTCTAAA
Found at i:89528475 original size:40 final size:41
Alignment explanation
Indices: 89528404--89528630 Score: 259
Period size: 40 Copynumber: 5.7 Consensus size: 41
89528394 TTCTAGCACG
* * * * *
89528404 AGCCTACGGGTCTTT-AACCCGGATTCCATTCCAGTACGA-
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
* *
89528443 AGCCTGCGGGTTTTTAAACCCAGATACAATTCCAGCA-TAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
* * *
89528483 AGTCTGCGAGTCTTTAAACCCGGATACAACTCCAGCA-TAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
*
89528523 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAACA-TAT
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
* * * *
89528563 AGCCTACGGGTCTTTAAACCTGGATACCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
* *
89528603 AGCCTGCGGGTCTTGAAGCCCGGATACA
1 AGCCTGCGGGTCTTTAAACCCGGATACA
89528631 CACATCAAAT
Statistics
Matches: 159, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
39 14 0.09
40 144 0.91
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (41 bp):
AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACTAT
Found at i:89531565 original size:48 final size:48
Alignment explanation
Indices: 89531413--89531537 Score: 232
Period size: 48 Copynumber: 2.6 Consensus size: 48
89531403 TGTGCCTATG
89531413 TAAGACCATGTTTGGGACATGGCATTGGCGATGATATGTGTGCTAGTA
1 TAAGACCATGTTTGGGACATGGCATTGGCGATGATATGTGTGCTAGTA
*
89531461 TAAGACCATGTTTGGGACATGGCATCGGCGATGATATGTGTGCTAGTA
1 TAAGACCATGTTTGGGACATGGCATTGGCGATGATATGTGTGCTAGTA
*
89531509 TAAGACCATGTTTGGAACATGGCATTGGC
1 TAAGACCATGTTTGGGACATGGCATTGGC
89531538 ACTGACATGA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (48 bp):
TAAGACCATGTTTGGGACATGGCATTGGCGATGATATGTGTGCTAGTA
Found at i:89543810 original size:23 final size:23
Alignment explanation
Indices: 89543776--89543861 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 23
89543766 CCATAACTCA
* *
89543776 TATGAGCCTACCGTTTTAGCTCT
1 TATGAGCTTACCGTTTCAGCTCT
*
89543799 TATGAGCTTACC-ATTCAGCTCT
1 TATGAGCTTACCGTTTCAGCTCT
** * *
89543821 TCGGAGTTTACCGTTTCA-ATCCT
1 TATGAGCTTACCGTTTCAGCT-CT
* *
89543844 TAGGGGCTTACCGTTTCA
1 TATGAGCTTACCGTTTCA
89543862 ATTTTACGGA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
22 18 0.36
23 32 0.64
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (23 bp):
TATGAGCTTACCGTTTCAGCTCT
Found at i:89543875 original size:23 final size:24
Alignment explanation
Indices: 89543822--89543878 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
89543812 TTCAGCTCTT
*
89543822 CGGAGTTTACCGTTTCAATCCTTA
1 CGGAGCTTACCGTTTCAATCCTTA
* *
89543846 -GGGGCTTACCGTTTCAAT-TTTA
1 CGGAGCTTACCGTTTCAATCCTTA
89543868 CGGAGCTTACC
1 CGGAGCTTACC
89543879 ATTTATCGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 3 0.11
23 25 0.89
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (24 bp):
CGGAGCTTACCGTTTCAATCCTTA
Found at i:89545929 original size:18 final size:17
Alignment explanation
Indices: 89545901--89545958 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 17
89545891 AATCAAAATG
89545901 AATTAAAATTA-AAAAGA
1 AATTAAAATTATAAAA-A
89545918 AATTATAAATTATAAAAA
1 AATTA-AAATTATAAAAA
* *
89545936 AA-TCAAA-TATGAAAA
1 AATTAAAATTATAAAAA
89545951 AATTAAAA
1 AATTAAAA
89545959 AGAGTTTAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 9 0.26
16 7 0.20
17 6 0.17
18 9 0.26
19 4 0.11
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (17 bp):
AATTAAAATTATAAAAA
Found at i:89547419 original size:15 final size:16
Alignment explanation
Indices: 89547392--89547422 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89547382 GACGATAAAA
89547392 ATATTTTTCATTATAT
1 ATATTTTTCATTATAT
89547408 ATATTTTT-ATTATAT
1 ATATTTTTCATTATAT
89547423 TACTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATTTTTCATTATAT
Found at i:89569088 original size:12 final size:12
Alignment explanation
Indices: 89569071--89569098 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
89569061 TTGTGAAAAT
89569071 AAAATAAAATAA
1 AAAATAAAATAA
89569083 AAAATAAAATAA
1 AAAATAAAATAA
89569095 AAAA
1 AAAA
89569099 CACACAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:89576009 original size:155 final size:155
Alignment explanation
Indices: 89575709--89576165 Score: 822
Period size: 155 Copynumber: 3.0 Consensus size: 155
89575699 GAATCATCCC
*
