Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008803.1 Hibiscus syriacus cultivar Beakdansim tig00111954_pilon, whole genome shotgun sequence
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: 1826237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:883867 original size:26 final size:26
Alignment explanation
Indices: 883831--883882 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
883821 TCTGAGCTGG
883831 ACATTAACCTATTGACTG-GAACATGA
1 ACATTAACCTATTGACTGAG-ACATGA
883857 ACATTAACCTATTGACTGAGACATGA
1 ACATTAACCTATTGACTGAGACATGA
883883 TAAAATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (26 bp):
ACATTAACCTATTGACTGAGACATGA
Found at i:905567 original size:10 final size:10
Alignment explanation
Indices: 905552--905576 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
905542 TTTTTTCAAA
905552 AAAAAAAAAC
1 AAAAAAAAAC
905562 AAAAAAAAAC
1 AAAAAAAAAC
905572 AAAAA
1 AAAAA
905577 GCCAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:909252 original size:20 final size:22
Alignment explanation
Indices: 909227--909274 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
909217 TAATTTAATA
909227 TAGGAT-GATTTATTATCTT-T
1 TAGGATAGATTTATTATCTTAT
*
909247 TAGGATCAGATTTATTATTTTAT
1 TAGGAT-AGATTTATTATCTTAT
909270 TAGGA
1 TAGGA
909275 ATTAAGGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
22 12 0.50
23 6 0.25
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.50
Consensus pattern (22 bp):
TAGGATAGATTTATTATCTTAT
Found at i:909650 original size:48 final size:48
Alignment explanation
Indices: 909558--909650 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
909548 TCACACTCAA
* * * *
909558 TTTGCCTTTTCATTGCGACTAGGAGGTTAGTTAGAGCCATTTATCGTG
1 TTTGCCTTTTCATTGCGACTAGGAGGCTAGATAGAGACACTTATCGTG
*
909606 TTTGCCTTTTCATTGCGACTAGGAGGGCTCGATAG-GACACTTATC
1 TTTGCCTTTTCATTGCGACTAGGA-GGCTAGATAGAGACACTTATC
909651 CATCTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 32 0.82
49 7 0.18
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (48 bp):
TTTGCCTTTTCATTGCGACTAGGAGGCTAGATAGAGACACTTATCGTG
Found at i:915043 original size:31 final size:31
Alignment explanation
Indices: 915000--915140 Score: 255
Period size: 31 Copynumber: 4.5 Consensus size: 31
914990 CATAGATTCT
* * *
915000 GAAGAACCTAGGTAATCAGTTCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
915031 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
915062 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
915093 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
915124 GAAGAACATAGGTAAAC
1 GAAGAACATAGGTAAAC
915141 CCTCGACCCT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:918767 original size:31 final size:31
Alignment explanation
Indices: 918743--918853 Score: 195
Period size: 31 Copynumber: 3.6 Consensus size: 31
918733 CCATAGATTT
* *
918743 CGAAGAACCTAGGTAATCAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
918774 CGAAGAACATAGGTAAACAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
*
918805 CGAAGAACATAGTTAAACAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
918836 CGAAGAACATAGGTAAAC
1 CGAAGAACATAGGTAAAC
918854 CCTCGACCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CGAAGAACATAGGTAAACAGTCCATATGTCC
Found at i:922482 original size:31 final size:31
Alignment explanation
Indices: 922458--922630 Score: 310
Period size: 31 Copynumber: 5.6 Consensus size: 31
922448 CCATAGATTT
* *
922458 CGAAGAACCTAGGTAATCAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
922489 CGAAGAACATAGGTAAACAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
922520 CGAAGAACATAGGTAAACAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
*
922551 CGAAGAACATAGGTAAACAGTCCATATATCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
*
922582 CGAAGAACATAGGTAAACAATCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
922613 CGAAGAACATAGGTAAAC
1 CGAAGAACATAGGTAAAC
922631 CCTCGACCCT
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 137 1.00
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (31 bp):
CGAAGAACATAGGTAAACAGTCCATATGTCC
Found at i:926642 original size:2 final size:2
Alignment explanation
Indices: 926635--926674 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
