Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 56 of 218
Found at i:17148486 original size:24 final size:26
Alignment explanation
Indices: 17148431--17148490 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
17148421 TTTTTAGTAT
*
17148431 ATTTTGGTAAATAAATAAAATTTACAAT
1 ATTTTGGTAAATAAATAAAA--TACAAC
*
17148459 ATTTTGGTAAATAAA-AAAA-ATAAC
1 ATTTTGGTAAATAAATAAAATACAAC
17148483 ATTTTGGT
1 ATTTTGGT
17148491 TATTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 11 0.37
27 4 0.13
28 15 0.50
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.38
Consensus pattern (26 bp):
ATTTTGGTAAATAAATAAAATACAAC
Found at i:17150531 original size:20 final size:20
Alignment explanation
Indices: 17150498--17150539 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17150488 AAAAAAATTG
*
17150498 AAATATATATAATATTCATAA
1 AAATATATAAAATATTC-TAA
17150519 AAAT-TATAAAATATTCTAA
1 AAATATATAAAATATTCTAA
17150538 AA
1 AA
17150540 TAATCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATATATAAAATATTCTAA
Found at i:17168008 original size:3 final size:3
Alignment explanation
Indices: 17168000--17168025 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17167990 ACATGATTCC
17168000 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
17168026 ATACATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:17175234 original size:25 final size:26
Alignment explanation
Indices: 17175206--17175254 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
17175196 TAAATGTCAA
17175206 AAAAGTA-GA-AAGGCCGAAATTTGGG
1 AAAAGTATGAGAA-GCCGAAATTTGGG
17175231 AAAAGTATGAGAAGCCGAAATTTG
1 AAAAGTATGAGAAGCCGAAATTTG
17175255 AAAAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.32
26 13 0.59
27 2 0.09
ACGTcount: A:0.45, C:0.08, G:0.29, T:0.18
Consensus pattern (26 bp):
AAAAGTATGAGAAGCCGAAATTTGGG
Found at i:17175260 original size:26 final size:25
Alignment explanation
Indices: 17175204--17175260 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
17175194 TCTAAATGTC
17175204 AAAAAAGTAGAAAGGCCGAAATTTG
1 AAAAAAGTAGAAAGGCCGAAATTTG
**
17175229 GGAAAAGTATGAGAA-GCCGAAATTTG
1 AAAAAAGTA-GA-AAGGCCGAAATTTG
17175255 AAAAAA
1 AAAAAA
17175261 AAAGATAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 7 0.27
26 17 0.65
27 2 0.08
ACGTcount: A:0.53, C:0.07, G:0.25, T:0.16
Consensus pattern (25 bp):
AAAAAAGTAGAAAGGCCGAAATTTG
Found at i:17178445 original size:10 final size:10
Alignment explanation
Indices: 17178432--17178460 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
17178422 TTCACATAAC
17178432 TAAAACACAT
1 TAAAACACAT
17178442 TAAAACACAT
1 TAAAACACAT
17178452 TAAAACACA
1 TAAAACACA
17178461 CTTCAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.17
Consensus pattern (10 bp):
TAAAACACAT
Found at i:17179828 original size:24 final size:24
Alignment explanation
Indices: 17179794--17179846 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
17179784 GATATATCGA
17179794 CTTTTCATTGAGATCCTTTTAGAC
1 CTTTTCATTGAGATCCTTTTAGAC
* * * *
17179818 TTTTTCGTTGATATCCTTTTCGAC
1 CTTTTCATTGAGATCCTTTTAGAC
17179842 CTTTT
1 CTTTT
17179847 AATTTGTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.11, T:0.53
Consensus pattern (24 bp):
CTTTTCATTGAGATCCTTTTAGAC
Found at i:17188901 original size:3 final size:3
Alignment explanation
Indices: 17188893--17188948 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
17188883 GTAGAAATAT
17188893 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
17188941 ATG ATG AT
1 ATG ATG AT
17188949 AAACAATCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:17189240 original size:19 final size:19
Alignment explanation
Indices: 17189216--17189253 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17189206 ATAATCTAGT
17189216 ACCTGGATGTTTTAATCCA
1 ACCTGGATGTTTTAATCCA
*
17189235 ACCTGGATGTTTTCATCCA
1 ACCTGGATGTTTTAATCCA
17189254 CTTTGACAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (19 bp):
ACCTGGATGTTTTAATCCA
Found at i:17196168 original size:22 final size:22
Alignment explanation
Indices: 17196143--17196186 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17196133 TTTTTTGTGG
17196143 TTTA-ATTATTATATTTTTTATT
1 TTTATATTATTA-ATTTTTTATT
*
17196165 TTTATTTTATTAATTTTTTATT
1 TTTATATTATTAATTTTTTATT
17196187 CTATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTATATTATTAATTTTTTATT
Found at i:17196191 original size:21 final size:22
Alignment explanation
Indices: 17196148--17196202 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
17196138 TGTGGTTTAA
*
17196148 TTATTATATTTTTTATTTTTATT
1 TTATTA-ATTTTTTATTTCTATT
17196171 TTATTAATTTTTTA-TTCTATT
1 TTATTAATTTTTTATTTCTATT
17196192 TT-TTCAATTTT
1 TTATT-AATTTT
17196203 AAAAAATGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 2 0.07
21 14 0.47
22 8 0.27
23 6 0.20
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (22 bp):
TTATTAATTTTTTATTTCTATT
Found at i:17198983 original size:66 final size:66
Alignment explanation
Indices: 17198861--17198984 Score: 144
Period size: 66 Copynumber: 1.9 Consensus size: 66
17198851 GTGATTTATG
* **
17198861 TATTGAATTTTCATTATTGTATTAACTTAAATTATTTACATATATTTGCATTATATTTCTATTTT
1 TATTGAATTTTCATTATTGTATTAACTTAAATTATTTACATATACTTGCAAAATATTTCTATTTT
17198926 T
66 T
* * * * *
17198927 TATTGAATTTTCATTCTTGT-TTCAATTTCAATTATTTAGATGA-ACTTGTAAAATATTT
1 TATTGAATTTTCATTATTGTATT-AACTTAAATTATTTACAT-ATACTTGCAAAATATTT
17198985 GAATGAACTT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
65 2 0.04
66 45 0.94
67 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (66 bp):
TATTGAATTTTCATTATTGTATTAACTTAAATTATTTACATATACTTGCAAAATATTTCTATTTT
T
Found at i:17199619 original size:30 final size:30
Alignment explanation
Indices: 17199585--17199647 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
17199575 ACTTATTTTA
*
17199585 TTGTTAATTTTGTTATTATTTTAAAGACGT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
17199615 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
17199645 TTG
1 TTG
17199648 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:17204927 original size:24 final size:24
Alignment explanation
Indices: 17204900--17204951 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
17204890 TTAGTAAGTC
*
17204900 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
17204924 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
17204948 AAAT
1 AAAT
17204952 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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:17208175 original size:24 final size:24
Alignment explanation
Indices: 17208118--17208178 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
17208108 CGATTTTTTT
*
17208118 TCGAAT-TTCGAATTCGAATCAAG
1 TCGAATATTCGAATTCGAATCAAC
* *
17208141 TTGAATTTTCGAATTCGAAT-AAC
1 TCGAATATTCGAATTCGAATCAAC
17208164 TCGAATAATTCGAAT
1 TCGAAT-ATTCGAAT
17208179 AAACCGAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (24 bp):
TCGAATATTCGAATTCGAATCAAC
Found at i:17208685 original size:18 final size:18
Alignment explanation
Indices: 17208648--17208685 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
17208638 TAAAAATCAC
*
17208648 ATTTTTTACATTTAATAT
1 ATTTTTTACATTTAAAAT
17208666 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTACATTT-AAAAT
17208684 AT
1 AT
17208686 ATAGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTACATTTAAAAT
Found at i:17212752 original size:25 final size:25
Alignment explanation
Indices: 17212715--17212830 Score: 85
Period size: 25 Copynumber: 4.7 Consensus size: 25
17212705 TCATATTCAT
17212715 GTATGCTCATACGAGCTATGAATCA
1 GTATGCTCATACGAGCTATGAATCA
* * *
17212740 GTATGCTCTTACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTATGAATCA
* * * *
17212765 GGAAGCTCATATGAGC--TGCAGTCGA
1 GTATGCTCATACGAGCTATG-AATC-A
* * *
17212790 G-AAGCTCATACGAGCTATAAATCG
1 GTATGCTCATACGAGCTATGAATCA
* *
17212814 GGAAGCTCATACGAGCT
1 GTATGCTCATACGAGCT
17212831 GTGGTGTGTT
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
23 2 0.03
24 17 0.23
25 53 0.73
26 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATGAATCA
Found at i:17220351 original size:21 final size:21
Alignment explanation
Indices: 17220325--17220383 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
17220315 CATGGTTTGC
*
17220325 CCACACGACTGTGTATCTCAG
1 CCACACGACTGTGTACCTCAG
* * *
17220346 CCACACGGCCGTGTCCCTCAG
1 CCACACGACTGTGTACCTCAG
*
17220367 CCATACGACTGTGTACC
1 CCACACGACTGTGTACC
17220384 CTTATCACAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.39, G:0.20, T:0.20
Consensus pattern (21 bp):
CCACACGACTGTGTACCTCAG
Found at i:17227749 original size:20 final size:20
Alignment explanation
Indices: 17227703--17227750 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
17227693 TGAACTAAAC
*
17227703 TTTAATTTAATTTTTGAGTAT
1 TTTAA-TTAATTTTGGAGTAT
*
17227724 TATAATTAATTTTGGA-TAAT
1 TTTAATTAATTTTGGAGT-AT
17227744 TTTAATT
1 TTTAATT
17227751 TTTATCGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 18 0.78
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTAATTAATTTTGGAGTAT
Found at i:17233403 original size:26 final size:26
Alignment explanation
Indices: 17233374--17233462 Score: 128
Period size: 26 Copynumber: 3.5 Consensus size: 26
17233364 CAAGCCATAT
17233374 AATAAGAAGCTCACGAAGAGCCTTTA
1 AATAAGAAGCTCACGAAGAGCCTTTA
17233400 AAT-AGAAAGCTCACGAAGAGCCTTTA
1 AATAAG-AAGCTCACGAAGAGCCTTTA
* *
17233426 AACAAGAAGCTCACGAAGAGCCATT-
1 AATAAGAAGCTCACGAAGAGCCTTTA
*
17233451 AATCAGAAGCTC
1 AATAAGAAGCTC
17233463 TAGACAACCA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
25 12 0.21
26 43 0.75
27 2 0.04
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (26 bp):
AATAAGAAGCTCACGAAGAGCCTTTA
Found at i:17236392 original size:20 final size:20
Alignment explanation
Indices: 17236367--17236404 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17236357 GACAAAATTG
17236367 TTATTCCCAGAAAATAAAAT
1 TTATTCCCAGAAAATAAAAT
**
17236387 TTATTCTTAGAAAATAAA
1 TTATTCCCAGAAAATAAA
17236405 TTTCCACTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (20 bp):
TTATTCCCAGAAAATAAAAT
Found at i:17240678 original size:23 final size:23
Alignment explanation
