Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 271 of 325
Found at i:88933190 original size:21 final size:22
Alignment explanation
Indices: 88933161--88933223 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
88933151 TTTCTACATG
*
88933161 TTATCTTATGTATATATTTA-A
1 TTATATTATGTATATATTTACA
88933182 TTATATTATGTACGTAT-TTTACA
1 TTATATTATGTA--TATATTTACA
* *
88933205 CTATATTATGTACATATTT
1 TTATATTATGTATATATTT
88933224 TTATATCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 13 0.37
22 7 0.20
23 15 0.43
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (22 bp):
TTATATTATGTATATATTTACA
Found at i:88933310 original size:24 final size:24
Alignment explanation
Indices: 88933283--88933337 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
88933273 GTTATATTTT
*
88933283 CACTATTTTAT-GTATATACTTC-AA
1 CACTATTATATAGTATAT--TTCTAA
88933307 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCTAA
88933330 CACTATTA
1 CACTATTA
88933338 CTATTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.11
23 11 0.41
24 13 0.48
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.44
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCTAA
Found at i:88934865 original size:24 final size:24
Alignment explanation
Indices: 88934802--88934867 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
88934792 CCATGTAACG
* *
88934802 AGAAGCTCAAACGAGCCAATATCA
1 AGAAGTTCAAGCGAGCCAATATCA
*
88934826 AGAAGTTCAAGCGAGCCAATATTA
1 AGAAGTTCAAGCGAGCCAATATCA
* * *
88934850 GGAAGTTCCAGGGAGCCA
1 AGAAGTTCAAGCGAGCCA
88934868 TTAATCGAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.15
Consensus pattern (24 bp):
AGAAGTTCAAGCGAGCCAATATCA
Found at i:88935747 original size:20 final size:21
Alignment explanation
Indices: 88935722--88935761 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
88935712 CCGGGCCCGT
*
88935722 GCAAACACAAAAAC-AAAAAA
1 GCAAACAAAAAAACGAAAAAA
88935742 GCAAACAAAAAAACGAAAAA
1 GCAAACAAAAAAACGAAAAA
88935762 TACAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.75, C:0.17, G:0.07, T:0.00
Consensus pattern (21 bp):
GCAAACAAAAAAACGAAAAAA
Found at i:88937309 original size:22 final size:23
Alignment explanation
Indices: 88937284--88937333 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
88937274 TATACATATA
88937284 TATATTGGCACGTAAGTTTGG-T
1 TATATTGGCACGTAAGTTTGGTT
*
88937306 TATATTGGCACGTATGTTTGGTT
1 TATATTGGCACGTAAGTTTGGTT
88937329 TATAT
1 TATAT
88937334 ATATCATCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.22, C:0.08, G:0.24, T:0.46
Consensus pattern (23 bp):
TATATTGGCACGTAAGTTTGGTT
Found at i:88938151 original size:43 final size:43
Alignment explanation
Indices: 88937994--88938170 Score: 178
Period size: 43 Copynumber: 4.1 Consensus size: 43
88937984 ATGTAACACT
* * * * * *
88937994 GCTAAAGATCATGACCTTTAGCGGCGC-TATTTAAAAAAGGCC
1 GCTAAAGACCAAGACATTCAGCGGCGCATTTTTAAAAAACGCC
* * *
88938036 GTTAAAGACCAAGACATTCAGCGACGCAATTTTAAAAAACGCC
1 GCTAAAGACCAAGACATTCAGCGGCGCATTTTTAAAAAACGCC
* *
88938079 GCTAAAGACTAGGACATTCAGCGGCGC-TTTTTATAAAAACGCC
1 GCTAAAGACCAAGACATTCAGCGGCGCATTTTTA-AAAAACGCC
* * * * *
88938122 GCTAAAGACCAAGACCTTTAGTGGTGCTTTTTTAAAAAAACGCC
1 GCTAAAGACCAAGACATTCAGCGGCGCATTTTT-AAAAAACGCC
88938166 GCTAA
1 GCTAA
88938171 TTTGCCCATT
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 26 0.23
43 65 0.59
44 19 0.17
45 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (43 bp):
GCTAAAGACCAAGACATTCAGCGGCGCATTTTTAAAAAACGCC
Found at i:88938155 original size:86 final size:86
Alignment explanation
Indices: 88938013--88938170 Score: 210
Period size: 86 Copynumber: 1.8 Consensus size: 86
88938003 CATGACCTTT
* *
88938013 AGCGGCGCTATTTAAAAAAGGCCGTTAAAGACCAAGACATTCAGCGACGCAATTTT-AAAAAACG
1 AGCGGCGCTATTTAAAAAACGCCGCTAAAGACCAAGACATTCAGCGACGCAATTTTAAAAAAACG
88938077 CCGCTAAAGACTAGGACATTC
66 CCGCTAAAGACTAGGACATTC
* * * * ** **
88938098 AGCGGCGCTTTTTATAAAAACGCCGCTAAAGACCAAGACCTTTAGTGGTGCTTTTTTAAAAAAAC
1 AGCGGCGCTATTTA-AAAAACGCCGCTAAAGACCAAGACATTCAGCGACGCAATTTTAAAAAAAC
88938163 GCCGCTAA
65 GCCGCTAA
88938171 TTTGCCCATT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
85 13 0.21
86 33 0.54
87 15 0.25
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (86 bp):
AGCGGCGCTATTTAAAAAACGCCGCTAAAGACCAAGACATTCAGCGACGCAATTTTAAAAAAACG
CCGCTAAAGACTAGGACATTC
Found at i:88938491 original size:21 final size:21
Alignment explanation
Indices: 88938467--88938507 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
88938457 TGTTCTGCTC
* *
88938467 CGCCTCCCTCGTTGCTGCCTT
1 CGCCTCCCGCGCTGCTGCCTT
*
88938488 CGCCTCTCGCGCTGCTGCCT
1 CGCCTCCCGCGCTGCTGCCT
88938508 CCGCTCTAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.49, G:0.22, T:0.29
Consensus pattern (21 bp):
CGCCTCCCGCGCTGCTGCCTT
Found at i:88944036 original size:9 final size:9
Alignment explanation
Indices: 88944022--88944097 Score: 80
Period size: 9 Copynumber: 8.1 Consensus size: 9
88944012 TTTAAGGAAA
*
88944022 TTATGTGAG
1 TTATGTAAG
88944031 TTATGTAAGTTG
1 TTATGTAA---G
*
88944043 TTATGTAAA
1 TTATGTAAG
88944052 TTATGTAAG
1 TTATGTAAG
*
88944061 TTATATAAG
1 TTATGTAAG
88944070 TTATGTAAG
1 TTATGTAAG
*
88944079 TTATGTAAT
1 TTATGTAAG
*
88944088 TTATTTAAG
1 TTATGTAAG
88944097 T
1 T
88944098 AATGATCAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
9 47 0.84
12 9 0.16
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:88944046 original size:21 final size:21
Alignment explanation
Indices: 88944022--88944062 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
88944012 TTTAAGGAAA
* *
88944022 TTATGTGAGTTATGTAAGTTG
1 TTATGTAAATTATGTAAGTTG
88944043 TTATGTAAATTATGTAAGTT
1 TTATGTAAATTATGTAAGTT
88944063 ATATAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (21 bp):
TTATGTAAATTATGTAAGTTG
Found at i:88945362 original size:33 final size:33
Alignment explanation
Indices: 88945320--88945386 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
88945310 ATTCATACGT
*
88945320 AAGAACATACGCATTGGAACCAATAGCAATGAG
1 AAGAACATACGCATTGGAACCAATAGCAAAGAG
* *
88945353 AAGAACATACGCATTGGAACTAGTAGCAAAGAG
1 AAGAACATACGCATTGGAACCAATAGCAAAGAG
88945386 A
1 A
88945387 TCCAAAGGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (33 bp):
AAGAACATACGCATTGGAACCAATAGCAAAGAG
Found at i:88949392 original size:26 final size:26
Alignment explanation
Indices: 88949356--88949429 Score: 130
Period size: 26 Copynumber: 2.8 Consensus size: 26
88949346 CATGAAATTC
88949356 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
88949382 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
88949408 TTATCATGGAGCATTTACCTAA
1 TTATCATGAAACATTTACCTAA
88949430 ACTATTGTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:88950883 original size:18 final size:17
Alignment explanation
Indices: 88950860--88950893 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
88950850 TAAATTATTT
88950860 AATATATAAATAAAAAAC
1 AATATA-AAATAAAAAAC
*
88950878 AATATAAATTAAAAAA
1 AATATAAAATAAAAAA
88950894 ATAAGTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AATATAAAATAAAAAAC
Found at i:88951161 original size:50 final size:50
Alignment explanation
Indices: 88951107--88951273 Score: 122
Period size: 50 Copynumber: 3.3 Consensus size: 50
88951097 CCAAAAAAAC
*
88951107 TTTAAAATTAATTATTTTAAATAGTAGTATTTCAAATTTTAATTAAAATT
1 TTTAAAACTAATTATTTTAAATAGTAGTATTTCAAATTTTAATTAAAATT
* ** ** ** * * *** **
88951157 TTTAACACTAATTATCCTAAATTAAAAAAATCAGTCATATACCCAA--AAAAAC
1 TTTAAAACTAATTATTTTAAA-TAGTAGTAT--TTCAAAT-TTTAATTAAAATT
* *
88951209 TTTAAAATTAATTATTTTAAATAGTAGTGTTTCAAATTTTAATTAAAATT
1 TTTAAAACTAATTATTTTAAATAGTAGTATTTCAAATTTTAATTAAAATT
*
88951259 TTTAACACTAATTAT
1 TTTAAAACTAATTAT
88951274 CCTAACCCTT
Statistics
Matches: 78, Mismatches: 33, Indels: 12
0.63 0.27 0.10
Matches are distributed among these distances:
48 2 0.03
49 5 0.06
50 34 0.44
51 9 0.12
52 21 0.27
53 5 0.06
54 2 0.03
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.43
Consensus pattern (50 bp):
TTTAAAACTAATTATTTTAAATAGTAGTATTTCAAATTTTAATTAAAATT
Found at i:88951186 original size:102 final size:102
Alignment explanation
Indices: 88951072--88951278 Score: 405
Period size: 102 Copynumber: 2.0 Consensus size: 102
88951062 TTAAGATATA
88951072 TAAATTAAAAAAATCAGTCATATACCCAAAAAAACTTTAAAATTAATTATTTTAAATAGTAGTAT
1 TAAATTAAAAAAATCAGTCATATACCCAAAAAAACTTTAAAATTAATTATTTTAAATAGTAGTAT
88951137 TTCAAATTTTAATTAAAATTTTTAACACTAATTATCC
66 TTCAAATTTTAATTAAAATTTTTAACACTAATTATCC
*
88951174 TAAATTAAAAAAATCAGTCATATACCCAAAAAAACTTTAAAATTAATTATTTTAAATAGTAGTGT
1 TAAATTAAAAAAATCAGTCATATACCCAAAAAAACTTTAAAATTAATTATTTTAAATAGTAGTAT
88951239 TTCAAATTTTAATTAAAATTTTTAACACTAATTATCC
66 TTCAAATTTTAATTAAAATTTTTAACACTAATTATCC
88951276 TAA
1 TAA
88951279 CCCTTAACCC
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (102 bp):
TAAATTAAAAAAATCAGTCATATACCCAAAAAAACTTTAAAATTAATTATTTTAAATAGTAGTAT
TTCAAATTTTAATTAAAATTTTTAACACTAATTATCC
Found at i:88951340 original size:14 final size:15
Alignment explanation
Indices: 88951306--88951345 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
88951296 CTTAACCCCA
*
88951306 AACCCTTAATTATTC
1 AACCCTTAATCATTC
*
88951321 AACCCTAAATCATT-
1 AACCCTTAATCATTC
88951335 AACCCTTAATC
1 AACCCTTAATC
88951346 CCTAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.38, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
AACCCTTAATCATTC
Found at i:88951423 original size:86 final size:85
Alignment explanation
Indices: 88951277--88951555 Score: 356
Period size: 86 Copynumber: 3.3 Consensus size: 85
88951267 TAATTATCCT
* *
88951277 AACCCTTAACCCATGTCCCCTTAACCCCAAACCCTTAATTATTCAACCCTAAATCATTAACCCTT
1 AACCC-TAAACCATATCCCCTTAACCCCAAACCC-TAATTATTCAACCCTAAATCATTAACCCTT
88951342 AATCCCTAAAATTTAAACACTA
64 AATCCCTAAAATTTAAACACTA
* *
88951364 AACCCTAAACAATGTCCCCTTAACCCCAAAACCCTAATTATTCAACCCTAAATCATTAACCCTTA
1 AACCCTAAACCATATCCCCTTAACCCC-AAACCCTAATTATTCAACCCTAAATCATTAACCCTTA
*
88951429 ATCCCAAAAATTTAAACACTA
65 ATCCCTAAAATTTAAACACTA
* * * * *
88951450 AACTCTAAACCATATCCCCTTAACCCCTAAACCC-----CTT-AACCTTAAACCATAAACCC-TA
1 AACCCTAAACCATATCCCCTTAACCCC-AAACCCTAATTATTCAACCCTAAATCATTAACCCTTA
* * *
88951508 ACCCCTAAACTTTAAAAACTA
65 ATCCCTAAAATTTAAACACTA
88951529 AACCCTAAACCATATCCCCTTAACCCC
1 AACCCTAAACCATATCCCCTTAACCCC
88951556 TTAACTATTA
Statistics
Matches: 175, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
79 45 0.26
80 16 0.09
81 2 0.01
86 101 0.58
87 11 0.06
ACGTcount: A:0.39, C:0.36, G:0.01, T:0.24
Consensus pattern (85 bp):
AACCCTAAACCATATCCCCTTAACCCCAAACCCTAATTATTCAACCCTAAATCATTAACCCTTAA
TCCCTAAAATTTAAACACTA
Found at i:88951437 original size:43 final size:43
Alignment explanation
Indices: 88951294--88951437 Score: 143
Period size: 43 Copynumber: 3.3 Consensus size: 43
88951284 AACCCATGTC
*
88951294 CCCTTAA-CCCCAAACCCTTAATTATTCAACCCTAAATCATTAA
1 CCCTTAATCCCAAAACCC-TAATTATTCAACCCTAAATCATTAA
** ** * * *
88951337 CCCTTAATCCCTAAAA-TTTAAACACTAAACCCTAAA-CAATGT-C
1 CCCTTAATCCC-AAAACCCTAATTATTCAACCCTAAATC-AT-TAA
*
88951380 CCCTTAACCCCAAAACCCTAATTATTCAACCCTAAATCATTAA
1 CCCTTAATCCCAAAACCCTAATTATTCAACCCTAAATCATTAA
88951423 CCCTTAATCCCAAAA
1 CCCTTAATCCCAAAA
88951438 ATTTAAACAC
Statistics
Matches: 77, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
42 6 0.08
43 63 0.82
44 5 0.06
45 3 0.04
ACGTcount: A:0.40, C:0.34, G:0.01, T:0.26
