Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 410 of 410
Found at i:123750771 original size:7 final size:7
Alignment explanation
Indices: 123750759--123750787 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
123750749 AGTTTAGTTA
123750759 AGAATAT
1 AGAATAT
123750766 AGAATAT
1 AGAATAT
123750773 AGAATAT
1 AGAATAT
123750780 AGAATAT
1 AGAATAT
123750787 A
1 A
123750788 TGATCGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (7 bp):
AGAATAT
Found at i:123764207 original size:1 final size:1
Alignment explanation
Indices: 123764203--123764228 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
123764193 CCCCCCCCCC
123764203 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
123764229 CTCCTACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:123774426 original size:75 final size:75
Alignment explanation
Indices: 123774307--123774477 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
123774297 CATGGCAAAG
** *
123774307 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
123774366 CCATACTGAGC
65 CCATACCGAGC
123774377 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
123774442 CATACCGAGT
66 CATACCGAGC
***
123774452 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
123774478 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:123774445 original size:35 final size:35
Alignment explanation
Indices: 123774310--123774475 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
123774300 GGCAAAGTGT
* **
123774310 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
123774345 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
123774380 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
123774420 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
123774455 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
123774476 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:123775901 original size:31 final size:30
Alignment explanation
Indices: 123775848--123775905 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
123775838 TCAACTATTC
123775848 ATTTTAAATATTTCTAAACATTTTTCAATA
1 ATTTTAAATATTTCTAAACATTTTTCAATA
*
123775878 ATTTTAATATATATTGT-AACATTTTTCA
1 ATTTTAA-ATAT-TTCTAAACATTTTTCA
123775906 TATGATTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 7 0.28
31 15 0.60
32 3 0.12
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTTAAATATTTCTAAACATTTTTCAATA
Found at i:123785566 original size:6 final size:6
Alignment explanation
Indices: 123785555--123785587 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
123785545 GATCAAAGGT
123785555 AAAACA AAAACA AAAACA AAAACA AAAACA AAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAA
123785588 CATGAGGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:123789632 original size:21 final size:21
Alignment explanation
Indices: 123789608--123789653 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
123789598 TCTCTTCTCT
123789608 TTTTTCTCTCTTTTCCTATTG
1 TTTTTCTCTCTTTTCCTATTG
123789629 TTTTTCTCTCTTTTCCTATTG
1 TTTTTCTCTCTTTTCCTATTG
123789650 TTTT
1 TTTT
123789654 CTTCTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.04, C:0.22, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTTCTCTCTTTTCCTATTG
Found at i:123800971 original size:3 final size:3
Alignment explanation
Indices: 123800963--123800997 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
123800953 GGTACTGCAC
* *
123800963 ATT ATT ATT ATT ATT ACT ATT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
123800998 CATCATCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:123828886 original size:13 final size:13
Alignment explanation
Indices: 123828868--123828892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123828858 ACTAATACAA
123828868 AAGAGAGAGAGAT
1 AAGAGAGAGAGAT
123828881 AAGAGAGAGAGA
1 AAGAGAGAGAGA
123828893 GAGAGACTTG
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:0.56, C:0.00, G:0.40, T:0.04
Consensus pattern (13 bp):
AAGAGAGAGAGAT
Found at i:123838172 original size:30 final size:29
Alignment explanation
Indices: 123838078--123838179 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
123838068 TATAGTGAAT
* * *
123838078 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
123838107 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
123838135 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
123838165 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
123838180 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:123846019 original size:30 final size:29
Alignment explanation
Indices: 123845925--123846026 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
123845915 TATAGTGAAT
* * *
123845925 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
123845954 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
123845982 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
123846012 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
123846027 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:123853842 original size:30 final size:29
Alignment explanation
Indices: 123853748--123853849 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
123853738 TATAGTGAAT
* * *
123853748 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
123853777 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
123853805 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
123853835 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
123853850 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:123855944 original size:40 final size:40
Alignment explanation
