Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 7 of 187
Found at i:1621659 original size:39 final size:40
Alignment explanation
Indices: 1621565--1621659 Score: 95
Period size: 39 Copynumber: 2.4 Consensus size: 40
1621555 ATTTGGAACA
* * *
1621565 AAAGCGCCACAACAAATCGAGCATCAGCGGCGATTTAGTC
1 AAAGCGCCACAAAAAATAGAGAATCAGCGGCGATTTAGTC
* * * * *
1621605 AAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA-TAT
1 AAAGCGCCACAAAAAATAGAGAATCAGCGGCGATTTAGT-C
1621644 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
1621660 CCTAAGACCA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
38 1 0.02
39 28 0.64
40 15 0.34
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (40 bp):
AAAGCGCCACAAAAAATAGAGAATCAGCGGCGATTTAGTC
Found at i:1621755 original size:41 final size:41
Alignment explanation
Indices: 1621698--1622122 Score: 397
Period size: 41 Copynumber: 10.4 Consensus size: 41
1621688 ATTTTTAAAC
* * * * *
1621698 CTTTAGCGGCGTTTTTATTTTAGTGCCGCTAATGGTCCGAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
* * * * **
1621739 CTTTAGCGGCATTTTTATCTGAGCGCCACTAATGCTCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
* *
1621780 CTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAATGCTCATAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
* * * * **
1621821 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATGCTCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
* *
1621862 CTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAATGCTCATAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
* * * * * **
1621903 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
* * *
1621944 CTTTAGCGGTGTTTTTTTCTAAGCGCCGCTAATG-TTAGTAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAG-AT
* * * * * **
1621985 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
* * *
1622026 CTTTAGCGGTGTTTTTTTCTAAGCGCCGCTAATG-TTAGTAT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAG-AT
* * * *
1622067 CTTTAGTGGCGTTTTTATCTGAGCGCCACTAATGCTCTGA-
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
1622107 CTTTTAGCGGCGTTTT
1 C-TTTAGCGGCGTTTT
1622123 ATAGGTAAGC
Statistics
Matches: 299, Mismatches: 80, Indels: 10
0.77 0.21 0.03
Matches are distributed among these distances:
40 5 0.02
41 290 0.97
42 4 0.01
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCAGAT
Found at i:1621836 original size:82 final size:81
Alignment explanation
Indices: 1621697--1622122 Score: 645
Period size: 82 Copynumber: 5.2 Consensus size: 81
1621687 GATTTTTAAA
* * * * ** * *
1621697 CCTTTAGCGGCGTTTTTATTTTAGTGCCGCTAATGGTCCGATCTTTAGCGGCATTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAAT-GTCATATCTTTAGTGGCGTTTTTATCTGAG
1621762 CGCCACTAATGCTCTGG
65 CGCCACTAATGCTCTGG
1621779 CCTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAATGCTCATATCTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAATG-TCATATCTTTAGTGGCGTTTTTATCTGAG
1621844 CGCCACTAATGCTCTGG
65 CGCCACTAATGCTCTGG
1621861 CCTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAATGCTCATATCTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAATG-TCATATCTTTAGTGGCGTTTTTATCTGAG
*
1621926 CGCCACTAATTCTCTGG
65 CGCCACTAATGCTCTGG
* * *
1621943 CCTTTAGCGGTGTTTTTTTCTAAGCGCCGCTAATGTTAGTATCTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAATGTCA-TATCTTTAGTGGCGTTTTTATCTGAG
*
1622008 CGCCACTAATTCTCTGG
65 CGCCACTAATGCTCTGG
* * *
1622025 CCTTTAGCGGTGTTTTTTTCTAAGCGCCGCTAATGTTAGTATCTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAATGTCA-TATCTTTAGTGGCGTTTTTATCTGAG
*
1622090 CGCCACTAATGCTCTGA
65 CGCCACTAATGCTCTGG
*
1622107 CTTTTAGCGGCGTTTT
1 CCTTTAGCGGCGTTTT
1622123 ATAGGTAAGC
Statistics
Matches: 326, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
81 3 0.01
82 323 0.99
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (81 bp):
CCTTTAGCGGCGTTTTTCTCTAAGCGCCGCTAATGTCATATCTTTAGTGGCGTTTTTATCTGAGC
GCCACTAATGCTCTGG
Found at i:1622710 original size:15 final size:15
Alignment explanation
Indices: 1622689--1622726 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1622679 TTTAAGGTTA
1622689 ATTTAGGGG-TTAGAG
1 ATTTAGGGGATT-GAG
*
1622704 GTTTAGGGGATTGAG
1 ATTTAGGGGATTGAG
1622719 ATTTAGGG
1 ATTTAGGG
1622727 TTTTAACGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (15 bp):
ATTTAGGGGATTGAG
Found at i:1624342 original size:8 final size:10
Alignment explanation
Indices: 1624320--1624356 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
1624310 TATTTTTACT
1624320 TATATATGGA
1 TATATATGGA
*
1624330 TATATATGAA
1 TATATATGGA
1624340 TATATATGGA
1 TATATATGGA
1624350 TATATAT
1 TATATAT
1624357 ATAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:1624465 original size:27 final size:27
Alignment explanation
Indices: 1624424--1624475 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1624414 AATAAACAAA
* *
1624424 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
1624451 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
1624476 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:1625681 original size:11 final size:11
Alignment explanation
Indices: 1625665--1625701 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
1625655 TTGACTTTTC
1625665 TAATTTGATTA
1 TAATTTGATTA
1625676 TAATTTGATTA
1 TAATTTGATTA
*
1625687 TAATTTCATTA
1 TAATTTGATTA
1625698 TAAT
1 TAAT
1625702 GTAGTATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (11 bp):
TAATTTGATTA
Found at i:1626039 original size:56 final size:56
Alignment explanation
Indices: 1625973--1626080 Score: 198
Period size: 56 Copynumber: 1.9 Consensus size: 56
1625963 ATACATAGAT
*
1625973 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATGAATTAATATTA
1 TACACAACTTACATTAATATTATACATAAATTACATAACTTAATGAATTAATATTA
*
1626029 TACACAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAAT
1 TACACAACTTACATTAATATTATACATAAATTACATAACTTAATGAATTAAT
1626081 TAGTATATAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (56 bp):
TACACAACTTACATTAATATTATACATAAATTACATAACTTAATGAATTAATATTA
Found at i:1626047 original size:22 final size:22
Alignment explanation
Indices: 1626019--1626064 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1626009 AACTTAATGA
*
1626019 ATTAATATTATACACAACTTAC
1 ATTAATATTATACACAAATTAC
*
1626041 ATTAATATTATACATAAATTAC
1 ATTAATATTATACACAAATTAC
1626063 AT
1 AT
1626065 AACTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACACAAATTAC
Found at i:1626065 original size:9 final size:9
Alignment explanation
Indices: 1626051--1626327 Score: 71
Period size: 9 Copynumber: 29.8 Consensus size: 9
1626041 ATTAATATTA
1626051 TACATAAAT
1 TACATAAAT
*
1626060 TACATAACT
1 TACATAAAT
*
1626069 TA-ATTAAT
1 TACATAAAT
*
1626077 TA-ATTAGTAT
1 TACA-TA-AAT
1626087 ATACATAAAT
1 -TACATAAAT
*
1626097 TACATAACT
1 TACATAAAT
*
1626106 TAAAT-AAT
1 TACATAAAT
*
1626114 TA-AT-ATT
1 TACATAAAT
*
1626121 ATACATAACT
1 -TACATAAAT
1626131 TACATTAATATT
1 TACA-TAA-A-T
1626143 ATACATAAAT
1 -TACATAAAT
1626153 TACATAACA-
1 TACATAA-AT
*
1626162 TA-ATTAAT
1 TACATAAAT
*
1626170 TA-AT-ATT
1 TACATAAAT
*
1626177 ATACATAACT
1 -TACATAAAT
1626187 TACATTAATATT
1 TACA-TAA-A-T
1626199 ATACATAAAT
1 -TACATAAAT
*
1626209 TACATAACT
1 TACATAAAT
1626218 TA-ATAAAT
1 TACATAAAT
*
1626226 TA-AT-ATT
1 TACATAAAT
*
1626233 ATACATAACT
1 -TACATAAAT
*
1626243 TACATAACT
1 TACATAAAT
*
1626252 TAC--AACT
1 TACATAAAT
*
1626259 TACATAACT
1 TACATAAAT
1626268 TACATTAATATT
1 TACA-TAA-A-T
*
1626280 ATACAT-ATT
1 -TACATAAAT
*
1626289 ATACATAACT
1 -TACATAAAT
1626299 TACATTAATATT
1 TACA-TAA-A-T
1626311 ATACATAAAT
1 -TACATAAAT
1626321 TACATAA
1 TACATAA
1626328 CTTAGTTAAT
Statistics
Matches: 210, Mismatches: 24, Indels: 68
0.70 0.08 0.23
Matches are distributed among these distances:
7 16 0.08
8 33 0.16
9 94 0.45
10 28 0.13
11 8 0.04
12 15 0.07
13 16 0.08
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (9 bp):
TACATAAAT
Found at i:1626115 original size:93 final size:90
Alignment explanation
Indices: 1625953--1626191 Score: 351
Period size: 93 Copynumber: 2.6 Consensus size: 90
1625943 ATATCATTTA
* * *
1625953 ATTAATTAATATACATAGATTACATAACTT-A--CATTAATATTATACATAAATTACATAACTTA
1 ATTAA-TATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTA
1626015 ATGAATTAATATTATACACAACTTAC
65 ATGAATTAATATTATACACAACTTAC
1626041 ATTAATATTATACATAAATTACATAACTTAATTAATTAATTAGTATATACATAAATTACATAACT
1 ATTAATATTATACATAAATTACATAACTTAATTAATTAA-TA-T-TATACATAAATTACATAACT
*
1626106 TAAAT-AATTAATATTATACATAACTTAC
63 T-AATGAATTAATATTATACACAACTTAC
* *
1626134 ATTAATATTATACATAAATTACATAACATAATTAATTAATATTATACATAACTTACAT
1 ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACAT
1626192 TAATATTATA
Statistics
Matches: 138, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
87 22 0.16
88 6 0.04
90 20 0.14
91 3 0.02
92 3 0.02
93 81 0.59
94 3 0.02
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (90 bp):
ATTAATATTATACATAAATTACATAACTTAATTAATTAATATTATACATAAATTACATAACTTAA
TGAATTAATATTATACACAACTTAC
Found at i:1626140 original size:22 final size:22
Alignment explanation
Indices: 1626112--1626157 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
1626102 AACTTAAATA
*
1626112 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
1626134 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
1626156 AT
1 AT
1626158 AACATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:1626153 original size:56 final size:56
Alignment explanation
Indices: 1626086--1626429 Score: 390
Period size: 56 Copynumber: 6.1 Consensus size: 56
1626076 TTAATTAGTA
1626086 TATACATAAATTACATAACTTAAATAATTAATATTATACATAACTTACATTAATAT
1 TATACATAAATTACATAACTTAAATAATTAATATTATACATAACTTACATTAATAT
* *
1626142 TATACATAAATTACATAACATAATTAATTAATATTATACATAACTTACATTAATAT
1 TATACATAAATTACATAACTTAAATAATTAATATTATACATAACTTACATTAATAT
*
1626198 TATACATAAATTACATAACTT-AATAAATTAATATTATACATAACTTACA-T-A-AC
1 TATACATAAATTACATAACTTAAAT-AATTAATATTATACATAACTTACATTAATAT
* *
1626251 T-TAC--AACTTACATAACTTACATTAATATTATACATATTATACATAACTTACATTAATAT
1 TATACATAAATTACATAACTT--A--AATAAT-TA-ATATTATACATAACTTACATTAATAT
** *
1626310 TATACATAAATTACATAACTTAGTTAATTAATATTATACATAACTTACA-T-A-AC
1 TATACATAAATTACATAACTTAAATAATTAATATTATACATAACTTACATTAATAT
* *
1626363 T-TAC--AACTTACATAACTTACATTAATATTATACATATTATACATAACTTACATTAATAT
1 TATACATAAATTACATAACTT--A--AATAAT-TA-ATATTATACATAACTTACATTAATAT
1626422 TATACATA
1 TATACATA
1626430 NNNNNNNNNN
Statistics
Matches: 244, Mismatches: 18, Indels: 46
0.79 0.06 0.15
Matches are distributed among these distances:
50 26 0.11
52 7 0.03
53 4 0.02
54 7 0.03
55 11 0.05
56 155 0.64
57 4 0.02
58 5 0.02
59 4 0.02
60 7 0.03
62 14 0.06
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (56 bp):
TATACATAAATTACATAACTTAAATAATTAATATTATACATAACTTACATTAATAT
Found at i:1626196 original size:22 final size:21
Alignment explanation
Indices: 1626159--1626213 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 21
1626149 AAATTACATA
1626159 ACATAATTA-ATTAATATTAT
1 ACATAATTACATTAATATTAT
1626179 ACATAACTTACATTAATATTAT
1 ACATAA-TTACATTAATATTAT
1626201 ACATAAATTACAT
1 ACAT-AATTACAT
1626214 AACTTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 6 0.19
21 3 0.09
22 21 0.66
23 2 0.06
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (21 bp):
ACATAATTACATTAATATTAT
Found at i:1626230 original size:112 final size:110
Alignment explanation
Indices: 1626172--1626429 Score: 462
Period size: 112 Copynumber: 2.3 Consensus size: 110
1626162 TAATTAATTA
1626172 ATATTATACATAACTTACATTAATATTATACATAAATTACATAACTTAATAAATTAATATTATAC
1 ATATTATACATAACTTACATTAATATTATACATAAATTACATAACTTAATAAATTAATATTATAC
1626237 ATAACTTACATAACTTACAACTTACATAACTTACATTAATATTATAC
66 ATAACTTACATAAC-TACAAC-TACATAACTTACATTAATATTATAC
* *
1626284 ATATTATACATAACTTACATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTATAC
1 ATATTATACATAACTTACATTAATATTATACATAAATTACATAACTTAATAAATTAATATTATAC
1626349 ATAACTTACATAACTTACAACTTACATAACTTACATTAATATTATAC
66 ATAACTTACATAAC-TACAAC-TACATAACTTACATTAATATTATAC
1626396 ATATTATACATAACTTACATTAATATTATACATA
1 ATATTATACATAACTTACATTAATATTATACATA
1626430 NNNNNNNNNN
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 144 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (110 bp):
ATATTATACATAACTTACATTAATATTATACATAAATTACATAACTTAATAAATTAATATTATAC
ATAACTTACATAACTACAACTACATAACTTACATTAATATTATAC
Found at i:1626260 original size:16 final size:16
Alignment explanation
Indices: 1626239--1626271 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1626229 TATTATACAT
1626239 AACTTACATAACTTAC
1 AACTTACATAACTTAC
1626255 AACTTACATAACTTAC
1 AACTTACATAACTTAC
1626271 A
1 A
1626272 TTAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:1626262 original size:25 final size:25
Alignment explanation
Indices: 1626220--1626272 Score: 56
Period size: 25 Copynumber: 2.1 Consensus size: 25
1626210 ACATAACTTA
1626220 ATAAATTAATA-TTATACATAACTTAC
1 ATAAATTAATACTTA--CATAACTTAC
*
1626246 ATAACTTACA-ACTTACATAACTTAC
1 ATAAATTA-ATACTTACATAACTTAC
1626271 AT
1 AT
1626273 TAATATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
25 12 0.50
26 8 0.33
27 4 0.17
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAAATTAATACTTACATAACTTAC
Found at i:1626309 original size:22 final size:22
Alignment explanation
Indices: 1626284--1626325 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1626274 AATATTATAC
*
1626284 ATATTATACATAACTTACATTA
1 ATATTATACATAAATTACATTA
1626306 ATATTATACATAAATTACAT
1 ATATTATACATAAATTACAT
1626326 AACTTAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATTATACATAAATTACATTA
Found at i:1626349 original size:25 final size:22
Alignment explanation
Indices: 1626321--1626398 Score: 52
Period size: 25 Copynumber: 3.3 Consensus size: 22
1626311 ATACATAAAT
1626321 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTA---AATTAATATTA
*
1626346 TACATAACTTACATAACTTACA-ACT-
1 TACATAACTT--A-AA-TTA-ATATTA
*
1626371 TACATAACTTACATTAATATTA
1 TACATAACTTAAATTAATATTA
1626393 TACATA
1 TACATA
1626399 TTATACATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
20 1 0.02
21 5 0.11
22 7 0.16
23 1 0.02
25 23 0.52
26 5 0.11
27 2 0.05
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.38
Consensus pattern (22 bp):
TACATAACTTAAATTAATATTA
Found at i:1626360 original size:9 final size:9
Alignment explanation
Indices: 1626312--1626384 Score: 66
Period size: 9 Copynumber: 8.6 Consensus size: 9
1626302 ATTAATATTA
*
1626312 TACATAAAT
1 TACATAACT
1626321 TACATAACT
1 TACATAACT
**
1626330 TAGTTAA-T
1 TACATAACT
*
1626338 TA-AT-ATT
1 TACATAACT
1626345 ATACATAACT
1 -TACATAACT
1626355 TACATAACT
1 TACATAACT
1626364 TAC--AACT
1 TACATAACT
1626371 TACATAACT
1 TACATAACT
1626380 TACAT
1 TACAT
1626385 TAATATTATA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
6 1 0.02
7 9 0.17
8 5 0.09
9 36 0.68
10 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (9 bp):
TACATAACT
Found at i:1626372 original size:16 final size:16
Alignment explanation
Indices: 1626351--1626383 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1626341 TATTATACAT
1626351 AACTTACATAACTTAC
1 AACTTACATAACTTAC
1626367 AACTTACATAACTTAC
1 AACTTACATAACTTAC
1626383 A
1 A
1626384 TTAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:1626384 original size:34 final size:34
Alignment explanation
Indices: 1626122--1626365 Score: 101
Period size: 34 Copynumber: 7.3 Consensus size: 34
1626112 ATTAATATTA
*
1626122 TACATAACTT-AC--ATTAATATTATACATAAAT
1 TACATAACTTAACAAATTAATACTATACATAAAT
* ** * *
1626153 TACATAACATAATTAATTAATATTATACATAACT
1 TACATAACTTAACAAATTAATACTATACATAAAT
*
1626187 TACATTAATATTATACATAAATTACATAACT-TA-ATAAAT
1 TACA-TAA-CTTA-AC--AAATTA-AT-ACTATACATAAAT
*
1626226 TA-AT-A-TTATACATAACTTACATAACT-TAC--AACT
1 TACATAACTTA-ACA-AA-TTA-AT-ACTATACATAAAT
* *
1626259 TACATAACTT-AC--ATTAATATTATACAT-ATT
1 TACATAACTTAACAAATTAATACTATACATAAAT
*
1626289 ATACATAACTT-AC--ATTAATATTATACATAAAT
1 -TACATAACTTAACAAATTAATACTATACATAAAT
*** * *
1626321 TACATAACTTAGTTAATTAATATTATACATAACT
1 TACATAACTTAACAAATTAATACTATACATAAAT
1626355 TACATAACTTA
1 TACATAACTTA
1626366 CAACTTACAT
Statistics
Matches: 173, Mismatches: 16, Indels: 45
0.74 0.07 0.19
Matches are distributed among these distances:
28 2 0.01
29 5 0.03
30 5 0.03
31 47 0.27
32 4 0.02
33 7 0.04
34 73 0.42
35 4 0.02
36 5 0.03
37 2 0.01
38 1 0.01
39 12 0.07
40 4 0.02
41 2 0.01
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (34 bp):
TACATAACTTAACAAATTAATACTATACATAAAT
Found at i:1630349 original size:300 final size:300
Alignment explanation
Indices: 1629807--1630406 Score: 1092
Period size: 300 Copynumber: 2.0 Consensus size: 300
1629797 CAATTTATCC
* * *
1629807 GGTTGGAGTACCAAGGGTCGTTATGCGTGCCCTTGTTGTGCTGCACAAACATGTTCGCAATGGTT
1 GGTTGGAGTACCAAGGGTCGTTATACGTGCCATTATTGTGCTGCACAAACATGTTCGCAATGGTT
1629872 ATACAATGGGAAGAAGTTCTCTTACATGGGGCATCATCGGTGGTTACCGAAAAATCATAGATTTA
66 ATACAATGGGAAGAAGTTCTCTTACATGGGGCATCATCGGTGGTTACCGAAAAATCATAGATTTA
* * *
1629937 GATTTTAGAGTTCGGTATTTGACGATACTGAAGAGTTCAGAGAAGCTCATTCGCAGACAAGTGGA
131 GATCTCAGAGTTCGGCATTTGACGATACTGAAGAGTTCAGAGAAGCTCATTCGCAGACAAGTGGA
*
1630002 TCTGAAATCTTGTTAATGTTGGAAGATATGAATTTCAGTTATGGGAAGATGAACCAACCGGCTAA
196 TCTGAAATCTTGTTAATGTTGGAAGATATGAATTTCAGTTATGGGAAGATGAACCAACCGGCAAA
1630067 CACGCAAAGAAATAGAAGATCAAATGATGAAGCTGATGAT
261 CACGCAAAGAAATAGAAGATCAAATGATGAAGCTGATGAT
1630107 GGTTGGAGTACCAAGGGTCGTTATACGTGCCATTATTGTGCTGCACAAACATGTTCGCAATGGTT
1 GGTTGGAGTACCAAGGGTCGTTATACGTGCCATTATTGTGCTGCACAAACATGTTCGCAATGGTT
* *
1630172 ATACAATGGGAAGAAGTTCTCTTACATGGGGCATCGTCGGTGGTTACCGGAAAATCATAGATTTA
66 ATACAATGGGAAGAAGTTCTCTTACATGGGGCATCATCGGTGGTTACCGAAAAATCATAGATTTA
* *
1630237 GATCTCAGAGTTCGGCATTTGACGGTACTGAAGAGTTCAGAGAAGCTCCTTCGCAGACAAGTGGA
131 GATCTCAGAGTTCGGCATTTGACGATACTGAAGAGTTCAGAGAAGCTCATTCGCAGACAAGTGGA
*
1630302 TCTGAAATCTTGTTAATGTTGGAAGATATGAATTTCAGTTATGGGAAGATGAATCAACCGGCAAA
196 TCTGAAATCTTGTTAATGTTGGAAGATATGAATTTCAGTTATGGGAAGATGAACCAACCGGCAAA
1630367 CACGCAAAGAAATAGAAGATCAAATGATGAAGCTGATGAT
261 CACGCAAAGAAATAGAAGATCAAATGATGAAGCTGATGAT
1630407 AACTCCGATG
Statistics
Matches: 288, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
300 288 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (300 bp):
GGTTGGAGTACCAAGGGTCGTTATACGTGCCATTATTGTGCTGCACAAACATGTTCGCAATGGTT
ATACAATGGGAAGAAGTTCTCTTACATGGGGCATCATCGGTGGTTACCGAAAAATCATAGATTTA
GATCTCAGAGTTCGGCATTTGACGATACTGAAGAGTTCAGAGAAGCTCATTCGCAGACAAGTGGA
TCTGAAATCTTGTTAATGTTGGAAGATATGAATTTCAGTTATGGGAAGATGAACCAACCGGCAAA
CACGCAAAGAAATAGAAGATCAAATGATGAAGCTGATGAT
Found at i:1634413 original size:43 final size:43
Alignment explanation
Indices: 1634359--1634566 Score: 211
Period size: 43 Copynumber: 4.8 Consensus size: 43
1634349 AGGTGTTGGC
* * * *
1634359 CTTTAGTGGCGTTTTTGGTAAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
* * * * *
1634402 CTTTCGCGGCGTTTGCGGAAAAAGCGCCCCTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
* * *
1634445 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
* * *** *
1634488 TTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
* * *
1634531 CTTTTGCGGCGTTT-TAGGGAGAAGCACCGCTAAAGA
1 CTTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGA
1634567 CCCTAATCTT
Statistics
Matches: 133, Mismatches: 31, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
42 1 0.01
43 132 0.99
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
Found at i:1634449 original size:86 final size:86
Alignment explanation
Indices: 1634359--1634566 Score: 236
Period size: 86 Copynumber: 2.4 Consensus size: 86
1634349 AGGTGTTGGC
* * *
1634359 CTTTAGTGGCGTTTTTGGTAAAAGCGCCGCTAAAGATAAGGGTCTTTCGCGGCGTTTGCGGAAAA
1 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGCGGAAAA
*
1634424 AGCGCCCCTAAAGATCATGGT
66 AGCGCCCCTAAAGATCAGGGT
* * * * * * * ***
1634445 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTTTTTAGTGGCGTTTGTGGTCGA
1 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGCGGAAAA
* *
1634510 AGCGCCGCTATAGATCAGGGT
66 AGCGCCCCTAAAGATCAGGGT
* * * *
1634531 CTTTTGCGGCGTTTTAGGGAGAAGCACCGCTAAAGA
1 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGA
1634567 CCCTAATCTT
Statistics
Matches: 100, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 100 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (86 bp):
CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGCGGAAAA
AGCGCCCCTAAAGATCAGGGT
Found at i:1634602 original size:129 final size:129
Alignment explanation
Indices: 1634360--1634609 Score: 293
Period size: 129 Copynumber: 1.9 Consensus size: 129
1634350 GGTGTTGGCC
* *
1634360 TTTAGTGGCGTTTTTGGTAAAAGCGCCGCTAAAGATAAGGGTCTTTCGCGGCGTTTGCGGAAAAA
1 TTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGATAAGGGTCTTTCGCGGCGTTTGAGGAAAAA
* * ** ** ** ** *
1634425 GCGCCCCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTT
66 GCACCCCTAAAGACCATAATCTTTAGCGGCACTTGCCGCAAAAACGCCGCTAAAGATTAGGTTT
** * * * * * *
1634489 TTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTTTTGCGGCGTTTTAGGGAGAA