Consensus pattern (43 bp):
CCCTTAATCCCAAAACCCTAATTATTCAACCCTAAATCATTAA
Found at i:88951458 original size:43 final size:43
Alignment explanation
Indices: 88951321--88951458 Score: 145
Period size: 43 Copynumber: 3.2 Consensus size: 43
88951311 TTAATTATTC
*
88951321 AACCCTAAATCATTAACCCTTAATCCCTAAAATTTAAACACTA
1 AACCCTAAATCATTAACCCTTAATCCCAAAAATTTAAACACTA
* * *** ** * *
88951364 AACCCTAAA-CAATGT-CCCCTTAACCCCAAAACCCTAATTATTC
1 AACCCTAAATC-AT-TAACCCTTAATCCCAAAAATTTAAACACTA
88951407 AACCCTAAATCATTAACCCTTAATCCCAAAAATTTAAACACTA
1 AACCCTAAATCATTAACCCTTAATCCCAAAAATTTAAACACTA
*
88951450 AACTCTAAA
1 AACCCTAAA
88951459 CCATATCCCC
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
42 2 0.03
43 67 0.94
44 2 0.03
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.25
Consensus pattern (43 bp):
AACCCTAAATCATTAACCCTTAATCCCAAAAATTTAAACACTA
Found at i:88951513 original size:28 final size:28
Alignment explanation
Indices: 88951474--88951536 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
88951464 TCCCCTTAAC
* *
88951474 CCCTAAACCCCTTAACCTT-AAACCATAAA
1 CCCT-AACCCCTAAACCTTAAAAAC-TAAA
*
88951503 CCCTAACCCCTAAACTTTAAAAACTAAA
1 CCCTAACCCCTAAACCTTAAAAACTAAA
88951531 CCCTAA
1 CCCTAA
88951537 ACCATATCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.21
Consensus pattern (28 bp):
CCCTAACCCCTAAACCTTAAAAACTAAA
Found at i:88951516 original size:21 final size:21
Alignment explanation
Indices: 88951492--88951579 Score: 59
Period size: 21 Copynumber: 4.1 Consensus size: 21
88951482 CCCTTAACCT
88951492 TAAACCATAAACCCTAACCCC
1 TAAACCATAAACCCTAACCCC
** ** *
88951513 TAAACTTTAAAAACTAAACCC
1 TAAACCATAAACCCTAACCCC
**
88951534 TAAACCATATCCCCTTAACCCC
1 TAAACCATAAACCC-TAACCCC
* * * *
88951556 TTAACTATTAACCTTTAACCCC
1 TAAACCATAAACC-CTAACCCC
88951578 TA
1 TA
88951580 GACCCTCAAC
Statistics
Matches: 46, Mismatches: 19, Indels: 3
0.68 0.28 0.04
Matches are distributed among these distances:
21 24 0.52
22 22 0.48
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCATAAACCCTAACCCC
Found at i:88951522 original size:79 final size:80
Alignment explanation
Indices: 88951407--88951556 Score: 221
Period size: 79 Copynumber: 1.9 Consensus size: 80
88951397 CTAATTATTC
* * * * *
88951407 AACCCTAAATCATTAACCCTTAATCCCAAAAATTTAAACACTAAACTCTAAACCATATCCCCTTA
1 AACCCTAAACCATAAACCCTTAACCCCAAAAATTTAAAAACTAAACCCTAAACCATATCCCCTTA
88951472 ACCCCTAAACCCCTT
66 ACCCCTAAACCCCTT
* * *
88951487 AACCTTAAACCATAAACCC-TAACCCCTAAACTTTAAAAACTAAACCCTAAACCATATCCCCTTA
1 AACCCTAAACCATAAACCCTTAACCCCAAAAATTTAAAAACTAAACCCTAAACCATATCCCCTTA
88951551 ACCCCT
66 ACCCCT
88951557 TAACTATTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
79 46 0.74
80 16 0.26
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (80 bp):
AACCCTAAACCATAAACCCTTAACCCCAAAAATTTAAAAACTAAACCCTAAACCATATCCCCTTA
ACCCCTAAACCCCTT
Found at i:88951536 original size:7 final size:7
Alignment explanation
Indices: 88951441--88951539 Score: 54
Period size: 7 Copynumber: 13.9 Consensus size: 7
88951431 CCCAAAAATT
*
88951441 TAAACAC
1 TAAACCC
*
88951448 TAAACTC
1 TAAACCC
*
88951455 TAAACCA
1 TAAACCC
**
88951462 TATCCCC
1 TAAACCC
*
88951469 TTAACCCC
1 -TAAACCC
88951477 TAAACCCC
1 TAAA-CCC
* *
88951485 TTAACCT
1 TAAACCC
*
88951492 TAAACCA
1 TAAACCC
88951499 TAAACCC
1 TAAACCC
*
88951506 TAACCCC
1 TAAACCC
**
88951513 TAAACTT
1 TAAACCC
**
88951520 TAAAAAC
1 TAAACCC
88951527 TAAACCC
1 TAAACCC
88951534 TAAACC
1 TAAACC
88951540 ATATCCCCTT
Statistics
Matches: 68, Mismatches: 22, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
7 56 0.82
8 12 0.18
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:88951585 original size:79 final size:80
Alignment explanation
Indices: 88951407--88951590 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
88951397 CTAATTATTC
* * * * * * * * *
88951407 AACCCTAAATCATTAACCCTTAATCCCAAAAATTTAAACACTAAACTCTAAACCATATCCCCTTA
1 AACCTTAAACCATAAACCCTCAACCCCTAAACTTTAAAAACTAAACCCTAAACCATATCCCCTTA
*
88951472 ACCCCTAAACCCCTT
66 ACCCCTAAACCCATT
88951487 AACCTTAAACCATAAACCCT-AACCCCTAAACTTTAAAAACTAAACCCTAAACCATATCCCCTTA
1 AACCTTAAACCATAAACCCTCAACCCCTAAACTTTAAAAACTAAACCCTAAACCATATCCCCTTA
* *
88951551 ACCCCTTAA-CTATT
66 ACCCCTAAACCCATT
* * *
88951565 AACCTTTAACCCCTAGACCCTCAACC
1 AACC-TTAAACCATAAACCCTCAACC
88951591 TTTAAATCTT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 7 0.08
79 60 0.68
80 21 0.24
ACGTcount: A:0.39, C:0.36, G:0.01, T:0.24
Consensus pattern (80 bp):
AACCTTAAACCATAAACCCTCAACCCCTAAACTTTAAAAACTAAACCCTAAACCATATCCCCTTA
ACCCCTAAACCCATT
Found at i:88952187 original size:21 final size:20
Alignment explanation
Indices: 88952141--88952179 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
88952131 TATAGGTTAG
*
88952141 GGGTTAAGGGTTAGGAGTCA
1 GGGTTAAGGGTTAGGACTCA
88952161 GGGTTAATGGGTTAGGACT
1 GGGTTAA-GGGTTAGGACT
88952180 TATGGTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.05, G:0.44, T:0.28
Consensus pattern (20 bp):
GGGTTAAGGGTTAGGACTCA
Found at i:88952731 original size:41 final size:42
Alignment explanation
Indices: 88952646--88952746 Score: 134
Period size: 41 Copynumber: 2.4 Consensus size: 42
88952636 AATAGTTTAG
* *
88952646 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCACTAAAAGTTAA
1 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCACTAAAACTCAA
* * *
88952688 ATCTATTA-CGGCGTTTTT-CTAAAAGCTCCATTAAAACTCAA
1 ATCTA-TAGCGGCGTTTTTCCAAAAAGCGCCACTAAAACTCAA
88952729 ATCTATAGCGGCGTTTTT
1 ATCTATAGCGGCGTTTTT
88952747 GAAGAAACGC
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 2 0.04
41 33 0.63
42 15 0.29
43 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTCCAAAAAGCGCCACTAAAACTCAA
Found at i:88953664 original size:132 final size:131
Alignment explanation
Indices: 88953419--88953817 Score: 523
Period size: 132 Copynumber: 3.0 Consensus size: 131
88953409 ATTATTCATT
* * *
88953419 TAAAAACTCTTTAAAACAAAGGCGAA-GTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCG
1 TAAAAACTCTTTAAAAC-GAGG-GAATGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTATCG
* * * *
88953483 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATTGAATGTCCTTTTAGAATTTCACTCATGTT
64 TGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGTT
88953548 TTC
129 TTC
* * * *
88953551 TAAAAACTCTTTAAAACGAGGGAAATGTTCGATGTTTGGCAATCCGAAGAGTCGTGCCCTATTGT
1 TAAAAACTCTTTAAAACGAGGG-AATGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTATCGT
**
88953616 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGCCT
65 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGTTT
88953681 TC
130 TC
* * * * *
88953683 -AAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACG-AGGGAATGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTATCGT
* * * * * * *
88953747 GCTGGGTTGCGATCTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATATTC
65 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGTTT
88953812 TC
130 TC
88953814 TAAA
1 TAAA
88953818 TTTTAAAATA
Statistics
Matches: 232, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
130 1 0.00
131 114 0.49
132 117 0.50
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
TAAAAACTCTTTAAAACGAGGGAATGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTATCGTG
CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGTTTT
C
Found at i:88953769 original size:131 final size:131
Alignment explanation
Indices: 88953419--88953807 Score: 503
Period size: 131 Copynumber: 3.0 Consensus size: 131
88953409 ATTATTCATT
* * * * *
88953419 TAAAAACTCTTTAAAACAAAGGCGAA-GTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCG
1 TAAAAACTCTTCAAAACGAAGG-AAATGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTATCG
* * * * **
88953483 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATTGAATGTCCTTTTAGAATTTCACTCATGTT
65 TGCTGGGTTGCAATTCCT-GTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGCC
88953548 TTC
129 TTC
* * * * * *
88953551 TAAAAACTCTTTAAAACGAGGGAAATGTTCGATGTTTGGCAATCCGAAGAGTCGTGCCCTATTGT
1 TAAAAACTCTTCAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTATCGT
*
88953616 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGCCT
66 GCTGGGTTGCAA-TTCCTGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGCCT
88953681 TC
130 TC
* * * *
88953683 -AAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
1 TAAAAACTCTTCAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTATCGT
* * *
88953747 GCTGGGTTGCGATCTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCAT
66 GCTGGGTTGCAAT-TCCTGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCAT
88953808 ATTCTCTAAA
Statistics
Matches: 224, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
130 1 0.00
131 111 0.50
132 109 0.49
133 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
TAAAAACTCTTCAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGAGGAATCGTGCCCTATCGT
GCTGGGTTGCAATTCCTGTTTGTTCAAAATAATTGAATATCCCTTTAGAATTTCACTCATGCCTT
C
Found at i:88959368 original size:26 final size:26
Alignment explanation
Indices: 88959339--88959446 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
88959329 TGCTACAAAT
88959339 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
88959365 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
88959391 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88959417 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88959443 TGAT
1 TGAT
88959447 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88961122 original size:54 final size:54
Alignment explanation
Indices: 88961040--88961183 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
88961030 TGGAGGAAGC
*
88961040 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
88961094 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
88961148 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
88961184 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:88961194 original size:27 final size:27
Alignment explanation
Indices: 88961043--88961201 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
88961033 AGGAAGCGTC
*
88961043 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
88961070 TTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
88961097 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
88961124 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
88961151 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
88961178 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
88961202 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:88961195 original size:81 final size:80
Alignment explanation
Indices: 88961043--88961201 Score: 209
Period size: 81 Copynumber: 2.0 Consensus size: 80
88961033 AGGAAGCGTC
*
88961043 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
88961108 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
88961124 CTGGTGGCTCTGCCAC-ATATATCTG-TTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATT-TGGTGGCTCTGCCACATATATCTGT-CCTGGTGAC
*
88961186 T-TCGTCACAATATCTG
63 TAT-GCCACAATATCTG
88961202 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
80 19 0.27
81 51 0.73
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:88966486 original size:26 final size:26
Alignment explanation
Indices: 88966457--88966564 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