Indices: 123855885--123856062 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
123855875 AAGCCAGGTA
* * * *
123855885 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
123855924 CCTTCGTGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
123855964 CCTTCGGGACTTAACCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
123856004 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
123856044 CCTTCGGGGCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
123856063 TTATCATCCG
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
39 12 0.10
40 106 0.90
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:123864059 original size:39 final size:39
Alignment explanation
Indices: 123864002--123864214 Score: 277
Period size: 39 Copynumber: 5.4 Consensus size: 39
123863992 AAGCCAGGTA
* * * *
123864002 CCTTCGGGATTTAACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
* *
123864041 CCTTCGGGACATAGCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
123864080 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
*
123864120 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTT-AGCCGGATATAGTAACTCGCACAAATG
* * * *
123864160 CCTTCGGGACTTAGCCCGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCGGATA-TAGTAACTCGCACAAATG
123864199 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
123864215 CGGTTATCAT
Statistics
Matches: 156, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.01
39 80 0.51
40 73 0.47
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:123864110 original size:40 final size:40
Alignment explanation
Indices: 123864002--123864217 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
123863992 AAGCCAGGTA
* * * *
123864002 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
123864041 CCTTCGGGACATAG-CCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
123864080 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
123864120 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
123864160 CCTTCGGGACTTAGCCC-GA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
123864199 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
123864218 TTATCATCCG
Statistics
Matches: 160, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 78 0.49
40 80 0.50
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:123867979 original size:40 final size:39
Alignment explanation
Indices: 123867922--123868106 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
123867912 ATTAAATGAT
* * *
123867922 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
123867962 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
123868002 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
123868042 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
123868082 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
123868107 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:123868058 original size:80 final size:80
Alignment explanation
Indices: 123867921--123868127 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
123867911 AATTAAATGA
* * ** * *
123867921 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
123867986 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
123867999 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
123868064 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
123868081 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
123868128 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:123868112 original size:40 final size:39
Alignment explanation
Indices: 123867920--123868127 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
123867910 CAATTAAATG
* * ** *
123867920 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
123867960 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
123868000 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
123868040 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
123868080 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
123868120 ATATCCGG
1 ATATCCGG
123868128 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:123875669 original size:80 final size:80
Alignment explanation
Indices: 123875532--123875738 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
123875522 AATTAAATGA
* * ** * *
123875532 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
123875597 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
123875610 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
123875675 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * * *
123875692 TATCTGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
123875739 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:123875723 original size:40 final size:40
Alignment explanation
Indices: 123875533--123875738 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
123875523 ATTAAATGAT
* * ** * *
123875533 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * * *
123875573 ATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGT-GACTAA
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TTAA
*
123875613 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * **
123875653 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * * *
123875693 ATCTGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
123875733 ATCCGG
1 ATCCGG
123875739 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
39 4 0.03
40 134 0.94
41 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
Found at i:123887637 original size:40 final size:40
Alignment explanation
Indices: 123887544--123887761 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