1 TTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGATAAGGGTCTTTCGCGGCGTTTGAGGAAAAA
* *
1634554 GCACCGCTAAAGACCCTAATCTTTAGCGGCACTTGCCGCAAAAACGCCGCTAAAGA
66 GCACCCCTAAAGACCATAATCTTTAGCGGCACTTGCCGCAAAAACGCCGCTAAAGA
1634610 CCCTGATCTA
Statistics
Matches: 98, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
129 98 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (129 bp):
TTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGATAAGGGTCTTTCGCGGCGTTTGAGGAAAAA
GCACCCCTAAAGACCATAATCTTTAGCGGCACTTGCCGCAAAAACGCCGCTAAAGATTAGGTTT
Found at i:1634604 original size:43 final size:42
Alignment explanation
Indices: 1634557--1634737 Score: 182
Period size: 43 Copynumber: 4.2 Consensus size: 42
1634547 GGGAGAAGCA
* *
1634557 CCGCTAAAGACCCTAATCTTTAGCGGCACTTGCCGCAAAAACG
1 CCGCTAAAGACCCTAATCTATAGCGGCACTTGCC-CACAAACG
* * *
1634600 CCGCTAAAGACCCTGATCTATAGCGACACTTCGACCACAAACG
1 CCGCTAAAGACCCTAATCTATAGCGGCACTT-GCCCACAAACG
* * * * *
1634643 CCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACG
1 CCGCTAAAGACCCTAATCTATAGCGGCAC-TTGCCCACAAACG
* * * * *
1634686 CCGCAAAAGACCCTGATCTATAGCAGCGCTTCGACCACAAACG
1 CCGCTAAAGACCCTAATCTATAGCGGCACTT-GCCCACAAACG
*
1634729 CCACTAAAG
1 CCGCTAAAG
1634738 GTCTTAGTCT
Statistics
Matches: 112, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
42 2 0.02
43 106 0.95
44 4 0.04
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.17
Consensus pattern (42 bp):
CCGCTAAAGACCCTAATCTATAGCGGCACTTGCCCACAAACG
Found at i:1634685 original size:86 final size:86
Alignment explanation
Indices: 1634560--1634737 Score: 277
Period size: 86 Copynumber: 2.1 Consensus size: 86
1634550 AGAAGCACCG
* * *
1634560 CTAAAGACCCTAATCTTTAGCGGCACTTGCCGCAAAAACGCCGCTAAAGACCCTGATCTATAGC-
1 CTAAAGAACCTAATCTTTAGCGGCACTTGCCCCAAAAACGCCGCAAAAGACCCTGATCTATAGCA
1634624 GACACTTCGACCACAAACGCCA
66 G-CACTTCGACCACAAACGCCA
* * *
1634646 CTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCAAAAGACCCTGATCTATAGCA
1 CTAAAGAACCTAATCTTTAGCGGCACTTGCCCCAAAAACGCCGCAAAAGACCCTGATCTATAGCA
*
1634711 GCGCTTCGACCACAAACGCCA
66 GCACTTCGACCACAAACGCCA
1634732 CTAAAG
1 CTAAAG
1634738 GTCTTAGTCT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
86 83 0.99
87 1 0.01
ACGTcount: A:0.33, C:0.34, G:0.16, T:0.17
Consensus pattern (86 bp):
CTAAAGAACCTAATCTTTAGCGGCACTTGCCCCAAAAACGCCGCAAAAGACCCTGATCTATAGCA
GCACTTCGACCACAAACGCCA
Found at i:1639150 original size:48 final size:48
Alignment explanation
Indices: 1639014--1639150 Score: 122
Period size: 47 Copynumber: 2.9 Consensus size: 48
1639004 AAGGTGAAAC
* * * *
1639014 TATGTGGTAGTTTATTTGCATTAAT-GTGACACT-TTCACGATTTTGAT
1 TATGTGGTAGTTTATTTGCATT-TTGGTGACATTGTTCACAATATTGAT
* * * * *
1639061 TATGTGGCAGTATATCTACAATTTTGGTGGC-TTG-TCAACAATATTGAT
1 TATGTGGTAGTTTATTTGC-ATTTTGGTGACATTGTTC-ACAATATTGAT
1639109 TAT-TGGTAGTTTATTTGCGATTTTGGTGACATTGTTCACAAT
1 TATGTGGTAGTTTATTTGC-ATTTTGGTGACATTGTTCACAAT
1639151 TTGGTGTGTT
Statistics
Matches: 69, Mismatches: 15, Indels: 11
0.73 0.16 0.12
Matches are distributed among these distances:
47 40 0.58
48 27 0.39
49 2 0.03
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (48 bp):
TATGTGGTAGTTTATTTGCATTTTGGTGACATTGTTCACAATATTGAT
Found at i:1652020 original size:21 final size:21
Alignment explanation
Indices: 1651994--1652034 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1651984 ATCTGCTCAA
* *
1651994 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
1652015 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
1652035 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:1661180 original size:26 final size:26
Alignment explanation
Indices: 1661151--1661206 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
1661141 CTTAATAGCC
*
1661151 TAGTGACTTAAA-TAAAATATTTCAAA
1 TAGTGACTTAAATTAAAACA-TTCAAA
* *
1661177 TAGTTATTTAAATTAAAACATTCAAA
1 TAGTGACTTAAATTAAAACATTCAAA
1661203 TAGT
1 TAGT
1661207 TTAATGCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (26 bp):
TAGTGACTTAAATTAAAACATTCAAA
Found at i:1661207 original size:26 final size:26
Alignment explanation
Indices: 1661158--1661207 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
1661148 GCCTAGTGAC
*
1661158 TTAAATAAAATATTTCAAATAGTTAT
1 TTAAATAAAACATTTCAAATAGTTAT
1661184 TTAAATTAAAACA-TTCAAATAGTT
1 TTAAA-TAAAACATTTCAAATAGTT
1661208 TAATGCTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (26 bp):
TTAAATAAAACATTTCAAATAGTTAT
Found at i:1663521 original size:6 final size:6
Alignment explanation
Indices: 1663501--1663537 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
1663491 TTCATCAATC
*
1663501 TCTGAT TCATGAT TCTGAT TCTGAT TCTTAT TCTGAT
1 TCTGAT TC-TGAT TCTGAT TCTGAT TCTGAT TCTGAT
1663538 ATGTTTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
TCTGAT
Found at i:1664971 original size:13 final size:14
Alignment explanation
Indices: 1664943--1664979 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
1664933 CCAAAAAAGT
1664943 AAATCATTTTTCAG
1 AAATCATTTTTCAG
1664957 AAATCATTTTT-AG
1 AAATCATTTTTCAG
*
1664970 AAAACATTTT
1 AAATCATTTT
1664980 ATTGGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:1668889 original size:34 final size:35
Alignment explanation
Indices: 1668851--1668917 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
1668841 CATTAAAATA
*
1668851 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
1668885 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
1668918 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:1668891 original size:20 final size:20
Alignment explanation
Indices: 1668866--1668905 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1668856 CGTAAAATGA
*
1668866 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
1668886 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
1668906 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:1668921 original size:14 final size:15
Alignment explanation
Indices: 1668845--1668921 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
1668835 GATTGCCATT
* *
1668845 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
1668859 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
1668873 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
1668893 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
1668908 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
1668922 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:1671772 original size:40 final size:40
Alignment explanation
Indices: 1671668--1671774 Score: 151
Period size: 40 Copynumber: 2.7 Consensus size: 40
1671658 AGCTTTAGTG
* *
1671668 GCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAATGCCGCAATAGATCGA
* * *
1671708 GCATTAGCGGCACTATTTGAAAAATGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAATGCCGCAATAGATCGA
* *
1671748 GCATTAGTGGCGCTTTTTGGAAAATGC
1 GCATTAGCGGCGCTTTTTGAAAAATGC
1671775 TGTAAAAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAATGCCGCAATAGATCGA
Found at i:1671843 original size:156 final size:154
Alignment explanation
Indices: 1671573--1671894 Score: 473
Period size: 156 Copynumber: 2.1 Consensus size: 154
1671563 GCGCTTCTAA
* *
1671573 AAAAAAGCTGCTATAGATCGAGCATTAGCAGCGCTTTTCGGAAAATGCCGCAAAAAAGTTGAGCA
1 AAAAAAGCCGCTATAGATCGAGCATTAGCAGCGCTTTTCGGAAAATGCCGAAAAAAAGTTGAGCA
* *
1671638 AAACACATCGTTTGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAG
66 AAACACATCGTTTATTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACACCGCAATAG
1671703 ATCGAGCATTAGCGGCACTATTTG
131 ATCGAGCATTAGCGGCACTATTTG
* ** * *
1671727 AAAAATGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTGGAAAATGCTGTAAAAAAAGTTGAGC
1 AAAAAAGCCGCTATAGATCGAGCATTAGCAGCGCTTTTCGGAAAATGCCG-AAAAAAAGTTGAGC
* * * *
1671792 AAAACGACGTCGTTTATTGTTGAGCTTTAGTGGCATTAGTGGCTCTTTTTAAAGAACACCGCAAT
65 AAAAC-ACATCGTTTATTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACACCGCAAT
* * *
1671857 AGATTGAGCATTAGCGGCGCTTTTTG
129 AGATCGAGCATTAGCGGCACTATTTG
1671883 AAAAAACGCCGC
1 AAAAAA-GCCGC
1671895 AAAAAATTTG
Statistics
Matches: 148, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
154 44 0.30
155 18 0.12
156 81 0.55
157 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (154 bp):
AAAAAAGCCGCTATAGATCGAGCATTAGCAGCGCTTTTCGGAAAATGCCGAAAAAAAGTTGAGCA
AAACACATCGTTTATTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACACCGCAATAG
ATCGAGCATTAGCGGCACTATTTG
Found at i:1671912 original size:116 final size:118
Alignment explanation
Indices: 1671734--1672004 Score: 332
Period size: 116 Copynumber: 2.3 Consensus size: 118
1671724 TTGAAAAATG
* * * * * *
1671734 CCGCTATAGATCGAGCATTAGTGGCGCTTTTTG-GAAAATGCTGTAAAAAAAGTTGAGCAAAACG
1 CCGCAATAGATTGAGCATTAGCGGCGCTTTTTGAAAAAACGCCGTAAAAAAAGTTGAGCAAAACG
* * * * * *
1671798 ACGTCGTTTATTGTTGAGCTTTAGTGGCATTAGTGGCTCTTTT-TAAAGAACA
66 ACATCGTTTATTGTTGAGCATTAGTGGAATTAGCGGCGCTTTTGTAAAAAACA
* *
1671850 CCGCAATAGATTGAGCATTAGCGGCGCTTTTTGAAAAAACGCCG-CAAAAAATTTGAGCAAAACG
1 CCGCAATAGATTGAGCATTAGCGGCGCTTTTTGAAAAAACGCCGTAAAAAAAGTTGAGCAAAACG
* **
1671914 ACATCGTTTGTTGTTGAGCATTAGTGGAATTAGCGGCGCTTTTGTAAAAAATG
66 ACATCGTTTATTGTTGAGCATTAGTGGAATTAGCGGCGCTTTTGTAAAAAACA
* * * *
1671967 CCGCAATAGGTTGAGAATTAGCGGTGCTTGTTGAAAAA
1 CCGCAATAGATTGAGCATTAGCGGCGCTTTTTGAAAAA
1672005 CATCGCTATA
Statistics
Matches: 132, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
116 85 0.64
117 47 0.36
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (118 bp):
CCGCAATAGATTGAGCATTAGCGGCGCTTTTTGAAAAAACGCCGTAAAAAAAGTTGAGCAAAACG
ACATCGTTTATTGTTGAGCATTAGTGGAATTAGCGGCGCTTTTGTAAAAAACA
Found at i:1672154 original size:21 final size:22
Alignment explanation
Indices: 1672129--1672196 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
1672119 AATCATTTTA
1672129 TTTTAGGGTTTA-GTATTTAAGG
1 TTTTAGGGTTTATG-ATTTAAGG
** *
1672151 -TTTAATGTTTATGGTTTAAGG
1 TTTTAGGGTTTATGATTTAAGG
* *
1672172 TTTTAGGGTTTATGATATAATG
1 TTTTAGGGTTTATGATTTAAGG
1672194 TTT
1 TTT
1672197 ATTATTTTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 16 0.44
22 20 0.56
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (22 bp):
TTTTAGGGTTTATGATTTAAGG
Found at i:1672226 original size:14 final size:14
Alignment explanation
Indices: 1672209--1672261 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
1672199 TATTTTGGGA
1672209 TTAGAGTTT-TGAGT
1 TTAGAGTTTATG-GT
*
1672223 TTAGGGTTTATGGT
1 TTAGAGTTTATGGT
1672237 TTAGAGTTTATGGT
1 TTAGAGTTTATGGT
*
1672251 TTAGGGTTTAT
1 TTAGAGTTTAT
1672262 TATATTATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
