Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 212 of 276
Found at i:70443937 original size:118 final size:119
Alignment explanation
Indices: 70443742--70444022 Score: 442
Period size: 118 Copynumber: 2.4 Consensus size: 119
70443732 TCGGCTTTAA
* * * **
70443742 CCGGATATAGCCAA-TCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAAT
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC-GAAATAGTAACTCGCACAAAT
70443806 GCCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
64 GCCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70443862 CCGGA-ATTAGTAACTCGCACAAATGCCTTCCGAACTTAGCCC-AAATAGTAACTCGCACAAATG
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATAGTAACTCGCACAAATG
70443925 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
65 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
70443980 TCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
70444023 GTTATCATCC
Statistics
Matches: 147, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
118 110 0.75
119 4 0.03
120 33 0.22
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (119 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATAGTAACTCGCACAAATGC
CTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:70450589 original size:40 final size:40
Alignment explanation
Indices: 70450542--70450825 Score: 367
Period size: 40 Copynumber: 7.1 Consensus size: 40
70450532 TCGGCTTTAA
** *
70450542 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* **
70450582 TCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
70450622 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70450662 CCAGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70450702 CC-GAAATTAGTAACTCGCACAAATGCCTTTGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * * *
70450742 CCGGA-ATTCGTCACTAGCATAAATGCCTTCTGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
70450782 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
70450822 CCGG
1 CCGG
70450826 TTATCATCCG
Statistics
Matches: 221, Mismatches: 21, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
39 3 0.01
40 216 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:70453398 original size:110 final size:110
Alignment explanation
Indices: 70453205--70453424 Score: 395
Period size: 110 Copynumber: 2.0 Consensus size: 110
70453195 CATGGTTGAA
*
70453205 TATTCATAACTCAAAAACATATCTTAATATAACTAGACTATACATGCCACACTTAAATATTTACA
1 TATTCATAACTCAAAAACATATCTCAATATAACTAGACTATACATGCCACACTTAAATATTTACA
*
70453270 CTTTCAAAAGGTACCAAAATTAAGTTTGATAGTGTGGTGATGATC
66 CTTTCAAAAGGTACCAAAATTAAGTTTGATAGTGTCGTGATGATC
* * *
70453315 TATTCATAACTCAAAAACATATCTCAATATAACTTGATTATACATGCCATACTTAAATATTTACA
1 TATTCATAACTCAAAAACATATCTCAATATAACTAGACTATACATGCCACACTTAAATATTTACA
70453380 CTTTCAAAAGGTACCAAAATTAAGTTTGATAGTGTCGTGATGATC
66 CTTTCAAAAGGTACCAAAATTAAGTTTGATAGTGTCGTGATGATC
70453425 CTCGACAATA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 105 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (110 bp):
TATTCATAACTCAAAAACATATCTCAATATAACTAGACTATACATGCCACACTTAAATATTTACA
CTTTCAAAAGGTACCAAAATTAAGTTTGATAGTGTCGTGATGATC
Found at i:70453891 original size:60 final size:60
Alignment explanation
Indices: 70453822--70453942 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
70453812 CATACAAAGT
70453822 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
1 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
* *
70453882 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTTTCATTTTAAGCATATAAGC
1 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
70453942 A
1 A
70453943 TCATAAAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (60 bp):
AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
Found at i:70457905 original size:20 final size:20
Alignment explanation
Indices: 70457872--70457966 Score: 124
Period size: 20 Copynumber: 4.8 Consensus size: 20
70457862 ATACATGGGA
70457872 TATGATAT--ACATGAT-TGG
1 TATGATATGCACATGATAT-G
70457890 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
70457910 TATAAAATGCACATGATATG
1 TATGATATGCACATGATATG
70457930 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
70457950 TATGAAATGCACGTGAT
1 TATGATATGCACATGAT
70457967 GTATTCATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
18 8 0.12
20 59 0.87
21 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:70457907 original size:11 final size:11
Alignment explanation
Indices: 70457891--70457949 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 11
70457881 CATGATTGGT
70457891 ATGATATGCAC
1 ATGATATGCAC
*
70457902 ATGATATG--T
1 ATGATATGCAC
* *
70457911 ATAAAATGCAC
1 ATGATATGCAC
*
70457922 ATGATATG--T
1 ATGATATGCAC
70457931 ATGATATGCAC
1 ATGATATGCAC
70457942 ATGATATG
1 ATGATATG
70457950 TATGAAATGC
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
9 14 0.39
11 22 0.61
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:70457924 original size:40 final size:40
Alignment explanation
Indices: 70457880--70457966 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
70457870 GATATGATAT
70457880 ACATGAT-TGGTATGATATGCACATGATATGTATAAAATGC
1 ACATGATAT-GTATGATATGCACATGATATGTATAAAATGC
*
70457920 ACATGATATGTATGATATGCACATGATATGTATGAAATGC
1 ACATGATATGTATGATATGCACATGATATGTATAAAATGC
*
70457960 ACGTGAT
1 ACATGAT
70457967 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGATATGTATAAAATGC
Found at i:70458046 original size:26 final size:25
Alignment explanation
Indices: 70458015--70458087 Score: 110
Period size: 26 Copynumber: 2.9 Consensus size: 25
70458005 GGAGGAAGTG
70458015 CAAAAGGGCTTATGCCCCAGTTTAC
1 CAAAAGGGCTTATGCCCCAGTTTAC
70458040 CAAAAAGGGCTTATGCCCCAGTTTAC
1 C-AAAAGGGCTTATGCCCCAGTTTAC
* * *
70458066 CGAAAGGGATTTTGCCCCAGTT
1 CAAAAGGGCTTATGCCCCAGTT
70458088 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 19 0.43
26 25 0.57
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
CAAAAGGGCTTATGCCCCAGTTTAC
Found at i:70466402 original size:46 final size:48
Alignment explanation
Indices: 70466284--70466452 Score: 225
Period size: 48 Copynumber: 3.6 Consensus size: 48
70466274 TGATATGTGT
* **
70466284 GCTAGTGTAAGACATGTCTGGGACATGCATCTGCCTCAAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAA
* * * ** *
70466332 GCCAGTGTAAGACATGTCTGGGACATGCATCAACATTGAGA-CGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAA
*
70466378 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAA
*
70466426 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
70466453 GCGTCAACTT
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
46 38 0.37
47 2 0.02
48 62 0.61
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAA
Found at i:70466445 original size:94 final size:93
Alignment explanation
Indices: 70466284--70466550 Score: 301
Period size: 94 Copynumber: 2.9 Consensus size: 93
70466274 TGATATGTGT
* ** * *
70466284 GCTAGTGTAAGACATGTCTGGGACATGCATCTGCCTCAAGATATACAAGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCTGT
70466349 CTGGGACAT-GCATCAACATTG-AGACGAG
66 CTGGGACATGGCATCAAC-TTGTAGAC-AG
70466377 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCTG
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCTG
* * * *
70466442 TCTGGGACATGGCGTCAACTTGTTGTCTG
65 TCTGGGACATGGCATCAACTTGTAGACAG
* * * * * * *
70466471 TC-AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGA-GAGCCT-GTGTAAGACC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGATAT-ACAAG-CTAGTGTAAGACC
70466533 TGTCTGGGACATGGCATC
63 TGTCTGGGACATGGCATC
70466551 GGCCTTGATA
Statistics
Matches: 151, Mismatches: 17, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
92 21 0.14
93 45 0.30
94 76 0.50
95 9 0.06
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCTGT
CTGGGACATGGCATCAACTTGTAGACAG
Found at i:70466532 original size:49 final size:48
Alignment explanation
Indices: 70466335--70466604 Score: 184
Period size: 49 Copynumber: 5.7 Consensus size: 48
70466325 TATACAAGCC
* * ** * *
70466335 AGTGTAAGACATGTCTGGGACAT-GCATCAACATTG--AGACGAGAGCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAAAG-T
* * * * *
70466381 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGA-AAG-T
* * ** ***
70466429 AGTGTAAGACCTGTCTGGGACATGGCGTCAAC-TTG-T---TGTCTGT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAAAGT
*
70466472 CAGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAGAGCCT
1 -AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAAAG--T
* * *
70466523 -GTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGATATATGAAAGT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAAAGT
* *
70466570 AGTGTAAGACCATGTTTAGGACATGGCGTCGGCAT
1 AGTGTAAGACC-TGTCTAGGACATGGCATCGGCAT
70466605 CTTATCCTAT
Statistics
Matches: 180, Mismatches: 29, Indels: 27
0.76 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 30 0.17
45 3 0.02
46 33 0.18
47 2 0.01
48 41 0.23
49 69 0.38
51 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAAAGT
Found at i:70466579 original size:141 final size:139
Alignment explanation
Indices: 70466334--70466599 Score: 369
Period size: 141 Copynumber: 1.9 Consensus size: 139
70466324 ATATACAAGC
*
70466334 CAGTGTAAGACATGTCTGGGACATGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTGG
1 CAGTGTAAGACATGTCTAGGACATGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTGG
*
70466399 GACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACC-TGTCTGGGACATGGCGTCAACTT
66 GACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCAACTT
70466463 GTTGTCTGT
131 GTTGTCTGT
* ** * *
70466472 CAGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAGAGCCT-GTGTAAGACCTGT
1 CAGTGTAAGACATGTCTAGGACAT-GCATCAACATTG--AGACGAGAG-CTAGTGTAAGACATGT
* *
70466536 CTGGGACATGGCATCGGCCTTGATATATGA-AAG-TAGTGTAAGACCATGTTTAGGACATGGCGT
62 CTGGGACAT-GCATCGGCCTTGAGATAT-ACAAGCTAGTGTAAGACCATGTCTAGGACATGGCGT
70466599 C
125 C
70466600 GGCATCTTAT
Statistics
Matches: 112, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
138 22 0.20
139 10 0.09
141 41 0.37
142 38 0.34
143 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (139 bp):
CAGTGTAAGACATGTCTAGGACATGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTGG
GACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCAACTT
GTTGTCTGT
Found at i:70467585 original size:30 final size:30