Indices: 17240652--17240770 Score: 161
Period size: 23 Copynumber: 5.2 Consensus size: 23
17240642 ATAAGTGCCA
*
17240652 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
17240675 CACTAATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
17240698 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
17240721 CACTGATATGTAACC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
17240744 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
17240767 CACT
1 CACT
17240771 AATCAATAAC
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
22 2 0.02
23 81 0.96
24 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:17240719 original size:46 final size:46
Alignment explanation
Indices: 17240652--17240773 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
17240642 ATAAGTGCCA
* * * *
17240652 CACTGATATGTAGCTGAAGCTACCACTAATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTAATATGTAACCATAGCTAC
*
17240698 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAACCATAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTAATATGTAACCATAGCTAC
*
17240744 CACTGAATTGTAGCCGAAGCTACCACTAAT
1 CACTGAAATGTAGCCGAAGCTACCACTAAT
17240774 CAATAACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTAATATGTAACCATAGCTAC
Found at i:17240871 original size:8 final size:8
Alignment explanation
Indices: 17240860--17240888 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
17240850 ACCCGAGACT
17240860 CACTGTAA
1 CACTGTAA
17240868 CACTGTAA
1 CACTGTAA
17240876 CACTGTAA
1 CACTGTAA
17240884 CACTG
1 CACTG
17240889 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:17250546 original size:3 final size:3
Alignment explanation
Indices: 17250538--17250568 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
17250528 AACGAAAATA
17250538 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17250569 TCCAGATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17252668 original size:19 final size:19
Alignment explanation
Indices: 17252626--17252669 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
17252616 ATATTTTAAC
17252626 TTTATTTAGGTAGATAAAT
1 TTTATTTAGGTAGATAAAT
* *
17252645 CTTATTTAGGTAGATAAGT
1 TTTATTTAGGTAGATAAAT
17252664 TTTATT
1 TTTATT
17252670 CATATTATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (19 bp):
TTTATTTAGGTAGATAAAT
Found at i:17256570 original size:19 final size:19
Alignment explanation
Indices: 17256504--17256562 Score: 111
Period size: 19 Copynumber: 3.2 Consensus size: 19
17256494 GTATATATTT
17256504 TAAAT-TTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
17256522 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
17256541 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
17256560 TAA
1 TAA
17256563 GTTTTATTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 5 0.12
19 35 0.88
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (19 bp):
TAAATCTTATTTAGGTAGA
Found at i:17264073 original size:31 final size:31
Alignment explanation
Indices: 17264035--17264095 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
17264025 TGGGCATTGC
* *
17264035 CATTACATATTTTTATCATTGTAGTCACTTT
1 CATTACATACTTTTATCATTGTAGCCACTTT
*
17264066 CATTACATACTTTTATCATTTTAGCCACTT
1 CATTACATACTTTTATCATTGTAGCCACTT
17264096 GCCATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.49
Consensus pattern (31 bp):
CATTACATACTTTTATCATTGTAGCCACTTT
Found at i:17274571 original size:18 final size:17
Alignment explanation
Indices: 17274531--17274572 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
17274521 TTCCTGGTCA
17274531 AGAGGAATCTACTGTTG
1 AGAGGAATCTACTGTTG
17274548 AGGAGGAATCTACTGTTAG
1 A-GAGGAATCTACTGTT-G
17274567 AGAGGA
1 AGAGGA
17274573 GGAAGTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.04
18 20 0.87
19 2 0.09
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.24
Consensus pattern (17 bp):
AGAGGAATCTACTGTTG
Found at i:17275746 original size:9 final size:9
Alignment explanation
Indices: 17275717--17275761 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
17275707 TTAAGATATA
*
17275717 TATAAATAT
1 TATAATTAT
17275726 TAT-ATGTA-
1 TATAAT-TAT
17275734 TATAATTAT
1 TATAATTAT
17275743 TATAATTAT
1 TATAATTAT
17275752 TATAATTAT
1 TATAATTAT
17275761 T
1 T
17275762 TATTTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATAATTAT
Found at i:17275927 original size:4 final size:4
Alignment explanation
Indices: 17275918--17275957 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
17275908 AGTAAAAGAT
*
17275918 ATTA ATTA ATTA ATCA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
17275958 TATCATGAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:17278818 original size:16 final size:18
Alignment explanation
Indices: 17278787--17278836 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 18
17278777 CTAAGAGAGT
17278787 TGAGAGAAT--TGAGAGAG
1 TGAGAGAATGATGAGA-AG
17278804 -GAGAGAATGATGAGAAG
1 TGAGAGAATGATGAGAAG
17278821 TGAGAG-ATGATG-GAAG
1 TGAGAGAATGATGAGAAG
17278837 AATGAATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 12 0.40
17 8 0.27
18 10 0.33
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.16
Consensus pattern (18 bp):
TGAGAGAATGATGAGAAG
Found at i:17293240 original size:2 final size:2
Alignment explanation
Indices: 17293233--17293268 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17293223 ACTTGGAGAT
17293233 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
17293269 CCCTTTCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:17293393 original size:6 final size:6
Alignment explanation
Indices: 17293384--17293410 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17293374 TCCTTTTCTC
17293384 TGCATT TGCATT TGCATT TGCATT TGC
1 TGCATT TGCATT TGCATT TGCATT TGC
17293411 TACCTCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.48
Consensus pattern (6 bp):
TGCATT
Found at i:17298192 original size:96 final size:98
Alignment explanation
Indices: 17298087--17298305 Score: 320
Period size: 96 Copynumber: 2.2 Consensus size: 98
17298077 AAAATTTTTC
*
17298087 TGGGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAA-TTTT-GGTGCTGACTT
1 TGGGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTTTAGGTGCTGACCT
17298150 GTCAATGGCCGACACCA-ACACGAAAAAAAATTT
66 GTCAATGGCCGACACCAGACAC-AAAAAAAATTT
*
17298183 TGGGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTTTAGGTGCTGGCCT
1 TGGGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTTTAGGTGCTGACCT
* * *
17298248 GTCAATGGCTGGCACCAGTATACAAAAAAAATTT
66 GTCAATGGCCGACACCAG-ACACAAAAAAAATTT
* *
17298282 TAGATGCTGGCCT-TCTAATGGCCG
1 TGGGTGCTGGCCTGTC-AATGGCCG
17298306 ACATCAAACT
Statistics
Matches: 111, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
96 48 0.43
97 4 0.04
98 26 0.23
99 30 0.27
100 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (98 bp):
TGGGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTTTAGGTGCTGACCT
GTCAATGGCCGACACCAGACACAAAAAAAATTT
Found at i:17298225 original size:47 final size:48
Alignment explanation
Indices: 17298089--17298305 Score: 230
Period size: 47 Copynumber: 4.5 Consensus size: 48
17298079 AATTTTTCTG
17298089 GGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTT-
1 GGTGCTGGCCTGTCAATGGCCGGCACCACCTATACG---AAAAAAATTTTA
* * * * *
17298139 GGTGCTGACTTGTCAATGGCC-G-A-CACCAACACGAAAAAAAATTTTG
1 GGTGCTGGCCTGTCAATGGCCGGCACCACCTATACG-AAAAAAATTTTA
17298185 GGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTTTA
1 GGTGCTGGCCTGTCAATGGCCGGCACCACCTATACG---AAAAAAA-TTTTA
* * *
17298237 GGTGCTGGCCTGTCAATGGCTGGCACCA-GTATACAAAAAAAATTTTA
1 GGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAATTTTA
*
17298284 GATGCTGGCCT-TCTAATGGCCG
1 GGTGCTGGCCTGTC-AATGGCCG
17298306 ACATCAAACT
Statistics
Matches: 145, Mismatches: 14, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
45 12 0.08
46 21 0.14
47 31 0.21
48 9 0.06
49 9 0.06
50 19 0.13
51 13 0.09
52 31 0.21
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (48 bp):
GGTGCTGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAATTTTA
Found at i:17298244 original size:52 final size:51
Alignment explanation
Indices: 17298034--17298305 Score: 269
Period size: 52 Copynumber: 5.3 Consensus size: 51
17298024 TTTTTGGTTT
* * *
17298034 TGGCCTGTCAATGGCCGGCACTACCTAGGAAAACGAAAAAAATAAAATTTTTCTGGGTGC
1 TGGCCTGTCAATGGCCGGCACCACCT----ATACG-AAAAAA-AAAA--TTT-TAGGTGC
17298094 TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTT-GGTGC
1 TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTTAGGTGC
* * * * *
17298144 TGACTTGTCAATGGCC-G-A-CACCAACACG--AAAAAAAATTTTGGGTGC
1 TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTTAGGTGC
17298190 TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTTTAGGTGC
1 TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAA-TTTTAGGTGC
* * *
17298242 TGGCCTGTCAATGGCTGGCACCA-GTATAC---AAAAAAAATTTTAGATGC
1 TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTTAGGTGC
17298289 TGGCCT-TCTAATGGCCG
1 TGGCCTGTC-AATGGCCG
17298306 ACATCAAACT
Statistics
Matches: 189, Mismatches: 15, Indels: 29
0.81 0.06 0.12
Matches are distributed among these distances:
45 12 0.06
46 21 0.11
47 31 0.16
48 10 0.05
49 9 0.05
50 19 0.10
51 14 0.07
52 34 0.18
54 4 0.02
55 6 0.03
56 4 0.02
60 25 0.13
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (51 bp):
TGGCCTGTCAATGGCCGGCACCACCTATACGAAAAAAAAAATTTTAGGTGC
Found at i:17299269 original size:31 final size:31
Alignment explanation
Indices: 17299233--17299304 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
17299223 AATACTAAAA
*
17299233 AACAGAAAAATTTAAAAATAAAAG-AAATATT
1 AACAGAAAAATTTAAAAAT-AAAGTAAAAATT
* * *
17299264 TACAGAACAATTTTAAAATAAAGTAAAAATT
1 AACAGAAAAATTTAAAAATAAAGTAAAAATT
17299295 AACAGAAAAA
1 AACAGAAAAA
17299305 AATTAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.65, C:0.06, G:0.07, T:0.22
Consensus pattern (31 bp):
AACAGAAAAATTTAAAAATAAAGTAAAAATT
Found at i:17299311 original size:31 final size:31
Alignment explanation
Indices: 17299233--17299313 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
17299223 AATACTAAAA
*
17299233 AACAG-AAAAATTTAAAAATAAAAGAAATATT