89575709 CATTCTGCAGAATAT-AAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAAT
1 CATTCTGCAGAATATAAAAATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAAT
89575773 GTCTGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAATTTTTTCTTTAAAGAACGTAAAAT
66 GTCTGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAATTTTTTCTTTAAAGAACGTAAAAT
89575838 TCAAGCCTAAAATCAGTGAAATCAA
131 TCAAGCCTAAAATCAGTGAAATCAA
89575863 CATTCTGCAGAATATAAAAATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAAT
1 CATTCTGCAGAATATAAAAATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAAT
89575928 GTCTGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAATTTTTTCTTTAAAGAACGTAAAAT
66 GTCTGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAATTTTTTCTTTAAAGAACGTAAAAT
89575993 TCAAGCCTAAAATCAGTGAAATCAA
131 TCAAGCCTAAAATCAGTGAAATCAA
89576018 CATTCTGCAGAATATAAAAATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAAT
1 CATTCTGCAGAATATAAAAATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAAT
* * *
89576083 GTCTGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAACTTTTT-ATT------CGAAAAAT
66 GTCTGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAATTTTTTCTTTAAAGAACGTAAAAT
89576141 TCAAGCCTAAAATCAGTGAAATCAA
131 TCAAGCCTAAAATCAGTGAAATCAA
89576166 TCTATCTTAC
Statistics
Matches: 298, Mismatches: 4, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
148 32 0.11
154 17 0.06
155 249 0.84
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (155 bp):
CATTCTGCAGAATATAAAAATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAAT
GTCTGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAATTTTTTCTTTAAAGAACGTAAAAT
TCAAGCCTAAAATCAGTGAAATCAA
Found at i:89601338 original size:55 final size:55
Alignment explanation
Indices: 89601226--89601351 Score: 150
Period size: 55 Copynumber: 2.3 Consensus size: 55
89601216 CGACATGGCA
** * *
89601226 GTGGTCGAACCTGCCAAAACAACACGGGCGTGCGACACGTCCGTGTGGAAGAACC
1 GTGGTCGAACCTGTTAAAAAAACACGGGCGTGCGACACGTCCGTGTGCAAGAACC
* *
89601281 GTGGGT-GAACCTGTTAAAAAAACACGGGCGTGCGACACG-CTCGTGT-CTAGCACCC
1 GT-GGTCGAACCTGTTAAAAAAACACGGGCGTGCGACACGTC-CGTGTGCAAG-AACC
89601336 GTGGTCGAACCTGTTA
1 GTGGTCGAACCTGTTA
89601352 GATTGAAACG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
54 6 0.10
55 52 0.85
56 3 0.05
ACGTcount: A:0.25, C:0.27, G:0.30, T:0.17
Consensus pattern (55 bp):
GTGGTCGAACCTGTTAAAAAAACACGGGCGTGCGACACGTCCGTGTGCAAGAACC
Found at i:89616545 original size:16 final size:16
Alignment explanation
Indices: 89616523--89616578 Score: 103
Period size: 16 Copynumber: 3.5 Consensus size: 16
89616513 AGGGCTTAAG
89616523 GGCATTTTGGTCATTT
1 GGCATTTTGGTCATTT
*
89616539 AGCATTTTGGTCATTT
1 GGCATTTTGGTCATTT
89616555 GGCATTTTGGTCATTT
1 GGCATTTTGGTCATTT
89616571 GGCATTTT
1 GGCATTTT
89616579 AATGAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.14, C:0.12, G:0.23, T:0.50
Consensus pattern (16 bp):
GGCATTTTGGTCATTT
Found at i:89616563 original size:8 final size:8
Alignment explanation
Indices: 89616523--89616578 Score: 55
Period size: 8 Copynumber: 7.0 Consensus size: 8
89616513 AGGGCTTAAG
89616523 GGCATTTT
1 GGCATTTT
89616531 GGTCA-TTT
1 GG-CATTTT
*
89616539 AGCATTTT
1 GGCATTTT
89616547 GGTCA-TTT
1 GG-CATTTT
89616555 GGCATTTT
1 GGCATTTT
89616563 GGTCA-TTT
1 GG-CATTTT
89616571 GGCATTTT
1 GGCATTTT
89616579 AATGAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 6 0.15
8 28 0.70
9 6 0.15
ACGTcount: A:0.14, C:0.12, G:0.23, T:0.50
Consensus pattern (8 bp):
GGCATTTT
Found at i:89621207 original size:21 final size:21
Alignment explanation
Indices: 89621181--89621221 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89621171 AAACAATCAT
* *
89621181 AAAAAGTATTGATACCTTTTC
1 AAAAAGTATGGACACCTTTTC
89621202 AAAAAGTATGGACACCTTTT
1 AAAAAGTATGGACACCTTTT
89621222 ACTAGGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (21 bp):
AAAAAGTATGGACACCTTTTC
Found at i:89621764 original size:37 final size:37
Alignment explanation
Indices: 89621695--89621765 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
89621685 AGTTGAGTCA
* * *
89621695 TAAGGTTTAGGTAGAAACCTTAAGTGAGTTGTAATAT
1 TAAGATTTAGGTAGAAACCTTAAGGGAATTGTAATAT
* * *
89621732 TAAGATTTGGGTAGAAACGTTATGGGAATTGTAA
1 TAAGATTTAGGTAGAAACCTTAAGGGAATTGTAA
89621766 GGTTAAACAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (37 bp):
TAAGATTTAGGTAGAAACCTTAAGGGAATTGTAATAT