926625 TATAAATTAA
926635 AT AT AT 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 AT AT AT
926675 GGGTACTCGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:933618 original size:57 final size:57
Alignment explanation
Indices: 933360--933740 Score: 491
Period size: 57 Copynumber: 6.6 Consensus size: 57
933350 GTCCAATATA
* * *** **
933360 GAAATGCATACACTTAGTATGAATTTCTT-ATCATGTTAGCACCCGAAGTGCCCTATCT
1 GAAATTCATACACTTAGTATG-ATTTCTTAAT-ATTTTAGCGTACGAAACGCCCTATCT
933418 AGAAATTCATACACTTAGTATGATTTCCTT-ATCATTTTAGCGTACGAAACGCCCTATCT
1 -GAAATTCATACACTTAGTATGATTT-CTTAAT-ATTTTAGCGTACGAAACGCCCTATCT
* * *
933477 GAAATTCATACTCTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAATATTTTAGCGTACGAAACGCCC-TATCT
* * *
933535 GAAATTCATACCCTTAGTATGATTTCTTAATATTTTAGCATACGAAACACCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAATATTTTAGCGTACGAAACGCCCTATCT
* * *
933592 GAAATTCATACACTTAATATGATTTCTTAACATTTTAGCGTA-GAAAACACCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAATATTTTAGCGTACG-AAACGCCCTATCT
* * *
933649 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTATGAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAATATTTTAGCGTACGAAACGCCCTATCT
*
933706 GAAATTCGTACACTTAGTATGATTTCTT-ATATTTT
1 GAAATTCATACACTTAGTATGATTTCTTAATATTTT
933741 GCACACTTAG
Statistics
Matches: 293, Mismatches: 24, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
56 7 0.02
57 158 0.54
58 82 0.28
59 46 0.16
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAATATTTTAGCGTACGAAACGCCCTATCT
Found at i:933784 original size:172 final size:173
Alignment explanation
Indices: 933360--933746 Score: 552
Period size: 172 Copynumber: 2.2 Consensus size: 173
933350 GTCCAATATA
* * * ***
933360 GAAATGCATACACTTAGTATGAATTTCTT-ATCATGTTAGCACCCGAAGTGCCCTATCTAGAAAT
1 GAAATTCATACACTTAGTATG-ATTTCTTAAT-ATTTTAGCACACGAAACACCCTATCT-GAAAT
* * * * *
933424 TCATACACTTAGTATGATTTCCTTATCATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACT
63 CCATACACTTAATATGATTTCCTTAACATTTTAGCGTACGAAACACCCTATCTGAAATTCATACA
933489 CTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTTATCT
128 CTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTTATCT
* * *
933535 GAAATTCATACCCTTAGTATGATTTCTTAATATTTTAGCATACGAAACACCCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAATATTTTAGCACACGAAACACCCTATCTGAAATCCA
933600 TACACTTAATATGATTT-CTTAACATTTTAGCGTA-GAAAACACCCTATCTGAAATTCATACACT
66 TACACTTAATATGATTTCCTTAACATTTTAGCGTACG-AAACACCCTATCTGAAATTCATACACT
*
933663 TAGTATGATTTCTTAACATTTTAGCGTATGAAATGCCC-TATCT
130 TAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTTATCT
*
933706 GAAATTCGTACACTTAGTATGATTTCTT-ATATTTT-GCACAC
1 GAAATTCATACACTTAGTATGATTTCTTAATATTTTAGCACAC
933747 TTAGTGCCCT
Statistics
Matches: 194, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
169 5 0.03
170 7 0.04
171 32 0.16
172 78 0.40
173 24 0.12
174 27 0.14
175 21 0.11
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (173 bp):
GAAATTCATACACTTAGTATGATTTCTTAATATTTTAGCACACGAAACACCCTATCTGAAATCCA
TACACTTAATATGATTTCCTTAACATTTTAGCGTACGAAACACCCTATCTGAAATTCATACACTT
AGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTTATCT
Found at i:934298 original size:96 final size:96
Alignment explanation
Indices: 934134--934309 Score: 239
Period size: 96 Copynumber: 1.8 Consensus size: 96
934124 ATATGGTACC
* * * * *
934134 GATACCCCTTCTGGTATCAATCCCAATTTTTGATTCAATGTTGCTTGGTATTGATACACATACCA
1 GATACCCCTTCCGATATCAATCCCAATTTTAGATTCAATGTAGCTTGGTATCGATACACATACCA
934199 TGGTATTGATACTACTATATATTATAGTATT
66 TGGTATTGATACTACTATATATTATAGTATT
* * * *
934230 GATACCCCTTCCGATATCAATACCC-ATTTTAGATTCGATGTAGAC-TGGTCTCGATACCCTTAC
1 GATACCCCTTCCGATATCAAT-CCCAATTTTAGATTCAATGTAG-CTTGGTATCGATACACATAC
934293 CATGGTATTGATACTAC
64 CATGGTATTGATACTAC
934310 ATTTTTGGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
96 65 0.94
97 4 0.06
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (96 bp):
GATACCCCTTCCGATATCAATCCCAATTTTAGATTCAATGTAGCTTGGTATCGATACACATACCA
TGGTATTGATACTACTATATATTATAGTATT
Found at i:934959 original size:38 final size:38
Alignment explanation
Indices: 934908--934983 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
934898 ATTCAAGAAC
