Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 198 of 214
Found at i:57915645 original size:26 final size:26
Alignment explanation
Indices: 57915577--57915644 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
57915567 AAAAAGTATT
**
57915577 TTAAAAATATTTTAAAATTAAAAAAA
1 TTAAAAATATTAAAAAATTAAAAAAA
**
57915603 TTAAAAATATTTTAAAATTAAAAAAA
1 TTAAAAATATTAAAAAATTAAAAAAA
57915629 TTAAAAA-ATTAAAAAA
1 TTAAAAATATTAAAAAA
57915645 AATTATTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 7 0.17
26 33 0.82
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
TTAAAAATATTAAAAAATTAAAAAAA
Found at i:57917295 original size:13 final size:13
Alignment explanation
Indices: 57917277--57917305 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
57917267 TTTTTGTTCA
57917277 TTTTTTAAAAATT
1 TTTTTTAAAAATT
57917290 TTTTTTAAAAATT
1 TTTTTTAAAAATT
57917303 TTT
1 TTT
57917306 ATTATATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTTAAAAATT
Found at i:57918139 original size:17 final size:17
Alignment explanation
Indices: 57918117--57918168 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
57918107 ACTATATAAG
57918117 AAAATTTAATAAAC-AAA
1 AAAATTTAA-AAACTAAA
*
57918134 AAAATTTAAAAACTTAA
1 AAAATTTAAAAACTAAA
*
57918151 AAAA-TTAAAAATTAAA
1 AAAATTTAAAAACTAAA
57918167 AA
1 AA
57918169 TTAAATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATTTAAAAACTAAA
Found at i:57918152 original size:7 final size:7
Alignment explanation
Indices: 57918133--57918173 Score: 55
Period size: 7 Copynumber: 5.4 Consensus size: 7
57918123 TAATAAACAA
57918133 AAAAATTT
1 AAAAA-TT
57918141 AAAAACTT
1 AAAAA-TT
57918149 AAAAAATT
1 -AAAAATT
57918157 AAAAATT
1 AAAAATT
57918164 AAAAATT
1 AAAAATT
57918171 AAA
1 AAA
57918174 TTAAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
7 17 0.55
8 9 0.29
9 5 0.16
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:57921190 original size:16 final size:16
Alignment explanation
Indices: 57921169--57921199 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57921159 TATTAAAATT
*
57921169 TATATTTTTGTATAAA
1 TATATTTATGTATAAA
57921185 TATATTTATGTATAA
1 TATATTTATGTATAA
57921200 TTGAGGTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
TATATTTATGTATAAA
Found at i:57922282 original size:20 final size:20
Alignment explanation
Indices: 57922240--57922287 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
57922230 ATTCATTTTC
* **
57922240 TATAAAAATACACACTATTT
1 TATAAAAATACACACAAAAT
*
57922260 TATAAAAATACATACAAAAT
1 TATAAAAATACACACAAAAT
57922280 TATAAAAA
1 TATAAAAA
57922288 ATGAATATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.29
Consensus pattern (20 bp):
TATAAAAATACACACAAAAT
Found at i:57922961 original size:11 final size:11
Alignment explanation
Indices: 57922945--57922970 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
57922935 GAACTTTTAA
57922945 TTTTTTTAAAT
1 TTTTTTTAAAT
57922956 TTTTTTTAAAT
1 TTTTTTTAAAT
57922967 TTTT
1 TTTT
57922971 AAGAATCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:57928710 original size:29 final size:30
Alignment explanation
Indices: 57928668--57928729 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
57928658 TATATTTTTA
*
57928668 ATTTTTAAAGGATTAGA-TCAAAATTTTATC
1 ATTTTTAAAGGATTAAAGT-AAAATTTTATC
* *
57928698 ATTTTTGAA-GATTAAAGTATAATTTTATC
1 ATTTTTAAAGGATTAAAGTAAAATTTTATC
57928727 ATT
1 ATT
57928730 ACTAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.47
Consensus pattern (30 bp):
ATTTTTAAAGGATTAAAGTAAAATTTTATC
Found at i:57932118 original size:25 final size:24
Alignment explanation
Indices: 57932090--57932207 Score: 105
Period size: 25 Copynumber: 4.8 Consensus size: 24
57932080 TCTCGTTTAA
*
57932090 TGGCTCTCACGAGCTTCCCGATATT
1 TGGCTCTCATGAGCTTCCCGAT-TT
* * *
57932115 TGGCTCTTATGAGCTTCTCGATTAG
1 TGGCTCTCATGAGCTTCCCGATT-T
*
57932140 TGGCTCTCTTGAGCTTCCCG-TTT
1 TGGCTCTCATGAGCTTCCCGATTT
*
57932163 ATGGCTCGT-ATGAGCTTCCCGATAAT
1 -TGGCTC-TCATGAGCTTCCCGAT-TT
* *
57932189 TGGCTCGCAAGAGCTTCCC
1 TGGCTCTCATGAGCTTCCC
57932208 ATTACATGGC
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
24 20 0.27
25 54 0.72
26 1 0.01
ACGTcount: A:0.15, C:0.28, G:0.23, T:0.34
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCCGATTT
Found at i:57932126 original size:50 final size:49
Alignment explanation
Indices: 57932067--57932207 Score: 133
Period size: 50 Copynumber: 2.9 Consensus size: 49
57932057 TCCATTATTA
*
57932067 GCTCTTATGAGAATCTCGTTTAATGGCTCTCACGAGCTTCCCGATATT-TG
1 GCTCTTATGAGAATCTCGATTAATGGCTCTCACGAGCTTCCCG-T-TTATG
** * **
57932117 GCTCTTATGAGCTTCTCGATTAGTGGCTCTCTTGAGCTTCCCGTTTATG
1 GCTCTTATGAGAATCTCGATTAATGGCTCTCACGAGCTTCCCGTTTATG
* ** * * *
57932166 GCTCGTATGAGCTTCCCGA-TAATTGGCTCGCAAGAGCTTCCC
1 GCTCTTATGAGAATCTCGATTAA-TGGCTCTCACGAGCTTCCC
57932208 ATTACATGGC
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
48 4 0.05
49 36 0.47
50 37 0.48
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (49 bp):
GCTCTTATGAGAATCTCGATTAATGGCTCTCACGAGCTTCCCGTTTATG
Found at i:57932193 original size:49 final size:49
Alignment explanation
Indices: 57932090--57932232 Score: 144
Period size: 49 Copynumber: 2.9 Consensus size: 49
57932080 TCTCGTTTAA
* * * *
57932090 TGGCTCTCACGAGCTTCCCGATATT-TGGCTCTTATGAGCTTCTCGATTAG
1 TGGCTCTCAAGAGCTTCCCG-T-TTATGGCTCGTATGAGCTTCCCGATAAG
** *
57932140 TGGCTCTCTTGAGCTTCCCGTTTATGGCTCGTATGAGCTTCCCGATAAT
1 TGGCTCTCAAGAGCTTCCCGTTTATGGCTCGTATGAGCTTCCCGATAAG
* * * * *
57932189 TGGCTCGCAAGAGCTTCCCATTACATGGCTCGAAAGAGCTTCCC
1 TGGCTCTCAAGAGCTTCCCGTT-TATGGCTCGTATGAGCTTCCC
57932233 ATTTACATGC
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
48 2 0.03
49 40 0.51
50 36 0.46
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.32
Consensus pattern (49 bp):
TGGCTCTCAAGAGCTTCCCGTTTATGGCTCGTATGAGCTTCCCGATAAG
Found at i:57932217 original size:25 final size:25
Alignment explanation
Indices: 57932150--57932245 Score: 92
Period size: 25 Copynumber: 3.9 Consensus size: 25
57932140 TGGCTCTCTT
* * * *
57932150 GAGCTTCCCGTT-TATGGCTCGTAT
1 GAGCTTCCCATTACATGGCTCGAAA
*
57932174 GAGCTTCCCGA-TA-ATTGGCTCGCAA
1 GAGCTTCCC-ATTACA-TGGCTCGAAA
57932199 GAGCTTCCCATTACATGGCTCGAAA
1 GAGCTTCCCATTACATGGCTCGAAA
57932224 GAGCTTCCCATTTACAT-GCTCG
1 GAGCTTCCCA-TTACATGGCTCG
57932246 TATAGGCATA
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
24 12 0.19
25 43 0.69
26 7 0.11
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCATTACATGGCTCGAAA
Found at i:57933872 original size:24 final size:23
Alignment explanation
Indices: 57933807--57933952 Score: 69
Period size: 24 Copynumber: 5.8 Consensus size: 23
57933797 AAACATAAAT
*
57933807 GGGAAGCTCATGTGAGCCATGTAAC
1 GGGAAGCTCAT-AGAGCCAT-TAAC
*
57933832 AGGAAGCTTCGA-AGAGCCATTAAC
1 GGGAAGC-TC-ATAGAGCCATTAAC
* *
57933856 GGGAAGCTCATACGAGCCAATATC
1 GGGAAGCTCATA-GAGCCATTAAC
* ** **
57933880 GAGAAGCTCCGGAGAGAAAATTAATC
1 GGGAAGCT-CATAGAG-CCATTAA-C
*
57933906 GGGAAGCTCATGAAAGAGCCTTTAATC
1 GGGAAGCTCAT---AGAGCCATTAA-C
*
57933933 GGGAAGCTCCAAAGAGCCAT
1 GGGAAGCT-CATAGAGCCAT
57933953 ATATCAGGAC
Statistics
Matches: 90, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
22 1 0.01
23 3 0.03
24 29 0.32
25 26 0.29
26 10 0.11
27 15 0.17
28 6 0.07
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (23 bp):
GGGAAGCTCATAGAGCCATTAAC
Found at i:57934046 original size:24 final size:24
Alignment explanation
Indices: 57934013--57934089 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
57934003 CACAACCAAT
*
57934013 CGGGATGCTCCAAAGAGCTATTAA
1 CGGGAAGCTCCAAAGAGCTATTAA
* *
57934037 CGGGAAGCTCGC-AAGAACCATATAA
1 CGGGAAGCTC-CAAAGAGCTAT-TAA
* * *
57934062 TGGGAAGCT-CATGAGAGCTAATAA
1 CGGGAAGCTCCA-AAGAGCTATTAA
57934086 CGGG
1 CGGG
57934090 GCACTCTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
23 1 0.03
24 22 0.55
25 17 0.43
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (24 bp):
CGGGAAGCTCCAAAGAGCTATTAA
Found at i:57937086 original size:35 final size:35
Alignment explanation
Indices: 57936986--57937225 Score: 132
Period size: 35 Copynumber: 6.7 Consensus size: 35
57936976 ATCCGCGAAA
* * *
57936986 GAAT-TTGCGCCCAGCACTAGTCGGATAAACCGAT
1 GAATATTGCGCCCAGCGCTAGTCGGATAAACCAAC
* * * *
57937020 GAATAATTAGTTAGCCTAGCTCTAGTTGGATAAACCAAC
1 GAAT-ATT-G--CGCCCAGCGCTAGTCGGATAAACCAAC
*
57937059 -AATATTCGCGCCCAGCGCTAGTCGGATAAACCGAC
1 GAATATT-GCGCCCAGCGCTAGTCGGATAAACCAAC
* * * * ** **
57937094 GAAT-GTGTGCCCAACACTAGTCAAATAAACTGAC
1 GAATATTGCGCCCAGCGCTAGTCGGATAAACCAAC
*
57937128 GAA-AGTTGCACCCAGCGCTAGTCGGATAAACCAAC
1 GAATA-TTGCGCCCAGCGCTAGTCGGATAAACCAAC
* * *
57937163 GAATAATTAGTGAGCCCAACTG-TAGTTGGATAAACCAAC
1 GAAT-A-T--TGCGCCCAGC-GCTAGTCGGATAAACCAAC
* *
57937202 G-ATATTTGCACCTAGCGCTAGTCG
1 GAATA-TTGCGCCCAGCGCTAGTCG
57937226 AACGAATCGA
Statistics
Matches: 154, Mismatches: 38, Indels: 27
0.70 0.17 0.12
Matches are distributed among these distances:
34 30 0.19
35 58 0.38
36 5 0.03
37 10 0.06
38 5 0.03
39 45 0.29
40 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (35 bp):
GAATATTGCGCCCAGCGCTAGTCGGATAAACCAAC
Found at i:57937222 original size:74 final size:74
Alignment explanation
Indices: 57936988--57937225 Score: 252
Period size: 74 Copynumber: 3.3 Consensus size: 74
57936978 CCGCGAAAGA
* * * * * *
57936988 ATTTGCGCCCAGCACTAGTCGGATAAACCGATGAATAATTAGTTAGCCTAGCTCTAGTTGGATAA
1 ATTTGCACCCAGCGCTAGTCGGATAAACCGACGAATAATTAGTGAGCCCAACTCTAGTTGGATAA
*
57937053 ACCAACAAT
66 ACCAACGAT
* * * * ***
57937062 ATTCGCGCCCAGCGCTAGTCGGATAAACCGACG---AA-T-GTGTGCCCAACACTAGTCAAATAA
1 ATTTGCACCCAGCGCTAGTCGGATAAACCGACGAATAATTAGTGAGCCCAACTCTAGTTGGATAA
** *
57937122 ACTGACGAA
66 ACCAACGAT
* * *
57937131 AGTTGCACCCAGCGCTAGTCGGATAAACCAACGAATAATTAGTGAGCCCAACTGTAGTTGGATAA
1 ATTTGCACCCAGCGCTAGTCGGATAAACCGACGAATAATTAGTGAGCCCAACTCTAGTTGGATAA
57937196 ACCAACGAT
66 ACCAACGAT
*
57937205 ATTTGCACCTAGCGCTAGTCG
1 ATTTGCACCCAGCGCTAGTCG
57937226 AACGAATCGA
Statistics
Matches: 129, Mismatches: 30, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
69 50 0.39
70 1 0.01
71 2 0.02
72 2 0.02
73 1 0.01
74 73 0.57
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (74 bp):
ATTTGCACCCAGCGCTAGTCGGATAAACCGACGAATAATTAGTGAGCCCAACTCTAGTTGGATAA
ACCAACGAT
Found at i:57939539 original size:5 final size:5
Alignment explanation
Indices: 57939518--57939550 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
57939508 AGTTAAGCTA
*
57939518 TATAT TATA- TATGT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
57939551 AAAGAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:57940534 original size:25 final size:25