Found at i:89624181 original size:16 final size:16
Alignment explanation
Indices: 89624160--89624202 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
89624150 GGAGTTTTGA
89624160 GTTTTCTTTATGTTTT
1 GTTTTCTTTATGTTTT
89624176 GTTTTCTTTATGTTTT
1 GTTTTCTTTATGTTTT
*
89624192 GTATTCTTTAT
1 GTTTTCTTTAT
89624203 TATTCTGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.09, C:0.07, G:0.12, T:0.72
Consensus pattern (16 bp):
GTTTTCTTTATGTTTT
Found at i:89627616 original size:40 final size:40
Alignment explanation
Indices: 89627533--89627718 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
89627523 TTGAATGATG
* * * *
89627533 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
89627573 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGAGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
89627613 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
89627653 TCC-AGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGA-GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
89627694 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGAGCTAAGTCCCGAAGGCATTTG
89627719 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.01
40 117 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:89627732 original size:40 final size:40
Alignment explanation
Indices: 89627586--89627718 Score: 223
Period size: 40 Copynumber: 3.3 Consensus size: 40
89627576 GAACTAAGAT
89627586 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
*
89627626 CCGAAGGCATTTGTGCGAGTTACTAAATCCAGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
89627666 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
89627706 CCGAAGGCATTTG
1 CCGAAGGCATTTG
89627719 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 86 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:89634306 original size:16 final size:16
Alignment explanation
Indices: 89634287--89634318 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89634277 TTTCATTAAG
89634287 TTTTTAAGACTCATTT
1 TTTTTAAGACTCATTT
*
89634303 TTTTTAAGATTCATTT
1 TTTTTAAGACTCATTT
89634319 GTTTACCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTTTAAGACTCATTT
Found at i:89635736 original size:24 final size:27
Alignment explanation
Indices: 89635686--89635737 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
89635676 ATCGATAAGA
*
89635686 ATTATAAGTTGAGGAGAATTTATTTTG
1 ATTATAAGTTGAGGAGAATTTAGTTTG
*
89635713 ATTATGAGTTGA-GA-AATTT-GTTTG
1 ATTATAAGTTGAGGAGAATTTAGTTTG
89635737 A
1 A
89635738 GGACAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
25 5 0.22
26 2 0.09
27 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (27 bp):
ATTATAAGTTGAGGAGAATTTAGTTTG
Found at i:89648010 original size:26 final size:26
Alignment explanation
Indices: 89647980--89648094 Score: 212
Period size: 26 Copynumber: 4.4 Consensus size: 26
89647970 TGAAATTCCC
89647980 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89648006 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89648032 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
89648058 ATCATGAAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89648084 ATCATGGAACA
1 ATCATGGAACA
89648095 ATTATCATTT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 85 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:89655111 original size:26 final size:26
Alignment explanation
Indices: 89655081--89655136 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
89655071 TGAAATTCCC
89655081 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89655107 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
89655133 ATCA
1 ATCA
89655137 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:89656023 original size:17 final size:17
Alignment explanation
Indices: 89655990--89656024 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
89655980 ATTTGAGTAA
*
89655990 ATTTACTTATCGTATTC
1 ATTTACTTATCGCATTC
*
89656007 ATTTACTTATTGCATTC
1 ATTTACTTATCGCATTC
89656024 A
1 A
89656025 CTTAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (17 bp):
ATTTACTTATCGCATTC
Found at i:89662695 original size:40 final size:41
Alignment explanation
Indices: 89662644--89662726 Score: 150
Period size: 40 Copynumber: 2.0 Consensus size: 41
89662634 TAAATGTTCA
*
89662644 ATTTTTGCATATTTTATAATCTTCTATGATTAATATACATT
1 ATTTTTGCATATTTTACAATCTTCTATGATTAATATACATT