123887534 AAGCCAAGTA
* * *
123887544 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
123887582 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
123887622 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
123887662 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
123887702 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
123887743 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
123887762 TTATCATCCA
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 12 0.07
39 17 0.10
40 106 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:123888932 original size:13 final size:13
Alignment explanation
Indices: 123888906--123888941 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
123888896 TCGAGCTAAC
123888906 AAATAAATAAAATA
1 AAATAAA-AAAATA
123888920 AAATAAAAAAATA
1 AAATAAAAAAATA
123888933 AAA-AAAAAA
1 AAATAAAAAA
123888942 CATGCATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 6 0.27
13 9 0.41
14 7 0.32
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAATAAAAAAATA
Found at i:123889915 original size:42 final size:43
Alignment explanation
Indices: 123889815--123889953 Score: 147
Period size: 42 Copynumber: 3.2 Consensus size: 43
123889805 TGAGATATCA
* * * **
123889815 TGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGATATCTGATTT-CG
*
123889859 TGTAAGACCATGTCTGGGACATAGGCATC-ATATCTGATTTCG
1 TGTAAGACCATGTCTGGGACACAGGCATCGATATCTGATTTCG
* * * * *
123889901 TGTAAGACCCTGTCTGGGATAGAGGCATCGATA-CTGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATATCTG-ATTTCG
123889944 TGTAAGACCA
1 TGTAAGACCA
123889954 CGTTCGGGAC
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.38
43 24 0.30
44 26 0.32
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATATCTGATTTCG
Found at i:123898809 original size:44 final size:43
Alignment explanation
Indices: 123898749--123898835 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 43
123898739 GTTCTAAGTG
123898749 GATATACCACGATTACACATATTGATGCATGTAACGTGGTGCTA
1 GATATACCACGATTACACATATTGATGCAT-TAACGTGGTGCTA
* * * *
123898793 GATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 GATATACCACGATTACACATATTGATGCATTAACGTGGTGCTA
123898836 AGTGGATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 13 0.33
44 26 0.67
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (43 bp):
GATATACCACGATTACACATATTGATGCATTAACGTGGTGCTA
Found at i:123898853 original size:47 final size:47
Alignment explanation
Indices: 123898732--123898935 Score: 227
Period size: 47 Copynumber: 4.6 Consensus size: 47
123898722 GTTATACGTG
* * * * *
123898732 TAACGTGGTTCTAAGTGGATATACCACGATTACACATATTGATGCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATACATTGATTCAT
* *
123898779 GTAACGTGGTGCT-A---GATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATACATTGATTCAT
123898823 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATACATTGATTCAT
* *
123898861 TAATGTGGTGCTAAGTGGATATGCCACGGTTACATACATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATACATTGATTCAT
123898908 TAACGTGGTGCTAAGTGGATATACCACG
1 TAACGTGGTGCTAAGTGGATATACCACG
123898936 ATTAAACATG
Statistics
Matches: 132, Mismatches: 11, Indels: 27
0.78 0.06 0.16
Matches are distributed among these distances:
38 30 0.23
39 1 0.01
40 3 0.02
41 2 0.02
43 12 0.09
44 29 0.22
45 2 0.02
46 1 0.01
47 41 0.31
48 11 0.08
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATACATTGATTCAT
Found at i:123898878 original size:38 final size:38
Alignment explanation
Indices: 123898823--123898967 Score: 182
Period size: 38 Copynumber: 3.6 Consensus size: 38
123898813 ATTGATTCAT
123898823 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
123898861 TAATGTGGTGCTAAGTGGATATGCCACGGTTACATACATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
123898902 ATTCATTAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
123898946 TAACGTGGTGCTAAGTGGATAT
1 TAACGTGGTGCTAAGTGGATAT
123898968 GTCATGGTTA
Statistics
Matches: 93, Mismatches: 5, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
38 52 0.56
39 1 0.01
40 3 0.03
41 2 0.02
44 2 0.02
45 3 0.03
46 1 0.01
47 29 0.31
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:123898905 original size:85 final size:85
Alignment explanation
Indices: 123898776--123898977 Score: 331
Period size: 85 Copynumber: 2.4 Consensus size: 85
123898766 CATATTGATG
*
123898776 CATGTAACGTGGTGCT-A---GATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAA
1 CATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATACATTGATTCATTAACGTGGTGCTAA
*
123898837 GTGGATATACCACGGTTAAA
66 GTGGATATACCACGATTAAA
*
123898857 CATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATACATTGATTCATTAACGTGGTGCTAA
1 CATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATACATTGATTCATTAACGTGGTGCTAA
123898922 GTGGATATACCACGATTAAA
66 GTGGATATACCACGATTAAA
* *
123898942 CATGTAACGTGGTGCTAAGTGGATATGTCATGGTTA
1 CATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
123898978 TACATGTTAA
Statistics
Matches: 111, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
81 15 0.14
82 1 0.01
85 95 0.86
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (85 bp):
CATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATACATTGATTCATTAACGTGGTGCTAA
GTGGATATACCACGATTAAA
Found at i:123901727 original size:48 final size:48
Alignment explanation
Indices: 123901603--123901833 Score: 251
Period size: 48 Copynumber: 4.9 Consensus size: 48
123901593 CACATAGTAA
* * *
123901603 GATGCCAATGCTATATCCTAGATATGGTCTTACATGGGATCACAGATC