88966447 TGCTACAAAT
*
88966457 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
88966483 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
88966509 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88966535 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88966561 TGAT
1 TGAT
88966565 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88968199 original size:27 final size:27
Alignment explanation
Indices: 88968159--88968299 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
88968149 AGGAAGCGTC
88968159 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
88968186 TTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTATGCCACAAT-TATCTGAT
88968212 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAATTATCTGAT
* * * *
88968240 CTGGTGGCTCTGCC-CCATATATTTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
88968267 CTGGTGGCTATGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
88968294 CTGGTG
1 CTGGTG
88968300 ACTTCGTCAC
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
26 11 0.12
27 79 0.83
28 5 0.05
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:88968238 original size:54 final size:54
Alignment explanation
Indices: 88968156--88968299 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
88968146 TGGAGGAAGC
*
88968156 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
88968210 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCCCATATATTT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
88968264 GTTCTGGTGGCTATGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
88968300 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:88971651 original size:19 final size:20
Alignment explanation
Indices: 88971614--88971664 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
88971604 TATATATTAT
* **
88971614 TTTATCTATTATTTGTTTA-
1 TTTATTTATTATTCCTTTAC
88971633 TTTATTTATTATTCCTTTAC
1 TTTATTTATTATTCCTTTAC
*
88971653 TTT-TTTAATATT
1 TTTATTTATTATT
88971665 TAAAATTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTATTTATTATTCCTTTAC
Found at i:88971936 original size:21 final size:22
Alignment explanation
Indices: 88971907--88971951 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
88971897 GTCGCTAGCA
*
88971907 TAGTATTTTTATTTTATTT-TT
1 TAGTATTTTTATTTCATTTATT
*
88971928 TAGTCTTTTTATTTCATTTATT
1 TAGTATTTTTATTTCATTTATT
88971950 TA
1 TA
88971952 TTTATTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (22 bp):
TAGTATTTTTATTTCATTTATT
Found at i:88972806 original size:16 final size:16
Alignment explanation
Indices: 88972785--88972823 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
88972775 ATCTCCACCA
*
88972785 AGCTTCCAACCCAATG
1 AGCTTCCAACCCAACG
88972801 AGCTTCCAACCCAACG
1 AGCTTCCAACCCAACG
88972817 AGCTTCC
1 AGCTTCC
88972824 GAAGTACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.41, G:0.13, T:0.18
Consensus pattern (16 bp):
AGCTTCCAACCCAACG
Found at i:88973324 original size:25 final size:23
Alignment explanation
Indices: 88973304--88973365 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
88973294 TCGAGCCTTA
*
88973304 TAACGGGAAGCTCGTGTGAGCCAT
1 TAACGGGAAGCTCG-GAGAGCCAT
* *
88973328 GTAATGGGAAACTTCGGAGAGCCAT
1 -TAACGGGAAGC-TCGGAGAGCCAT
88973353 TAACGGGAAGCTC
1 TAACGGGAAGCTC
88973366 ATACAAGCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 2 0.06
24 9 0.29
25 17 0.55
26 3 0.10
ACGTcount: A:0.29, C:0.19, G:0.32, T:0.19
Consensus pattern (23 bp):
TAACGGGAAGCTCGGAGAGCCAT
Found at i:88975586 original size:65 final size:65
Alignment explanation
Indices: 88975506--88975636 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
88975496 CCATTTGCTC
88975506 TGTCAAGACCTCCACCAGGGCAACGCCTTTCTCATTGGTTTATGGAATGGAGGCAGTCTTGCCAA
1 TGTCAAGACCTCCACCAGGGCAACGCCTTTCTCATTGGTTTATGGAATGGAGGCAGTCTTGCCAA
88975571 TGTCAAGACCTCCACCAGGGCAACGCCTTTCTCATTGGTTTATGGAATGGAGGCAGTCTTGCCAA
1 TGTCAAGACCTCCACCAGGGCAACGCCTTTCTCATTGGTTTATGGAATGGAGGCAGTCTTGCCAA
88975636 T
1 T
88975637 TGAATTCGAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (65 bp):
TGTCAAGACCTCCACCAGGGCAACGCCTTTCTCATTGGTTTATGGAATGGAGGCAGTCTTGCCAA
Found at i:88979804 original size:44 final size:44
Alignment explanation
Indices: 88979741--88979842 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
88979731 TCTGCCATAG
* * **
88979741 CGAATCTTATCTCCCTAAAGTTGTAGTAGAGTAAGA-TGAAGCTA
1 CGAATCCTATATCCCTAAAGTTACAGTAGA-TAAGATTGAAGCTA
* *
88979785 CGAATCCTATATCCCTAAAGTTACAGTGGATCAGATTGAAGCTA
1 CGAATCCTATATCCCTAAAGTTACAGTAGATAAGATTGAAGCTA
*
88979829 CAAATCCTATATCC
1 CGAATCCTATATCC
88979843 TATATTCTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 4 0.08
44 46 0.92
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (44 bp):
CGAATCCTATATCCCTAAAGTTACAGTAGATAAGATTGAAGCTA
Found at i:88979975 original size:94 final size:93
Alignment explanation
Indices: 88979877--88980095 Score: 271
Period size: 93 Copynumber: 2.3 Consensus size: 93
88979867 TGGATTAAAT
* * * *
88979877 ATATAATTCTTATACCCCTAAAGTTGCAGTGGGT-TGGAATGAAACT-CAAATGGTGAATCTTAT
1 ATATAATTCCTATACCCCTAAAGTTGCAATGGGTCT-GAATGAAACTAC-AATGGCGAATCCTA-
* * *
88979940 CTCCCTGAAGTTGCAATAGAGCAAGATGAAG
63 CTCCCTGAAGTTACAATAGAACAAAATGAAG
*
88979971 ATATAATTCCTATACCCCTAAAGTTGCAATGGGTCTGAATGAAACTACGATGGCGAATCCTACTC
1 ATATAATTCCTATACCCCTAAAGTTGCAATGGGTCTGAATGAAACTACAATGGCGAATCCTACTC
* *
88980036 TCTGAAGTTACAATGGAACAAAATGAAG
66 CCTGAAGTTACAATAGAACAAAATGAAG
* * * *
88980064 CTACAAATCCTATACCCCTGAAGTTGCAATGG
1 ATATAATTCCTATACCCCTAAAGTTGCAATGG
88980096 AGTAAGATGA
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
93 54 0.50
94 53 0.49
95 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (93 bp):
ATATAATTCCTATACCCCTAAAGTTGCAATGGGTCTGAATGAAACTACAATGGCGAATCCTACTC
CCTGAAGTTACAATAGAACAAAATGAAG
Found at i:88980088 original size:44 final size:44
Alignment explanation
Indices: 88980037--88980175 Score: 161
Period size: 44 Copynumber: 3.2 Consensus size: 44
88980027 ATCCTACTCT
* *
88980037 CTGAAGTTACAATGGAACAAAATGAAGCTACAAATCCTATACCC
1 CTGAAGTTGCAATGGAATAAAATGAAGCTACAAATCCTATACCC
* * * *
88980081 CTGAAGTTGCAATGGAGTAAGATGAAGTTACAATTCCTATACCC
1 CTGAAGTTGCAATGGAATAAAATGAAGCTACAAATCCTATACCC
** ** * * *
88980125 CTGAAGTTGCAATGGGTTGGAATGAGGCTACAAATCCTACACCT
1 CTGAAGTTGCAATGGAATAAAATGAAGCTACAAATCCTATACCC
88980169 CTGAAGT
1 CTGAAGT
88980176 CACAGTGGGT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 79 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (44 bp):
CTGAAGTTGCAATGGAATAAAATGAAGCTACAAATCCTATACCC
Found at i:88980868 original size:19 final size:17
Alignment explanation
Indices: 88980844--88980889 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
88980834 CTTGTAAGAG
88980844 GAAGAAAATAGAAACAAAA
1 GAAGAAAA-AGAAA-AAAA
88980863 GAAG-AAAAGAAAAAAA
1 GAAGAAAAAGAAAAAAA
*
88980879 GAAAAAAAAGA
1 GAAGAAAAAGA
88980890 TATTGTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 7 0.28
17 11 0.44
18 3 0.12
19 4 0.16
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (17 bp):
GAAGAAAAAGAAAAAAA
Found at i:88986652 original size:14 final size:14
Alignment explanation
Indices: 88986628--88986664 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
88986618 TTATTTATAA
88986628 ATTTTATTATT-TT
1 ATTTTATTATTATT
88986641 ATTTTAATTATTATT
1 ATTTT-ATTATTATT
88986656 A-TTTATTAT
1 ATTTTATTAT
88986665 ATAATTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 9 0.41
15 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTATTATTATT
Found at i:88986656 original size:20 final size:21
Alignment explanation
Indices: 88986617--88986668 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 21
88986607 AAAAAAATAG
88986617 TTTATTTATAAATTTTATTAT
1 TTTATTTATAAATTTTATTAT
88986638 TTTATTT-T-AATTATTATTA-
1 TTTATTTATAAATT-TTATTAT
88986657 TTTATTATATAA
1 TTTATT-TATAA
88986669 TTTATAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 10 0.37
20 8 0.30
21 8 0.30
22 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTTATAAATTTTATTAT
Found at i:88999945 original size:18 final size:18
Alignment explanation
Indices: 88999922--88999956 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
88999912 TGTTAATATA
88999922 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
88999940 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
88999957 AGGATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:89007312 original size:14 final size:14
Alignment explanation
Indices: 89007293--89007323 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
89007283 CAACCATTAA
89007293 CACGTTGATTTCTC
1 CACGTTGATTTCTC
89007307 CACGTTGATTTCTC
1 CACGTTGATTTCTC
89007321 CAC
1 CAC
89007324 CTCATTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.13, T:0.39
Consensus pattern (14 bp):
CACGTTGATTTCTC
Found at i:89008324 original size:40 final size:42
Alignment explanation
Indices: 89008270--89008366 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 42
89008260 AAAAATTGTT
* *
89008270 AAAACGCCACTAAAAAC-AAAGTAATAGTGGCGCTTT-TGGT-
1 AAAACACCACTAAAAACTAAAGCAATAGTGGCG-TTTATGGTC
* * *
89008310 AAAATACCGCTAAAAACTAGAGCAATAGTGGCGTTTATGGTC
1 AAAACACCACTAAAAACTAAAGCAATAGTGGCGTTTATGGTC
89008352 AAAACACCACTAAAA
1 AAAACACCACTAAAA
89008367 GTCATATAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 17 0.36
41 17 0.36
42 13 0.28
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.21
Consensus pattern (42 bp):
AAAACACCACTAAAAACTAAAGCAATAGTGGCGTTTATGGTC
Found at i:89009243 original size:14 final size:14
Alignment explanation
Indices: 89009192--89009243 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
89009182 TTAATTATCA
* *
89009192 TTATAGTTTAGGAT
1 TTATGGTTTAGGGT
*
89009206 TTATGGCTTAGGGT
1 TTATGGTTTAGGGT
* *
89009220 ATATGATTTAGGGT
1 TTATGGTTTAGGGT
*
89009234 TTAAGGTTTA
1 TTATGGTTTA
89009244 AGAGTTATTA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:89009273 original size:7 final size:7
Alignment explanation
Indices: 89009263--89009296 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
89009253 ATTTTAAGGT
89009263 TTATGGA
1 TTATGGA
89009270 TTATGGA
1 TTATGGA
*
89009277 TTATGGGT
1 TTAT-GGA
89009285 TTATGGA
1 TTATGGA
89009292 TTATG
1 TTATG
89009297 ATTGAAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (7 bp):
TTATGGA
Found at i:89009306 original size:22 final size:22
Alignment explanation
Indices: 89009256--89009307 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
89009246 AGTTATTATT
89009256 TTAA-GGTTTATGGATTATGGA
1 TTAAGGGTTTATGGATTATGGA
*
89009277 TTATGGGTTTATGGATTAT-GA
1 TTAAGGGTTTATGGATTATGGA
89009298 TTGAAGGGTT
1 TT-AAGGGTT
89009308 GGAGTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (22 bp):
TTAAGGGTTTATGGATTATGGA
Found at i:89009760 original size:22 final size:22
Alignment explanation
Indices: 89009709--89009760 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
89009699 ATATTTATTT
*
89009709 AAAATTAATATAAAATATATAA
1 AAAATCAATATAAAATATATAA
* *
89009731 TAATTCAATATAAAA-ATTATAA
1 AAAATCAATATAAAATA-TATAA
89009753 AAAATCAA
1 AAAATCAA
89009761 ATATTAGGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATCAATATAAAATATATAA
Found at i:89009978 original size:20 final size:18
Alignment explanation
Indices: 89009963--89009998 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
89009953 TATTTCTCTC
*
