Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1611
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: 379729
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 3
Found at i:130 original size:17 final size:17
Alignment explanation
Indices: 78--132 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
68 CTTTGTATTG
78 ATACAA-TGTACGATAC
1 ATACAATTGTACGATAC
* *
94 ATGCTCATTGATATCGATAC
1 ATAC-AATTG-TA-CGATAC
114 ATACAATTGTACGATAC
1 ATACAATTGTACGATAC
131 AT
1 AT
133 GAAACTGGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
16 3 0.10
17 9 0.29
18 4 0.13
19 6 0.19
20 9 0.29
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (17 bp):
ATACAATTGTACGATAC
Found at i:204 original size:19 final size:20
Alignment explanation
Indices: 162--212 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
152 CTAAGTGAAA
* *
162 TGTATCGATACATAGGACAT
1 TGTATCGATACAGAAGACAT
182 TGTATCGATACAGAAGA-AT
1 TGTATCGATACAGAAGACAT
201 TGTATCGATACA
1 TGTATCGATACA
213 TTATGCCCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAGAAGACAT
Found at i:2902 original size:81 final size:82
Alignment explanation
Indices: 2767--2929 Score: 247
Period size: 81 Copynumber: 2.0 Consensus size: 82
2757 GTGTTGATGC
* * *
2767 ATCACCAAGCCTAATTTCCTTGAGGCAAGGTGCAGCCCACACATTCTCAATCATATCCCCTTCAT
1 ATCACCAAGCCTAATTTCCTTGAGGCAAGGTGCAACCCACACATTCCCAATCATATCCCCTTCAC
*
2832 CCAACCA-TTGATGGTA
66 CCAACCACTAGATGGTA
* * * *
2848 ATCACTAAGCCTAATTTCCTTGAGGCAAGTTGCAACTCACACATTCCCAATCATATTCCCTTCAC
1 ATCACCAAGCCTAATTTCCTTGAGGCAAGGTGCAACCCACACATTCCCAATCATATCCCCTTCAC
2913 CCAACCACTAGATGGTA
66 CCAACCACTAGATGGTA
2930 CTGATACATC
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 65 0.89
82 8 0.11
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (82 bp):
ATCACCAAGCCTAATTTCCTTGAGGCAAGGTGCAACCCACACATTCCCAATCATATCCCCTTCAC
CCAACCACTAGATGGTA
Found at i:3476 original size:48 final size:48
Alignment explanation
Indices: 3274--3478 Score: 189
Period size: 48 Copynumber: 4.2 Consensus size: 48
3264 TTGATTGTAT
* *
3274 CTAGTCAAACTCTTTTTCATCCCTTGTTTGATTGTATTGGTGTTAGGGC
1 CTAGTCAAACTC-TTTTCATCCCTTATTTGATTGTATTGGTGTTAGGAC
* * *** * ** * *
3323 TTGGTCAAACTCAAATCTTCCCCCATTTGATTATATTTGCT-TTAGGAC
1 CTAGTCAAACTCTTTTCATCCCTTATTTGATTGTA-TTGGTGTTAGGAC
* * * *
3371 CTAGTCAAACTCTTTTAATCTCTTATTTAATTGTATTAGTGTTAAGG-C
1 CTAGTCAAACTCTTTTCATCCCTTATTTGATTGTATTGGTGTT-AGGAC
* *
3419 CTGGTCAAACTCTTTTCATCCCTTATTTGACTGTATTGGTGTTAGGAC
1 CTAGTCAAACTCTTTTCATCCCTTATTTGATTGTATTGGTGTTAGGAC
**
3467 CTAAACAAACTC
1 CTAGTCAAACTC
3479 GCCTCTTTCC
Statistics
Matches: 117, Mismatches: 35, Indels: 9
0.73 0.22 0.06
Matches are distributed among these distances:
47 6 0.05
48 94 0.80
49 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.41
Consensus pattern (48 bp):
CTAGTCAAACTCTTTTCATCCCTTATTTGATTGTATTGGTGTTAGGAC
Found at i:3476 original size:96 final size:97
Alignment explanation
Indices: 3279--3478 Score: 215
Period size: 96 Copynumber: 2.1 Consensus size: 97
3269 TGTATCTAGT
* * * * * * *
3279 CAAACTCTTTTTCATCCCTTGTTTGATTGTATTGGTGTTAGGGCTTGGTCAAACTCAAATCTTCC
1 CAAACTCTTTTTAATCCCTTATTTAATTGTATTAGTGTTAAGGCCTGGTCAAACTCAAATCATCC
* **
3344 CCCATTTGATTATATTTGCTTTAGGACCTAGT
66 CCCATTTGACTATATTTGCTTTAGGACCTAAA
* ***
3376 CAAACTC-TTTTAATCTCTTATTTAATTGTATTAGTGTTAAGGCCTGGTCAAACTCTTTTCATCC
1 CAAACTCTTTTTAATCCCTTATTTAATTGTATTAGTGTTAAGGCCTGGTCAAACTCAAATCATCC
** * *
3440 CTTATTTGACTGTA-TTGGTGTTAGGACCTAAA
66 CCCATTTGACTATATTTGCT-TTAGGACCTAAA
3472 CAAACTC
1 CAAACTC
3479 GCCTCTTTCC
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
95 4 0.05
96 73 0.87
97 7 0.08
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.41
Consensus pattern (97 bp):
CAAACTCTTTTTAATCCCTTATTTAATTGTATTAGTGTTAAGGCCTGGTCAAACTCAAATCATCC
CCCATTTGACTATATTTGCTTTAGGACCTAAA
Found at i:3710 original size:88 final size:86
Alignment explanation
Indices: 3488--3729 Score: 288
Period size: 85 Copynumber: 2.8 Consensus size: 86
3478 CGCCTCTTTC
* **
3488 CTATCTAACGTATGGTTACCACCCTAGTCAGATTCTTCTCATTTTGATTTGACATATGGTTACCA
1 CTATCTAA-GTATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGATGTATGGTTACCA
* * *
3553 CCTTGGTCAAATATGCCTCTTT
65 CCCTGGTCAAATATGCATCCTT
* * * * *
3575 CT-TATACGTATGGTTACCACCCTCGCCAGATTCTTTTTATTTTGATTTGATGTATGGTTACCAC
1 CTATCTAAGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGATGTATGGTTACCAC
* *
3639 CCTGGTCAAGTCTGCATCCTT
66 CCTGGTCAAATATGCATCCTT
* * ** *
3660 CATATCTGAAGTATGGTTACCACCCTGGTTAGATTCTTTTCATTCCGATTTGATGTACGGTTACC
1 C-TATCT-AAGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGATGTATGGTTACC
3725 ACCCT
64 ACCCT
3730 TGTTAAATCT
Statistics
Matches: 130, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
85 68 0.52
86 4 0.03
87 4 0.03
88 54 0.42
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (86 bp):
CTATCTAAGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGATGTATGGTTACCAC
CCTGGTCAAATATGCATCCTT
Found at i:3722 original size:44 final size:44
Alignment explanation
Indices: 3497--3729 Score: 149
Period size: 44 Copynumber: 5.4 Consensus size: 44
3487 CCTATCTAAC
* * ** *
3497 GTATGGTTACCACCCTAGTCAGATTCTTCTCATTTTGATTTGAC
1 GTATGGTTACCACCCTGGTCAGATTCTTTTCATTCAGATTTGAT
* * * *
3541 ATATGGTTACCACCTTGGTCAAATATGCCTCTTTC-TT---A--T-AC
1 GTATGGTTACCACCCTGGTCAGAT-T--CT-TTTCATTCAGATTTGAT
* * * **
3582 GTATGGTTACCACCCTCGCCAGATTCTTTTTATTTTGATTTGAT
1 GTATGGTTACCACCCTGGTCAGATTCTTTTCATTCAGATTTGAT
* ** * * * *
3626 GTATGGTTACCACCCTGGTCA-AGTCTGCATCCTTCATATCTGAA
1 GTATGGTTACCACCCTGGTCAGATTCT-TTTCATTCAGATTTGAT
* *
3670 GTATGGTTACCACCCTGGTTAGATTCTTTTCATTCCGATTTGAT
1 GTATGGTTACCACCCTGGTCAGATTCTTTTCATTCAGATTTGAT
*
3714 GTACGGTTACCACCCT
1 GTATGGTTACCACCCT
3730 TGTTAAATCT
Statistics
Matches: 142, Mismatches: 34, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
37 3 0.02
38 4 0.03
40 1 0.01
41 22 0.15
42 1 0.01
43 5 0.04
44 94 0.66
45 5 0.04
47 4 0.03
48 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (44 bp):
GTATGGTTACCACCCTGGTCAGATTCTTTTCATTCAGATTTGAT
Found at i:3741 original size:88 final size:87
Alignment explanation
Indices: 3479--3750 Score: 298
Period size: 88 Copynumber: 3.1 Consensus size: 87
3469 AAACAAACTC
* * * * **
3479 GCCTCTTTCCTATCTAACGTATGGTTACCACCCTAGTCAGATTCTTCTCATTTTGATTTGACATA
1 GCCTCATTCATATCTAA-GTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGATGTA
*
3544 TGGTTACCA-CCTTGGTCAAATAT
65 TGGTTACCACCCTT-GTCAAATCT
* * * * * *
3567 GCCTCTTTC-T-TATACGTATGGTTACCACCCTCGCCAGATTCTTTTTATTTTGATTTGATGTAT
1 GCCTCATTCATATCTAAGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGATGTAT
* *
3630 GGTTACCACCCTGGTCAAGTCT
66 GGTTACCACCCTTGTCAAATCT
* * * **
3652 GCATCCTTCATATCTGAAGTATGGTTACCACCCTGGTTAGATTCTTTTCATTCCGATTTGATGTA
1 GCCTCATTCATATCT-AAGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGATGTA
* *
3717 CGGTTACCACCCTTGTTAAATCT
65 TGGTTACCACCCTTGTCAAATCT
3740 GCCTCATTCAT
1 GCCTCATTCAT
3751 GTTTGCCATA
Statistics
Matches: 153, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
85 64 0.42
86 7 0.05
87 3 0.02
88 79 0.52
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (87 bp):
GCCTCATTCATATCTAAGTATGGTTACCACCCTGGTCAGATTCTTTTCATTTTGATTTGATGTAT
GGTTACCACCCTTGTCAAATCT
Found at i:3747 original size:44 final size:44
Alignment explanation
Indices: 3618--3776 Score: 133
Period size: 44 Copynumber: 3.6 Consensus size: 44
3608 TTTTTATTTT
* * *
3618 GATTTGATGTATGGTTACCACCCTGGTCAAGTCTGCATCCTTCA
1 GATTTGATGTATGGTTACCACCCTGGTTAAATCTGCATCATTCA
* * * * ** *
3662 TATCTGAAGTATGGTTACCACCCTGGTTAGATTCT-TTTCATTCC
1 GATTTGATGTATGGTTACCACCCTGGTTA-AATCTGCATCATTCA
* * *
3706 GATTTGATGTACGGTTACCACCCTTGTTAAATCTGCCTCATTCA
1 GATTTGATGTATGGTTACCACCCTGGTTAAATCTGCATCATTCA
*** *
3750 TG-TTTGCCATATGGTTACCGCCCTGGT
1 -GATTTGATGTATGGTTACCACCCTGGT
3777 CAAAGGATTT
Statistics
Matches: 88, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
43 4 0.05
44 79 0.90
45 5 0.06
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (44 bp):
GATTTGATGTATGGTTACCACCCTGGTTAAATCTGCATCATTCA
Found at i:3792 original size:88 final size:88
Alignment explanation
Indices: 3618--3792 Score: 190
Period size: 88 Copynumber: 2.0 Consensus size: 88
3608 TTTTTATTTT
* * *
3618 GATTTGATGTATGGTTACCACCCTGGTCAAGTCTGCATCCTTCATATCTGAAGTATGGTTACCAC
1 GATTTGATGTACGGTTACCACCCTGGTCAAATCTGCATCATTCATATCTGAAGTATGGTTACCAC
* * *** *
3683 CCTGGTTAGATTCTTTTCATTCC
66 CCTGGTCAAAGGATTTGCATTCC
* * * * * * *
3706 GATTTGATGTACGGTTACCACCCTTGTTAAATCTGCCTCATTCATGTTTGCCA-TATGGTTACCG
1 GATTTGATGTACGGTTACCACCCTGGTCAAATCTGCATCATTCATATCTG-AAGTATGGTTACCA
3770 CCCTGGTCAAAGGATTTGCATTC
65 CCCTGGTCAAAGGATTTGCATTC
3793 TTGTCCGATG
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
88 69 0.99
89 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (88 bp):
GATTTGATGTACGGTTACCACCCTGGTCAAATCTGCATCATTCATATCTGAAGTATGGTTACCAC
CCTGGTCAAAGGATTTGCATTCC
Found at i:4044 original size:83 final size:83
Alignment explanation
Indices: 3915--4102 Score: 218
Period size: 83 Copynumber: 2.3 Consensus size: 83
3905 TATCTATTTG
** * * *
3915 TCAGCTTTGACCTGAGAGACCCCTTCACCCTTTGCCTGCCTGTCGACTTTGACCCG-GAAGACTC
1 TCAGCTTTGACCCAAGAGA-CTCTTCACCCTTTACCTGCCTATCGACTTTGACCCGAG-AGACTC
* * *
3979 TTTCACCCTTTGTCTGCCCG
64 CTTCACCCTTTATCTGCCCA
* *
3999 TCGGCTTTG-CCCAAGAGACTCTTCTACCCTTTATCTGCCTATCGACTTTGACCCGAGAGACTCC
1 TCAGCTTTGACCCAAGAGACTCTTC-ACCCTTTACCTGCCTATCGACTTTGACCCGAGAGACTCC
* *
4063 TTCATCCTTTATCTTCCCA
65 TTCACCCTTTATCTGCCCA
*
4082 TCAGCTTTGACCCGAGAGACT
1 TCAGCTTTGACCCAAGAGACT
4103 TCATCTTTTG
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
82 5 0.06
83 63 0.72
84 19 0.22
ACGTcount: A:0.17, C:0.35, G:0.17, T:0.31
Consensus pattern (83 bp):
TCAGCTTTGACCCAAGAGACTCTTCACCCTTTACCTGCCTATCGACTTTGACCCGAGAGACTCCT
TCACCCTTTATCTGCCCA
Found at i:4211 original size:42 final size:41
Alignment explanation
Indices: 3914--4240 Score: 200
Period size: 42 Copynumber: 7.9 Consensus size: 41
3904 TTATCTATTT
* ** * *
3914 GTCAGCTTTGACCTGAGAGACCCCTTCACCCTTTGCCTGCCT
1 GTCAGCTTTGACCCGAGAGA-CTTTTCACCCTTTGTCTGCCC
3956 GTC-GACTTTGACCCG-GAAGACTCTTTCACCCTTTGTCTGCCC
1 GTCAG-CTTTGACCCGAG-AGACT-TTTCACCCTTTGTCTGCCC
* * * * *
3998 GTCGGCTTTG-CCCAAGAGACTCTTCTACCCTTTATCTGCCT
1 GTCAGCTTTGACCCGAGAGACTTTTC-ACCCTTTGTCTGCCC
* * * * *
4039 ATC-GACTTTGACCCGAGAGACTCCTTCATCCTTTATCTTCCC
1 GTCAG-CTTTGACCCGAGAGACT-TTTCACCCTTTGTCTGCCC
* * * *
4081 ATCAGCTTTGACCCGAGAGAC--TTCATCTTTTGTCTACCC
1 GTCAGCTTTGACCCGAGAGACTTTTCACCCTTTGTCTGCCC
* * ** * * * * ** *
4120 ATCGGCTTAAACACAAAAGACTTCTCTA-TTTTTGTTTGCCC
1 GTCAGCTTTGACCCGAGAGACTTTTC-ACCCTTTGTCTGCCC
*
4161 GTCGGCTTTGACCCGAGAGACGTTTTCACCCTTTGTCTGCCC
1 GTCAGCTTTGACCCGAGAGAC-TTTTCACCCTTTGTCTGCCC
* * * *
4203 GTCAGCTTTAACCTGGGAGACTTCTTCATCCTTTGTCT
1 GTCAGCTTTGACCCGAGAGACTT-TTCACCCTTTGTCT
4241 AATCTTGATC
Statistics
Matches: 227, Mismatches: 42, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
39 30 0.13
40 4 0.02
41 61 0.27
42 126 0.56
43 6 0.03
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.33
Consensus pattern (41 bp):
GTCAGCTTTGACCCGAGAGACTTTTCACCCTTTGTCTGCCC
Found at i:6379 original size:79 final size:78
Alignment explanation
Indices: 6140--6445 Score: 303
Period size: 79 Copynumber: 3.9 Consensus size: 78
6130 CATTCCCCGA
* * * * * * *
6140 TGAAAAATTAATATTTTGGAGATAAAAACAGGGTTGGA-TATCCCCTCAGAAATGACGAGATTGA
1 TGAAAAATCAATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGA
*
6204 AGTATCACCGATGG
66 AGTATC-CCGATTG
* * * * *
6218 TGAAAAATCAATG-TTTAGGAAATAAAATCGGGGTTGGAGTAT-CCCTCGGAAATAACAAGGCTG
1 TGAAAAATCAATGTTTTA-GAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTG
*
6281 AAGTATCCCTGATTA
65 AAGTATCCC-GATTG
* * * * * * *
6296 TGAAAAATTAATGTTTTAGAAATAAAGCCAGAGTTGGAGTATCCCCTCAAAAATAATGGGGTTGG
1 TGAAAAATCAATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGA
6361 AGTATCCTCGATTG
66 AGTATCC-CGATTG
* * ** * * *
6375 TGAAAAATCGATGTTTTAGAAATAAAGCTGGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTTA
1 TGAAAAATCAATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGA
6440 AGTATC
66 AGTATC
6446 TCCAATTCTG
Statistics