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCACATATC
* * * * * * *
123901651 GAAGCC---G--ATAGCCCAG-CTATGGTATTACACGATG-TCTCATATC
1 GATGCCAATGCCATATCCTAGAC-ATGGTCTTACATG-GGATCACATATC
* * *
123901694 GATGCCAATGTCATATCCTAGATATGGTCTTACATGGGATCAAATATC
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCACATATC
* *
123901742 GATGCCAATGCCATATCCCAAACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCACATATC
*
123901790 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCACA
123901834 CATAACCTTA
Statistics
Matches: 148, Mismatches: 26, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
43 30 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 114 0.77
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCTAGACATGGTCTTACATGGGATCACATATC
Found at i:123905128 original size:2 final size:2
Alignment explanation
Indices: 123905121--123905154 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
123905111 TTGTTTGATG
123905121 AT 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 AT
123905155 TCGGCAATGG
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):
AT
Found at i:123906428 original size:48 final size:48
Alignment explanation
Indices: 123906358--123906884 Score: 829
Period size: 48 Copynumber: 11.0 Consensus size: 48
123906348 AGATAAATAT
* *
123906358 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
123906406 ATATATGTGTGATATGTGTATGTGGTAAATCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
123906454 ATATATATAAGATATGTATATGTGGTAAAGCCGAAAGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
123906502 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
123906550 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
123906598 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
123906646 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
123906694 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
123906742 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
123906790 ATATATATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
123906838 ATATGTGTGAGATAAGAATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGA
123906885 GTGTTGTAAC
Statistics
Matches: 440, Mismatches: 39, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 440 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:123906969 original size:37 final size:37
Alignment explanation
Indices: 123906919--123907015 Score: 185
Period size: 37 Copynumber: 2.6 Consensus size: 37
123906909 ACATGAAACT
123906919 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
123906956 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
*
123906993 TGGAGATTATGTCTGGGTAAGAC
1 TGGAGATTATGTCCGGGTAAGAC
123907016 TTCGTAATAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:123910885 original size:2 final size:2
Alignment explanation
Indices: 123910878--123910907 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
123910868 TTATAAACGA
123910878 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
123910908 TTATCTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123920390 original size:17 final size:19
Alignment explanation
Indices: 123920348--123920391 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
123920338 ATGAAATTTT
*
123920348 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
123920367 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
123920385 AA-TATTA
1 AATTATTA
123920392 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:123922213 original size:28 final size:28
Alignment explanation
Indices: 123922181--123922249 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
123922171 GCGTAGATCA
123922181 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
123922209 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
123922237 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
123922250 GGGTTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 3 0.08
27 8 0.21
28 28 0.72
ACGTcount: A:0.45, C:0.28, G:0.07, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:123924671 original size:17 final size:19
Alignment explanation
Indices: 123924629--123924672 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
123924619 ATGAAATTTT
*
123924629 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
123924648 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
123924666 AA-TATTA
1 AATTATTA
123924673 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:123926497 original size:28 final size:28
Alignment explanation
Indices: 123926465--123926533 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
123926455 GCGTAGATCA
123926465 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
123926493 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
123926521 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
123926534 GGGTTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 3 0.08
27 8 0.21
28 28 0.72
ACGTcount: A:0.45, C:0.28, G:0.07, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:123928098 original size:20 final size:20
Alignment explanation
Indices: 123928073--123928113 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
123928063 CCTCGGACAC
123928073 AAATCTATAGGATGATAGTT
1 AAATCTATAGGATGATAGTT
123928093 AAATCTATAGGATGATAGTT
1 AAATCTATAGGATGATAGTT
123928113 A
1 A
123928114 TCCATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (20 bp):
AAATCTATAGGATGATAGTT
Found at i:123935850 original size:16 final size:17
Alignment explanation
Indices: 123935825--123935858 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
123935815 ATTAGGGAAT
*