Alignment explanation
Indices: 57940506--57940607 Score: 83
Period size: 22 Copynumber: 4.3 Consensus size: 25
57940496 ACTTAAGCGC
* **
57940506 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTACTAGCACGTCAGT
*
57940531 GCTCTTTGATTACTAGCACGTCAGT
1 GCTCTCTGATTACTAGCACGTCAGT
**
57940556 GCTCTCTG-TT--TAGCAAATCTA-T
1 GCTCTCTGATTACTAGCACGTC-AGT
*
57940578 GCTCTCTG--TA-TAGCACTTCAGT
1 GCTCTCTGATTACTAGCACGTCAGT
57940600 GCTCTCTG
1 GCTCTCTG
57940608 TTCATTAATG
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.03
22 32 0.49
23 1 0.02
24 2 0.03
25 28 0.43
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGTCAGT
Found at i:57942669 original size:42 final size:42
Alignment explanation
Indices: 57942610--57942698 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
57942600 CTATTTCGTT
* *
57942610 CACACGGGCAGAGACACAGGCATGTGTCTCAACTGTGTGTGA
1 CACACGGCCAGAGACACAGACATGTGTCTCAACTGTGTGTGA
* *
57942652 CACACGGCCAGAGACACAGACGTGTGTCTCAGCTGTGTGTGA
1 CACACGGCCAGAGACACAGACATGTGTCTCAACTGTGTGTGA
57942694 CACAC
1 CACAC
57942699 AGCTAGGCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.27, G:0.29, T:0.18
Consensus pattern (42 bp):
CACACGGCCAGAGACACAGACATGTGTCTCAACTGTGTGTGA
Found at i:57965340 original size:24 final size:24
Alignment explanation
Indices: 57965313--57965362 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
57965303 GAGATTGTTT
*
57965313 TTATTAACCTTTTATACTATTAAA
1 TTATTAACCTTTTATACTATAAAA
* **
57965337 TTATTCATTTTTTATACTATAAAA
1 TTATTAACCTTTTATACTATAAAA
57965361 TT
1 TT
57965363 GTAATCTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATTAACCTTTTATACTATAAAA
Found at i:57967108 original size:19 final size:19
Alignment explanation
Indices: 57967084--57967137 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
57967074 TGAACCTCAG
*
57967084 TTCAAGTTTAGGGTTT-GA
1 TTCAAGTTCAGGGTTTAGA
*
57967102 CTTCAAGTTCAGGATTTAGA
1 -TTCAAGTTCAGGGTTTAGA
57967122 TTCAATGTTCAGGGTT
1 TTCAA-GTTCAGGGTT
57967138 AAAAAGATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (19 bp):
TTCAAGTTCAGGGTTTAGA
Found at i:57972711 original size:21 final size:21
Alignment explanation
Indices: 57972673--57972712 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
57972663 ATTGACATCT
*
57972673 TTTTTTTAACAAGTTAATAAG
1 TTTTTTTAACAAGATAATAAG
57972694 TTTTTTTATACAA-ATAATA
1 TTTTTTTA-ACAAGATAATA
57972713 TAAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTTTTTAACAAGATAATAAG
Found at i:57973155 original size:18 final size:19
Alignment explanation
Indices: 57973124--57973160 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
57973114 AAAAAGACGA
57973124 AGTTAATAAATATAAATAT
1 AGTTAATAAATATAAATAT
*
57973143 AGTT-ATAATTATAAATAT
1 AGTTAATAAATATAAATAT
57973161 TAAATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AGTTAATAAATATAAATAT
Found at i:57978680 original size:64 final size:64
Alignment explanation
Indices: 57978552--57978673 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 64
57978542 GGTACACTTC
* * *
57978552 TTTTCTGGTCGCTTTATAAATATTAGTTTTCTTTTTTTTTTTAAATCTAAATTTGAAAAAATATA
1 TTTTCTGGTCGCTTTATAAATATAAG-TTTCTTATTTTTTTAAAATCTAAATTTGAAAAAATATA
*
57978617 TTTT-TGGTGGCTTTATAAATATAAG-TT-TTATTTTTTTAAAATCTAAATTTGAAAAAA
1 TTTTCTGGTCGCTTTATAAATATAAGTTTCTTATTTTTTTAAAATCTAAATTTGAAAAAA
57978674 AAATATAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
61 28 0.53
62 2 0.04
64 19 0.36
65 4 0.08
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.52
Consensus pattern (64 bp):
TTTTCTGGTCGCTTTATAAATATAAGTTTCTTATTTTTTTAAAATCTAAATTTGAAAAAATATA
Found at i:57981977 original size:11 final size:11
Alignment explanation
Indices: 57981963--57981987 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
57981953 AAAAACTTCA
57981963 TAAAATATTTT
1 TAAAATATTTT
57981974 TAAAATATTTT
1 TAAAATATTTT
57981985 TAA
1 TAA
57981988 TTGATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAAAATATTTT
Found at i:57992006 original size:13 final size:13
Alignment explanation
Indices: 57991990--57992017 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57991980 TATTTTTCAT
57991990 TTACATTTATGAG
1 TTACATTTATGAG
57992003 TTACATTTATGAG
1 TTACATTTATGAG
57992016 TT
1 TT
57992018 TAAGAGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTACATTTATGAG
Found at i:57992150 original size:47 final size:46
Alignment explanation
Indices: 57992099--57992188 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 46
57992089 ATTAAAAAAT
* *
57992099 AAATAAAATATAGTTATAAACAATTAAAAATCTTTAAAAAAAATAAA
1 AAATAAAAAATAGCTATAAACAATTAAAAATC-TTAAAAAAAATAAA
* *
57992146 AAATAAAAAATAGCTATAAAGAATTAAAAATCTTAAAAGAAAT
1 AAATAAAAAATAGCTATAAACAATTAAAAATCTTAAAAAAAAT
57992189 CTCGGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 10 0.26
47 29 0.74
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (46 bp):
AAATAAAAAATAGCTATAAACAATTAAAAATCTTAAAAAAAATAAA
Found at i:57996886 original size:14 final size:14
Alignment explanation
Indices: 57996864--57996901 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
57996854 TGGGGTGTGC
*
57996864 GGTTATTCTAACTT
1 GGTTCTTCTAACTT
57996878 GGTTCTTCTAACTT
1 GGTTCTTCTAACTT
57996892 GGTTCTTCTA
1 GGTTCTTCTA
57996902 GAGATAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (14 bp):
GGTTCTTCTAACTT
Found at i:58001405 original size:24 final size:24
Alignment explanation
Indices: 58001349--58001413 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
58001339 TTACTGGTAA
*
58001349 AATTTAATATATATATATAAATATATG
1 AATTTAATATA-A-AT-TCAATATATG
58001376 AATTTAATATAAATTCAATATAT-
1 AATTTAATATAAATTCAATATATG
*
58001399 AATTTTACTATAAAT
1 AA-TTTAATATAAAT
58001414 AAACTTGGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 19 0.54
25 2 0.06
26 1 0.03
27 11 0.31
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (24 bp):
AATTTAATATAAATTCAATATATG
Found at i:58002174 original size:5 final size:5
Alignment explanation
Indices: 58002164--58002196 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
58002154 GTTAAAATAC
58002164 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGT
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGT
58002197 GGCGCCTGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.61, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:58002388 original size:3 final size:3
Alignment explanation
Indices: 58002360--58002425 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
58002350 AAGACGGTAG
* * * *
58002360 AGA AGA A-A AAA AGA GAGAA AGG AGA AGA AG- AGA AGG AGA AGG AGA
1 AGA AGA AGA AGA AGA -AG-A AGA AGA AGA AGA AGA AGA AGA AGA AGA
58002405 AGA AGA AGA AG- AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA A
58002426 AAAAGAAAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
2 6 0.12
3 40 0.78
4 4 0.08
5 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:58002403 original size:20 final size:20
Alignment explanation
Indices: 58002359--58002425 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
58002349 CAAGACGGTA
* *
58002359 GAGAAGAAAAAAAGAGAGAAAG
1 GAGAAGAAGAGAAG-GAG-AAG
58002381 GAGAAGAAGAGAAGGAGAAG
1 GAGAAGAAGAGAAGGAGAAG
58002401 GAGAAGAAGAAGAA-GAGAAG
1 GAGAAGAAG-AGAAGGAGAAG
*
58002421 AAGAA
1 GAGAA
58002426 AAAAGAAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
20 22 0.54
21 7 0.17
22 12 0.29
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
GAGAAGAAGAGAAGGAGAAG
Found at i:58002435 original size:14 final size:15
Alignment explanation
Indices: 58002401--58002445 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
58002391 GAAGGAGAAG
*
58002401 GAGAAGAAG-AAGAA
1 GAGAAGAAGAAAAAA
58002415 GAGAAGAAGAAAAAA
1 GAGAAGAAGAAAAAA
58002430 GA-AAGAAAGAAAAAA
1 GAGAAG-AAGAAAAAA
58002445 G
1 G
58002446 GTAATGTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
GAGAAGAAGAAAAAA
Found at i:58002647 original size:22 final size:22
Alignment explanation
Indices: 58002601--58002656 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
58002591 TAGATTAGAA
*
58002601 TTTTGTATGAATATTTTAAAGT
1 TTTTGTATGAATATTATAAAGT
58002623 TTTTGTATGAATATTAT--A-T
1 TTTTGTATGAATATTATAAAGT
*
58002642 TTTTTTATGAATATT
1 TTTTGTATGAATATT
58002657 GTAATGTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 1 0.03
22 16 0.50
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (22 bp):
TTTTGTATGAATATTATAAAGT
Found at i:58002650 original size:19 final size:19
Alignment explanation
Indices: 58002601--58002675 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 19
58002591 TAGATTAGAA
*
58002601 TTTTGTATGAATATTTTAAAGT
1 TTTTGTATGAATA--TTATA-T
58002623 TTTTGTATGAATATTATAT
1 TTTTGTATGAATATTATAT
* * *
58002642 TTTTTTATGAATATTGTAA
1 TTTTGTATGAATATTATAT
*
58002661 TGTTGTATGAATATT
1 TTTTGTATGAATATT
58002676 GTAATTATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 30 0.64
20 4 0.09
22 13 0.28
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTTGTATGAATATTATAT
Found at i:58002740 original size:22 final size:22
Alignment explanation
Indices: 58002715--58002912 Score: 104
Period size: 22 Copynumber: 8.4 Consensus size: 22
58002705 ATAGTTTTGG
58002715 ATTAGTAATTTTTTGTATGAAT
1 ATTAGTAATTTTTTGTATGAAT
58002737 ATTA-TAATTTTTTTGTATGAAT
1 ATTAGTAA-TTTTTTGTATGAAT
* *
58002759 ACTGTAATATTATAGTTTTGTATGAAT
1 A-T-TAGTA--AT-TTTTTGTATGAAT
*
58002786 ATT-GCAATTCTTTTGTATGAAT
1 ATTAGTAATT-TTTTGTATGAAT
*
58002808 ATT-GTAATTTTGTAATTTTATATGAAT
1 ATTAGTAA---T-T--TTTTGTATGAAT
*
58002835 ATTA-TATTTTTTTGTATGAAT
1 ATTAGTAATTTTTTGTATGAAT
58002856 ATT-GTAATATTATAATTTTGTATGAAT
1 ATTAGT-A-A-T-T--TTTTGTATGAAT
* *
58002883 ATTA-CAATTTTTTTGTATGGAT
1 ATTAGTAA-TTTTTTGTATGAAT
58002905 ATT-GTAAT
1 ATTAGTAAT
58002913 ATTGTAATTT
Statistics
Matches: 140, Mismatches: 13, Indels: 47
0.70 0.06 0.23
Matches are distributed among these distances:
21 19 0.14
22 56 0.40
23 2 0.01
24 6 0.04
25 8 0.06
26 4 0.03
27 45 0.32
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (22 bp):
ATTAGTAATTTTTTGTATGAAT
Found at i:58002782 original size:27 final size:26
Alignment explanation
Indices: 58002747--58002939 Score: 180
Period size: 27 Copynumber: 7.8 Consensus size: 26
58002737 ATTATAATTT
* *
58002747 TTTTGTATGAATACTGTAATATTATAG
1 TTTTGTATGAATATTGTAATATT-TAA
* *
58002774 TTTTGTATGAATATTG-CA-A-TT-C
1 TTTTGTATGAATATTGTAATATTTAA
*
58002796 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
*
58002823 TTTTATATGAATA-T-T-ATATTT--
1 TTTTGTATGAATATTGTAATATTTAA
58002844 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATT-TAA
58002871 TTTTGTATGAATA-T-TACA-ATTT--