14 33 0.94
15 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (14 bp):
TTAGAGTTTATGGT
Found at i:1672231 original size:7 final size:7
Alignment explanation
Indices: 1672221--1672260 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
1672211 AGAGTTTTGA
1672221 GTTTAGG
1 GTTTAGG
*
1672228 GTTTATG
1 GTTTAGG
*
1672235 GTTTAGA
1 GTTTAGG
*
1672242 GTTTATG
1 GTTTAGG
1672249 GTTTAGG
1 GTTTAGG
1672256 GTTTA
1 GTTTA
1672261 TTATATTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (7 bp):
GTTTAGG
Found at i:1672243 original size:21 final size:21
Alignment explanation
Indices: 1672209--1672260 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
1672199 TATTTTGGGA
* *
1672209 TTAGAGTTTTGAGTTTAGGGT
1 TTAGGGTTTAGAGTTTAGGGT
* *
1672230 TTATGGTTTAGAGTTTATGGT
1 TTAGGGTTTAGAGTTTAGGGT
1672251 TTAGGGTTTA
1 TTAGGGTTTA
1672261 TTATATTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (21 bp):
TTAGGGTTTAGAGTTTAGGGT
Found at i:1672429 original size:7 final size:7
Alignment explanation
Indices: 1672419--1672578 Score: 78
Period size: 7 Copynumber: 23.1 Consensus size: 7
1672409 GTAATATATA
1672419 TTTAGGG
1 TTTAGGG
1672426 TTTA-GG
1 TTTAGGG
*
1672432 TGTA-GG
1 TTTAGGG
*
1672438 TTTATGG
1 TTTAGGG
1672445 TTT--GG
1 TTTAGGG
* *
1672450 TGTAGTG
1 TTTAGGG
*
1672457 TTTATGG
1 TTTAGGG
*
1672464 TTTATGG
1 TTTAGGG
1672471 TTTAGGG
1 TTTAGGG
*
1672478 TTTAGCG
1 TTTAGGG
*
1672485 TTTAGTG
1 TTTAGGG
**
1672492 TTTATAG
1 TTTAGGG
1672499 TTTAAGGG
1 TTT-AGGG
*
1672507 -TTAGGAA
1 TTTAGG-G
*
1672514 CTTAGGG
1 TTTAGGG
*
1672521 TTTAAGG
1 TTTAGGG
**
1672528 TTTAAAG
1 TTTAGGG
*
1672535 TTTATGG
1 TTTAGGG
1672542 TTTAGGGG
1 TTTA-GGG
*
1672550 TTTATGG
1 TTTAGGG
*
1672557 TTTATGG
1 TTTAGGG
**
1672564 TTTAATG
1 TTTAGGG
1672571 TTTAGGG
1 TTTAGGG
1672578 T
1 T
1672579 CTGATTTTAA
Statistics
Matches: 119, Mismatches: 27, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
5 4 0.03
6 13 0.11
7 89 0.75
8 13 0.11
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:1672446 original size:19 final size:19
Alignment explanation
Indices: 1672419--1672481 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
1672409 GTAATATATA
*
1672419 TTTAGGGTTTAGGTGTAGG
1 TTTATGGTTTAGGTGTAGG
1672438 TTTATGGTTT-GGTGTAGTG
1 TTTATGGTTTAGGTGTAG-G
*
1672457 TTTATGGTTTATGGTTTAGGG
1 TTTATGGTTTA-GGTGTA-GG
1672478 TTTA
1 TTTA
1672482 GCGTTTAGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 7 0.18
19 20 0.53
21 10 0.26
22 1 0.03
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (19 bp):
TTTATGGTTTAGGTGTAGG
Found at i:1672473 original size:14 final size:14
Alignment explanation
Indices: 1672419--1672578 Score: 104
Period size: 14 Copynumber: 11.6 Consensus size: 14
1672409 GTAATATATA
1672419 TTTAGGGTTTA-GG
1 TTTAGGGTTTATGG
*
1672432 TGTA-GGTTTATGG
1 TTTAGGGTTTATGG
*
1672445 TTT--GGTGTA-GTG
1 TTTAGGGTTTATG-G
*
1672457 TTTATGGTTTATGG
1 TTTAGGGTTTATGG
1672471 TTTAGGGTTTA-GCG
1 TTTAGGGTTTATG-G
* *
1672485 TTTAGTGTTTATAG
1 TTTAGGGTTTATGG
1672499 TTTAAGGG-TTA-GG
1 TTT-AGGGTTTATGG
* *
1672512 AACTTAGGGTTTAAGG
1 --TTTAGGGTTTATGG
**
1672528 TTTAAAGTTTATGG
1 TTTAGGGTTTATGG
1672542 TTTAGGGGTTTATGG
1 TTTA-GGGTTTATGG
*
1672557 TTTATGGTTTAAT-G
1 TTTAGGGTTT-ATGG
1672571 TTTAGGGT
1 TTTAGGGT
1672579 CTGATTTTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
11 1 0.01
12 15 0.13
13 9 0.08
14 65 0.57
15 23 0.20
16 2 0.02
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:1672550 original size:29 final size:29
Alignment explanation
Indices: 1672518--1672577 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
1672508 TAGGAACTTA
1672518 GGGTTTAAGGTTTAAAGTTT-ATGGTTTAG
1 GGGTTTAAGGTTTAAAGTTTAAT-GTTTAG
* **
1672547 GGGTTTATGGTTTATGGTTTAATGTTTAG
1 GGGTTTAAGGTTTAAAGTTTAATGTTTAG
1672576 GG
1 GG
1672578 TCTGATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (29 bp):
GGGTTTAAGGTTTAAAGTTTAATGTTTAG
Found at i:1672553 original size:22 final size:22
Alignment explanation
Indices: 1672526--1672567 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1672516 TAGGGTTTAA
1672526 GGTTTAAAGTTTATGGTTTAGG
1 GGTTTAAAGTTTATGGTTTAGG
**
1672548 GGTTTATGGTTTATGGTTTA
1 GGTTTAAAGTTTATGGTTTA
1672568 ATGTTTAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (22 bp):
GGTTTAAAGTTTATGGTTTAGG
Found at i:1672559 original size:36 final size:35
Alignment explanation
Indices: 1672463--1672574 Score: 102
Period size: 36 Copynumber: 3.1 Consensus size: 35
1672453 AGTGTTTATG
*
1672463 GTTTATGGTTTA-GGGTTTAGCGTTT-AGTGTTTATA
1 GTTTATGGTTTAGGGGTTTAG-GTTTAAG-GTTTAAA
* * ***
1672498 GTTTAAGGGTTAGGAACTTAGGGTTTAAGGTTTAAA
1 GTTTATGGTTTAGGGGTTTA-GGTTTAAGGTTTAAA
* *
1672534 GTTTATGGTTTAGGGGTTTATGGTTTATGGTTTAAT
1 GTTTATGGTTTAGGGGTTTA-GGTTTAAGGTTTAAA
1672570 GTTTA
1 GTTTA
1672575 GGGTCTGATT
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
35 10 0.17
36 47 0.78
37 3 0.05
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.47
Consensus pattern (35 bp):
GTTTATGGTTTAGGGGTTTAGGTTTAAGGTTTAAA
Found at i:1673763 original size:43 final size:43
Alignment explanation
Indices: 1673709--1673797 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 43
1673699 GTTTTTTCAT
* *
1673709 AAACGCCGCTAAAGAAC-GGTACTTTTAGCGGTGTTTGTGATAA
1 AAACACCGCTAAAGAACAGGTAC-TTTAGCGGTGTTTGTGAAAA
* * * *
1673752 AAACACCGCTAAAGATCATGTTCTTTAGTGGTGTTTGTGAAAA
1 AAACACCGCTAAAGAACAGGTACTTTAGCGGTGTTTGTGAAAA
1673795 AAA
1 AAA
1673798 AGCCACTAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 36 0.92
44 3 0.08
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (43 bp):
AAACACCGCTAAAGAACAGGTACTTTAGCGGTGTTTGTGAAAA
Found at i:1673998 original size:43 final size:43
Alignment explanation
Indices: 1673732--1674001 Score: 296
Period size: 43 Copynumber: 6.3 Consensus size: 43
1673722 GAACGGTACT
* * * *
1673732 TTTAGCGGTGTTTGTGATAAAAACACCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * ** * *
1673775 TTTAGTGGTGTTTGTGAAAAAAAAGCCACTAACGGTCAT-TCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGT-TC
* * * *
1673818 TATAGCGGCATTTGTGATAAAAACGCCGCTAAAGGTCATGCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
1673861 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTT-
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
1673903 TTTAGCGGCGTTTGTGGGT-AAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
1673946 TTTAGCGGCGTGTT-TTATAAAAGCGCCACTAAAGGTCCTGTTC
1 TTTAGCGGCGT-TTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
*
1673989 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
1674002 TTTTCACATA
Statistics
Matches: 193, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
42 41 0.21
43 150 0.78
44 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:1677949 original size:23 final size:23
Alignment explanation
Indices: 1677917--1677967 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
1677907 AATTTTGTTA
*
1677917 TATATATATACATGCATATATTTT
1 TATATATATACATACATAT-TTTT
1677941 TATA-ATATACATACATATTTTT
1 TATATATATACATACATATTTTT
1677963 TATAT
1 TATAT
1677968 TTTATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 8 0.32
23 13 0.52
24 4 0.16
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
TATATATATACATACATATTTTT
Found at i:1677994 original size:12 final size:12
Alignment explanation
Indices: 1677977--1678011 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1677967 TTTTATATTT
*
1677977 TATATACCTATC
1 TATATACATATC
*
1677989 TATATATATATC
1 TATATACATATC
1678001 TATATACATAT
1 TATATACATAT
1678012 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (12 bp):
TATATACATATC
Found at i:1678825 original size:188 final size:186
Alignment explanation
Indices: 1678497--1678870 Score: 448
Period size: 188 Copynumber: 2.0 Consensus size: 186
1678487 AAACGATCTC
* * * *
1678497 GGGAATTAAGAAAAGATCGTGTCCTAACTTACAGGGCATGATCCTTTTTTTTAATCCGAGATAGC
1 GGGAATTAACAAAAGATCGTGTCCTAACTTACAGGGCATGATCCTTTTTTCTAACCCGAGATAAC
*
1678562 TAAATATCTTTTAAATAAGTAAATTTTTGGCATCCATTTCGCACATCGGGAATTCAAGACATTAT
66 TAAATATCTTTTAAATAAGCAAATTTTTGGCATCCATTTCG-ACATCGGGAATTCAAGACATTAT
* * *
1678627 GTCCTAACTTA-GTGGATACAATTCTCTTTCTCGATTAATGTGAAATATGCTCTTTTTT
130 GTCCTAACTTACG-AGATACAATT-TCTTTCTCGATTAACGTGAAATATGCCCTTTTTT
* * *
1678685 GGGAATTAACAAAAGATTGTGTTCTAACTTACGGGGCATGATCC-TTTTTCTAGACCCGAGATAA
1 GGGAATTAACAAAAGATCGTGTCCTAACTTACAGGGCATGATCCTTTTTTCTA-ACCCGAGATAA
* *** ** * *
1678749 TTAAATATCTTTTTAAATAAGCAAATTTTTGGCATTTGTTTTCG-TGTTGTGAATTCAAGACATT
65 CTAAATATC-TTTTAAATAAGCAAATTTTTGGCA-TCCATTTCGACATCGGGAATTCAAGACATT
* * * * * *
1678813 GTGTCTTAACTTACGAGATGCAATTTTTTTCTTGATTAACGTGAAGTATGCCCTTTTT
128 ATGTCCTAACTTACGAGATACAATTTCTTTCTCGATTAACGTGAAATATGCCCTTTTT
1678871 CTTTTCAAAT
Statistics
Matches: 157, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
187 35 0.22
188 92 0.59
189 24 0.15
190 6 0.04
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (186 bp):
GGGAATTAACAAAAGATCGTGTCCTAACTTACAGGGCATGATCCTTTTTTCTAACCCGAGATAAC
TAAATATCTTTTAAATAAGCAAATTTTTGGCATCCATTTCGACATCGGGAATTCAAGACATTATG
TCCTAACTTACGAGATACAATTTCTTTCTCGATTAACGTGAAATATGCCCTTTTTT
Found at i:1680240 original size:221 final size:221
Alignment explanation
Indices: 1679857--1680296 Score: 745
Period size: 221 Copynumber: 2.0 Consensus size: 221
1679847 TTTATTAAGC
* * *
1679857 ATAACAACCTATGTATTCATCAACTATTCAAACATGGTTCTTTATTCACATTTAATATTACAAAC
1 ATAACAACCTATGTATTCATAAACTATTCAAACATGGTTCTTCATTCACATTTAACATTACAAAC
1679922 TCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCCTACCACAATGCCATT
66 TCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCCTACCACAATGCCATT
* * *
1679987 AATGCACATACAAGCTCATCACATAGGACTATCAAAATTCAAGCATTATCAAAAGATCAAAGCTA
131 AATGCACATACAAGCTCACCACATAAGACTATCAAAATACAAGCATTATCAAAAGATCAAAGCTA
1680052 CCATATCCAAGTAATCATATATGATT
196 CCATATCCAAGTAATCATATATGATT
* * *
1680078 ATAACAACCTATGTATTCATAAATTATTCAAATATGGTTCTTCATTCACATTTAACATTCCAAAC
1 ATAACAACCTATGTATTCATAAACTATTCAAACATGGTTCTTCATTCACATTTAACATTACAAAC
* * * *
1680143 TCAGTCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCTTACCACAATTCTATT
66 TCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCCTACCACAATGCCATT
* *
1680208 AATGCACATACAAGCTCACCACATAAGACTATCAAAATACAAGCATTATCTAAATATCAAAGCTA
131 AATGCACATACAAGCTCACCACATAAGACTATCAAAATACAAGCATTATCAAAAGATCAAAGCTA
1680273 CCATATCCAAGTAATCATATATGA
196 CCATATCCAAGTAATCATATATGA
1680297 GCATAACATT
Statistics
Matches: 204, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
221 204 1.00