1 AACAGAAAAAATTT-AAAATAAAAGAAAAATT
* * *
17299264 TACAGAACAATTTTAAAAT-AAAGTAAAAATT
1 AACAGAAAAAATTTAAAATAAAAG-AAAAATT
*
17299295 AACAGAAAAAAATTAAAAT
1 AACAGAAAAAATTTAAAAT
17299314 TGTCGCGATC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 4 0.10
31 30 0.75
32 6 0.15
ACGTcount: A:0.65, C:0.05, G:0.06, T:0.23
Consensus pattern (31 bp):
AACAGAAAAAATTTAAAATAAAAGAAAAATT
Found at i:17301472 original size:19 final size:19
Alignment explanation
Indices: 17301448--17301485 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17301438 TGTTCAACAT
*
17301448 TTCAATCTTT-TTTTTTTCA
1 TTCAAT-TTTATTTATTTCA
17301467 TTCAATTTTATTTATTTCA
1 TTCAATTTTATTTATTTCA
17301486 ATTTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (19 bp):
TTCAATTTTATTTATTTCA
Found at i:17301595 original size:39 final size:39
Alignment explanation
Indices: 17301486--17301611 Score: 184
Period size: 38 Copynumber: 3.2 Consensus size: 39
17301476 ATTTATTTCA
*
17301486 ATTTCATTTAAAAGG-CTGACACCTTTTTTTTTCCATTT
1 ATTTCATTTAAAAGGCCTGACACCTTTTTTTTTTCATTT
17301524 ATTTCATTTAAAAGGCCTGACACC-TTTTTTTTTCATTT
1 ATTTCATTTAAAAGGCCTGACACCTTTTTTTTTTCATTT
* *
17301562 ATTTTATTTAAAAGGCCTGGCACCTTTTTTTTTTTCATTT
1 ATTTCATTTAAAAGGCCTGACACC-TTTTTTTTTTCATTT
*
17301602 CATCTCATTT
1 -ATTTCATTT
17301612 TTTTATTTCA
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
38 50 0.63
39 8 0.10
40 14 0.18
41 7 0.09
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.52
Consensus pattern (39 bp):
ATTTCATTTAAAAGGCCTGACACCTTTTTTTTTTCATTT
Found at i:17301612 original size:23 final size:24
Alignment explanation
Indices: 17301586--17301636 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
17301576 GCCTGGCACC
* *
17301586 TTTTTTTTTTTCATTTCA-TCTCA
1 TTTTTTTATTTCATTTCATTCTAA
17301609 TTTTTTTATTTCATTTCATTCTAA
1 TTTTTTTATTTCATTTCATTCTAA
17301633 TTTT
1 TTTT
17301637 ATTTCCATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTTTTATTTCATTTCATTCTAA
Found at i:17301614 original size:18 final size:18
Alignment explanation
Indices: 17301591--17301628 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17301581 GCACCTTTTT
17301591 TTTTTTCATTTCATCTCA
1 TTTTTTCATTTCATCTCA
* *
17301609 TTTTTTTATTTCATTTCA
1 TTTTTTCATTTCATCTCA
17301627 TT
1 TT
17301629 CTAATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTCATTTCATCTCA
Found at i:17301778 original size:26 final size:25
Alignment explanation
Indices: 17301749--17301937 Score: 69
Period size: 26 Copynumber: 7.2 Consensus size: 25
17301739 AAATTTAACT
17301749 TTTTTGCATTTCATTTTATATTTAAA
1 TTTTT-CATTTCATTTTATATTTAAA
* ** * **
17301775 -TTTTCTATTTTCAATGCAAATTTATT
1 TTTTTC-A-TTTCATTTTATATTTAAA
17301801 TTTTCTCATTTCATTTTATATTTAAA
1 TTTT-TCATTTCATTTTATATTTAAA
* ** * **
17301827 -TTTTCTATTTTCAATGCAAATTTATTTT
1 TTTTTC-A-TTTCATTTTATATTTA--AA
17301855 TTTTCTCATTTCATTTTATATTTAAA
1 TTTT-TCATTTCATTTTATATTTAAA
* ** * * **
17301881 -TTTTCTATTTTCAATGCAAAATTATTT
1 TTTTTC-A-TTTCATTTTATATTTA-AA
17301908 TTTTCTCATTTCATTTTATATTTAAA
1 TTTT-TCATTTCATTTTATATTTAAA
17301934 TTTT
1 TTTT
17301938 CTATTTTCAA
Statistics
Matches: 110, Mismatches: 38, Indels: 30
0.62 0.21 0.17
Matches are distributed among these distances:
24 5 0.05
25 13 0.12
26 51 0.46
27 15 0.14
28 18 0.16
29 6 0.05
30 2 0.02
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTTCATTTCATTTTATATTTAAA
Found at i:17301812 original size:52 final size:53
Alignment explanation
Indices: 17301755--17301953 Score: 364
Period size: 54 Copynumber: 3.8 Consensus size: 53
17301745 AACTTTTTTG
17301755 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTA-TTTTTTCT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCT
17301807 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTTCT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTA-TTTTTTTCT
*
17301861 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAAATTATTTTTTTCT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCT
*
17301914 CATTTCATTTTATATTTAAATTTTCTATTTTCAATTCAAA
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAA
17301954 ATTTTTCTCC
Statistics
Matches: 143, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
52 44 0.31
53 48 0.34
54 51 0.36
ACGTcount: A:0.28, C:0.12, G:0.02, T:0.59
Consensus pattern (53 bp):
CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCT
Found at i:17301954 original size:53 final size:53
Alignment explanation
Indices: 17301755--17301956 Score: 361
Period size: 53 Copynumber: 3.8 Consensus size: 53
17301745 AACTTTTTTG
*
17301755 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTA-TTTTTTCT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAAATTATTTTTTTCT
*
17301807 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTTCT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAAATTA-TTTTTTTCT
17301861 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAAATTATTTTTTTCT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAAATTATTTTTTTCT
*
17301914 CATTTCATTTTATATTTAAATTTTCTATTTTCAATTCAAAATT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAAATT
17301957 TTTCTCCTCA
Statistics
Matches: 146, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
52 44 0.30
53 51 0.35
54 51 0.35
ACGTcount: A:0.28, C:0.11, G:0.01, T:0.59
Consensus pattern (53 bp):
CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAAATTATTTTTTTCT
Found at i:17304384 original size:50 final size:50
Alignment explanation
Indices: 17304311--17304660 Score: 353
Period size: 50 Copynumber: 6.8 Consensus size: 50
17304301 TTGATAAATT
* * * *
17304311 TGGTGCCGGGCATTGACAAGCCAGCACCCAATTTTTTTTTTGTATAAAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAATTTTTTTTTCGTATAGAGG
*
17304361 TGGTGCCGGCCATTGACAGGCCAGCACCCAAACTTTTTTTTTTGTATAGAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCC-AA-TTTTTTTTTCGTATAGAGG
*
17304413 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTCGTATAGAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCC-AATTTTTTTTTCGTATAGAGG
* * * * **
17304464 TGGTGCCGGCCATTGACAGACCAGTACCTAAATTTTTTTCTTTTCGTTTTCCTAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACC-CAA--TTTTT-TTTTCG-TAT-AGAGG
17304520 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTAT--AGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCC--AATTTTTTTTTCGTATAGAGG
* * ** * **
17304570 TGGTGCCGACCATTGACAGGCCAACACCCACAAATTTTTTTCGTTTTCCTAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCA-ATTTTTTTTTCG-TAT-AGAGG
* ** *
17304623 TGGTGTCGGCCATTGACAGGGTAGCACCAAATTTTTTT
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAATTTTTTT
17304661 GTGTGTGTAA
Statistics
Matches: 256, Mismatches: 29, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
48 1 0.00
49 10 0.04
50 59 0.23
51 47 0.18
52 56 0.22
53 33 0.13
54 12 0.05
55 7 0.03
56 29 0.11
57 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (50 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCCAATTTTTTTTTCGTATAGAGG
Found at i:17304659 original size:159 final size:158
Alignment explanation
Indices: 17304358--17304660 Score: 441
Period size: 159 Copynumber: 1.9 Consensus size: 158
17304348 TTTTGTATAA
* * *
17304358 AGGTGGTGCCGGCCATTGACAGGCCAGCACCCAAACTTTTTTTTTTGTATAGAGGTGGTGCCGGC
1 AGGTGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTATA-AGGTGGTGCCGAC
*
17304423 CATTGACAGGCCAGCACCCAAAATTTTTTTTCGTATAGAGGTGGTGCCGGCCATTGACAGACCAG
65 CATTGACAGGCCAACACCCAAAATTTTTTTTCGTATAGAGGTGGTGCCGGCCATTGACAGACCAG
*
17304488 TACCTAAATTTTTTTCTTTTCGTTTTCCT
130 CACCTAAATTTTTTTCTTTTCGTTTTCCT
17304517 AGGTGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTAT-AGGTGGTGCCGACC
1 AGGTGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTATAAGGTGGTGCCGACC
* ** * ***
17304581 ATTGACAGGCCAACACCCACAAA-TTTTTTTCGTTTTCCTAGGTGGTGTCGGCCATTGACAGGGT
66 ATTGACAGGCCAACACCCA-AAATTTTTTTTCG-TAT-AGAGGTGGTGCCGGCCATTGACAGACC
17304645 AGCACC-AAATTTTTTT
128 AGCACCTAAATTTTTTT
17304661 GTGTGTGTAA
Statistics
Matches: 129, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
157 40 0.31
158 15 0.12
159 74 0.57
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (158 bp):
AGGTGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTCGTATAAGGTGGTGCCGACC
ATTGACAGGCCAACACCCAAAATTTTTTTTCGTATAGAGGTGGTGCCGGCCATTGACAGACCAGC
ACCTAAATTTTTTTCTTTTCGTTTTCCT
Found at i:17305094 original size:9 final size:8
Alignment explanation
Indices: 17305063--17305091 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
17305053 AAATTAATTC
17305063 AATTTAAA
1 AATTTAAA
17305071 AATTTAAA
1 AATTTAAA
17305079 AATTTAAA
1 AATTTAAA
17305087 AATTT
1 AATTT
17305092 TAACATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
AATTTAAA
Found at i:17305335 original size:33 final size:34
Alignment explanation
Indices: 17305298--17305363 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
17305288 GTTCTTCAAC
* * * *
17305298 TTTTATAAATATTAAAA-ATTCAATTAATCTTAG
1 TTTTAAAAATAATAAAATATTAAAATAATCTTAG
17305331 TTTTAAAAATAATAAAATATTAAAATAATCTTA
1 TTTTAAAAATAATAAAATATTAAAATAATCTTA
17305364 TAAAATTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (34 bp):
TTTTAAAAATAATAAAATATTAAAATAATCTTAG
Found at i:17309768 original size:14 final size:15
Alignment explanation
Indices: 17309749--17309781 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17309739 ATTATGTACT
17309749 TATGTGAT-TGTGAA
1 TATGTGATATGTGAA
*
17309763 TATGTGATATGTGGA
1 TATGTGATATGTGAA
17309778 TATG
1 TATG
17309782 ATAACTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.42
Consensus pattern (15 bp):
TATGTGATATGTGAA
Found at i:17315076 original size:43 final size:43
Alignment explanation
Indices: 17314962--17315060 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 43
17314952 TTTATATGGA
* * * ** **
17314962 AAACGCCGCTATAGAACATGACCTTTAGTGGTGCTTTTCCCAC
1 AAACGCCACTAAAAAACATGACCTTTAGCAGCACTTTTCCCAC
17315005 AAACGCCACTAAAAAACATGACCTTTAGCAGCACTTTTCCCAC
1 AAACGCCACTAAAAAACATGACCTTTAGCAGCACTTTTCCCAC
*
17315048 AAATGCCACTAAA
1 AAACGCCACTAAA
17315061 GGTCATGTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.23
Consensus pattern (43 bp):
AAACGCCACTAAAAAACATGACCTTTAGCAGCACTTTTCCCAC
Found at i:17320446 original size:40 final size:40