Matches: 188, Mismatches: 34, Indels: 11
0.81 0.15 0.05
Matches are distributed among these distances:
77 5 0.03
78 86 0.46
79 96 0.51
80 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (78 bp):
TGAAAAATCAATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACGAGGTTGA
AGTATCCCGATTG
Found at i:9185 original size:15 final size:15
Alignment explanation
Indices: 9165--9195 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9155 TAAAAATGTC
*
9165 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
9180 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
9195 C
1 C
9196 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:11448 original size:20 final size:20
Alignment explanation
Indices: 11405--11450 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
11395 AAATCTTTTG
11405 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
11426 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
11446 CAAAA
1 CAAAA
11451 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:13858 original size:13 final size:13
Alignment explanation
Indices: 13840--13865 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13830 TACACAAAGT
13840 ATGTATCGATACA
1 ATGTATCGATACA
13853 ATGTATCGATACA
1 ATGTATCGATACA
13866 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:13863 original size:32 final size:33
Alignment explanation
Indices: 13822--13885 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
13812 TAGCCAAACT
**
13822 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
13854 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
13886 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:16209 original size:20 final size:21
Alignment explanation
Indices: 16184--16223 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
16174 AAAATGCCTG
16184 AATGTACCGATACAT-TGAGA
1 AATGTACCGATACATCTGAGA
*
16204 AATGTATCGATACATCTGAG
1 AATGTACCGATACATCTGAG
16224 TAAAACCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (21 bp):
AATGTACCGATACATCTGAGA
Found at i:16240 original size:30 final size:30
Alignment explanation
Indices: 16204--16297 Score: 91
Period size: 30 Copynumber: 3.5 Consensus size: 30
16194 TACATTGAGA
16204 AATGTATCGATACATCTGAGTAAAACCCAG
1 AATGTATCGATACATCTGAGTAAAACCCAG
*
16234 AATGTATTGATACA----A-T-AAA---A-
1 AATGTATCGATACATCTGAGTAAAACCCAG
* *
16254 AATGTATCGATACGTCTGGGTAAAACCCAG
1 AATGTATCGATACATCTGAGTAAAACCCAG
16284 AATGTATCGATACA
1 AATGTATCGATACA
16298 ATGAATAATG
Statistics
Matches: 49, Mismatches: 5, Indels: 20
0.66 0.07 0.27
Matches are distributed among these distances:
20 12 0.24
21 1 0.02
24 3 0.06
25 2 0.04
26 4 0.08
29 1 0.02
30 26 0.53
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (30 bp):
AATGTATCGATACATCTGAGTAAAACCCAG
Found at i:16258 original size:50 final size:50
Alignment explanation
Indices: 16183--16318 Score: 191
Period size: 50 Copynumber: 2.7 Consensus size: 50
16173 AAAAATGCCT
* * * *
16183 GAATGTACCGATACATTGAGAAATGTATCGATACATCTGAGTAAAACCCA
1 GAATGTATCGATACAATAAAAAATGTATCGATACATCTGAGTAAAACCCA
* * *
16233 GAATGTATTGATACAATAAAAAATGTATCGATACGTCTGGGTAAAACCCA
1 GAATGTATCGATACAATAAAAAATGTATCGATACATCTGAGTAAAACCCA
* *
16283 GAATGTATCGATACAATGAATAATGTATCGATACAT
1 GAATGTATCGATACAATAAAAAATGTATCGATACAT
16319 ATTGTGAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (50 bp):
GAATGTATCGATACAATAAAAAATGTATCGATACATCTGAGTAAAACCCA
Found at i:18955 original size:162 final size:161
Alignment explanation
Indices: 18699--19148 Score: 598
Period size: 163 Copynumber: 2.8 Consensus size: 161
18689 AATCTCTTTC
*
18699 TCGAAAATATCATTTCGTACCTTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTT
1 TCGAAAA-ATCATTTTGTACCTTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTT
* ** * *
18764 ATACCCCTACGGATTTCCATAAAAATATAAAAGATAAAAAAATGATTAATATTTATTTTGATTAT
65 ATACCCCTACAGATTTCCATAGGAATATAAAAGATAAAAAAATGATTAATATTTATTTTAATCAT
* * *
18829 GAAAGTGTCAATTTAATTTTGTTTATTTATTT
130 GAAAGTATCAATTTAATTTTATTTATTTACTT
* * *
18861 TTGAAAAATGCCATTTTGTACCTTAATGAAAACCCAAAAAGATACAAAAAG-TTTTGAAATCTTT
1 TCGAAAAAT--CATTTTGTACCTTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTT
* * * *
18925 TATACCTCTACAGATTTCCATAGGAATATAAAAGATTAAAAAAATTATTAATATTTGTTTCAATC
64 TATACCCCTACAGATTTCCATAGGAATATAAAAGA-TAAAAAAATGATTAATATTTATTTTAATC
* *
18990 ATGAAAGTATTAATTTTATTTTATTTATTTACTT
128 ATGAAAGTATCAATTTAATTTTATTTATTTACTT
* **
19024 TCGAAAAAT-ATTATTCATACCTTAATGGAAACCTGAAAAGATACGAAAAGTTTTTGAAATCTTT
1 TCGAAAAATCATT-TT-GTACCTTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTT
* ** *
19088 TATACCCCTACCGACCTCCATAGGAATATAAAAGATTAAAAAATGATTAATATTTAATTTT
64 TATACCCCTACAGATTTCCATAGGAATATAAAAGATAAAAAAATGATTAATATTT-ATTTT
19149 TACTACAATA
Statistics
Matches: 249, Mismatches: 32, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
160 3 0.01
161 4 0.02
162 97 0.39
163 145 0.58
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (161 bp):
TCGAAAAATCATTTTGTACCTTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTA
TACCCCTACAGATTTCCATAGGAATATAAAAGATAAAAAAATGATTAATATTTATTTTAATCATG
AAAGTATCAATTTAATTTTATTTATTTACTT
Found at i:23494 original size:27 final size:27
Alignment explanation
Indices: 23454--23521 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
23444 GTTTAAAAAC
*
23454 GAGGTTGGAATATCCCCTCCAAAGAAT
1 GAGGTTGGAGTATCCCCTCCAAAGAAT
* * *
23481 GAGGTTGGAGTATCTCTTCGAAAGAAT
1 GAGGTTGGAGTATCCCCTCCAAAGAAT
* *
23508 G-GATTAGAGTATCC
1 GAGGTTGGAGTATCC
23522 TCGTGAATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 10 0.29
27 24 0.71
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (27 bp):
GAGGTTGGAGTATCCCCTCCAAAGAAT
Found at i:25212 original size:13 final size:13
Alignment explanation
Indices: 25194--25219 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25184 TACAGCAAGT
25194 ATGTATCGATACA
1 ATGTATCGATACA
25207 ATGTATCGATACA
1 ATGTATCGATACA
25220 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:27470 original size:21 final size:21
Alignment explanation
Indices: 27437--27481 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27427 TTGCAAGTTG
*
27437 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
27459 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
27479 AAA
1 AAA
27482 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:29305 original size:15 final size:15
Alignment explanation
Indices: 29285--29315 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29275 TAAAAATGTC
*
29285 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
29300 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
29315 C
1 C
29316 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:31413 original size:13 final size:13
Alignment explanation
Indices: 31395--31420 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31385 CATTTTTTCT
31395 TTGTATCGATACA
1 TTGTATCGATACA
31408 TTGTATCGATACA
1 TTGTATCGATACA
31421 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:33966 original size:13 final size:13
Alignment explanation
Indices: 33948--33973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33938 TACAGCAAGT
33948 ATGTATCGATACA
1 ATGTATCGATACA
33961 ATGTATCGATACA
1 ATGTATCGATACA
33974 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:35815 original size:51 final size:50
Alignment explanation
Indices: 35760--35874 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 50
35750 AATTACCTGT
* *
35760 ATGTATCGATA-AATTGAAGAATGTATCGATACATTTGGTCAAAAACCCAAA
1 ATGTATCGATACAA-CGAAGAATGCATCGATACATTTGGTC-AAAACCCAAA
** *
35811 ATGTATTAATACAACGAAGAATGCATCGATAGATTTGGTCAAAACCCAAA
1 ATGTATCGATACAACGAAGAATGCATCGATACATTTGGTCAAAACCCAAA
*
35861 AGGTATCGATACAA
1 ATGTATCGATACAA
35875 TAAAAATGTA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 21 0.38
51 32 0.58
52 2 0.04
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (50 bp):
ATGTATCGATACAACGAAGAATGCATCGATACATTTGGTCAAAACCCAAA
Found at i:41911 original size:21 final size:21
Alignment explanation
Indices: 41885--41929 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
41875 TATTTTAATG
* *
41885 TTAAAATACCTAATCTTATTA
1 TTAAAATAACTAATCTCATTA
*
41906 TTAAAATAATTAATCTCATTA
1 TTAAAATAACTAATCTCATTA
41927 TTA
1 TTA
41930 TTATTGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAAATAACTAATCTCATTA
Found at i:57989 original size:2 final size:2
Alignment explanation
Indices: 57982--58013 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
57972 GTGCCAATAA
57982 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58014 TCTACGATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62157 original size:13 final size:13
Alignment explanation
Indices: 62139--62165 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62129 CAATTTGGTC
62139 ATGTATCGATACA
1 ATGTATCGATACA
62152 ATGTATCGATACA
1 ATGTATCGATACA
62165 A
1 A
62166 AGCAGCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:70608 original size:13 final size:13
Alignment explanation
Indices: 70590--70616 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
70580 CAAAGATCAG
70590 TGTATCGATACAT
1 TGTATCGATACAT
70603 TGTATCGATACAT
1 TGTATCGATACAT
70616 T
1 T
70617 TGAGTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:71249 original size:33 final size:33
Alignment explanation
Indices: 71212--71278 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
71202 TTCAACGATT
71212 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
71245 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
71278 T
1 T
71279 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:71250 original size:13 final size:13
Alignment explanation
Indices: 71232--71256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71222 CATAAAATGT
71232 TGTATCGATACAA
1 TGTATCGATACAA
71245 TGTATCGATACA
1 TGTATCGATACA
71257 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:71337 original size:13 final size:13
Alignment explanation
Indices: 71319--71343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71309 ATTACTCAAA
71319 TGTATCGATACAT
1 TGTATCGATACAT
71332 TGTATCGATACA
1 TGTATCGATACA
71344 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:71445 original size:52 final size:52
Alignment explanation
Indices: 71352--71479 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
71342 CACTGATCTT
*
71352 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
71403 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
71455 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
71480 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:75226 original size:49 final size:49
Alignment explanation
Indices: 75161--75403 Score: 306
Period size: 49 Copynumber: 4.9 Consensus size: 49
75151 ATATTAAAGA
* * * *
75161 TGCCAATACGTTGATTCAAGGCCAACGATATTGGACTTAAGGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
75210 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
75259 TGCCTATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
75308 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGG
* **
75360 CGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
75404 AGATGCCACC
Statistics
Matches: 166, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 125 0.75
52 37 0.22
53 4 0.02
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:75304 original size:98 final size:98
Alignment explanation
Indices: 75108--75411 Score: 351
Period size: 98 Copynumber: 3.1 Consensus size: 98
75098 TTGAAGAAAA
** * * * * * * * *
75108 ATGCCAATGTGCTGAGGCAAGGCCAGTGACATTGGGCTTAGGAATATTAAAGATGCCAATACGTT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AAGA-TGACGGTGCCAATATGCT
*
75173 GATTCAAGGCCAACGATATTGGACTTAAGGATGAAG
63 GATTCAAGGCCAACGATATTGGACTTAAAGATGAAG
* * *
75209 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCTATATGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGCCAATATGCTGAT
* *
75274 TCAAGGCCAGCGATATCGGACTTAAAGATGAAG
66 TCAAGGCCAACGATATTGGACTTAAAGATGAAG
* * *
75307 ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAAGCGCCAATATGCT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC---GGTGCCAATATGCT
* *