89662685 ATTTTT-CATATTTTACAATCTTCTATGATTAATATACATT
1 ATTTTTGCATATTTTACAATCTTCTATGATTAATATACATT
89662725 AT
1 AT
89662727 GCTTTTATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 35 0.85
41 6 0.15
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.53
Consensus pattern (41 bp):
ATTTTTGCATATTTTACAATCTTCTATGATTAATATACATT
Found at i:89666180 original size:36 final size:36
Alignment explanation
Indices: 89666128--89666231 Score: 181
Period size: 36 Copynumber: 2.9 Consensus size: 36
89666118 AGTCCTTCTT
*
89666128 TGAGTGTTCTTTCTTTTTACAAAAGAAACACTTGGA
1 TGAGTGTCCTTTCTTTTTACAAAAGAAACACTTGGA
*
89666164 TGAGTGTCCTTACTTTTTACAAAAGAAACACTTGGA
1 TGAGTGTCCTTTCTTTTTACAAAAGAAACACTTGGA
*
89666200 CGAGTGTCCTTTCTTTTTACAAAAGAAACACT
1 TGAGTGTCCTTTCTTTTTACAAAAGAAACACT
89666232 CAGACTCTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (36 bp):
TGAGTGTCCTTTCTTTTTACAAAAGAAACACTTGGA
Found at i:89669198 original size:24 final size:23
Alignment explanation
Indices: 89669154--89669200 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
89669144 GTACATAAGC
*
89669154 TAAAGATTTCTCGATTAGAAACA
1 TAAAGATTTCTAGATTAGAAACA
89669177 TAAAGAGTTTCTAGAATT-GAAACA
1 TAAAGA-TTTCTAG-ATTAGAAACA
89669201 AGGATGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 12 0.57
25 3 0.14
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.30
Consensus pattern (23 bp):
TAAAGATTTCTAGATTAGAAACA
Found at i:89669668 original size:8 final size:8
Alignment explanation
Indices: 89669655--89669679 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
89669645 ATTTTAAATG
89669655 TGGATCAT
1 TGGATCAT
89669663 TGGATCAT
1 TGGATCAT
89669671 TGGATCAT
1 TGGATCAT
89669679 T
1 T
89669680 TTATTTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (8 bp):
TGGATCAT
Found at i:89676933 original size:14 final size:14
Alignment explanation
Indices: 89676914--89676942 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89676904 CCAGAATAGA
89676914 TATATATATATATG
1 TATATATATATATG
89676928 TATATATATATATG
1 TATATATATATATG
89676942 T
1 T
89676943 GGCGAAGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TATATATATATATG
Found at i:89681289 original size:33 final size:33
Alignment explanation
Indices: 89681247--89681312 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
89681237 TTTTCAGCTA
89681247 CACCAACTCCTTCGGTGCCATCCTATAAGGTGC
1 CACCAACTCCTTCGGTGCCATCCTATAAGGTGC
89681280 CACCAACTCCTTCGGTGCCATCCTATAAGGTGC
1 CACCAACTCCTTCGGTGCCATCCTATAAGGTGC
89681313 AATGGACACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.24
Consensus pattern (33 bp):
CACCAACTCCTTCGGTGCCATCCTATAAGGTGC
Found at i:89701905 original size:36 final size:36
Alignment explanation
Indices: 89701858--89701926 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
89701848 TGGTCGTAAG
89701858 GCAAATTGAGCCCTAGATTTATTGGACCTTACCGTA
1 GCAAATTGAGCCCTAGATTTATTGGACCTTACCGTA
89701894 GCAAATTGAGCCCTAGATTTATTGGACCTTACC
1 GCAAATTGAGCCCTAGATTTATTGGACCTTACC
89701927 ATATTTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (36 bp):
GCAAATTGAGCCCTAGATTTATTGGACCTTACCGTA
Found at i:89709780 original size:50 final size:50
Alignment explanation
Indices: 89709709--89709809 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
89709699 GCTTTGGAAG
89709709 GATGAATGTCGTTTTGCTAATGTGACTAGGAATTAATTTGTTAGTTCTTT
1 GATGAATGTCGTTTTGCTAATGTGACTAGGAATTAATTTGTTAGTTCTTT
89709759 GATGAATGTCGTTTTGCTAATGTGACTAGGAATTAATTTGTTAGTTCTTT
1 GATGAATGTCGTTTTGCTAATGTGACTAGGAATTAATTTGTTAGTTCTTT
89709809 G
1 G
89709810 TTTTACTTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.46
Consensus pattern (50 bp):
GATGAATGTCGTTTTGCTAATGTGACTAGGAATTAATTTGTTAGTTCTTT
Found at i:89711335 original size:37 final size:35
Alignment explanation
Indices: 89711260--89712003 Score: 700
Period size: 37 Copynumber: 20.3 Consensus size: 35
89711250 AGATAAAAGA
* * ***
89711260 TCTATCCCAACCTTTCTAAGTTTGCCTTAGATGGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAG
* * *
89711295 TTTACCCCCTAACCTTTTTAAGGTTGCCTTAGACGAG
1 TCTA-TCCC-AACCTTTTTAAGGTTGCCTTAGACAAG
* * * *
89711332 TTTATCCCAACTTGTTTTAA-GTTGCCTTGGAAAAAAG
1 TCTATCCCAACCT-TTTTAAGGTTGCCTT--AGACAAG
* * * *
89711369 TCTATCCCAACCTTTTTAAAGTTGCTTTAAACGAG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAG
* * *
89711404 TCTATCCCAACATTTTTAAGGTTGTCTTAGACATG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAG
* * * *
89711439 TCAATCCCAACCTTTTTTAAAAGTTTCCTTGGACAAGG
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAA-G
* * *
89711477 CCTATCCCAACCTTTTTAAGGTTACCTTAGACAAA
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAG
*
89711512 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAA
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAG
*
89711547 TCTATCCCAACCTTTTTAAGGTTGCCATAGACAAG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAG
*
89711582 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAAACAAGG
1 TCTATCCCAACC--TTTTTAAGGTTGCCTTAGACAA-G
*
89711620 TCTATCCCAACATTTTTAAAAGGTTGCCTTAGACAAG
1 TCTATCCCAACCTTTTT--AAGGTTGCCTTAGACAAG
89711657 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAA-G
** **
89711695 TCTATCCCAATTTTTTTAAAAGGTTGCCTTAGACTGG
1 TCTATCCCAACCTTTTT--AAGGTTGCCTTAGACAAG
*
89711732 TCTATCCCAACCTTTTTTAGAGGTTTCCTTAGACAAGG
1 TCTATCCCAACC-TTTTTA-AGGTTGCCTTAGACAA-G
* * *
89711770 TCTATACCAACCTTTTTAAGGTTGCCTTAGACGAT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAG
* * *
89711805 TCTATCCTAATCTTTTTTAAAGGTTTCCTTAGACAAG
1 TCTATCCCAA-CCTTTTT-AAGGTTGCCTTAGACAAG
* *
89711842 ATCTATCCCAACTTTTTTTAAAGGTTTCCTTAGACAAG
1 -TCTATCCCAAC-CTTTTT-AAGGTTGCCTTAGACAAG
* *** *
89711880 TTCTATCCCAACTTTTTTTAAAAGGTTATATTAGACTAG
1 -TCTATCCCAAC-CTTTTT--AAGGTTGCCTTAGACAAG
* *
89711919 TCTATCCCTACCTTTTTAAGGTTGCCTTAGACGAG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAG
*
89711954 TCTATCCCAACCTTTTTCAAAGGTTGGCCTT-GACTAGG
1 TCTATCCCAACCTTTTT--AAGGTT-GCCTTAGAC-AAG
*
89711992 TCTTTCCCAACC
1 TCTATCCCAACC
89712004 CTTCAATAAG
Statistics
Matches: 600, Mismatches: 80, Indels: 55
0.82 0.11 0.07
Matches are distributed among these distances:
35 174 0.29
36 63 0.10
37 181 0.30
38 167 0.28
39 15 0.03
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (35 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAG
Found at i:89711486 original size:38 final size:38
Alignment explanation
Indices: 89711305--89712003 Score: 697
Period size: 38 Copynumber: 19.1 Consensus size: 38
89711295 TTTACCCCCT
* *
89711305 AACC-TTTTT-AAGGTTGCCTTAGACGA-GTTTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
89711340 AA-CTTGTTTT-AA-GTTGCCTTGGAAAAAAGTCTATCCC
1 AACCTT-TTTTAAAGGTTGCCTTAG-ACAAGGTCTATCCC
* * *
89711377 AACC-TTTTTAAA-GTTGCTTTAAACGA-GTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * * *
89711412 AA-CATTTTT-AAGGTTGTCTTAGAC-ATGTCAATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * * *
89711447 AACCTTTTTTAAAAGTTTCCTTGGACAAGGCCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* *
89711485 AACC-TTTTT-AAGGTTACCTTAGACAA-ATCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
*
89711520 AACC-TTTTT-AAGGTTGCCTTAGACAA-ATCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
*
89711555 AACC-TTTTT-AAGGTTGCCATAGACAA-GTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* *
89711590 AACCTTTTTTTAAGGTTGCCTTAAACAAGGTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* *
89711628 AACATTTTTAAAAGGTTGCCTTAGACAA-GTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
89711665 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* *
89711703 AA-TTTTTTTAAAAGGTTGCCTTAGAC-TGGTCTATCCC
1 AACCTTTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
89711740 AACCTTTTTTAGAGGTTTCCTTAGACAAGGTCTATACC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
89711778 AACC-TTTTT-AAGGTTGCCTTAGACGA-TTCTATCCT
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
89711813 AATCTTTTTTAAAGGTTTCCTTAGACAAGATCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
89711851 AACTTTTTTTAAAGGTTTCCTTAGACAAGTTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* *** *
89711889 AACTTTTTTTAAAAGGTTATATTAGACTA-GTCTATCCC
1 AACCTTTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCC
* *
89711927 TACC-TTTTT-AAGGTTGCCTTAGACGA-GTCTATCCC
1 AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
* * *
89711962 AACCTTTTTCAAAGGTTGGCCTT-GACTAGGTCTTTCCC
1 AACCTTTTTTAAAGGTT-GCCTTAGACAAGGTCTATCCC
89712000 AACC
1 AACC
89712004 CTTCAATAAG
Statistics
Matches: 564, Mismatches: 73, Indels: 51
0.82 0.11 0.07
Matches are distributed among these distances:
34 5 0.01
35 159 0.28
36 62 0.11
37 153 0.27
38 171 0.30
39 14 0.02
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (38 bp):
AACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC
Found at i:89714036 original size:43 final size:43
Alignment explanation
Indices: 89713949--89714115 Score: 149
Period size: 43 Copynumber: 3.9 Consensus size: 43
89713939 AGCTCATACA
* * * * *
89713949 ATGCCAC-ATCTTAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCACTATCCTAGACATGGTCTTACACGTAATCACATAACG
* * * *
89713991 ATGCCACTATCCTAGAGAGGGTCTTACACGAAATCATATAACG
1 ATGCCACTATCCTAGACATGGTCTTACACGTAATCACATAACG
* * * * *
89714034 ATGCTAATGTCCCAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCACTATCCTAGACATGGTCTTACACGTAATCACATA-ACG
* * * *
89714077 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCACTATCCTAGACATGGTCTTACACGTAATCACAT
89714116 CTCGGTAATT
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 8 0.08
43 95 0.92
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCACTATCCTAGACATGGTCTTACACGTAATCACATAACG
Found at i:89717906 original size:15 final size:15
Alignment explanation
Indices: 89717865--89717908 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
89717855 GTTTCTCAGT
*
89717865 TTTCTTCTTCATCGC
1 TTTCTTCTTCTTCGC
*
89717880 TTTCTTCGTCTTCG-
1 TTTCTTCTTCTTCGC
89717894 TCTTCTTCTTCTTCG
1 T-TTCTTCTTCTTCG
89717909 GTGATTGCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.02, C:0.32, G:0.09, T:0.57
Consensus pattern (15 bp):
TTTCTTCTTCTTCGC
Found at i:89723496 original size:15 final size:15
Alignment explanation
Indices: 89723473--89723517 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
89723463 ATAATTAATT
*
89723473 TGTATTATTATATTA
1 TGTAATATTATATTA
* *
89723488 TGTAATATTATAGTG
1 TGTAATATTATATTA
89723503 TGT-ATATTATATTA
1 TGTAATATTATATTA
89723517 T
1 T
89723518 AGGCGTATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (15 bp):
TGTAATATTATATTA
Found at i:89725820 original size:23 final size:23
Alignment explanation
Indices: 89725794--89725843 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
89725784 TTGGAGGAAG
* *
89725794 CATTATGTCATTTTAGTGCAATT
1 CATTATGCCATTATAGTGCAATT
*
89725817 CATTTTGCCATTATAGTGCAATT
1 CATTATGCCATTATAGTGCAATT
89725840 CATT
1 CATT
89725844 CTGGCACTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (23 bp):
CATTATGCCATTATAGTGCAATT
Found at i:89726074 original size:21 final size:23
Alignment explanation
Indices: 89726033--89726075 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
89726023 AAAGGATACG
89726033 TCATTCTAAATTGTGGATAAACA
1 TCATTCTAAATTGTGGATAAACA
*
89726056 TCATTCTCAA-TGT-GATAAAC
1 TCATTCTAAATTGTGGATAAAC
89726076 GAGCATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (23 bp):
TCATTCTAAATTGTGGATAAACA
Found at i:89733731 original size:19 final size:18
Alignment explanation
Indices: 89733709--89733765 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
89733699 CATCAAGGCG
89733709 TCAAACTACCATAAATACA
1 TCAAAC-ACCATAAATACA
*
89733728 TC--A-ACCATAAA-AGTA
1 TCAAACACCATAAATA-CA
89733743 TCAAACCACCATAAATACA
1 TCAAA-CACCATAAATACA
89733762 TCAA
1 TCAA
89733766 CTATAATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
14 1 0.03
15 11 0.37
17 2 0.07
19 15 0.50
20 1 0.03
ACGTcount: A:0.53, C:0.26, G:0.02, T:0.19
Consensus pattern (18 bp):
TCAAACACCATAAATACA
Found at i:89733734 original size:34 final size:34
Alignment explanation
Indices: 89733691--89733771 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
89733681 AGTCATACTA
* * * *
89733691 ACATCAACCATCAAGGCGTCAAACTACCATAAAT
1 ACATCAACCATAAAAGCATCAAACCACCATAAAT
*
89733725 ACATCAACCATAAAAGTATCAAACCACCATAAAT
1 ACATCAACCATAAAAGCATCAAACCACCATAAAT
*
89733759 ACATCAACTATAA
1 ACATCAACCATAA
89733772 TAACACTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.49, C:0.27, G:0.05, T:0.19
Consensus pattern (34 bp):
ACATCAACCATAAAAGCATCAAACCACCATAAAT
Found at i:89734851 original size:60 final size:59
Alignment explanation
Indices: 89734758--89734878 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 59
89734748 GATCAGTACG
*
89734758 AGGTTTATCTTGATCTAAATAAACAAATTCAGTTCATTTAATACTCATACTATTTAATTT
1 AGGTTTATCTTGATATAAATAAACAAATTCAGTTCA-TTAATACTCATACTATTTAATTT
89734818 AGGTTTATCTTGATATAAATAAACAAATTCAGTTCATTAATACTCATACTATTTAATTT
1 AGGTTTATCTTGATATAAATAAACAAATTCAGTTCATTAATACTCATACTATTTAATTT
89734877 AG
1 AG
89734879 TCTTTTTTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 25 0.42
60 35 0.58