934908 ATTCAATTTCAAGAATCAAACCACTTTTTCTAATATGT
1 ATTCAATTTCAAGAATCAAACCACTTTTTCTAATATGT
934946 ATTCAATTTCAAGAATCAAACCACTTTTTCTAATATGT
1 ATTCAATTTCAAGAATCAAACCACTTTTTCTAATATGT
934984 TCTTAATCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (38 bp):
ATTCAATTTCAAGAATCAAACCACTTTTTCTAATATGT
Found at i:935489 original size:15 final size:16
Alignment explanation
Indices: 935448--935484 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
935438 ACTCGAATAC
935448 ATCCTCATATTTTTAA
1 ATCCTCATATTTTTAA
935464 ATCCTCATATTTTTAA
1 ATCCTCATATTTTTAA
935480 ATCCT
1 ATCCT
935485 TTATTAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.49
Consensus pattern (16 bp):
ATCCTCATATTTTTAA
Found at i:938477 original size:57 final size:57
Alignment explanation
Indices: 938245--938724 Score: 600
Period size: 57 Copynumber: 8.5 Consensus size: 57
938235 TGTCCAATAC
* * * * ** *
938245 AAAATTCATACACTTACTATGAATTTATTATCATGTTAGCACAC-AAAGTGCCCTATCT
1 AAAATTCATACACTTAGTATG-ATTTCTTAACATTTTAGCGTACGAAA-CGCCCTATCT
* * * * * * * *
938303 GGAAATTCATACGCTTAATATGATTCCTTATCAATTTA--GT--GTAACGCCCTATCA
1 -AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
938357 AAAATTCATACACTTAGTATGATTTCTTAACA-TTTAGCGTACGAAATGCCCTATCT
1 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
938413 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATGCCCTATCT
1 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
938470 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGAGTACGAAAAGCCCTATCT
1 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
** *
938527 GAAAA-TCATACACTTAGCGTGATTTCTTAACATTTTAGCGTACGAAACACCCTATCT
1 -AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
938584 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTA--T
1 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
938639 GAAATTCATACACTTAGTATGATTTTTTAACATTTTAGCGTACGAAACACCCTATCT
1 AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
**
938696 GTAATTCATACACTTAGTATGATTTCTTA
1 AAAATTCATACACTTAGTATGATTTCTTA
938725 TATTTTCAAA
Statistics
Matches: 372, Mismatches: 39, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
52 4 0.01
53 27 0.07
54 10 0.03
55 53 0.14
56 46 0.12
57 198 0.53
58 16 0.04
59 18 0.05
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (57 bp):
AAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
Found at i:939237 original size:95 final size:96
Alignment explanation
Indices: 939063--939285 Score: 312
Period size: 95 Copynumber: 2.3 Consensus size: 96
939053 TGGCCCTATA
* * **
939063 GTATCGATACCCCTATCATGGTATCGATACTACTATAATATGGTAAAGATACCCCCTTCTGGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTACTATAATATGGTAAAGATACCCCCTTCCAGTAT
*
939128 CGATACCAATTTTTA-ATTCGATGTTG-CTTG
66 CGATACCAATTTTTAGATTCGATGTAGAC-TG
**
939158 GTATCGATACCCTTACCATGGTATCGATACTACTATATATTATGGTATCGATA-CCCCTTCCAGT
1 GTATCGATACCCTTACCATGGTATCGATACTACTATA-A-TATGGTAAAGATACCCCCTTCCAGT
*
939222 ATCGATACCCA-TTTTAGATTCGATGTAGACTG
64 ATCGATACCAATTTTTAGATTCGATGTAGACTG
939254 GTATCGATA-CCTTACCATGGTATCGATACTAC
1 GTATCGATACCCTTACCATGGTATCGATACTAC
939286 CTTTCGGTAT
Statistics
Matches: 116, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
95 63 0.54
96 41 0.35
97 12 0.10
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (96 bp):
GTATCGATACCCTTACCATGGTATCGATACTACTATAATATGGTAAAGATACCCCCTTCCAGTAT
CGATACCAATTTTTAGATTCGATGTAGACTG
Found at i:942278 original size:30 final size:30
Alignment explanation
Indices: 942244--942312 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
942234 TATTGTGTAT
*
942244 GAATGACATGAGCTAAAATAAAGAT-CATAA
1 GAATGAAATGAGCTAAAAT-AAGATGCATAA
*
942274 GAATGAAATGAGCTAGAATAAGATGCATAA
1 GAATGAAATGAGCTAAAATAAGATGCATAA
**
942304 TCATGAAAT
1 GAATGAAAT
942313 AGGCTAAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.22
Consensus pattern (30 bp):
GAATGAAATGAGCTAAAATAAGATGCATAA
Found at i:943584 original size:18 final size:19
Alignment explanation
Indices: 943556--943591 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
943546 TTTATTTTAT
943556 ATAATTCTATTATATAAAA
1 ATAATTCTATTATATAAAA
*
943575 ATAATT-TATTATTTAAA
1 ATAATTCTATTATATAAA
943592 TTTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAATTCTATTATATAAAA
Found at i:943599 original size:21 final size:23
Alignment explanation
Indices: 943575--943624 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
943565 TTATATAAAA
943575 ATAATTT-AT-TATTTAAATT-TT
1 ATAATTTCATATA-TTAAATTATT
943596 ATAATTTCATATATTAAATTGATT
1 ATAATTTCATATATTAAATT-ATT
943620 ATAAT
1 ATAAT
943625 CATTAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.28
22 9 0.36
23 2 0.08
24 7 0.28
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
ATAATTTCATATATTAAATTATT
Found at i:951211 original size:20 final size:20
Alignment explanation
Indices: 951194--951245 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
951184 AGGTTTATGG
*
951194 AATTATTCTTCAGTTTATTC
1 AATTATTCTCCAGTTTATTC
951214 AATTATTCTCCAGTTTATTC
1 AATTATTCTCCAGTTTATTC
951234 AATTATTCTCCA
1 AATTATTCTCCA
951246 ATTTTCTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.19, G:0.04, T:0.50
Consensus pattern (20 bp):
AATTATTCTCCAGTTTATTC
Found at i:958058 original size:21 final size:21
Alignment explanation
Indices: 958034--958178 Score: 132
Period size: 21 Copynumber: 6.7 Consensus size: 21
958024 TATTCGTAAG
958034 AGTACTTTGTGTACTTGAAGT
1 AGTACTTTGTGTACTTGAAGT
* *
958055 AGTATTTTGTGTATTATGGTAAG-
1 AGTACTTTGTGTACT-T-G-AAGT
* *
958078 AGTATTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGAAGT
958099 AGTACTTTGTGTACTATGGCAAG-
1 AGTACTTTGTGTACT-T-G-AAGT
** *
958122 AGTGTTTTGTGTACTTGTAGT
1 AGTACTTTGTGTACTTGAAGT
*
958143 AGTACTTTGTGTACTTGTAGT
1 AGTACTTTGTGTACTTGAAGT
* *
958164 AGTAATTTGTATACT
1 AGTACTTTGTGTACT
958179 ATGATACTTT
Statistics
Matches: 103, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
20 4 0.04
21 61 0.59
22 4 0.04
23 29 0.28
24 5 0.05
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.46
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGAAGT
Found at i:958092 original size:44 final size:44
Alignment explanation
Indices: 958029--958157 Score: 195
Period size: 44 Copynumber: 2.9 Consensus size: 44
958019 TTGCATATTC
* * *
958029 GTAAGAGTACTTTGTGTACTTGAAGTAGTATTTTGTGTATTATG
1 GTAAGAGTATTTTGTGTACTTGAAGTAGTACTTTGTGTACTATG
*
958073 GTAAGAGTATTTTGTGTACTTGGAGTAGTACTTTGTGTACTATG
1 GTAAGAGTATTTTGTGTACTTGAAGTAGTACTTTGTGTACTATG
* * *
958117 GCAAGAGTGTTTTGTGTACTTGTAGTAGTACTTTGTGTACT
1 GTAAGAGTATTTTGTGTACTTGAAGTAGTACTTTGTGTACT
958158 TGTAGTAGTA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 78 1.00
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.44
Consensus pattern (44 bp):
GTAAGAGTATTTTGTGTACTTGAAGTAGTACTTTGTGTACTATG
Found at i:958149 original size:12 final size:12
Alignment explanation
Indices: 958132--958167 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
958122 AGTGTTTTGT
958132 GTACTTGTAGTA
1 GTACTTGTAGTA
958144 GTACTT-T-GT-
1 GTACTTGTAGTA
958153 GTACTTGTAGTA
1 GTACTTGTAGTA
958165 GTA
1 GTA
958168 ATTTGTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 6 0.29
10 3 0.14
11 3 0.14
12 9 0.43
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.44
Consensus pattern (12 bp):
GTACTTGTAGTA
Found at i:958152 original size:65 final size:67
Alignment explanation
Indices: 958034--958181 Score: 182
Period size: 65 Copynumber: 2.3 Consensus size: 67
958024 TATTCGTAAG
* *
958034 AGTACTTTGTGTACT-T-GAAGTAGTATTTTGTGTATTATGGTAAGAGTATTTTGTGTACTTGGA
1 AGTACTTTGTGTACTATGGAAGTAGTATTTTGTGTACTATGGTAAGAGTACTTTGTGTACTTGGA
958097 GT
66 GT
*
958099 AGTACTTTGTGTACTATGGCAAG-AGTGTTTTGTGTACT-T-GT-AGTAGTACTTTGTGTACTTG
1 AGTACTTTGTGTACTATGG-AAGTAGTATTTTGTGTACTATGGTAAG-AGTACTTTGTGTACTTG
*
958160 TAGT
64 GAGT
* *
958164 AGTAATTTGTATACTATG
1 AGTACTTTGTGTACTATG
958182 ATACTTTGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
64 2 0.03
65 52 0.71
66 2 0.03
67 14 0.19
68 3 0.04
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (67 bp):
AGTACTTTGTGTACTATGGAAGTAGTATTTTGTGTACTATGGTAAGAGTACTTTGTGTACTTGGA
GT
Found at i:962148 original size:35 final size:35
Alignment explanation
Indices: 962091--962175 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
962081 TTAAAACTTG
* **
962091 CAAAATAATCCTCAATTTCATTCTAAACCCCAAATTC
1 CAAAATAAT--TCAATTACATTCTAAACCAAAAATTC
962128 CAAAATAATTCAATTACATTCTAAACCAAAAATTC
1 CAAAATAATTCAATTACATTCTAAACCAAAAATTC
* *