75372 GATTCAAGGCCAATGATATTGGACTT--AGAAGAAG
63 GATTCAAGGCCAACGATATTGGACTTAAAGATGAAG
75406 ATGCCA
1 ATGCCA
75412 CCAACTTGTG
Statistics
Matches: 175, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
98 90 0.51
99 16 0.09
101 69 0.39
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (98 bp):
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGCCAATATGCTGAT
TCAAGGCCAACGATATTGGACTTAAAGATGAAG
Found at i:75460 original size:28 final size:28
Alignment explanation
Indices: 75420--76003 Score: 706
Period size: 28 Copynumber: 20.4 Consensus size: 28
75410 CACCAACTTG
75420 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * * *
75448 TGTGGGCTTTTGAAAAGATACCACTAACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
* *
75477 TGTGGGCTTTTAAAGGTTGCTACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
75505 TGTGGG-TTTGGAAAAAGG-TGCCACCTGACT
1 TGTGGGCTTTTG---AAGGTTGCCA-CTGACT
75535 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
75563 TGTGGGCTTTAGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
75591 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
75619 TGTGGGCTTTAGAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
75647 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
*
75677 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * * *
75705 TGTGGGCTTTAGAAAAGATGCCACGGACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
* *
75734 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
75764 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
75792 TGTGGGCTTTAGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
75820 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
*
75850 TATGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* **
75878 TGTGGGCTTTAGAAAGAATGCCA-TGGACT
1 TGTGGGCTTTTG-AAGGTTGCCACT-GACT
* * *
75907 TGTGGGCTTTGGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
75937 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
75965 TGTGGGCTTTGGAAAGGATGCCACGGACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
75994 TGTGGGCTTT
1 TGTGGGCTTT
76004 GGAAAAAGTG
Statistics
Matches: 483, Mismatches: 55, Indels: 35
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.01
28 259 0.54
29 103 0.21
30 113 0.23
31 5 0.01
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.32
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:75773 original size:87 final size:86
Alignment explanation
Indices: 75420--76009 Score: 843
Period size: 87 Copynumber: 6.8 Consensus size: 86
75410 CACCAACTTG
* * * *
75420 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAG-AAGGATGCCACTGACTTGTGGGCT
* * *
75485 TT--TAAAGGTTGCTACTGACT
65 TTGGAAAAGGGTGCCACTGACT
* * *
75505 TGTGGG-TTTGGAAAAAGG-TGCCACCTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGG
1 TGTGGGCTTTTG---AAGGTTGCCA-CTGACTTGTGGGCTTTAGAAGGATGCCACTGACTTGTGG
* *
75568 GCTTT--AGAAGGTTGCCACTGACT
62 GCTTTGGAAAAGGGTGCCACTGACT
* *
75591 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAGGTTGCCACTAACTTGTGGGCTT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAGGATGCCACTGACTTGTGGGCTT
75656 TGGAAAAGGGTGCCACTGACT
66 TGGAAAAGGGTGCCACTGACT
* * *
75677 TGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTAGAAAAGATGCCACGGACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAG-AAGGATGCCACTGACTTGTGGGCT
75742 TTGGAAAAGGGTGCCACTGACT
65 TTGGAAAAGGGTGCCACTGACT
*
75764 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAGGTTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAGGATGCCACTGACTTGTGGGCTT
75829 TGGAAAAGGGTGCCACTGACT
66 TGGAAAAGGGTGCCACTGACT
* *
75850 TATGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAAGAATGCCA-TGGACTTGTGGGC
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAG-AAGGATGCCACT-GACTTGTGGGC
*
75914 TTTGGAAAAGGGTGCCACTAACT
64 TTTGGAAAAGGGTGCCACTGACT
* *
75937 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACGGACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAG-AAGGATGCCACTGACTTGTGGGCT
76002 TTGGAAAA
65 TTGGAAAA
76010 AGTGAGGAAT
Statistics
Matches: 463, Mismatches: 30, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
84 50 0.11
85 11 0.02
86 186 0.40
87 216 0.47
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (86 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAGGATGCCACTGACTTGTGGGCTT
TGGAAAAGGGTGCCACTGACT
Found at i:75799 original size:173 final size:173
Alignment explanation
Indices: 75420--76009 Score: 863
Period size: 173 Copynumber: 3.4 Consensus size: 173
75410 CACCAACTTG
* * *
75420 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAAGGATGCCACTAACTTGTGGGCT
* * * * *
75485 TT--TAAAGGTTGCTACTGACTTGTGGG-TTTGGAAAAAGG-TGCCACCTGACTTGTGGGCTTTT
66 TTGGAAAAGGGTGCCACTGACTTGTGGGCTTT---TAAAGGTTGCCA-CTGACTTGTGGGCTTTA
* * * * *
75546 GAAGGTTGCCACTGACTTGTGGGCTTT--AGAAGGTTGCCACTGACT
127 GAAAGATGCCACGGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
*
75591 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAG-AAGGTTGCCACTAACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAAGGATGCCACTAACTTGTGGGCT
75655 TTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTAGAAA
66 TTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTAG-AA
75720 AGATGCCACGGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
130 AGATGCCACGGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* *
75764 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAG-AAGGTTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAAGGATGCCACTAACTTGTGGGCT
* *
75828 TTGGAAAAGGGTGCCACTGACTTATGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAA
66 TTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTAGAAA
* *
75893 GAATGCCATGGACTTGTGGGCTTTGGAAAAGGGTGCCACTAACT
131 G-ATGCCACGGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
* **
75937 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACGGACTTGTGGGCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAAGGATGCCACTAACTTGTGGGCT
76002 TTGGAAAA
66 TTGGAAAA
76010 AGTGAGGAAT
Statistics
Matches: 388, Mismatches: 22, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
170 45 0.12
171 67 0.17
172 25 0.06
173 221 0.57
174 30 0.08
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (173 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTAGAAAGGATGCCACTAACTTGTGGGCT
TTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTAGAAA
GATGCCACGGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACT
Found at i:77462 original size:1 final size:1
Alignment explanation
Indices: 77458--77568 Score: 60
Period size: 1 Copynumber: 111.0 Consensus size: 1
77448 TTTGTTGTTG
* * * * * * * * * *
77458 TTTTTTTTTGTTTGTTTGTTTGTTTTTTTTTCTTCTTCTTTTTTTTGTTTGTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * * * * **
77523 TCGTTTTGTTTTTTTTTCTTTTTTTTTGTTTATTTGGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
77569 GTGGAGGACG
Statistics
Matches: 77, Mismatches: 33, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.01, C:0.05, G:0.11, T:0.84
Consensus pattern (1 bp):
T
Found at i:77506 original size:29 final size:30
Alignment explanation
Indices: 77448--77549 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 30
77438 CCGGACCCTT
77448 TTTGTTGTTGTTTTTTT-TT-GTTTG--TTTG
1 TTTGTT-TT-TTTTTTTCTTCGTTTGTTTTTG
77476 TTTGTTTTTTTTTCTTCTTC-TTT-TTTTTG
1 TTTGTTTTTTTTT-TTCTTCGTTTGTTTTTG
* *
77505 TTTGTTTGTTTTTTTTTTTCGTTTTGTTTTTT
1 TTTGTTT-TTTTTTTTCTTCG-TTTGTTTTTG
*
77537 TTTCTTTTTTTTT
1 TTTGTTTTTTTTT
77550 GTTTATTTGG
Statistics
Matches: 62, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
26 5 0.08
27 4 0.06
28 11 0.18
29 16 0.26
30 6 0.10
31 9 0.15
32 11 0.18
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.83
Consensus pattern (30 bp):
TTTGTTTTTTTTTTTCTTCGTTTGTTTTTG
Found at i:77510 original size:33 final size:32
Alignment explanation
Indices: 77460--77568 Score: 123
Period size: 33 Copynumber: 3.3 Consensus size: 32
77450 TGTTGTTGTT
77460 TTTTTTTGTTTGTTTGTTTGTTTTTTTTTCTTC-
1 TTTTTTT-TTTGTTTGTTTGTTTTTTTTT-TTCG
77493 TTCTTTTTTTTGTTTGTTTGTTTTTTTTTTTCG
1 TT-TTTTTTTTGTTTGTTTGTTTTTTTTTTTCG
* * *
77526 TTTTGTTTTTT-TTTCTTTTTTTTTGTTTATTTGG
1 TTTT-TTTTTTGTTTGTTTGTTTTT-TTT-TTTCG
77560 TTTTTTTTT
1 TTTTTTTTT
77569 GTGGAGGACG
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
32 16 0.24
33 39 0.57
34 13 0.19
ACGTcount: A:0.01, C:0.05, G:0.11, T:0.83
Consensus pattern (32 bp):
TTTTTTTTTTGTTTGTTTGTTTTTTTTTTTCG
Found at i:77511 original size:51 final size:50
Alignment explanation
Indices: 77445--77570 Score: 152
Period size: 51 Copynumber: 2.5 Consensus size: 50
77435 CATCCGGACC
* *
77445 CTTTTTGTTG-TTGTTTTTTTTTGTTTGTTTG-TTTGTTTTTTTTTCTTCTT
1 CTTTTTTTTGTTTGTTTTTTTTTGTTT-TTCGTTTTGTTTTTTTTTCTT-TT
77495 CTTTTTTTTGTTTGTTTGTTTTTT-TTTTTCGTTTTGTTTTTTTTTCTTTT
1 CTTTTTTTTGTTTGTTT-TTTTTTGTTTTTCGTTTTGTTTTTTTTTCTTTT
*
77545 -TTTTTGTTTATTTGGTTTTTTTTTGT
1 CTTTTT-TTTGTTT-GTTTTTTTTTGT
77571 GGAGGACGTC
Statistics
Matches: 67, Mismatches: 3, Indels: 11
0.83 0.04 0.14
Matches are distributed among these distances:
49 5 0.07
50 26 0.39
51 30 0.45
52 6 0.09
ACGTcount: A:0.01, C:0.05, G:0.13, T:0.82
Consensus pattern (50 bp):
CTTTTTTTTGTTTGTTTTTTTTTGTTTTTCGTTTTGTTTTTTTTTCTTTT
Found at i:77529 original size:6 final size:5
Alignment explanation
Indices: 77447--77553 Score: 68
Period size: 5 Copynumber: 22.6 Consensus size: 5
77437 TCCGGACCCT
* * * *
77447 TTTTG TTGTTG TTTTT TTTTG -TTTG -TTTG -TTTG TTTTT TTTTC TTCTTC
1 TTTTG TT-TTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TT-TTG
* * *
77496 TTTT- TTTTG -TTTG -TTTG TTTT- TTTT- TTTCG TTTTG TTTTT TTTTC
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
*
77541 TTTTT TTTTG TTT
1 TTTTG TTTTG TTT
77554 ATTTGGTTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
4 31 0.36
5 45 0.52
6 10 0.12
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.83
Consensus pattern (5 bp):
TTTTG
Found at i:77537 original size:37 final size:37
Alignment explanation
Indices: 77446--77553 Score: 116
Period size: 37 Copynumber: 2.9 Consensus size: 37
77436 ATCCGGACCC
77446 TTTTT-GTTGTTG-TTTTTTTTTGTTTGTTTGTTTGTTTT
1 TTTTTCGTT-TTGTTTTTTTTTTGTTTGTTTG-TT-TTTT
* *
77484 TTTTTC-TTCT-TCTTTTTTTTGTTTGTTTGTTTTTT
1 TTTTTCGTTTTGTTTTTTTTTTGTTTGTTTGTTTTTT
* *
77519 TTTTTCGTTTTGTTTTTTTTTCTTTTTTTTTGTTT
1 TTTTTCGTTTTGTTTTTTTTT-TGTTTGTTTGTTT
77554 ATTTGGTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
35 10 0.17
36 5 0.08
37 26 0.44
38 18 0.31
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.83
Consensus pattern (37 bp):
TTTTTCGTTTTGTTTTTTTTTTGTTTGTTTGTTTTTT
Found at i:77564 original size:46 final size:46
Alignment explanation
Indices: 77479--77568 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
77469 TTGTTTGTTT
* *
77479 GTTTTTTTTTCTTCTTCTTTTTTTTGTTTGTTTGTTTTTTTTTTTC
1 GTTTTTTTTTCTTCTTCTTTTTTTTGTTTATTTGGTTTTTTTTTTC
77525 GTTTTGTTTTT-TT-TTCTTTTTTTTTGTTTATTTGGTTTTTTTTT
1 GTTTT-TTTTTCTTCTTC-TTTTTTTTGTTTATTTGGTTTTTTTTT
77569 GTGGAGGACG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 3 0.08
46 32 0.80
47 5 0.12
ACGTcount: A:0.01, C:0.06, G:0.10, T:0.83
Consensus pattern (46 bp):
GTTTTTTTTTCTTCTTCTTTTTTTTGTTTATTTGGTTTTTTTTTTC
Found at i:91581 original size:52 final size:52
Alignment explanation
Indices: 91432--91560 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
91422 CGAAATATGA
*
91432 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* * *
91484 AAATTTGCCTGTATATATCGATGCATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
91536 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
91561 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:91587 original size:13 final size:13
Alignment explanation
Indices: 91569--91595 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
91559 CAAAGATCAG
91569 TGTATCGATACAT
1 TGTATCGATACAT
91582 TGTATCGATACAT
1 TGTATCGATACAT
91595 T
1 T
91596 TGAGTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:91683 original size:13 final size:13
Alignment explanation
Indices: 91665--91689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91655 ACAACACTTA