123935825 AAAGTTTAAA-ATTTAA
1 AAAGTATAAAGATTTAA
123935841 AAAGTATAAAGATTTAA
1 AAAGTATAAAGATTTAA
123935858 A
1 A
123935859 GTGTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (17 bp):
AAAGTATAAAGATTTAA
Found at i:123937482 original size:66 final size:66
Alignment explanation
Indices: 123937376--123937513 Score: 269
Period size: 66 Copynumber: 2.1 Consensus size: 66
123937366 CTCAAGTGTA
123937376 TTCTTGTTTATTTGTGCTTTATTGACAAACATTCTGATCTTGTAAGGATTATTTCTTAGTTTTTT
1 TTCTTGTTTATTTGTGCTTTATTGACAAACATTCTGATCTTGTAAGGATTATTTCTTAGTTTTTT
123937441 T
66 T
123937442 TTCTTGTTTATTTGTGCTTTATTGACAAACATTCTGATCTTGTAAGGATTATTTCTTAGTTTTTT
1 TTCTTGTTTATTTGTGCTTTATTGACAAACATTCTGATCTTGTAAGGATTATTTCTTAGTTTTTT
123937507 T
66 T
123937508 TT-TTGT
1 TTCTTGT
123937514 AATTCTTTGA
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 4 0.06
66 68 0.94
ACGTcount: A:0.19, C:0.10, G:0.14, T:0.57
Consensus pattern (66 bp):
TTCTTGTTTATTTGTGCTTTATTGACAAACATTCTGATCTTGTAAGGATTATTTCTTAGTTTTTT
T
Found at i:123942233 original size:46 final size:46
Alignment explanation
Indices: 123942183--123942358 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
123942173 TGGTTGAGCA
123942183 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
123942229 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
123942274 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
123942322 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
123942359 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:123942339 original size:93 final size:93
Alignment explanation
Indices: 123942180--123942351 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
123942170 GGATGGTTGA
* *
123942180 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
123942245 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
123942273 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
123942338 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
123942352 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:123949889 original size:45 final size:46
Alignment explanation
Indices: 123949726--123949900 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
123949716 ATGGTTGGCA
*
123949726 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
123949772 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
123949817 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
123949865 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
123949901 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:123952297 original size:28 final size:28
Alignment explanation
Indices: 123952266--123952370 Score: 156
Period size: 28 Copynumber: 3.8 Consensus size: 28
123952256 TACTCGATGC
123952266 CTCGCACACTAAGTGCCATACTCAATAT
1 CTCGCACACTAAGTGCCATACTCAATAT
*
123952294 CTCGCACACTAAGTGCCATTCTCAATAT
1 CTCGCACACTAAGTGCCATACTCAATAT
* * *
123952322 CTCGCACACTAAATGTCATACTCGATAT
1 CTCGCACACTAAGTGCCATACTCAATAT
* *
123952350 CTTGCAAACTAAGTGCCATAC
1 CTCGCACACTAAGTGCCATAC
123952371 ATAGCCGAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.31, C:0.30, G:0.11, T:0.27
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCATACTCAATAT
Found at i:123952421 original size:40 final size:39
Alignment explanation
Indices: 123952357--123952452 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
123952347 TATCTTGCAA
** * *
123952357 ACTAAGTGCCATACATAGCCGAAGCTATCTCAGATCGCAC
1 ACTAAGTGCCATATTTAGCCGAAGCTATATC-GAACGCAC
* *
123952397 ACTAAGTGCCAAATTTAGCTGAAGCTATATCGAACGCAC
1 ACTAAGTGCCATATTTAGCCGAAGCTATATCGAACGCAC
* *
123952436 AATAAGTACCATATTTA
1 ACTAAGTGCCATATTTA
123952453 TCCAATATGT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 21 0.45
40 26 0.55
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (39 bp):
ACTAAGTGCCATATTTAGCCGAAGCTATATCGAACGCAC
Found at i:123952452 original size:39 final size:40
Alignment explanation
Indices: 123952372--123952452 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
123952362 GTGCCATACA
* * * *
123952372 TAGCCGAAGCTATCTCAGATCGCACACTAAGTGCCAAATT
1 TAGCCGAAGCTATATCAGAACGCACAATAAGTACCAAATT
* *
123952412 TAGCTGAAGCTATATC-GAACGCACAATAAGTACCATATT
1 TAGCCGAAGCTATATCAGAACGCACAATAAGTACCAAATT
123952451 TA
1 TA
123952453 TCCAATATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
39 21 0.60
40 14 0.40
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (40 bp):
TAGCCGAAGCTATATCAGAACGCACAATAAGTACCAAATT
Found at i:123954744 original size:12 final size:12
Alignment explanation
Indices: 123954727--123954752 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
123954717 TACATGCCCA
123954727 TGTGCTAGACCG
1 TGTGCTAGACCG
123954739 TGTGCTAGACCG
1 TGTGCTAGACCG
123954751 TG
1 TG
123954753 CCAAACCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.35, T:0.27
Consensus pattern (12 bp):
TGTGCTAGACCG
Found at i:123963447 original size:43 final size:42
Alignment explanation
Indices: 123963361--123963453 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 42
123963351 AAATTACATA
*
123963361 TAAGACCATGTCAGGGACATTGGCATTGTATTGAGATTACGTG
1 TAAGACCATGTCAGGGACATTGGCATCGTATT-AGATTACGTG
** * *
123963404 TAAGACCATGTTTGGGATATTGGCATCGTTAATT-GATTTCGTG
1 TAAGACCATGTCAGGGACATTGGCATCG-T-ATTAGATTACGTG
123963447 TAAGACC
1 TAAGACC
123963454 CTACTTGGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
43 39 0.91
44 1 0.02
45 3 0.07
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (42 bp):
TAAGACCATGTCAGGGACATTGGCATCGTATTAGATTACGTG
Found at i:123965409 original size:51 final size:51
Alignment explanation
Indices: 123965329--123965476 Score: 260