1 TTTTGTATGAATATTGTA-ATATTTAA
*
58002893 TTTTGTATGGATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
58002920 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
58002940 GTGGGGATAT
Statistics
Matches: 137, Mismatches: 11, Indels: 36
0.74 0.06 0.20
Matches are distributed among these distances:
21 12 0.09
22 29 0.21
23 6 0.04
24 16 0.12
25 10 0.07
26 5 0.04
27 59 0.43
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (26 bp):
TTTTGTATGAATATTGTAATATTTAA
Found at i:58002784 original size:49 final size:49
Alignment explanation
Indices: 58002725--58002939 Score: 315
Period size: 49 Copynumber: 4.4 Consensus size: 49
58002715 ATTAGTAATT
* *
58002725 TTTTGTATGAATATTATAATTTTTTTGTATGAATACTGTAATATTATAG
1 TTTTGTATGAATATTATAATTTTTTTGTATGAATATTGTAATATTATAA
** * * *
58002774 TTTTGTATGAATATTGCAATTCTTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTATAATTTTTTTGTATGAATATTGTAATATTATAA
*
58002823 TTTTATATGAATATTAT-ATTTTTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTATAATTTTTTTGTATGAATATTGTAATATTATAA
* * *
58002871 TTTTGTATGAATATTACAATTTTTTTGTATGGATATTGTAATATTGTAA
1 TTTTGTATGAATATTATAATTTTTTTGTATGAATATTGTAATATTATAA
*
58002920 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
58002940 GTGGGGATAT
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
48 43 0.29
49 103 0.71
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.54
Consensus pattern (49 bp):
TTTTGTATGAATATTATAATTTTTTTGTATGAATATTGTAATATTATAA
Found at i:58002897 original size:97 final size:98
Alignment explanation
Indices: 58002725--58002939 Score: 351
Period size: 97 Copynumber: 2.2 Consensus size: 98
58002715 ATTAGTAATT
* *
58002725 TTTTGTATGAATATTATAATTTTTTTGTATGAATACTGTAATATTATAGTTTTGTATGAATATTG
1 TTTTGTATGAATATTATAATTTTTTTGTATGAATACTGTAATATTATAATTTTGTATGAATATTA
*
58002790 CAATTCTTTTGTATGAATATTGTAATTTTGTAA
66 CAATTCTTTTGTATGAATATTGTAATATTGTAA
* *
58002823 TTTTATATGAATATTAT-ATTTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTA
1 TTTTGTATGAATATTATAATTTTTTTGTATGAATACTGTAATATTATAATTTTGTATGAATATTA
* *
58002887 CAATTTTTTTGTATGGATATTGTAATATTGTAA
66 CAATTCTTTTGTATGAATATTGTAATATTGTAA
*
58002920 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
58002940 GTGGGGATAT
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
97 89 0.83
98 18 0.17
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.54
Consensus pattern (98 bp):
TTTTGTATGAATATTATAATTTTTTTGTATGAATACTGTAATATTATAATTTTGTATGAATATTA
CAATTCTTTTGTATGAATATTGTAATATTGTAA
Found at i:58003346 original size:16 final size:15
Alignment explanation
Indices: 58003320--58003367 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
58003310 GTTAACTCAT
*
58003320 TTAATTTTTATATGA
1 TTAAATTTTATATGA
* *
58003335 TGTAACTTTTATATAA
1 T-TAAATTTTATATGA
*
58003351 TTAAATTTTATTTGA
1 TTAAATTTTATATGA
58003366 TT
1 TT
58003368 TTGTATTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.58
Consensus pattern (15 bp):
TTAAATTTTATATGA
Found at i:58008052 original size:16 final size:14
Alignment explanation
Indices: 58008012--58008053 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
58008002 CCTAATTTTT
58008012 TTTCTTCTTTTC-C
1 TTTCTTCTTTTCTC
*
58008025 TTCCTTCTTTTCTTC
1 TTTCTTCTTTTC-TC
58008040 TTTCTTCTGTTTCT
1 TTTCTTCT-TTTCT
58008054 GTAATCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 11 0.46
15 9 0.38
16 4 0.17
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTCTTCTTTTCTC
Found at i:58010629 original size:104 final size:106
Alignment explanation
Indices: 58010367--58010803 Score: 507
Period size: 101 Copynumber: 4.2 Consensus size: 106
58010357 CAAGTCCTAT
* * *
58010367 AAATTTTTTTTTATTTTTAT-GTATTTTTATATCTAATTCTGACACGAAAAAAAAAAGGAAATTT
1 AAATTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACG---AAAAAAA-GAAAATT
* *
58010431 TTTTTACTGTGT-ACTGGGTGCTGGCAATTGACAGGCCAGCACCCAAAA
62 TTTTTACTGT-TCACTGGGTGCCGGCCATTGACAGGCCAGCACCC---A
58010479 AAATTTTGTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAGAATAATTTT
1 AAATTTT-TTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAGAA-AATTTT
58010544 TTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCC-
64 TTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCA
*
58010586 AAA-TTTTTTTTATTTTTTT-GTATTTTTATATCTGATTCTGACACG---AAAAGAAAA---ATT
1 AAATTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAGAAAATTTTTT
58010643 TACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCA
66 TACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCA
*
58010684 AAATTTTTTTTTAATTTTTTTTCGTATTTTTATATCTGACTCTGACACG---AAAA-AAAA---T
1 AAATTTTTTTTT-A-TTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAGAAAATTTT
* * * * * *
58010742 TTTACTATTTACTTGGTGCCAGCCATTAACAGGCTAGCA-CCA
64 TTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCA
*
58010784 AAATTTTTTTTTCTTTTTTT
1 AAATTTTTTTTTATTTTTTT
58010804 TCTTTTTTGT
Statistics
Matches: 301, Mismatches: 15, Indels: 32
0.86 0.04 0.09
Matches are distributed among these distances:
97 42 0.14
98 10 0.03
99 8 0.03
100 18 0.06
101 51 0.17
102 29 0.10
104 26 0.09
105 13 0.04
106 3 0.01
107 3 0.01
110 4 0.01
111 50 0.17
112 7 0.02
113 12 0.04
114 25 0.08
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (106 bp):
AAATTTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAGAAAATTTTTT
TACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCA
Found at i:58011694 original size:31 final size:32
Alignment explanation
Indices: 58011656--58011716 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
58011646 CAACTTAACA
58011656 AACAAATGCCTCTAAAATAATAA-AAAATTTT
1 AACAAATGCCTCTAAAATAATAATAAAATTTT
* *
58011687 AACAAATGTCTTTAAAATAATAATAAAATT
1 AACAAATGCCTCTAAAATAATAATAAAATT
58011717 AACAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 21 0.78
32 6 0.22
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (32 bp):
AACAAATGCCTCTAAAATAATAATAAAATTTT
Found at i:58012074 original size:14 final size:14
Alignment explanation
Indices: 58012033--58012075 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
58012023 CAGCCAAGTA
*
58012033 AATTAATTGATTTTT
1 AATTAATTGA-ATTT
* *
58012048 AATTAAATAAATTT
1 AATTAATTGAATTT
58012062 AATTAATTGAATTT
1 AATTAATTGAATTT
58012076 TCTAAATTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (14 bp):
AATTAATTGAATTT
Found at i:58013651 original size:30 final size:30
Alignment explanation
Indices: 58013617--58013681 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
58013607 CAACTTAACA
58013617 AACAAATACCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
** *
58013647 AACAAATGTCTTTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
58013677 AACAA
1 AACAA
58013682 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.25
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:58022379 original size:17 final size:18
Alignment explanation
Indices: 58022335--58022379 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 18
58022325 ATTTATTTTC
58022335 TTATTTATTGTTCTAAATT
1 TTATTTATTGTTCT-AATT
58022354 TTAATTTATTGTTCT-ATT
1 TT-ATTTATTGTTCTAATT
58022372 TTATTTAT
1 TTATTTAT
58022380 CTTAGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 2 0.08
20 12 0.48
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (18 bp):
TTATTTATTGTTCTAATT
Found at i:58028928 original size:13 final size:14
Alignment explanation
Indices: 58028902--58028943 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
58028892 TTAACTAATC
58028902 ATTTATTATTTTCA
1 ATTTATTATTTTCA
58028916 ATTTATT-TTTTCA
1 ATTTATTATTTTCA
*
58028929 A-ATATGTATTTTCA
1 ATTTAT-TATTTTCA
58028943 A
1 A
58028944 CCCCAAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 3 0.12
13 8 0.32
14 14 0.56
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (14 bp):
ATTTATTATTTTCA
Found at i:58046172 original size:15 final size:15
Alignment explanation
Indices: 58046152--58046195 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
58046142 CTAAGGAAAT
58046152 GGATTAAGAAAAAAC
1 GGATTAAGAAAAAAC
*
58046167 GGATTAAG---AAAT
1 GGATTAAGAAAAAAC
58046179 GGATTAAGAAAAAAC
1 GGATTAAGAAAAAAC
58046194 GG
1 GG
58046196 TTACGCGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 11 0.46
15 13 0.54
ACGTcount: A:0.55, C:0.05, G:0.25, T:0.16
Consensus pattern (15 bp):
GGATTAAGAAAAAAC
Found at i:58046184 original size:12 final size:12
Alignment explanation
Indices: 58046147--58046189 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
58046137 AAAAACTAAG
58046147 GAAATGGATTAA
1 GAAATGGATTAA
*
58046159 GAAAAAACGGATTAA
1 G---AAATGGATTAA
58046174 GAAATGGATTAA
1 GAAATGGATTAA
58046186 GAAA
1 GAAA
58046190 AAACGGTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 15 0.58
15 11 0.42
ACGTcount: A:0.56, C:0.02, G:0.23, T:0.19
Consensus pattern (12 bp):
GAAATGGATTAA
Found at i:58057362 original size:18 final size:17
Alignment explanation
Indices: 58057341--58057398 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
58057331 TTCATGAACT
58057341 TTTTATTTTTTAATTTAA
1 TTTTATTTTTTAA-TTAA
*
58057359 TTTTATTTTTTTAA-TAT
1 TTTTA-TTTTTTAATTAA
58057376 TTTTATATTTTTAAATT-A
1 TTTTAT-TTTTT-AATTAA
58057394 TTTTA
1 TTTTA
58057399 ATCTATTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
16 1 0.03
17 12 0.35
18 12 0.35
19 9 0.26
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATTTTTTAATTAA
Found at i:58057379 original size:17 final size:18
Alignment explanation
Indices: 58057340--58057397 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
58057330 TTTCATGAAC
58057340 TTTTTA-TTTTTTAATTTA
1 TTTTTATTTTTTTAA-TTA
*
58057358 ATTTTATTTTTTTAA-TA
1 TTTTTATTTTTTTAATTA
*
58057375 TTTTTATATTTTTAAATTA
1 TTTTTAT-TTTTTTAATTA
58057394 TTTT
1 TTTT
58057398 AATCTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 8 0.24
18 12 0.35
19 14 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATTTTTTTAATTA
Found at i:58057395 original size:19 final size:18
Alignment explanation
Indices: 58057340--58057397 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
58057330 TTTCATGAAC
*
58057340 TTTTTATTTTTTAATTTA
1 TTTTTATTTTTTAAATTA
* *
58057358 ATTTTATTTTTTTAA-TA
1 TTTTTATTTTTTAAATTA
58057375 TTTTTATATTTTTAAATTA
1 TTTTTAT-TTTTTAAATTA
58057394 TTTT
1 TTTT
58057398 AATCTATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 8 0.24
18 19 0.58
19 6 0.18
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATTTTTTAAATTA
Found at i:58058189 original size:20 final size:20
Alignment explanation
Indices: 58058164--58058203 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