Alignment explanation
Indices: 70467549--70467608 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
70467539 GACCGTGACT
70467549 CGAGAAAACAACTTGACCTGAACATAGGTA
1 CGAGAAAACAACTTGACCTGAACATAGGTA
*
70467579 CGAGAAAACAACTTGATCTGAACATAGGTA
1 CGAGAAAACAACTTGACCTGAACATAGGTA
70467609 AAAAGGCAAT
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:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (30 bp):
CGAGAAAACAACTTGACCTGAACATAGGTA
Found at i:70470175 original size:28 final size:28
Alignment explanation
Indices: 70470112--70470262 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
70470102 ATATTAAGTC
*
70470112 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
70470139 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
70470167 CGCACACTTACTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
70470195 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
70470223 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
70470252 CGCACACTTAG
1 CGCACACTTAG
70470263 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 22 0.20
28 74 0.67
29 15 0.14
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:70493167 original size:29 final size:29
Alignment explanation
Indices: 70493108--70493181 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
70493098 GTTGTGAGAT
* *
70493108 TGGCACTAGGTGTGCGAACTTGAAATGCA
1 TGGCACTAAGTGTGCGAACTTGAAATACA
* *
70493137 TGGCACTAAGTGTGCG-AGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAACTTGAAA-TACA
*
70493166 TGGAACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
70493182 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.15
29 33 0.85
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTGAAATACA
Found at i:70498681 original size:22 final size:23
Alignment explanation
Indices: 70498653--70498699 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
70498643 TCCAAGGTTC
70498653 AAATTGTGTAGTGAAACAA-AGA
1 AAATTGTGTAGTGAAACAATAGA
*
70498675 AAATTGTGTAGTGAAAGAATAGA
1 AAATTGTGTAGTGAAACAATAGA
70498698 AA
1 AA
70498700 TCAGCACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.23, T:0.23
Consensus pattern (23 bp):
AAATTGTGTAGTGAAACAATAGA
Found at i:70499860 original size:29 final size:29
Alignment explanation
Indices: 70499744--70499860 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
70499734 TGAATATAAG
* * *
70499744 GTGATTTAGGCCTAACGGGCCATATAAAG
1 GTGAATTAGGCCTAATGGGCCATATAAAT
* * * *
70499773 GTTATTTGGGCCTAATGGGCCATATGAAT
1 GTGAATTAGGCCTAATGGGCCATATAAAT
* *
70499802 AG-GAATTAGGCCCAATGGGCCATATGAAT
1 -GTGAATTAGGCCTAATGGGCCATATAAAT
* *
70499831 GTGAATTCGGCCTGATGGGCCATATAAAT
1 GTGAATTAGGCCTAATGGGCCATATAAAT
70499860 G
1 G
70499861 AGATTGGGCC
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 71 0.97
30 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (29 bp):
GTGAATTAGGCCTAATGGGCCATATAAAT
Found at i:70514734 original size:40 final size:39
Alignment explanation
Indices: 70514679--70514757 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 39
70514669 CTGTTCTAAA
70514679 CTCATAGGAGTTTCCTATTTGGCCCAGACAAGCGTCGTG
1 CTCATAGGAGTTTCCTATTTGGCCCAGACAAGCGTCGTG
70514718 NCTCATAGGAGTTTCCTATTTGGCCCAGACAAGCGTCGTG
1 -CTCATAGGAGTTTCCTATTTGGCCCAGACAAGCGTCGTG
70514758 TTACATGGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.28
Consensus pattern (39 bp):
CTCATAGGAGTTTCCTATTTGGCCCAGACAAGCGTCGTG
Found at i:70517446 original size:4 final size:4
Alignment explanation
Indices: 70517430--70517463 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
70517420 ACAAATGATC
* *
70517430 GAAT GAGT GAAT GAAT GGAT GAAT GAAT GAAT GA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GA
70517464 TTGATTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:70517920 original size:15 final size:14
Alignment explanation
Indices: 70517900--70517931 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
70517890 TCTTTTGTGA
70517900 CCTCTTTGTTTTGCT
1 CCTCTTTGTTTTG-T
70517915 CCTCTTTGTTTTGT
1 CCTCTTTGTTTTGT
70517929 CCT
1 CCT
70517932 TAATTCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.00, C:0.28, G:0.12, T:0.59
Consensus pattern (14 bp):
CCTCTTTGTTTTGT
Found at i:70525670 original size:19 final size:19
Alignment explanation
Indices: 70525643--70525686 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
70525633 AAAATAGGTT
* *
70525643 GATGCAGCTGAGCGAACTA
1 GATGAAGCTGAACGAACTA
70525662 GATGAAGCTGAACGAACTA
1 GATGAAGCTGAACGAACTA
70525681 GATGAA
1 GATGAA
70525687 TGGCGAGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.39, C:0.16, G:0.30, T:0.16
Consensus pattern (19 bp):
GATGAAGCTGAACGAACTA
Found at i:70527712 original size:29 final size:28
Alignment explanation
Indices: 70527678--70527751 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
70527668 TAATCAACCA
*
70527678 CGCACACTTAGTGCCATGTACTTT-AAAC
1 CGCACACTTAGTGCCATGCA-TTTCAAAC
*
70527706 TCGCACACTTAGTGCCATGCATTTCAAGC
1 -CGCACACTTAGTGCCATGCATTTCAAAC
70527735 CAGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
70527752 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGCATTTCAAAC
Found at i:70534074 original size:21 final size:21
Alignment explanation
Indices: 70534050--70534093 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
70534040 TCTATATGTT
70534050 AAAGGTGTTAAATAGTTATGG
1 AAAGGTGTTAAATAGTTATGG
70534071 AAAGGTGTTAAATAGTTATGG
1 AAAGGTGTTAAATAGTTATGG
70534092 AA
1 AA
70534094 CCTTAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (21 bp):
AAAGGTGTTAAATAGTTATGG
Found at i:70535152 original size:29 final size:29
Alignment explanation
Indices: 70535119--70535200 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
70535109 GAGTTATACC
*
70535119 GATTTGGCTTTGGGCCATGCATATCGGCT
1 GATTTGGCTTTAGGCCATGCATATCGGCT
* *
70535148 GATTTGGCTTCAGGCCATGCATATCTGCT
1 GATTTGGCTTTAGGCCATGCATATCGGCT
*
70535177 AATTTGGCTTTAGGCCATG-ATATC
1 GATTTGGCTTTAGGCCATGCATATC
70535201 ATTATTTTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 5 0.10
29 43 0.90
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (29 bp):
GATTTGGCTTTAGGCCATGCATATCGGCT
Found at i:70542464 original size:27 final size:27
Alignment explanation
Indices: 70542236--70542468 Score: 313
Period size: 27 Copynumber: 8.6 Consensus size: 27
70542226 TTAGTTTACC
* *
70542236 AAATTATCAAAATAACCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
70542263 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
70542290 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
70542317 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
70542344 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
70542371 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
70542398 AAATTACCAGAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
70542425 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
70542452 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
70542469 TTGTAGGGTA
Statistics
Matches: 178, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 178 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:70542483 original size:27 final size:27
Alignment explanation
Indices: 70542453--70542647 Score: 250
Period size: 27 Copynumber: 7.2 Consensus size: 27
70542443 TGATTTGTGA
*
70542453 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
70542480 AATTA-TCAAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
70542507 AATTACTTG-AATAACCGTGTAGGGTAG
1 AATTAC-TGAAATACCCCTGTAGGGTAG
* *
70542534 AGTTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
70542561 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
70542588 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
70542615 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
70542642 AATTAC
1 AATTAC
70542648 CATTTTACCC
Statistics
Matches: 147, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.01
27 144 0.98
29 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:70542484 original size:54 final size:54
Alignment explanation
Indices: 70542426--70542649 Score: 267
Period size: 54 Copynumber: 4.1 Consensus size: 54
70542416 TGGTTTGTAA
**
70542426 AATTACCAAAATACCCCTG-ATTTGT-GAAATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTA-GGGTAG-AATTACTGAAATACCCTTGTAGGGTAG
* * *
70542480 AATTATCAAAATACCCCTGTAGGGTAGAATTACTTG-AATAACCGTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTAC-TGAAATACCCTTGTAGGGTAG
* * *
70542534 AGTTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACTCC-TGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATAC-CCTTGTAGGGTAG
** * * *
70542588 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAGATACCCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
70542642 AATTACCA
1 AATTACCA
70542650 TTTTACCCCT
Statistics
Matches: 146, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
53 3 0.02
54 137 0.94
55 6 0.04
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
Found at i:70542493 original size:81 final size:81
Alignment explanation
Indices: 70542236--70542495 Score: 319
Period size: 81 Copynumber: 3.2 Consensus size: 81
70542226 TTAGTTTACC
* * * *
70542236 AAATTATCAAAATAACCC-TGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAA
1 AAATTATCAAAAT-ACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
70542300 AATACCCCTAGTTTGTA
65 AATACCCCTAGTTTGTA
* *
70542317 AAATTA-CTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AAATTATC-AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
*
70542381 AATACCCCTGGTTTGTA
65 AATACCCCTAGTTTGTA
* * * * **
70542398 AAATTACCAGAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAA
1 AAATTATCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
* **
70542463 ATA-CCCTTGTAGGGTA
66 ATACCCCTAGT-TTGTA
*
70542479 GAATTATCAAAATACCC
1 AAATTATCAAAATACCC
70542496 CTGTAGGGTA
Statistics
Matches: 155, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
80 11 0.07
81 143 0.92
82 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (81 bp):
AAATTATCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
ATACCCCTAGTTTGTA
Found at i:70544288 original size:48 final size:48
Alignment explanation
Indices: 70544217--70544608 Score: 613
Period size: 48 Copynumber: 8.0 Consensus size: 48
70544207 AGATAAATAT
* *