89009963 CCCCGATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
*
89009981 TCCCAATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
89009999 TCTCAGCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.42, G:0.03, T:0.47
Consensus pattern (18 bp):
CCCCAATTCCCTTTTCTT
Found at i:89009998 original size:72 final size:71
Alignment explanation
Indices: 89009881--89010029 Score: 203
Period size: 72 Copynumber: 2.1 Consensus size: 71
89009871 CATGTCATTT
* *
89009881 TATTTCTCTCCCCCCCAATTCCCTTCTTTCCCGATTCCACTTTCTTTCTCAGCCATTCTCAGCCT
1 TATTTCTCT-CCCCCCAATTCCCTTCTTTCCCAATTCCACTTTCTTTCTCAGCCATTCTCAACCT
89009946 GTACTTC
65 GTACTTC
* *
89009953 TATTTCTCT-CCCCCGATTCCCTTTTCTTTCCCAATTCC-CTTTTCTTTCTCAGCCTTTCTCAAC
1 TATTTCTCTCCCCCCAATTCCC--TTCTTTCCCAATTCCAC-TTTCTTTCTCAGCCATTCTCAAC
*
89010016 CTGTTCTTC
63 CTGTACTTC
89010025 TATTT
1 TATTT
89010030 TATACCCGAA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
70 11 0.16
71 1 0.01
72 57 0.83
ACGTcount: A:0.11, C:0.39, G:0.05, T:0.45
Consensus pattern (71 bp):
TATTTCTCTCCCCCCAATTCCCTTCTTTCCCAATTCCACTTTCTTTCTCAGCCATTCTCAACCTG
TACTTC
Found at i:89013470 original size:25 final size:25
Alignment explanation
Indices: 89013395--89013462 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
89013385 TCCGCATCGT
* *
89013395 CGTCGGCAGCCTTCTGCTACATCTC
1 CGTCGGCATCCCTCTGCTACATCTC
*
89013420 CGTTGGCATCCCTCTGCTACATCTC
1 CGTCGGCATCCCTCTGCTACATCTC
89013445 CGTCGGCATCCCTCTGCT
1 CGTCGGCATCCCTCTGCT
89013463 GCTTCTCCAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.10, C:0.41, G:0.19, T:0.29
Consensus pattern (25 bp):
CGTCGGCATCCCTCTGCTACATCTC
Found at i:89013889 original size:10 final size:10
Alignment explanation
Indices: 89013866--89013906 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
89013856 TCAGTTGAAA
* *
89013866 AATTATATAC
1 AATTATTTAT
*
89013876 AATTTTTTAT
1 AATTATTTAT
89013886 AATTATTTAT
1 AATTATTTAT
89013896 AATTATTTAT
1 AATTATTTAT
89013906 A
1 A
89013907 TAACTCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTATTTAT
Found at i:89014398 original size:23 final size:23
Alignment explanation
Indices: 89014372--89014521 Score: 139
Period size: 23 Copynumber: 6.5 Consensus size: 23
89014362 AAGTGTTGTT
*
89014372 AATTG-AGATGTTAAAGTGCTACA
1 AATTGAAG-TGTTAAAGTGCTGCA
*
89014395 AATTGAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
89014418 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* * *
89014441 AATTGAAGTGTTTGAA-CGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
* *
89014464 AATTGAAGTGTTTAAA-TGTTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
*
89014487 AATTGAAGTGCTTAAA-TGTTGCA
1 AATTGAAGTG-TTAAAGTGCTGCA
*
89014510 AATTGAATTGTT
1 AATTGAAGTGTT
89014522 TCAGTACTTA
Statistics
Matches: 111, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
22 7 0.06
23 93 0.84
24 11 0.10
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (23 bp):
AATTGAAGTGTTAAAGTGCTGCA
Found at i:89014445 original size:69 final size:69
Alignment explanation
Indices: 89014389--89014522 Score: 198
Period size: 69 Copynumber: 1.9 Consensus size: 69
89014379 ATGTTAAAGT
89014389 GCTACAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTT
1 GCTACAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA-TGCTGCAAATTGAAGTGTT
*
89014453 TGAAC
65 TAAAC
** * * *
89014458 GCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAATTGTTT
1 GCTACAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGCTGCAAATTGAAGTGTTT
89014523 CAGTACTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 54 0.92
70 5 0.08
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (69 bp):
GCTACAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGCTGCAAATTGAAGTGTTT
AAAC
Found at i:89014522 original size:46 final size:47
Alignment explanation
Indices: 89014382--89014522 Score: 187
Period size: 46 Copynumber: 3.0 Consensus size: 47
89014372 AATTGAGATG
*
89014382 TTAAAGTGCTACAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
* *
89014428 TTAAAGTGCTGCAAATTGAAGTGTTTGAACGCTGTAAATTGAAGTGT
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
* * * * * *
89014475 TTAAA-TGTTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAATTGT
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
89014521 TT
1 TT
89014523 CAGTACTTAT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
46 78 0.94
47 5 0.06
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (47 bp):
TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGT
Found at i:89016250 original size:43 final size:42
Alignment explanation
Indices: 89016193--89016463 Score: 159
Period size: 43 Copynumber: 6.3 Consensus size: 42
89016183 CTTTAGCGTC
* *
89016193 TTTAGCGGCACTTTTCTCAAAAATGTCGCTAAAGAACGTGACA
1 TTTAGCGGCGCTTTTCTCAAAAATG-CGCTAAAGAATGTGACA
* * * * *
89016236 TTTAGTGGTGCTTTTCACACAAATGCTGCTAAAGAATGTGTCA
1 TTTAGCGGCGCTTTTCTCAAAAATGC-GCTAAAGAATGTGACA
* * * * *
89016279 TTTAGCGGCGATTTTCTTAAAAACGCCGTTAAAGAATGTGACC
1 TTTAGCGGCGCTTTTCTCAAAAATG-CGCTAAAGAATGTGACA
* * * * ** * *
89016322 TTTAGCGTCGCTTTTCAT-ACAAATACCACTAAAGAACATAACT
1 TTTAGCGGCGCTTTTC-TCAAAAAT-GCGCTAAAGAATGTGACA
* * * ** * *
89016365 TTTAGCGGCGCTTTTCATACAAACA-CCACTAAAGAACATAACC
1 TTTAGCGGCGCTTTTC-T-CAAAAATGCGCTAAAGAATGTGACA
** * * *
89016408 TTTAGCAACACTTTTCTCAAAAATGTCGCTAAAGAACGTGACC
1 TTTAGCGGCGCTTTTCTCAAAAATG-CGCTAAAGAATGTGACA
*
89016451 TTTAGCAGCGCTT
1 TTTAGCGGCGCTT
89016464 GTAGCACCCC
Statistics
Matches: 178, Mismatches: 42, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
41 5 0.03
42 2 0.01
43 166 0.93
44 2 0.01
45 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGCTTTTCTCAAAAATGCGCTAAAGAATGTGACA
Found at i:89016354 original size:86 final size:86
Alignment explanation
Indices: 89016193--89016357 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 86
89016183 CTTTAGCGTC
* * *
89016193 TTTAGCGGCACTTTTCTCAAAAATGTCGCTAAAGAACGTGACATTTAGTGGTGCTTTTCACACAA
1 TTTAGCGGCACTTTTCTCAAAAACGCCGCTAAAGAACGTGACATTTAGTCGTGCTTTTCACACAA
* **
89016258 ATGCTGCTAAAGAATGTGTCA
66 ATACCACTAAAGAATGTGTCA
* * * * *
89016279 TTTAGCGGCGA-TTTTCTTAAAAACGCCGTTAAAGAATGTGACCTTTAG-CGTCGCTTTTCATAC
1 TTTAGCGGC-ACTTTTCTCAAAAACGCCGCTAAAGAACGTGACATTTAGTCGT-GCTTTTCACAC
89016342 AAATACCACTAAAGAA
64 AAATACCACTAAAGAA
89016358 CATAACTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 2 0.03
86 63 0.95
87 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (86 bp):
TTTAGCGGCACTTTTCTCAAAAACGCCGCTAAAGAACGTGACATTTAGTCGTGCTTTTCACACAA
ATACCACTAAAGAATGTGTCA
Found at i:89019064 original size:32 final size:32
Alignment explanation
Indices: 89019027--89019089 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
89019017 ATGCTTACCA
89019027 TGCCCATCATCCATTAACTATTAAAATGCTAT
1 TGCCCATCATCCATTAACTATTAAAATGCTAT
*
89019059 TGCCCATCATCTATTAACTATTAAAATGCTA
1 TGCCCATCATCCATTAACTATTAAAATGCTA
89019090 AAATGCATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (32 bp):
TGCCCATCATCCATTAACTATTAAAATGCTAT
Found at i:89021738 original size:22 final size:22
Alignment explanation
Indices: 89021710--89021755 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
89021700 ATTAGATTAA
89021710 ATTTACAAGTTTAGGGTTAATT
1 ATTTACAAGTTTAGGGTTAATT
89021732 ATTTACAAGTTTAGGGTTAATT
1 ATTTACAAGTTTAGGGTTAATT
89021754 AT
1 AT
89021756 ATTTTAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (22 bp):
ATTTACAAGTTTAGGGTTAATT
Found at i:89023865 original size:42 final size:42
Alignment explanation
Indices: 89023782--89023876 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
89023772 TAAAGTAAAT
*
89023782 AAAATATATAAATATATATATGTATATAATAAAAACAATACA
1 AAAATATATAAATATATATATATATATAATAAAAACAATACA
*
89023824 AAAACTATATATAATATA-A-ATATATATACATAAAAA-TATACA
1 AAAA-TATATA-AATATATATATATATATA-ATAAAAACAATACA
**
89023866 CTAATATATAA
1 AAAATATATAA
89023877 TAGTAATAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
40 1 0.02
41 6 0.13
42 19 0.41
43 14 0.30
44 6 0.13
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (42 bp):
AAAATATATAAATATATATATATATATAATAAAAACAATACA
Found at i:89024095 original size:3 final size:3
Alignment explanation
Indices: 89024082--89024164 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
89024072 GAGGACATAT
89024082 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
89024126 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
89024165 AACAAAGCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:89024106 original size:12 final size:12
Alignment explanation
Indices: 89024082--89024161 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
89024072 GAGGACATAT
89024082 ATAATAT-AATA
1 ATAATATAAATA
89024093 ATAATATAAATA
1 ATAATATAAATA
*
89024105 ATAATATATACATG
1 ATAATATA-A-ATA
*
89024119 AGAA-AT-AATA
1 ATAATATAAATA
89024129 ATAATATAAATA
1 ATAATATAAATA
* *
89024141 ATAGTAAAAATA
1 ATAATATAAATA
*
89024153 ATAAAATAA
1 ATAATATAA
89024162 TAAAACAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.09
11 10 0.18
12 32 0.58
13 3 0.05
14 5 0.09
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:89024527 original size:21 final size:23
Alignment explanation
Indices: 89024502--89024549 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
89024492 AAAAAAACAA
89024502 AAAACAAA-AA-AAACCTCCTCC
1 AAAACAAAGAACAAACCTCCTCC
* *
89024523 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAAGAACAAACCTCCTCC
89024546 AAAA
1 AAAA
89024550 AACCAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 2 0.09
23 13 0.57
ACGTcount: A:0.56, C:0.29, G:0.02, T:0.12
Consensus pattern (23 bp):
AAAACAAAGAACAAACCTCCTCC
Found at i:89024715 original size:4 final size:4
Alignment explanation
Indices: 89024706--89024732 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
89024696 GGCCAAGGTT
89024706 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
89024733 TTTGTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:89025126 original size:44 final size:44
Alignment explanation
Indices: 89025078--89025535 Score: 403
Period size: 44 Copynumber: 10.4 Consensus size: 44
89025068 ATCCGTTCAT
* * *
89025078 TATAAGCACAGGGATCCCAAATCTGCTGTTTTTAACTTGTTCCC
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
* ** * * * *
89025122 TATAAGCACAGGGATGTC--ATGCTGAAATCTTCGATCTAGTTCAC
1 TATAAGCACAGGGATGCCAAAT-CTGATGTTTTC-AACTTGTTCCC
* * * * * * * * *
89025166 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCCC
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT-TGTTCCC
*
89025210 TATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCC
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
89025254 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
** * * *
89025298 TATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-TGCTTCAC
1 TATAAGCACAGGGATGCCAAAT-CTGATGT-TTTCAACTTG-TTCCC
* * * * * * * * *
89025342 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCCC
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT-TGTTCCC
89025386 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
* *
89025430 TATAAACACAGGAATGCCAAATCTGATGTTTTCAACTTGTTCCC
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
* * ** *
89025474 TATAAGCACAAGGATGCC--ATGCTAAAATCTTCAACTTGTTCCC
1 TATAAGCACAGGGATGCCAAAT-CTGATGTTTTCAACTTGTTCCC
*
89025517 TATAAGTACAGGGATGCCA
1 TATAAGCACAGGGATGCCA
89025536 TGCTGAAATC
Statistics