Alignment explanation
Indices: 17320391--17320470 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
17320381 AATGTCGAAG
17320391 GATAGTTTTGAAAATTTCGATCCCTCATAAAGTTCTTCAT
1 GATAGTTTTGAAAATTTCGATCCCTCATAAAGTTCTTCAT
*
17320431 GATAGTTTTGAAAATTTCTATCCCTCATAAAGTTCTTCAT
1 GATAGTTTTGAAAATTTCGATCCCTCATAAAGTTCTTCAT
17320471 TCATTTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (40 bp):
GATAGTTTTGAAAATTTCGATCCCTCATAAAGTTCTTCAT
Found at i:17321266 original size:19 final size:20
Alignment explanation
Indices: 17321238--17321281 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
17321228 TCAAGTTATC
*
17321238 TAAAATTTTAAAAT-AAAAA
1 TAAAAATTTAAAATCAAAAA
* *
17321257 TAAAAATTTAGAATCAAAAC
1 TAAAAATTTAAAATCAAAAA
17321277 TAAAA
1 TAAAA
17321282 TAAATAGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAAATTTAAAATCAAAAA
Found at i:17323787 original size:21 final size:20
Alignment explanation
Indices: 17323763--17323805 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
17323753 TTTTGCTATG
*
17323763 AAACTGTTGCTGTGAAATCTA
1 AAACTGTTACTGTGAAA-CTA
* *
17323784 AAACTTTTATTGTGAAACTA
1 AAACTGTTACTGTGAAACTA
17323804 AA
1 AA
17323806 TAAAAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (20 bp):
AAACTGTTACTGTGAAACTA
Found at i:17329328 original size:15 final size:16
Alignment explanation
Indices: 17329299--17329332 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
17329289 TCACGTCAGT
*
17329299 TTTCTCTTCTTTTTTC
1 TTTCTCTTCTCTTTTC
17329315 TTTCT-TTCTCTTTTC
1 TTTCTCTTCTCTTTTC
17329330 TTT
1 TTT
17329333 TCCCTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCTCTTCTCTTTTC
Found at i:17333639 original size:23 final size:22
Alignment explanation
Indices: 17333596--17333639 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
17333586 TTCTAAGTCA
17333596 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
17333619 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
17333640 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:17333748 original size:45 final size:45
Alignment explanation
Indices: 17333684--17333772 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
17333674 AACAGATACT
* ** *
17333684 CGGTGGATTCAGCACATAGCAACCATTTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTAGTAATCAATGATGTC
17333729 CGGTGGAATCAGCACATAGCAACCACCTTAGTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTAGTAATCAATGATGT
17333773 TCAGTTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTAGTAATCAATGATGTC
Found at i:17333808 original size:26 final size:26
Alignment explanation
Indices: 17333779--17333860 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
17333769 ATGTTCAGTT
17333779 CACATAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
* ** *
17333805 CACAT-GT-GACCAT-TACCATCCT-TTA
1 CACATAGTAG-CC-TGCA-CATAGTACTA
*
17333830 CACGTAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
17333856 CACAT
1 CACAT
17333861 GCGACCTATC
Statistics
Matches: 39, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
24 1 0.03
25 16 0.41
26 21 0.54
27 1 0.03
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (26 bp):
CACATAGTAGCCTGCACATAGTACTA
Found at i:17333841 original size:51 final size:52
Alignment explanation
Indices: 17333783--17333918 Score: 206
Period size: 50 Copynumber: 2.7 Consensus size: 52
17333773 TCAGTTCACA
*
17333783 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCT-TTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCTGGTACACG
* * *
17333834 TAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCTGGTACACG
*
17333884 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
17333919 CACTTTCACT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
49 7 0.09
50 37 0.49
51 32 0.42
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (52 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCTGGTACACG
Found at i:17338248 original size:34 final size:35
Alignment explanation
Indices: 17338196--17338289 Score: 100
Period size: 35 Copynumber: 2.7 Consensus size: 35
17338186 TGGGCTTTCG
* * * *
17338196 ACTCCGGAGAGTCAGTAAA-CCTTTTAATGGTATC
1 ACTCCGTAGAGCCAGTAAATCATTTTAATGATATC
* * *
17338230 ACTCCGTAGAGCCTGTAAATCATTTTCATGATGTC
1 ACTCCGTAGAGCCAGTAAATCATTTTAATGATATC
* *
17338265 ACTCAGTAGAGCCAGTATATCATTT
1 ACTCCGTAGAGCCAGTAAATCATTT
17338290 CCTTAATGTC
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
34 16 0.33
35 33 0.67
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (35 bp):
ACTCCGTAGAGCCAGTAAATCATTTTAATGATATC
Found at i:17338274 original size:35 final size:35
Alignment explanation
Indices: 17338228--17338313 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
17338218 TTTAATGGTA
* * *
17338228 TCACTCCGTAGAGCCTGTAAATCATTTTCATGATG
1 TCACTCCGTAGAGCCAGTAAATCATTTCCATAATG
* * *
17338263 TCACTCAGTAGAGCCAGTATATCATTTCCTTAATG
1 TCACTCCGTAGAGCCAGTAAATCATTTCCATAATG
*
17338298 TCGCTCCGTAGAGCCA
1 TCACTCCGTAGAGCCA
17338314 ATAGACCACT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (35 bp):
TCACTCCGTAGAGCCAGTAAATCATTTCCATAATG
Found at i:17346341 original size:6 final size:6
Alignment explanation
Indices: 17346297--17346322 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17346287 TCCATCATCC
17346297 TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT
17346323 CCTTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:17349033 original size:16 final size:16
Alignment explanation
Indices: 17349005--17349050 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
17348995 TGAATTACTG
*
17349005 ATTACAACTCTATTAC
1 ATTACAGCTCTATTAC
* *
17349021 ATTGCAGCTCTATTCC
1 ATTACAGCTCTATTAC
*
17349037 ATTACAGCCCTATT
1 ATTACAGCTCTATT
17349051 CCAATCTAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTAC
Found at i:17350998 original size:18 final size:19
Alignment explanation
Indices: 17350961--17351000 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
17350951 TCTTTTACAA
* *
17350961 TTTAATCCTTTTAGTTACT
1 TTTAATCATTTTACTTACT
17350980 TTTAATCATTTT-CTTACT
1 TTTAATCATTTTACTTACT
17350998 TTT
1 TTT
17351001 CTTTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.20, C:0.15, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTAATCATTTTACTTACT
Found at i:17358087 original size:27 final size:27
Alignment explanation
Indices: 17358046--17358098 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
17358036 CTAGGGAGAT
*
17358046 TTGTTAGCTTGTTAGTAAGAGTAGAAG
1 TTGTTAGCTTATTAGTAAGAGTAGAAG
17358073 TTGTTAGCTTATTAGTAAGAGTAGAA
1 TTGTTAGCTTATTAGTAAGAGTAGAA
17358099 ATTTGAATTT
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:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (27 bp):
TTGTTAGCTTATTAGTAAGAGTAGAAG
Found at i:17363066 original size:14 final size:14
Alignment explanation
Indices: 17363047--17363090 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
17363037 CCACACATTT
*
17363047 GTTCTTCTCTACTG
1 GTTCTTCTCTGCTG
*
17363061 GTTCTTCTATGCTG
1 GTTCTTCTCTGCTG
17363075 GTTCTTCTCTGCTG
1 GTTCTTCTCTGCTG
17363089 GT
1 GT
17363091 GCTGGTGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.05, C:0.25, G:0.20, T:0.50
Consensus pattern (14 bp):
GTTCTTCTCTGCTG
Found at i:17363189 original size:23 final size:24
Alignment explanation
Indices: 17363160--17363216 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
17363150 CTGGTACTGG
*
17363160 TGTTCCTCTGCT-TG-TTGGTTCTT
1 TGTTCCTCTACTGTGCTT-GTTCTT
17363183 TGTTCCTCTACTGGTGCTTGTTCTT
1 TGTTCCTCTACT-GTGCTTGTTCTT
17363208 TGTTCCTCT
1 TGTTCCTCT
17363217 TCTCCACTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 11 0.37
25 17 0.57
26 2 0.07
ACGTcount: A:0.02, C:0.25, G:0.19, T:0.54
Consensus pattern (24 bp):
TGTTCCTCTACTGTGCTTGTTCTT
Found at i:17365142 original size:18 final size:18
Alignment explanation
Indices: 17365119--17365184 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
17365109 AAAATATGAG
17365119 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTT
17365137 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTT
* *
17365155 AAATGATGTTCACATCTC
1 AAATGATGTTCACATTTT
17365173 AAATGATGTTCA
1 AAATGATGTTCA
17365185 AATGGATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTT
Found at i:17365730 original size:72 final size:72
Alignment explanation
Indices: 17365609--17365779 Score: 249
Period size: 72 Copynumber: 2.4 Consensus size: 72
17365599 CTGACAATGC
* *
17365609 TAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
1 TAAATCTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTA
*
17365673 TTTATGT
66 TTTATAT
* *
17365680 GT-AATCTAGTTTTATTAATAGTTTTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
1 -TAAATCTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
*
17365744 ATTTTTAT
65 ATTTATAT
*
17365752 TAAAT-TAGTTTTATCAATAGTTGTTTAT
1 TAAATCTAGTTTTATCAATAGTTATTTAT
17365780 ATATGATTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
71 24 0.27
72 65 0.73
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (72 bp):
TAAATCTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTA
TTTATAT
Found at i:17368201 original size:14 final size:14
Alignment explanation
Indices: 17368182--17368221 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
17368172 TTGATTGCCA
17368182 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
17368196 GTAAAATGATTTCG
1 GTAAAATGTTTTCC
*
17368210 GGAAAATGTTTT
1 GTAAAATGTTTT
17368222 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:17368234 original size:34 final size:35
Alignment explanation
Indices: 17368190--17368256 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
17368180 CAGTAAAATG
*
17368190 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
17368224 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
17368257 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:17380511 original size:21 final size:21
Alignment explanation
Indices: 17380474--17380514 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
17380464 GCATATTTTA
17380474 TTTTATTTTTAATAATTGTTAT
1 TTTTATTTTT-ATAATTGTTAT
17380496 TTTTATTTTT-TGAATTGTT
1 TTTTATTTTTAT-AATTGTT
17380515 GTTGACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTTATTTTTATAATTGTTAT
Found at i:17385889 original size:30 final size:29
Alignment explanation
Indices: 17385853--17385947 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 29
17385843 TAACTTTATA
17385853 TGAGCAATTCTGTTAAAATGTCAGCTTGTG
1 TGAGCAATTCTG-TAAAATGTCAGCTTGTG
17385883 TGAGCAA-TCT-TAAAATACTGTCAGCTTGTG
1 TGAGCAATTCTGT-AAA-A-TGTCAGCTTGTG
* *
17385913 TGAGCAATCCTG-AATATTGTCAGCTTGTG
1 TGAGCAATTCTGTAA-AATGTCAGCTTGTG
17385942 TGAGCA
1 TGAGCA
17385948 TTACATTCCC
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
27 1 0.02
28 3 0.05
29 22 0.39
30 28 0.49
31 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (29 bp):
TGAGCAATTCTGTAAAATGTCAGCTTGTG
Found at i:17385938 original size:29 final size:30
Alignment explanation
Indices: 17385871--17385947 Score: 120
Period size: 29 Copynumber: 2.6 Consensus size: 30
17385861 TCTGTTAAAA
*
17385871 TGTCAGCTTGTGTGAGCAATCTTAAAATAC
1 TGTCAGCTTGTGTGAGCAATCCTAAAATAC
* *
17385901 TGTCAGCTTGTGTGAGCAATCCT-GAATAT
1 TGTCAGCTTGTGTGAGCAATCCTAAAATAC
17385930 TGTCAGCTTGTGTGAGCA
1 TGTCAGCTTGTGTGAGCA
17385948 TTACATTCCC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 22 0.50
30 22 0.50
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (30 bp):
TGTCAGCTTGTGTGAGCAATCCTAAAATAC
Found at i:17388077 original size:12 final size:12
Alignment explanation
Indices: 17388062--17388086 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17388052 AATAACCCAA
17388062 ATTATAAAAAAT
1 ATTATAAAAAAT
17388074 ATTATAAAAAAT
1 ATTATAAAAAAT
17388086 A
1 A
17388087 ACTAAAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTATAAAAAAT
Found at i:17388120 original size:29 final size:28
Alignment explanation
Indices: 17388068--17388126 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
17388058 CCAAATTATA
*
17388068 AAAAATATTATAAAAAATAACTAAAGTT
1 AAAAATATTATAAAAAATAACTAAAATT
* * *
17388096 AAAAATATTTTATAAATTAAGCTAAAATT
1 AAAAATATTATAAAAAATAA-CTAAAATT
17388125 AA
1 AA
17388127 TTAGATGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAAATATTATAAAAAATAACTAAAATT
Found at i:17390689 original size:27 final size:28
Alignment explanation
Indices: 17390637--17390690 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
17390627 GGACAGCCTA
* *
17390637 CTAAGGAGATAGAAGCCCAATTCATCCT
1 CTAAGGAGAGAGAAGCCCAATCCATCCT
17390665 CTAAGGAG-GAGAAGGCCCAA-CCATCC
1 CTAAGGAGAGAGAA-GCCCAATCCATCC
17390691 AAAGAGGTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.35, C:0.28, G:0.22, T:0.15
Consensus pattern (28 bp):
CTAAGGAGAGAGAAGCCCAATCCATCCT
Found at i:17392590 original size:20 final size:20
Alignment explanation
Indices: 17392565--17392614 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
17392555 ATCCCTCACG
17392565 CCCGTGTGCTACATCACACA
1 CCCGTGTGCTACATCACACA
* * *
17392585 CTCGTGTGCCACATCACACG
1 CCCGTGTGCTACATCACACA
17392605 CCCGTGTGCT
1 CCCGTGTGCT
17392615 TAGGTCGTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.40, G:0.20, T:0.22
Consensus pattern (20 bp):
CCCGTGTGCTACATCACACA
Found at i:17394208 original size:14 final size:15
Alignment explanation
Indices: 17394189--17394221 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
17394179 ATTTGCAATA
17394189 TAAATTTT-AAAACT
1 TAAATTTTGAAAACT
17394203 TAAATTTTGAAAACT
1 TAAATTTTGAAAACT
17394218 TAAA
1 TAAA
17394222 AATTTGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (15 bp):
TAAATTTTGAAAACT
Found at i:17394579 original size:54 final size:54
Alignment explanation
Indices: 17394441--17394635 Score: 238
Period size: 57 Copynumber: 3.6 Consensus size: 54
17394431 TACAAATTAC
* * * *
17394441 AGAGAATATTTCCTGTTCACTCGTTTTTTCTTGCAGGGAATTTTTACTATTTTCAT
1 AGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAAGGAATATTTACTGTTTT--T
*
17394497 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGTAAGGAATATTTACTGTTTTT
1 -AGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAAGGAATATTTACTGTTTTT
** *
17394552 AGAGAATATTTCCTGTTCACTTATCTTTTCTTGCAAGGAATATTT-C-G---TC
1 AGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAAGGAATATTTACTGTTTTT
* *
17394601 AAAGAATATTTCCTGTTCACTTGTCTTTTCTTGCA
1 AGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCA
17394636 TCATTTTTTC
Statistics
Matches: 127, Mismatches: 11, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
49 34 0.27
52 1 0.01
53 1 0.01
54 42 0.33
55 1 0.01
57 48 0.38
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (54 bp):
AGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAAGGAATATTTACTGTTTTT
Found at i:17394628 original size:49 final size:49
Alignment explanation
Indices: 17394491--17394635 Score: 191
Period size: 54 Copynumber: 2.9 Consensus size: 49
17394481 TTTTTACTAT
* * *
17394491 TTTCATCAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGTAAGGAATA
1 TTTCGTCAGAGAATATTTCCTGTTCACTTGTCTTTTCTTGCAAGGAATA
* *
17394540 TTTACTGTTTTTAGAGAATATTTCCTGTTCACTTATCTTTTCTTGCAAGGAATA
1 TTT-C-G---TCAGAGAATATTTCCTGTTCACTTGTCTTTTCTTGCAAGGAATA
*
17394594 TTTCGTCAAAGAATATTTCCTGTTCACTTGTCTTTTCTTGCA
1 TTTCGTCAGAGAATATTTCCTGTTCACTTGTCTTTTCTTGCA
17394636 TCATTTTTTC
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
49 37 0.45
50 1 0.01
52 1 0.01
53 1 0.01
54 43 0.52
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (49 bp):
TTTCGTCAGAGAATATTTCCTGTTCACTTGTCTTTTCTTGCAAGGAATA
Found at i:17397424 original size:21 final size:23
Alignment explanation
Indices: 17397400--17397442 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
17397390 TCAATTTTTT
*
17397400 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTATTTAG
*
17397421 AAAAGAGATTTGCTTCTATTTA
1 AAAACAGATTTGCTTCTATTTA
17397443 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTATTTAG
Found at i:17404984 original size:66 final size:66
Alignment explanation
Indices: 17404900--17405161 Score: 389
Period size: 66 Copynumber: 4.0 Consensus size: 66
17404890 TTACTAATAG
* * *
17404900 AGTTCCTGTCAATTACAGCTCACAACAGGTGAGTAATGCTCAAACAATAATACAAACCAATTTCA
1 AGTTCCTGTCAATCACAGCTCACAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
17404965 C
66 C
* * *
17404966 AGTTCCTGTCAACCACAGCTTACAATAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
1 AGTTCCTGTCAATCACAGCTCACAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
17405031 C
66 C
* * * *
17405032 AGTTCTTGTCAATCAAAGCTCATAACAGGTGAGTAATGCTCAAAAAATAGTACAAATCAATTTCA
1 AGTTCCTGTCAATCACAGCTCACAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
17405097 C
66 C
* * * * *
17405098 AATTCCTATCAATCACAACTCATAACAAGTGAGTAATGCTCAAACAATAGTACAAATCAATTTC
1 AGTTCCTGTCAATCACAGCTCACAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTC
17405162 TCACATTTCA
Statistics
Matches: 176, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 176 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (66 bp):
AGTTCCTGTCAATCACAGCTCACAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
C
Found at i:17409737 original size:66 final size:63
Alignment explanation
Indices: 17409623--17409767 Score: 200
Period size: 66 Copynumber: 2.3 Consensus size: 63
17409613 ACGAGACATG
* **
17409623 TTTGGTGTGTTGGAGAGTCTAGCTTTATGCTTCACTTATGGGACATGTTTGACTCTATGAGTCTA
1 TTTGGTGTGTTGGAGAGTCTAGCTTTATACTTCACTTACAGGACATGTTTGACTC--TGAGTCTA
* * * *
17409688 TTTGCTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTACAGGATATGTTTGACTCTGAGTTTA
1 TTTGGTGTGTTGGAGAGT-CTAGCTTTATACTTCACTTACAGGACATGTTTGACTCTGAGTCTA
17409752 TTTGGTGTGTTGGAGA
1 TTTGGTGTGTTGGAGA
17409768 TTTGTGTATC
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
64 22 0.31
65 17 0.24
66 32 0.45
ACGTcount: A:0.19, C:0.12, G:0.27, T:0.43
Consensus pattern (63 bp):
TTTGGTGTGTTGGAGAGTCTAGCTTTATACTTCACTTACAGGACATGTTTGACTCTGAGTCTA
Found at i:17412425 original size:432 final size:431
Alignment explanation
Indices: 17411590--17412442 Score: 1402
Period size: 432 Copynumber: 2.0 Consensus size: 431
17411580 CATCTGAACC
* *
17411590 TAAACTGTCGTAATTCGGTGTAGTAGATTAAACTATTTTTCACATTTAAGGAGTTTAAATACAAG
1 TAAACTGTCGTAATTCGGTGCAGTAGATTAAACTAGTTTTCACATTTAAGGAGTTTAAATACAAG
*
17411655 CATTTTTGTTATGTTTTAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTACACATTG
66 CATTTTCGTTATGTTTTAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTACACATTG
* * *
17411720 AGTCTTTTATTAACATAAGGGTCGAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGTAGGAGAC
131 AGTCTTTTATTAACATAAGGGTCAAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGCAAGAGAC
* *
17411785 CATTGACGGCATTTCGGGGCAATACTGGACGCTATGTCACAACAAGGAGGATCCAATGTCGCAAC
196 CATTGAAGGCATTTCGGGGCAATACTGGACGCTATGTCACAACAAGGAGGATCCAATGTCACAAC
* * * *
17411850 ATAGAAATCATAATAAAGAAAGTGAGAAACTGCCTTCAATGCAGCAACACAGGCTGAGGCTGTCA
261 ATAGAAAGCAGAATAAAGAAAGTGAGAAACTGCCTGCAATGCAGCAACACAGGCTAAGGCTGTCA
* * ** **
17411915 CGACATATCCCTAAATATGGCTATAGAGGGACATGTTGGTTGCTACGTCGCGGCACGGGTCTTGG
326 CGACATATCCATAAATATGGCTATAGAGGAACATGTTGGTTGCTACGTCGCAACACAAGTCTTGG
17411980 TGTCGAGACATCGACTTTGTGACGAGAATAAACTAGTAGAT
391 TGTCGAGACATCGACTTTGTGACGAGAATAAACTAGTAGAT
* *
17412021 TAAATTGTCGTAATTTGGTGCAGTAGATTAAACTAGTTTTCACATTTAAGGAGTTTAAATACAAG
1 TAAACTGTCGTAATTCGGTGCAGTAGATTAAACTAGTTTTCACATTTAAGGAGTTTAAATACAAG
* * **
17412086 TATTTTCGTTATGTTTTAATTCAGTTTCTTTAGTTTTGTTTACATTCAATAAAATGTGTACATTG
66 CATTTTCGTTATGTTTTAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTACACATTG
*
17412151 AGTCTTTTATTAATC-TAAGGGTCAAATAAGGGGGAGGTAGTGTACATTGTGAGTGTGCAAGAGA
131 AGTCTTTTATTAA-CATAAGGGTCAAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGCAAGAGA
* *
17412215 CCATTAGAAGGCATTTCGGGGCAATACTTGACGCTATGTCACAACAAGGGGGATCCAATGTCACA
195 CCATT-GAAGGCATTTCGGGGCAATACTGGACGCTATGTCACAACAAGGAGGATCCAATGTCACA
* * *
17412280 ACATAGAAAGCAGAATAGAGAAAGTGAGAAACTGCCTGCAATGCCGTAACACAGGCTAAGGCTGT
259 ACATAGAAAGCAGAATAAAGAAAGTGAGAAACTGCCTGCAATGCAGCAACACAGGCTAAGGCTGT
17412345 CACGACATATCCATAAATATGGCTATAGAGGAACATGTTGGTTGCTACGTCGCAACACAAGTCTT
324 CACGACATATCCATAAATATGGCTATAGAGGAACATGTTGGTTGCTACGTCGCAACACAAGTCTT
*
17412410 GGTGTCGAGACATCGAGTTTGTGACGAGAATAA
389 GGTGTCGAGACATCGACTTTGTGACGAGAATAA
17412443 GACACAAAGT
Statistics
Matches: 389, Mismatches: 31, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