962163 TAAAATACTTCAA
1 CAAAATAATTCAA
962176 AATAACATTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 34 0.79
37 9 0.21
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (35 bp):
CAAAATAATTCAATTACATTCTAAACCAAAAATTC
Found at i:962742 original size:35 final size:35
Alignment explanation
Indices: 962674--962743 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
962664 TTAACTCAAT
*
962674 ATTATTTTGGAATTTGGGGTTTATAATATAATTGA
1 ATTATTTTGGAATTTGGGGTTTAAAATATAATTGA
962709 ATTATTTTGGAATTTGGGGTTTAAAATGA-AATTGA
1 ATTATTTTGGAATTTGGGGTTTAAAAT-ATAATTGA
962744 GGATTGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (35 bp):
ATTATTTTGGAATTTGGGGTTTAAAATATAATTGA
Found at i:963258 original size:47 final size:48
Alignment explanation
Indices: 963162--963258 Score: 160
Period size: 47 Copynumber: 2.0 Consensus size: 48
963152 TGTCACTAAG
*
963162 AATAAGATTGTTATGGCCACACTAAGGGGGGTGCACAAAAGTTTGAATC
1 AATAAGATTGTTATGGCAACACTAA-GGGGGTGCACAAAAGTTTGAATC
*
963211 AATAAGATTGTTATGGCAAGACTAA-GGGGTGCACAAAAGTTTGAATC
1 AATAAGATTGTTATGGCAACACTAAGGGGGTGCACAAAAGTTTGAATC
963258 A
1 A
963259 TCACCATTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 23 0.50
49 23 0.50
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (48 bp):
AATAAGATTGTTATGGCAACACTAAGGGGGTGCACAAAAGTTTGAATC
Found at i:963601 original size:3 final size:3
Alignment explanation
Indices: 963593--963666 Score: 123
Period size: 3 Copynumber: 25.0 Consensus size: 3
963583 ACATCCATTT
* *
963593 ATA ATA ATA ACA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
963640 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
963667 TTATCAATAG
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 66 0.97
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:975870 original size:81 final size:81
Alignment explanation
Indices: 975720--976290 Score: 785
Period size: 81 Copynumber: 7.1 Consensus size: 81
975710 ATACATTTAG
* ** * **
975720 TCTTTTACTCGAA-GGTATTTAACATTTCATCTAACTGGCATAATTGACACCTTTCTATCAAAGG
1 TCTTTTACTC-AACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATTG
*
975784 CACAGCTAGGCCATTAA
65 CACAGCTAGGCTATTAA
* * *
975801 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAATTGA
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATTGC
975866 ACAGCTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* * * *
975882 TCTTTTACTCAACGGTACTTAACCGTTAATCTAACTGGCATAAATAACACCTTTTTGTCAATTGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATTGC
*
975947 ATAGCTAGGCTATTAA
66 ACAGCTAGGCTATTAA
* *
975963 TCTTTTACTCAACTGTACTTAACCGTTCATCTAACTGGCATAATTGACA-CTTT-TTTCCAATTG
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGT-CAATTG
976026 CACAGCTAGGCTATTAA
65 CACAGCTAGGCTATTAA
* ** * *
976043 TCTTTTACTCAACGATACTTAACTATTCATCTAACTAGCATAATTGACACCTTTCTG-CAAATTT
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTC-AATTG
*
976107 CACAACTAGGCTATTAA
65 CACAGCTAGGCTATTAA
* * *
976124 TCTTTTACTCAACGATACTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATTGC
* *
976189 ACAGCTAAGCCATT-A
66 ACAGCTAGGCTATTAA
* *
976204 TCTTTTACTCAAAGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATTGC
* *
976269 ACAACTAGGCCATT-A
66 ACAGCTAGGCTATTAA
976284 TCTTTTA
1 TCTTTTA
976291 TTTTTTTAAG
Statistics
Matches: 439, Mismatches: 45, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
79 2 0.00
80 156 0.36
81 279 0.64
82 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATTGC
ACAGCTAGGCTATTAA
Found at i:976118 original size:161 final size:160
Alignment explanation
Indices: 975720--976290 Score: 776
Period size: 161 Copynumber: 3.5 Consensus size: 160
975710 ATACATTTAG
* * *
975720 TCTTTTACTCGAA-GGTATTTAA-CATTTCATCTAACTGGCATAATTGACACCTTTCTATCAAAG
1 TCTTTTACTC-AACGGTACTTAACCA-TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAAT
*
975783 GCACAGCTAGGCCATTAATCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGA
64 GCACAACTAGGCCATTAATCTTTTACTCAAC-GTACTTAACCGTTCATCTAACTGGCATAATTGA
* * *
975848 CACCTTTATGCCAATTGAACAGCTAGGCTATTAA
128 CA-CTTTTTTCCAATTGCACAGCTAGGCTATTAA
* * * * * *
975882 TCTTTTACTCAACGGTACTTAACCGTTAATCTAACTGGCATAAATAACACCTTTTTGTCAATTGC
1 TCTTTTACTCAACGGTACTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* * *