70544217 ATATGTATATCTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
70544265 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
70544313 ATATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
70544363 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATGAG
*
70544413 ATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
70544461 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATGAG
* *
70544511 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* * * *
70544559 ATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
70544607 AT
1 AT
70544609 CTGTGTATAT
Statistics
Matches: 326, Mismatches: 12, Indels: 12
0.93 0.03 0.03
Matches are distributed among these distances:
48 182 0.56
49 8 0.02
50 136 0.42
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
Found at i:70544618 original size:98 final size:98
Alignment explanation
Indices: 70544217--70544599 Score: 642
Period size: 98 Copynumber: 3.9 Consensus size: 98
70544207 AGATAAATAT
* *
70544217 ATATGTATATCTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
* * *
70544282 AGCCGAATGGCTAATGTGAAACATGTATGA-GAT
66 AGCCGAATGGCTAATGTGAAATATATAT-ATGAG
*
70544315 ATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
70544380 AGCCGAATGGCTAATGTGAAATATATATATGAG
66 AGCCGAATGGCTAATGTGAAATATATATATGAG
*
70544413 ATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
*
70544478 AGCCGAATGGCTAGTGTGAAATATATATATGAG
66 AGCCGAATGGCTAATGTGAAATATATATATGAG
* *
70544511 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
* *
70544576 AGCTGAATGGCTAGTGTGAAATAT
66 AGCCGAATGGCTAATGTGAAATAT
70544600 GTAGGAGATC
Statistics
Matches: 273, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
97 1 0.00
98 272 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (98 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATATATATGAG
Found at i:70544803 original size:37 final size:37
Alignment explanation
Indices: 70544753--70544851 Score: 171
Period size: 37 Copynumber: 2.7 Consensus size: 37
70544743 ATATATTCCA
*
70544753 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGCCCG
*
70544790 GGTAAGACCCGATGACTACGTGTGGAGATTTTGCCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGCCCG
*
70544827 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
70544852 GGACTATTCG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.23
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGCCCG
Found at i:70545864 original size:22 final size:22
Alignment explanation
Indices: 70545831--70545889 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
70545821 CACGTTATCG
70545831 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
70545853 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
*
70545875 ATGGCTTCATGCCAA
1 ATGGCTTCGTGCCAA
70545890 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:70546077 original size:27 final size:27
Alignment explanation
Indices: 70546047--70546111 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
70546037 ATTCTATTAA
* *
70546047 GTGGCTTTGCCAC-ATTATCTGATTCTG
1 GTGGCTTTGCCACAAATATCT-ATACTG
*
70546074 GTGGCTATGCCACAAATATCTATACTG
1 GTGGCTTTGCCACAAATATCTATACTG
*
70546101 GAGGCTTTGCC
1 GTGGCTTTGCC
70546112 TCAACTTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 26 0.81
28 6 0.19
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
GTGGCTTTGCCACAAATATCTATACTG
Found at i:70546292 original size:6 final size:6
Alignment explanation
Indices: 70546278--70546361 Score: 64
Period size: 6 Copynumber: 13.7 Consensus size: 6
70546268 TTCTGTTACT
* * *
70546278 TGATGC TGATTC TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC
* * *
70546327 TGATTC TG-TCACC TAATTC TGATTC TTATTC TGAT
1 TGATTC TGAT--TC TGATTC TGATTC TGATTC TGAT
70546362 AATGTTTCTT
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
5 3 0.05
6 51 0.84
7 5 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:70546305 original size:31 final size:31
Alignment explanation
Indices: 70546262--70546361 Score: 119
Period size: 31 Copynumber: 3.2 Consensus size: 31
70546252 ACATTCTAAT
* * *
70546262 TTTTTATTCTGTTACTTGATGCTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
70546293 TTTTGATTCTGTTACCTGATACTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
* * * * *
70546324 TTCTGATTCTGTCACCTAATTCTGATTCTTA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
*
70546355 TTCTGAT
1 TTTTGAT
70546362 AATGTTTCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.18, C:0.17, G:0.14, T:0.51
Consensus pattern (31 bp):
TTTTGATTCTGTTACCTGATACTGATTCTGA
Found at i:70549893 original size:27 final size:28
Alignment explanation
Indices: 70549809--70549906 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
70549799 CATGAGATTG
* * * *
70549809 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
70549838 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
70549866 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
70549893 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
70549907 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:70549917 original size:27 final size:27
Alignment explanation
Indices: 70549837--70549919 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
70549827 TAAATTGTAC
* *
70549837 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
70549865 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
70549892 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
70549919 A
1 A
70549920 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:70549920 original size:29 final size:27
Alignment explanation
Indices: 70549809--70549920 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
70549799 CATGAGATTG
** * *
70549809 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
70549838 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
70549866 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
70549893 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
70549921 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:70550587 original size:50 final size:50
Alignment explanation
Indices: 70550530--70550630 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
70550520 AAATTTGGTA
*
70550530 TGTAAACTTTTTGCCATGCGAAAATGGCATAAATGTTCGGTTGGATTTGG
1 TGTAAACTTTTAGCCATGCGAAAATGGCATAAATGTTCGGTTGGATTTGG
70550580 TGTAAACTTTTAGCCATGCGAAAATGGCATAAATGTTCGGTTGGATTTGG
1 TGTAAACTTTTAGCCATGCGAAAATGGCATAAATGTTCGGTTGGATTTGG
70550630 T
1 T
70550631 TCTATAATGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.36
Consensus pattern (50 bp):
TGTAAACTTTTAGCCATGCGAAAATGGCATAAATGTTCGGTTGGATTTGG
Found at i:70552352 original size:36 final size:36
Alignment explanation
Indices: 70552305--70552376 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
70552295 TGAAATGTAG
70552305 AATTTTTAATATGTTATGGCCGAAAATGATTAAATT
1 AATTTTTAATATGTTATGGCCGAAAATGATTAAATT
*
70552341 AATTTTTAATATGTTATGGCCGAAAGTGATTAAATT
1 AATTTTTAATATGTTATGGCCGAAAATGATTAAATT
70552377 TGACTACTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (36 bp):
AATTTTTAATATGTTATGGCCGAAAATGATTAAATT
Found at i:70554847 original size:11 final size:11
Alignment explanation
Indices: 70554831--70554855 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
70554821 AACCCTAGCT
70554831 TTTATTCTTTC
1 TTTATTCTTTC
70554842 TTTATTCTTTC
1 TTTATTCTTTC
70554853 TTT
1 TTT
70554856 TCTTAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTCTTTC
Found at i:70561317 original size:49 final size:49
Alignment explanation
Indices: 70561096--70561563 Score: 629
Period size: 47 Copynumber: 9.6 Consensus size: 49
70561086 CCCTTCGGGA
* * * * *
70561096 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
70561142 CTCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
70561190 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
70561237 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70561284 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
70561333 CTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70561380 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
70561431 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG------C
*
70561486 ACATATATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 -C-T-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70561538 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
70561564 CACAATTATC
Statistics
Matches: 385, Mismatches: 18, Indels: 37
0.88 0.04 0.08
Matches are distributed among these distances:
46 3 0.01
47 174 0.45
48 2 0.01
49 118 0.31
50 1 0.00
51 39 0.10
52 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
58 44 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:70561330 original size:96 final size:96
Alignment explanation
Indices: 70561096--70561563 Score: 649
Period size: 96 Copynumber: 4.8 Consensus size: 96
70561086 CCCTTCGGGA
* * * * * *
70561096 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATA
70561158 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
* *
70561190 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
70561253 ACTTTCACATTCATCACATCGGCCATTTGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
70561284 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
70561349 ACTTTCACATTCATCACATCGGCCATTAGAC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
70561380 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTAT
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA--TAT
70561445 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
62 ATACACTTTCACATTCATCACATCGGCCATTAGG------C
*
70561486 ACATATATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 -C-T-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
* *
70561551 TATACATTCACAT
63 TACACTTTCACAT
70561564 CACAATTATC
Statistics
Matches: 337, Mismatches: 19, Indels: 25
0.88 0.05 0.07
Matches are distributed among these distances:
93 1 0.00
94 86 0.26
95 2 0.01
96 90 0.27
98 50 0.15
100 35 0.10
105 15 0.04
106 1 0.00
107 50 0.15
108 1 0.00
109 6 0.02
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:70561495 original size:58 final size:58
Alignment explanation
Indices: 70561433--70561551 Score: 220
Period size: 58 Copynumber: 2.1 Consensus size: 58
70561423 CATTAGGCCT
*
70561433 TATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