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.31
Consensus pattern (221 bp):
ATAACAACCTATGTATTCATAAACTATTCAAACATGGTTCTTCATTCACATTTAACATTACAAAC
TCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCCTACCACAATGCCATT
AATGCACATACAAGCTCACCACATAAGACTATCAAAATACAAGCATTATCAAAAGATCAAAGCTA
CCATATCCAAGTAATCATATATGATT
Found at i:1680795 original size:21 final size:20
Alignment explanation
Indices: 1680745--1680808 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
1680735 GTTGATAAAA
*
1680745 CAAAT-AGGGTAACTGAAGTG
1 CAAATCAGGGGAA-TGAAGTG
*
1680765 CATA-CAGGGGAATGAGAGTG
1 CAAATCAGGGGAATGA-AGTG
*
1680785 CAAATCAGGGGCATGAATGTG
1 CAAATCAGGGGAATGAA-GTG
1680806 CAA
1 CAA
1680809 TCAAAGGCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
19 3 0.08
20 17 0.47
21 16 0.44
ACGTcount: A:0.38, C:0.12, G:0.33, T:0.17
Consensus pattern (20 bp):
CAAATCAGGGGAATGAAGTG
Found at i:1684544 original size:18 final size:17
Alignment explanation
Indices: 1684511--1684549 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
1684501 TTGTATAAAT
1684511 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
1684529 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
1684546 TGTG
1 TGTG
1684550 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:1684802 original size:23 final size:23
Alignment explanation
Indices: 1684775--1684850 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
1684765 AGTGTTATTG
1684775 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
1684798 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
1684821 AGCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
1684844 AACAGTG
1 ATCAGTG
1684851 TTGCACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:1685163 original size:100 final size:100
Alignment explanation
Indices: 1685035--1685234 Score: 319
Period size: 100 Copynumber: 2.0 Consensus size: 100
1685025 AAAATTCTGA
** *
1685035 AAATTTTATGGTAAGTAGGAATATGAGTCTAGTTTCAGGGAAAATTTACGGATTTAAATTTTGAG
1 AAATTTTATGGTAAGTAGGAATATGAGTCTAGTTTCAGGGAAAATTTACGGATTTAAATTTCAAA
**
1685100 TCTCGTAACTTGAGTTATAATTAAATTAGTGACAG
66 TCTCGTAACTCAAGTTATAATTAAATTAGTGACAG
*
1685135 AAATTTTATGGTAAGTAGGAATATGAGTCTAGTTTCAGGTAAAATTTACGGATTTAAATTTCAAA
1 AAATTTTATGGTAAGTAGGAATATGAGTCTAGTTTCAGGGAAAATTTACGGATTTAAATTTCAAA
* * *
1685200 TCTTGTAACTCAATTTATGATTAAATTAGTGACAG
66 TCTCGTAACTCAAGTTATAATTAAATTAGTGACAG
1685235 TCATGCAGGT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (100 bp):
AAATTTTATGGTAAGTAGGAATATGAGTCTAGTTTCAGGGAAAATTTACGGATTTAAATTTCAAA
TCTCGTAACTCAAGTTATAATTAAATTAGTGACAG
Found at i:1691893 original size:20 final size:19
Alignment explanation
Indices: 1691870--1691912 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1691860 TCGAGAACCA
1691870 TTTTACTTAGTAAATAATGGT
1 TTTTACTTA-TAAAT-ATGGT
*
1691891 TTTTATTTATAAATATGGT
1 TTTTACTTATAAATATGGT
1691910 TTT
1 TTT
1691913 ATTTGGGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 8 0.38
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (19 bp):
TTTTACTTATAAATATGGT
Found at i:1691910 original size:19 final size:20
Alignment explanation
Indices: 1691870--1691916 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
1691860 TCGAGAACCA
*
1691870 TTTTACTTAGTAAATAATGG
1 TTTTATTTAGTAAATAATGG
1691890 TTTTTATTTA-TAAAT-ATGG
1 -TTTTATTTAGTAAATAATGG
1691909 TTTTATTT
1 TTTTATTT
1691917 GGGAGTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 4 0.16
20 5 0.20
21 8 0.32
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTTATTTAGTAAATAATGG
Found at i:1697172 original size:38 final size:38
Alignment explanation
Indices: 1697127--1697214 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
1697117 GATCTTTCGA
* * **
1697127 GGCGACACCGTGGCAACGGTTATCTACTGGTCCTTTGG
1 GGCGACACCGTGACAACGATTATCTACTGGTCCTTCAG
* * * *
1697165 GGTGACACTGCGACGACGATTATCTACTGGTCCTTCAG
1 GGCGACACCGTGACAACGATTATCTACTGGTCCTTCAG
1697203 GGCGACACCGTG
1 GGCGACACCGTG
1697215 TAAACGGTAT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (38 bp):
GGCGACACCGTGACAACGATTATCTACTGGTCCTTCAG
Found at i:1699328 original size:14 final size:15
Alignment explanation
Indices: 1699293--1699332 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
1699283 TTGGGTTAAG
*
1699293 AAAATTATTTAATTGA
1 AAAATTAATTAATT-A
1699309 AAAATTAATTAATT-
1 AAAATTAATTAATTA
1699323 AAAATTAATT
1 AAAATTAATT
1699333 TAATAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
AAAATTAATTAATTA
Found at i:1707119 original size:17 final size:19
Alignment explanation
Indices: 1707091--1707131 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
1707081 AAAATTATAA
1707091 TAAAAGTTATATATTTT-T
1 TAAAAGTTATATATTTTAT
*
1707109 TAAAA-TTATATTTTTTAT
1 TAAAAGTTATATATTTTAT
1707127 TAAAA
1 TAAAA
1707132 ATAACAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAAAAGTTATATATTTTAT
Found at i:1707935 original size:17 final size:18
Alignment explanation
Indices: 1707913--1707955 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
1707903 GGAGCTCGCA
1707913 GGTGAGCTCT-CAAGT-TT
1 GGTGAGCTCTGC-AGTCTT
1707930 GGTGAGCT-TGCAGTCTT
1 GGTGAGCTCTGCAGTCTT
1707947 GGTGAGCTC
1 GGTGAGCTC
1707956 GTAATTCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.14, C:0.19, G:0.35, T:0.33
Consensus pattern (18 bp):
GGTGAGCTCTGCAGTCTT
Found at i:1707994 original size:17 final size:17
Alignment explanation
Indices: 1707946--1707994 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
1707936 CTTGCAGTCT
* *
1707946 TGGTGAGCTCGTAATTC
1 TGGTGAGCTCGCAATGC
* * *
1707963 TGGAGAGGTCACAATGC
1 TGGTGAGCTCGCAATGC
1707980 TGGTGAGCTCGCAAT
1 TGGTGAGCTCGCAAT
1707995 TCGCACTATT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (17 bp):
TGGTGAGCTCGCAATGC
Found at i:1708826 original size:31 final size:31
Alignment explanation
Indices: 1708760--1708833 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
1708750 TTCTATACAT
*
1708760 AAATTTTAATT-TAGTGCAATTATAGACGTA
1 AAATTTTAATTGTAGTGCAAATATAGACGTA
* * * *
1708790 AAATTTTAATTGTAGTTCAAATGTATACTTA
1 AAATTTTAATTGTAGTGCAAATATAGACGTA
1708821 AAATTTTAATTGT
1 AAATTTTAATTGT
1708834 GATTTAATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 11 0.29
31 27 0.71
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (31 bp):
AAATTTTAATTGTAGTGCAAATATAGACGTA
Found at i:1715414 original size:20 final size:20
Alignment explanation
Indices: 1715389--1715426 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1715379 TGTTTTAAAG
1715389 TTACGATTTTATGGTAATGC
1 TTACGATTTTATGGTAATGC
1715409 TTACGATTTTATGGTAAT
1 TTACGATTTTATGGTAAT
1715427 ACTCTGTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.47
Consensus pattern (20 bp):
TTACGATTTTATGGTAATGC
Found at i:1725336 original size:277 final size:277
Alignment explanation
Indices: 1724744--1725570 Score: 1191
Period size: 277 Copynumber: 3.0 Consensus size: 277
1724734 ACGTTACGAT
* ** *
1724744 AAATCGATACGAGGAACACATTGAACGGGACTCAATTTCAAACTCGGGATCAAATTAAAATTTCC
1 AAATCGATACGAGGAACAAATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
*
1724809 AACAAAAGAAGT-TGAAGA-TTTTATGAAAAGGAAAT-AAGTGAATAACAAAAAAAGATGTATTT
66 AACAAAAGAA-TATGAAGATTTTTATGAAAAGGAAATGAAG-GAATAACAGAAAAAGATGTATTT
* * * * * * *
1724871 AAATAAGGGAAAAGAGAAATTT-TAATTAAGGTTGGAAAGAAGTAAAAATCCACATGTAATTAAG
129 AAAGAAGAGAAAAAAG-AATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGG
* * *
1724935 AAAATAGATTAAATGGTTAGGGTTTCAGAAATTTAAAGGGTTGAATGGTAAAATACTCATTTTTG
193 AAAATGGATTAAAT-GTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACTCATTTTTG
*
1725000 TCGACATT-AAAAAAAAAGAG
257 TTGACATTGAAAAAAAAAGAG
* * *
1725020 AAATTGATACGAGGAACAAATTGAATGGGACTTGGTTTCAAACTCGGGATCAAATTAAAATTTTC
1 AAATCGATACGAGGAACAAATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
*
1725085 AACAAAAGAATATGAAGATTTTTATGAAAAGGAAATGAAGGAATAACAGAAAAAGAGGTATTTAA
66 AACAAAAGAATATGAAGATTTTTATGAAAAGGAAATGAAGGAATAACAGAAAAAGATGTATTTAA
*
1725150 AGAAGAGAAAAAAGAATTTCTAATTTGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAA
131 AGAAGAGAAAAAAGAATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAA
* * *
1725215 ATGGATTAAATATTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACCCCTTTTTGTTGA
196 ATGGATTAAATGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACTCATTTTTGTTGA
1725280 CATTGAAAAAAAAAGAG
261 CATTGAAAAAAAAAGAG
* * **
1725297 AAATCAATACGAAGAACGGATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
1 AAATCGATACGAGGAACAAATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
* * * * *
1725362 AGCAAAAGAAGATGAAGATTTTTATGAAAAAGAAATGAGGGAATAACAGAAAAAGATGCATTTAA
66 AACAAAAGAATATGAAGATTTTTATGAAAAGGAAATGAAGGAATAACAGAAAAAGATGTATTTAA
* * * *
1725427 AGAGGAGAAAAAAGAAATTCTAATTAGGGTTGAAAAGGAGTAGAAATGCACATGTAATTAGGAAA
131 AGAAGAGAAAAAAGAATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAA
* * *
1725492 ATGGATTAAATTGTTAGGGTTTAA-AAATTTAAGGGG-TAAATGGTAAAATACTCTTTTTTGCTG
196 ATGGATTAAA-TGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACTCATTTTTGTTG
1725555 ACATTGAAAAATAAAA
260 ACATTGAAAAA-AAAA
1725571 AGTGGGGGAG
Statistics
Matches: 497, Mismatches: 47, Indels: 13
0.89 0.08 0.02
Matches are distributed among these distances:
275 1 0.00
276 165 0.33
277 316 0.64
278 15 0.03
ACGTcount: A:0.46, C:0.08, G:0.20, T:0.26
Consensus pattern (277 bp):
AAATCGATACGAGGAACAAATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
AACAAAAGAATATGAAGATTTTTATGAAAAGGAAATGAAGGAATAACAGAAAAAGATGTATTTAA
AGAAGAGAAAAAAGAATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAA
ATGGATTAAATGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACTCATTTTTGTTGA
CATTGAAAAAAAAAGAG
Found at i:1725719 original size:14 final size:15
Alignment explanation
Indices: 1725700--1725728 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1725690 CATAGTTGTT
1725700 GAAAAAT-AAAAGAG
1 GAAAAATGAAAAGAG
1725714 GAAAAATGAAAAGAG
1 GAAAAATGAAAAGAG
1725729 TAGGTCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (15 bp):
GAAAAATGAAAAGAG
Found at i:1728427 original size:5 final size:6
Alignment explanation
Indices: 1728410--1728434 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1728400 TTTTGTCTCC
1728410 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
1728435 GTCCCAATAC
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:1733294 original size:171 final size:173
Alignment explanation
Indices: 1732993--1733336 Score: 485
Period size: 171 Copynumber: 2.0 Consensus size: 173
1732983 TCACGAAATC
* * *
1732993 TTGTCCATTTAAGGTGACTGCTAAAACTTGTGAACTTTAAGGTGGCTGCGGAATCGAGGGTTGTT