975947 ATAGCTAGGCTATTAATCTTTTACTCAACTGTACTTAACCGTTCATCTAACTGGCATAATTGACA
66 ACAACTAGGCCATTAATCTTTTACTCAAC-GTACTTAACCGTTCATCTAACTGGCATAATTGACA
976012 CTTTTTTCCAATTGCACAGCTAGGCTATTAA
130 CTTTTTTCCAATTGCACAGCTAGGCTATTAA
* * * *
976043 TCTTTTACTCAACGATACTTAACTATTCATCTAACTAGCATAATTGACACCTTTCTG-CAAATTT
1 TCTTTTACTCAACGGTACTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGTCAAA-TG
*
976107 CACAACTAGGCTATTAATCTTTTACTCAACGATACTTAACCGTTCATCTAACTGGCATAATTGAC
65 CACAACTAGGCCATTAATCTTTTACTCAACG-TACTTAACCGTTCATCTAACTGGCATAATTGAC
* * * *
976172 ACATTTCTGT-CAAATGCACAGCTAAGCCATT-A
129 AC-TTT-TTTCCAATTGCACAGCTAGGCTATTAA
* *
976204 TCTTTTACTCAAAGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
976269 ACAACTAGGCCATT-ATCTTTTA
66 ACAACTAGGCCATTAATCTTTTA
976291 TTTTTTTAAG
Statistics
Matches: 364, Mismatches: 38, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
160 12 0.03
161 211 0.58
162 138 0.38
163 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (160 bp):
TCTTTTACTCAACGGTACTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCCATTAATCTTTTACTCAACGTACTTAACCGTTCATCTAACTGGCATAATTGACAC
TTTTTTCCAATTGCACAGCTAGGCTATTAA
Found at i:976146 original size:242 final size:242
Alignment explanation
Indices: 975720--976290 Score: 824
Period size: 242 Copynumber: 2.4 Consensus size: 242
975710 ATACATTTAG
* * ** *
975720 TCTTTTACTCGAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACCTTTCTATCAAAGGC
1 TCTTTTACTCAAAGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
* * *
975785 ACAGCTAGGCCATTAATCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACA
66 ACAGCTAGGCCATTAATCTTTTACTCAACGATACTTAACCATTCATCTAACTAGCATAATTGACA
* * *
975850 CCTTTATGCCAATTGAACAGCTAGGCTATTAATCTTTTACTCAACGGTACTTAACCGTTAATCTA
131 CCTTTATGCAAATTGAACAACTAGGCTATTAATCTTTTACTCAACGATACTTAACCGTTAATCTA
* * * * * *
975915 ACTGGCATAAATAACACCTTTTTGTCAATTGCATAGCTAGGCTATTAA
196 ACTGGCATAAATAACACATTTCTGTCAAATGCACAGCTAAGCCATT-A
** * *
975963 TCTTTTACTCAACTGTACTTAACCGTTCATCTAACTGGCATAATTGACA-CTTT-TTTCCAATTG
1 TCTTTTACTCAAAGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTAT-CAAATG
* *
976026 CACAGCTAGGCTATTAATCTTTTACTCAACGATACTTAACTATTCATCTAACTAGCATAATTGAC
65 CACAGCTAGGCCATTAATCTTTTACTCAACGATACTTAACCATTCATCTAACTAGCATAATTGAC
* ** *
976091 ACCTTTCTGCAAATTTCACAACTAGGCTATTAATCTTTTACTCAACGATACTTAACCGTTCATCT
130 ACCTTTATGCAAATTGAACAACTAGGCTATTAATCTTTTACTCAACGATACTTAACCGTTAATCT
* *
976156 AACTGGCATAATTGACACATTTCTGTCAAATGCACAGCTAAGCCATTA
195 AACTGGCATAAATAACACATTTCTGTCAAATGCACAGCTAAGCCATTA
*
976204 TCTTTTACTCAAAGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
*
976269 ACAACTAGGCCATT-ATCTTTTA
66 ACAGCTAGGCCATTAATCTTTTA
976291 TTTTTTTAAG
Statistics
Matches: 290, Mismatches: 35, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
241 58 0.20
242 187 0.64
243 45 0.16
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (242 bp):
TCTTTTACTCAAAGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
ACAGCTAGGCCATTAATCTTTTACTCAACGATACTTAACCATTCATCTAACTAGCATAATTGACA
CCTTTATGCAAATTGAACAACTAGGCTATTAATCTTTTACTCAACGATACTTAACCGTTAATCTA
ACTGGCATAAATAACACATTTCTGTCAAATGCACAGCTAAGCCATTA
Found at i:976494 original size:55 final size:54
Alignment explanation
Indices: 976452--976872 Score: 505
Period size: 54 Copynumber: 7.8 Consensus size: 54
976442 TATATAGTAG
* **
976452 TTCATCAACTCATGATGAATTCCGTGGGTTTGCACACATAGTGCC--TACTATTA
1 TTCATCAACTCATGATGAATTCCGTGAG-TTGCACACATAGTGCCTGTACGGTTA
* * *
976505 TTCATCAACTCATGATGAATTCTGTGAGTTGCACACATAGTGCATATACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGAGTTGCACACATAGTGCCTGTACGGTTA
* * *
976559 TTCATCAACTCATGATGAATTTCATGAGTTGCACACATAGTGCCTGTACAGTTA
1 TTCATCAACTCATGATGAATTCCGTGAGTTGCACACATAGTGCCTGTACGGTTA
* * **
976613 TTCATCAACTAATGATGAATT-CTTG-GTTTGCACAC--AGTGGTTGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGAG-TTGCACACATAGTGCCTGTACGGTTA
* ** * **
976664 TTCATTAACTCATGATGAATTCAATG-GTTTTGTACACATAGTGGTTGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGAG--TTGCACACATAGTGCCTGTACGGTTA
*
976719 TTCATCAACTCATGATGAATTCTGTGAGTTGCACACATAGTGCCTGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGAGTTGCACACATAGTGCCTGTACGGTTA
* * * *