58058154 GTCTCAAAAA
58058164 TACTTCTTAGAAACAAATAC
1 TACTTCTTAGAAACAAATAC
58058184 TACTTCTTAGAAACAAATAC
1 TACTTCTTAGAAACAAATAC
58058204 AAAACTGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (20 bp):
TACTTCTTAGAAACAAATAC
Found at i:58063070 original size:40 final size:40
Alignment explanation
Indices: 58062949--58063088 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
58062939 GACTTCGAGT
* * *
58062949 CGATGAGACACTGAGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGAGTGTCAAATTATTACTTCGGATT-ATC
* * * * *
58062990 CGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGAGTGTCAAATTATTACTTCGGATTATC
*
58063027 CGATGAGACACTGAGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGAGTGTCAAATTATTACTTCGGATTATC
* * *
58063067 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGAGTGTCAAA
58063089 CTGGTGTGTT
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
37 16 0.20
38 13 0.16
39 2 0.03
40 33 0.42
41 15 0.19
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGAGTGTCAAATTATTACTTCGGATTATC
Found at i:58065423 original size:23 final size:24
Alignment explanation
Indices: 58065393--58065437 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
58065383 AAGTATACAT
58065393 ATTTTAAA-AAA-ATATATTTTCA
1 ATTTTAAAGAAACATATATTTTCA
*
58065415 ATTTGTAAAGAAACATTTATTTT
1 ATTT-TAAAGAAACATATATTTT
58065438 AATGTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
24 3 0.16
25 8 0.42
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTTTAAAGAAACATATATTTTCA
Found at i:58067685 original size:927 final size:927
Alignment explanation
Indices: 58066164--58068015 Score: 3679
Period size: 927 Copynumber: 2.0 Consensus size: 927
58066154 ATGATTTAAT
58066164 ATTTTTCAATCAAAGATACATTTTACTATTCTAATAAAATAATATATGAATTGGATTAATGCTTT
1 ATTTTTCAATCAAAGATACATTTTACTATTCTAATAAAATAATATATGAATTGGATTAATGCTTT
58066229 ATGGTGGTTTCCTTAAATTCCTCTATGGAAATATTTTATTCAATATAGGATTTTGATTCAAAGGA
66 ATGGTGGTTTCCTTAAATTCCTCTATGGAAATATTTTATTCAATATAGGATTTTGATTCAAAGGA
*
58066294 AGCTTGAATCTGAATTTTAGGTTATCCAAAATACTATCTTTGATTAGCAACAAAAGAGTTTCATT
131 AGCTTGAATCTGAATTTTAGGTTATCCAAAATACTATCTTTGACTAGCAACAAAAGAGTTTCATT
58066359 TTTTTATCTAAAATTTTTGAAGACTGTTCTAAACGTCTTTCATCCAGGTGGATCACGTAAAAGGT
196 TTTTTATCTAAAATTTTTGAAGACTGTTCTAAACGTCTTTCATCCAGGTGGATCACGTAAAAGGT
58066424 AGGACATTTTGTTGCGGTTAAAGCTTTGTATCTCGATAGCAGTTTCACATCTGTATCGGTGTTGC
261 AGGACATTTTGTTGCGGTTAAAGCTTTGTATCTCGATAGCAGTTTCACATCTGTATCGGTGTTGC
58066489 TCTCTTCCATATCATTTTAAGTTACATTTTTAACCTTTCTCAACCTAAGTTCATTTTTTATACAT
326 TCTCTTCCATATCATTTTAAGTTACATTTTTAACCTTTCTCAACCTAAGTTCATTTTTTATACAT
58066554 AGATTCATGGGTTGTGATCGTTTAAGTCATTTTTTCGCTATGCCATGGGGGTAAGGACATTCCAA
391 AGATTCATGGGTTGTGATCGTTTAAGTCATTTTTTCGCTATGCCATGGGGGTAAGGACATTCCAA
58066619 TGGGCTCCTCCAAACCTTTGGATGCATATTTGGCTAGCAACGGTAAAGGTGGGAGAGGTTAGTCA
456 TGGGCTCCTCCAAACCTTTGGATGCATATTTGGCTAGCAACGGTAAAGGTGGGAGAGGTTAGTCA
58066684 AATTTGGGTTAGTTTGGTAGGTTTTGGAAATGGAACCTTCAACGACTACCCCAACTCTAGTGACC
521 AATTTGGGTTAGTTTGGTAGGTTTTGGAAATGGAACCTTCAACGACTACCCCAACTCTAGTGACC
58066749 AACCCAAGCTAGATGAATTCCAGTAAAATGTGCATTAATGAATGTAAAAACTTTAGTTGATGAAT
586 AACCCAAGCTAGATGAATTCCAGTAAAATGTGCATTAATGAATGTAAAAACTTTAGTTGATGAAT
58066814 GTTATAAAATGTGCATAATAAAAATCGAAATGTATAAATGTATTAAAATAAAGTTTTAGTTGAGT
651 GTTATAAAATGTGCATAATAAAAATCGAAATGTATAAATGTATTAAAATAAAGTTTTAGTTGAGT
58066879 GATAAATTAAAAGTTTTGTTAATACAATTAGTTCGAATTCAAATATTACCATATGAATTTTTTAT
716 GATAAATTAAAAGTTTTGTTAATACAATTAGTTCGAATTCAAATATTACCATATGAATTTTTTAT
58066944 TGATTTTAAAAAAAAAACTAAATTACCCTCAAATAATATAATTTATTTTAATTATGGAAAAATAT
781 TGATTTTAAAAAAAAAACTAAATTACCCTCAAATAATATAATTTATTTTAATTATGGAAAAATAT
58067009 TTTCGTAATTTTTCTAACTAAGTTAGTGACACGATTGAAGAAGACACCAACTCAATAAAACATTT
846 TTTCGTAATTTTTCTAACTAAGTTAGTGACACGATTGAAGAAGACACCAACTCAATAAAACATTT
58067074 AATAAATAGTATAAAAC
911 AATAAATAGTATAAAAC
58067091 ATTTTTCAATCAAAGATACATTTTACTATTCTAATAAAATAATATATGAATTGGATTAATGCTTT
1 ATTTTTCAATCAAAGATACATTTTACTATTCTAATAAAATAATATATGAATTGGATTAATGCTTT
58067156 ATGGTGGTTTCCTTAAATTCCTCTATGGAAATATTTTATTCAATATAGGATTTTGATTCAAAGGA
66 ATGGTGGTTTCCTTAAATTCCTCTATGGAAATATTTTATTCAATATAGGATTTTGATTCAAAGGA
58067221 AGCTTGAATCTGAATTTTAGGTTATCCAAAATACTATCTTTGACTAGCAACAAAAGAGTTTCATT
131 AGCTTGAATCTGAATTTTAGGTTATCCAAAATACTATCTTTGACTAGCAACAAAAGAGTTTCA-T
58067286 TTTTTTATCTAAAATTTTTGAAGACTGTTCTAAACGTCTTTCATCCAGGTGGATCACGTAAAAGG
195 TTTTTTATCTAAAATTTTTGAAGACTGTTCTAAACGTCTTTCATCCAGGTGGATCACGTAAAAGG
58067351 TAGGACATTTTGTTGCGGTTAAAGCTTTGTATCTCGATAGCAGTTTCACATCTGTATCGGTGTTG
260 TAGGACATTTTGTTGCGGTTAAAGCTTTGTATCTCGATAGCAGTTTCACATCTGTATCGGTGTTG
58067416 CTCTCTTCCATATCATTTTAAGTTACATTTTTAACCTTTCTCAACCTAAGTTCA-TTTTTATACA
325 CTCTCTTCCATATCATTTTAAGTTACATTTTTAACCTTTCTCAACCTAAGTTCATTTTTTATACA
58067480 TAGATTCATGGGTTGTGATCGTTTAAGTCATTTTTTCGCTATGCCATGGGGGTAAGGACATTCCA
390 TAGATTCATGGGTTGTGATCGTTTAAGTCATTTTTTCGCTATGCCATGGGGGTAAGGACATTCCA
58067545 ATGGGCTCCTCCAAACCTTTGGATGCATATTTGGCTAGCAACGGTAAAGGTGGGAGAGGTTAGTC
455 ATGGGCTCCTCCAAACCTTTGGATGCATATTTGGCTAGCAACGGTAAAGGTGGGAGAGGTTAGTC
58067610 AAATTTGGGTTAGTTTGGTAGGTTTTGGAAATGGAACCTTCAACGACTACCCCAACTCTAGTGAC
520 AAATTTGGGTTAGTTTGGTAGGTTTTGGAAATGGAACCTTCAACGACTACCCCAACTCTAGTGAC
58067675 CAACCCAAGCTAGATGAATTCCAGTAAAATGTGCATTAATGAATGTAAAAACTTTAGTTGATGAA
585 CAACCCAAGCTAGATGAATTCCAGTAAAATGTGCATTAATGAATGTAAAAACTTTAGTTGATGAA
58067740 TGTTATAAAATGTGCATAATAAAAATCGAAATGTATAAATGTATTAAAATAAAGTTTTAGTTGAG
650 TGTTATAAAATGTGCATAATAAAAATCGAAATGTATAAATGTATTAAAATAAAGTTTTAGTTGAG
58067805 TGATAAATTAAAAGTTTTGTTAATACAATTAGTTCGAATTCAAATATTACCATATGAATTTTTTA
715 TGATAAATTAAAAGTTTTGTTAATACAATTAGTTCGAATTCAAATATTACCATATGAATTTTTTA
58067870 TTGATTTTAAAAAAAAAACTAAATTACCCTCAAATAATATAATTTATTTTAATTATGGAAAAATA
780 TTGATTTTAAAAAAAAAACTAAATTACCCTCAAATAATATAATTTATTTTAATTATGGAAAAATA
58067935 TTTTCGTAATTTTTCTAACTAAGTTAGTGACACGATTGAAGAAGACACCAACTCAATAAAACATT
845 TTTTCGTAATTTTTCTAACTAAGTTAGTGACACGATTGAAGAAGACACCAACTCAATAAAACATT
58068000 TAATAAATAGTATAAA
910 TAATAAATAGTATAAA
58068016 TATTTAAAAA
Statistics
Matches: 923, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
927 738 0.80
928 185 0.20
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (927 bp):
ATTTTTCAATCAAAGATACATTTTACTATTCTAATAAAATAATATATGAATTGGATTAATGCTTT
ATGGTGGTTTCCTTAAATTCCTCTATGGAAATATTTTATTCAATATAGGATTTTGATTCAAAGGA
AGCTTGAATCTGAATTTTAGGTTATCCAAAATACTATCTTTGACTAGCAACAAAAGAGTTTCATT
TTTTTATCTAAAATTTTTGAAGACTGTTCTAAACGTCTTTCATCCAGGTGGATCACGTAAAAGGT
AGGACATTTTGTTGCGGTTAAAGCTTTGTATCTCGATAGCAGTTTCACATCTGTATCGGTGTTGC
TCTCTTCCATATCATTTTAAGTTACATTTTTAACCTTTCTCAACCTAAGTTCATTTTTTATACAT
AGATTCATGGGTTGTGATCGTTTAAGTCATTTTTTCGCTATGCCATGGGGGTAAGGACATTCCAA
TGGGCTCCTCCAAACCTTTGGATGCATATTTGGCTAGCAACGGTAAAGGTGGGAGAGGTTAGTCA
AATTTGGGTTAGTTTGGTAGGTTTTGGAAATGGAACCTTCAACGACTACCCCAACTCTAGTGACC
AACCCAAGCTAGATGAATTCCAGTAAAATGTGCATTAATGAATGTAAAAACTTTAGTTGATGAAT
GTTATAAAATGTGCATAATAAAAATCGAAATGTATAAATGTATTAAAATAAAGTTTTAGTTGAGT
GATAAATTAAAAGTTTTGTTAATACAATTAGTTCGAATTCAAATATTACCATATGAATTTTTTAT
TGATTTTAAAAAAAAAACTAAATTACCCTCAAATAATATAATTTATTTTAATTATGGAAAAATAT
TTTCGTAATTTTTCTAACTAAGTTAGTGACACGATTGAAGAAGACACCAACTCAATAAAACATTT
AATAAATAGTATAAAAC
Found at i:58070137 original size:42 final size:42
Alignment explanation
Indices: 58070071--58070150 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
58070061 CACCAGCCCA
58070071 TGCGCGTGACCGTGTGTCAAACATGGCTGAGACACACGCTCG
1 TGCGCGTGACCGTGTGTCAAACATGGCTGAGACACACGCTCG
* * * * *
58070113 TGCGTGTGGCCGTGTGTTACACATGGTTGAGACACACG
1 TGCGCGTGACCGTGTGTCAAACATGGCTGAGACACACG
58070151 TCCGTATGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.23
Consensus pattern (42 bp):
TGCGCGTGACCGTGTGTCAAACATGGCTGAGACACACGCTCG
Found at i:58071248 original size:25 final size:25
Alignment explanation
Indices: 58071220--58071273 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
58071210 AAGTTCAAGC
58071220 GAGCC-ATATCAGGAAGCTCACAAAA
1 GAGCCTATATCAGGAAGCTCA-AAAA
* *
58071245 GAGCCTATATCAGGACGCTCATAAA
1 GAGCCTATATCAGGAAGCTCAAAAA
58071270 GAGC
1 GAGC
58071274 TGCGTTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (25 bp):
GAGCCTATATCAGGAAGCTCAAAAA
Found at i:58072843 original size:99 final size:99
Alignment explanation
Indices: 58072672--58072869 Score: 351
Period size: 99 Copynumber: 2.0 Consensus size: 99
58072662 AAAGATGCTC
*
58072672 AATATGGTGACTTCTCAAAGTTGAGATGATACTTTAGAATAGTGTATGCTATATATCTTGTCTTG
1 AATATGGTGACTTCTCAAAGTTGAGATGATACTTTAGAATAGTGTAGGCTATATATCTTGTCTTG
58072737 TGTCTCCTACTCGATCAATCACTATTTGTCTTAG
66 TGTCTCCTACTCGATCAATCACTATTTGTCTTAG
*
58072771 AATATGGTGACTTCTCTAAGTTGAGATGATACTTTAGAATAGTGTAGGCTATATATCTTGTCTTG
1 AATATGGTGACTTCTCAAAGTTGAGATGATACTTTAGAATAGTGTAGGCTATATATCTTGTCTTG
** *
58072836 TGTCTCCTACTCGATGGATCACTCTTTGTCTTAG
66 TGTCTCCTACTCGATCAATCACTATTTGTCTTAG
58072870 TGGTGAAATC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 94 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (99 bp):
AATATGGTGACTTCTCAAAGTTGAGATGATACTTTAGAATAGTGTAGGCTATATATCTTGTCTTG
TGTCTCCTACTCGATCAATCACTATTTGTCTTAG
Found at i:58074443 original size:25 final size:25
Alignment explanation
Indices: 58074404--58074483 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
58074394 CTCATACGAG
* *
58074404 CATATAAACGAGAAGCTC-TTTCGAGC
1 CATAT-AACGGGAAGCTCATGT-GAGC
*
58074430 CATATAATGGGAAGCTCATGTGAGC
1 CATATAACGGGAAGCTCATGTGAGC
* **
58074455 CATGTAACGGGAAGCTCATAAGAGC
1 CATATAACGGGAAGCTCATGTGAGC
58074480 CATA
1 CATA
58074484 ATTGGAAAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
25 38 0.84
26 7 0.16
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (25 bp):
CATATAACGGGAAGCTCATGTGAGC
Found at i:58077630 original size:24 final size:25
Alignment explanation
Indices: 58077597--58077659 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
58077587 TTAAGCACTA
*
58077597 TAACGAGAAGCTCATT-GAGC-CAT
1 TAACGGGAAGCTCATTCGAGCTCAT
* * *
58077620 GTAACGGGAAGCTTATTCGGGCTTAT
1 -TAACGGGAAGCTCATTCGAGCTCAT
58077646 TAACGGGAAGCTCA
1 TAACGGGAAGCTCA
58077660 CAAAGAGCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 14 0.44
25 16 0.50
26 2 0.06
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (25 bp):
TAACGGGAAGCTCATTCGAGCTCAT
Found at i:58080959 original size:40 final size:40
Alignment explanation
Indices: 58080838--58080977 Score: 126
Period size: 40 Copynumber: 3.5 Consensus size: 40
58080828 GACTTCGAGT
* * * *
58080838 CGATGAGACACTGGGTGTTAATTTACTACTTCGAATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATC
* * * * * *
58080879 TGATGAGGCACTAGGTG-CCAA-T-TTACTTCTG-TTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTC-GAATTATC