91665 TGTATCGATACAT
1 TGTATCGATACAT
91678 TGTATCGATACA
1 TGTATCGATACA
91690 AATCGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:93076 original size:2 final size:2
Alignment explanation
Indices: 93069--93102 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
93059 GAGATTTATT
93069 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93103 CACACATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:99896 original size:160 final size:163
Alignment explanation
Indices: 99728--100103 Score: 424
Period size: 166 Copynumber: 2.3 Consensus size: 163
99718 TTTAATTCAA
* *
99728 ATTAAATCAATTTTAAAAATTTAATTTATTTTCATGAGTTTTGGA-TTTT-TTT-AAATCCCTCT
1 ATTAAATCAGTTTTAAAAATTTAATTTATTTTCATGAGTTTTGAATTTTTCTTTGAAATCCC-CT
* * * *
99790 TTTT-TTCCAAAAAATTGAGTTTTCTTTCCCATAAAAATTCTTGGGGTGA-T-TTTGGTCTAAAA
65 TTTTCTT--AAAAAACTGAGCTTTCTTTCCCATAAAAATTCTTGGGGAGATTATTTAGTCTAAAA
* * *
99852 TTTTTAAAATATATCTAATAATGTTATGGAATTTCC
128 TTTTTAAAATATATCTAATAATGTCATGGAACTCCC
* *
99888 ATTAAATCAGGTTTAAAAATTTAATTCATTTTCATGAGTTTTGAATTTTTTCTTTGAAATCCCCT
1 ATTAAATCAGTTTTAAAAATTTAATTTATTTTCATGAGTTTTGAA-TTTTTCTTTGAAATCCCCT
* ** * *
99953 TTTTCTTGAAAAACTGAGCTTTCTTTTTCATAAATATTTTTGGGGAGATTTTATTTAGTCTAAAA
65 TTTTCTTAAAAAACTGAGCTTTCTTTCCCATAAAAATTCTTGGGGAGA--TTATTTAGTCTAAAA
* * *
100018 TTTTTAAAATGTATCTAATATTGTCATTGAACTCCC
128 TTTTTAAAATATATCTAATAATGTCATGGAACTCCC
* * * * *
100054 ATTAATTCAGTTTTGAAAAATTCAATTTATTTT-TTAAATTTTGAATTTTT
1 ATTAAATCAGTTTT-AAAAATTTAATTTATTTTCATGAGTTTTGAATTTTT
100104 ATATATATTG
Statistics
Matches: 180, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
160 41 0.23
162 37 0.21
163 9 0.05
164 9 0.05
165 6 0.03
166 62 0.34
167 16 0.09
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (163 bp):
ATTAAATCAGTTTTAAAAATTTAATTTATTTTCATGAGTTTTGAATTTTTCTTTGAAATCCCCTT
TTTCTTAAAAAACTGAGCTTTCTTTCCCATAAAAATTCTTGGGGAGATTATTTAGTCTAAAATTT
TTAAAATATATCTAATAATGTCATGGAACTCCC
Found at i:100602 original size:12 final size:13
Alignment explanation
Indices: 100585--100622 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
100575 TGAAAGTGGG
*
100585 AGAAAAAA-AAGA
1 AGAAAAAAGAAAA
100597 AGAAAAAAGAAAA
1 AGAAAAAAGAAAA
100610 AGAAAAAGAGAAA
1 AGAAAAA-AGAAA
100623 TCTAGCTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.35
13 10 0.43
14 5 0.22
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AGAAAAAAGAAAA
Found at i:102425 original size:155 final size:154
Alignment explanation
Indices: 102175--102942 Score: 837
Period size: 155 Copynumber: 5.0 Consensus size: 154
102165 CCCTCACGTC
* * * * * * * * **
102175 TTAAAATCTTTTTTAAGTCCTTTAAGGGCATCTGGTACTTTTACGTCGAAGGTATCCCTTGGAGG
1 TTAAAATCCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACATCCAAGATATCCCCTAAAGG
* * * * **
102240 TATTTTTGTAATTTTCTAGAACTAACTCCTAGGTTGTCACCGGGT-TCGCTTTTATGCTTAAGGT
66 CATTTTCGTAATTTT-TAGAACCAACTCCTAGGTCGTCACCGGGTCT-GCTTTTATGCCGAAGGT
*
102304 AGGTATTTAGGATAGGTTCGTCCTTT
129 AGGTATTTAGGATAGGTTCATCCTTT
* * *
102330 TTAAAATCCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACATCGAAAATATCCCCTAAAAG
1 TTAAAATCCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACATCCAAGATATCCCCTAAAGG
* * * * ** *
102395 CATTTTCATAATTTTTCAAAACCAAATCCTAGGTCGACATTGGGTCTGCTTTTATGTCGAAGGTA
66 CATTTTCGTAATTTTT-AGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCCGAAGGTA
* *
102460 GGTATTGAGGATAGGTTCATCCCTT
130 GGTATTTAGGATAGGTTCATCCTTT
* * ** * *
102485 TTAAAATTC-TTTTAAGTCTTTTATGGGGTATTGGGTACTTTTACATCCAAGGTATCCCCTATAG
1 TTAAAATCCTTTTTAAGTCCTTTA-GGGGTATCAGGTACTTTTACATCCAAGATATCCCCTAAAG
* * * * * * *
102549 GCATTTTCGTAATTTTTAAAACTAACTTCTAGATTGTCACCGGGTCTGCTTTTATGCCGATGGTG
65 GCATTTTCGTAATTTTTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCCGAAGGTA
102614 GGTATTTAGGATAGGTTCATCCTTT
130 GGTATTTAGGATAGGTTCATCCTTT
** * * * * *
102639 TTAAAATTATTTTTAAGTCCTTTAGGGATATCGGGTACTTTTACA-CCAAAAGTATCCTCT-AGG
1 TTAAAATCCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACATCCAAGA-TATCCCCTAAAG
* * * * *
102702 GTTATTTTCATCATTTTTTAGAACCAACTCCTAGGTCATCACCGGGTTTGCTTTTATGCCGAAGG
65 G-CATTTTCGT-AATTTTTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCCGAAGG
102767 TAGGTATTTAGGATAGGTTCATCC-TT
128 TAGGTATTTAGGATAGGTTCATCCTTT
* * * * ** * *
102793 TTAAAATCTTTTTTAAGTCTTTTAGGGGTATCAAGTATTTTTATGTCCAAGATAT-CCCTTAGGG
1 TTAAAATCCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACATCCAAGATATCCCCTAAAGG
* * *
102857 CATTTTCGTAATTTTTAGAACCAATTCCTAGGTCGTCACTGGGTCTGCTTTTATGCCAAAGGTAG
66 CATTTTCGTAATTTTTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCCGAAGGTAG
*
102922 ATATTTAGGATAGGTTCATCC
131 GTATTTAGGATAGGTTCATCC
102943 CATCATTCTT
Statistics
Matches: 513, Mismatches: 91, Indels: 21
0.82 0.15 0.03
Matches are distributed among these distances:
152 70 0.14
153 16 0.03
154 160 0.31
155 266 0.52
156 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (154 bp):
TTAAAATCCTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACATCCAAGATATCCCCTAAAGG
CATTTTCGTAATTTTTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCCGAAGGTAG
GTATTTAGGATAGGTTCATCCTTT
Found at i:102736 original size:309 final size:307
Alignment explanation
Indices: 102175--102942 Score: 949
Period size: 309 Copynumber: 2.5 Consensus size: 307
102165 CCCTCACGTC
* * * * * *
102175 TTAAAATCTTTTTTAAGTCCTTTAAGGGCATCTGGTACTTTTACGTCGAAGGTAT-CCCTTGGAG
1 TTAAAATCTCTTTTAAGTCTTTTAGGGGTATCAGGTACTTTTACGTCCAAGGTATCCCCTT--AG
* * * **
102239 GTATTTTTGTAATTTTCTAGAACTAACTCCTAGGTTGTCACCGGGT-TCGCTTTTATGCTTAAGG
64 GCATTTTCGTAATTTT-TAGAACTAACTTCTAGGTTGTCACCGGGTCT-GCTTTTATGCCAAAGG
* * *
102303 TAGGTATTTAGGATAGGTTCGTCCTTTTTAAAATCCTTTTTAAGTCCTTTAGGGGTATCAGGTAC
127 TAGGTATTTAGGATAGGTTCATCCTTTTTAAAATCATTTTTAAGTCCTTTAGGGATATCAGGTAC
*
102368 TTTTACATCGAAAATATCCCCTAAAAGCATTTTCATAATTTTTCAAAACCAAATCCTAGGTCGA-
192 TTTTACATCCAAAATATCCCCTAAAAGCATTTTCATAATTTTTCAAAACCAAATCCTAGGTC-AT
** *
102432 CATTGGGTCTGCTTTTATGTCGAAGGTAGGTATTGAGGATAGGTTCATCCCTT
256 CACCGGGTCTGCTTTTATGCCGAAGGTAGGTATTGAGGATAGGTTCAT-CCTT
** *
102485 TTAAAAT-TCTTTTAAGTCTTTTATGGGGTATTGGGTACTTTTACATCCAAGGTATCCCCTATAG
1 TTAAAATCTCTTTTAAGTCTTTTA-GGGGTATCAGGTACTTTTACGTCCAAGGTATCCCCT-TAG
* * * * *
102549 GCATTTTCGTAATTTTTAAAACTAACTTCTAGATTGTCACCGGGTCTGCTTTTATGCCGATGGTG
64 GCATTTTCGTAATTTTTAGAACTAACTTCTAGGTTGTCACCGGGTCTGCTTTTATGCCAAAGGTA
* *
102614 GGTATTTAGGATAGGTTCATCCTTTTTAAAATTATTTTTAAGTCCTTTAGGGATATCGGGTACTT
129 GGTATTTAGGATAGGTTCATCCTTTTTAAAATCATTTTTAAGTCCTTTAGGGATATCAGGTACTT
* ** * * * * *
102679 TTACA-CCAAAAGTATCCTCT-AGGGTTATTTTCATCATTTTTTAGAACCAACTCCTAGGTCATC
194 TTACATCCAAAA-TATCCCCTAAAAG-CATTTTCATAATTTTTCAAAACCAAATCCTAGGTCATC
* *
102742 ACCGGGTTTGCTTTTATGCCGAAGGTAGGTATTTAGGATAGGTTCATCCTT
257 ACCGGGTCTGCTTTTATGCCGAAGGTAGGTATTGAGGATAGGTTCATCCTT
* * * * *
102793 TTAAAATCTTTTTTAAGTCTTTTAGGGGTATCAAGTATTTTTATGTCCAAGATAT-CCCTTAGGG
1 TTAAAATCTCTTTTAAGTCTTTTAGGGGTATCAGGTACTTTTACGTCCAAGGTATCCCCTTA-GG
* * *
102857 CATTTTCGTAATTTTTAGAACCAA-TTCCTAGGTCGTCACTGGGTCTGCTTTTATGCCAAAGGTA
65 CATTTTCGTAATTTTTAGAACTAACTT-CTAGGTTGTCACCGGGTCTGCTTTTATGCCAAAGGTA
*
102921 GATATTTAGGATAGGTTCATCC
129 GGTATTTAGGATAGGTTCATCC
102943 CATCATTCTT
Statistics
Matches: 395, Mismatches: 53, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
306 4 0.01
307 80 0.20
308 43 0.11
309 214 0.54
310 49 0.12
311 4 0.01
312 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (307 bp):
TTAAAATCTCTTTTAAGTCTTTTAGGGGTATCAGGTACTTTTACGTCCAAGGTATCCCCTTAGGC
ATTTTCGTAATTTTTAGAACTAACTTCTAGGTTGTCACCGGGTCTGCTTTTATGCCAAAGGTAGG
TATTTAGGATAGGTTCATCCTTTTTAAAATCATTTTTAAGTCCTTTAGGGATATCAGGTACTTTT
ACATCCAAAATATCCCCTAAAAGCATTTTCATAATTTTTCAAAACCAAATCCTAGGTCATCACCG
GGTCTGCTTTTATGCCGAAGGTAGGTATTGAGGATAGGTTCATCCTT
Found at i:104899 original size:36 final size:37
Alignment explanation
Indices: 104829--104899 Score: 92
Period size: 36 Copynumber: 1.9 Consensus size: 37
104819 TTTTAAGACT
* *
104829 TTTGTCTTAAATTGGACATTACCTAACTTTTATATTG
1 TTTGTCTTAAATTGGACATTACCTAACCTCTATATTG
*
104866 TTTGTCTT-AATTAGG-CATTATCTAACCTCTATAT
1 TTTGTCTTAAATT-GGACATTACCTAACCTCTATAT
104900 AACTTTGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 20 0.67
37 10 0.33
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (37 bp):
TTTGTCTTAAATTGGACATTACCTAACCTCTATATTG
Found at i:107677 original size:19 final size:17
Alignment explanation
Indices: 107647--107714 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
107637 TTGTTTCATC
107647 TTTAGTAATTTTATTATT
1 TTTA-TAATTTTATTATT
** *
107665 TTTATTAAATTTTAAAATA
1 TTTA-T-AATTTTATTATT
107684 TTTATAATTTTATATATT
1 TTTATAATTTTAT-TATT
107702 TTT-TAATATTTAT
1 TTTATAAT-TTTAT
107715 ATTATGATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
17 11 0.28
18 16 0.40
19 13 0.32
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (17 bp):
TTTATAATTTTATTATT
Found at i:107743 original size:19 final size:19
Alignment explanation
Indices: 107707--107763 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
107697 ATATTTTTTA
* *
107707 ATATTTATATTATGATATTAT
1 ATATTTAT-TT-TTATATGAT
107728 ATATTTATTTTTATATGAT
1 ATATTTATTTTTATATGAT
*
107747 ATAAATTATTTTTATAT
1 AT-ATTTATTTTTATAT
107764 ATAAATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.28
20 15 0.47
21 8 0.25
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
ATATTTATTTTTATATGAT
Found at i:107766 original size:24 final size:25
Alignment explanation
Indices: 107710--107774 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 25
107700 TTTTTTAATA
*
107710 TTTATAT-TATGATAT-TATATATT
1 TTTATATATATGATATAAATATATT
*
107733 TATT-TTTATATGATATAAAT-TATT
1 T-TTATATATATGATATAAATATATT
*
107757 TTTATATATA-AATATAAA
1 TTTATATATATGATATAAA
107775 AATAATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
23 12 0.35
24 20 0.59
25 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (25 bp):
TTTATATATATGATATAAATATATT
Found at i:107869 original size:19 final size:19
Alignment explanation
Indices: 107821--107870 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
107811 AATTCGAATC
* *
107821 AAATTATTTTAATTTTTTT
1 AAATTATTTTTATTTTTTA
* *
107840 AAATAAATTTTATTTTTTA
1 AAATTATTTTTATTTTTTA
107859 AAATTATTTTTA
1 AAATTATTTTTA
107871 AAATTTAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AAATTATTTTTATTTTTTA
Found at i:108864 original size:2 final size:2
Alignment explanation
Indices: 108857--108891 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
108847 AATAATTAAA
108857 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
108892 AGAATGGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:111615 original size:51 final size:51
Alignment explanation
Indices: 111560--111662 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
111550 AATAACAATT
*
111560 TAAGCATATCAAGAGGCACTAGTAATTTGTCTAGAAAGGAAATTTGTAATA
1 TAAGCACATCAAGAGGCACTAGTAATTTGTCTAGAAAGGAAATTTGTAATA
* *
111611 TAAGCACATCTAGAGGCACTAGTAATTTGTGTAGAAAGGAAATTTGTAATA
1 TAAGCACATCAAGAGGCACTAGTAATTTGTCTAGAAAGGAAATTTGTAATA
111662 T
1 T
111663 TCTTTATGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (51 bp):
TAAGCACATCAAGAGGCACTAGTAATTTGTCTAGAAAGGAAATTTGTAATA
Found at i:111809 original size:97 final size:96
Alignment explanation
Indices: 111631--111825 Score: 336
Period size: 97 Copynumber: 2.0 Consensus size: 96
111621 TAGAGGCACT
* *
111631 AGTAATTTGTGTAGAAAGGAAATTTGTAATATTCTTTATGCCCTTAAATAGCAAGGGTATGCTTT
1 AGTAATTTGTCTAGAAAGGAAATTTGTAACATTCTTTATGCCCTTAAATAGCAAGGGTATGCTTT
* *
111696 CAGTTGATGATGAATGAGTACATAATTGTGA
66 CAGTTGATGATGAATGAATACATAATTATGA
*
111727 AGTAATTTGTCTAGAAAGGAAATTTGTAACATTCTTTATGCCCCTTAAATTGCAAGGGTATGCTT
1 AGTAATTTGTCTAGAAAGGAAATTTGTAACATTCTTTATG-CCCTTAAATAGCAAGGGTATGCTT
111792 TCAGTTGATGATGAATGAATACATAATTATGA
65 TCAGTTGATGATGAATGAATACATAATTATGA
111824 AG
1 AG
111826 CACCGACACA
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
96 38 0.41
97 55 0.59
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.36
Consensus pattern (96 bp):
AGTAATTTGTCTAGAAAGGAAATTTGTAACATTCTTTATGCCCTTAAATAGCAAGGGTATGCTTT
CAGTTGATGATGAATGAATACATAATTATGA