Matches: 334, Mismatches: 64, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
42 6 0.02
43 48 0.14
44 259 0.78
45 17 0.05
46 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (44 bp):
TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
Found at i:89025253 original size:132 final size:131
Alignment explanation
Indices: 89025016--89025594 Score: 494
Period size: 132 Copynumber: 4.4 Consensus size: 131
89025006 GATATCCGCT
* * *
89025016 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATCCGTTCATTAT
1 ATCTTCGATCTG-TTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCACTAT
* * * * *
89025081 AAGCACAGGGATCCCAAATCTGCTGTTTTTAACTTGTTCCCTATAAGCACAGGGATGTC-ATGCT
65 AAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAT-CT
89025145 GAA
129 GAA
*
89025148 ATCTTCGATCTAGTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
1 ATCTTCGATCT-GTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCACTAT
* * *
89025213 AAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAATCT
65 AAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCC-AATCT
*
89025278 GAT
129 GAA
* * * * * * * ** * *
89025281 GTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGAAATCTTTGATCTGCTTCACT
1 ATCTTCGATC-TGTTCACTGTAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATCCG-TTCACT
* * * * * *
89025343 GTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCCCTATAAGCACAGGGATGCCAAA
63 ATAAGCACAGGGATGCCAAATCTGCTATCTTCAACT-TGTTCCCTATAAGCACAGGGATGCC-AA
*
89025407 TCTGAT
126 TCTGAA
* * * * * * * * * * * * * *
89025413 GTTTTC-AACTTGTTCCCTATAAACACAGGAATGCCAAATCTGATGTTTTC-AACTTGTTCCCTA
1 ATCTTCGATC-TGTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC-CGTTCACTA
* *** *
89025476 TAAGCACAAGGATGCC--ATGCTAAAATCTTCAACTTGTTCCCTATAAGTACAGGGATGCC-ATG
64 TAAGCACAGGGATGCCAAAT-CTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAAT-
89025538 CTGAA
127 CTGAA
* *
89025543 ATCTTGGATCTGCTTCACTGTAAGCACATGAATGTCAGATCTGCTATCTTCG
1 ATCTTCGATCTG-TTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
89025595 GTCTGCTCCT
Statistics
Matches: 368, Mismatches: 63, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
129 2 0.01
130 13 0.04
131 78 0.21
132 251 0.68
133 20 0.05
134 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (131 bp):
ATCTTCGATCTGTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCACTATA
AGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAATCTGA
A
Found at i:89025343 original size:176 final size:176
Alignment explanation
Indices: 89025078--89025505 Score: 750
Period size: 176 Copynumber: 2.4 Consensus size: 176
89025068 ATCCGTTCAT
* * * *
89025078 TATAAGCACAGGGATCCCAAATCTGCTGTTTTTAACTTGTTCCCTATAAGCACAGGGATGTCATG
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
89025143 CTGAAATCTTCGATCTAGTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTC
66 CTGAAATCTTCGATCTAGTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTC
*
89025208 CCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCC
131 CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
89025254 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
*
89025319 CTGAAATCTTTGATCT-GCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTT
66 CTGAAATCTTCGATCTAG-TTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTT
89025383 CCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
130 CCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
* * *
89025430 TATAAACACAGGAATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAAGGATGCCATG
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
*
89025495 CTAAAATCTTC
66 CTGAAATCTTC
89025506 AACTTGTTCC
Statistics
Matches: 240, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
175 1 0.00
176 239 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (176 bp):
TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
CTGAAATCTTCGATCTAGTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTC
CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
Found at i:89025734 original size:68 final size:68
Alignment explanation
Indices: 89025650--89025837 Score: 297
Period size: 68 Copynumber: 2.8 Consensus size: 68
89025640 TCTTCCACTC
* * * * *
89025650 AAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTCTGGAAGAAGAGGT-TT
1 AAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGATCCT
89025714 GCTG
66 -CTG
* *
89025718 AAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGATCCT
1 AAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGATCCT
89025783 CTG
66 CTG
89025786 AAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGG
1 AAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGG
89025838 GAAAAAAATT
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
68 109 0.99
69 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (68 bp):
AAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGATCCT
CTG
Found at i:89025973 original size:43 final size:43
Alignment explanation
Indices: 89025915--89026802 Score: 457
Period size: 43 Copynumber: 20.4 Consensus size: 43
89025905 CTATTTCCCA
* **
89025915 ACTGCTTAAGGGGTTAAGATCTGTAAATTCAACCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCGGCCTGTTACCCT
* * *
89025958 ACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCGGCCTGTTACCCT
* * * * *
89026003 ACTGCTTAGGGGTTTAAGGTTTGTAAATTCGGCTTATTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCGGCCTGTTACCCT
** * ** **** *
89026046 ACTGCTTAGGGGGTTAAAGCCCAT-CATTTTTTATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAGATC-TGTAAATTCGGCCTGTTACCCT
** *
89026090 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTTAGCCAGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCGGCCTGTTACCCT
* * * *
89026135 ACTGTTTAGGGGTTTAAG-GCTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATTCGGCCTGTTACCCT
* ** * ** * ** *
89026178 ACTGCTTAAGGGGTTAAAGCCCAT-CATCTTTGATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAGATC-TGTAAATTCGGCCTGTTACCCT
*
89026222 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCGGCCTGTTACCCT
* * *
89026267 ACTGCTTAGGGGGTTAAG-GCTTGTAAATTTGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATTCGGCCTGTTACCCT
** * ** ** *
89026310 ACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAGATC-TGTAAATTCGGCCTGTTACCCT
** ** *
89026354 ACTGCTTAGGGGGTTAAGATCT-TCATCTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGT-AAATTCGGCCTGTTACCCT
* * * *
89026397 ACTGCTTAGGGAGATAAGATCTG-CAATTCGGTCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCGGCCTGTTACCCT
* * * * * ** * *
89026439 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTCGATCTGTTTCTCT
1 ACTGCTTAGGGGGTTAAGA-TC-T-GTAAATTCGGCCTGTTACCCT
*
89026483 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCTGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCGGCCTGTTACCCT
* * *
89026528 ACTGCTTAGGGGGTTAAG-GCTTGTAAATTTGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATTCGGCCTGTTACCCT
* * ** * * ** *
89026571 ACTGTTTA-GGGGTTAA-AGC-CCATCATCTTGATCTGTT-TCCT
1 ACTGCTTAGGGGGTTAAGATCTGTA-AAT-TCGGCCTGTTACCCT
** * ** *
89026612 ACTGCTTA-GGGGTTAAGATCT-TCATCTTTGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGT-AAATTCGGCCTGTTACCCT
* * *
89026654 ACTGCTTAGGGAGATAAGATC--TACAATTCGGTCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTA-AATTCGGCCTGTTACCCT
* * * * * ** *
89026696 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGA-TC-T-GTAAATTCGGCCTGTTACCCT
*
89026740 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCGGCCTGTTACCCT
* *
89026785 ATTGCTTAGGGGCTTAAG
1 ACTGCTTAGGGGGTTAAG
89026803 GCTTGCGAAT
Statistics
Matches: 646, Mismatches: 154, Indels: 88
0.73 0.17 0.10
Matches are distributed among these distances:
40 1 0.00
41 35 0.05
42 92 0.14
43 191 0.30
44 150 0.23
45 176 0.27
47 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (43 bp):
ACTGCTTAGGGGGTTAAGATCTGTAAATTCGGCCTGTTACCCT
Found at i:89026084 original size:132 final size:130
Alignment explanation
Indices: 89025948--89026807 Score: 1084
Period size: 132 Copynumber: 6.6 Consensus size: 130
89025938 TAAATTCAAC
* * *
89025948 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * * **
89026013 GGTTTAAGGTTTGTAAATTCGGCTTATTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
66 GG-TTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTCG
89026078 AT
129 AT
* * *
89026080 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTTAGCCAGTTACCCTACTGTTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
89026145 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAAGGGGTTAAAGCCCATCATCTTTG
66 GG-TTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTT-AGGGGTTAAAGCCCATCATCTTCG
89026210 AT
129 AT
89026212 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTA-G
*
89026277 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
65 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTCG
89026342 AT
129 AT
* * *
89026344 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * *
89026406 GGAGATAA-GATCTG-CAATTCGG-TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCT
65 GG-GTTAAGGCT-TGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGTTAAAG-CCCATCATCT
89026468 TCGAT
126 TCGAT
* *
89026473 CTGTTTCTCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCTGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTA-G
* *
89026538 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGTTTAGGGGTTAAAGCCCATCATCTT-GA
65 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTCGA
89026602 T
130 T
* * * *
89026603 CTGTTT-CCTACTGCTTA-GGGGTTAAGATCT-T-CATCTT-TGATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * *
89026663 GGAGATAA-G-ATCTACAATTCGG-TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCT
65 GG-GTTAAGGCTTGTA-AATTCGGCT-TGTTACCCTACTGCTTAGGGGTTAAAG-CCCATCATCT
89026725 TCGAT
126 TCGAT
*
89026730 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTATTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
89026795 GGCTTAAGGCTTG
66 GG-TTAAGGCTTG
89026808 CGAATTCACT
Statistics
Matches: 638, Mismatches: 61, Indels: 57
0.84 0.08 0.08
Matches are distributed among these distances:
124 4 0.01
125 36 0.06
126 35 0.05
127 10 0.02
128 34 0.05
129 94 0.15
130 41 0.06
131 67 0.11
132 310 0.49
133 7 0.01
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (130 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTCGAT
Found at i:89026175 original size:175 final size:175
Alignment explanation
Indices: 89025864--89026192 Score: 455
Period size: 175 Copynumber: 1.9 Consensus size: 175
89025854 TTCCAGCCTG
* *
89025864 TTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
1 TTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
* *
89025929 TAAGATCTGTAAATTCAACCTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCC
66 TAAGATCTGTAAATTCAACCAGTTACCCTACTGGTTAGGGGGTTAAGACTTGTAAA-CTTCAGCC
89025994 TGTTACCCTACTGCTT-AGGGGTTTAAGGTTTGTAAATTCGGCTTA
130 TGTTACCCTACTGCTTAAGGGGTTTAAGGTTTGTAAATTCGGCTTA
* * ** * * *
89026039 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
* * * * * *
89026104 TAAGATCTGTAAATCTTTAGCCAGTTACCCTACTGTTTAGGGGTTTAAGGCTTGTAAA-TTCGGC
66 TAAGATCTGTAAA--TTCAACCAGTTACCCTACTGGTTAGGGGGTTAAGACTTGTAAACTTCAGC
*
89026168 TTGTTACCCTACTGCTTAAGGGGTT
129 CTGTTACCCTACTGCTTAAGGGGTT
89026193 AAAGCCCATC
Statistics