431 184 0.47
432 205 0.53
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (431 bp):
TAAACTGTCGTAATTCGGTGCAGTAGATTAAACTAGTTTTCACATTTAAGGAGTTTAAATACAAG
CATTTTCGTTATGTTTTAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTACACATTG
AGTCTTTTATTAACATAAGGGTCAAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGCAAGAGAC
CATTGAAGGCATTTCGGGGCAATACTGGACGCTATGTCACAACAAGGAGGATCCAATGTCACAAC
ATAGAAAGCAGAATAAAGAAAGTGAGAAACTGCCTGCAATGCAGCAACACAGGCTAAGGCTGTCA
CGACATATCCATAAATATGGCTATAGAGGAACATGTTGGTTGCTACGTCGCAACACAAGTCTTGG
TGTCGAGACATCGACTTTGTGACGAGAATAAACTAGTAGAT
Found at i:17414212 original size:52 final size:52
Alignment explanation
Indices: 17414150--17414253 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
17414140 AATTACATGT
17414150 TAGAAATAGGAGAATTCAAATTTTCAGACGTAACGGGACAAAGAGAAGCTAC
1 TAGAAATAGGAGAATTCAAATTTTCAGACGTAACGGGACAAAGAGAAGCTAC
17414202 TAGAAATAGGAGAATTCAAATTTTCAGACGTAACGGGACAAAGAGAAGCTAC
1 TAGAAATAGGAGAATTCAAATTTTCAGACGTAACGGGACAAAGAGAAGCTAC
17414254 ACAGGGACCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.19
Consensus pattern (52 bp):
TAGAAATAGGAGAATTCAAATTTTCAGACGTAACGGGACAAAGAGAAGCTAC
Found at i:17414682 original size:19 final size:19
Alignment explanation
Indices: 17414658--17414717 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
17414648 AGTGTCTTTC
17414658 TTATTTTTCACTTCAACTT
1 TTATTTTTCACTTCAACTT
*
17414677 TTA-TTTT--CTT--TCTT
1 TTATTTTTCACTTCAACTT
*
17414691 TTTTTTTTCACTTCAACTT
1 TTATTTTTCACTTCAACTT
17414710 TTATTTTT
1 TTATTTTT
17414718 TATTTGGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
14 5 0.16
15 4 0.12
16 3 0.09
17 3 0.09
18 4 0.12
19 13 0.41
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTTCACTTCAACTT
Found at i:17414703 original size:33 final size:35
Alignment explanation
Indices: 17414652--17414716 Score: 116
Period size: 33 Copynumber: 1.9 Consensus size: 35
17414642 CACATAAGTG
17414652 TCTTTCTTATTTTTCACTTCAACTTTTATTTTCTT
1 TCTTTCTTATTTTTCACTTCAACTTTTATTTTCTT
17414687 TCTTT-TT-TTTTTCACTTCAACTTTTATTTT
1 TCTTTCTTATTTTTCACTTCAACTTTTATTTT
17414717 TTATTTGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 23 0.77
34 2 0.07
35 5 0.17
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (35 bp):
TCTTTCTTATTTTTCACTTCAACTTTTATTTTCTT
Found at i:17414716 original size:20 final size:20
Alignment explanation
Indices: 17414661--17414718 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
17414651 GTCTTTCTTA
17414661 TTTTTCACTTCAACTTTTA-
1 TTTTTCACTTCAACTTTTAT
*
17414680 -TTTT--CTT--TCTTTT-T
1 TTTTTCACTTCAACTTTTAT
17414694 TTTTTCACTTCAACTTTTAT
1 TTTTTCACTTCAACTTTTAT
17414714 TTTTT
1 TTTTT
17414719 ATTTGGTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 13
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 3 0.10
17 3 0.10
18 4 0.13
19 5 0.17
20 6 0.20
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTCACTTCAACTTTTAT
Found at i:17415927 original size:5 final size:6
Alignment explanation
Indices: 17415910--17415934 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17415900 GTCCGACTGA
17415910 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
17415935 GGAATTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:17427285 original size:109 final size:108
Alignment explanation
Indices: 17426984--17427304 Score: 455
Period size: 108 Copynumber: 3.0 Consensus size: 108
17426974 GATTAAGATA
*
17426984 TAAAAGGATATTTGGCTATTTGGTCCAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTC
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTC
* * * *
17427049 CTCGAATTTCCAAGCGTAAATCATTACATTATTTTGAAATTTT
66 CTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTT
* * *
17427092 TAAAAGGATATTCGGCTATTTGGTCGAATGAGAAAATCGAAACCCAGCACATTAGGGCACATTTC
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTC
* *
17427157 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAATTTTT
66 CTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTT
* * *
17427200 TAAAAGGATATTTGGCTATTAGGTTGAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGCTT
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACG-TT
* * * * *
17427265 T-CTCGAACTACCAAATGCAAAATATTACCTTATTTAGAAA
64 TCCTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAA
17427305 AATTTTCTTT
Statistics
Matches: 188, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
108 126 0.67
109 59 0.31
110 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (108 bp):
TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTC
CTCGAATTTCCAAACGCAAAACATTACCTTATTTTGAAATTTT
Found at i:17427355 original size:21 final size:20
Alignment explanation
Indices: 17427331--17427375 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
17427321 GTATGGTGTT
*
17427331 AATATGCATGATG-GAATAATA
1 AATATG-ATAATGTGAATAA-A
17427352 AATATGATAATGTGAATAAA
1 AATATGATAATGTGAATAAA
17427372 AATA
1 AATA
17427376 ATATAAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.29
Consensus pattern (20 bp):
AATATGATAATGTGAATAAA
Found at i:17429704 original size:44 final size:43
Alignment explanation
Indices: 17429604--17429825 Score: 161
Period size: 44 Copynumber: 5.1 Consensus size: 43
17429594 GTCTAATGCG
* * *
17429604 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTT-A
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGT--TTTTCA
* * *
17429648 ATCCGCTTCACTGCAACTTCAG-GAAGATAGGATTCGTTTCTTCA
1 ATCTGCTCCACTGCAACTTCAGAG-AGATAAGATTCGTTT-TTCA
* ** *
17429692 ATCTGCTCCACTGCAACTTTAGAGAGATAAGATT-G-GATGCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGTTTTTCA
* *
17429733 ATCTGCTCTACT-CGAACTTCAAAGAGATAAGA-TCTGTGGTTTT-A
1 ATCTGCTCCACTGC-AACTTCAGAGAGATAAGATTC-GT--TTTTCA
* * * * *
17429777 ATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGTTT-TTCA
17429821 ATCTG
1 ATCTG
17429826 TTTAACTGCA
Statistics
Matches: 137, Mismatches: 27, Indels: 28
0.71 0.14 0.15
Matches are distributed among these distances:
40 2 0.01
41 30 0.22
42 5 0.04
43 6 0.04
44 90 0.66
45 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGTTTTTCA
Found at i:17429834 original size:129 final size:129
Alignment explanation
Indices: 17429599--17429836 Score: 343
Period size: 129 Copynumber: 1.8 Consensus size: 129
17429589 ATAAAGTCTA
* * *
17429599 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTTCACTGCAA
1 ATGCAATCTGCTCTACTGCAACTTCAAAGAGATAAGATCCATCATTTTAATCCGCTCCACTGCAA
*
17429664 CTTCAGGAAGATAGGATTCGTTTCTTCAATCTGCTCCACTGCAACTTTAGAGAGATAAGATTGG
66 CTTCAGGAAGATAGGATTCGTTTCTTCAATCTGCTCAACTGCAACTTTAGAGAGATAAGATTGG
** **
17429728 ATGCAATCTGCTCTACT-CGAACTTCAAAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCA
1 ATGCAATCTGCTCTACTGC-AACTTCAAAGAGATAAGATCCATCATTTTAATCCGCTCCACTGCA
* * * * *
17429792 ACTTTAGGGAGATAGGATTGGTTTCTTCAATCTGTTTAACTGCAA
65 ACTTCAGGAAGATAGGATTCGTTTCTTCAATCTGCTCAACTGCAA
17429837 TGTCGGGGAA
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 1 0.01
129 94 0.99
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (129 bp):
ATGCAATCTGCTCTACTGCAACTTCAAAGAGATAAGATCCATCATTTTAATCCGCTCCACTGCAA
CTTCAGGAAGATAGGATTCGTTTCTTCAATCTGCTCAACTGCAACTTTAGAGAGATAAGATTGG
Found at i:17430005 original size:50 final size:50
Alignment explanation
Indices: 17429816--17430385 Score: 371
Period size: 50 Copynumber: 11.4 Consensus size: 50
17429806 GGATTGGTTT
* * * *
17429816 CTTCAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCGTCGTCGTAG
1 CTTCAATCTGTTCAACTGCACTGTCGGGGAAGTAAGATTCGCCGTTGTAG
* * * ** ** * * *
17429866 CTTCAATCTATTCCACTACACCATCAGGAAAAGTAAGATTCGTCATTGTGG
1 CTTCAATCTGTTCAACTGCACTGTC-GGGGAAGTAAGATTCGCCGTTGTAG
* * * * **
17429917 CCTCAATCT-TTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAG
1 CTTCAATCTGTTCAACTGCACTGTCGGGGAAGTAAGATTCGCCGTTGTAG
* * * * * * *
17429966 CTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTCACCGTTGTGG
1 CTTCAATCTGTTCAACTGCACTGTCGGGGAAGTAAGATTCGCCGTTGTAG
* * * * * *
17430016 CTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAG
1 CTTCAATCTGTTCAACTGCACTGTCGGGGAAGTAAGATTCGCCGTTGTAG
* * * * * * *
17430066 CTTCAATCCGTTCCACTGCACCT-CCTGGGAAAGTAACATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCA-CTGTC-GGGGAAGTAAGATTCGCCGTTGTAG
* * * ** *
17430117 CTTCAATCT-TTTAATTGCAATGTCGGGGAAAG-AAGATTCGTTGTTATAG
1 CTTCAATCTGTTCAACTGCACTGTCGGGG-AAGTAAGATTCGCCGTTGTAG
* * * * * * *
17430166 CTTCAATCTATTCCACTGTACTGCCTGGAAAGTAAGATTCGCCATTGT-G
1 CTTCAATCTGTTCAACTGCACTGTCGGGGAAGTAAGATTCGCCGTTGTAG
* * * * * *
17430215 ACTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAG
1 -CTTCAATCTGTTCAACTGCACTGTCGGGGAAGTAAGATTCGCCGTTGTAG
* * * * *
17430266 CTTCAATTTGTTCTACTGCACCGCCTGGGAAGTAAGATTCGCCGTTGT-G
1 CTTCAATCTGTTCAACTGCACTGTCGGGGAAGTAAGATTCGCCGTTGTAG
* * * * * * * **
17430315 ATTTCAAACT-TTTAATTGCAATGTCAGTGAAGCGAGATTCGCCGTTGTAG
1 -CTTCAATCTGTTCAACTGCACTGTCGGGGAAGTAAGATTCGCCGTTGTAG
*
17430365 CTTCAATCTGTTCCACTGCAC
1 CTTCAATCTGTTCAACTGCAC
17430386 CGCTTAAGAA
Statistics
Matches: 376, Mismatches: 131, Indels: 26
0.71 0.25 0.05
Matches are distributed among these distances:
49 90 0.24
50 228 0.61
51 58 0.15
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCACTGTCGGGGAAGTAAGATTCGCCGTTGTAG
Found at i:17430029 original size:100 final size:99
Alignment explanation
Indices: 17429816--17430388 Score: 734
Period size: 100 Copynumber: 5.7 Consensus size: 99
17429806 GGATTGGTTT
* * * * *
17429816 CTTCAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCGTCGTCGTAGCTTCAATCTATTCCA
1 CTTCAATCT-TTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCA
* ** * * * *
17429881 CTACACCATCAGGAAAAGTAAGATTCGTCATTGTGG
65 CTGCACCGCCTGG-GAAGTAAGATTCGCCGTTGTGG
* *
17429917 CCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCAC
* *
17429982 TACACCGCCTGGGAAGTAAGATTCACCGTTGTGG
66 TGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* *
17430016 CTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCCGTTCCA
1 CTTCAATC-TTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCA
* * *
17430081 CTGCACCTCCTGGGAAAGTAACATCCGCCGTTGTGG
65 CTGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTGG
** * *
17430117 CTTCAATCTTTTAATTGCAATGTCGGGGAAAG-AAGATTCGTTGTTATAGCTTCAATCTATTCCA