1 TTGTCCATTTAAGGTGACTGCTAAAACTCGTGAACTTTAAGGTGGCTGCGGAAACGAAGGTTGTT
* * * * *
1733058 ACAAATGTGGTATAACACATTTGGATCCAGCAACCGGGTCAGATTTGGGGTGTTACACAATATTT
66 ACAAATGTGGTATAACACATTTGAATCAAGCAACCAGGTCAGATTTGAGGCGTTACACAATATTT
* * *
1733123 CTCATTTTTT-TCTTTTAACATTGTAATACAAGTTTTAAGCTT
131 CCCATTTTTTCCCTCTTAACATTGTAATACAAGTTTTAAGCTT
* * *
1733165 TTGTCCATTTAAGTTGGCTGCTAAAACTCGTGAACTTTAAGGTGGCTG-TGAAACGAAGGTTGTT
1 TTGTCCATTTAAGGTGACTGCTAAAACTCGTGAACTTTAAGGTGGCTGCGGAAACGAAGGTTGTT
* * ** *
1733229 ACAAATGTGGTATAATATATTTGAATCAAGCAATTAGGTCAGATTTGAGGCGTTATACAATATTT
66 ACAAATGTGGTATAACACATTTGAATCAAGCAACCAGGTCAGATTTGAGGCGTTACACAATATTT
* *
1733294 CCCCTTTTTTCCCTCTTAATATTGTAATACAAGTTTTAAGCTT
131 CCCATTTTTTCCCTCTTAACATTGTAATACAAGTTTTAAGCTT
1733337 AAAAAAATTG
Statistics
Matches: 150, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
171 76 0.51
172 74 0.49
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (173 bp):
TTGTCCATTTAAGGTGACTGCTAAAACTCGTGAACTTTAAGGTGGCTGCGGAAACGAAGGTTGTT
ACAAATGTGGTATAACACATTTGAATCAAGCAACCAGGTCAGATTTGAGGCGTTACACAATATTT
CCCATTTTTTCCCTCTTAACATTGTAATACAAGTTTTAAGCTT
Found at i:1733892 original size:14 final size:14
Alignment explanation
Indices: 1733870--1733903 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1733860 CATTATTCTC
*
1733870 ATTTTAACAAATAT
1 ATTTGAACAAATAT
1733884 ATTTGAACAAATAT
1 ATTTGAACAAATAT
1733898 AGTTTG
1 A-TTTG
1733904 TAATCTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (14 bp):
ATTTGAACAAATAT
Found at i:1736434 original size:13 final size:13
Alignment explanation
Indices: 1736416--1736446 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1736406 TAAACAAAAT
1736416 ATAAAATAAAAGA
1 ATAAAATAAAAGA
1736429 ATAAAATAAAAGA
1 ATAAAATAAAAGA
*
1736442 GTAAA
1 ATAAA
1736447 GAGAATGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (13 bp):
ATAAAATAAAAGA
Found at i:1739216 original size:12 final size:13
Alignment explanation
Indices: 1739183--1739227 Score: 58
Period size: 12 Copynumber: 3.6 Consensus size: 13
1739173 TTTAAAAATA
1739183 ATTATT-TGATTT
1 ATTATTATGATTT
*
1739195 ATTTTTATGATTT
1 ATTATTATGATTT
1739208 -TTATTATGATTT
1 ATTATTATGATTT
*
1739220 ATTGTTAT
1 ATTATTAT
1739228 TACTTTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 16 0.57
13 12 0.43
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (13 bp):
ATTATTATGATTT
Found at i:1741957 original size:30 final size:30
Alignment explanation
Indices: 1741921--1741977 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
1741911 TTCATATCAG
*
1741921 AAACTAAAAAATTATGACTATAGAAAAATA
1 AAACTAAAAAATTACGACTATAGAAAAATA
*
1741951 AAACTAAAAAATTCCGACTATAGAAAA
1 AAACTAAAAAATTACGACTATAGAAAA
1741978 CTATGTCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.61, C:0.11, G:0.07, T:0.21
Consensus pattern (30 bp):
AAACTAAAAAATTACGACTATAGAAAAATA
Found at i:1746639 original size:25 final size:25
Alignment explanation
Indices: 1746580--1746692 Score: 113
Period size: 25 Copynumber: 4.6 Consensus size: 25
1746570 ATTCATGTAC
* ***
1746580 GCTCATACGAGCTGTA-AACACTAA
1 GCTCATACGAGCTGAATAACGGGAA
* *
1746604 GCTCTTTCGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
1746629 GCTCATACGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
* * *
1746654 GGTCATGCGAGCT-AAGTATCGGGAA
1 GCTCATACGAGCTGAA-TAACGGGAA
*
1746679 GCTCATAAGAGCTG
1 GCTCATACGAGCTG
1746693 TGGTGTGTCT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
24 15 0.21
25 57 0.79
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGGAA
Found at i:1747016 original size:15 final size:16
Alignment explanation
Indices: 1746996--1747029 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1746986 TATATGAATG
1746996 AATATAACTCA-ATTC
1 AATATAACTCATATTC
*
1747011 AATATAATTCATATTC
1 AATATAACTCATATTC
1747027 AAT
1 AAT
1747030 TTAGTCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAACTCATATTC
Found at i:1747050 original size:30 final size:30
Alignment explanation
Indices: 1747014--1747073 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1747004 TCAATTCAAT
1747014 ATAATTCATATTCAATTTAGTCCAACACAC
1 ATAATTCATATTCAATTTAGTCCAACACAC
*
1747044 ATAATTCATGTTCAATTTAGTCCAACACAC
1 ATAATTCATATTCAATTTAGTCCAACACAC
1747074 TTTTTTTGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.33
Consensus pattern (30 bp):
ATAATTCATATTCAATTTAGTCCAACACAC
Found at i:1750442 original size:27 final size:27
Alignment explanation
Indices: 1750404--1750471 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
1750394 ATCATCAGGC
*
1750404 TATAACGGTCATTTCAT-CTCCTAGGGG
1 TATAACAGTCATTTCATCCT-CTAGGGG
* * *
1750431 TATAACAGTCATTTTATCCTGTGGGGG
1 TATAACAGTCATTTCATCCTCTAGGGG
*
1750458 TATTACAGTCATTT
1 TATAACAGTCATTT
1750472 TACCCTTCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (27 bp):
TATAACAGTCATTTCATCCTCTAGGGG
Found at i:1750488 original size:27 final size:27
Alignment explanation
Indices: 1750436--1750665 Score: 268
Period size: 27 Copynumber: 8.5 Consensus size: 27
1750426 AGGGGTATAA
* * *
1750436 CAGTCATTTTATCCTGT-GGGGGTATTA
1 CAGTCATTTTACCCT-TCGAGGGTATTT
*
1750463 CAGTCATTTTACCCTTCGAGGTTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
** *
1750490 TGGTCATTTT-CCCATTCAAGGGTATTT
1 CAGTCATTTTACCC-TTCGAGGGTATTT
* *
1750517 CAGTCATTTTACCTTTCAAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
** *
1750544 TGGTCATTTTACCCTTCAAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
1750571 CAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
1750598 CAGTCATTTTACCCTTCGAAGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
1750625 CAGTCATTTTACCCTTTGAGAGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
1750652 -TGATCATTTTACCC
1 CAG-TCATTTTACCC
1750666 ATTTTCGCCG
Statistics
Matches: 177, Mismatches: 22, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.03
27 170 0.96
28 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:1750513 original size:54 final size:54
Alignment explanation
Indices: 1750455--1750665 Score: 309
Period size: 54 Copynumber: 3.9 Consensus size: 54
1750445 TATCCTGTGG
* *
1750455 GGGTATTACAGTCATTTTACCCTTCGAGGTTATTTTGGTCATTTT-CCCATTCAA
1 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCC-TTCAA
* *
1750509 GGGTATTTCAGTCATTTTACCTTTCAAGGGTATTTTGGTCATTTTACCCTTCAA
1 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCAA
**
1750563 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAA
1 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTC-AA
* * *
1750618 -GGTATTTCAGTCATTTTACCCTTTGAGAGTATTTTGATCATTTTACCC
1 GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCC
1750666 ATTTTCGCCG
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
54 137 0.96
55 5 0.04
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (54 bp):
GGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCAA
Found at i:1751458 original size:18 final size:19
Alignment explanation
Indices: 1751422--1751464 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
1751412 GCAAAAACGC
*
1751422 AAAACTGACCGAAACAAAA
1 AAAACTGACCAAAACAAAA
*
1751441 AAAACTGA-CAAAAGAAAA
1 AAAACTGACCAAAACAAAA
*
1751459 ACAACT
1 AAAACT
1751465 TCAAAAATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.65, C:0.19, G:0.09, T:0.07
Consensus pattern (19 bp):
AAAACTGACCAAAACAAAA
Found at i:1756755 original size:50 final size:50
Alignment explanation
Indices: 1756701--1756801 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
1756691 CTCTTTCAAA
*
1756701 CTAAATAATGGGAAGCTCATGCAAGCTGAA-TAACGGAAAGCTCATACGAG
1 CTAAATAATGGGAAGCTCATGCAAGCT-AAGTAACGGAAAGCTCATAAGAG
* * * *
1756751 CTAAATAATGGGAAGGTCATGCGAGCTAAGTATCGGGAAGCTCATAAGAG
1 CTAAATAATGGGAAGCTCATGCAAGCTAAGTAACGGAAAGCTCATAAGAG
1756801 C
1 C
1756802 CGTGGTGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
49 2 0.04
50 43 0.96
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.19
Consensus pattern (50 bp):
CTAAATAATGGGAAGCTCATGCAAGCTAAGTAACGGAAAGCTCATAAGAG
Found at i:1756801 original size:25 final size:25
Alignment explanation
Indices: 1756701--1756801 Score: 105
Period size: 25 Copynumber: 4.0 Consensus size: 25
1756691 CTCTTTCAAA
* *
1756701 CTAAATAATGGGAAGCTCATGCAAG
1 CTAAATAATGGGAAGCTCATACGAG
* * *
1756726 CTGAATAACGGAAAGCTCATACGAG
1 CTAAATAATGGGAAGCTCATACGAG
* *
1756751 CTAAATAATGGGAAGGTCATGCGAG
1 CTAAATAATGGGAAGCTCATACGAG
* *
1756776 CTAAGT-ATCGGGAAGCTCATAAGAG
1 CTAAATAAT-GGGAAGCTCATACGAG
1756801 C
1 C
1756802 CGTGGTGTGT
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 2 0.03
25 59 0.97
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.19
Consensus pattern (25 bp):
CTAAATAATGGGAAGCTCATACGAG
Found at i:1757457 original size:24 final size:24
Alignment explanation
Indices: 1757425--1757505 Score: 117
Period size: 24 Copynumber: 3.4 Consensus size: 24
1757415 AAATTGAAGC
*
1757425 ATACTCATCAAAGGCAAAACCTTA
1 ATACTCATCAATGGCAAAACCTTA
*
1757449 ATACCCATCAATGGCAAAACCTTA
1 ATACTCATCAATGGCAAAACCTTA
* * *
1757473 ATACTCATCATTGGAAAAACCCTA
1 ATACTCATCAATGGCAAAACCTTA
1757497 ATACTCATC
1 ATACTCATC
1757506 CCCAAGTTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.23
Consensus pattern (24 bp):
ATACTCATCAATGGCAAAACCTTA
Found at i:1764945 original size:9 final size:9
Alignment explanation
Indices: 1764931--1764960 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1764921 ATTAAAGTAT
1764931 TAATTAAAC
1 TAATTAAAC
1764940 TAATTAAAC
1 TAATTAAAC
*
1764949 TAATTAATC
1 TAATTAAAC
1764958 TAA
1 TAA
1764961 ACGAACCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAC
Found at i:1770263 original size:28 final size:26
Alignment explanation
Indices: 1770208--1770263 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
1770198 TAATCTCTGC
*
1770208 AATTCTCTGCAATTTTTTTAAAGTGA
1 AATTCTCTGCAATTTTTTTAAAGAGA
*
1770234 AATTCTCTGTAATTTTTTTCAAAGAAGA
1 AATTCTCTGCAATTTTTTT-AAAG-AGA
1770262 AA
1 AA
1770264 AACAAATGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 18 0.69
27 4 0.15
28 4 0.15
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (26 bp):
AATTCTCTGCAATTTTTTTAAAGAGA
Found at i:1776388 original size:12 final size:11
Alignment explanation
Indices: 1776364--1776398 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
1776354 TTTCAACAAG
1776364 TTTTCC-TTCA
1 TTTTCCTTTCA
1776374 TTTTCCTTGTCA
1 TTTTCCTT-TCA
1776386 TTTTCCTTTCA
1 TTTTCCTTTCA
1776397 TT
1 TT
1776399 GTCTGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 6 0.26
12 11 0.48