Matches: 133, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
175 90 0.68
176 7 0.05
177 36 0.27
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (175 bp):
TTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
TAAGATCTGTAAATTCAACCAGTTACCCTACTGGTTAGGGGGTTAAGACTTGTAAACTTCAGCCT
GTTACCCTACTGCTTAAGGGGTTTAAGGTTTGTAAATTCGGCTTA
Found at i:89026448 original size:42 final size:43
Alignment explanation
Indices: 89026338--89026762 Score: 226
Period size: 42 Copynumber: 9.9 Consensus size: 43
89026328 GCCCATCATC
* * * *
89026338 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATC
1 TTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCATA
89026381 TTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCA-A
1 TTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCATA
* * * * * * * * *
89026423 TTCGGTCTGTTACCCTACCGATTAGGG-GTTTAAGACCCTTCGTC
1 TTCGATCTGTTTCCCTACTGCTTAGGGAG-ATAAGA-TCTGCATA
* * * * *
89026467 TTCGATCTGTTTCTCTACTGCTTAGGGGGTTAAGATCTGTAAATC
1 TTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTG--CATA
* * * * * * *
89026512 TTCTG-CCTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAA
1 TTC-GATCTGTTTCCCTACTGCTTAGGGAGATAAGATC-TGCATA
* * * * * * *
89026555 TTTG-GCTTGTTACCCTACTGTTTAGGG-GTTAA-AGC-CCATCA
1 TTCGATC-TGTTTCCCTACTGCTTAGGGAGATAAGATCTGCAT-A
* * * *
89026596 TCTTGATCTGTTT-CCTACTGCTTAGGG-GTTAAGATCTTCATC
1 T-TCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCATA
* *
89026638 TTTGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTACA-A
1 TTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCATA
* * * * * * * * *
89026680 TTCGGTCTGTTACCCTACCGATTAGGG-GTTTAAGACCCTTCGTC
1 TTCGATCTGTTTCCCTACTGCTTAGGGAG-ATAAGA-TCTGCATA
* *
89026724 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTG
1 TTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTG
89026763 TAAATCTTCA
Statistics
Matches: 301, Mismatches: 60, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
40 1 0.00
41 33 0.11
42 88 0.29
43 85 0.28
44 58 0.19
45 35 0.12
46 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (43 bp):
TTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCATA
Found at i:89026731 original size:257 final size:260
Alignment explanation
Indices: 89025948--89026807 Score: 1304
Period size: 257 Copynumber: 3.3 Consensus size: 260
89025938 TAAATTCAAC
* * *
89025948 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * * * * *
89026013 GGTTTAAGGTTTGTAAATTCGGCTTATTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCA-TCTTG
* * * * *
89026078 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTT-AGCCAGTTACCCTACTGTTT
130 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTTGA-TCTGTTTCCCTACTGCTT
* * * * * * *
89026142 AGGG-GTTTAAGGCTTGTA-AATTCGG-CTTGTTACCCTACTGCTTAAGGGGTTAAAG-CCCATC
192 AGGGAG-ATAA-G-ATCTACAATTCGGTC-TGTTACCCTACCGATT-AGGGGTTTAAGACCCTTC
* *
89026203 ATCTTTGAT
252 GTCTTCGAT
89026212 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
89026277 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTT-G
*
89026342 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
130 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTTGATCTGTTTCCCTACTGCTTAGG
*
89026407 GAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
195 GAGATAAGATCTACAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
89026472 T
260 T
* *
89026473 CTGTTTCTCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCTGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
89026538 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGTTTA-GGGGTTAAAGCCCATCATCTTGA
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTGA
89026602 TCTGTTT-CCTACTGCTTA-GGGGTTAAGATCTTCATCTTTGATCTGTTTCCCTACTGCTTAGGG
131 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTTGATCTGTTTCCCTACTGCTTAGGG
89026665 AGATAAGATCTACAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
196 AGATAAGATCTACAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
*
89026730 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTATTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
89026795 GGCTTAAGGCTTG
66 GGGTTAAGGCTTG
89026808 CGAATTCACT
Statistics
Matches: 556, Mismatches: 34, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
257 182 0.33
258 11 0.02
259 9 0.02
260 33 0.06
261 137 0.25
262 27 0.05
263 6 0.01
264 151 0.27
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (260 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTGA
TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTTGATCTGTTTCCCTACTGCTTAGGG
AGATAAGATCTACAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
Found at i:89026972 original size:66 final size:66
Alignment explanation
Indices: 89026866--89026992 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
89026856 TCTATGCTTA
*
89026866 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
89026931 G
66 G
*
89026932 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
89026993 TATATGAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:89028182 original size:6 final size:6
Alignment explanation
Indices: 89028171--89028200 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
89028161 TGTGTTTTTT
89028171 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
89028201 ATATAACTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (6 bp):
TTTGCC
Found at i:89031036 original size:19 final size:19
Alignment explanation
Indices: 89030990--89031036 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
89030980 AGTGAAAGTT
89030990 TAATGCAAATGTTGCAATG
1 TAATGCAAATGTTGCAATG
* *
89031009 TAATACAAATGTATGGAATG
1 TAATGCAAATGT-TGCAATG
89031029 -AATGCAAA
1 TAATGCAAA
89031037 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (19 bp):
TAATGCAAATGTTGCAATG
Found at i:89033601 original size:19 final size:17
Alignment explanation
Indices: 89033577--89033623 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
89033567 AATTAAAGTA
*
89033577 ATAAAAAATAATACTATAT
1 ATAAAAAAT-ATA-TATAC
*
89033596 ATAAAATATATATATAC
1 ATAAAAAATATATATAC
89033613 AT-AAAAATATA
1 ATAAAAAATATA
89033624 CACTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 3 0.12
19 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATATATATAC
Found at i:89033619 original size:18 final size:19
Alignment explanation
Indices: 89033580--89033628 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
89033570 TAAAGTAATA
*
89033580 AAAAATA-ATACTATATAT
1 AAAAATATATACTATACAT
89033598 -AAAATATATA-TATACAT
1 AAAAATATATACTATACAT
*
89033615 AAAAATATACACTA
1 AAAAATATATACTA
89033629 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 12 0.46
18 12 0.46
19 2 0.08
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATATACTATACAT
Found at i:89033855 original size:3 final size:3
Alignment explanation
Indices: 89033842--89033924 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
89033832 GAGGGCATAT
89033842 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
89033886 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
89033925 AACAAAGCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:89033866 original size:12 final size:12
Alignment explanation
Indices: 89033842--89033921 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
89033832 GAGGGCATAT
89033842 ATAATAT-AATA
1 ATAATATAAATA
89033853 ATAATATAAATA
1 ATAATATAAATA
*
89033865 ATAATATATACATG
1 ATAATATA-A-ATA
*
89033879 AGAA-AT-AATA
1 ATAATATAAATA
89033889 ATAATATAAATA
1 ATAATATAAATA
* *
89033901 ATAGTAAAAATA
1 ATAATATAAATA
*
89033913 ATAAAATAA
1 ATAATATAA
89033922 TAAAACAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.09
11 10 0.18
12 32 0.58
13 3 0.05
14 5 0.09
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:89034280 original size:22 final size:22
Alignment explanation
Indices: 89034252--89034353 Score: 84
Period size: 22 Copynumber: 4.6 Consensus size: 22
89034242 TAACCTTTTT
89034252 TCCAAAAAAGCAAAAAAA-CACC
1 TCCAAAAAA-CAAAAAAACCACC
*
89034274 TCCAAAAAACAAAAAAACCTCC
1 TCCAAAAAACAAAAAAACCACC
**
89034296 TCC--AAAACAAAGAACAATCCTTC
1 TCCAAAAAACAAA-AA-AA-CCACC
* *
89034319 TCCAAAAAACCAAAAACCCACC
1 TCCAAAAAACAAAAAAACCACC
* *
89034341 CCCTAAAAACAAA
1 TCCAAAAAACAAA
89034354 GTCTTGAATG
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
20 8 0.12
21 10 0.15
22 30 0.46
23 8 0.12
24 2 0.03
25 7 0.11
ACGTcount: A:0.57, C:0.32, G:0.02, T:0.09
Consensus pattern (22 bp):
TCCAAAAAACAAAAAAACCACC
Found at i:89034446 original size:13 final size:13
Alignment explanation
Indices: 89034428--89034452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89034418 GGGTGGTAGA
89034428 GTTGGTGGCCAAG
1 GTTGGTGGCCAAG
89034441 GTTGGTGGCCAA
1 GTTGGTGGCCAA
89034453 CAAAGGTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.44, T:0.24
Consensus pattern (13 bp):
GTTGGTGGCCAAG
Found at i:89035376 original size:114 final size:113
Alignment explanation
Indices: 89035168--89035500 Score: 355
Period size: 114 Copynumber: 2.9 Consensus size: 113
89035158 TCCAAAAAGT
* * * *
89035168 GACGCCGTTTT-CAATCTATTAATAAATGTTTGTGGTGTTTGT-TATGAAAACGACGGTAATTCA
1 GACGCCGTTTTGCAATCTATTAATAGATGTTTGTGGAGTTT-TCTGTGAAAACGCCGGTAATTCA
* * * * *
89035231 TATCTTCTGCGGCATTTTTATAAAGCACCACTAATAACATGACTATAAAC
65 TACCTTTTGCGGCGTTTTTA-AAAGCGCCACTAATAACAAGACTATAAAC
* * * *
89035281 GACGTCGTTTTGCAATCTGTTAATAGATGTTTGTGGCGTTTTCTGGTGCAAACGCCGGTAATTCA
1 GACGCCGTTTTGCAATCTATTAATAGATGTTTGTGGAGTTTTCT-GTGAAAACGCCGGTAATTCA
* * *
89035346 CACCTTTTGCGGCGTTTATAAAAGCGCCACTAATAACAAGTCTATAAAC
65 TACCTTTTGCGGCGTTTTTAAAAGCGCCACTAATAACAAGACTATAAAC
* * * * * ** *
89035395 AACGCCCTTTTGCAATATCTTAATAGATGTTTTGTGGAGTTTTCAGTGAAAACGCTAGTAATACA
1 GACGCCGTTTTGCAATCTATTAATAGATG-TTTGTGGAGTTTTCTGTGAAAACGCCGGTAATTCA
* **
89035460 TGCCTTTTGCAACGTTTTTTAAAAAGCGCCACTAATAACAA
65 TACCTTTTGCGGCG-TTTTT-AAAAGCGCCACTAATAACAA
89035501 AGCTACAAAA
Statistics
Matches: 183, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
113 11 0.06
114 103 0.56
115 49 0.27
116 20 0.11
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (113 bp):
GACGCCGTTTTGCAATCTATTAATAGATGTTTGTGGAGTTTTCTGTGAAAACGCCGGTAATTCAT
ACCTTTTGCGGCGTTTTTAAAAGCGCCACTAATAACAAGACTATAAAC
Found at i:89035622 original size:3 final size:3
Alignment explanation
Indices: 89035616--89035659 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
89035606 TTTTTCTCTT
89035616 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
89035660 TACTAAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:89036054 original size:7 final size:7
Alignment explanation
Indices: 89036044--89036096 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
89036034 GATTTTATTG
89036044 TTTAGGA
1 TTTAGGA
*
89036051 TTTAGGG
1 TTTAGGA
89036058 TTTAAGG-
1 TTT-AGGA
*
89036065 TTTAGTA
1 TTTAGGA
89036072 TTTTAGGA
1 -TTTAGGA
89036080 TTTAGGA
1 TTTAGGA
89036087 TTTAGGA
1 TTTAGGA
89036094 TTT
1 TTT
89036097 TGTATTTAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 2 0.05
7 29 0.73
8 9 0.22
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (7 bp):
TTTAGGA
Found at i:89036058 original size:51 final size:50
Alignment explanation
Indices: 89035971--89036170 Score: 191
Period size: 51 Copynumber: 4.0 Consensus size: 50
89035961 TTCTTACGGT
* *
89035971 TTATAGTTTTAGGA-TTTA-GGATTTTGTATTTAAGGGTTTAAGAGTTTACTA