1 CTTCAATCTTTTAATTGCAATGTCGGGG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCA
* * * * *
17430181 CTGTACTGCCTGGAAAGTAAGATTCGCCATTGTGA
65 CTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * *
17430216 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTCAATTTGTTCTA
1 CTTCAATC-TTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCA
*
17430281 CTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGA
65 CTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * * * *
17430316 TTTCAAACTTTTAATTGCAATGTCAGTGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCAC
17430381 TGCACCGC
66 TGCACCGC
17430389 TTAAGAAATA
Statistics
Matches: 411, Mismatches: 56, Indels: 12
0.86 0.12 0.03
Matches are distributed among these distances:
99 111 0.27
100 264 0.64
101 36 0.09
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (99 bp):
CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCAC
TGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
Found at i:17431034 original size:132 final size:132
Alignment explanation
Indices: 17430396--17431027 Score: 906
Period size: 132 Copynumber: 4.8 Consensus size: 132
17430386 CGCTTAAGAA
* * * ** *
17430396 ATAAGATTCACTATCTTCGATCTACTCCACTACTTCTTAGGGAGACAGAATCTACAATTTTTGAC
1 ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCTTTGAC
** * * *
17430461 CTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTC-CCTTCTACCTTTGG
66 CTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCC-ACTATCTTGGG
17430525 AAG
130 AAG
* * ** * **
17430528 ATAAGATTCATCATTTTTTATCTGCTCCACTACTGCTTAGGGAGACAGAATATGTAATCTTCAAC
1 ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCTTTGAC
* * *
17430593 CTACTCTACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATATTGAGA
66 CTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGA
17430658 AG
131 AG
* *
17430660 ATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAAGGAGACAGAATCTGTAATCTTTGAC
1 ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCTTTGAC
* *
17430725 CTATTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGA
66 CTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGA
*
17430790 AT
131 AG
* * *
17430792 ATAAGATTCACCATCTTCGATCTGCTCTACTACTGCTTAAGGAGACAGAATCTGTAATTTTTGAC
1 ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCTTTGAC
* * *
17430857 CTATTCCACTATTGCTTAGGGAGATAGGACTAATGGCCTAAATCTGCTTCTCCACTATCTTGGGA
66 CTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGA
17430922 AG
131 AG
* * *
17430924 ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGAATCTGCAATCTTTAAC
1 ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCTTTGAC
* * *
17430989 CTACTCCACTATTGTTTAAGGAGATAGGACTAATGGCTT
66 CTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTT
17431028 CGATCTGTTT
Statistics
Matches: 446, Mismatches: 53, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
132 444 1.00
133 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (132 bp):
ATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCTTTGAC
CTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGA
AG
Found at i:17431518 original size:267 final size:267
Alignment explanation
Indices: 17431025--17431588 Score: 855
Period size: 267 Copynumber: 2.1 Consensus size: 267
17431015 GGACTAATGG
* * * *
17431025 CTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAATATCTACTATCTTTAGTCTACTCCACTGTC
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAATATCTACTATCTTCAATCTACTCCACTGTC
* *
17431090 AGTACAGGAAGGCAAGACTGGTTTCTTCAATCTACTTCACCGTCAGTACAGGAAGGCAAGATCTG
66 AGTACAGGAAGACAAGACTGGTTTCTTCAATCTACTTCACCGTCAGTACAAGAAGGCAAGATCTG
*
17431155 CTATCTTTAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAAACTGGTTTCTTCAATCTGCTTCACC
131 CTATCTTTAGTCTGCTCCACTGTCAGTACAGGAAGGCAAAACTGGTTTCTTCAATCTGCTTCACC
17431220 GTCAATACAGGAACGCATGATCTGATATCTTCAATTTGCTCCGCTGTCAGTACAGGAAGGCAA-G
196 GTCAATACAGGAACGCATGATCTGATATCTTCAATTTGCTCCGCTGTCAGTACAGGAAGGCAAGG
*
17431284 ACTGGTTT
261 A-TGGTGT
* * * * **
17431292 CTTCAATCTGCTTCGCCGTCAGTACAGGAA-GCGATTATCTGCTATCTTCAATCTGCTCTGCTGT
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGC-AATATCTACTATCTTCAATCTACTCCACTGT
* * *
17431356 CAGTACAGGAAGACAAGACTGGTTTCTTCGATCTGCTTCACCGTTAGTACAAG-AGTGCAAGATC
65 CAGTACAGGAAGACAAGACTGGTTTCTTCAATCTACTTCACCGTCAGTACAAGAAG-GCAAGATC
* * * *
17431420 TGCTATCTTTAGTCTGCTCCACTGTCAGTATAGGAAGGTAAGACTGGTTTCTTCGATCTGCTTCA
129 TGCTATCTTTAGTCTGCTCCACTGTCAGTACAGGAAGGCAAAACTGGTTTCTTCAATCTGCTTCA
* * *
17431485 CCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATTTGCTCCGCTGTCAGTACAGGAAGGCAA
194 CCGTCAATACAGGAACGCATGATCTGATATCTTCAATTTGCTCCGCTGTCAGTACAGGAAGGCAA
17431550 GGATGGTGT
259 GGATGGTGT
*
17431559 CTTCGATCTGCTTCACCGTCAGTACAGGAA
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAA
17431589 TGCATGATCT
Statistics
Matches: 268, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
266 4 0.01
267 262 0.98
268 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (267 bp):
CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAATATCTACTATCTTCAATCTACTCCACTGTC
AGTACAGGAAGACAAGACTGGTTTCTTCAATCTACTTCACCGTCAGTACAAGAAGGCAAGATCTG
CTATCTTTAGTCTGCTCCACTGTCAGTACAGGAAGGCAAAACTGGTTTCTTCAATCTGCTTCACC
GTCAATACAGGAACGCATGATCTGATATCTTCAATTTGCTCCGCTGTCAGTACAGGAAGGCAAGG
ATGGTGT
Found at i:17431594 original size:89 final size:89
Alignment explanation
Indices: 17431025--17431607 Score: 771
Period size: 89 Copynumber: 6.6 Consensus size: 89
17431015 GGACTAATGG
* * * * * * * *
17431025 CTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAAT-ATCTACTATCTTTAGTCTACTCCACTGT
1 CTTCGATCTGCTTCACCGTCAGTACAGGAAGGC-ATGATCTGCTATCTTCAATCTGCTCCGCTGT
17431089 CAGTACAGGAAGGCAAGACTGGTTT
65 CAGTACAGGAAGGCAAGACTGGTTT
* * * * *
17431114 CTTCAATCTACTTCACCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGTC
1 CTTCGATCTGCTTCACCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATCTGCTCCGCTGTC
*
17431179 AGTACAGGAAGGCAAAACTGGTTT
66 AGTACAGGAAGGCAAGACTGGTTT
* * * * *
17431203 CTTCAATCTGCTTCACCGTCAATACAGGAACGCATGATCTGATATCTTCAATTTGCTCCGCTGTC
1 CTTCGATCTGCTTCACCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATCTGCTCCGCTGTC
17431268 AGTACAGGAAGGCAAGACTGGTTT
66 AGTACAGGAAGGCAAGACTGGTTT
* * * *
17431292 CTTCAATCTGCTTCGCCGTCAGTACAGGAA-GCGATTATCTGCTATCTTCAATCTGCTCTGCTGT
1 CTTCGATCTGCTTCACCGTCAGTACAGGAAGGC-ATGATCTGCTATCTTCAATCTGCTCCGCTGT
*
17431356 CAGTACAGGAAGACAAGACTGGTTT
65 CAGTACAGGAAGGCAAGACTGGTTT
* * * * * *
17431381 CTTCGATCTGCTTCACCGTTAGTACAAG-AGTGCAAGATCTGCTATCTTTAGTCTGCTCCACTGT
1 CTTCGATCTGCTTCACCGTCAGTACAGGAAG-GCATGATCTGCTATCTTCAATCTGCTCCGCTGT
* *
17431445 CAGTATAGGAAGGTAAGACTGGTTT
65 CAGTACAGGAAGGCAAGACTGGTTT
*
17431470 CTTCGATCTGCTTCACCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATTTGCTCCGCTGTC
1 CTTCGATCTGCTTCACCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATCTGCTCCGCTGTC
*
17431535 AGTACAGGAAGGCAAGGA-TGGTGT
66 AGTACAGGAAGGCAA-GACTGGTTT
* *
17431559 CTTCGATCTGCTTCACCGTCAGTACAGGAATGCATGATCTG-TAACTTCA
1 CTTCGATCTGCTTCACCGTCAGTACAGGAAGGCATGATCTGCTATCTTCA
17431608 TTGATCTGTT
Statistics
Matches: 437, Mismatches: 51, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
88 11 0.03
89 420 0.96
90 6 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (89 bp):
CTTCGATCTGCTTCACCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATCTGCTCCGCTGTC
AGTACAGGAAGGCAAGACTGGTTT
Found at i:17432880 original size:11 final size:10
Alignment explanation
Indices: 17432866--17432929 Score: 57
Period size: 10 Copynumber: 6.6 Consensus size: 10
17432856 TTGGCCTCTC
17432866 CTTTTTCTTTT
1 CTTTTTC-TTT
17432877 CTTTTTC-TT
1 CTTTTTCTTT
17432886 C--TTTCTTT
1 CTTTTTCTTT
17432894 CTTTTTCTTT
1 CTTTTTCTTT
*
17432904 -TTTTCTCTCT
1 CTTTT-TCTTT
17432914 CTTTTT-TTT
1 CTTTTTCTTT
17432923 CTCTTTT
1 CT-TTTT
17432930 TTTAACAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
7 4 0.09
8 3 0.07
9 11 0.24
10 16 0.36
11 11 0.24
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:17432882 original size:6 final size:6
Alignment explanation
Indices: 17432866--17432905 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
17432856 TTGGCCTCTC
17432866 CTTTTT C-TTTT CTTTTT CTTCTTT C--TTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTT-TTT CTTTTT CTTTTT CTTTTT
17432906 TTCTCTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.13
5 5 0.17
6 17 0.57
7 4 0.13
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:17432889 original size:14 final size:13
Alignment explanation
Indices: 17432870--17432932 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
17432860 CCTCTCCTTT
17432870 TTCTTTTCTTTTTC
1 TTCTTTT-TTTTTC
17432884 TTCTTTCTTTCTTT-
1 TTCTTT-TTT-TTTC
*
17432898 TTCTTTTTTTCTC
1 TTCTTTTTTTTTC
17432911 -TCTCTTTTTTTTC
1 TTCT-TTTTTTTTC
17432924 -TCTTTTTTT
1 TTCTTTTTTT
17432933 AACAATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
12 11 0.26
13 14 0.33
14 14 0.33
15 4 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTTTTTTTTTC
Found at i:17432896 original size:17 final size:18
Alignment explanation
Indices: 17432869--17432902 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
17432859 GCCTCTCCTT
17432869 TTTCTTTTCTTTTTCTTC
1 TTTCTTTTCTTTTTCTTC
17432887 TTTC-TTTCTTTTTCTT
1 TTTCTTTTCTTTTTCTT
17432903 TTTTTCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTTCTTTTTCTTC
Found at i:17432903 original size:23 final size:24
Alignment explanation
Indices: 17432869--17432932 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
17432859 GCCTCTCCTT
17432869 TTTC-TTTTCTTTTTCTTCT-T-TC
1 TTTCTTTTTCTTTTT-TTCTCTCTC
17432891 TTTCTTTTTCTTTTTTTCTCTCTC
1 TTTCTTTTTCTTTTTTTCTCTCTC
*
17432915 TTTTTTTTCTCTTTTTTT
1 TTTCTTTT-TCTTTTTTT
17432933 AACAATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 8 0.22
23 11 0.30
24 9 0.24
25 9 0.24
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTCTTTTTCTTTTTTTCTCTCTC
Found at i:17432930 original size:11 final size:11
Alignment explanation
Indices: 17432866--17432932 Score: 57
Period size: 11 Copynumber: 5.7 Consensus size: 11
17432856 TTGGCCTCTC
17432866 CTTTTTCTTT-T
1 CTTTTT-TTTCT
*
17432877 CTTTTTCTTCTTT