976773 TTCAGCAACTCATGATGAATTCCGTGGGTTTGCACACATAGTGCTTGTATGGTTA
1 TTCATCAACTCATGATGAATTCCGTGAG-TTGCACACATAGTGCCTGTACGGTTA
* **
976828 CTCATCAACTCATGATGAATTCCACGAGTTGCACACATAGTGCCT
1 TTCATCAACTCATGATGAATTCCGTGAGTTGCACACATAGTGCCT
976873 ATTTGGTAAT
Statistics
Matches: 321, Mismatches: 38, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
51 32 0.10
52 19 0.06
53 45 0.14
54 138 0.43
55 86 0.27
56 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (54 bp):
TTCATCAACTCATGATGAATTCCGTGAGTTGCACACATAGTGCCTGTACGGTTA
Found at i:976736 original size:160 final size:161
Alignment explanation
Indices: 976427--976870 Score: 551
Period size: 160 Copynumber: 2.8 Consensus size: 161
976417 TTTATTAAGA
* * *
976427 TGCACACGTAGTGCCTATATAG-TAGTTCATCAACTCATGATGAATTCCGTGGGTTTGCACACA-
1 TGCACACATAGTGCCTGTACAGTTA-TTCATCAACTCATGATGAATTCCGTGGGTTTGCACACAG
* **
976490 TAG-TGCCTACTATTATTCATCAACTCATGATGAATTCTGTGAGTTGCACACATAGTGCATATAC
65 TGGTTG--TACGGTTATTCATCAACTCATGATGAATTCTGTGAGTTGCACACATAGTGCATATAC
976554 GGTTATTCATCAACTCATGATGAATT-TCATGAGT
128 GGTTATTCATCAACTCATGATGAATTCT-ATGAGT
* *
976588 TGCACACATAGTGCCTGTACAGTTATTCATCAACTAATGATGAATT-C-TTGGTTTGCACACAGT
1 TGCACACATAGTGCCTGTACAGTTATTCATCAACTCATGATGAATTCCGTGGGTTTGCACACAGT
* ** * ** *
976651 GGTTGTACGGTTATTCATTAACTCATGATGAATTCAATG-GTTTTGTACACATAGTGGTTGTACG
66 GGTTGTACGGTTATTCATCAACTCATGATGAATTC--TGTGAGTTGCACACATAGTGCATATACG
*
976715 GTTATTCATCAACTCATGATGAATTCTGTGAGT
129 GTTATTCATCAACTCATGATGAATTCTATGAGT
* *
976748 TGCACACATAGTGCCTGTACGGTTATTCAGCAACTCATGATGAATTCCGTGGGTTTGCACACATA
1 TGCACACATAGTGCCTGTACAGTTATTCATCAACTCATGATGAATTCCGTGGGTTTGCACAC--A
* * * ***
976813 GTGCTTGTATGGTTACTCATCAACTCATGATGAATTCCACGAGTTGCACACATAGTGC
64 GTGGTTGTACGGTTATTCATCAACTCATGATGAATTCTGTGAGTTGCACACATAGTGC
976871 CTATTTGGTA
Statistics
Matches: 242, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
159 40 0.17
160 95 0.39
161 45 0.19
162 14 0.06
163 14 0.06
164 34 0.14
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (161 bp):
TGCACACATAGTGCCTGTACAGTTATTCATCAACTCATGATGAATTCCGTGGGTTTGCACACAGT
GGTTGTACGGTTATTCATCAACTCATGATGAATTCTGTGAGTTGCACACATAGTGCATATACGGT
TATTCATCAACTCATGATGAATTCTATGAGT
Found at i:976812 original size:109 final size:109
Alignment explanation
Indices: 976452--976872 Score: 559
Period size: 109 Copynumber: 3.9 Consensus size: 109
976442 TATATAGTAG
* * **
976452 TTCATCAACTCATGATGAATTCCGTGGGTTTGCACACATAGTGC--CTACTATTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCATGGGTTTGCACACATAGTGCTTGTACGGTTATTCATCAACT
* *
976515 CATGATGAATTCTGTGAGTTGCACACATAGTGCATATACGGTTA
66 CATGATGAATTCTGTGAGTTGCACACATAGTGCCTGTACGGTTA
* * * *
976559 TTCATCAACTCATGATGAATTTCATGAG-TTGCACACATAGTGCCTGTACAGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCATGGGTTTGCACACATAGTGCTTGTACGGTTATTCATCAACT
* **
976623 AATGATGAATTCT-TG-GTTTGCACAC--AGTGGTTGTACGGTTA
66 CATGATGAATTCTGTGAG-TTGCACACATAGTGCCTGTACGGTTA
* * * * *
976664 TTCATTAACTCATGATGAATTCAATGGTTTTGTACACATAGTGGTTGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCATGGGTTTGCACACATAGTGCTTGTACGGTTATTCATCAACT
976729 CATGATGAATTCTGTGAGTTGCACACATAGTGCCTGTACGGTTA
66 CATGATGAATTCTGTGAGTTGCACACATAGTGCCTGTACGGTTA
* * * *
976773 TTCAGCAACTCATGATGAATTCCGTGGGTTTGCACACATAGTGCTTGTATGGTTACTCATCAACT
1 TTCATCAACTCATGATGAATTCCATGGGTTTGCACACATAGTGCTTGTACGGTTATTCATCAACT
***
976838 CATGATGAATTCCACGAGTTGCACACATAGTGCCT
66 CATGATGAATTCTGTGAGTTGCACACATAGTGCCT
976873 ATTTGGTAAT
Statistics
Matches: 272, Mismatches: 34, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
105 36 0.13
106 60 0.22
107 45 0.17
108 29 0.11
109 102 0.38
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (109 bp):
TTCATCAACTCATGATGAATTCCATGGGTTTGCACACATAGTGCTTGTACGGTTATTCATCAACT
CATGATGAATTCTGTGAGTTGCACACATAGTGCCTGTACGGTTA
Found at i:978569 original size:53 final size:53
Alignment explanation
Indices: 978511--978619 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
978501 CTATGTGTAC
978511 TTTTGGCACTAAGGGTGCATCCATGGAATTCATAATGAGTTTGTGAATTACCA
1 TTTTGGCACTAAGGGTGCATCCATGGAATTCATAATGAGTTTGTGAATTACCA
*
978564 TTTTGGCACTAAGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATTACCA
1 TTTTGGCACTAAGGGTGCATCCATGGAATTCATAATGAGTTTGTGAATTACCA