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (59 bp):
AGGTTTATCTTGATATAAATAAACAAATTCAGTTCATTAATACTCATACTATTTAATTT
Found at i:89737311 original size:10 final size:11
Alignment explanation
Indices: 89737272--89737313 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
89737262 TATTTACAAA
*
89737272 GTTAATTGAGTG
1 GTTAATT-AGAG
89737284 GTTAATTAGAG
1 GTTAATTAGAG
*
89737295 TTTAATTA-AG
1 GTTAATTAGAG
89737305 GTTAATTAG
1 GTTAATTAG
89737314 GTATAAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:89738949 original size:44 final size:44
Alignment explanation
Indices: 89738863--89738954 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
89738853 TGTTCAGGGA
* *
89738863 TACTTCGACCTTGAGTCAATGAGGCACTATAAGTATCATACTGT
1 TACTTCGACCTTGAGTCAATGAGGCACCATAAGTATCATACTGC
* ** * *
89738907 TACTTCGA-CTTCGAGTCGATGAGGCACCATGTGTGTCGTACTGC
1 TACTTCGACCTT-GAGTCAATGAGGCACCATAAGTATCATACTGC
89738951 TACT
1 TACT
89738955 GTTACATCGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.08
44 37 0.93
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCAATGAGGCACCATAAGTATCATACTGC
Found at i:89739025 original size:47 final size:47
Alignment explanation
Indices: 89738943--89739043 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
89738933 CCATGTGTGT
** * *
89738943 CGTACTGCTACTGTTACATCGGTTTAGTCCGATGAGGTACTGAGTAC
1 CGTACTGCTACTGTTACATCGGTAAAGTCCAATGAGGCACTGAGTAC
* * **
89738990 CGTACTGTTACTGTTTACTTCGGTAAAG-CCAATGAGGCACTGAGTGT
1 CGTACTGCTACTG-TTACATCGGTAAAGTCCAATGAGGCACTGAGTAC
89739037 CGTACTG
1 CGTACTG
89739044 GTGTGTTGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
47 34 0.76
48 11 0.24
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (47 bp):
CGTACTGCTACTGTTACATCGGTAAAGTCCAATGAGGCACTGAGTAC
Found at i:89740307 original size:55 final size:55
Alignment explanation
Indices: 89740223--89740336 Score: 219
Period size: 55 Copynumber: 2.1 Consensus size: 55
89740213 CTGAACTACA
89740223 TAATAAATATTCTTGTATTATTAGTGTTTGAACTGTAGTGATCGGTAATGCTCCG
1 TAATAAATATTCTTGTATTATTAGTGTTTGAACTGTAGTGATCGGTAATGCTCCG
*
89740278 TAATAAATATTCTTGTATTATTAGTGTTTGAACTGTAGTGATCGGTAATGCTTCG
1 TAATAAATATTCTTGTATTATTAGTGTTTGAACTGTAGTGATCGGTAATGCTCCG
89740333 TAAT
1 TAAT
89740337 CCTGTTCTGG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (55 bp):
TAATAAATATTCTTGTATTATTAGTGTTTGAACTGTAGTGATCGGTAATGCTCCG
Found at i:89740522 original size:32 final size:32
Alignment explanation
Indices: 89740484--89740548 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
89740474 AATAAATGCA
89740484 TACTTAACAGTACAATCAGACATACATATCAG
1 TACTTAACAGTACAATCAGACATACATATCAG
89740516 TACTTAACAGTACAATCAGACATACATATCAG
1 TACTTAACAGTACAATCAGACATACATATCAG
89740548 T
1 T
89740549 TTCCTACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (32 bp):
TACTTAACAGTACAATCAGACATACATATCAG
Found at i:89749305 original size:21 final size:21
Alignment explanation
Indices: 89749232--89749306 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
89749222 ATGTTTTATT
*
89749232 TTCTGTTTAGCTCTT-TCGAGC
1 TTCTGTTCAGCTCTTAT-GAGC
* *
89749253 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTATGAGC
* *
89749274 TTTTGTCCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
*
89749295 TTCTATTCAGCT
1 TTCTGTTCAGCT
89749307 TTCAAGCTTC
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 42 0.98
22 1 0.02
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.47
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:89749566 original size:10 final size:8
Alignment explanation
Indices: 89749551--89749589 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
89749541 TGATGGCACA
89749551 TGATATAT
1 TGATATAT
89749559 TGATATAT
1 TGATATAT
89749567 TGATATAT
1 TGATATAT
89749575 TGA-A-AT
1 TGATATAT
89749581 TGATGATAT
1 TGAT-ATAT
89749590 ATGTATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 5 0.18
7 1 0.04
8 20 0.71
9 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (8 bp):
TGATATAT
Found at i:89755579 original size:63 final size:63
Alignment explanation
Indices: 89755500--89755627 Score: 202
Period size: 63 Copynumber: 2.0 Consensus size: 63
89755490 CGTCCTGTGG
* * * * *
89755500 TCATTTGAAATAGAGACCACAATACTCATGAAGCTATATTTAATAGCTTACTAAGTGAATAAA
1 TCATTCGAAATAGAGACCACAATACTCATGAAGCTATATTTAACAACTCACTAACTGAATAAA
*
89755563 TCATTCGAAATAGAGACCACAATACTCATGAAGTTATATTTAACAACTCACTAACTGAATAAA