70561491 TATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
70561549 TAT
1 TAT
70561552 ATACATTCAC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (58 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
Found at i:70561496 original size:31 final size:31
Alignment explanation
Indices: 70561453--70561547 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 31
70561443 ATATACACTT
70561453 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
** * *
70561484 TCACATAT-ATCACAT-----ATATATACATTT
1 TCACAT-TCATCACATCGGCCAT-TAGGCCTTA
70561511 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
70561542 TCACAT
1 TCACAT
70561548 ATATATACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
26 3 0.06
27 18 0.38
31 24 0.50
32 3 0.06
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (31 bp):
TCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:70565943 original size:29 final size:29
Alignment explanation
Indices: 70565885--70566000 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
70565875 TACCTGTATC
* * *
70565885 TGGCCCACCAGACCC-AATCACATTTGTA
1 TGGCCCATCAGGCCCAAATCACATTTATA
* * * * **
70565913 TGGCCCGTTAGGCCTAATTTGCATTTATA
1 TGGCCCATCAGGCCCAAATCACATTTATA
70565942 TGGCCCATCAGGCCCAAATCACATTTATA
1 TGGCCCATCAGGCCCAAATCACATTTATA
* * *
70565971 TGGCCCATCAGACCCAAATCATATTCATA
1 TGGCCCATCAGGCCCAAATCACATTTATA
70566000 T
1 T
70566001 TCATGCTCGC
Statistics
Matches: 69, Mismatches: 18, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
28 10 0.14
29 59 0.86
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATCAGGCCCAAATCACATTTATA
Found at i:70571244 original size:30 final size:30
Alignment explanation
Indices: 70571209--70571276 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
70571199 ACAGTCTGCG
* * *
70571209 ACACAGGCGTCTGAGGCTATTACGAATGGC
1 ACACAGGCCTCTGAGGCCATTACGAAGGGC
70571239 ACACAGGCCTCTGAGGCCATTACGAAGGGC
1 ACACAGGCCTCTGAGGCCATTACGAAGGGC
70571269 ACACAGGC
1 ACACAGGC
70571277 TGGTCACACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.29, T:0.15
Consensus pattern (30 bp):
ACACAGGCCTCTGAGGCCATTACGAAGGGC
Found at i:70572579 original size:20 final size:20
Alignment explanation
Indices: 70572554--70572598 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
70572544 TTATGCTAAA
*
70572554 TAAATGAAATGGAAAGTAAG
1 TAAATGAAATGGAAAGAAAG
*
70572574 TAAATGAAATGGTAAGAAAG
1 TAAATGAAATGGAAAGAAAG
70572594 TAAAT
1 TAAAT
70572599 AGAATAGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (20 bp):
TAAATGAAATGGAAAGAAAG
Found at i:70574246 original size:21 final size:21
Alignment explanation
Indices: 70574222--70574264 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
70574212 AATATTTCAC
*
70574222 TTTTT-TCATTCTCTTCCTCT
1 TTTTTCTCATTCTCTTCATCT
* *
70574242 TTTTTCTCCTTTTCTTCATCT
1 TTTTTCTCATTCTCTTCATCT
70574263 TT
1 TT
70574265 CCGGCACTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTCTCATTCTCTTCATCT
Found at i:70577479 original size:23 final size:23
Alignment explanation
Indices: 70577435--70577481 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
70577425 AAAACTTTAA
* *
70577435 TTTTTAAGAAAAATAGTGATTTT
1 TTTTTAAGAAAAAAAGAGATTTT
*
70577458 TTTTTAA-AAAAAAAGAGAATTT
1 TTTTTAAGAAAAAAAGAGATTTT
70577480 TT
1 TT
70577482 ATATTTGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (23 bp):
TTTTTAAGAAAAAAAGAGATTTT
Found at i:70577513 original size:152 final size:151
Alignment explanation
Indices: 70577316--70577621 Score: 402
Period size: 152 Copynumber: 2.0 Consensus size: 151
70577306 TTTTTGTTTT
* *
70577316 AAAAGAGAAAGTTTAGATTTTCAAAATAAAAATCTATTTTCTAGTCATTTTAAAGGAAAAGTTTA
1 AAAAGAGAAAGTTTAGATTTTAAAAATAAAAATATATTTTCTAGTCATTTTAAAGGAAAAGTTTA
* * *
70577381 AATTTTTAAAATAAATTTTTGAACTTTTTCAACT-ATTTCAAAACAAAACTTTAATTTTTAAGAA
66 AATTTTGAAAACAAAGTTTTGAACTTTTTCAACTAATTT-AAAACAAAACTTTAATTTTTAAGAA
*
70577445 AA-ATAGTGATTTTTTTTTAAAAA
130 AAGA-AGTGA-TTGTTTTTAAAAA
** * * *
70577468 AAAAGAGAATTTTTATATTTGTAAAAATAAAAATAT-TTTTTTAGTCATTTTAAAGGAAAATTTT
1 AAAAGAGAAAGTTTAGATTT-TAAAAATAAAAATATATTTTCTAGTCATTTTAAAGGAAAAGTTT
* * ** *
70577532 AAATTTTGAAAACAAAGTTTTGATCTTTTTCAACTAATTTGAAATGAAGCTTTAATTTTTAAGAA
65 AAATTTTGAAAACAAAGTTTTGAACTTTTTCAACTAATTTAAAACAAAACTTTAATTTTTAAGAA
*
70577597 AAGAAGTGATTGTTTTTAAGAA
130 AAGAAGTGATTGTTTTTAAAAA
70577619 AAA
1 AAA
70577622 TTTAATTTTG
Statistics
Matches: 134, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
151 14 0.10
152 102 0.76
153 18 0.13
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (151 bp):
AAAAGAGAAAGTTTAGATTTTAAAAATAAAAATATATTTTCTAGTCATTTTAAAGGAAAAGTTTA
AATTTTGAAAACAAAGTTTTGAACTTTTTCAACTAATTTAAAACAAAACTTTAATTTTTAAGAAA
AGAAGTGATTGTTTTTAAAAA
Found at i:70581669 original size:48 final size:48
Alignment explanation
Indices: 70581608--70581844 Score: 228
Period size: 48 Copynumber: 4.9 Consensus size: 48
70581598 AGGGTAAATT
* * * *
70581608 GCCGATGCTATGTCCTAGACATGGTCTTACATTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * *
70581656 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAG
* * *
70581704 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATCGAG
* * * * *
70581752 GCCAATGTCATGTCCCAGAAATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAG
** * * * * *
70581800 GTTGATGCCATGTTCCAAACATGTTCTTACACTAGCACACATATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
70581845 ACCCAAATGT
Statistics
Matches: 151, Mismatches: 32, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
47 5 0.03
48 142 0.94
49 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
Found at i:70581776 original size:96 final size:95
Alignment explanation
Indices: 70581608--70581845 Score: 298
Period size: 96 Copynumber: 2.5 Consensus size: 95
70581598 AGGGTAAATT
* * * * * * * *
70581608 GCCGATGCTATGTCCTAGACATGGTCTTACATTGGCTCACATGTCGAGGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TCACATATCAACGCCAATGCCATGTCCCA
70581673 AACATGGTCTTACACTGGCTCTCATAATGTG
65 AACATGGTCTTACACTGGCTCTCATAATGTG
*
70581704 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAACGCCAATGTCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGT-CACATATCAACGCCAATGCCATGTCCCA
70581769 GAA-ATGGTCTTACACTGGCTCTCATAATGTG
65 -AACATGGTCTTACACTGGCTCTCATAATGTG
** * * * *
70581800 GTTGATGCCATGTTCCAAACATGTTCTTACACTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TCACATATCA
70581846 CCCAAATGTC
Statistics
Matches: 124, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
95 1 0.01
96 121 0.98
97 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCACATATCAACGCCAATGCCATGTCCCAA
ACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:70582340 original size:70 final size:70
Alignment explanation
Indices: 70582227--70582371 Score: 236
Period size: 70 Copynumber: 2.1 Consensus size: 70
70582217 ATCTTCCTTG
* *
70582227 AATTAGCTAAACACCATGAATTTGTACTAATTTGGACAGCCAATAATTTACAATATTACAGTAGC
1 AATTAGCTAAACACCATGAATTTGTACTAATTTGGACAGCCAATAATTTACAATATAACAGCAGC
70582292 ATATT
66 ATATT
* * * *
70582297 AATTAGCTAAGCACCATGAATTTGTCCTAATTTGGAGAGCCAATAATTTACAGTATAACAGCAGC
1 AATTAGCTAAACACCATGAATTTGTACTAATTTGGACAGCCAATAATTTACAATATAACAGCAGC
70582362 ATATT
66 ATATT
70582367 AATTA
1 AATTA
70582372 ATAATAAACT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (70 bp):
AATTAGCTAAACACCATGAATTTGTACTAATTTGGACAGCCAATAATTTACAATATAACAGCAGC
ATATT
Found at i:70583360 original size:5 final size:5
Alignment explanation
Indices: 70583350--70583374 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
70583340 ACCTTTGACC
70583350 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
70583375 TGTCTCCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:70586901 original size:44 final size:43
Alignment explanation
Indices: 70586827--70586988 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
70586817 CGATATGTGT
** *
70586827 TTTCGTGTAAGACCACATC-TGGGACGTTGGCATCA-ACTTATGA
1 TTTCGTGTAAGACCATGTCTTGGGACATTGGCATCATA-TT-TGA
*
70586870 TTTATGTGTAAGACCATGTCTTGGG-CATTGGCATCATATTTGA
1 TTT-CGTGTAAGACCATGTCTTGGGACATTGGCATCATATTTGA
* * *
70586913 TTTCGTGTAAGACCCTGT-TTGGGATAATGGCATCGATATTTGA
1 TTTCGTGTAAGACCATGTCTTGGGACATTGGCATC-ATATTTGA
* * * * *
70586956 TTACATGTAAGACCACG-CCTGGGACGTTGGCAT
1 TTTCGTGTAAGACCATGTCTTGGGACATTGGCAT
70586989 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
41 5 0.05
42 21 0.22
43 41 0.42
44 25 0.26
45 5 0.05
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TTTCGTGTAAGACCATGTCTTGGGACATTGGCATCATATTTGA
Found at i:70586944 original size:42 final size:43
Alignment explanation
Indices: 70586875--70586970 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 43
70586865 TATGATTTAT
*
70586875 GTGTAAGACCATGTCTTGGGCATTGGCATC-ATATTTGATTTC
1 GTGTAAGACCATGTCTTGGGCATTGGCATCGATATTTGATTAC
*
70586917 GTGTAAGACCCTGT-TTGGG-ATAATGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTTGGGCAT--TGGCATCGATATTTGATTAC
*
70586960 ATGTAAGACCA
1 GTGTAAGACCA
70586971 CGCCTGGGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 2 0.04
41 5 0.11
42 20 0.43
43 20 0.43
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
GTGTAAGACCATGTCTTGGGCATTGGCATCGATATTTGATTAC
Found at i:70586952 original size:43 final size:42
Alignment explanation
Indices: 70586830--70586970 Score: 128
Period size: 44 Copynumber: 3.3 Consensus size: 42
70586820 TATGTGTTTT
** *
70586830 CGTGTAAGACCACATC-TGGGACGTTGGCATCA-ACTTATGATTTA
1 CGTGTAAGACCATGTCTTGGG-CATTGGCATCATA-TT-TGA-TTA
* *
70586874 TGTGTAAGACCATGTCTTGGGCATTGGCATCATATTTGATTT
1 CGTGTAAGACCATGTCTTGGGCATTGGCATCATATTTGATTA
*
70586916 CGTGTAAGACCCTGT-TTGGG-ATAATGGCATCGATATTTGATTA
1 CGTGTAAGACCATGTCTTGGGCAT--TGGCATC-ATATTTGATTA
*
70586959 CATGTAAGACCA
1 CGTGTAAGACCA
70586971 CGCCTGGGAC
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
40 2 0.02
41 5 0.06
42 22 0.27
43 23 0.28
44 25 0.30
45 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTTGGGCATTGGCATCATATTTGATTA
Found at i:70589113 original size:6 final size:6
Alignment explanation
Indices: 70589095--70589228 Score: 87
Period size: 6 Copynumber: 21.8 Consensus size: 6
70589085 AAGAAACATT
* * * *
70589095 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATCTGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
70589144 ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