Found at i:112184 original size:15 final size:15
Alignment explanation
Indices: 112166--112204 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
112156 GGATGGAGAT
*
112166 AAAGGGAAAAGGAAG
1 AAAGGGAAAAGCAAG
* *
112181 AAAGAGAAATGCAAG
1 AAAGGGAAAAGCAAG
112196 AAAGGGAAA
1 AAAGGGAAA
112205 GTAAAAAGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.03, G:0.33, T:0.03
Consensus pattern (15 bp):
AAAGGGAAAAGCAAG
Found at i:114105 original size:25 final size:23
Alignment explanation
Indices: 114054--114110 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
114044 GAAGGAAGAG
*
114054 ATATTTTTTGTTTTAATAGCTGT
1 ATATTTTTTGTTTTAATAACTGT
114077 ATATTTTTTGTTTTAATAACTGT
1 ATATTTTTTGTTTTAATAACTGT
* *
114100 AAATATTTTGT
1 ATATTTTTTGT
114111 GACTACTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.60
Consensus pattern (23 bp):
ATATTTTTTGTTTTAATAACTGT
Found at i:120180 original size:21 final size:21
Alignment explanation
Indices: 120156--120196 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
120146 CAATAGAGAA
120156 AGGTCTAAGATTACAATTTCC
1 AGGTCTAAGATTACAATTTCC
*
120177 AGGTGTAAGATTACAATTTC
1 AGGTCTAAGATTACAATTTC
120197 TCTCAACACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (21 bp):
AGGTCTAAGATTACAATTTCC
Found at i:125830 original size:2 final size:2
Alignment explanation
Indices: 125823--125861 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
125813 ATTGGTTAAT
125823 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125862 CTTAGGTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:126091 original size:25 final size:25
Alignment explanation
Indices: 126062--126114 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
126052 AATAGTTTTG
*
126062 ATTTTTTTA-TTCATTATCATA-AT
1 ATTTTTTTATTTCATTATCAAACAT
*
126085 ATTTTTTTATTTCATTCTCAAACAT
1 ATTTTTTTATTTCATTATCAAACAT
126110 ATTTT
1 ATTTT
126115 AGAATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 9 0.35
24 10 0.38
25 7 0.27
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTTTATTTCATTATCAAACAT
Found at i:126845 original size:17 final size:19
Alignment explanation
Indices: 126825--126869 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
126815 TAAAATTTAA
126825 ATTAAATTATG-AAATT-T
1 ATTAAATTATGCAAATTAT
*
126842 ATTACA-TATGCAAATTAT
1 ATTAAATTATGCAAATTAT
*
126860 ATAAAATTAT
1 ATTAAATTAT
126870 TACAACATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 4 0.18
17 10 0.45
18 5 0.23
19 3 0.14
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (19 bp):
ATTAAATTATGCAAATTAT
Found at i:129905 original size:84 final size:83
Alignment explanation
Indices: 129802--129956 Score: 240
Period size: 84 Copynumber: 1.9 Consensus size: 83
129792 TGAAATTAAG
* * *
129802 TTATTCTTTAAATTATTATCAATTGA-TTCATTATTTATACAAAAAATACATTATCTAATAAATT
1 TTATTCTTTAAATTATTATCAAAT-ATTTCATTATTTATACAAAAAATAAACTATCTAATAAATT
129866 CAAAAATTAAACGCGTAAAA
65 -AAAAATTAAACGCGTAAAA
* *
129886 TTATTTTTTAAATTATTATCAAATATTTCATTATTTATACAAAAAATAAACTATTTAATAAATTA
1 TTATTCTTTAAATTATTATCAAATATTTCATTATTTATACAAAAAATAAACTATCTAATAAATTA
129951 AAAATT
66 AAAATT
129957 TGAACATGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
83 8 0.12
84 57 0.88
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (83 bp):
TTATTCTTTAAATTATTATCAAATATTTCATTATTTATACAAAAAATAAACTATCTAATAAATTA
AAAATTAAACGCGTAAAA
Found at i:137899 original size:33 final size:33
Alignment explanation
Indices: 137838--137901 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
137828 CCATGTTCAC
** *
137838 TCCATTCTTTTGGAAATTTTGGAGGAATATCAA
1 TCCATTCTTTTGGAAATTTCAGAAGAATATCAA
137871 TCCATTCTTTTGGAAATTTCAGAAGAATATC
1 TCCATTCTTTTGGAAATTTCAGAAGAATATC
137902 TAAAGTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (33 bp):
TCCATTCTTTTGGAAATTTCAGAAGAATATCAA
Found at i:139881 original size:19 final size:20
Alignment explanation
Indices: 139857--139898 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
139847 ATTAAATAAA
* *
139857 ATAAA-TATTTTATATTTTT
1 ATAAATTATTTAATATTTAT
139876 ATAAATTATTTAATATTTAT
1 ATAAATTATTTAATATTTAT
139896 ATA
1 ATA
139899 TTTTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAAATTATTTAATATTTAT
Found at i:139898 original size:28 final size:27
Alignment explanation
Indices: 139860--139912 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
139850 AAATAAAATA
139860 AATATTTTATATTTTTATAAATTATTT
1 AATATTTTATATTTTTATAAATTATTT
*
139887 AATATTTATATATTTTTTTAAATTAT
1 AATATTT-TATATTTTTATAAATTAT
139913 AATATGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
AATATTTTATATTTTTATAAATTATTT
Found at i:141102 original size:19 final size:19
Alignment explanation
Indices: 141080--141118 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
141070 GATCAAAATA
141080 TTTTTAATTTTGTTTATAT
1 TTTTTAATTTTGTTTATAT
141099 TTTTTAATTTTGTTTATAT
1 TTTTTAATTTTGTTTATAT
141118 T
1 T
141119 AATACTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTAATTTTGTTTATAT
Found at i:141950 original size:20 final size:20
Alignment explanation
Indices: 141925--142004 Score: 81
Period size: 20 Copynumber: 3.9 Consensus size: 20
141915 ACTGCCAAGG
141925 AAATGTATCGATACATTACT
1 AAATGTATCGATACATTACT
*
141945 AAATGTATTGATACATGCTTAC-
1 AAATGTATCGATACA---TTACT
* *
141967 AATTGTATCGATACATTTCT
1 AAATGTATCGATACATTACT
* *
141987 CATTGTATCGATACATTA
1 AAATGTATCGATACATTA
142005 TGGGTTTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
19 3 0.06
20 30 0.60
22 13 0.26
23 4 0.08
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:143476 original size:398 final size:399
Alignment explanation
Indices: 142721--143523 Score: 1441
Period size: 398 Copynumber: 2.0 Consensus size: 399
142711 GTGTTGGTAT
*
142721 ATTTTCTGGACTTTATTCTTTTATTTTCTATTTATGTGTTCATTATCATTTTAGTAATCCTAACA
1 ATTTTCTGGACTTTATTCTTTTATTTTCTATTTATGTGTTCATCATCATTTTAGTAATCCTAACA
*
142786 TGTTTTCATGACCCACTTAGGATCATCATGCATTATTGTGGCCTTGGATGTGGTAGCTTTACGAT
66 TGTTTTCATGACCCACTTAGGATCATCATGCATTATTGTGGCCTTGGATATGGTAGCTTTACGAT
142851 TATTTTAATGTTTTAAGGTCATTTGTGTGCTTAGTATGCTATTTCCAATCTCCATCATCTTGACA
131 TATTTTAATGTTTTAAGGTCATTTGTGTGCTTAGTATGCTATTTCCAATCTCCATCATCTTGACA
* *
142916 GCTTTAATCATGCATTTTTTACTATGTTTTATGCATTTTTAGCATGTCCAACATCTCTATGAATG
196 GCTTTAATCATGCATTTTTTACTATGTTTCATGCATTTTTAGCATGTCCAACATCTCCATGAATG
142981 TCATTCATCATTTTCTTATATATTCATCATGTCATCTTTGTCAAATGCATGTTTGTTTGCCTTAA
261 TCATTCATCATTTTCTTATATATTCATCATGTCATCTTTGTCAAATGCATGTTTGTTTGCCTTAA
* * *
143046 AAACTGATTTTTTCAAACCTCCCTAAGTTAAGTTCAAGCTAACCTTAATCAATGAGGATTAGCAT
326 AAACTGATTTTTTCAAAACTCCCCAAGTTAAGTTCAAGCTAACCTCAATCAATGAGGATTAGCAT
143111 GGATTTAAG
391 GGATTTAAG
* *
143120 ATTTTTTGGATTTTA-TCTTTTTATTTTCTATTTATGTGTTCATCATCATTTTAGTAATCCTAAC
1 ATTTTCTGGACTTTATTC-TTTTATTTTCTATTTATGTGTTCATCATCATTTTAGTAATCCTAAC
* * *
143184 ATGTTTTCATGATCC-TTTGAGGATTATCATGCATTATTGTGGCCTTGGATATGGTAGCTTTACG
65 ATGTTTTCATGACCCACTT-AGGATCATCATGCATTATTGTGGCCTTGGATATGGTAGCTTTACG
143248 ATTATTTTAATGTTTTAAGGTCATTTGTGTGCTTAGTATGCTATTT-CAATCTCCATCATCTTGA
129 ATTATTTTAATGTTTTAAGGTCATTTGTGTGCTTAGTATGCTATTTCCAATCTCCATCATCTTGA
*
143312 CAGCTTTAATCATGCATTTTTTACTATGTTTCATGCATTTTTAGCATGTTCAACATCTCCATGAA
194 CAGCTTTAATCATGCATTTTTTACTATGTTTCATGCATTTTTAGCATGTCCAACATCTCCATGAA
143377 TGTCATTCATCATTTTCTTATATATTCATCATGTCATCTTTGTCAAATGCATGTTTGTTTGCCTT
259 TGTCATTCATCATTTTCTTATATATTCATCATGTCATCTTTGTCAAATGCATGTTTGTTTGCCTT
*
143442 AAAAACTGATTTTTTCAAAACTCCCCATGTTAAGTTCAAGCTAACCTCAATCAATGAGGATTAGC
324 AAAAACTGATTTTTTCAAAACTCCCCAAGTTAAGTTCAAGCTAACCTCAATCAATGAGGATTAGC
143507 ATGGATTTAAG
389 ATGGATTTAAG
143518 ATTTTC
1 ATTTTC
143524 ATTAAACTAA
Statistics
Matches: 387, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
398 226 0.58
399 161 0.42
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (399 bp):
ATTTTCTGGACTTTATTCTTTTATTTTCTATTTATGTGTTCATCATCATTTTAGTAATCCTAACA
TGTTTTCATGACCCACTTAGGATCATCATGCATTATTGTGGCCTTGGATATGGTAGCTTTACGAT
TATTTTAATGTTTTAAGGTCATTTGTGTGCTTAGTATGCTATTTCCAATCTCCATCATCTTGACA
GCTTTAATCATGCATTTTTTACTATGTTTCATGCATTTTTAGCATGTCCAACATCTCCATGAATG
TCATTCATCATTTTCTTATATATTCATCATGTCATCTTTGTCAAATGCATGTTTGTTTGCCTTAA
AAACTGATTTTTTCAAAACTCCCCAAGTTAAGTTCAAGCTAACCTCAATCAATGAGGATTAGCAT
GGATTTAAG
Found at i:147518 original size:20 final size:22
Alignment explanation
Indices: 147490--147551 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 22
147480 CCATTCGGCT
147490 AATTGTATCGATACAATTCTAG
1 AATTGTATCGATACAATTCTAG
*
147512 -A-TGTATCGATAC-ATTCTGG
1 AATTGTATCGATACAATTCTAG
* *
147531 AATTATATCGATACATTTCTA
1 AATTGTATCGATACAATTCTA
147552 TGTGTGTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 6 0.18
20 12 0.36
21 11 0.33
22 4 0.12
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (22 bp):
AATTGTATCGATACAATTCTAG
Found at i:147541 original size:21 final size:21
Alignment explanation
Indices: 147490--147547 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
147480 CCATTCGGCT
147490 AATTGTATCGATACAATTCTAG
1 AATTGTATCGATAC-ATTCTAG
*
147512 -A-TGTATCGATACATTCTGG
1 AATTGTATCGATACATTCTAG
*
147531 AATTATATCGATACATT
1 AATTGTATCGATACATT
147548 TCTATGTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 6 0.19
20 12 0.38
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (21 bp):
AATTGTATCGATACATTCTAG
Found at i:147551 original size:41 final size:43
Alignment explanation
Indices: 147490--147569 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 43
147480 CCATTCGGCT
* *
147490 AATTGTATCGATACAATTCTA-G-ATGTATCGATACATTCTGG
1 AATTATATCGATACAATTCTATGTATGTATCAATACATTCTGG
* *
147531 AATTATATCGATACATTTCTATGTGTGTATCAATACATT
1 AATTATATCGATACAATTCTATGTATGTATCAATACATT
147570 TTAGGGTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 19 0.58
42 1 0.03
43 13 0.39
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (43 bp):
AATTATATCGATACAATTCTATGTATGTATCAATACATTCTGG
Found at i:150064 original size:13 final size:13
Alignment explanation
Indices: 150046--150070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
150036 ATACATTAAA
150046 ATTGTATCGATAC
1 ATTGTATCGATAC
150059 ATTGTATCGATA
1 ATTGTATCGATA
150071 TAAATTGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:155459 original size:30 final size:29
Alignment explanation
Indices: 155355--155461 Score: 79
Period size: 30 Copynumber: 3.5 Consensus size: 29
155345 CATTGTTCAT
* *
155355 TGTATCGATGCATTCTGGGTTTTACCCAGA
1 TGTATCAATACATTCTGGGTTTTA-CCAGA
* *** * *
155385 TGTATCAATACATTATTCATTGTATCGACACA
1 TGTATCAATACATTCTGGGTTTTA-C--CAGA
155417 TTGTATCAATACATTCTGGGTTTTACCTAGA
1 -TGTATCAATACATTCTGGGTTTTACC-AGA
*
155448 TGTATCGATACATT
1 TGTATCAATACATT
155462 TTTTAATGTA
Statistics
Matches: 57, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
30 32 0.56
31 2 0.04
32 4 0.07
33 19 0.33
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (29 bp):
TGTATCAATACATTCTGGGTTTTACCAGA
Found at i:155472 original size:63 final size:63
Alignment explanation
Indices: 155352--155481 Score: 179
Period size: 63 Copynumber: 2.1 Consensus size: 63
155342 ATACATTGTT
* * *
155352 CATTGTATCGATGCATTCTGGGTTTTACCCAGATGTATCAATACATTATTCATTGTATCGACA
1 CATTGTATCAATACATTCTGGGTTTTACCCAGATGTATCAATACATTATTCAATGTATCGACA
* * * * * *
155415 CATTGTATCAATACATTCTGGGTTTTACCTAGATGTATCGATACATTTTTTAATGTATTGATA
1 CATTGTATCAATACATTCTGGGTTTTACCCAGATGTATCAATACATTATTCAATGTATCGACA
155478 CATT
1 CATT
155482 TAGGCATTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.42
Consensus pattern (63 bp):
CATTGTATCAATACATTCTGGGTTTTACCCAGATGTATCAATACATTATTCAATGTATCGACA
Found at i:157979 original size:28 final size:30
Alignment explanation
Indices: 157941--157998 Score: 93
Period size: 28 Copynumber: 2.0 Consensus size: 30
157931 TTCACAATTA
157941 GGGATACTCCAACCCC-G-TTATTTCCAAG
1 GGGATACTCCAACCCCAGTTTATTTCCAAG
157969 GGGATACTCCAACCCCAGTTTTATTTCCAA
1 GGGATACTCCAACCCCAG-TTTATTTCCAA
157999 AACACTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 16 0.59
29 1 0.04
31 10 0.37
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.28
Consensus pattern (30 bp):
GGGATACTCCAACCCCAGTTTATTTCCAAG
Found at i:158050 original size:79 final size:79