Period size: 51 Copynumber: 2.9 Consensus size: 51
123965319 ATGATACACG
*
123965329 GTGGCCTTCACATAGTACCACACTCGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
123965380 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGATATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
123965431 GTGGCCTTGACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
123965477 CTAAGGTTCA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 91 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:123965544 original size:24 final size:24
Alignment explanation
Indices: 123965512--123965635 Score: 178
Period size: 24 Copynumber: 5.0 Consensus size: 24
123965502 ACTTAGCACC
*
123965512 ATGCCATGGACTTATTTCATTTAG
1 ATGCCATGGACTTATTTCACTTAG
123965536 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
123965560 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
123965584 CACATTGCCATAGACTTATTTCACTTAG
1 ---A-TGCCATGGACTTATTTCACTTAG
123965612 ATGCCATGGTA-TTATTTCACTTAG
1 ATGCCATGG-ACTTATTTCACTTAG
123965636 CACAATGCCG
Statistics
Matches: 92, Mismatches: 3, Indels: 10
0.88 0.03 0.10
Matches are distributed among these distances:
24 67 0.73
25 2 0.02
27 1 0.01
28 22 0.24
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:123965638 original size:52 final size:52
Alignment explanation
Indices: 123965512--123965644 Score: 195
Period size: 52 Copynumber: 2.6 Consensus size: 52
123965502 ACTTAGCACC
* *
123965512 ATGCCATGGACTTATTTCATTTAG----ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAGCACAATGCCATAGACTTATTTCACTTAG
*
123965560 ATGCCATGGACTTATTTCACTTAGCACATTGCCATAGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAGCACAATGCCATAGACTTATTTCACTTAG
123965612 ATGCCATGGTA-TTATTTCACTTAGCACAATGCC
1 ATGCCATGG-ACTTATTTCACTTAGCACAATGCC
123965645 GTATCCTAGA
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
48 23 0.30
52 52 0.68
53 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (52 bp):
ATGCCATGGACTTATTTCACTTAGCACAATGCCATAGACTTATTTCACTTAG
Found at i:123968297 original size:47 final size:46
Alignment explanation
Indices: 123968232--123968438 Score: 170
Period size: 47 Copynumber: 4.4 Consensus size: 46
123968222 TTGTGGGCTT
* * *
123968232 GTGTAAGACATGTTTGGGACATGCATCAGCCAC-ATTATGAGACCCA
1 GTGTAAGACATGTCTGGGACATGCATCAGCCACGA-GATGAGAGCCA
** * *
123968278 GTGTAAGACCATGTCTGGGACATGACATCAG-CATCGAGACAAGTGCTA
1 GTGTAAGA-CATGTCTGGGACATG-CATCAGCCA-CGAGATGAGAGCCA
** * * *
123968326 GTGTAAGATGTGTCTGGGACATGCATCAGCTACGAGATGATAGTCA
1 GTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCCA
* * *
123968372 GTGTAAGACCATGTCTGGGACATGGCATC-GACATGAGAT-ATGAGCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACGAGATGA-GAGCCA
*
123968419 GTGTAAGACCGTGTCTGGGA
1 GTGTAAGA-CATGTCTGGGA
123968439 TAAGGCATCA
Statistics
Matches: 128, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
46 31 0.24
47 71 0.55
48 25 0.20
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCCA
Found at i:123968393 original size:94 final size:93
Alignment explanation
Indices: 123968232--123968438 Score: 256
Period size: 94 Copynumber: 2.2 Consensus size: 93
123968222 TTGTGGGCTT
* * *
123968232 GTGTAAGACATGTTTGGGACATGCATCAGCCACATTATGAGACCCAGTGTAAGACCATGTCTGGG
1 GTGTAAGACGTGTCTGGGACATGCATCAGCCACATGATGAGACCCAGTGTAAGACCATGTCTGGG
*
123968297 ACATGACATC-AGCATCGAGACAAGTGCTA
66 ACATGACATCGA-CAT-GAGACAAGAGCTA
* * * **
123968326 GTGTAAGATGTGTCTGGGACATGCATCAGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTGG
1 GTGTAAGACGTGTCTGGGACATGCATCAGCCAC-ATGATGAGACCCAGTGTAAGACCATGTCTGG
* * *
123968390 GACATGGCATCGACATGAGATATGAGCTA
65 GACATGACATCGACATGAGACAAGAGCTA
123968419 GTGTAAGACCGTGTCTGGGA
1 GTGTAAGA-CGTGTCTGGGA
123968439 TAAGGCATCA
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
93 18 0.19
94 77 0.79
95 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
GTGTAAGACGTGTCTGGGACATGCATCAGCCACATGATGAGACCCAGTGTAAGACCATGTCTGGG
ACATGACATCGACATGAGACAAGAGCTA
Found at i:123974598 original size:29 final size:28
Alignment explanation
Indices: 123974564--123974666 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 28
123974554 TACTCAATCA
* *
123974564 CGCACACTTAGTGCCACATGATTCAAGCC
1 CGCACACTTAGTGCCACAT-ATACAAGCT
* * * *
123974593 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCACATA-TACAAGCT
123974622 CGCACACTTAGTGCCGTACAT-TACAAGCT
1 CGCACACTTAGTGCC--ACATATACAAGCT
*
123974651 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
123974667 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 56 0.92
31 3 0.05
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (28 bp):
CGCACACTTAGTGCCACATATACAAGCT
Found at i:123976287 original size:12 final size:12
Alignment explanation
Indices: 123976270--123976297 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
123976260 TGTCACATTA
123976270 TTGAAGCTTACT
1 TTGAAGCTTACT
123976282 TTGAAGCTTACT
1 TTGAAGCTTACT
123976294 TTGA
1 TTGA
123976298 TATATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (12 bp):
TTGAAGCTTACT
Found at i:123976493 original size:14 final size:14
Alignment explanation
Indices: 123976474--123976505 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
123976464 TACAAGGGGC
123976474 ATGTTATGAAAAAT
1 ATGTTATGAAAAAT
*
123976488 ATGTTATGAAAATT
1 ATGTTATGAAAAAT
123976502 ATGT
1 ATGT
123976506 GGTCTGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.41
Consensus pattern (14 bp):
ATGTTATGAAAAAT
Found at i:123978532 original size:21 final size:21
Alignment explanation
Indices: 123978506--123978545 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