* *
70589193 ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
70589229 GTAACAGAAT
Statistics
Matches: 98, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
5 5 0.05
6 82 0.84
7 8 0.08
8 3 0.03
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:70589140 original size:31 final size:31
Alignment explanation
Indices: 70589104--70589238 Score: 135
Period size: 31 Copynumber: 4.2 Consensus size: 31
70589094 TATCAGAACT
*
70589104 AGAATCAGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATTAGGTGAC
70589135 AGAATCTGAATCAGAATCAGAATCAGAATTAGGTGAC
1 ---A---GAATCAGAATCAGAATCAGAATTAGGTGAC
* * * *
70589172 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGGTGAC
* * * *
70589203 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGGTGAC
70589234 AGAAT
1 AGAAT
70589239 AAAAAATCAG
Statistics
Matches: 91, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
31 60 0.66
34 2 0.02
37 29 0.32
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:70589146 original size:37 final size:38
Alignment explanation
Indices: 70589097--70589196 Score: 161
Period size: 37 Copynumber: 2.7 Consensus size: 38
70589087 GAAACATTAT
70589097 CAGAA-CTAGAATCAGAATCAGAATCAAAATTAGGTGA
1 CAGAATCTAGAATCAGAATCAGAATCAAAATTAGGTGA
*
70589134 CAGAATCT-GAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCTAGAATCAGAATCAGAATCAAAATTAGGTGA
*
70589171 CAGAAT-TAGAATCAGAATCAGTATCA
1 CAGAATCTAGAATCAGAATCAGAATCA
70589197 GGTAACAGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
36 1 0.02
37 56 0.95
38 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (38 bp):
CAGAATCTAGAATCAGAATCAGAATCAAAATTAGGTGA
Found at i:70589219 original size:37 final size:35
Alignment explanation
Indices: 70589106--70589228 Score: 137
Period size: 37 Copynumber: 3.5 Consensus size: 35
70589096 TCAGAACTAG
*
70589106 AATCAGAATCAGAATCAAAATTAGGTGACAGAATC
1 AATCAGAATCAGAATCAGAATTAGGTGACAGAATC
70589141 TGAATCAGAATCAGAATCAGAATTAGGTGACAGAAT-
1 --AATCAGAATCAGAATCAGAATTAGGTGACAGAATC
* * *
70589177 --T-AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AATCAGAATCAGAATCAGAATTAGGTGACAGAATC
*
70589209 AAAATCAGAATCAGTATCAG
1 --AATCAGAATCAGAATCAG
70589229 GTAACAGAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
31 27 0.36
32 1 0.01
36 1 0.01
37 46 0.61
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (35 bp):
AATCAGAATCAGAATCAGAATTAGGTGACAGAATC
Found at i:70590052 original size:27 final size:27
Alignment explanation
Indices: 70590022--70590217 Score: 266
Period size: 27 Copynumber: 7.3 Consensus size: 27
70590012 GGGGTAAAAT
* * * * *
70590022 GGTAATTTTGCCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
70590049 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
70590076 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
70590103 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
70590130 GATAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
70590157 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
70590184 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
70590211 GATAATT
1 GGTAATT
70590218 TCACAAATTA
Statistics
Matches: 150, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:70590231 original size:54 final size:52
Alignment explanation
Indices: 70590021--70590244 Score: 225
Period size: 54 Copynumber: 4.2 Consensus size: 52
70590011 AGGGGTAAAA
* * * * * * *
70590021 TGGTAATTTTGCCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCT-TAGGGGTATTT
*
70590075 TGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTT--AGGGGTATTT
* * *
70590129 TGATAATTCTACCCTACAGGGGTATTGCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA-CCT-TAGGGGTATTT
* * * *
70590183 CGGTAATTCTACCCTACAAGGGTATTTCGATAATT-TCACAAATTAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCT-AC--CTTAGGGGTATTT
70590237 TGGTAATT
1 TGGTAATT
70590245 TTACAAACCA
Statistics
Matches: 143, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
53 5 0.03
54 134 0.94
55 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (52 bp):
TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTAGGGGTATTT
Found at i:70590231 original size:81 final size:81
Alignment explanation
Indices: 70590022--70590244 Score: 261
Period size: 81 Copynumber: 2.8 Consensus size: 81
70590012 GGGGTAAAAT
* * * * * ** *
70590022 GGTAATTTTGCCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACAATACAGGGGTATTTTGGTAATTCTAC
*
70590087 CCTATAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * ** **
70590103 GGTAATTCTACCTTACAGGGGTATTTTGATAATTCTACCCTACAGGGGTATTGCGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACAATACAGGGGTATTTTGGTAATTCTAC
70590168 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
*
70590184 GGTAATTCTACCCTACAAGGGTATTTCGATAATT-TCACAA-ATTAGGGGTATTTTGGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCT-ACAATA-CAGGGGTATTTTGGTAATT
70590245 TTACAAACCA
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.02
81 118 0.98
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACAATACAGGGGTATTTTGGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:70590297 original size:108 final size:108
Alignment explanation
Indices: 70590229--70591089 Score: 1659
Period size: 108 Copynumber: 8.0 Consensus size: 108
70590219 CACAAATTAG
70590229 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
70590294 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
70590337 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
70590402 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
70590445 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
70590510 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
70590553 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
70590618 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
70590661 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
70590726 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
70590769 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
70590834 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
70590877 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
70590942 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
* * * *
70590985 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
* * *
70591050 TAATTTTACAAACTAGGGGTACTTTGGTAATTTGGTAAAC
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
70591090 TAAAGTGTTC
Statistics
Matches: 746, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 746 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (108 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAG
TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
Found at i:70591089 original size:54 final size:54
Alignment explanation
Indices: 70590229--70591082 Score: 1285
Period size: 54 Copynumber: 15.8 Consensus size: 54
70590219 CACAAATTAG
* *
70590229 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* * * *
70590283 GGCTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* *
70590337 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* * * *
70590391 GGCTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* *
70590445 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* * * *
70590499 GGCTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* *
70590553 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* * * *
70590607 GGCTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* *
70590661 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* * * *
70590715 GGCTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* *
70590769 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* * * *
70590823 GGCTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* *
70590877 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* * * *
70590931 GGCTATTCTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* *
70590985 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
* * *
70591039 GGGTATTTTAGTAATTTTACAAACTAGGGGTACTTTGGTAATTT
1 GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTT
70591083 GGTAAACTAA
Statistics
Matches: 711, Mismatches: 89, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 711 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
Found at i:70593015 original size:29 final size:27
Alignment explanation
Indices: 70592997--70593066 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
70592987 ATATTAAGTC
70592997 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
70593024 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
70593052 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
70593067 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:70593060 original size:28 final size:28
Alignment explanation
Indices: 70592997--70593094 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
70592987 ATATTAAGTC
*
70592997 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
70593024 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
70593052 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
70593081 CGCACACTTAGTGC
1 CGCACACTTAGTGC
70593095 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:70596560 original size:6 final size:6
Alignment explanation
Indices: 70596542--70596625 Score: 64
Period size: 6 Copynumber: 13.7 Consensus size: 6
70596532 AAGAAACATT
* * * *
70596542 ATCAGA ATAAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
* *
70596591 ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGC ATCA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA
70596626 AGTAACAGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
5 3 0.05
6 51 0.84
7 5 0.08
8 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:70596580 original size:31 final size:31
Alignment explanation
Indices: 70596542--70596636 Score: 127
Period size: 31 Copynumber: 3.1 Consensus size: 31
70596532 AAGAAACATT
* * *
70596542 ATCAGAATAAGAATCAGAATTAGGTGACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
70596573 ATCAGAATCAGAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
* * *
70596604 ATCAAAATCAGAATCAGCATCAAGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
70596635 AT
1 AT
70596637 AAAAAATTAG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:70596832 original size:27 final size:27