*
58080916 CGATAAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
*
58080956 CGATGAGGCACTGGGTGTCAAA
1 CGATGAGACACTGGGTGTCAAA
58080978 CTGGTGTGTT
Statistics
Matches: 75, Mismatches: 19, Indels: 11
0.71 0.18 0.10
Matches are distributed among these distances:
37 14 0.19
38 11 0.15
39 4 0.05
40 32 0.43
41 14 0.19
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
Found at i:58083901 original size:13 final size:14
Alignment explanation
Indices: 58083883--58083915 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
58083873 ACCCTAATTT
58083883 TTTCTCT-TTTTTC
1 TTTCTCTCTTTTTC
58083896 TTTCTCTCTTTTTC
1 TTTCTCTCTTTTTC
58083910 -TTCTCT
1 TTTCTCT
58083916 GTTTCGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTCTCTCTTTTTC
Found at i:58089980 original size:2 final size:2
Alignment explanation
Indices: 58089973--58089999 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
58089963 CTTTTCTTCC
58089973 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
58090000 CTAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58091387 original size:25 final size:24
Alignment explanation
Indices: 58091294--58091527 Score: 127
Period size: 25 Copynumber: 9.5 Consensus size: 24
58091284 ATTCGAATCT
* * *
58091294 GGGAATGCTCATATGAGTACATAAAC
1 GGGAA-GCTCATAAGAG-CCATTAAC
* ** *
58091320 GGGAAGCTCTTTCGAGCCATATAAT
1 GGGAAGCTCATAAGAGCCAT-TAAC
*
58091345 GGGAAGCTCATGTA-AGCCATGTAAC
1 GGGAAGCTCAT-AAGAGCCAT-TAAC
58091370 GGGAAGCTCATAAGAGCCA-TAATC
1 GGGAAGCTCATAAGAGCCATTAA-C
* * * *
58091394 GGGAAGTTCA-AGCGAGCCAATATC
1 GGGAAGCTCATA-AGAGCCATTAAC
* *
58091418 GGGAAGCTCCA-AAGAGCCATAAATT
1 GGGAAGCT-CATAAGAGCCATTAA-C
* *
58091443 GGGAAGCTTCA-AATAGCCAATTATC
1 GGGAAGC-TCATAAGAGCC-ATTAAC
** *
58091468 GGGAAGCTCCGAAGAGCCATAAAC
1 GGGAAGCTCATAAGAGCCATTAAC
* * *
58091492 GGGAAGCTCACAAGAACCATTTAAT
1 GGGAAGCTCATAAGAGCCA-TTAAC
58091517 GGGAAGCTCAT
1 GGGAAGCTCAT
58091528 GTTAGCTAAT
Statistics
Matches: 162, Mismatches: 34, Indels: 25
0.73 0.15 0.11
Matches are distributed among these distances:
23 4 0.02
24 57 0.35
25 91 0.56
26 10 0.06
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (24 bp):
GGGAAGCTCATAAGAGCCATTAAC
Found at i:58091387 original size:50 final size:47
Alignment explanation
Indices: 58091317--58091527 Score: 158
Period size: 50 Copynumber: 4.3 Consensus size: 47
58091307 TGAGTACATA
* ** *
58091317 AACGGGAAGCTCTTTCGAGCCATATAATGGGAAGCTCATGTAAGCCATGT
1 AACGGGAAGCTCATAAGAGCCATA-AATGGGAAGCTCAAGT-AGCCAT-T
* * *
58091367 AACGGGAAGCTCATAAGAGCCAT-AATCGGGAAGTTCAAGCGAGCCAAT
1 AACGGGAAGCTCATAAGAGCCATAAAT-GGGAAGCTCAAG-TAGCCATT
* *
58091415 ATCGGGAAGCTCCA-AAGAGCCATAAATTGGGAAGCTTCAAATAGCCAATT
1 AACGGGAAGCT-CATAAGAGCCATAAA-TGGGAAGC-TCAAGTAGCC-ATT
* ** * *
58091465 ATCGGGAAGCTCCGAAGAGCCATAAACGGGAAGCTCACAAG-AACCATTT
1 AACGGGAAGCTCATAAGAGCCATAAATGGGAAGCT--CAAGTAGCCA-TT
*
58091514 AATGGGAAGCTCAT
1 AACGGGAAGCTCAT
58091528 GTTAGCTAAT
Statistics
Matches: 130, Mismatches: 20, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
48 25 0.19
49 52 0.40
50 53 0.41
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (47 bp):
AACGGGAAGCTCATAAGAGCCATAAATGGGAAGCTCAAGTAGCCATT
Found at i:58091410 original size:24 final size:24
Alignment explanation
Indices: 58091369--58091524 Score: 124
Period size: 24 Copynumber: 6.4 Consensus size: 24
58091359 AGCCATGTAA
58091369 CGGGAAGC-TCATAAGAGCCATAAT
1 CGGGAAGCTTCA-AAGAGCCATAAT
*
58091393 CGGGAAG-TTCAAGCGAGCCA-ATAT
1 CGGGAAGCTTCAA-AGAGCCATA-AT
*
58091417 CGGGAAGCTCCAAAGAGCCATAAAT
1 CGGGAAGCTTCAAAGAGCCAT-AAT
* * *
58091442 TGGGAAGCTTCAAATAGCCAATTAT
1 CGGGAAGCTTCAAAGAGCC-ATAAT
* * *
58091467 CGGGAAGCTCCGAAGAGCCATAAA
1 CGGGAAGCTTCAAAGAGCCATAAT
*
58091491 CGGGAAGC-TCACAAGAACCATTTAAT
1 CGGGAAGCTTCA-AAGAGCCA--TAAT
58091517 -GGGAAGCT
1 CGGGAAGCT
58091525 CATGTTAGCT
Statistics
Matches: 104, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
23 3 0.03
24 49 0.47
25 46 0.44
26 6 0.06
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.17
Consensus pattern (24 bp):
CGGGAAGCTTCAAAGAGCCATAAT
Found at i:58114010 original size:24 final size:24
Alignment explanation
Indices: 58113965--58114016 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
58113955 GACTTCCGCA
*
58113965 GCTGTTGCAATAGCAGCAGCTGCT
1 GCTGTTGCAATAGCAGCAGCTGCG
* *
58113989 GCTGTTGCAA-AGGCTGCGGCTGCG
1 GCTGTTGCAATA-GCAGCAGCTGCG
58114013 GCTG
1 GCTG
58114017 CCAATGTCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.15, C:0.25, G:0.37, T:0.23
Consensus pattern (24 bp):
GCTGTTGCAATAGCAGCAGCTGCG
Found at i:58123948 original size:23 final size:25
Alignment explanation
Indices: 58123917--58123963 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
58123907 ATAAGAAGAA
58123917 GAAGAAGAAG-AAGAAA-AATAAAT
1 GAAGAAGAAGAAAGAAAGAATAAAT
*
58123940 GAAGTAGAAGTAAAGAAAGAATAA
1 GAAGAAGAAG-AAAGAAAGAATAA
58123964 GAAAACTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
25 6 0.30
26 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (25 bp):
GAAGAAGAAGAAAGAAAGAATAAAT
Found at i:58123948 original size:26 final size:26
Alignment explanation
Indices: 58123914--58123963 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
58123904 ATAATAAGAA
58123914 GAAGAAGAAGAAGAAGAAA-AATAAAT
1 GAAGAAGAAGAA-AAGAAAGAATAAAT
* *
58123940 GAAGTAGAAGTAAAGAAAGAATAA
1 GAAGAAGAAGAAAAGAAAGAATAA
58123964 GAAAACTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (26 bp):
GAAGAAGAAGAAAAGAAAGAATAAAT
Found at i:58126069 original size:43 final size:43
Alignment explanation
Indices: 58126008--58126093 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
58125998 TGTTTCAATA
58126008 ATTAATGAATTAAATTAATTATGATTTGGTTGAATATTGTAAC
1 ATTAATGAATTAAATTAATTATGATTTGGTTGAATATTGTAAC
58126051 ATTAATGAATTAAATTAATTATGATTTGGTTGAATATTGTAAC
1 ATTAATGAATTAAATTAATTATGATTTGGTTGAATATTGTAAC
58126094 CTCCTCAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (43 bp):
ATTAATGAATTAAATTAATTATGATTTGGTTGAATATTGTAAC
Found at i:58126834 original size:17 final size:17
Alignment explanation
Indices: 58126809--58126842 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58126799 CTTAAGATGT
58126809 ATGTATATTTTGATTTA
1 ATGTATATTTTGATTTA
* *
58126826 ATGTTTATTTTTATTTA
1 ATGTATATTTTGATTTA
58126843 TAATCTCTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (17 bp):
ATGTATATTTTGATTTA
Found at i:58133402 original size:16 final size:16
Alignment explanation
Indices: 58133383--58133414 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58133373 TTATTTTATA
*
58133383 AAAATTTTAAATTTTT
1 AAAATTTCAAATTTTT
58133399 AAAATTTCAAATTTTT
1 AAAATTTCAAATTTTT
58133415 TTATATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
AAAATTTCAAATTTTT
Found at i:58133479 original size:18 final size:18
Alignment explanation
Indices: 58133458--58133514 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
58133448 TAAAAGCATA
58133458 AATTTTATAAA-TATTTTG
1 AATTTTA-AAATTATTTTG
*
58133476 AATTTTAAAATTATTTTCA
1 AATTTTAAAATTATTTT-G
58133495 AATTTTGAAAATTATTTTG
1 AATTTT-AAAATTATTTTG
58133514 A
1 A
58133515 TTATTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 3 0.09
18 13 0.38
19 7 0.21
20 11 0.32
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
AATTTTAAAATTATTTTG
Found at i:58133703 original size:13 final size:13
Alignment explanation
Indices: 58133685--58133712 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58133675 GAGTTGACTC
58133685 AAATAATTCGAAT
1 AAATAATTCGAAT
58133698 AAATAATTCGAAT
1 AAATAATTCGAAT
58133711 AA
1 AA
58133713 CTTGAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (13 bp):
AAATAATTCGAAT
Found at i:58136652 original size:39 final size:41
Alignment explanation
Indices: 58136589--58136678 Score: 130
Period size: 39 Copynumber: 2.2 Consensus size: 41
58136579 TTAAAAGTAT
* *
58136589 TTATATTAAAAAAAACTACCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAAAACTACAATAAATATAATAAATATTTTA
*
58136630 TTATATTAAAAAACAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAAAACTACAATAAATATAATAAATATTTTA
*
58136669 TTGTATTAAA
1 TTATATTAAA
58136679 TATAAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 29 0.64
40 1 0.02
41 15 0.33
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (41 bp):
TTATATTAAAAAAAACTACAATAAATATAATAAATATTTTA
Found at i:58141783 original size:21 final size:21
Alignment explanation
Indices: 58141757--58141797 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58141747 AGACGAGCAA
* *
58141757 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
58141778 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
58141798 TTGAGCAGAT
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:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:58147781 original size:18 final size:19
Alignment explanation
Indices: 58147758--58147793 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
58147748 TATAATTAAA
58147758 AAATAA-AATTTTTAATAT
1 AAATAATAATTTTTAATAT
*
58147776 AAATAATTATTTTTAATA
1 AAATAATAATTTTTAATA
58147794 GTAGTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAATAATTTTTAATAT
Found at i:58150666 original size:14 final size:14
Alignment explanation
Indices: 58150631--58150672 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
58150621 TTCCATGTCA
* *
58150631 ATTTATTCAAGAA-
1 ATTTATTTAAAAAT
58150644 ATTTATTTAAAAAT
1 ATTTATTTAAAAAT
*
58150658 ATTTTTTTAAAAAT
1 ATTTATTTAAAAAT
58150672 A
1 A
58150673 ATAAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (14 bp):
ATTTATTTAAAAAT
Found at i:58151402 original size:34 final size:35
Alignment explanation
Indices: 58151358--58151424 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
58151348 CAGTAAAATA
*
58151358 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
58151392 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
58151425 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:58152062 original size:10 final size:10
Alignment explanation
Indices: 58152042--58152075 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
58152032 AGACATTTAA
58152042 ATTTAATATAT
1 ATTT-ATATAT
58152053 ATTTATATAT
1 ATTTATATAT
*
58152063 ATATATATAT
1 ATTTATATAT
58152073 ATT
1 ATT
58152076 AAAGCACTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTATATAT
Found at i:58157956 original size:33 final size:33
Alignment explanation
Indices: 58157914--58158065 Score: 109
Period size: 33 Copynumber: 4.5 Consensus size: 33
58157904 ATACGGTAGG
*
58157914 ATCAGCACTTAGCAACCACCAATGAGTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