ACGTcount: A:0.09, C:0.26, G:0.03, T:0.63
Consensus pattern (11 bp):
TTTTCCTTTCA
Found at i:1784458 original size:34 final size:35
Alignment explanation
Indices: 1784414--1784481 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
1784404 GCACAGTTGA
* *
1784414 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATTACAGTATCAGTG
*
1784449 ACAGT-TTGGGCCTTAGCCCATTACAGTATCAGT
1 ACAGTCTTGGGCCTAAGCCCATTACAGTATCAGT
1784482 AGCAATAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 25 0.83
35 5 0.17
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (35 bp):
ACAGTCTTGGGCCTAAGCCCATTACAGTATCAGTG
Found at i:1784953 original size:205 final size:205
Alignment explanation
Indices: 1784601--1785011 Score: 813
Period size: 205 Copynumber: 2.0 Consensus size: 205
1784591 ACTCCAAGTA
1784601 ATACCGAATGCGGCACAAAAAAGTAGTTTGCAGCTGAGCTGCCAGTAAATTAGGCTTAAAGTCTT
1 ATACCGAATGCGGCACAAAAAAGTAGTTTGCAGCTGAGCTGCCAGTAAATTAGGCTTAAAGTCTT
1784666 TCAGTACACTTCCTTCGAATAACAACCCCCAACCCAATGGAATGCAACATACAATTGATGATATG
66 TCAGTACACTTCCTTCGAATAACAACCCCCAACCCAATGGAATGCAACATACAATTGATGATATG
1784731 CTATTATGCAATTTCAGTACATATATTCGGTTCAAATATTAACATGCTCAGTACAAATATCATTT
131 CTATTATGCAATTTCAGTACATATATTCGGTTCAAATATTAACATGCTCAGTACAAATATCATTT
1784796 AGTCAATTTC
196 AGTCAATTTC
1784806 ATACCGAATGCGGCACAAAAAAGTAGTTTGCAGCTGAGCTGCCAGTAAATTAGGCTTAAAGTCTT
1 ATACCGAATGCGGCACAAAAAAGTAGTTTGCAGCTGAGCTGCCAGTAAATTAGGCTTAAAGTCTT
1784871 TCAGTACACTTCCTTCGAATAACAACCCCCAACCCAATGGAATGCAACATACAATTGATGATATG
66 TCAGTACACTTCCTTCGAATAACAACCCCCAACCCAATGGAATGCAACATACAATTGATGATATG
*
1784936 CTATTATGCAATTTCAGTACATATATTCGGTTCAGATATTAACATGCTCAGTACAAATATCATTT
131 CTATTATGCAATTTCAGTACATATATTCGGTTCAAATATTAACATGCTCAGTACAAATATCATTT
1785001 AGTCAATTTC
196 AGTCAATTTC
1785011 A
1 A
1785012 CACATTTAGG
Statistics
Matches: 205, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 205 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (205 bp):
ATACCGAATGCGGCACAAAAAAGTAGTTTGCAGCTGAGCTGCCAGTAAATTAGGCTTAAAGTCTT
TCAGTACACTTCCTTCGAATAACAACCCCCAACCCAATGGAATGCAACATACAATTGATGATATG
CTATTATGCAATTTCAGTACATATATTCGGTTCAAATATTAACATGCTCAGTACAAATATCATTT
AGTCAATTTC
Found at i:1790904 original size:50 final size:50
Alignment explanation
Indices: 1790789--1790987 Score: 254
Period size: 50 Copynumber: 3.8 Consensus size: 50
1790779 GATAATAACA
* **
1790789 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
1790840 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
1790890 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* *
1790945 ATGCCAATGCCATGTCCCAGACATGGTTTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1790988 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
50 50 0.39
51 33 0.26
53 5 0.04
55 2 0.02
56 39 0.30
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:1791103 original size:13 final size:13
Alignment explanation
Indices: 1791082--1791113 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1791072 GCTTGGATCA
*
1791082 TCATCAAATAAAT
1 TCATAAAATAAAT
1791095 TCATAAAATAAAT
1 TCATAAAATAAAT
1791108 TCATAA
1 TCATAA
1791114 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:1791360 original size:30 final size:30
Alignment explanation
Indices: 1791325--1791382 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1791315 CCTCGACTCT
*
1791325 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
1791355 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
1791383 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:1794070 original size:468 final size:468
Alignment explanation
Indices: 1793194--1794128 Score: 1852
Period size: 468 Copynumber: 2.0 Consensus size: 468
1793184 GATAAAGTGC
1793194 GCGGAATTTGTCAATCGGTCGACAATTACCCAAATGGCATCTTTCTTCCTTGGAGATAACGGCAA
1 GCGGAATTTGTCAATCGGTCGACAATTACCCAAATGGCATCTTTCTTCCTTGGAGATAACGGCAA
1793259 CCTAGATACAAAATCCATAGTGATTCTTTCTCATTTCCATTCCGGTATAGTGATTGGCTAAAGCA
66 CCTAGATACAAAATCCATAGTGATTCTTTCTCATTTCCATTCCGGTATAGTGATTGGCTAAAGCA
1793324 ACCCCGAAGGTACCTGATGTTCAGCTTTAACCTGCTGACATACTAAACATCTTGATACAAACTCA
131 ACCCCGAAGGTACCTGATGTTCAGCTTTAACCTGCTGACATACTAAACATCTTGATACAAACTCA
1793389 GAGATATCACGTTTCATACCCGGCCACCAATACATCTTTTTCAAATCATGATACATTTTATTACT
196 GAGATATCACGTTTCATACCCGGCCACCAATACATCTTTTTCAAATCATGATACATTTTATTACT
1793454 CCCCGGATGTACAGACATAGTACCGCTATGGGCCTCGTGTAGAATCTTCTGTATAAGCTTGAAAT
261 CCCCGGATGTACAGACATAGTACCGCTATGGGCCTCGTGTAGAATCTTCTGTATAAGCTTGAAAT
1793519 TCTTCGGTACACATACTCGGCCTCTGAATAATAAACAACCATCAATCTCAGTCTGAAATTCTGAA
326 TCTTCGGTACACATACTCGGCCTCTGAATAATAAACAACCATCAATCTCAGTCTGAAATTCTGAA
1793584 TCATTACCGGACTCATAATGTGCCCGTTTAGCCTGTAACTTCTCATCATTTTTCTGAGCTTCACA
391 TCATTACCGGACTCATAATGTGCCCGTTTAGCCTGTAACTTCTCATCATTTTTCTGAGCTTCACA
1793649 TATTTGTTGACGT
456 TATTTGTTGACGT
1793662 GCGGAATTTGTCAATCGGTCGACAATTACCCAAATGGCATCTTTCTTCCTTGGAGATAACGGCAA
1 GCGGAATTTGTCAATCGGTCGACAATTACCCAAATGGCATCTTTCTTCCTTGGAGATAACGGCAA
1793727 CCTAGATACAAAATCCATAGTGATTCTTTCTCATTTCCATTCCGGTATAGTGATTGGCTAAAGCA
66 CCTAGATACAAAATCCATAGTGATTCTTTCTCATTTCCATTCCGGTATAGTGATTGGCTAAAGCA
1793792 ACCCCGAAGGTACCTGATGTTCAGCTTTAACCTGCTGACATACTAAACATCTTGATACAAACTCA
131 ACCCCGAAGGTACCTGATGTTCAGCTTTAACCTGCTGACATACTAAACATCTTGATACAAACTCA
* *
1793857 GAGATATCACGTTTCATACCTGGCCACCAATACATCTTTTTCAAATCATTATACATTTTATTACT
196 GAGATATCACGTTTCATACCCGGCCACCAATACATCTTTTTCAAATCATGATACATTTTATTACT
1793922 CCCCGGATGTACAGACATAGTACCGCTATGGGCCTCGTGTAGAATCTTCTGTATAAGCTTGAAAT
261 CCCCGGATGTACAGACATAGTACCGCTATGGGCCTCGTGTAGAATCTTCTGTATAAGCTTGAAAT
1793987 TCTTCGGTACACATACTCGGCCTCTGAATAATAAACAACCATCAATCTCAGTCTGAAATTCTGAA
326 TCTTCGGTACACATACTCGGCCTCTGAATAATAAACAACCATCAATCTCAGTCTGAAATTCTGAA
1794052 TCATTACCGGACTCATAATGTGCCCGTTTAGCCTGTAACTTCTCATCATTTTTCTGAGCTTCACA
391 TCATTACCGGACTCATAATGTGCCCGTTTAGCCTGTAACTTCTCATCATTTTTCTGAGCTTCACA
1794117 TATTTGTTGACG
456 TATTTGTTGACG
1794129 AAACATCGAT
Statistics
Matches: 465, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
468 465 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (468 bp):
GCGGAATTTGTCAATCGGTCGACAATTACCCAAATGGCATCTTTCTTCCTTGGAGATAACGGCAA
CCTAGATACAAAATCCATAGTGATTCTTTCTCATTTCCATTCCGGTATAGTGATTGGCTAAAGCA
ACCCCGAAGGTACCTGATGTTCAGCTTTAACCTGCTGACATACTAAACATCTTGATACAAACTCA
GAGATATCACGTTTCATACCCGGCCACCAATACATCTTTTTCAAATCATGATACATTTTATTACT
CCCCGGATGTACAGACATAGTACCGCTATGGGCCTCGTGTAGAATCTTCTGTATAAGCTTGAAAT
TCTTCGGTACACATACTCGGCCTCTGAATAATAAACAACCATCAATCTCAGTCTGAAATTCTGAA
TCATTACCGGACTCATAATGTGCCCGTTTAGCCTGTAACTTCTCATCATTTTTCTGAGCTTCACA
TATTTGTTGACGT
Found at i:1798177 original size:30 final size:30
Alignment explanation
Indices: 1798142--1798199 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
1798132 CCTCGACTCT
*
1798142 AACTTTTTCAAAATTACGA-TTTTGCCCCTA
1 AACTTTTACAAAATTAC-ATTTTTGCCCCTA
*
1798172 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATTTTTGCCCC
1798200 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTTTTGCCCCTA
Found at i:1800939 original size:18 final size:19
Alignment explanation
Indices: 1800916--1800954 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1800906 TTTAACCCTT
*
1800916 AATCCC-CAAACTCTCTTA
1 AATCCCTCAAACCCTCTTA
*
1800934 AATCCCTCAGACCCTCTTA
1 AATCCCTCAAACCCTCTTA
1800953 AA
1 AA
1800955 CTTTAAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.33, C:0.38, G:0.03, T:0.26
Consensus pattern (19 bp):
AATCCCTCAAACCCTCTTA
Found at i:1808659 original size:25 final size:25
Alignment explanation
Indices: 1808629--1808751 Score: 228
Period size: 25 Copynumber: 4.9 Consensus size: 25
1808619 GGGAGTTTAG
1808629 AGTGCTCTCTGATTACTAGCACGTC
1 AGTGCTCTCTGATTACTAGCACGTC
*
1808654 AATGCTCTCTGATTACTAGCACGTC
1 AGTGCTCTCTGATTACTAGCACGTC
1808679 AGTGCTCTCTGATTACTAGCACGTC
1 AGTGCTCTCTGATTACTAGCACGTC
1808704 AGTGCTCTCTGATTACTAGCACGTC
1 AGTGCTCTCTGATTACTAGCACGTC
*
1808729 AGTGCTCTTTGATTACTAGCACG
1 AGTGCTCTCTGATTACTAGCACG
1808752 CTCTCTATTT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 95 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.33
Consensus pattern (25 bp):
AGTGCTCTCTGATTACTAGCACGTC
Found at i:1808776 original size:22 final size:22
Alignment explanation
Indices: 1808751--1808806 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
1808741 TTACTAGCAC
*
1808751 GCTCTCTATTTAGCACATTT-GT
1 GCTCTCTGTTTAGCAC-TTTAGT
*
1808773 GCTCTCTGTATAGCACTTTAGT
1 GCTCTCTGTTTAGCACTTTAGT
1808795 GCTCTCTGTTTA
1 GCTCTCTGTTTA
1808807 ATAGTGCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (22 bp):
GCTCTCTGTTTAGCACTTTAGT
Found at i:1810114 original size:47 final size:48
Alignment explanation
Indices: 1810063--1810182 Score: 154
Period size: 49 Copynumber: 2.5 Consensus size: 48
1810053 GATTTCCGTA
*
1810063 TAAGACCATAGTTGGGCTATGGCATCGG-TGTGATAAGTG-CTACTTTG
1 TAAGACCATAGTTGGGCTATGGCATCGGATGTGATAAGTGACTAC-ATG
* * * *
1810110 TAAGACCATAGTTGGGCTATGACATCGGTATGTGTTATGTGATTACATG
1 TAAGACCATAGTTGGGCTATGGCATCGG-ATGTGATAAGTGACTACATG
*
1810159 TAAGACCATAGTTGGACTATGGCA
1 TAAGACCATAGTTGGGCTATGGCA
1810183 ATGTGAAAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
47 27 0.43
49 33 0.52
50 3 0.05
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (48 bp):
TAAGACCATAGTTGGGCTATGGCATCGGATGTGATAAGTGACTACATG
Found at i:1816984 original size:9 final size:9
Alignment explanation
Indices: 1816970--1817006 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
1816960 AATACGAAAT
1816970 AATAATAAA
1 AATAATAAA
1816979 AATAATAAA
1 AATAATAAA
* *
1816988 TATAATAGA
1 AATAATAAA
1816997 AATAATAAA
1 AATAATAAA
1817006 A
1 A
1817007 GTAAAGGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
AATAATAAA
Found at i:1816994 original size:18 final size:19
Alignment explanation
Indices: 1816966--1817005 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
1816956 TAATAATACG
1816966 AAATAATAATAAAAATAAT
1 AAATAATAATAAAAATAAT
*
1816985 AAAT-ATAATAGAAATAAT
1 AAATAATAATAAAAATAAT
1817003 AAA
1 AAA
1817006 AGTAAAGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATAATAATAAAAATAAT
Found at i:1825543 original size:60 final size:56
Alignment explanation
Indices: 1825479--1825624 Score: 143
Period size: 60 Copynumber: 2.5 Consensus size: 56
1825469 CGTCAACATG
*
1825479 CCTTTTCATTTTTCGATGGTCGTCACCATCTCTTCTCATAATTTGATAG-CTGAAGCTATC
1 CCTTTTCATATTTCGATGGTCGTCACC-T-T-TTC-CATAATTTGATAGTC-GAAGCTATC
* * * *
1825539 CCTTTTCATAGTTCGATAGCCAAAGTCATCCTTTTCCATAGTTTGATAGTCGAAGCTATC
1 CCTTTTCATATTTCGATGGTC---GTCA-CCTTTTCCATAATTTGATAGTCGAAGCTATC
1825599 CCTTTTCATAGTTT-GATGGTCGTCAC
1 CCTTTTCATA-TTTCGATGGTCGTCAC