Alignment explanation
Indices: 70596792--70596856 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
70596782 AATAAGTTGA
* * *
70596792 GGCAAAGCCTCCAGTAT-AGATATTTGT
1 GGCAAAGCCACCAGAATCAGATA-ATGT
*
70596819 GGCATAGCCACCAGAATCAGATAATGT
1 GGCAAAGCCACCAGAATCAGATAATGT
70596846 GGCAAAGCCAC
1 GGCAAAGCCAC
70596857 TTAATAGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
GGCAAAGCCACCAGAATCAGATAATGT
Found at i:70598105 original size:37 final size:37
Alignment explanation
Indices: 70598052--70598150 Score: 171
Period size: 37 Copynumber: 2.7 Consensus size: 37
70598042 CGAATAGTCC
* *
70598052 CCACACGTAGTTATCGGGTCTTACCCGGGCAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
70598089 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
70598126 CCACACGTAGTCATCGGGTCTTACC
1 CCACACGTAGTCATCGGGTCTTACC
70598151 TGGAATATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:70598353 original size:48 final size:48
Alignment explanation
Indices: 70598295--70599651 Score: 2296
Period size: 48 Copynumber: 28.0 Consensus size: 48
70598285 ATATACACAG
* * *
70598295 ATCTCCTACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
70598343 ATCTCATACATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATAC--ATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
70598393 ATCTCATATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
70598443 ATCTCATATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * * *
70598493 ATCTCATATATATATTTCACACTAGCCATTCGGCTTT-GCATATCT-CAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70598541 A--T-AT--ATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
70598584 ATCTCATATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
70598634 ATCTCATATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
70598684 ATCTCATATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
70598734 ATCTCATATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
70598784 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70598834 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70598882 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70598930 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70598978 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599026 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599074 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599122 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599170 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599218 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599266 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599314 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599362 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599410 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599458 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599506 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599554 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
70599602 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAGATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70599650 AT
1 AT
70599652 ATATTTATCT
Statistics
Matches: 1282, Mismatches: 14, Indels: 26
0.97 0.01 0.02
Matches are distributed among these distances:
41 25 0.02
42 5 0.00
43 6 0.00
45 1 0.00
46 1 0.00
48 825 0.64
49 5 0.00
50 411 0.32
52 3 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:70601251 original size:27 final size:27
Alignment explanation
Indices: 70601221--70601415 Score: 234
Period size: 27 Copynumber: 7.2 Consensus size: 27
70601211 GGGTAAAATG
* * *
70601221 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
70601248 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
70601275 GTAATTCTACCCTAC-AGGAGTATTTCG
1 GTAATTCTACCCTACAAGG-GTATTTCA
* *
70601302 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
70601329 GTAACTCTACCCTACACGGTTA-TTCAA
1 GTAATTCTACCCTACAAGGGTATTTC-A
* *
70601356 GTAATTCTACCCTACAGGGGTATTT-T
1 GTAATTCTACCCTACAAGGGTATTTCA
70601382 GATAATTCTACCCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
70601410 GTAATT
1 GTAATT
70601416 TCACAAATCA
Statistics
Matches: 145, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.04
27 134 0.92
28 5 0.03
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:70601267 original size:54 final size:54
Alignment explanation
Indices: 70601220--70601415 Score: 270
Period size: 54 Copynumber: 3.6 Consensus size: 54
70601210 GGGGTAAAAT
* * *
70601220 GGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
70601274 AGTAATTCTACCCTAC-AGGAGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
70601328 GGTAACTCTACCCTACACGGTTA-TTCAAGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC-AGTAATTCTACCCTACAGGGGTATTTC
*
70601382 GATAATTCTACCCTACAAGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
70601416 TCACAAATCA
Statistics
Matches: 123, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
53 6 0.05
54 112 0.91
55 5 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:70601324 original size:81 final size:81
Alignment explanation
Indices: 70601220--70601415 Score: 277
Period size: 81 Copynumber: 2.4 Consensus size: 81
70601210 GGGGTAAAAT
* * * *
70601220 GGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTC-AGTAATTCTA
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACACGGGTA-TTCAAGTAATTCTA
70601284 CCCTACAGGAGTATTTC
65 CCCTACAGGAGTATTTC
* * * *
70601301 GGTAATTCTACCCTACAGGGGTATTTCGGTAACTCTACCCTACACGGTTATTCAAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACACGGGTATTCAAGTAATTCTAC
* *
70601366 CCTACAGGGGTATTTT
66 CCTACAGGAGTATTTC
*
70601382 GATAATTCTACCCTACAAGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
70601416 TCACAAATCA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 3 0.03
81 97 0.97
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACACGGGTATTCAAGTAATTCTAC
CCTACAGGAGTATTTC
Found at i:70601430 original size:27 final size:27
Alignment explanation
Indices: 70601397--70601578 Score: 215
Period size: 27 Copynumber: 6.7 Consensus size: 27
70601387 TTCTACCCTA
* * *
70601397 CAAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
70601424 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
70601451 CAAGGGTATTTTTGTAATTTTATAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
70601478 CAAGGCTATTCTAGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * * *
70601505 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
70601532 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
70601559 C-AGGGTTATTTT-GATAATTT
1 CAAGGG-TATTTTAG-TAATTT
70601579 GGTAAACTAA
Statistics
Matches: 131, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.04
27 126 0.96
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:70601442 original size:54 final size:54
Alignment explanation
Indices: 70601219--70601442 Score: 267
Period size: 54 Copynumber: 4.1 Consensus size: 54
70601209 AGGGGTAAAA
* * *
70601219 TGGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTT
** *
70601273 CAGTAATTCTACCCTAC-AGGAGTATTTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGG-GTATTTCAGTAATTCTACCCTACAGGGGTATTT
* * * *
70601327 CGGTAACTCTACCCTACACGGTTA-TTCAAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTC-AGTAATTCTACCCTACAGGGGTATTT
* **
70601381 TGATAATTCTACCCTACAAGGGTATTTCAGTAATT-T-CACAAATCAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC-CCTA-CAGGGGTATTT
70601435 TGGTAATT
1 TGGTAATT
70601443 TTACAAACCA
Statistics
Matches: 145, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
52 1 0.01
53 9 0.06
54 130 0.90
55 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTT
Found at i:70601458 original size:81 final size:80
Alignment explanation
Indices: 70601373--70601560 Score: 227
Period size: 81 Copynumber: 2.3 Consensus size: 80
70601363 TACCCTACAG
** * *
70601373 GGGTATTTTGATAATTCTACCCTA-CAAGGGTATT-TCAGTAATTTCACAAATCAGGGGTATTTT
1 GGGTATTTTG-TAATTCTA-CAAACCAAGGCTATTCT-AGTAATTTCACAAACCAGGGGTATTTT
70601436 GGTAATTTTACAAACCAA
63 GGTAATTTTACAAACCAA
* * *
70601454 GGGTATTTTTGTAATTTTATAAACCAAGGCTATTCTAGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTA-TTTTGTAATTCTACAAACCAAGGCTATTCTAGTAATTTCACAAACCAGGGGTATTTTGG
* *
70601519 TGATTTTATAAACCAA
65 TAATTTTACAAACCAA
*
70601535 GGGTATTTTAGTAATTTTACAAACCA
1 GGGTATTTT-GTAATTCTACAAACCA
70601561 GGGTTATTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
80 5 0.05
81 82 0.88
82 6 0.06
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (80 bp):
GGGTATTTTGTAATTCTACAAACCAAGGCTATTCTAGTAATTTCACAAACCAGGGGTATTTTGGT
AATTTTACAAACCAA
Found at i:70601578 original size:81 final size:81
Alignment explanation
Indices: 70601409--70601560 Score: 250
Period size: 81 Copynumber: 1.9 Consensus size: 81
70601399 AGGGTATTTC
* * *
70601409 AGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTTGTAATTTTAT
1 AGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAC
70601474 AAACCAAGGCTATTCT
66 AAACCAAGGCTATTCT
* * *
70601490 AGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTAC
1 AGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAC
70601555 AAACCA
66 AAACCA
70601561 GGGTTATTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (81 bp):
AGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAC
AAACCAAGGCTATTCT
Found at i:70608652 original size:29 final size:29
Alignment explanation
Indices: 70608614--70608695 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
70608604 CGAAAATAAT
*
70608614 GATAT-CATGGCCTAAAGCCAAATTAGCA
1 GATATGCATGGCCTAAAGCCAAATCAGCA
* *
70608642 GATATGCATGGCCTGAAGCCAAATCAGCC
1 GATATGCATGGCCTAAAGCCAAATCAGCA
*
70608671 GATATGCATGGCCCAAAGCCAAATC
1 GATATGCATGGCCTAAAGCCAAATC
70608696 GGTATAACTC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 5 0.10
29 43 0.90
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (29 bp):
GATATGCATGGCCTAAAGCCAAATCAGCA
Found at i:70609745 original size:21 final size:21
Alignment explanation
Indices: 70609721--70609764 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
70609711 TACATTAAGG
70609721 TTCCATAACTATTTAACACCT
1 TTCCATAACTATTTAACACCT
70609742 TTCCATAACTATTTAACACCT
1 TTCCATAACTATTTAACACCT
70609763 TT
1 TT