*
58157947 ATCAGCACTTAGCAA-C-CC--T--TTGGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
* * * *
58157974 ATCAGCACTTAGCAACCCCCTTTACATTTAAAATACGATGGA
1 ATCAGCACTTAGCAACCACC---A-A--T--GATTCG-GGGA
* *
58158016 ATCAGAACTTAGCAACCACCAATGATTCGAGGA
1 ATCAGCACTTAGCAACCACCAATGATTCGGGGA
58158049 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
58158066 CCTTGGGGGA
Statistics
Matches: 93, Mismatches: 11, Indels: 30
0.69 0.08 0.22
Matches are distributed among these distances:
27 21 0.23
28 1 0.01
29 3 0.03
31 2 0.02
32 1 0.01
33 34 0.37
34 4 0.04
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
41 2 0.02
42 21 0.23
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATGATTCGGGGA
Found at i:58158026 original size:102 final size:102
Alignment explanation
Indices: 58157868--58158099 Score: 360
Period size: 102 Copynumber: 2.3 Consensus size: 102
58157858 CAGTGATTCA
* * * *
58157868 GGGAATCAGCACTTAGCAA-CCCCTTTCATATTTAAGATACGGTAGGATCAGCACTTAGCAACCA
1 GGGAATCAGCACTTAGCAACCCCCTTT-ACATTTAAAATACGATAGGATCAGAACTTAGCAACCA
* *
58157932 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCTTTGG
65 CCAATGAGTCGAGGAATCAGCACTTAGCAACCCCTTGG
58157970 GGGAATCAGCACTTAGCAACCCCCTTTACATTTAAAATACGAT-GGAATCAGAACTTAGCAACCA
1 GGGAATCAGCACTTAGCAACCCCCTTTACATTTAAAATACGATAGG-ATCAGAACTTAGCAACCA
*
58158034 CCAATGATTCGAGGAATCAGCACTTAGCAACCCCTTGG
65 CCAATGAGTCGAGGAATCAGCACTTAGCAACCCCTTGG
*
58158072 GGGAATCAACACTTAGCAACCCCCTTTA
1 GGGAATCAGCACTTAGCAACCCCCTTTA
58158100 TATTCAATGT
Statistics
Matches: 120, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
101 2 0.02
102 111 0.93
103 7 0.06
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (102 bp):
GGGAATCAGCACTTAGCAACCCCCTTTACATTTAAAATACGATAGGATCAGAACTTAGCAACCAC
CAATGAGTCGAGGAATCAGCACTTAGCAACCCCTTGG
Found at i:58167082 original size:44 final size:43
Alignment explanation
Indices: 58167028--58167203 Score: 117
Period size: 44 Copynumber: 3.9 Consensus size: 43
58167018 ATTAAATTAT
*
58167028 ATTTAATATTAATTATTTTAAATTGTATAAATTCATATAAGAAA
1 ATTTAATATTAATTATTTTAAATTATATAAATTCATATAA-AAA
* ** * *
58167072 ATTTATTATTAAGAATTTATGAAATTATATATTATT-AT-TAAATTAT
1 ATTTAATATTAATTATTT-T-AAATTATATA-AATTCATATAAA--AA
* * *
58167118 ATGTAATATTTATTATTTTAAATTATACAAATTCATA-AAATATA
1 ATTTAATATTAATTATTTTAAATTATATAAATTCATATAAA-A-A
* *
58167162 ATTTATTAGTTATAATTATTTTAAATTTTATTAAA-TCATATA
1 ATTTAATA--T-TAATTATTTTAAATTATA-TAAATTCATATA
58167204 TTTTAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
43 5 0.05
44 36 0.36
45 5 0.05
46 26 0.26
47 24 0.24
48 4 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (43 bp):
ATTTAATATTAATTATTTTAAATTATATAAATTCATATAAAAA
Found at i:58167103 original size:90 final size:91
Alignment explanation
Indices: 58166963--58167169 Score: 317
Period size: 90 Copynumber: 2.3 Consensus size: 91
58166953 TTGATTTTAG
*
58166963 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* *
58167028 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATATTAATTATTTTAAATTATA
*
58167055 TAAATTCATATAAGAAAATTTATTATTAAGAA-TTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
58167119 TGTAATATTTATTATTTTAAATTATA
66 TGTAATATTAATTATTTTAAATTATA
* * * *
58167145 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
58167170 GTTATAATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
90 75 0.71
91 15 0.14
92 16 0.15
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATATTAATTATTTTAAATTATA
Found at i:58167117 original size:26 final size:26
Alignment explanation
Indices: 58167074--58167141 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
58167064 ATAAGAAAAT
58167074 TTATTATTAAGAATTTATGAAATTATATA
1 TTATTATT-A-AATTTATGAAA-TATATA
* *
58167103 TTATTATTAAATTATATGTAATATTTA
1 TTATTATTAAATT-TATGAAATATATA
58167130 TTATT-TTAAATT
1 TTATTATTAAATT
58167142 ATACAAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 7 0.19
27 14 0.39
28 7 0.19
29 8 0.22
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
TTATTATTAAATTTATGAAATATATA
Found at i:58167132 original size:21 final size:19
Alignment explanation
Indices: 58167086--58167132 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
58167076 ATTATTAAGA
* *
58167086 ATTTATGAAATTATATATT
1 ATTTATTAAATTATATAAT
58167105 A-TTATTAAATTATATGTAAT
1 ATTTATTAAATTATA--TAAT
58167125 ATTTATTA
1 ATTTATTA
58167133 TTTTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 12 0.52
19 1 0.04
20 4 0.17
21 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
ATTTATTAAATTATATAAT
Found at i:58167309 original size:120 final size:120
Alignment explanation
Indices: 58167185--58167477 Score: 439
Period size: 120 Copynumber: 2.4 Consensus size: 120
58167175 AATTATTTTA
* * *
58167185 AATTTTATTAAATCATATATTTTAATT-TAAATATATTTAATATTAATTAT-TTCAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTAT-AATATATTTAATAATAATTATGTT--AATTTATAT
*
58167247 TTTATAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAGTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAGTAATTATTAAG
*
58167305 AATTTTATTAAATTATATATTTTAATTATAACATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
* * *
58167370 ACAGTATCATATATTATGATTTGAGTAAATTCATGTAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAGTAATTATTAAG
* * *
58167425 AATTTTAATAAATTATATAATTTAATTATAATATATTTAATAATAATCATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
58167478 TAAATATGAT
Statistics
Matches: 158, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 5 0.03
120 150 0.95
121 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAGTAATTATTAAG
Found at i:58167609 original size:18 final size:17
Alignment explanation
Indices: 58167581--58167615 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58167571 ATTATTAAGA
*
58167581 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58167598 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58167616 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58167620 original size:155 final size:157
Alignment explanation
Indices: 58167414--58167721 Score: 530
Period size: 155 Copynumber: 2.0 Consensus size: 157
58167404 GTAAGAATAT
*
58167414 TAATTATTAAGAATTTTAATAAATTATATAATTTAATTATAATATATTTAATAATAATCATGTTT
1 TAATTATTAAGAATTTTAATAAATTATATAATTTAATTAAAATATATTTAATAATAATCATGTTT
*
58167479 AAATATGATTAAATTATTTATTACTGATATTAATAATCTTATTAAAATTTAAATAACAATAAC-A
66 AAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
58167543 -AATAATTTACCAAAACAAATTTCTTC
131 TAATAATTTACCAAAACAAATTTCTTC
* * *
58167569 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTAATAAATTATATAATTTAATTAAAATATATTTAATAATAATCATGTTT
*
58167634 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
58167699 TAATCATTTACCCAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
58167722 ATGCTAAGGG
Statistics
Matches: 143, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
155 122 0.85
156 1 0.01
157 20 0.14
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTAATAAATTATATAATTTAATTAAAATATATTTAATAATAATCATGTTT
AAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTTC
Found at i:58167865 original size:45 final size:44
Alignment explanation
Indices: 58167776--58167870 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
58167766 TTACATCTCT
*
58167776 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
58167820 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
58167865 ATTACA
1 ATTACA
58167871 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:58167870 original size:16 final size:16
Alignment explanation
Indices: 58167849--58167886 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
58167839 TTGATTTGCT
*
58167849 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
58167865 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
58167881 AATACA
1 ATTACA
58167887 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:58183684 original size:16 final size:16
Alignment explanation
Indices: 58183665--58183695 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58183655 TCCCACGTTA
*
58183665 GGTTTTGGGTTTTTAG
1 GGTTTAGGGTTTTTAG
58183681 GGTTTAGGGTTTTTA
1 GGTTTAGGGTTTTTA
58183696 AAGTTTTAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.35, T:0.55
Consensus pattern (16 bp):
GGTTTAGGGTTTTTAG
Found at i:58184000 original size:49 final size:49
Alignment explanation
Indices: 58183944--58184090 Score: 251
Period size: 49 Copynumber: 3.0 Consensus size: 49
58183934 CGTTTTTGAG
58183944 CAAATAATAT-ACAAATATTCAAAATAAACTATTTTGTATTTTATTACAT
1 CAAATAATATCA-AAATATTCAAAATAAACTATTTTGTATTTTATTACAT
* *
58183993 CAAATAATATCAAAATATTCAAAATAAACTATTTTATATTTTATTATAT
1 CAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACAT
*
58184042 CAAATAATATCAAAATATTCAAATTAAACTATTTTGTATTTTATTACAT
1 CAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACAT
58184091 TAATATAAAC
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
49 91 0.99
50 1 0.01
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (49 bp):
CAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTACAT
Found at i:58186440 original size:11 final size:10
Alignment explanation
Indices: 58186414--58186455 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
58186404 AAATATGGAT
58186414 TTGAGAGAAA
1 TTGAGAGAAA
*
58186424 TTGAGAGCAAT
1 TTGAGAG-AAA
58186435 TTGAGAGGAAA
1 TTGAGA-GAAA
58186446 TTGAGA-AAA
1 TTGAGAGAAA
58186455 T
1 T
58186456 GATTAATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 7 0.25
11 16 0.57
12 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.24
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:58192275 original size:6 final size:6
Alignment explanation
Indices: 58192264--58192304 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
58192254 TAAACTTATT
58192264 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
58192305 TTATTATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:58192344 original size:18 final size:19
Alignment explanation
Indices: 58192308--58192345 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
58192298 AAATATATTA
* *
58192308 TTATATAATGCTTGTAAAT
1 TTATATAATACTTGCAAAT
58192327 TTATA-AATACTTGCAAAT
1 TTATATAATACTTGCAAAT
58192345 T
1 T
58192346 ATTTTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (19 bp):
TTATATAATACTTGCAAAT
Found at i:58193782 original size:21 final size:21
Alignment explanation
Indices: 58193739--58193800 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
58193729 CGAATACGCC
58193739 AACAGAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
* *
58193758 AACAGAAGCTTGTAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTG
* *
58193779 AACAAAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
58193800 A
1 A
58193801 CCACCCAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 11 0.31
20 2 0.06
21 22 0.63
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:58203036 original size:28 final size:28
Alignment explanation
Indices: 58203004--58203060 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
58202994 TTAACTAAAT
58203004 ATCTAATAGAACTCTCTAACTGTAGTAA
1 ATCTAATAGAACTCTCTAACTGTAGTAA
58203032 ATCTAATAGAACTCTCTAACTGTAGTAA
1 ATCTAATAGAACTCTCTAACTGTAGTAA
58203060 A
1 A
58203061 AAATACAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (28 bp):
ATCTAATAGAACTCTCTAACTGTAGTAA
Found at i:58206872 original size:7 final size:7
Alignment explanation
Indices: 58206850--58206884 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
58206840 AAATAATTTT
58206850 TTTTAAA
1 TTTTAAA
58206857 TTCTTAAA
1 TT-TTAAA
58206865 TTTTAAA
1 TTTTAAA
*
58206872 TTCTAAA
1 TTTTAAA
58206879 TTTTAA
1 TTTTAA
58206885 CCTCAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (7 bp):
TTTTAAA
Found at i:58206880 original size:14 final size:15
Alignment explanation
Indices: 58206850--58206884 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
58206840 AAATAATTTT
58206850 TTTTAAATTCTTAAA
1 TTTTAAATTCTTAAA
58206865 TTTTAAATTC-TAAA
1 TTTTAAATTCTTAAA
58206879 TTTTAA
1 TTTTAA
58206885 CCTCAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTTAAATTCTTAAA
Found at i:58207326 original size:20 final size:22
Alignment explanation
Indices: 58207279--58207328 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
58207269 TTTAGGTTTT
*
58207279 AAAATTAATATGATGAAAATTC
1 AAAATTAATATGATGAAAATTA
* *
58207301 ATAATTAA-CTGAT-AAAATTA
1 AAAATTAATATGATGAAAATTA
58207321 AAAATTAA
1 AAAATTAA
58207329 ATTTTTTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 13 0.54
21 4 0.17
22 7 0.29
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (22 bp):
AAAATTAATATGATGAAAATTA
Found at i:58211022 original size:3 final size:3
Alignment explanation
Indices: 58211014--58211050 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
58211004 GGGAAGAACA
58211014 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
58211051 CTGGAGCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:58225780 original size:21 final size:22
Alignment explanation
Indices: 58225754--58225800 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
58225744 CTCTGCTCAA
*
58225754 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
58225775 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
58225797 ACTC
1 ACTC
58225801 ACTCCTTCTG
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:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:58233926 original size:19 final size:20
Alignment explanation
Indices: 58233889--58233928 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
58233879 TCTTTTCGCA
* *
58233889 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
58233909 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
58233928 T
1 T
58233929 AGACACCGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:58236746 original size:14 final size:13
Alignment explanation
Indices: 58236727--58236778 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
58236717 TTGAGTCGTA
58236727 AAAAATGATGAAAT
1 AAAAATGA-GAAAT
*
58236741 AAAAATGAAAAAGT
1 AAAAATGAGAAA-T
* *
58236755 GAAAATAAGAAAT
1 AAAAATGAGAAAT
58236768 AAAAATG-GAAA
1 AAAAATGAGAAA
58236779 AAGAAAAGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
12 4 0.13
13 9 0.29
14 18 0.58
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAAATGAGAAAT
Found at i:58238145 original size:44 final size:44
Alignment explanation
Indices: 58238091--58238459 Score: 366
Period size: 44 Copynumber: 8.3 Consensus size: 44
58238081 TACTGGTGGC
* * *
58238091 GAAGTAGATCGAAGAAAAAAGATCTTGTCTTCATGTATTGGCGC
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
* * * *** *
58238135 GAAGTAGATCGAAGAAAGCATATCTTGTCTCCCCATACTGGTGGT
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGG-CGT
* * *
58238180 GGAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
* * * *
58238224 GAAGTAGATTGAAGAAAGCTGATATTGTCTTCATGTACTGGCGT
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
* * * * * *
58238268 GAAGTAGATCAAAGATACCAGATCTTATCTTCCCATACTAGTGGC--
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTT--CAT-GTACTGGCGT
58238313 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
* * *** *
58238357 GAAGTAGATCAAAG-AAACAGATCTTGTCTCCCCATACTGGTGGT
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGG-CGT
* * * *
58238401 GGAGTAGATTGAAGAAAATAGATCTTATCTTCATGTACTGGCGT
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
*
58238445 GAAGTAGATCAAAGA
1 GAAGTAGATCGAAGA
58238460 TAGCAGGTCC
Statistics
Matches: 256, Mismatches: 61, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
42 6 0.02
43 25 0.10
44 136 0.53
45 80 0.31
46 3 0.01
47 6 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
Found at i:58238172 original size:89 final size:89
Alignment explanation
Indices: 58238067--58238385 Score: 299
Period size: 89 Copynumber: 3.6 Consensus size: 89
58238057 CAAGCAGTAG
* *
58238067 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAAAGATCTTGTCTTCATGTATTGG
1 ATCTTGTCTCCCCATACTGGTGGCGAAGTAGATCAAAGAAAAAAGATCTTGTCTTCATGTATTGG
58238132 CGCGAAGTAGATCGAAGAAAGCAT
66 CGCGAAGTAGATCGAAGAAAGCAT
* * *
58238156 ATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATTGG
1 ATCTTGTCTCCCCATACTGGTGGCGAAGTAGATCAAAGAAAAAAGATCTTGTCTTCATGTATTGG
* *
58238221 CGTGAAGTAGATTGAAGAAAGC-T
66 CGCGAAGTAGATCGAAGAAAGCAT
* * *** * * * ** * *
58238244 GATATTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATACCAGATCTTATCTTCCCATACTA
1 -ATCTTGTCTCCCCATACTGGTGGCGAAGTAGATCAAAGAAAAAAGATCTTGTCTT--CAT-GTA
* * *
58238308 GT-G-GCGAAGTAGATCGAAGAAAACAG
62 TTGGCGCGAAGTAGATCGAAGAAAGCAT
* *** * * *
58238334 ATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG-AAACAGATCTTGTCT
1 ATCTTGTCTCCCCATACTGGTGGCGAAGTAGATCAAAGAAAAAAGATCTTGTCT
58238386 CCCCATACTG
Statistics
Matches: 198, Mismatches: 27, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
88 42 0.21
89 149 0.75
90 4 0.02
91 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (89 bp):
ATCTTGTCTCCCCATACTGGTGGCGAAGTAGATCAAAGAAAAAAGATCTTGTCTTCATGTATTGG
CGCGAAGTAGATCGAAGAAAGCAT
Found at i:58238252 original size:133 final size:133
Alignment explanation
Indices: 58238091--58238373 Score: 395
Period size: 133 Copynumber: 2.1 Consensus size: 133
58238081 TACTGGTGGC
* * * * *
58238091 GAAGTAGATCGAAGAAAAAAGATCTTGTCTTCATGTATTGGCGCGAAGTAGATCGAAGAAAGCAT
1 GAAGTAGATCGAAGAAAAAAGATATTGTCTTCATGTACTGGCGCGAAGTAGATCAAAGAAACCAG
* * * * *
58238156 ATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATTGG
66 ATCTTATCTCCCCATACTAGTGGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG
58238221 CGT
131 CGT
* *** * *
58238224 GAAGTAGATTGAAGAAAGCTGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAG
1 GAAGTAGATCGAAGAAAAAAGATATTGTCTTCATGTACTGGCGCGAAGTAGATCAAAGAAACCAG
* *
58238289 ATCTTATCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGG
66 ATCTTATCTCCCCATACTAGTGGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG
58238354 CGT
131 CGT
*
58238357 GAAGTAGATCAAAGAAA
1 GAAGTAGATCGAAGAAA
58238374 CAGATCTTGT
Statistics
Matches: 130, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 130 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (133 bp):
GAAGTAGATCGAAGAAAAAAGATATTGTCTTCATGTACTGGCGCGAAGTAGATCAAAGAAACCAG
ATCTTATCTCCCCATACTAGTGGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG
CGT
Found at i:58238407 original size:133 final size:133
Alignment explanation
Indices: 58238091--58238432 Score: 371
Period size: 133 Copynumber: 2.6 Consensus size: 133
58238081 TACTGGTGGC
* ** * * ** * * * *
58238091 GAAGTAGATCGAAGAAAAAAGATCTTGTCTTCATGTATTGGCGCGAAGTAGATCGAAGAAAGCAT
1 GAAGTAGATCAAAGAAAGCAGATATTGTCTCCACATACTGGCGTGAAGTAGATCGAAGAAAACAG
* * * * * *
58238156 ATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATTGG
66 ATCTTATCTTCCCATACTAGTGGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG
58238221 CGT
131 CGT
** * * ** * * *
58238224 GAAGTAGATTGAAGAAAGCTGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAG
1 GAAGTAGATCAAAGAAAGCAGATATTGTCTCCACATACTGGCGTGAAGTAGATCGAAGAAAACAG
*
58238289 ATCTTATCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGG
66 ATCTTATCTTCCCATACTAGTGGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG
58238354 CGT
131 CGT
* * * * * *
58238357 GAAGTAGATCAAAGAAA-CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATTGAAGAAAATA
1 GAAGTAGATCAAAGAAAGCAGATATTGTCTCCACATACTGG-CGTGAAGTAGATCGAAGAAAACA
58238421 GATCTTATCTTC
65 GATCTTATCTTC
58238433 ATGTACTGGC
Statistics
Matches: 175, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
132 17 0.10
133 158 0.90
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (133 bp):
GAAGTAGATCAAAGAAAGCAGATATTGTCTCCACATACTGGCGTGAAGTAGATCGAAGAAAACAG
ATCTTATCTTCCCATACTAGTGGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG
CGT
Found at i:58238517 original size:88 final size:86
Alignment explanation
Indices: 58238133--58238520 Score: 293
Period size: 88 Copynumber: 4.4 Consensus size: 86
58238123 ATGTATTGGC
* * *** * * *
58238133 GCGAAGTAGATCGAAGAAAGCATATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAA
1 GCGAAGTAGATCGAA-AAA-CATATCTTATCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA
* * *
58238198 CAGATCTTGTCT-TCATGTATTGG-C
63 CAGATCTTGTCTCCCA--TACTGGTG
* * * * *
58238222 GTGAAGTAGATTGAAGAAAGC-TGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAC
1 GCGAAGTAGATCGAA-AAA-CAT-ATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAA
* *
58238286 CAGATCTTATCTTCCCATACTAGTG
63 CAGATCTTGTC-TCCCATACTGGTG
* *
58238311 GCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA-AAC
1 GCGAAGTAGATCG-A-AAAACATATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAAC
58238375 AGATCTTGTCTCCCCATACTGGTG
64 AGATCTTGTCT-CCCATACTGGTG
* * * *
58238399 GTGGAGTAGATTGAAGAAA-ATAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAG
1 GCGAAGTAGATCGAA-AAACAT--ATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAA
* * *
58238463 CAGGTCCTGTCTCCCTATA-TCGGTA
63 CAGATCTTGTCTCCC-ATACT-GGTG
** * *
58238488 GCGAAGGGGATCGAATATACATATTTTATCTTC
1 GCGAAGTAGATCGAA-AAACATATCTTATCTTC
58238521 CCATACTGGT
Statistics
Matches: 244, Mismatches: 40, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