1825625 TATCCCTTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
56 1 0.01
57 4 0.06
60 53 0.74
61 6 0.08
62 1 0.01
63 5 0.07
64 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (56 bp):
CCTTTTCATATTTCGATGGTCGTCACCTTTTCCATAATTTGATAGTCGAAGCTATC
Found at i:1825557 original size:30 final size:30
Alignment explanation
Indices: 1825514--1825724 Score: 127
Period size: 30 Copynumber: 7.1 Consensus size: 30
1825504 CCATCTCTTC
* *
1825514 TCATAATTTGATAGCTGAAGCTATCCCTTT
1 TCATAGTTCGATAGCTGAAGCTATCCCTTT
**
1825544 TCATAGTTCGATAGCCAAAG-TCAT-CCTTT
1 TCATAGTTCGATAGCTGAAGCT-ATCCCTTT
*
1825573 TCCATAGTTTGATAG-TCGAAGCTATCCCTTT
1 T-CATAGTTCGATAGCT-GAAGCTATCCCTTT
* * *
1825604 TCATAGTTTGAT-GGTCGTCA-CTATCCCTTT
1 TCATAGTTCGATAGCT-G-AAGCTATCCCTTT
* * * * *
1825634 TCATTGTT-AATGGTCAT-CA-CCATCCCTTT
1 TCATAGTTCGATAG-C-TGAAGCTATCCCTTT
* *
1825663 TCATA-ATCGATAGCGGAAGCTATCCCTTT
1 TCATAGTTCGATAGCTGAAGCTATCCCTTT
* * *
1825692 TCGTA-TTCGATAACTGAAGCTATCCTTTT
1 TCATAGTTCGATAGCTGAAGCTATCCCTTT
1825721 TCAT
1 TCAT
1825725 TTGTCGATGA
Statistics
Matches: 143, Mismatches: 25, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
28 3 0.02
29 64 0.45
30 67 0.47
31 8 0.06
32 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (30 bp):
TCATAGTTCGATAGCTGAAGCTATCCCTTT
Found at i:1825658 original size:29 final size:30
Alignment explanation
Indices: 1825596--1825667 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
1825586 AGTCGAAGCT
* * *
1825596 ATCCCTTTTCATAGTTTGATGGTCGTCACT
1 ATCCCTTTTCATAGTTTAATGGTCATCACC
*
1825626 ATCCCTTTTCATTG-TTAATGGTCATCACC
1 ATCCCTTTTCATAGTTTAATGGTCATCACC
1825655 ATCCCTTTTCATA
1 ATCCCTTTTCATA
1825668 ATCGATAGCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 24 0.65
30 13 0.35
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTTAATGGTCATCACC
Found at i:1825687 original size:29 final size:29
Alignment explanation
Indices: 1825655--1825724 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
1825645 GGTCATCACC
*
1825655 ATCCCTTTTCATAATCGATAGCGGAAGCT
1 ATCCCTTTTCATAATCGATAACGGAAGCT
* * *
1825684 ATCCCTTTTCGTATTCGATAACTGAAGCT
1 ATCCCTTTTCATAATCGATAACGGAAGCT
*
1825713 ATCCTTTTTCAT
1 ATCCCTTTTCAT
1825725 TTGTCGATGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAACGGAAGCT
Found at i:1830061 original size:42 final size:42
Alignment explanation
Indices: 1829961--1830061 Score: 98
Period size: 42 Copynumber: 2.4 Consensus size: 42
1829951 TCTTAAACCG
* * * * *
1829961 TGTAACTCACTGATTTAGGTCACACGGCTGTGTCATAGGCCA
1 TGTAACTCATTGACTTAGGTCACACGGCCGTATCATAGACCA
* * *
1830003 TGTAACTC-TCTAACTTATGTCACACGGCCGTATGC-TAGACTA
1 TGTAACTCAT-TGACTTAGGTCACACGGCCGTAT-CATAGACCA
1830045 TGTAACTCATTGACTTA
1 TGTAACTCATTGACTTA
1830062 ATACACACGG
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
42 45 0.96
43 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (42 bp):
TGTAACTCATTGACTTAGGTCACACGGCCGTATCATAGACCA
Found at i:1831546 original size:27 final size:27
Alignment explanation
Indices: 1831513--1831579 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
1831503 ACGTAAGGCC
* *
1831513 ATAACAGTCATTTCATCTCCTAGGGGT
1 ATAACAGTCATTTCACCTCATAGGGGT
* *
1831540 ATAACAGTCATTTTACCTTATAGGGGT
1 ATAACAGTCATTTCACCTCATAGGGGT
**
1831567 ATTTCAGTCATTT
1 ATAACAGTCATTT
1831580 TATCCTATGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (27 bp):
ATAACAGTCATTTCACCTCATAGGGGT
Found at i:1831640 original size:26 final size:27
Alignment explanation
Indices: 1831535--1831637 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 27
1831525 TCATCTCCTA
** * *
1831535 GGGGTATAACAGTCATTTTACCTTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
*
1831562 GGGGTATTTCAGTCATTTTATCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
1831589 GGGGTATTTTAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
1831616 GGGGTATTTCAATCATTTTACC
1 GGGGTATTTCAGTCATTTTACC
1831638 TATTTTAGGG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:1841452 original size:21 final size:20
Alignment explanation
Indices: 1841428--1841470 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
1841418 GTCTGATGTC
*
1841428 GCGACAACGAAGGTCGGTTTT
1 GCGACAACGAAGG-CAGTTTT
**
1841449 GCGACTTCGAAGGCAGTTTT
1 GCGACAACGAAGGCAGTTTT
1841469 GC
1 GC
1841471 TCCAAGACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (20 bp):
GCGACAACGAAGGCAGTTTT
Found at i:1847064 original size:10 final size:11
Alignment explanation
Indices: 1847032--1847066 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
1847022 ATTTGCAGAC
1847032 AATGAAAGGAA
1 AATGAAAGGAA
1847043 AATGACAAGGAA
1 AATGA-AAGGAA
1847055 AATG-AAGGAA
1 AATGAAAGGAA
1847065 AA
1 AA
1847067 CTTGTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 5 0.22
12 10 0.43
ACGTcount: A:0.63, C:0.03, G:0.26, T:0.09
Consensus pattern (11 bp):
AATGAAAGGAA
Found at i:1855213 original size:9 final size:9
Alignment explanation
Indices: 1855176--1855205 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1855166 AAACTAATAA
*
1855176 ATTATTATT
1 ATTAATATT
1855185 ATTAATATT
1 ATTAATATT
1855194 ATTAATATT
1 ATTAATATT
1855203 ATT
1 ATT
1855206 GTTATTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTAATATT
Found at i:1858851 original size:42 final size:43
Alignment explanation
Indices: 1858785--1858895 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 43
1858775 AAACTCGTAC
* *
1858785 AATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATC-AATAT
1 AATGCCAACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT
*
1858826 CGATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAATAT
1 -AATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAAATAT
* * *
1858869 AATGCCGA-TGTCTCAGACATGGTCTTA
1 AATGCCAACTGTCCCAGACAGGGTCTTA
1858896 TACATAAATC
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 2 0.03
42 50 0.85
43 7 0.12
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
AATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAAATAT
Found at i:1859840 original size:27 final size:27
Alignment explanation
Indices: 1859810--1860013 Score: 196
Period size: 27 Copynumber: 7.5 Consensus size: 27
1859800 ATATTGAGCC
* * *
1859810 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAATCAACT
* *
1859837 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAACT
*
1859864 CGCACACTTAGTGCCACATAGTCAGACT
1 CGCACACTTAGTGCCACATAATCA-ACT
* ** *
1859892 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAACT
* **
1859919 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAACT
* * **
1859946 CGCACACTTAGTGCAACATATTCATTT
1 CGCACACTTAGTGCCACATAATCAACT
* *
1859973 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCCACATAATC-AACT
1860000 CGCACACTTAGTGC
1 CGCACACTTAGTGC
1860014 TGTACAATTT
Statistics
Matches: 155, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 128 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAACT
Found at i:1859975 original size:54 final size:54
Alignment explanation
Indices: 1859810--1860013 Score: 225
Period size: 54 Copynumber: 3.8 Consensus size: 54
1859800 ATATTGAGCC
* * * *
1859810 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAGTCAACTCGCACACTTAGTGCCACATAATCAATT
* **
1859864 CGCACACTTAGTGCCA-CATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTG-CATCATAGTCA-ACTCGCACACTTAGTGCCACATAATCAATT
* ** * * *
1859919 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATATTCATTT
1 CGCACACTTAGTGCATCATAGTCAACTCGCACACTTAGTGCCACATAATCAATT
*
1859973 CGCACACTTAGTGCAACATAGTCGAA-TCGCACACTTAGTGC
1 CGCACACTTAGTGCATCATAGTC-AACTCGCACACTTAGTGC
1860014 TGTACAATTT
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
54 80 0.63
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAGTCAACTCGCACACTTAGTGCCACATAATCAATT
Found at i:1867904 original size:27 final size:27
Alignment explanation
Indices: 1867874--1868073 Score: 188
Period size: 27 Copynumber: 7.4 Consensus size: 27
1867864 ATATTGAGCC
* * *
1867874 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCCACATAATCAACT
* *
1867901 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCCACATAATCAACT
*
1867928 CGCACACTTAGTGCCACATAGTCAGACT
1 CGCACACTTAGTGCCACATAATCA-ACT
* ** *
1867956 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAATCAACT
* **
1867983 CGCACACTTAGTG-CATCATATTCATTT
1 CGCACACTTAGTGCCA-CATAATCAACT
* * **
1868010 CGCACACTTAGTGCAACATATTCATTT
1 CGCACACTTAGTGCCACATAATCAACT
* *
1868037 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCCACATAATC-AACT
1868064 CGCACACTTA
1 CGCACACTTA
1868074 CTGCTGTACA
Statistics
Matches: 151, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.01
27 124 0.82
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCCACATAATCAACT
Found at i:1868039 original size:54 final size:54
Alignment explanation
Indices: 1867874--1868073 Score: 217
Period size: 54 Copynumber: 3.7 Consensus size: 54
1867864 ATATTGAGCC
* * * *
1867874 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAGTCAACTCGCACACTTAGTGCCACATAATCAATT
* **
1867928 CGCACACTTAGTGCCA-CATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTG-CATCATAGTCA-ACTCGCACACTTAGTGCCACATAATCAATT
* ** * * *
1867983 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATATTCATTT
1 CGCACACTTAGTGCATCATAGTCAACTCGCACACTTAGTGCCACATAATCAATT
*
1868037 CGCACACTTAGTGCAACATAGTCGAA-TCGCACACTTA
1 CGCACACTTAGTGCATCATAGTC-AACTCGCACACTTA
1868074 CTGCTGTACA
Statistics
Matches: 123, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
54 76 0.62
55 47 0.38
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAGTCAACTCGCACACTTAGTGCCACATAATCAATT
Found at i:1870735 original size:27 final size:26
Alignment explanation
Indices: 1870680--1870735 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
1870670 TTTTATAATA
** *
1870680 ATAACTTTATAATATAATAAATTATT
1 ATAACTTTATAATATAATAAAAAACT
1870706 ATAACCTTTATAA-ATAATATAAAAACT
1 ATAA-CTTTATAATATAATA-AAAAACT
1870733 ATA
1 ATA
1870736 TATTATAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAACTTTATAATATAATAAAAAACT
Found at i:1871662 original size:31 final size:30
Alignment explanation
Indices: 1871596--1871663 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
1871586 TTGCCCAAGA
** ***
1871596 GTAAATACTCAAAATTTGAAGGGTTAAAGT
1 GTAAATACAAAAAATTTGAAGGACCAAAGT
1871626 GTAAATACAAAAAATTTGAAGGACCAAAGGT
1 GTAAATACAAAAAATTTGAAGGACCAAA-GT
1871657 GTAAATA
1 GTAAATA
1871664 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.25
Consensus pattern (30 bp):
GTAAATACAAAAAATTTGAAGGACCAAAGT
Done.