123978496 ATAACCGTGT
123978506 TGTAAGTGATACAGGTACCAA
1 TGTAAGTGATACAGGTACCAA
*
123978527 TGTAAGTGATACATGTACC
1 TGTAAGTGATACAGGTACC
123978546 TAATTGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (21 bp):
TGTAAGTGATACAGGTACCAA
Found at i:123988188 original size:41 final size:39
Alignment explanation
Indices: 123988143--123988258 Score: 101
Period size: 41 Copynumber: 2.9 Consensus size: 39
123988133 CTGGTGAATT
123988143 AAATCAGGCTTTATGCCTAGCAGGCTTATTGCCGGTATATA
1 AAATCAGGCTTTA-GCCTAGCAGGCTT-TTGCCGGTATATA
* * * * * *
123988184 AAATCAGACTTTGAGTCTAGCAGGTCTTGTGCCGGTGTGTG
1 AAATCAGGCTTT-AGCCTAGCAGG-CTTTTGCCGGTATATA
*
123988225 ATA-CAGG-TTTACGCCTAGCAGGCTTTATGCCGGT
1 AAATCAGGCTTTA-GCCTAGCAGGCTTT-TGCCGGT
123988259 GAATTATTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
38 4 0.07
39 19 0.31
40 3 0.05
41 31 0.51
42 4 0.07
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (39 bp):
AAATCAGGCTTTAGCCTAGCAGGCTTTTGCCGGTATATA
Found at i:123990758 original size:46 final size:46
Alignment explanation
Indices: 123990688--123990861 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
123990678 TCACTTGTGA
* * *
123990688 AAGCCAATGTAAGACATGTCTGGGACAT-GCATCGACCTTGGGACGT
1 AAGCCAGTGTAAGACATGTCTGGGACATGGCATCGA-CTTGAGATGT
* * *
123990734 AAGCCAGTGTAAGACATGTTTGGGACAT-GCGTCGGCTTCGAGATG-
1 AAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTT-GAGATGT
* * *
123990779 ATAGTCAGTGTAAGACATGTCTGGGACATGGCTTCGACTTGAGATAT
1 A-AGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTTGAGATGT
* **
123990826 GAGCCAGTGTAAGATTGTGTCTGGGACATGGCATCG
1 AAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
123990862 GGACCTTACC
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
45 4 0.04
46 77 0.72
47 26 0.24
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (46 bp):
AAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTTGAGATGT
Found at i:123994609 original size:43 final size:43
Alignment explanation
Indices: 123994514--123994709 Score: 204
Period size: 43 Copynumber: 4.6 Consensus size: 43
123994504 ACCAGCACGA
* * * *
123994514 AGCCTGCTAGACTTTAAGTCTGA-ACTCAT-TCACTGGCATT-T
1 AGCCTGCTAGGCTTGAAGCCTGATA-TCATCTCACCGGCATTAT
* *
123994555 CGCCTGCTAGGCTTGAAGCCTGATATCATTTCACCGGCATTAT
1 AGCCTGCTAGGCTTGAAGCCTGATATCATCTCACCGGCATTAT
* *
123994598 AGCCTGCTAGGCTCT-AAGCCCGATATTATCTCACCGGCATTAT
1 AGCCTGCTAGGCT-TGAAGCCTGATATCATCTCACCGGCATTAT
** *
123994641 AGCCTGCTAGGCTCAAAGCCCT-ATATTATCTCACCGGCATTAT
1 AGCCTGCTAGGCTTGAAG-CCTGATATCATCTCACCGGCATTAT
** *
123994684 AGCCTGCTAGGCCCGAAGCCCGATAT
1 AGCCTGCTAGGCTTGAAGCCTGATAT
123994710 TGTTATTCAC
Statistics
Matches: 134, Mismatches: 14, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
41 23 0.17
42 13 0.10
43 95 0.71
44 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (43 bp):
AGCCTGCTAGGCTTGAAGCCTGATATCATCTCACCGGCATTAT
Found at i:123994710 original size:43 final size:43
Alignment explanation
Indices: 123994543--123994710 Score: 239
Period size: 43 Copynumber: 3.9 Consensus size: 43
123994533 CTGAACTCAT
* * * * * *
123994543 TCACTGGCATT-TCGCCTGCTAGGCTTGAAGCCTGATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTATC
*
123994585 TCACCGGCATTATAGCCTGCTAGGCTCTAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTATC
* *
123994628 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCTATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTATC
*
123994671 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATT
123994711 GTTATTCACC
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
42 10 0.09
43 103 0.91
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTATC
Found at i:123998979 original size:40 final size:39
Alignment explanation
Indices: 123998935--123999082 Score: 163
Period size: 40 Copynumber: 3.7 Consensus size: 39
123998925 ATAACCACAA
* * *** *
123998935 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTC
123998975 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
123999015 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
123999055 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCA-CAATGCCTTCGGGTCTTAGCCCGG
123999083 GTATCATTCA
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
40 92 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:124001350 original size:22 final size:21
Alignment explanation
Indices: 124001324--124001364 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
124001314 GTTGAAATGT
*
124001324 CACATGAGCGTGTTGCCCCTCC
1 CACATAAGCGTG-TGCCCCTCC
*
124001346 CACATAAGTGTGTGCCCCT
1 CACATAAGCGTGTGCCCCT
124001365 GTGTTAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.17, C:0.37, G:0.22, T:0.24
Consensus pattern (21 bp):
CACATAAGCGTGTGCCCCTCC
Found at i:124016788 original size:29 final size:29
Alignment explanation
Indices: 124016756--124016890 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
124016746 ATACCCTCCG
** * *
124016756 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
124016785 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
124016814 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
124016843 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
124016872 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
124016891 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:124016823 original size:58 final size:58
Alignment explanation
Indices: 124016702--124016891 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
124016692 TACTCGATTT
* * * *** *
124016702 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