86 2 0.01
87 5 0.02
88 115 0.47
89 113 0.46
90 8 0.03
91 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (86 bp):
GCGAAGTAGATCGAAAAACATATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
ATCTTGTCTCCCATACTGGTG
Found at i:58238589 original size:221 final size:222
Alignment explanation
Indices: 58238065--58238590 Score: 533
Period size: 221 Copynumber: 2.4 Consensus size: 222
58238055 GACAAGCAGT
* * * * * *
58238065 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA-AAGATCTTGTCTTCATGTAT
1 AGATCTTATCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAACAA-ATCTTATCTCCATGAAC
* * * * * *
58238129 TGGCGCGAAGTAGATCGAAGAAAGCATATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAG
65 AGGAGTGAAGCAGATCAAAGAAAGCAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAG
* * ** * * * *
58238194 AAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATTGAAGAAAGCTGATATTGTCTTCATG
130 AAAACAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAGCAGATACTGTCTCCATA
* * *
58238259 TACTGGCGTGAAGTAGATCAAAGATACC
195 TACTGGAGCGAAGGAGATCAAAGATACC
* * * * *
58238287 AGATCTTATCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
1 AGATCTTATCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAACAAATCTTATCTCCATGAACA
* * **
58238352 GGCGTGAAGTAGATCAAAGAAA-CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATTGAAGA
66 GGAGTGAAGCAGATCAAAGAAAGCAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGA
* * * * *
58238416 AAATAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTCCCTAT
131 AAACAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAGCAGATACTGTCTCCATAT
* * *
58238481 A-TCGGTAGCGAAGGGGATCGAATATA-C
196 ACT-GG-AGCGAAGGAGATCAAAGATACC
* * * * * *
58238508 ATATTTTATCTTCCCATACTGGTGGCGAAAG-AGATTGAGGAAAACAAATCTTATCTCCCT-AAG
1 AGATCTTATCTTCCCATACTAGTGGCG-AAGTAGATCGAAGAAAACAAATCTTATCTCCATGAA-
* *
58238571 CAGTAGTGGAGCAGATCAAA
64 CAGGAGTGAAGCAGATCAAA
58238591 AATGGCAGAT
Statistics
Matches: 256, Mismatches: 43, Indels: 11
0.83 0.14 0.04
Matches are distributed among these distances:
220 2 0.01
221 157 0.61
222 96 0.38
223 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (222 bp):
AGATCTTATCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAACAAATCTTATCTCCATGAACA
GGAGTGAAGCAGATCAAAGAAAGCAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGA
AAACAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAGCAGATACTGTCTCCATAT
ACTGGAGCGAAGGAGATCAAAGATACC
Found at i:58238713 original size:132 final size:131
Alignment explanation
Indices: 58238555--58239166 Score: 838
Period size: 132 Copynumber: 4.6 Consensus size: 131
58238545 AGGAAAACAA
* * *
58238555 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGGCAGATTTTACCTCCCTGAGGTTGC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG-AGATTTTACCTCCCTGAGGTTAC
* *
58238620 AGTGGAGTATATTGAAGCCAGTAATTCTA-CTTCCCTGGGCAGCAGTGGAATAGATTAAAGATTT
65 AGTGGAGTACATTGAAGCCAGTAATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTAAAGATTA
58238684 CAG
129 CAG
* * * * *
58238687 ATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTAC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAG-ATTTTACCTCCCTGAGGTTAC
* * *
58238752 AGTGGAATACATTGAAGCCAGTAATTCTAAT-TCCCCGGGCAGCAGTGGAATAGATTAAAGATTT
65 AGTGGAGTACATTGAAGCCAGTAATTCT-ATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTA
*
58238816 CAA
129 CAG
** * * * * *
58238819 ATCTTGCCTTCCT--GCATAGACAGTGAAGCAGATCGAAGATGGTGAATTTTACCTCCCTGTGGT
1 ATCTTATCTCCCTAAGC--AG-TAGTGGAGCAGATCGAAGATGGAG-ATTTTACCTCCCTGAGGT
* * * *
58238882 TACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGGAATAGATTGAAGAG
62 TACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAT
58238947 TACAG
127 TACAG
*
58238952 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGAGGTTAC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG-AGATTTTACCTCCCTGAGGTTAC
58239017 AGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAA-ATTA
65 AGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATT-AAAGATTA
58239081 CAG
129 CAG
* *
58239084 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGACAGATTTTACCTCCCTGAGGTTAC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG-GAGATTTTACCTCCCTGAGGTTAC
58239149 AGTGGAGTACATTGAAGC
65 AGTGGAGTACATTGAAGC
58239167 TAATCCTATC
Statistics
Matches: 430, Mismatches: 38, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
130 2 0.00
131 1 0.00
132 310 0.72
133 115 0.27
135 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGAGATTTTACCTCCCTGAGGTTACA
GTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACA
G
Found at i:58238925 original size:265 final size:264
Alignment explanation
Indices: 58238551--58239166 Score: 848
Period size: 265 Copynumber: 2.3 Consensus size: 264
58238541 ATTGAGGAAA
* * * * * *
58238551 ACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGGCAGATTTTACCTCCCTGAGG
1 ACAAATCTTACCTCCCTAAGCAGCAGTGAAGCAGATCGAAGATGACAGATTTTACCTCCCTGAGG
* * *
58238616 TTGCAGTGGAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTAAAGA
66 TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTAAAGA
* * * *
58238681 TTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGT
131 GTACAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGA
58238746 GGTTACAGTGGAATACATTGAAGCCAGTAATTCTAAT-TCCCCGGGCAGCAGTGGAATAGATT-A
196 GGTTACAGTGGAATACATTGAAGCCAGTAATTCT-ATCTCCCCGGGCAGCAGTGGAATAGATTGA
58238809 AAGATT
260 AA-ATT
* * * **
58238815 TCAAATCTTGCCTTCCT--GCATAGACAGTGAAGCAGATCGAAGATG-GTGAATTTTACCTCCCT
1 ACAAATCTTACCTCCCTAAGC--AG-CAGTGAAGCAGATCGAAGATGACAG-ATTTTACCTCCCT
* *
58238877 GTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTA-TCTCCCTGGGCAACAGTGGAATAGATT
62 GAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAACAGTGGAATAGATT
* * * *
58238941 GAAGAGTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGGATTTTACCTC
126 AAAGAGTACAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTC
* *
58239006 CCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGA
191 CCTGAGGTTACAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCCGGGCAGCAGTGGAATAGA
58239071 TTGAAAATT
256 TTGAAAATT
* * * * *
58239080 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGACAGATTTTACCTCCCTGAGG
1 ACAAATCTTACCTCCCTAAGCAGCAGTGAAGCAGATCGAAGATGACAGATTTTACCTCCCTGAGG
58239145 TTACAGTGGAGTACATTGAAGC
66 TTACAGTGGAGTACATTGAAGC
58239167 TAATCCTATC
Statistics
Matches: 305, Mismatches: 37, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
262 2 0.01
264 74 0.24
265 224 0.73
266 3 0.01
267 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (264 bp):
ACAAATCTTACCTCCCTAAGCAGCAGTGAAGCAGATCGAAGATGACAGATTTTACCTCCCTGAGG
TTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTAAAGA
GTACAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGA
GGTTACAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCCGGGCAGCAGTGGAATAGATTGAA
AATT
Found at i:58238960 original size:44 final size:44
Alignment explanation
Indices: 58238912--58239165 Score: 151
Period size: 44 Copynumber: 5.8 Consensus size: 44
58238902 CCAGTAATTC
*
58238912 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGAGTACAGATCT
1 TATCTCCCTGGGCAACAGTGGAGTAGATTGAAGAGTACAGATCT
** ** * * * *
58238956 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT--GGATTT
1 TATCTCCCTGGGCAACAGTGGAGTAGATTGAAGA--GTACAGATCT
* ** * *
58239000 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCTG-GGCAACAGTGGAGTAGATTGAAG--AGTACAGATCT
* * * *
58239044 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAAATTACAGATCT
1 TATCTCCCTGGGCAACAGTGGAGTAGATTGAAGAGTACAGATCT
** ** * *
58239088 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-TGACAGATTT
1 TATCTCCCTGGGCAACAGTGGAGTAGATTGAAGAGT-ACAGATCT
* ** *
58239132 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAG
1 TATCTCCCTG-GGCAACAGTGGAGTAGATTGAAG
58239166 CTAATCCTAT
Statistics
Matches: 152, Mismatches: 47, Indels: 21
0.69 0.21 0.10
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 20 0.13
44 91 0.60
45 34 0.22
46 2 0.01
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGGGCAACAGTGGAGTAGATTGAAGAGTACAGATCT
Found at i:58247759 original size:21 final size:21
Alignment explanation
Indices: 58247735--58247774 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
58247725 AATCTTACCG
* *
58247735 CTACAGTATCCAATCTCACTA
1 CTACAATAACCAATCTCACTA
*
58247756 CTACAATAACTAATCTCAC
1 CTACAATAACCAATCTCAC
58247775 CGCCACCGCT
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:0.33, G:0.03, T:0.28
Consensus pattern (21 bp):
CTACAATAACCAATCTCACTA
Found at i:58252840 original size:19 final size:18
Alignment explanation
Indices: 58252773--58252839 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
58252763 CTTTAGATTT
*
58252773 TTTTAAAAATTTTGATAAA
1 TTTTAGAAATTTT-ATAAA
58252792 TTTTCAAGAAA---TATAAA
1 TTTT--AGAAATTTTATAAA
58252809 TTTTAGAAATTTTATAAA
1 TTTTAGAAATTTTATAAA
58252827 TATTTAG-AATTTT
1 T-TTTAGAAATTTT
58252840 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
15 5 0.12
17 9 0.22
18 14 0.34
19 9 0.22
21 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (18 bp):
TTTTAGAAATTTTATAAA
Found at i:58258811 original size:20 final size:20
Alignment explanation
Indices: 58258786--58258824 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
58258776 AAATTACAAA
58258786 AAAAATCAT-AAATAATTTTC
1 AAAAAT-ATAAAATAATTTTC
*
58258806 AAAAATTTAAAATAATTTT
1 AAAAATATAAAATAATTTT
58258825 TAAATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATATAAAATAATTTTC
Found at i:58258831 original size:18 final size:18
Alignment explanation
Indices: 58258808--58258862 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
58258798 TAATTTTCAA
58258808 AAATTTAAAATAATTTTT
1 AAATTTAAAATAATTTTT
**
58258826 AAATTTATAAA-AATTTCA
1 AAATTTA-AAATAATTTTT
*
58258844 AAATTT-ATAT-ATTTTT
1 AAATTTAAAATAATTTTT
58258860 AAA
1 AAA
58258863 AGAATTATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 9 0.30
18 18 0.60
19 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTAAAATAATTTTT
Found at i:58275658 original size:29 final size:30
Alignment explanation
Indices: 58275615--58275671 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
58275605 CCTTTTTACT
* *
58275615 TTTCCCTCAAGACTTTTACTCCT-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCTCTCCCAC
58275644 TTTCCCCCAAAACTTTTACTCCTCTCCC
1 TTTCCCCCAAAACTTTTACTCCTCTCCC
58275672 CTCCCAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.18, C:0.44, G:0.02, T:0.37
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCTCTCCCAC
Done.