1 TTATAG-TTTAGGATTTTATGG-TTTTGGATTTAAGGGTTTAAG-GTTTAGTA
* *
89036022 TCTATAGTTTAGGATTTTATTGTTTAGGATTT-AGGGTTTAAGGTTTAGTA
1 T-TATAGTTTAGGATTTTATGGTTTTGGATTTAAGGGTTTAAGGTTTAGTA
* * *
89036072 TTTTAGGATTTAGGA-TTTA-GGATTTTGTATTTAAGGGTTTAAGGGTTTAGTT
1 TTATA-G-TTTAGGATTTTATGG-TTTTGGATTTAAGGGTTTAA-GGTTTAGTA
89036124 TTATAGTTTAAGG-TTTTATGGTTTTGGATTT-AGGGTTT-AGTGTTTAG
1 TTATAGTTT-AGGATTTTATGGTTTTGGATTTAAGGGTTTAAG-GTTTAG
89036171 GGTTTAAGGT
Statistics
Matches: 126, Mismatches: 11, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
48 1 0.01
49 11 0.09
50 31 0.25
51 51 0.40
52 31 0.25
53 1 0.01
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (50 bp):
TTATAGTTTAGGATTTTATGGTTTTGGATTTAAGGGTTTAAGGTTTAGTA
Found at i:89036060 original size:14 final size:14
Alignment explanation
Indices: 89036028--89036176 Score: 79
Period size: 14 Copynumber: 10.4 Consensus size: 14
89036018 ACTATCTATA
**
89036028 GTTTAGGATTTTATT
1 GTTTAGGA-TTTAGG
89036043 GTTTAGGATTTAGG
1 GTTTAGGATTTAGG
*
89036057 GTTTAAGG-TTTAGTA
1 GTTT-AGGATTTAG-G
*
89036072 TTTTAGGATTTAGG
1 GTTTAGGATTTAGG
* * *
89036086 ATTTAGGATTTTGT
1 GTTTAGGATTTAGG
* *
89036100 ATTTAAGGGTTTAAGG
1 GTTT-AGGATTT-AGG
* **
89036116 GTTTA-GTTTTATA
1 GTTTAGGATTTAGG
* *
89036129 GTTTAAGGTTTTATG
1 GTTT-AGGATTTAGG
*
89036144 GTTTTGGATTTAGG
1 GTTTAGGATTTAGG
89036158 GTTTAGTG-TTTAGG
1 GTTTAG-GATTTAGG
89036172 GTTTA
1 GTTTA
89036177 AGGTTACAAT
Statistics
Matches: 106, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
13 5 0.05
14 59 0.56
15 38 0.36
16 4 0.04
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (14 bp):
GTTTAGGATTTAGG
Found at i:89036060 original size:29 final size:29
Alignment explanation
Indices: 89036028--89036176 Score: 89
Period size: 29 Copynumber: 5.2 Consensus size: 29
89036018 ACTATCTATA
89036028 GTTTAGGATTTTATTGTTTAGGATTTAGG
1 GTTTAGGATTTTATTGTTTAGGATTTAGG
89036057 GTTTAAGG--TTTAGTAT-TTTAGGATTTAGG
1 GTTT-AGGATTTTA-T-TGTTTAGGATTTAGG
* * * *
89036086 ATTTAGGATTTTGTAT-TTAAGGGTTTAAGG
1 GTTTAGGATTTTAT-TGTTTAGGATTT-AGG
* * *
89036116 GTTTA-G-TTTTATAGTTTAAGGTTTTATG
1 GTTTAGGATTTTATTGTTT-AGGATTTAGG
* **
89036144 GTTTTGGA-TTTAGGGTTTAGTG-TTTAGG
1 GTTTAGGATTTTATTGTTTAG-GATTTAGG
89036172 GTTTA
1 GTTTA
89036177 AGGTTACAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 23
0.71 0.11 0.17
Matches are distributed among these distances:
28 31 0.33
29 49 0.52
30 14 0.15
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (29 bp):
GTTTAGGATTTTATTGTTTAGGATTTAGG
Found at i:89036438 original size:42 final size:42
Alignment explanation
Indices: 89036381--89036503 Score: 167
Period size: 42 Copynumber: 2.9 Consensus size: 42
89036371 GGCGTTTTTC
* *
89036381 AAAAAGCGCCGCTACTGATCGACCTATAGCAGCGTTTTTGTA
1 AAAAAGCGCCTCTACTGATCGACCTATAGCGGCGTTTTTGTA
* *
89036423 AAAAAACGCCTCTACTGATCGACCTATAACGGCGTTTTTGTA
1 AAAAAGCGCCTCTACTGATCGACCTATAGCGGCGTTTTTGTA
* * *
89036465 AAAAAGCG-CTGCTAATGCTCGATCTATAGCGGCGTTTTT
1 AAAAAGCGCCT-CTACTGATCGACCTATAGCGGCGTTTTT
89036504 CAAAAAGCAC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 2 0.03
42 69 0.97
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
AAAAAGCGCCTCTACTGATCGACCTATAGCGGCGTTTTTGTA
Found at i:89036520 original size:40 final size:40
Alignment explanation
Indices: 89036371--89036716 Score: 208
Period size: 40 Copynumber: 8.7 Consensus size: 40
89036361 AATTTTTTAT
* * *
89036371 GGCGTTTTTCAAAAAGCGCCGCTACTGATCGACCTATAGC
1 GGCGTTTTTCAAAAAGCGCTGCTAATGCTCGACCTATAGC
* * * * * *
89036411 AGCGTTTTTGTAAAAAAACGCCT-CTACTGATCGACCTATAAC
1 GGCG-TTTT-TCAAAAAGCG-CTGCTAATGCTCGACCTATAGC
* *
89036453 GGCGTTTTTGTAAAAAAGCGCTGCTAATGCTCGATCTATAGC
1 GGCG-TTTT-TCAAAAAGCGCTGCTAATGCTCGACCTATAGC
* * *
89036495 GGCGTTTTTCAAAAAGCACTGCTAATGCTCGATCTTTAGC
1 GGCGTTTTTCAAAAAGCGCTGCTAATGCTCGACCTATAGC
*
89036535 GGCGTTTTTCAAAAAGCGCCGCTAATGC-C-A-CTATA--
1 GGCGTTTTTCAAAAAGCGCTGCTAATGCTCGACCTATAGC
*** * ** ** ** * **
89036570 -GC--TCAACATAAAA-CGACGGCGTTGTGCTTAATTTTTTTC
1 GGCGTTTTTCA-AAAAGCG-CTGC-TAATGCTCGACCTATAGC
* * *
89036609 TGGCGTTTTTCAAAAAGCGCCGCTAGTGCTCAACCTATAGC
1 -GGCGTTTTTCAAAAAGCGCTGCTAATGCTCGACCTATAGC
* * * *
89036650 GGCGTTTTTTAGAAAGCGCCGCTAATGCTCGATCTATAGC
1 GGCGTTTTTCAAAAAGCGCTGCTAATGCTCGACCTATAGC
* *
89036690 GGCATTTTTCAAAAAGCGCCGCTAATG
1 GGCGTTTTTCAAAAAGCGCTGCTAATG
89036717 ACACTAAAGC
Statistics
Matches: 243, Mismatches: 46, Indels: 34
0.75 0.14 0.11
Matches are distributed among these distances:
32 5 0.02
33 7 0.03
34 6 0.02
36 1 0.00
37 6 0.02
38 1 0.00
39 1 0.00
40 117 0.48
41 23 0.09
42 70 0.29
43 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGCGCTGCTAATGCTCGACCTATAGC
Found at i:89036647 original size:155 final size:155
Alignment explanation
Indices: 89036465--89036761 Score: 468
Period size: 155 Copynumber: 1.9 Consensus size: 155
89036455 CGTTTTTGTA
* * * *
89036465 AAAAAGCGCTGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCACTGCTAATGCTCGATCT
1 AAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTTCAAAAAGCACCGCTAATGCTCGATCT
* * * *
89036530 TTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCACTATAGCTCAACATAAAACGACGGCGTTGT
66 ATAGCGGCATTTTTCAAAAAGCGCCGCTAATGACACTAAAGCTCAACATAAAACGACGGCGTTGT
89036595 GCTTAATTTTTTTCTGGCGTTTTTC
131 GCTTAATTTTTTTCTGGCGTTTTTC
* * * *
89036620 AAAAAGCGCCGCTAGTGCTCAACCTATAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCGATCT
1 AAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTTCAAAAAGCACCGCTAATGCTCGATCT
* *
89036685 ATAGCGGCATTTTTCAAAAAGCGCCGCTAATGACACTAAAGCTCGACATAAAACGACGGTGTTGT
66 ATAGCGGCATTTTTCAAAAAGCGCCGCTAATGACACTAAAGCTCAACATAAAACGACGGCGTTGT
89036750 GCTTAATTTTTT
131 GCTTAATTTTTT
89036762 GAATGCTCGA
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
155 128 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (155 bp):
AAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTTCAAAAAGCACCGCTAATGCTCGATCT
ATAGCGGCATTTTTCAAAAAGCGCCGCTAATGACACTAAAGCTCAACATAAAACGACGGCGTTGT
GCTTAATTTTTTTCTGGCGTTTTTC
Found at i:89042150 original size:21 final size:22
Alignment explanation
Indices: 89042121--89042167 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
89042111 CAGAAGGAGT
*
89042121 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
89042143 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
89042164 GAGT
1 GAGT
89042168 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:89049019 original size:18 final size:19
Alignment explanation
Indices: 89048982--89049022 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
89048972 ATTTAGAATC
89048982 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
89049001 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
89049019 AAAA
1 AAAA
89049023 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:89049024 original size:31 final size:31
Alignment explanation
Indices: 89048948--89049021 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
89048938 TCAAGTTATC
*
89048948 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
89048980 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
89049010 TTAAATATAAAA
1 TTAAATATAAAA
89049022 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:89052836 original size:30 final size:30
Alignment explanation
Indices: 89052795--89052896 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
89052785 CAATCTTTTG
89052795 TTTTTATTTTTTTTTTATTTTTAACATATAT
1 TTTTTA-TTTTTTTTTATTTTTAACATATAT
* *** * *
89052826 TTTTTA-TTTTTTTT-CTTTTATTGTTTAA
1 TTTTTATTTTTTTTTATTTTTAACATATAT
* *
89052854 TTTTAATTTTTTTTCATTTTTAACATATAT
1 TTTTTATTTTTTTTTATTTTTAACATATAT
89052884 TTTTTATTTTTTT
1 TTTTTATTTTTTT
89052897 CTTTCAAATT
Statistics
Matches: 54, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
28 13 0.24
29 15 0.28
30 20 0.37
31 6 0.11
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (30 bp):
TTTTTATTTTTTTTTATTTTTAACATATAT
Found at i:89052838 original size:29 final size:29
Alignment explanation
Indices: 89052803--89052896 Score: 109
Period size: 28 Copynumber: 3.2 Consensus size: 29
89052793 TGTTTTTATT
89052803 TTTTTTTTATTTTTAACATATATTTTTTA
1 TTTTTTTTATTTTTAACATATATTTTTTA
* *** * * *
89052832 TTTTTTTT-CTTTTATTGTTTAATTTTAA
1 TTTTTTTTATTTTTAACATATATTTTTTA
89052860 TTTTTTTTCATTTTTAACATATATTTTTTA
1 TTTTTTTT-ATTTTTAACATATATTTTTTA
89052890 TTTTTTT
1 TTTTTTT
89052897 CTTTCAAATT
Statistics
Matches: 49, Mismatches: 14, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
28 21 0.43
29 8 0.16
30 20 0.41
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (29 bp):
TTTTTTTTATTTTTAACATATATTTTTTA
Found at i:89052897 original size:29 final size:29
Alignment explanation
Indices: 89052803--89052897 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
89052793 TGTTTTTATT
*
89052803 TTTTTTTTATTTTTAACATATATTTTTTA
1 TTTTTTTCATTTTTAACATATATTTTTTA
*** * * *
89052832 TTTTTTT--TCTTTTATTGTTTAATTTTAA
1 TTTTTTTCAT-TTTTAACATATATTTTTTA
89052860 TTTTTTTTCATTTTTAACATATATTTTTTA
1 -TTTTTTTCATTTTTAACATATATTTTTTA
89052890 TTTTTTTC
1 TTTTTTTC
89052898 TTTCAAATTT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
27 1 0.02
28 13 0.26
29 22 0.44
30 13 0.26
31 1 0.02
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.74
Consensus pattern (29 bp):
TTTTTTTCATTTTTAACATATATTTTTTA
Found at i:89052994 original size:8 final size:8
Alignment explanation
Indices: 89052971--89053079 Score: 127
Period size: 8 Copynumber: 14.1 Consensus size: 8
89052961 AAACATGGAC
*
89052971 TAAAATTT
1 TAAATTTT
89052979 TAAA-TTT
1 TAAATTTT
89052986 TAAATTTT
1 TAAATTTT
*
89052994 TAAGTTTT
1 TAAATTTT
*
89053002 TAAGTTTT
1 TAAATTTT
*
89053010 TAAGTTTT
1 TAAATTTT
*
89053018 TAAGTTTT
1 TAAATTTT
89053026 T-AATTTT
1 TAAATTTT
*
89053033 TTAATTTT
1 TAAATTTT
*
89053041 TTAATTTT
1 TAAATTTT
89053049 TAAATTTT
1 TAAATTTT
89053057 TAAA-TTT
1 TAAATTTT
89053064 TAAA-TTT
1 TAAATTTT
89053071 TAAATTTT
1 TAAATTTT
89053079 T
1 T
89053080 TATTTTTATT
Statistics
Matches: 95, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
7 27 0.28
8 68 0.72
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (8 bp):
TAAATTTT
Found at i:89053017 original size:24 final size:23
Alignment explanation
Indices: 89052976--89053087 Score: 129
Period size: 23 Copynumber: 4.9 Consensus size: 23
89052966 TGGACTAAAA
* *
89052976 TTTTAAATTTTAAATTTTTAAGT
1 TTTTAATTTTTTAATTTTTAAGT
*
89052999 TTTTAAGTTTTTAAGTTTTTAAGT
1 TTTTAATTTTTTAA-TTTTTAAGT
89053023 TTTTAATTTTTTAATTTTTTAA-T
1 TTTTAATTTTTTAA-TTTTTAAGT
* * *
89053046 TTTTAAATTTTTAAATTTTAAAT
1 TTTTAATTTTTTAATTTTTAAGT
*
89053069 TTTAAATTTTTT-ATTTTTA
1 TTTTAATTTTTTAATTTTTA
89053088 TTTTGATTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
22 12 0.15
23 37 0.47
24 29 0.37
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTTAATTTTTTAATTTTTAAGT
Found at i:89053685 original size:7 final size:7
Alignment explanation
Indices: 89053673--89053722 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
89053663 CCCATGGCCA
89053673 TTAAACC
1 TTAAACC
89053680 TTAAACC
1 TTAAACC
*
89053687 ATAAAACC
1 -TTAAACC
*
89053695 CTAAACC
1 TTAAACC
* *
89053702 ATAGACC
1 TTAAACC
89053709 TTAAACC
1 TTAAACC
89053716 TTAAACC
1 TTAAACC
89053723 CAAAAATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (7 bp):
TTAAACC
Found at i:89053693 original size:15 final size:15
Alignment explanation