124016760 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
124016818 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
124016876 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
124016892 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:124020094 original size:40 final size:39
Alignment explanation
Indices: 124019929--124020112 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
124019919 AAATTGAATG
* * *
124019929 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
124019969 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
124020009 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
124020049 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
124020088 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
124020113 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:124020137 original size:80 final size:81
Alignment explanation
Indices: 124019969--124020157 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
124019959 GCTGGAAATT
* * * *
124019969 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
124020034 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
124020050 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
124020113 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
124020129 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
124020158 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:124032263 original size:29 final size:29
Alignment explanation
Indices: 124032231--124032390 Score: 198
Period size: 29 Copynumber: 5.5 Consensus size: 29
124032221 ATAGTGAATC
124032231 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
124032260 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
124032290 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * * *
124032319 CTCACACTTAGTGCTGTATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
124032347 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
124032377 CGCACACTTAGTGC
1 CGCACACTTAGTGC
124032391 CAATCTTGTC
Statistics
Matches: 117, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 20 0.17
29 48 0.41
30 46 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:124032286 original size:30 final size:30
Alignment explanation
Indices: 124032231--124032390 Score: 204
Period size: 30 Copynumber: 5.5 Consensus size: 30
124032221 ATAGTGAATC
124032231 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
124032260 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
124032290 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* * *
124032319 CTCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
124032347 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
124032377 CGCACACTTAGTGC
1 CGCACACTTAGTGC
124032391 CAATCTTGTC
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 46 0.39
30 47 0.40
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:124032325 original size:59 final size:57
Alignment explanation
Indices: 124032231--124032390 Score: 205
Period size: 59 Copynumber: 2.8 Consensus size: 57
124032221 ATAGTGAATC
*
124032231 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
* *
124032290 CGCACACTTAGTGCTATATATTTTCAGCTCTCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
124032347 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
124032391 CAATCTTGTC
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 48 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:124040364 original size:28 final size:29
Alignment explanation
Indices: 124040273--124040429 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
124040263 ATAGTGAATC
124040273 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
124040302 CGCACACTTAGTGC-ATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
124040331 CGCACACTTAGTGCTA-ATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * * *
124040359 CTCACACTTAGTG-TGTATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
124040386 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
124040416 CGCACACTTAGTGC
1 CGCACACTTAGTGC
124040430 CAATCTTGTC
Statistics
Matches: 111, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
26 2 0.02
27 16 0.14
28 33 0.30
29 41 0.37
30 18 0.16
31 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:124040365 original size:57 final size:56
Alignment explanation
Indices: 124040273--124040429 Score: 183
Period size: 57 Copynumber: 2.8 Consensus size: 56
124040263 ATAGTGAATC
*
124040273 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCATATAA---TCAAACT
* **
124040331 CGCACACTTAGTGCTA-ATATTTTCAGCTCTCACACTTAGTGTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCATATAATCAAACT
* * * * *
124040386 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
124040430 CAATCTTGTC
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
54 2 0.02
55 18 0.21
56 1 0.01
57 48 0.56
58 16 0.19
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (56 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCATATAATCAAACT
Found at i:124040398 original size:27 final size:29
Alignment explanation
Indices: 124040361--124040429 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
124040351 TTTCAGCTCT
* *
124040361 CACACTTAGTG-TGTATAA-TCAAACTCG
1 CACACTTAGTGCTGTACAATTCAAACCCG
*
124040388 CACACTTAGTGCTGTACAATTTTAAACCCG
1 CACACTTAGTGCTGTACAA-TTCAAACCCG
124040418 CACACTTAGTGC
1 CACACTTAGTGC
124040430 CAATCTTGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.31
28 6 0.17
30 19 0.53
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (29 bp):
CACACTTAGTGCTGTACAATTCAAACCCG
Done.