1 CTTTTT-TT-TCT
17432890 CTTTCTTTTTCT
1 CTTT-TTTTTCT
17432902 -TTTTTTCTCTCT
1 CTTTTTT-T-TCT
17432914 CTTTTTTTTCT
1 CTTTTTTTTCT
17432925 CTTTTTTT
1 CTTTTTTT
17432933 AACAATTTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
10 3 0.06
11 24 0.49
12 7 0.14
13 13 0.27
14 2 0.04
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTTTTTCT
Found at i:17433296 original size:1 final size:1
Alignment explanation
Indices: 17433290--17433355 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
17433280 CCGGTAGAGG
* * * * * * * *
17433290 TTTTTTTTTTATTTTTTTTGTTTTTTGTTTTTTTTTGTTTTTATTTGTTTTTTATTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17433355 T
1 T
17433356 CCTCCAATGC
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:17433306 original size:11 final size:11
Alignment explanation
Indices: 17433290--17433354 Score: 71
Period size: 11 Copynumber: 5.9 Consensus size: 11
17433280 CCGGTAGAGG
17433290 TTTTTTTTTTA
1 TTTTTTTTTTA
17433301 TTTTTTTTGTT-
1 TTTTTTTT-TTA
*
17433312 TTTTGTTTTT-
1 TTTTTTTTTTA
*
17433322 TTTTGTTTTTA
1 TTTTTTTTTTA
*
17433333 TTTGTTTTTTA
1 TTTTTTTTTTA
17433344 TTTGTTTTTTT
1 TTT-TTTTTTT
17433355 TCCTCCAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
10 12 0.26
11 27 0.57
12 8 0.17
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:17433331 original size:27 final size:27
Alignment explanation
Indices: 17433289--17433354 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
17433279 CCCGGTAGAG
*
17433289 GTTTTTTTTTTATTTTTTTTGTTTTTT
1 GTTTTTTTTTTATTTTATTTGTTTTTT
17433316 GTTTTTTTTTGT-TTTTATTTGTTTTTT
1 GTTTTTTTTT-TATTTTATTTGTTTTTT
*
17433343 ATTTGTTTTTTT
1 GTTT-TTTTTTT
17433355 TCCTCCAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 28 0.80
28 7 0.20
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.86
Consensus pattern (27 bp):
GTTTTTTTTTTATTTTATTTGTTTTTT
Found at i:17436207 original size:109 final size:107
Alignment explanation
Indices: 17435894--17436214 Score: 376
Period size: 108 Copynumber: 3.0 Consensus size: 107
17435884 GATTAAGATA
* * * *
17435894 TAAAATGATATTTGGCTATTTGGTCCAACGAGAAAATCGAAACTCAGCACATTAGGACACGTTTC
1 TAAAAGGATATTTGGCTA-TTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTC
* *
17435959 CTCGAATTTCCAAGCGCAAAATATTACCTTATTTTGAAATTTT
65 CTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTT
* * * * * * **
17436002 TAAAAGGATATTCGGTTATCTGGTCGAATGAGAAAATCGAAATCCAGCATA-TAGGGGATTATTT
1 TAAAAGGATATTTGGCTAT-TGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCA-CGTTT
* * **
17436066 CGTCGAATTTCCAAAGGCAAAACCTTGCCTTATTTTGAAATTTT
64 CCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTT
17436110 TAAAAGGATATTTGGCTATTAGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGCTT
1 TAAAAGGATATTTGGCTATT-GGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACG-TT
* * * *
17436175 T-TTCGAACTTCCAAATGCAAAATATTGCCTTATTTAGAAA
63 TCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAA
17436215 AAAATTTCTT
Statistics
Matches: 175, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
107 7 0.04
108 109 0.62
109 50 0.29
110 9 0.05
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (107 bp):
TAAAAGGATATTTGGCTATTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCC
TCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTT
Found at i:17444804 original size:33 final size:33
Alignment explanation
Indices: 17444759--17444836 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
17444749 CAGTGTTTAT
*
17444759 ATGTAAGACCATAGCTGGGCTATGGCA-T-TCAG
1 ATGTAAGACCATAACTGGGCTATGGCACTAT-AG
*
17444791 ATGATAAGACCATAACTGGGTTATGGCACTATAG
1 ATG-TAAGACCATAACTGGGCTATGGCACTATAG
17444825 ATGTAAGACCAT
1 ATGTAAGACCAT
17444837 GGTATGGCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
32 3 0.07
33 31 0.76
34 6 0.15
35 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (33 bp):
ATGTAAGACCATAACTGGGCTATGGCACTATAG
Found at i:17444850 original size:101 final size:101
Alignment explanation
Indices: 17444630--17444851 Score: 320
Period size: 101 Copynumber: 2.2 Consensus size: 101
17444620 CAAACATAAC
* * *
17444630 ACCATGGTTGGACCATGACAGTGTTTATATGTAAGACTACAACTAGGCTATGACATTCTGATGAT
1 ACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCACAACTAGGCTATGACATTCAGATGAT
* *
17444695 AAGACCATAACTGGGTTATGGCACTATGGACGGAAT
66 AAGACCATAACTGGGTTATGGCACTATAGACGGAAG
* * * * *
17444731 ACCATGGTTGGACAATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCAGATGAT
1 ACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCACAACTAGGCTATGACATTCAGATGAT
* *
17444796 AAGACCATAACTGGGTTATGGCACTATAGATGTAAG
66 AAGACCATAACTGGGTTATGGCACTATAGACGGAAG
17444832 ACCATGGTATGG-CCATGGCA
1 ACCATGGT-TGGACCATGGCA
17444852 ATACATATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
101 104 0.97
102 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (101 bp):
ACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCACAACTAGGCTATGACATTCAGATGAT
AAGACCATAACTGGGTTATGGCACTATAGACGGAAG
Found at i:17444861 original size:101 final size:101
Alignment explanation
Indices: 17444655--17444880 Score: 269
Period size: 101 Copynumber: 2.3 Consensus size: 101
17444645 TGACAGTGTT
* * * * *
17444655 TATATGTAAGACTACAACTAGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGGCACT
1 TATATGTAAGACCATAGCTGGGCTATGACATTCAGATGATAAGACCATAACTGGGTTATGGCACT
* * * ***
17444720 ATGGACGGAATACCATGGTTGGACAATGGCAGTGTT
66 ATAGACGGAAGACCATGGTTGGACAATGGCAATACA
*
17444756 TATATGTAAGACCATAGCTGGGCTATGGCATTCAGATGATAAGACCATAACTGGGTTATGGCACT
1 TATATGTAAGACCATAGCTGGGCTATGACATTCAGATGATAAGACCATAACTGGGTTATGGCACT
* * *
17444821 ATAGATGTAAGACCATGGTATGG-CCATGGCAATACA
66 ATAGACGGAAGACCATGGT-TGGACAATGGCAATACA
* *
17444857 TATA--TAAGACCATAGTTGGACTAT
1 TATATGTAAGACCATAGCTGGGCTAT
17444881 AATACAATAA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 18 0.17
101 86 0.80
102 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (101 bp):
TATATGTAAGACCATAGCTGGGCTATGACATTCAGATGATAAGACCATAACTGGGTTATGGCACT
ATAGACGGAAGACCATGGTTGGACAATGGCAATACA
Found at i:17448211 original size:41 final size:41
Alignment explanation
Indices: 17448144--17448249 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 41
17448134 AAATGATTCT
*
17448144 CGAGCTTAAATTGTTTATCCAGAATATGA-CCTCAGAAGCA
1 CGAGCTTAAATTGTTTATCCAAAATATGATCCTCAGAAGCA
* * * **
17448184 CGAGTTTAAATTGTTAAATCCAAAATATGATGCTCCTAAGCA
1 CGAGCTTAAATTGTT-TATCCAAAATATGATCCTCAGAAGCA
*
17448226 CAAGCTTAAATTGTTTATCCAAAA
1 CGAGCTTAAATTGTTTATCCAAAA
17448250 AAACAATGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
40 14 0.25
41 20 0.36
42 21 0.38
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (41 bp):
CGAGCTTAAATTGTTTATCCAAAATATGATCCTCAGAAGCA
Found at i:17448671 original size:32 final size:32
Alignment explanation
Indices: 17448617--17448679 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
17448607 AGGAAAAATC
*
17448617 AAGAAATCAAATAATTTTAAAAT-ACTTTTATA
1 AAGAAATCAAATAATTTAAAAATGA-TTTTATA
* **
17448649 AAGAAATCATATTCTTTAAAAATGATTTTAT
1 AAGAAATCAAATAATTTAAAAATGATTTTAT
17448680 TTCTAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (32 bp):
AAGAAATCAAATAATTTAAAAATGATTTTATA
Found at i:17448705 original size:14 final size:15
Alignment explanation
Indices: 17448682--17448718 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
17448672 GATTTTATTT
*
17448682 CTAATTAATT-TAAA
1 CTAATAAATTATAAA
17448696 CTAATAAATTATAAA
1 CTAATAAATTATAAA
17448711 -TAATAAAT
1 CTAATAAAT
17448719 AAAAGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
CTAATAAATTATAAA
Found at i:17457656 original size:15 final size:15
Alignment explanation
Indices: 17457636--17457665 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17457626 ATTATACTTC
17457636 CTTTTTCTTTTTGGG
1 CTTTTTCTTTTTGGG
17457651 CTTTTTCTTTTTGGG
1 CTTTTTCTTTTTGGG
17457666 AAAGAAGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.13, G:0.20, T:0.67
Consensus pattern (15 bp):
CTTTTTCTTTTTGGG
Found at i:17469054 original size:152 final size:152
Alignment explanation
Indices: 17468777--17469074 Score: 427
Period size: 152 Copynumber: 2.0 Consensus size: 152
17468767 AGGCCTCAAG
* * * *
17468777 GGCTCGAATAAGGGACGATATGCATGTATTTTAATGGATTTTTCTATGATTATGAAATGTTTGGA
1 GGCTCAAATAAGGGACGATATGCACGTATTTGAATGGATTTTGCTATGATTATGAAATGTTTGGA
* * * * *
17468842 TATTGATGATTTTAAGTTATGTTTTTACGGTAATGCTCTATAACCCTAATTCGACGACGGATACG
66 AATTGATGATTTTAAGTTACGTTTTTACGGTAATACTCTATAACCCTAATTCGACCACGGATACA
*
17468907 GGTTAAGGGTGTTACATTTAGT
131 GATTAAGGGTGTTACATTTAGT
* * * *
17468929 GGCTCAAATGAGGGACGATATGCACGTGTTTGAATGGATTTTGCTATGGTTATTAAATGTTTGGA
1 GGCTCAAATAAGGGACGATATGCACGTATTTGAATGGATTTTGCTATGATTATGAAATGTTTGGA
* *
17468994 AATTGATGATTTTAAGTTACGTTTTTACGGTAATACTCTGTAACCCT-ATTCCGGCCACGGATAC
66 AATTGATGATTTTAAGTTACGTTTTTACGGTAATACTCTATAACCCTAATT-CGACCACGGATAC
*
17469058 AGATTAGGGGTGTTACA
130 AGATTAAGGGTGTTACA
17469075 CGACCATATA
Statistics
Matches: 128, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
151 3 0.02
152 125 0.98
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (152 bp):
GGCTCAAATAAGGGACGATATGCACGTATTTGAATGGATTTTGCTATGATTATGAAATGTTTGGA
AATTGATGATTTTAAGTTACGTTTTTACGGTAATACTCTATAACCCTAATTCGACCACGGATACA
GATTAAGGGTGTTACATTTAGT
Found at i:17471026 original size:15 final size:14
Alignment explanation
Indices: 17471006--17471045 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
17470996 AATTTGACCC
17471006 AATATAATATTACA
1 AATATAATATTACA
*
17471020 TAATATAATAATACA
1 -AATATAATATTACA
17471035 AATTATAATAT
1 AA-TATAATAT
17471046 CAATGGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATAATATTACA
Found at i:17471144 original size:18 final size:18
Alignment explanation
Indices: 17471113--17471165 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
17471103 TAATATGTAA
17471113 AATATTAT-TAAAATTTT
1 AATATTATATAAAATTTT
*
17471130 AATATTATATAAAATATT
1 AATATTATATAAAATTTT
17471148 AATTATGTATATAAAATT
1 AA-TAT-TATATAAAATT
17471166 AACACATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 8 0.26
18 10 0.32
19 3 0.10
20 10 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
AATATTATATAAAATTTT
Done.