Alignment explanation
Indices: 157812--158053 Score: 333
Period size: 79 Copynumber: 3.1 Consensus size: 79
157802 ATTTTCGAAA
* * *
157812 GGATACTCCAACCCCGATTTTATTTTCAAAACACCAAATTTTCACAATTAGGGATACTTCAACCT
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATTAGGGATACTCCAACCT
* *
157877 CGTTATGTCCGATG
66 CGTTATTTCCGAGG
* ** * *
157891 GGATACTCCAGCCTTGATTTTATTTCCAAAACACCAGTTTTTCACAATTAGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATTAGGGATACTCCAACCT
*
157956 CGTTATTTCCAAGG
66 CGTTATTTCCGAGG
* *
157970 GGATACTCCAACCCC-AGTTTTATTTCCAAAACACTAATTTTTCACAATTGGGGATACTCCAACC
1 GGATACTCCAACCCCGA-TTTTATTTCCAAAACACCAATTTTTCACAATTAGGGATACTCCAACC
**
158034 TCGTTATTTTTGAGG
65 TCGTTATTTCCGAGG
158049 GGATA
1 GGATA
158054 TTCTAACCTT
Statistics
Matches: 141, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
78 1 0.01
79 140 0.99
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (79 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATTAGGGATACTCCAACCT
CGTTATTTCCGAGG
Found at i:160690 original size:9 final size:9
Alignment explanation
Indices: 160676--160711 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
160666 AATGATCTTA
160676 TTTTGATAT
1 TTTTGATAT
160685 TTTTGATAT
1 TTTTGATAT
160694 TTTTGATAT
1 TTTTGATAT
160703 TTTTGATAT
1 TTTTGATAT
160712 CAAGTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (9 bp):
TTTTGATAT
Found at i:163012 original size:13 final size:13
Alignment explanation
Indices: 162996--163021 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
162986 TAGGGTAGAT
162996 TTGTATCGATACA
1 TTGTATCGATACA
163009 TTGTATCGATACA
1 TTGTATCGATACA
163022 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:163815 original size:52 final size:52
Alignment explanation
Indices: 163680--164027 Score: 144
Period size: 52 Copynumber: 6.8 Consensus size: 52
163670 GTGATAAATG
* * * * * * *
163680 TGCCAATATGTTGATTCAAGACCAGTGATATTGGGCTTAAAGGTGCAAAAAA
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTAGACTTAAAGATGCAAAAAA
* * * **
163732 TGTCAATGTGCTGATTCACGGTCAGCAACATTAGACTTGAAA-ATG-AAAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTAGACTT-AAAGATGCAAAA-AA
** * * ** * *
163784 TGCCAATGTGCTGATTCAAGGCCAGTGACATT-GGGTTTAGGAATGTTACAGA
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTAGACTTAAAG-ATGCAAAAAA
* * ** * * * **
163836 TGCCAATATGTTGATTCAAGGCCAGTGATTTTGGACTTAGAGGTG---AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTAGACTTAAAGATGCAAAAAA
* * * * * *
163885 TGCTAATGTGCTGATTTAAGGCCAGGGACATTGGCCTTAAAGATG--ACAAA
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTAGACTTAAAGATGCAAAAAA
* * * * * * * *
163935 GGCACCGATATGCTAATTCAAGGCTAGCG-CTATTGGACTTAAAGATG---AAAG
1 TG--CCAATGTGCTGATTCAAGGCCAGTGAC-ATTAGACTTAAAGATGCAAAAAA
** *
163986 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTAGACTTAAAG
164028 GTGAAGGTGC
Statistics
Matches: 219, Mismatches: 66, Indels: 25
0.71 0.21 0.08
Matches are distributed among these distances:
49 70 0.32
50 4 0.02
51 11 0.05
52 125 0.57
53 9 0.04
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGGCCAGTGACATTAGACTTAAAGATGCAAAAAA
Found at i:163915 original size:101 final size:98
Alignment explanation
Indices: 163784--164095 Score: 338
Period size: 101 Copynumber: 3.1 Consensus size: 98
163774 ATGAAAAGAA
* ** * *
163784 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGTTTAGGAATGTTACAGATGCCAATATGTTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GTGACAGATGCCAATATGCTG
* * *
163849 ATTCAAGGCCAGTGATTTTGGACTTAGAGGTGAAGG
63 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
* * * * * * * *
163885 TGCTAATGTGCTGATTTAAGGCCAGGGACATTGGCCTTAAAGATGACAAAGGCACCGATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-TGACAGATG--CCAATATGCTG
* * * *
163950 ATTCAAGGCTAGCGCTATTGGACTTAAAGATGAAAG
63 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
* * * *
163986 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGA-AGGTGCTAATATGCTGAG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA-GTGACAGATGCCAATATGCTGAT
164050 TCAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
65 TCAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
164084 TGCCAATGTGCT
1 TGCCAATGTGCT
164096 TGTTAGGATC
Statistics
Matches: 173, Mismatches: 34, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
98 52 0.30
99 8 0.05
100 2 0.01
101 110 0.64
102 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (98 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGTGACAGATGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
Found at i:164021 original size:49 final size:49
Alignment explanation
Indices: 163679--164095 Score: 275
Period size: 49 Copynumber: 8.3 Consensus size: 49
163669 AGTGATAAAT
* * * * * * *
163679 GTGCCAATATGTTGATTCAAGACCAGTGATATTGGGCTTAAAGGTGCAAAAA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAA
* * * * * *
163731 ATGTCAATGTGCTGATTCACGGTCAGCAACATTAGACTTGAAA-ATGAAAA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATG-AAA
* ** * *
163781 GAATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGTTTAGGAATG-TTACA
1 G--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGAAA
* * * ** * * *
163834 GATGCCAATATGTTGATTCAAGGCCAGTGATTTTGGACTTAGAGGTGAAG
1 G-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA
* * * *
163884 GTGCTAATGTGCTGATTTAAGGCCAGGGACATTGGCCTTAAAGATGACAAA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAA
* * * *
163935 G-GCACCGATATGCTAATTCAAGGCTAGCG-CTATTGGACTTAAAGATGAAA
1 GTG--CCAATGTGCTGATTCAAGGCCAGCGAC-ATTGGACTTAAAGATGAAA
* * *
163985 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA
* * * * * *
164034 GTGCTAATATGCTGAGTCAAGGCCAGCGATATTGGACTTAAAGGTGAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA
164083 GTGCCAATGTGCT
1 GTGCCAATGTGCT
164096 TGTTAGGATC
Statistics
Matches: 283, Mismatches: 67, Indels: 33
0.74 0.17 0.09
Matches are distributed among these distances:
49 128 0.45
50 14 0.05
51 6 0.02
52 126 0.45
53 8 0.03
54 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (49 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA
Found at i:164404 original size:33 final size:32
Alignment explanation
Indices: 164367--164433 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
164357 ACCCTTAAAA
* **
164367 GTATCGATACACCTTCAAATGTATCGATACATT
1 GTATCGAAACACCACCAAATGTATCGATAC-TT
**
164400 GTATCGAAACATGACCAAATGTATCGATACTT
1 GTATCGAAACACCACCAAATGTATCGATACTT
164432 GT
1 GT
164434 TAAGAATGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (32 bp):
GTATCGAAACACCACCAAATGTATCGATACTT
Found at i:164517 original size:19 final size:19
Alignment explanation
Indices: 164493--164555 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
164483 CTTAACTGTT
164493 TGTATCGATACACACAAGA
1 TGTATCGATACACACAAGA
164512 TGTATCGAT----AC-A-A
1 TGTATCGATACACACAAGA
164525 TGTATCGATACACACAAGA
1 TGTATCGATACACACAAGA
164544 TGTATCGATACA
1 TGTATCGATACA
164556 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (19 bp):
TGTATCGATACACACAAGA
Found at i:164529 original size:13 final size:13
Alignment explanation
Indices: 164511--164568 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
164501 TACACACAAG
164511 ATGTATCGATACA
1 ATGTATCGATACA
164524 ATGTATCGATACACACAA
1 ATGTATCGAT----AC-A
164542 GATGTATCGATACA
1 -ATGTATCGATACA
164556 ATGTATCGATACA
1 ATGTATCGATACA
164569 TCCTAAAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
14 1 0.03
15 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:164534 original size:32 final size:33
Alignment explanation
Indices: 164493--164621 Score: 185
Period size: 33 Copynumber: 4.0 Consensus size: 33
164483 CTTAACTGTT
*
164493 TGTATCGATACA-CAC-AAGATGTATCGATACAA
1 TGTATCGATACATC-CTAAAATGTATCGATACAA
*
164525 TGTATCGATACA-CAC-AAGATGTATCGATACAA
1 TGTATCGATACATC-CTAAAATGTATCGATACAA
*
164557 TGTATCGATACATCCTAAAATGCATCGATACAA
1 TGTATCGATACATCCTAAAATGTATCGATACAA
164590 TGTATCGATACATCCTAAAATGTATCGATACA
1 TGTATCGATACATCCTAAAATGTATCGATACA
164622 TTGGCTTGTA
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
32 45 0.49
33 47 0.51
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACATCCTAAAATGTATCGATACAA
Found at i:164583 original size:20 final size:20
Alignment explanation
Indices: 164555--164622 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
164545 GTATCGATAC
164555 AATGTATCGATACATCCTAA
1 AATGTATCGATACATCCTAA
*
164575 AATGCATCGAT--A--C---
1 AATGTATCGATACATCCTAA
164588 AATGTATCGATACATCCTAA
1 AATGTATCGATACATCCTAA
164608 AATGTATCGATACAT
1 AATGTATCGATACAT
164623 TGGCTTGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
20 25 0.64
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATCCTAA
Found at i:165435 original size:49 final size:49
Alignment explanation
Indices: 165362--165666 Score: 268
Period size: 49 Copynumber: 6.3 Consensus size: 49
165352 TGAGCTTTCA
*
165362 GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTAAAGGTGCTAAT
1 GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTAAAGGTGCCAAT
* * *
165411 GTGCTGATTCAAGGCTAGCCACATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTAAAGGTGCCAAT
* *
165460 GTTCTAATTCAAGGCCAGCAACATTGGAC-T-----TAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTAAAGGTGCCAAT
* ** * * *
165503 ATGCTGATTCAAGGCCA--ATGATTTGGGACTTAGAGGTGAAGGTGCTAAT
1 GTGCTGATTCAAGGCCAGCAACA-TT-GGACTTAAAGGTAAAGGTGCCAAT
* * * * *
165552 GTGCTAATTCAAGGCCAACGACATTGGACTTAAAGATATCAAAGGCGCCAAT
1 GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAG--GT-AAAGGTGCCAAT
* * * ** * * *
165604 ATGATGAGTT-AAGGCCAGCAATATCAGACTTAAAGATGAAGCTGCCAAT
1 GTGCTGA-TTCAAGGCCAGCAACATTGGACTTAAAGGTAAAGGTGCCAAT
165653 GTGCTGATTCAAGG
1 GTGCTGATTCAAGG
165667 TGAAGGTGCT
Statistics
Matches: 202, Mismatches: 39, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 30 0.15
44 1 0.00
48 3 0.01
49 123 0.61
50 4 0.02
51 2 0.01
52 33 0.16
53 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTAAAGGTGCCAAT
Found at i:165540 original size:92 final size:92
Alignment explanation
Indices: 165362--165586 Score: 263
Period size: 92 Copynumber: 2.4 Consensus size: 92
165352 TGAGCTTTCA
* * * *
165362 GTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTAAAGGTGCTAATGTGCTGATTCAAGGCT
1 GTGCTAATTCAAGGCCAGCAACATTGGAC-T-----TAAAGGTGCCAATATGCTGATTCAAGGCC
*
165427 AGCCACATTGGACTTAAAGGTGAAGGTGCCAAT
60 AACCACATTGGACTTAAAGGTGAAGGTGCCAAT
* **
165460 GTTCTAATTCAAGGCCAGCAACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAATGA-
1 GTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAACCAC
* * *
165524 TTTGGGACTTAGAGGTGAAGGTGCTAAT
66 ATT-GGACTTAAAGGTGAAGGTGCCAAT
* *
165552 GTGCTAATTCAAGGCCAACGACATTGGACTTAAAG
1 GTGCTAATTCAAGGCCAGCAACATTGGACTTAAAG
165587 ATATCAAAGG
Statistics
Matches: 112, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
91 2 0.02
92 82 0.73
97 1 0.01
98 27 0.24
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (92 bp):
GTGCTAATTCAAGGCCAGCAACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAACCAC
ATTGGACTTAAAGGTGAAGGTGCCAAT
Found at i:165684 original size:27 final size:27
Alignment explanation
Indices: 165640--165693 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
165630 GACTTAAAGA
* * *
165640 TGAAGCTGCCAATGTGCTGATTCAAGG
1 TGAAGCTGCCAATATGCTAAGTCAAGG
* *
165667 TGAAGGTGCTAATATGCTAAGTCAAGG
1 TGAAGCTGCCAATATGCTAAGTCAAGG
165694 CTAGCGATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (27 bp):
TGAAGCTGCCAATATGCTAAGTCAAGG
Found at i:165693 original size:128 final size:125
Alignment explanation
Indices: 165536--165789 Score: 312
Period size: 125 Copynumber: 2.0 Consensus size: 125
165526 TGGGACTTAG
* *
165536 AGGTGAAGGTGCTAATGTGCTAATTCAAGGCCAACGACATTGGACTTAAAGATATCAAAGGCGCC
1 AGGTGAAGGTGCTAATATGCTAAGTCAAGGCCAACGACATTGGACTTAAAG--AT-AAAGGCGCC
*
165601 AATATGATGAGTT-AAGGCCAGCAATATCAGACTTAAAGATGAAGCTGCCAATGTGCTGATTCA
63 AATATGATGA-TTCAAGGCCAGCAACATCAGACTTAAAGATGAAGCTGCCAATGTGCTGATTCA
* * * * * *
165664 AGGTGAAGGTGCTAATATGCTAAGTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGTCAAT
1 AGGTGAAGGTGCTAATATGCTAAGTCAAGGCCAACGACATTGGACTTAAAGATAAAGGCGCCAAT