Indices: 89053670--89053720 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
89053660 ATACCCATGG
*
89053670 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
89053685 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
89053700 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
89053714 CCTTAAA
1 CCATAAA
89053721 CCCAAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:89054076 original size:40 final size:41
Alignment explanation
Indices: 89053986--89054128 Score: 155
Period size: 40 Copynumber: 3.5 Consensus size: 41
89053976 GTCGCTATTA
*** *
89053986 CTCTGGTTTTTAGCGGCGTTTTGTAAAAAACGCCACTAATG
1 CTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATG
* *
89054027 CTCTAGTTTTTAGCGGCG-TTTACCAAAAGTGCCACTAATG
1 CTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATG
* * * * *
89054067 CTCTGGTTTTTAGTGGTGTTTTACCAAAAGCGTCGCTATTG
1 CTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATG
* *
89054108 CT-TTGTTTTTAGCGGTGTTTT
1 CTCTGGTTTTTAGCGGCGTTTT
89054129 TGGTAAAACG
Statistics
Matches: 86, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 49 0.57
41 37 0.43
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (41 bp):
CTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCCACTAATG
Found at i:89059482 original size:26 final size:26
Alignment explanation
Indices: 89059453--89059560 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
89059443 TGGTACAAAT
*
89059453 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89059479 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89059505 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
89059531 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89059557 TGAT
1 TGAT
89059561 GGACATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89063324 original size:14 final size:14
Alignment explanation
Indices: 89063307--89063394 Score: 52
Period size: 14 Copynumber: 6.3 Consensus size: 14
89063297 TATAAATACA
89063307 AAACTCTAAACCTT
1 AAACTCTAAACCTT
*
89063321 AAACCCTAAA-CTAT
1 AAACTCTAAACCT-T
* * *
89063335 ATACACTAAACCCT
1 AAACTCTAAACCTT
* *
89063349 AAACTATAAACCAT
1 AAACTCTAAACCTT
* ** *
89063363 CATTTATAAACCTT
1 AAACTCTAAACCTT
* *
89063377 AAACCCTAAACCCT
1 AAACTCTAAACCTT
89063391 AAAC
1 AAAC
89063395 CTTGAACCTT
Statistics
Matches: 54, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
13 2 0.04
14 51 0.94
15 1 0.02
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACTCTAAACCTT
Found at i:89063331 original size:21 final size:20
Alignment explanation
Indices: 89063307--89063360 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
89063297 TATAAATACA
*
89063307 AAACTCTAAACCTTAAACCCT
1 AAACTATAAACC-TAAACCCT
*
89063328 AAACTATATACACTAAACCCT
1 AAACTATAAAC-CTAAACCCT
89063349 AAACTATAAACC
1 AAACTATAAACC
89063361 ATCATTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (20 bp):
AAACTATAAACCTAAACCCT
Found at i:89063343 original size:28 final size:29
Alignment explanation
Indices: 89063312--89063388 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
89063302 ATACAAAACT
*
89063312 CTAAACCTTAAACCCTAAACTAT-ATACA
1 CTAAACCTTAAACCCTAAACCATCATACA
* ** **
89063340 CTAAACCCTAAACTATAAACCATCATTTA
1 CTAAACCTTAAACCCTAAACCATCATACA
89063369 -TAAACCTTAAACCCTAAACC
1 CTAAACCTTAAACCCTAAACC
89063389 CTAAACCTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
28 36 0.92
29 3 0.08
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTAAACCTTAAACCCTAAACCATCATACA
Found at i:89063351 original size:35 final size:35
Alignment explanation
Indices: 89063285--89063395 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
89063275 TGTTTATCCC
* * *
89063285 TAAACCCTAAACTATAAATACAAAACTCTAAACCT
1 TAAACCCTAAACTATAAACACTAAACCCTAAACCT
*
89063320 TAAACCCTAAACTATATACACTAAACCCTAAA-CT
1 TAAACCCTAAACTATAAACACTAAACCCTAAACCT
* * ** *
89063354 ATAAACCATCATTTATAAAC-CTTAAACCCTAAACCC
1 -TAAACCCTAAACTATAAACAC-TAAACCCTAAACCT
89063390 TAAACC
1 TAAACC
89063396 TTGAACCTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
34 3 0.05
35 59 0.94
36 1 0.02
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (35 bp):
TAAACCCTAAACTATAAACACTAAACCCTAAACCT
Found at i:89063402 original size:7 final size:7
Alignment explanation
Indices: 89063392--89063416 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
89063382 CTAAACCCTA
89063392 AACCTTG
1 AACCTTG
89063399 AACCTTG
1 AACCTTG
89063406 AACCTTG
1 AACCTTG
89063413 AACC
1 AACC
89063417 ATAAAACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (7 bp):
AACCTTG
Found at i:89063402 original size:14 final size:14
Alignment explanation
Indices: 89063371--89063421 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
89063361 ATCATTTATA
* *
89063371 AACCTTAAACCCTA
1 AACCTTAAACCTTG
*
89063385 AACCCTAAACCTTG
1 AACCTTAAACCTTG
*
89063399 AACCTTGAACCTTG
1 AACCTTAAACCTTG
*
89063413 AACCATAAA
1 AACCTTAAA
89063422 ACCCTAACTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.41, C:0.31, G:0.06, T:0.22
Consensus pattern (14 bp):
AACCTTAAACCTTG
Found at i:89064594 original size:261 final size:263
Alignment explanation
Indices: 89064103--89064632 Score: 701
Period size: 261 Copynumber: 2.0 Consensus size: 263
89064093 GTTTTCAATA
* * * *
89064103 AAAACGTTGCAAAAATGTATTAAGATTTTAAATGACATCGTTTTTAGCTTTGTTATTAGTGGTGC
1 AAAACGTGGCAAAAATGTATTAAGATTTTAAACGACACCATTTTTAGCTTTGTTATTAGTGGTGC
* *
89064168 TTTTTTAAAAAACGCTGCAAAATGTATGAATTACCAGCATTTTCAGTGAAAACACCACAAAAATC
66 TTTTTTAAAAAACGCCGCAAAAGGTATGAATTACCAGCATTTTCAGTGAAAACACCACAAAAATC
* * * * * * *
89064233 TATTAAGTGACTACAAAACAGTGACGTTTAATGCGTTGTTATTAGTGGTGTTTTGTCTAAATCGC
131 TATTAAATGACTACAAAACAGCGACGTTTAATGAGTTGTTACTAGTGGCGTTTTGTATAAATCAC
* * *
89064298 TGCGAATATGTATTAAGTGTTCAAAAAATGGCACCGTTTTGTGCTTCGTTTTTAGTGGCGTTTTG
196 TGCGAATATGTATTAAGTGTTCAAAAAACGGCACCGTTTTGTGCTTCGTTTTTAATGGCATTTT-
89064363 C-GT
260 CTGT
* *
89064366 AAAACGTGGGAAAAATGTATTAAGATTTTAAACGACACCATTTTTAGCTTT-TTATTAGTGGT-T
1 AAAACGTGGCAAAAATGTATTAAGATTTTAAACGACACCATTTTTAGCTTTGTTATTAGTGGTGC
* ** ** *
89064429 TTTTCTTATAAAACGCCGCAAAAGGTATGAATTACTGGTGTTTTCAAG-GAAAACGCCACAAAAA
66 TTTT-TTAAAAAACGCCGCAAAAGGTATGAATTACCAGCATTTTC-AGTGAAAACACCACAAAAA
* * ** *
89064493 TCTATTAAATGATTGCAAAATGGCG-CGTTTAATGAGTTGTTACTAGTGGCGTTTTGTATAAATT
129 TCTATTAAATGACTACAAAACAGCGACGTTTAATGAGTTGTTACTAGTGGCGTTTTGTATAAATC
* * * *
89064557 ATTGTGAATATGTATTAAGTGTTCGAAAAACGGCACCGTTTTGTGCTTTGTTTTTAATGGCATTT
194 ACTGCGAATATGTATTAAGTGTTCAAAAAACGGCACCGTTTTGTGCTTCGTTTTTAATGGCATTT
89064622 TCTGT
259 TCTGT
89064627 AAAACG
1 AAAACG
89064633 CCGCAAAAGG
Statistics
Matches: 231, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
260 1 0.00
261 104 0.45
262 78 0.34
263 48 0.21
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (263 bp):
AAAACGTGGCAAAAATGTATTAAGATTTTAAACGACACCATTTTTAGCTTTGTTATTAGTGGTGC
TTTTTTAAAAAACGCCGCAAAAGGTATGAATTACCAGCATTTTCAGTGAAAACACCACAAAAATC
TATTAAATGACTACAAAACAGCGACGTTTAATGAGTTGTTACTAGTGGCGTTTTGTATAAATCAC
TGCGAATATGTATTAAGTGTTCAAAAAACGGCACCGTTTTGTGCTTCGTTTTTAATGGCATTTTC
TGT
Found at i:89067812 original size:13 final size:14
Alignment explanation
Indices: 89067796--89067824 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
89067786 TTCTAAATAT
89067796 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
89067809 TTATAATGGTTTAA
1 TTATAATGGTTTAA
89067823 TT
1 TT
89067825 CATCGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:89068290 original size:21 final size:21
Alignment explanation
Indices: 89068266--89068305 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
89068256 GGGCGGAAGC
89068266 AGCAACGAGGGAAGCAGAGGT
1 AGCAACGAGGGAAGCAGAGGT
** *
89068287 AGCAGTGAGGGAAGTAGAG
1 AGCAACGAGGGAAGCAGAG
89068306 CAAAGCAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.45, T:0.07
Consensus pattern (21 bp):
AGCAACGAGGGAAGCAGAGGT
Found at i:89068694 original size:43 final size:42
Alignment explanation
Indices: 89068616--89068803 Score: 154
Period size: 43 Copynumber: 4.5 Consensus size: 42
89068606 TTAGTGGTGT
* *** * * *
89068616 TTTGC-GAAAAGCGCTGCTAAAAACCAAGTTTTATAGCGGCG
1 TTTGCAGAAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGCA
* * * **
89068657 TTTGCAGTAAAAGCACCGCTAAAGGCCACATTCTATAGCAACA
1 TTTGCAG-AAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGCA
* *
89068700 TTTGTGAGAAAAGCGCCGCTAAAGATCACGTTCTATAGCGGCA
1 TTTG-CAGAAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGCA
*
89068743 TTT-CTGAAAAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGC-
1 TTTGC--AGAAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGCA
*
89068785 --TG-GGAAAAGCGCCGCTAAA
1 TTTGCAGAAAAGCGCCGCTAAA
89068804 AACCTATTTT
Statistics
Matches: 119, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
38 15 0.13
40 1 0.01
41 5 0.04
42 1 0.01
43 95 0.80
44 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (42 bp):
TTTGCAGAAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGCA
Found at i:89068766 original size:86 final size:86
Alignment explanation
Indices: 89068621--89068781 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 86
89068611 GGTGTTTTGC
* * * *
89068621 GAAAAGCGCTGCTAAAAACCAAGTTTTATAGCGGCGTTTGCAGTAAAAGCACCGCTAAAGGCCAC
1 GAAAAGCGCCGCTAAAAACCAAGTTCTATAGCGGCATTTGCAGAAAAAGCACCGCTAAAGGCCAC
89068686 ATTCTATAGCAACATTTGTGA
66 ATTCTATAGCAACATTTGTGA
* * * * * *
89068707 GAAAAGCGCCGCTAAAGATCACGTTCTATAGCGGCATTT-CTGAAAAAAGCGCCGCTAAAGGTCA
1 GAAAAGCGCCGCTAAAAACCAAGTTCTATAGCGGCATTTGCAG-AAAAAGCACCGCTAAAGGCCA
*
89068771 CGTTCTATAGC
65 CATTCTATAGC
89068782 GGCTGGGAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
85 2 0.03
86 61 0.97
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (86 bp):
GAAAAGCGCCGCTAAAAACCAAGTTCTATAGCGGCATTTGCAGAAAAAGCACCGCTAAAGGCCAC
ATTCTATAGCAACATTTGTGA
Found at i:89070623 original size:205 final size:205
Alignment explanation
Indices: 89070271--89070682 Score: 815
Period size: 205 Copynumber: 2.0 Consensus size: 205
89070261 GATTTTACGT
89070271 TTGAAAATTCGAATAATGAATTAAAAATATATTACTTAAAAAATTAATTAAAAATTGAATGCATA
1 TTGAAAATTCGAATAATGAATTAAAAATATATTACTTAAAAAATTAATTAAAAATTGAATGCATA
*
89070336 AAATCAAATATAATCCATGAGGCTTTAGAAAGTAGTTGCTATAAAAATGAGTAATTCTGAATTTG
66 AAATCAAATATAATCCATGAGGCTTTAGAAAGTAGTTGCTATAAAAATGAATAATTCTGAATTTG
89070401 GTTGATTCTCCATGATTGTTTGATGTTGCAATCTTCTTTTAGATTTGTTCTTCTAGTGGACTCAT
131 GTTGATTCTCCATGATTGTTTGATGTTGCAATCTTCTTTTAGATTTGTTCTTCTAGTGGACTCAT
89070466 CAAGGTGGCA
196 CAAGGTGGCA
89070476 TTGAAAATTCGAATAATGAATTAAAAATATATTACTTAAAAAATTAATTAAAAATTGAATGCATA
1 TTGAAAATTCGAATAATGAATTAAAAATATATTACTTAAAAAATTAATTAAAAATTGAATGCATA
89070541 AAATCAAATATAATCCATGAGGCTTTAGAAAGTAGTTGCTATAAAAATGAATAATTCTGAATTTG
66 AAATCAAATATAATCCATGAGGCTTTAGAAAGTAGTTGCTATAAAAATGAATAATTCTGAATTTG
89070606 GTTGATTCTCCATGATTGTTTGATGTTGCAATCTTCTTTTAGATTTGTTCTTCTAGTGGACTCAT
131 GTTGATTCTCCATGATTGTTTGATGTTGCAATCTTCTTTTAGATTTGTTCTTCTAGTGGACTCAT
89070671 CAAGGTGGCA
196 CAAGGTGGCA
89070681 TT
1 TT
89070683 AAAGTGGCTT
Statistics
Matches: 206, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 206 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (205 bp):
TTGAAAATTCGAATAATGAATTAAAAATATATTACTTAAAAAATTAATTAAAAATTGAATGCATA
AAATCAAATATAATCCATGAGGCTTTAGAAAGTAGTTGCTATAAAAATGAATAATTCTGAATTTG
GTTGATTCTCCATGATTGTTTGATGTTGCAATCTTCTTTTAGATTTGTTCTTCTAGTGGACTCAT
CAAGGTGGCA
Done.