1 TCATTCGAAATAGAGACCACAATACTCATGAAGCTATATTTAACAACTCACTAACTGAATAAA
89755626 TC
1 TC
89755628 TACGGTATCC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (63 bp):
TCATTCGAAATAGAGACCACAATACTCATGAAGCTATATTTAACAACTCACTAACTGAATAAA
Found at i:89756432 original size:98 final size:99
Alignment explanation
Indices: 89756251--89756481 Score: 254
Period size: 98 Copynumber: 2.3 Consensus size: 99
89756241 TCGTTTACTT
* *
89756251 GATGCCATAGTCCAACTATGGTCTTACACGTAT-TCTACCATGGCCCTACCATGGTCTTACACTC
1 GATGCCATAG-CCAACTATGGTTTTACACGTATATCTACCATGGCCCTACCAAGGTCTTACACTC
* *
89756315 ATAGTGCCATAACCTAGTTATTA-TCTTATCATCAG
65 ATAATGCCATAACCTAGTTA-CAGTCTTATCATCAG
* ** * * *
89756350 GATGACATAGCCAACTATGGTTTTACACGTATAT-TGTCATGGCCCTGCCAAGGTCTTGCACTCG
1 GATGCCATAGCCAACTATGGTTTTACACGTATATCTACCATGGCCCTACCAAGGTCTTACACTCA
** *
89756414 TAATGTGATAA-CTCAGTTACAGTCTTATCATTAG
66 TAATGCCATAACCT-AGTTACAGTCTTATCATCAG
* **
89756448 GATGCCATAACCCTGCTATGGTTTTACACGTATA
1 GATGCCAT-AGCCAACTATGGTTTTACACGTATA
89756482 CACATATATT
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
97 3 0.03
98 76 0.68
99 32 0.29
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (99 bp):
GATGCCATAGCCAACTATGGTTTTACACGTATATCTACCATGGCCCTACCAAGGTCTTACACTCA
TAATGCCATAACCTAGTTACAGTCTTATCATCAG
Found at i:89758481 original size:11 final size:11
Alignment explanation
Indices: 89758461--89758494 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
89758451 CTCCTTATAT
89758461 ATTA-AATAAA
1 ATTATAATAAA
89758471 ATTATAATAAA
1 ATTATAATAAA
*
89758482 CTTATAATAAA
1 ATTATAATAAA
89758493 AT
1 AT
89758495 ATCTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTATAATAAA
Found at i:89777608 original size:22 final size:22
Alignment explanation
Indices: 89777582--89777646 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 22
89777572 TAAGTTTTAT
89777582 TATTTATCTTTAATATTGTCAA
1 TATTTATCTTTAATATTGTCAA
*
89777604 TA--T-T-TTTAAGT-TT-T-AT
1 TATTTATCTTTAA-TATTGTCAA
89777620 TATTTATCTTTAATATTGTCAA
1 TATTTATCTTTAATATTGTCAA
89777642 TATTT
1 TATTT
89777647 TTAAGGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
16 3 0.09
17 1 0.03
18 8 0.24
19 4 0.12
20 8 0.24
21 1 0.03
22 8 0.24
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (22 bp):
TATTTATCTTTAATATTGTCAA
Found at i:89777612 original size:38 final size:38
Alignment explanation
Indices: 89777570--89777651 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
89777560 TTCACTTCAA
89777570 TTTAAGTTTTATTATTTATCTTTAATATTGTCAATATT
1 TTTAAGTTTTATTATTTATCTTTAATATTGTCAATATT
89777608 TTTAAGTTTTATTATTTATCTTTAATATTGTCAATATT
1 TTTAAGTTTTATTATTTATCTTTAATATTGTCAATATT
89777646 TTTAAG
1 TTTAAG
89777652 GTTAAAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (38 bp):
TTTAAGTTTTATTATTTATCTTTAATATTGTCAATATT
Found at i:89777673 original size:38 final size:38
Alignment explanation
Indices: 89777586--89777673 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
89777576 TTTTATTATT
* ** * **
89777586 TATCTTTAATATTGTCAATATTTTTAAGTTTTATTATT
1 TATCTTAAATATTGTCAATATTTTTAAGTTAAAATAAA
*
89777624 TATCTTTAATATTGTCAATATTTTTAAGGTTAAAATAAA
1 TATCTTAAATATTGTCAATATTTTTAA-GTTAAAATAAA
89777663 TAT-TTAAATAT
1 TATCTTAAATAT
89777674 AATTTTTATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 34 0.79
39 9 0.21
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.53
Consensus pattern (38 bp):
TATCTTAAATATTGTCAATATTTTTAAGTTAAAATAAA
Found at i:89778893 original size:3 final size:3
Alignment explanation
Indices: 89778874--89778929 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
89778864 TTAAGGTTTG
* * * * *
89778874 AGA AAA AGA AAA AGA AGA AGA AGA AGA GGA GGA AG- AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
89778921 AGG AGA AGA
1 AGA AGA AGA
89778930 GAAAAAATGG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:89778914 original size:20 final size:20
Alignment explanation
Indices: 89778889--89778936 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
89778879 AAGAAAAAGA
*
89778889 AGAAGAAGAAG-AGGAGGAAG
1 AGAAGAAAAAGAAGGA-GAAG
89778909 AGAAGAAAAAGAAGGAGAAG
1 AGAAGAAAAAGAAGGAGAAG
89778929 AGAA-AAAA
1 AGAAGAAAA
89778937 TGGATATGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.15
20 18 0.69
21 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (20 bp):
AGAAGAAAAAGAAGGAGAAG
Done.