* * * ** * * *
165729 GTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGGTGAAGGTGCCAATGTGTTGATTCA
66 ATGATGATTCAAGGCCAGCAACATCAGACTTAAAGATGAAGCTGCCAATGTGCTGATTCA
165789 A
1 A
165790 AGCCAGCAAC
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
124 2 0.02
125 58 0.54
126 2 0.02
128 46 0.43
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (125 bp):
AGGTGAAGGTGCTAATATGCTAAGTCAAGGCCAACGACATTGGACTTAAAGATAAAGGCGCCAAT
ATGATGATTCAAGGCCAGCAACATCAGACTTAAAGATGAAGCTGCCAATGTGCTGATTCA
Found at i:165742 original size:49 final size:49
Alignment explanation
Indices: 165667--166445 Score: 827
Period size: 49 Copynumber: 16.0 Consensus size: 49
165657 TGATTCAAGG
* * * * * * *
165667 TGAAGGTGCTAATATGCTAAGTCAAGGCTAGCGATATTGGACTTAAAGA
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
* * *
165716 TGAAGGTGTCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
* *
165765 TGAAGGTGCCAATGTGTTGATTCAAAGCCAGCAACATTGGACTTAAATG-
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAA-GA
* * *
165814 TGATA-GTGCCAATGTGCTGATTCAAGGCTAACAACATTTGACTT----A
1 TGA-AGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
* * ** * * *
165859 --AAGGTGCCAATATGCTAATTCAAGGCCAGTGA-TTTGGGACTTAGAGG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATT-GGACTTAAAGA
* * *
165906 TGAAGGTGCTAATGTGCTGATTCAAGGCCATCGACATTGGACTTAAAGA
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
* * * *
165955 TGTCAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGA
1 TG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
*
166007 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
* * * * * *
166056 TGAAGGTGCTAATATGCTGAGTCAAGGTCAGCGATATTGGACTTAAAGA
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
* *
166105 TGAAGGTGCTAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
* * *
166154 TGAAGGTGCTAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
*
166203 TGAAGGTGCCAATGTGCTGATTTAAGGCCAGCAACATTGGACTT----A
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
* *** * *
166248 --AAGGTGCCAATATGCTGATTCAAGGCCA--ATGGTTTAGGACTTAGAGG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCA-ACATT-GGACTTAAAGA
* * *
166295 TGAAGGTGCTAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGA
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
* * * * *
166344 TGTCAAAGGTGCCAATATGCTGATTTAAGGCCTGCGATATTGGACTTAAAGA
1 TG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
*
166396 TGAAGGTGCCAATGTGCTGATTCAAGACCAGCAACATTGGACTTAAAGA
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
166445 T
1 T
166446 AAAGAAAGGT
Statistics
Matches: 613, Mismatches: 89, Indels: 56
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.00
42 5 0.01
43 61 0.10
49 453 0.74
50 6 0.01
52 87 0.14
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (49 bp):
TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGA
Found at i:165832 original size:98 final size:98
Alignment explanation
Indices: 165663--166443 Score: 946
Period size: 98 Copynumber: 8.0 Consensus size: 98
165653 GTGCTGATTC
* * * * *
165663 AAGGTGAAGGTGCTAATATGCTAAGTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGTCAA
1 AAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAA
*
165728 TGTGCTGATTCAAGGCTAGCAACATTGGACTTA
66 TGTGCTGATTCAAGGCCAGCAACATTGGACTTA
* * * * *
165761 AAGGTGAAGGTGCCAATGTGTTGATTCAAAGCCAGCAACATTGGACTTAAATG-TGATA-GTGCC
1 AAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-GATGA-AGGTGCC
* * *
165824 AATGTGCTGATTCAAGGCTAACAACATTTGACTT-
64 AATGTGCTGATTCAAGGCCAGCAACATTGGACTTA
* * * * *
165858 -A----AAGGTGCCAATATGCTAATTCAAGGCCAGTGAT-TTGGGACTTAGAGGTGAAGGTGCTA
1 AAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGAAGGTGCCA
* *
165917 ATGTGCTGATTCAAGGCCATCGACATTGGACTTA
65 ATGTGCTGATTCAAGGCCAGCAACATTGGACTTA
* *
165951 AAGATGTCAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 AAG--GT-GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
166016 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTA
63 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTA
* * * *
166052 AAGGTGAAGGTGCTAATATGCTGAGTCAAGGTCAGCGATATTGGACTTAAAGATGAAGGTGCTAA
1 AAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAA
166117 TGTGCTGATTCAAGGCCAGCAACATTGGACTTA
66 TGTGCTGATTCAAGGCCAGCAACATTGGACTTA
* * * * * *
166150 AAGGTGAAGGTGCTAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGGTGAAGGTGCCAA
1 AAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAA
*
166215 TGTGCTGATTTAAGGCCAGCAACATTGGACTT-
66 TGTGCTGATTCAAGGCCAGCAACATTGGACTTA
** * * * *
166247 -A----AAGGTGCCAATATGCTGATTCAAGGCCAATGGT-TTAGGACTTAGAGGTGAAGGTGCTA
1 AAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGAAGGTGCCA
* *
166306 ATGTGTTGATTCAAGGCCAGCGACATTGGACTTA
65 ATGTGCTGATTCAAGGCCAGCAACATTGGACTTA
* * *
166340 AAGATGTCAAAGGTGCCAATATGCTGATTTAAGGCCTGCGATATTGGACTTAAAGATGAAGGTGC
1 AAG--GT-GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
*
166405 CAATGTGCTGATTCAAGACCAGCAACATTGGACTTA
63 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTA
166441 AAG
1 AAG
166444 ATAAAGAAAG
Statistics
Matches: 587, Mismatches: 70, Indels: 49
0.83 0.10 0.07
Matches are distributed among these distances:
91 6 0.01
92 146 0.25
94 2 0.00
96 2 0.00
98 256 0.44
99 4 0.01
101 167 0.28
102 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (98 bp):
AAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAA
TGTGCTGATTCAAGGCCAGCAACATTGGACTTA
Found at i:166290 original size:340 final size:332
Alignment explanation
Indices: 165667--166445 Score: 924
Period size: 340 Copynumber: 2.3 Consensus size: 332
165657 TGATTCAAGG
* * * *
165667 TGAAGGTGCTAATATGCTAAGTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTG-TCAATGT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCT-AATGT
* *
165731 GCTGATTCAAGGCTAGCAACATTGGACTTAAAGGTGAAGGTGCCAATGTGTTGATTCAAAGCCAG
65 GCTGATTCAAGGC-AGCAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAAGCCAG
* *
165796 CAACATTGGACTTAAATGTGATAGTGCCAATGTGCTGATTCAAGGCTAACAACATTTGACTTAAA
129 CAACATTGGACTTAAAGGTGATAGTGCCAATGTGCTGATTCAAGGCTAACAACATTGGACTTAAA
** * * *
165861 GGTGCCAATATGCTAATTCAAGGCCAGTGATTTGGGACTTAGAGGTGAAGGTGCTAATGTGCTGA
194 GGTGCCAATATGCTAATTCAAGGCCAGCAAATTGGGACTTA-A---GAAGGTGCCAATATGCTGA
*
165926 TTCAAGGCCATCGACATTGGACTTAAAGATGTCAAAGGTGCCAATATGCTAATTCAAGGCCAGCG
255 TTCAAGGCCATCGACATTGGACTT--AGAGGT-AAAGGTGCCAATATGCTAATTCAAGGCCAGCG
*
165991 ATATTGGACTTAAAGA
317 ACATTGGACTTAAAGA
* * * * *
166007 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCTAATATG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTG
* * * * *
166072 CTGAGTCAAGGTCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAAGGCCAGC
66 CTGATTCAAGG-CAGCAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAAGCCAGC
* *
166137 AACATTGGACTTAAAGGTGA-AGGTGCTAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAA
130 AACATTGGACTTAAAGGTGATA-GTGCCAATGTGCTGATTCAAGGCTAACAACATTGGACTT--A
* * *
166201 GGTGAAGGTGCCAATGTGCTGATTTAAGGCCAGCAACATT-GGACTT-A-AAGGTGCCAATATGC
192 ----AAGGTGCCAATATGCTAATTCAAGGCCAGCAA-ATTGGGACTTAAGAAGGTGCCAATATGC
** * * * * *
166263 TGATTCAAGGCCAAT-G-GTTTAGGACTTAGAGGTGAAGGTGCTAATGTGTTGATTCAAGGCCAG
252 TGATTCAAGGCC-ATCGACATT-GGACTTAGAGGTAAAGGTGCCAATATGCTAATTCAAGGCCAG
166326 CGACATTGGACTTAAAGA
315 CGACATTGGACTTAAAGA
* * *
166344 TGTCAAAGGTGCCAATATGCTGATTTAAGGCCTGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 TG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCTAAT
*
166409 GTGCTGATTCAAGACCAGCAACATTGGACTTAAAGAT
63 GTGCTGATTCAAG-GCAGCAACATTGGACTTAAAGAT
166446 AAAGAAAGGT
Statistics
Matches: 374, Mismatches: 49, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
337 44 0.12
338 5 0.01
339 3 0.01
340 281 0.75
341 4 0.01
342 1 0.00
344 1 0.00
346 33 0.09
347 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (332 bp):
TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTG
CTGATTCAAGGCAGCAACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAAGCCAGCA
ACATTGGACTTAAAGGTGATAGTGCCAATGTGCTGATTCAAGGCTAACAACATTGGACTTAAAGG
TGCCAATATGCTAATTCAAGGCCAGCAAATTGGGACTTAAGAAGGTGCCAATATGCTGATTCAAG
GCCATCGACATTGGACTTAGAGGTAAAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGAC
TTAAAGA
Found at i:166383 original size:389 final size:389
Alignment explanation
Indices: 165663--166443 Score: 1325
Period size: 389 Copynumber: 2.0 Consensus size: 389
165653 GTGCTGATTC
165663 AAGGTGAAGGTGCTAATATGCTAAGTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGTCAA
1 AAGGTGAAGGTGCTAATATGCTAAGTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGTCAA
* *
165728 TGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGGTGAAGGTGCCAATGTGTTGATTCAAAGC
66 TGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTCAAAGC
* * *
165793 CAGCAACATTGGACTTAAATGTGATAGTGCCAATGTGCTGATTCAAGGCTAACAACATTTGACTT
131 CAGCAACATTGGACTTAAAGGTGATAGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTT
* *
165858 AAAGGTGCCAATATGCTAATTCAAGGCCAGTGATTTGGGACTTAGAGGTGAAGGTGCTAATGTGC
196 AAAGGTGCCAATATGCTAATTCAAGGCCAATGATTTAGGACTTAGAGGTGAAGGTGCTAATGTGC
*
165923 TGATTCAAGGCCATCGACATTGGACTTAAAGATGTCAAAGGTGCCAATATGCTAATTCAAGGCCA
261 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGTCAAAGGTGCCAATATGCTAATTCAAGGCCA
*
165988 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTA
326 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGACCAGCAACATTGGACTTA
*
166052 AAGGTGAAGGTGCTAATATGCTGAGTCAAGG-TCAGCGATATTGGACTTAAAGATGAAGGTG-CT
1 AAGGTGAAGGTGCTAATATGCTAAGTCAAGGCT-AGCGATATTGGACTTAAAGATGAAGGTGTC-
* *
166115 AATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCTAATGTGCTGATTCAAG
64 AATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTCAAA
* * *
166180 GCTAGCAACATTGGACTTAAAGGTGA-AGGTGCCAATGTGCTGATTTAAGGCCAGCAACATTGGA
129 GCCAGCAACATTGGACTTAAAGGTGATA-GTGCCAATGTGCTGATTCAAGGCCAACAACATTGGA
* *
166244 CTTAAAGGTGCCAATATGCTGATTCAAGGCCAATGGTTTAGGACTTAGAGGTGAAGGTGCTAATG
193 CTTAAAGGTGCCAATATGCTAATTCAAGGCCAATGATTTAGGACTTAGAGGTGAAGGTGCTAATG
* * *
166309 TGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGTCAAAGGTGCCAATATGCTGATTTAAGG
258 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGTCAAAGGTGCCAATATGCTAATTCAAGG
*
166374 CCTGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGACCAGCAACATTGGACT
323 CCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGACCAGCAACATTGGACT
166439 TA
388 TA
166441 AAG
1 AAG
166444 ATAAAGAAAG
Statistics
Matches: 368, Mismatches: 21, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
388 3 0.01
389 365 0.99
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (389 bp):
AAGGTGAAGGTGCTAATATGCTAAGTCAAGGCTAGCGATATTGGACTTAAAGATGAAGGTGTCAA
TGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTCAAAGC
CAGCAACATTGGACTTAAAGGTGATAGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTT
AAAGGTGCCAATATGCTAATTCAAGGCCAATGATTTAGGACTTAGAGGTGAAGGTGCTAATGTGC
TGATTCAAGGCCAGCGACATTGGACTTAAAGATGTCAAAGGTGCCAATATGCTAATTCAAGGCCA
GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGACCAGCAACATTGGACTTA
Found at i:166689 original size:37 final size:37
Alignment explanation
Indices: 166647--166731 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
166637 GAAGATGAAG
*
166647 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGC
166684 CACAAATGCATCATGCAAAATGAAATGTTATGAATGC
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGC
166721 CACAAATGCAT
1 CACAAATGCAT
166732 GATTGTGGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATGC
Found at i:179397 original size:9 final size:9
Alignment explanation
Indices: 179383--179414 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
179373 AATGATCTTA
179383 TTTTGATAT
1 TTTTGATAT
*
179392 TTTTGATAA
1 TTTTGATAT
179401 TTTTGATAT
1 TTTTGATAT
179410 TTTTG
1 TTTTG
179415 TTATCAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (9 bp):
TTTTGATAT
Found at i:186902 original size:51 final size:50
Alignment explanation
Indices: 186780--186914 Score: 148
Period size: 52 Copynumber: 2.6 Consensus size: 50
186770 AAAATTAGTA
* * *