70609765 AACATATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (21 bp):
TTCCATAACTATTTAACACCT
Found at i:70616098 original size:29 final size:29
Alignment explanation
Indices: 70616063--70616143 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
70616053 GTTGTGAGAT
*
70616063 TGGCACTAAGTGTGCTGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCTGG-TTGAAAGTACA
*
70616092 TGGCACTAAGTGTGC-GAGTTTAAAGTACA
1 TGGCACTAAGTGTGCTG-GTTGAAAGTACA
70616121 TGGCACTAAGTGTGCGTGGTTGA
1 TGGCACTAAGTGTGC-TGGTTGA
70616144 TTATTAAGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
28 6 0.13
29 34 0.76
30 4 0.09
31 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCTGGTTGAAAGTACA
Found at i:70618152 original size:19 final size:19
Alignment explanation
Indices: 70618128--70618171 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
70618118 TGGCTCGCCA
*
70618128 TTCATCTAGTTCGTTCAGC
1 TTCATCTAGTTCGCTCAGC
70618147 TTCATCTAGTTCGCTCAGC
1 TTCATCTAGTTCGCTCAGC
*
70618166 TGCATC
1 TTCATC
70618172 AACCTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.30, G:0.16, T:0.39
Consensus pattern (19 bp):
TTCATCTAGTTCGCTCAGC
Found at i:70625907 original size:15 final size:14
Alignment explanation
Indices: 70625883--70625914 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
70625873 TAAAGAATTA
70625883 AGGACAAAACAAAG
1 AGGACAAAACAAAG
70625897 AGGAGCAAAACAAAG
1 AGGA-CAAAACAAAG
70625912 AGG
1 AGG
70625915 TCACAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.59, C:0.12, G:0.28, T:0.00
Consensus pattern (14 bp):
AGGACAAAACAAAG
Found at i:70626358 original size:4 final size:4
Alignment explanation
Indices: 70626351--70626384 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
70626341 AATCAATCAA
* *
70626351 TCAT TCAT TCAT TCAT CCAT TCAT TCAC TCAT TC
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TC
70626385 GATCATTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (4 bp):
TCAT
Found at i:70629067 original size:34 final size:34
Alignment explanation
Indices: 70629029--70629096 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
70629019 ATAATCAGGA
70629029 AATCAGGATGCTCAAATGAGCCATGTAACACGAC
1 AATCAGGATGCTCAAATGAGCCATGTAACACGAC
*
70629063 AATCAGGATGCTCAAATGAGCCATGTAACGCGAC
1 AATCAGGATGCTCAAATGAGCCATGTAACACGAC
70629097 GCTTGTCTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (34 bp):
AATCAGGATGCTCAAATGAGCCATGTAACACGAC
Found at i:70634568 original size:27 final size:28
Alignment explanation
Indices: 70634515--70634569 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
70634505 TACATACATG
*
70634515 CATATGGCCCACTTAGCCCAATCTCATT
1 CATATGGCCCACTTAGCCCAATATCATT
70634543 CATATGGCCCA-TTAGGCCCAA-ATCATT
1 CATATGGCCCACTTA-GCCCAATATCATT
70634570 TTTATAAGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (28 bp):
CATATGGCCCACTTAGCCCAATATCATT
Found at i:70643985 original size:29 final size:28
Alignment explanation
Indices: 70643948--70644027 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 28
70643938 GGCCCAATCT
* *
70643948 CATTTATATGGCCCATCAGGCCGAATTC
1 CATTCATATGGCCCATTAGGCCGAATTC
* *
70643976 ACATTCATATGGCCCATTGGGCCTAATTC
1 -CATTCATATGGCCCATTAGGCCGAATTC
70644005 CTATTCATATGGCCCATTAGGCC
1 C-ATTCATATGGCCCATTAGGCC
70644028 CAAATAACCT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 1 0.02
29 44 0.98
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (28 bp):
CATTCATATGGCCCATTAGGCCGAATTC
Found at i:70644043 original size:29 final size:29
Alignment explanation
Indices: 70644011--70644071 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
70644001 ATTCCTATTC
*
70644011 ATATGGCCCATTAGGCCCAAATAACCTTT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
* *
70644040 ATATGGCCCGTTAGGCCTAAATCACC-TT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
70644068 ATAT
1 ATAT
70644072 TCATACTCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTTT
Found at i:70645143 original size:22 final size:23
Alignment explanation
Indices: 70645109--70645155 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
70645099 TTTGTGCTGA
70645109 TTTCTATTCTTTCACTACACAAT
1 TTTCTATTCTTTCACTACACAAT
*
70645132 TTTCT-TTGTTTCACTACACAAT
1 TTTCTATTCTTTCACTACACAAT
70645154 TT
1 TT
70645156 GAACCTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTCTATTCTTTCACTACACAAT
Found at i:70647048 original size:40 final size:40
Alignment explanation
Indices: 70647004--70647191 Score: 295
Period size: 40 Copynumber: 4.7 Consensus size: 40
70646994 GCAAACACAT
* *
70647004 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAA
*
70647044 TTGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAA
*
70647084 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAA
* * * *
70647124 TTGCCTTCGGGTCATAACCCAGATATCTCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAA
*
70647164 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAACCCGGATATAT
70647192 TCCAGTGCTC
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAA
Found at i:70661360 original size:22 final size:22
Alignment explanation
Indices: 70661332--70661379 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
70661322 TAAATCAAGA
*
70661332 AAAAAGAAAATAAAAAAA-ATAG
1 AAAAAGAAAACAAAAAAAGA-AG
*
70661354 AAAAAGAAACCAAAAAAAGAAG
1 AAAAAGAAAACAAAAAAAGAAG
70661376 AAAA
1 AAAA
70661380 CTTAGATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.10, T:0.04
Consensus pattern (22 bp):
AAAAAGAAAACAAAAAAAGAAG
Found at i:70661851 original size:42 final size:42
Alignment explanation
Indices: 70661785--70661959 Score: 262
Period size: 42 Copynumber: 4.2 Consensus size: 42
70661775 AAGGAAAGCA
* *
70661785 TTCATTGCATTTAGGGGCCTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
70661827 TTCATTGCATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
70661869 TTCGTTGCATTTAGAGGCCCAGGGGTGGAGGAT-CATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGG-TCCATTTACTT
* * *
70661911 TTCATTGCATTTAGAGGCTCGGGTGTGGAGGTCCATTTATTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
70661953 TTCATTG
1 TTCATTG
70661960 TATATGAAAG
Statistics
Matches: 120, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.01
42 118 0.98
43 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.38
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:70665450 original size:47 final size:47
Alignment explanation
Indices: 70665387--70666104 Score: 1141
Period size: 47 Copynumber: 15.3 Consensus size: 47
70665377 CCCTTCGGGA
* * *
70665387 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
70665434 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
70665481 CTTATCTCATATATACACTTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
70665528 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATT-AGGC
* *
70665575 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
70665622 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
70665669 TTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
70665716 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
70665763 CTTATCACATATATACACTTTCACAGTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
70665810 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
70665857 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
70665904 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
70665951 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
70665998 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
70666045 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
70666092 CTTATCACATATA
1 CTTATCACATATA
70666105 CATATCTTGT
Statistics
Matches: 625, Mismatches: 44, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 623 1.00
48 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:70665913 original size:22 final size:22
Alignment explanation
Indices: 70665838--70665960 Score: 66
Period size: 22 Copynumber: 5.3 Consensus size: 22
70665828 TTTCACATTC
70665838 ATCACATTGGCCATTAGGCTTT
1 ATCACATTGGCCATTAGGCTTT
*** *** *
70665860 ATCACATATATACACTTTCACATTC
1 ATCACAT-TGGCCA-TTAGGC-TTT
70665885 ATCACATTGGCCATTAGGCTTT
1 ATCACATTGGCCATTAGGCTTT
*** *** *
70665907 ATCACATATATACACTTTCACATTC
1 ATCACAT-TGGCCA-TTAGGC-TTT
70665932 ATCACATTGGCCATTAGGCTTT
1 ATCACATTGGCCATTAGGCTTT
70665954 ATCACAT
1 ATCACAT
70665961 ATATACACTT
Statistics
Matches: 67, Mismatches: 28, Indels: 12
0.63 0.26 0.11
Matches are distributed among these distances:
22 25 0.37
23 12 0.18
24 12 0.18
25 18 0.27
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTAGGCTTT
Found at i:70668585 original size:27 final size:27
Alignment explanation
Indices: 70668555--70668670 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
70668545 GGATGTCACA
* *
70668555 GGTATCTCGGTAATTCTACGCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAAG
* *
70668582 GGTATTTCTGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAAG
*
70668609 GGTATTTTGGTAATTCTACCCTAC-AG
1 GGTATTTCGGTAATTCTACCCTACAAG
* *
70668635 GAGTATTTCAGTAATTCTACCCTACAGG
1 G-GTATTTCGGTAATTCTACCCTACAAG
70668663 GGTATTTC
1 GGTATTTC
70668671 AATAATTTTG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.04
27 72 0.94
28 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAAG
Found at i:70668746 original size:27 final size:27
Alignment explanation
Indices: 70668698--70668749 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
70668688 AGGGTAAAAC
** *
70668698 GGTAATTTTGTAAATCGGGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
*
70668725 GGTAATTTTACAAGTCGAGGGTATT
1 GGTAATTTTACAAATCGAGGGTATT
70668750 CCAGTAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.06, G:0.29, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:70677086 original size:50 final size:50
Alignment explanation
Indices: 70677016--70677116 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
70677006 TGCTATGTGA
70677016 TGGAAATGACACTCGGCCATGGATGCATCATTCTTGGTTGATGTTTGATG
1 TGGAAATGACACTCGGCCATGGATGCATCATTCTTGGTTGATGTTTGATG
70677066 TGGAAATGACACTCGGCCATGGATGCATCATTCTTGGTTGATGTTTGATG
1 TGGAAATGACACTCGGCCATGGATGCATCATTCTTGGTTGATGTTTGATG
70677116 T
1 T
70677117 TGTGGTGATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.35
Consensus pattern (50 bp):
TGGAAATGACACTCGGCCATGGATGCATCATTCTTGGTTGATGTTTGATG
Found at i:70678043 original size:40 final size:40