186780 TTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAACGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
* * *
186831 TTCTAAAAAATAAAATCGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATG
1 TT-TTAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATG
*
186883 TTTTAGAAATAAAACCGGGGTTGGAGTA-CCCC
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
186915 TCGAAAATAA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
50 4 0.06
51 32 0.45
52 35 0.49
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
Found at i:186937 original size:78 final size:79
Alignment explanation
Indices: 186847--186993 Score: 260
Period size: 78 Copynumber: 1.9 Consensus size: 79
186837 AAAATAAAAT
*
186847 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTA-
1 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
186911 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
186925 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
186990 CCCC
66 CCCC
186994 GATTGTGAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
78 61 0.94
79 4 0.06
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:186992 original size:51 final size:51
Alignment explanation
Indices: 186925--187044 Score: 204
Period size: 51 Copynumber: 2.4 Consensus size: 51
186915 TCGAAAATAA
**
186925 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
*
186976 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
*
187027 CGAGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
187045 TCGAAAATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAC
Found at i:187024 original size:129 final size:130
Alignment explanation
Indices: 186793--187123 Score: 495
Period size: 130 Copynumber: 2.5 Consensus size: 130
186783 TAGAGATAAC
* * * * * *
186793 AACGGGGCTAGAGTATCCCCGATTATGGAAAAA-CGGTGTTCTAAAAAATAAAATCGGGGTTAGA
1 AACGGGGTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTT-TTAGAAATAAAACCGGGGTTAGA
* * *
186857 GTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTA-CCCCTCGAAA
64 GTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAA
186921 AT
129 AT
* *
186923 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTAGAGT
*
186988 ATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAAT
66 ATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAAT
* * *
187053 AACGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTAGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTAGAGT
187118 ATCCCC
66 ATCCCC
187124 TCGGAAATAA
Statistics
Matches: 182, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
129 75 0.41
130 107 0.59
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (130 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTAGAGT
ATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAAT
Found at i:187066 original size:79 final size:79
Alignment explanation
Indices: 186976--187518 Score: 870
Period size: 79 Copynumber: 6.9 Consensus size: 79
186966 GAAATAAAAC
* * * *
186976 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
187041 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * *
187055 CGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
187120 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* *
187134 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
187199 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * * *
187213 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
187278 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
187292 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
187357 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
187371 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTCTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
187436 CCCCTTGAAAATAA
66 CCCCTCGAAAATAA
* * **
187450 CGAGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
187515 CCCC
66 CCCC
187519 GATTGTGAAA
Statistics
Matches: 429, Mismatches: 35, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 429 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:187516 original size:130 final size:130
Alignment explanation
Indices: 187371--187699 Score: 541
Period size: 130 Copynumber: 2.5 Consensus size: 130
187361 TCGAAAATAA
* *
187371 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTCTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* **
187436 CCCCTTGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAGT
66 CCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAAC
* * *
187501 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* * **
187566 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
66 CCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAAC
*
187631 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
187696 CCCC
66 CCCC
187700 GATTGTGAAA
Statistics
Matches: 183, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 183 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAAC
Found at i:187517 original size:51 final size:51
Alignment explanation
Indices: 187453--187569 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
187443 AAAATAACGA
* **
187453 GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGG
*
187504 GGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGG
187555 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
187570 TCGGAAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGG
Found at i:187584 original size:79 final size:79
Alignment explanation
Indices: 187501--187648 Score: 260
Period size: 79 Copynumber: 1.9 Consensus size: 79
187491 GAAATAAAGT
*
187501 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
187566 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
** *
187580 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
187645 CCCC
66 CCCC
187649 GATTATGAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 65 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:187646 original size:51 final size:51
Alignment explanation
Indices: 187580--187750 Score: 297
Period size: 51 Copynumber: 3.4 Consensus size: 51
187570 TCGGAAATAA
*
187580 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
*
187631 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* * *
187682 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
187733 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
187751 TTGAAAATAA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 114 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:187650 original size:181 final size:181
Alignment explanation
Indices: 187453--187829 Score: 673
Period size: 181 Copynumber: 2.1 Consensus size: 181
187443 AAAATAACGA
*
187453 GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAGTCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCCC
*
187518 CGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGG
66 CGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGG
* *
187583 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGG
131 GGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGG
*
187634 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCCC
*
187699 CGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTTGAAAATAACGG
66 CGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGG
* *
187764 GGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAGATAAAATCGG
131 GGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGG
*
187815 AGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
187830 TCGGAAATAA
Statistics
Matches: 187, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
181 187 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (181 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAGCCGGGGTTGGAGTATCCC
CGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGG
GGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCGG
Found at i:187820 original size:79 final size:79
Alignment explanation
Indices: 187682--187873 Score: 294
Period size: 79 Copynumber: 2.4 Consensus size: 79
187672 GAAATAAAGC
* *
187682 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGAGTTGGAGTAT
*
187747 CCCCTTGAAAATAA
66 CCCCTCGAAAATAA
* * * * *
187761 CGGGGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAGATAAAATCGGAGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGAGTTGGAGTAT
*
187826 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
*
187840 CGGGATTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
187874 GAAACTTAAC
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 101 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGAGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:189094 original size:35 final size:35
Alignment explanation
Indices: 189029--189211 Score: 286
Period size: 35 Copynumber: 5.4 Consensus size: 35
189019 TCATTTTTAT
189029 CCATCATTCCATGCCTTCA-TTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
189063 CCATCATTCTATGCCTTCATTTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
189098 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
* *
189133 CCATCATCCCATG--TT--TTTTTTTATTTCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
189164 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
189199 CCATCATTCCATG
1 CCATCATTCCATG
189212 TTTTTTATTT
Statistics
Matches: 135, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
31 26 0.19
33 4 0.03
34 18 0.13
35 87 0.64
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.45
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Found at i:189172 original size:66 final size:66
Alignment explanation
Indices: 189029--189217 Score: 308
Period size: 66 Copynumber: 2.8 Consensus size: 66
189019 TCATTTTTAT
*
189029 CCATCATTCCATGCCTTCATTTTT-TATTCCATGCCCATCATTCTATGCCTTCATTTTTTTATTC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATG--TT--TTTTTTTATTC
189093 CATGC
62 CATGC
* *
189098 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGTTTTTTTTTATTTCATG
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGTTTTTTTTTATTCCATG
189163 C
66 C
189164 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGTTTTTT
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGTTTTTT
189218 ATTTCTTGAT
Statistics
Matches: 115, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
66 68 0.59
68 2 0.02
69 24 0.21
70 21 0.18
ACGTcount: A:0.18, C:0.30, G:0.06, T:0.47
Consensus pattern (66 bp):
CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATTCCATGTTTTTTTTTATTCCATG
C
Found at i:190074 original size:40 final size:41
Alignment explanation
Indices: 189988--190080 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 41
189978 ATACTTCCTA
* *
189988 CTCTCTAAGGACAAAAGAAAAGGAAAATAAAGTGCGTCCTG
1 CTCTTTAAGGACAAAAGAAAAGGAAAATAAAGTGCGACCTG
* * * * *
190029 TTCTTTAAGGACAAAAGAGAAGGGAAA-GAAGTGTGACCTG
1 CTCTTTAAGGACAAAAGAAAAGGAAAATAAAGTGCGACCTG
*
190069 CTCTTTGAGGAC
1 CTCTTTAAGGAC
190081 TGAAAAGTGC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 20 0.47
41 23 0.53
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (41 bp):
CTCTTTAAGGACAAAAGAAAAGGAAAATAAAGTGCGACCTG
Found at i:190265 original size:59 final size:60
Alignment explanation
Indices: 190065--190295 Score: 333
Period size: 61 Copynumber: 3.9 Consensus size: 60
190055 AGAAGTGTGA
* ** * *
190065 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGTTTTTGAAAAGAGAAGGCGT
1 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-AGAAAGCAT
* * * *
190126 CATGCTCTTTGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCAT
1 CCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTTG-AAAAAGAAAGCAT
190187 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAAGAAAGCAT
1 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCAT
190246 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAA
1 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA
190296 GGCGTCTTGC
Statistics
Matches: 156, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
59 63 0.40
60 3 0.02
61 83 0.53
62 7 0.04
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (60 bp):
CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGCAT
Done.