Alignment explanation
Indices: 70677959--70678183 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
70677949 TTGAATGATG
* * * *
70677959 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
70677999 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
70678039 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
70678078 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
70678118 TCCGGGTTAAGTCCCGAAGGCATTTTTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
70678159 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
70678184 ATCGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:70678201 original size:80 final size:80
Alignment explanation
Indices: 70677959--70678216 Score: 244
Period size: 80 Copynumber: 3.2 Consensus size: 80
70677949 TTGAATGATG
* * * * * * *
70677959 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
70678022 TTGTGCGAGAT-ACTAAT
64 TTGTGCGAG-TGACTAAA
* * *
70678039 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
70678103 GTGCGAGTTACTAAA
66 GTGCGAGTGACTAAA
** *
70678118 TCCGGGTTAAGTCCCGAAGGCATTTTTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
70678182 TGAT-CGAG-GAGCTATA
65 TG-TGCGAGTGA-CTAAA
* *
70678198 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
70678217 TACGTGATTT
Statistics
Matches: 152, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.01
79 73 0.48
80 74 0.49
81 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTGACTAAA
Found at i:70692122 original size:27 final size:28
Alignment explanation
Indices: 70692038--70692135 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
70692028 CATGAGATTG
* * *
70692038 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
70692067 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
70692095 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
70692122 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
70692136 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:70692149 original size:29 final size:27
Alignment explanation
Indices: 70692066--70692149 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
70692056 TAAATTGTTC
* *
70692066 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
70692094 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
70692121 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
70692150 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:70695500 original size:19 final size:21
Alignment explanation
Indices: 70695471--70695510 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
70695461 ATAATTTCGC
70695471 CACCAATTTA-TATATGAATT
1 CACCAATTTATTATATGAATT
*
70695491 CACC-ATTTATTATTTGAATT
1 CACCAATTTATTATATGAATT
70695511 GTCATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (21 bp):
CACCAATTTATTATATGAATT
Found at i:70699726 original size:36 final size:36
Alignment explanation
Indices: 70699679--70699750 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
70699669 GCACCAATTC
*
70699679 GAGCTTGTTTTGAGCTCTCCAAGCACTGTCAGCAGG
1 GAGCTTGTTTTGAGCTCTCCAAGCACTGTCAACAGG
70699715 GAGCTTGTTTTGAGCTCTCCAAGCACTGTCAACAGG
1 GAGCTTGTTTTGAGCTCTCCAAGCACTGTCAACAGG
70699751 AAAAGGCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (36 bp):
GAGCTTGTTTTGAGCTCTCCAAGCACTGTCAACAGG
Found at i:70701737 original size:21 final size:21
Alignment explanation
Indices: 70701703--70701742 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
70701693 TATTAAAGCT
*
70701703 AGTTACAATCAAACTAAACTA
1 AGTTACAATCAAACAAAACTA
70701724 AGTTAC-ATCAAAACAAAAC
1 AGTTACAATC-AAACAAAAC
70701743 AGCAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (21 bp):
AGTTACAATCAAACAAAACTA
Found at i:70704622 original size:20 final size:20
Alignment explanation
Indices: 70704599--70704645 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
70704589 GTAAAGTTTT
*
70704599 ATTTTAT-TATTTAAAATATA
1 ATTTTATATATTCAAAATA-A
*
70704619 A-TTTATATATTCAAATTAA
1 ATTTTATATATTCAAAATAA
70704638 ATTTTATA
1 ATTTTATA
70704646 AATAATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTATATATTCAAAATAA
Found at i:70711772 original size:12 final size:12
Alignment explanation
Indices: 70711757--70711786 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
70711747 ACGGGATCGA
*
70711757 ACACGGGCTGGG
1 ACACGGGCTAGG
70711769 ACACGGGCTAGG
1 ACACGGGCTAGG
70711781 ACACGG
1 ACACGG
70711787 CTATGTGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.27, G:0.43, T:0.07
Consensus pattern (12 bp):
ACACGGGCTAGG
Found at i:70712918 original size:19 final size:19
Alignment explanation
Indices: 70712896--70712932 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
70712886 GGTGTTTTGT
* *
70712896 TATTTTTGGACTGTTTGGA
1 TATTTTGGGACTATTTGGA
70712915 TATTTTGGGACTATTTGG
1 TATTTTGGGACTATTTGG
70712933 TTTTGGGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.05, G:0.27, T:0.51
Consensus pattern (19 bp):
TATTTTGGGACTATTTGGA
Found at i:70715257 original size:21 final size:21
Alignment explanation
Indices: 70715231--70715275 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
70715221 TTAGGGATTA
70715231 ACATAGCACATTTTACTTTTT
1 ACATAGCACATTTTACTTTTT
70715252 ACATAGCACATTTTACTTTTT
1 ACATAGCACATTTTACTTTTT
70715273 ACA
1 ACA
70715276 CTTAGGCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.04, T:0.44
Consensus pattern (21 bp):
ACATAGCACATTTTACTTTTT
Found at i:70719998 original size:27 final size:28
Alignment explanation
Indices: 70719914--70720011 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
70719904 CATGAGATTG
* * * *
70719914 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
70719943 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
70719971 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
70719998 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
70720012 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:70720022 original size:27 final size:27
Alignment explanation
Indices: 70719942--70720024 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
70719932 TAAATTGTAC
* *
70719942 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
70719970 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
70719997 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
70720024 A
1 A
70720025 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:70720025 original size:29 final size:27
Alignment explanation
Indices: 70719914--70720025 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
70719904 CATGAGATTG
** * *
70719914 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
70719943 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
70719971 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
70719998 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
70720026 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:70723436 original size:23 final size:24
Alignment explanation
Indices: 70723395--70723440 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
70723385 GTCTGATTTG
* *
70723395 ATTAAAAATTAATTAAAATTAAAA
1 ATTAAAAATAAAATAAAATTAAAA
70723419 ATTAAAAATAAAAT-AAATTAAA
1 ATTAAAAATAAAATAAAATTAAA
70723441 TTAATTATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTAAAAATAAAATAAAATTAAAA
Found at i:70725637 original size:25 final size:25
Alignment explanation
Indices: 70725576--70725626 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
70725566 ACAGGGTTCA
*
70725576 TCTCCCTAGGTATTTAGAAAATTAG
1 TCTCCCTATGTATTTAGAAAATTAG
70725601 TCTCCCTATGTATTTAGAAAATTAG
1 TCTCCCTATGTATTTAGAAAATTAG
70725626 T
1 T
70725627 TCATGCTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (25 bp):
TCTCCCTATGTATTTAGAAAATTAG
Found at i:70731059 original size:42 final size:42
Alignment explanation
Indices: 70731000--70731117 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
70730990 TTATGGTTAC
* * *
70731000 TGAGACTTTGTGTAAGACTATATATTGGATATGACATCAATA
1 TGAGACTTCGTGTAAGACCATATCTTGGATATGACATCAATA
* * * *
70731042 TGAGACTTCGTGTAAGACCACATCTAGGATATTGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTTGGATA-TGACATCAATA
* *
70731085 CGAGA-TTACATGTAAGACCATATCTTGGATATG
1 TGAGACTT-CGTGTAAGACCATATCTTGGATATG
70731118 GCATTGGTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTTGGATATGACATCAATA
Found at i:70734252 original size:37 final size:40
Alignment explanation
Indices: 70734188--70734294 Score: 121
Period size: 41 Copynumber: 2.7 Consensus size: 40
70734178 GATAATTTGA
* * * *
70734188 AGTAATAATTTGACACCCTGTGTCTCATCG-GCTAAACCG
1 AGTAGTAAATTGACACCCAGTGTCTCATCGAACTAAACCG
* * *
70734227 -G-AGTAAATTGACACCCAGTGCCTCATCGAATTAATCCG
1 AGTAGTAAATTGACACCCAGTGTCTCATCGAACTAAACCG
70734265 AAGTAGTAAATTGACACCCAGTGTCTCATC
1 -AGTAGTAAATTGACACCCAGTGTCTCATC
70734295 ACTCAAAGTC
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
37 23 0.41
38 7 0.12
40 1 0.02
41 25 0.45
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (40 bp):
AGTAGTAAATTGACACCCAGTGTCTCATCGAACTAAACCG
Found at i:70734308 original size:41 final size:41
Alignment explanation
Indices: 70734186--70734294 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 41
70734176 TGGATAATTT
* * * * **
70734186 GAAGTAATAATTTGACACCCTGTGTCTCATCGGCTAAA-CC
1 GAAGTAGTAAATTGACACCCAGTGCCTCATCGAATAAATCC
*
70734226 G--G-AGTAAATTGACACCCAGTGCCTCATCGAATTAATCC
1 GAAGTAGTAAATTGACACCCAGTGCCTCATCGAATAAATCC
*
70734264 GAAGTAGTAAATTGACACCCAGTGTCTCATC
1 GAAGTAGTAAATTGACACCCAGTGCCTCATC
70734295 ACTCAAAGTC
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
37 26 0.46
38 4 0.07
40 2 0.04
41 25 0.44
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
GAAGTAGTAAATTGACACCCAGTGCCTCATCGAATAAATCC
Found at i:70738006 original size:33 final size:34
Alignment explanation
Indices: 70737968--70738045 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 34
70737958 TTTTCGATGG
** ***
70737968 ACCTTTCCTTTTCC-AGTTGTACACTGGAGGTAT
1 ACCTTTCCTTTTCCGAGCGGTACACACAAGGTAT
70738001 ACCTTT-C-TTTCCGAGCGGTACACACAAGGTAT
1 ACCTTTCCTTTTCCGAGCGGTACACACAAGGTAT
70738033 ACCTTTCCTTTTC
1 ACCTTTCCTTTTC
70738046 ATATGATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
31 5 0.14
32 21 0.57
33 7 0.19
34 4 0.11
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.37
Consensus pattern (34 bp):
ACCTTTCCTTTTCCGAGCGGTACACACAAGGTAT
Done.