978617 TTT
1 TTT
978620 CGACACTTAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (53 bp):
TTTTGGCACTAAGGGTGCATCCATGGAATTCATAATGAGTTTGTGAATTACCA
Found at i:980897 original size:54 final size:54
Alignment explanation
Indices: 980815--981161 Score: 502
Period size: 54 Copynumber: 6.4 Consensus size: 54
980805 CTATGTCTAC
980815 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* **
980869 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATTG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
*
980923 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * *
980977 TATCGACATTAAGTGTCCAACCCAC-ATAATTCATAATAAGTTTATGAACGATCG
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
* *
981031 TATCGACACTAAGTGTGCAACCCACGAAATTCATAAAAAGTTTTTGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
** * * * * *
981085 TATTAACACTAAGTGTGCAACCCACAAAATTCACAATGAGCTTATGAATGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
*
981139 TATC-AGCACTACGTGTGC-ACCCA
1 TATCGA-CACTAAGTGTGCAACCCA
981162 AAGAACTTAT
Statistics
Matches: 265, Mismatches: 25, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
53 7 0.03
54 257 0.97
55 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
Found at i:997211 original size:54 final size:54
Alignment explanation
Indices: 997143--997382 Score: 297
Period size: 54 Copynumber: 4.4 Consensus size: 54
997133 ATGTCAGTAC
* *
997143 TATCGGCACTAAGTGTGCAACCCA-CATAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCATGA-AATTCATAATAAGTTTATGAACGACCG
* * *
997197 TATCGACACTAAGTGTGTAACCCATAAAATTCATAATAAGTTTATGAATGACCG
1 TATCGACACTAAGTGTGCAACCCATGAAATTCATAATAAGTTTATGAACGACCG
*
997251 TATCGACACTAAGTGTGCAACCCATGAAATTCATAATAATTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCATGAAATTCATAATAAGTTTATGAACGACCG
* * * * *
997305 TATCCG-CACTAAGTGTAG-AATCCATGAAATTCATAATGAGCTTATGAATGATCG
1 TAT-CGACACTAAGTGT-GCAACCCATGAAATTCATAATAAGTTTATGAACGACCG
* * * *
997359 TATGGGCACTACGTGTGCACCCCA
1 TATCGACACTAAGTGTGCAACCCA
997383 AAGAACTTAT
Statistics
Matches: 163, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
53 2 0.01
54 157 0.96
55 4 0.02
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAACCCATGAAATTCATAATAAGTTTATGAACGACCG
Found at i:997273 original size:108 final size:108
Alignment explanation
Indices: 997143--997382 Score: 333
Period size: 108 Copynumber: 2.2 Consensus size: 108
997133 ATGTCAGTAC
997143 TATCGGCACTAAGTGTGCAACCCA-CATAATTCATAATAAGTTTATGAACGACCGTAT-CGACAC
1 TATCGGCACTAAGTGTGCAACCCATCA-AATTCATAATAAGTTTATGAACGACCGTATCCG-CAC
*
997206 TAAGTGT-GTAACCCATAAAATTCATAATAAGTTTATGAATGACCG
64 TAAGTGTAG-AACCCATAAAATTCATAATAAGCTTATGAATGACCG
* * *
997251 TATCGACACTAAGTGTGCAACCCATGAAATTCATAATAATTTTATGAACGACCGTATCCGCACTA
1 TATCGGCACTAAGTGTGCAACCCATCAAATTCATAATAAGTTTATGAACGACCGTATCCGCACTA
* * * *
997316 AGTGTAGAATCCATGAAATTCATAATGAGCTTATGAATGATCG
66 AGTGTAGAACCCATAAAATTCATAATAAGCTTATGAATGACCG
* * *
997359 TATGGGCACTACGTGTGCACCCCA
1 TATCGGCACTAAGTGTGCAACCCA
997383 AAGAACTTAT
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
108 113 0.97
109 4 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (108 bp):
TATCGGCACTAAGTGTGCAACCCATCAAATTCATAATAAGTTTATGAACGACCGTATCCGCACTA
AGTGTAGAACCCATAAAATTCATAATAAGCTTATGAATGACCG
Found at i:1001561 original size:20 final size:20
Alignment explanation
Indices: 1001482--1001563 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
1001472 AGAACCCCAG
*
1001482 GGGGGTATCGATTCCC-CTA
1 GGGGGAATCGATTCCCTCTA
* *
1001501 TGGGGGAATCGGTTCCCCTTCAAA
1 -GGGGGAATCGATT-CCC-TC-TA
*
1001525 GGGGGAATCGGTTCCCTCTA
1 GGGGGAATCGATTCCCTCTA
*
1001545 GGGGGGATCGATTCCCTCT
1 GGGGGAATCGATTCCCTCT
1001564 GCACCAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
20 29 0.56
21 5 0.10
22 3 0.06
23 14 0.27
24 1 0.02
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCTA
Found at i:1007034 original size:130 final size:130
Alignment explanation
Indices: 1006801--1007062 Score: 524
Period size: 130 Copynumber: 2.0 Consensus size: 130
1006791 ATCTGGAATT
1006801 TTTGGCTTTGAAATGGTTCGAAATACTTTGTAAAATTATTTTGAAATTGTTTTAAGATTAAAACT
1 TTTGGCTTTGAAATGGTTCGAAATACTTTGTAAAATTATTTTGAAATTGTTTTAAGATTAAAACT
1006866 TAATTTTACACTTTGAGTAAGGATTAAAAAATGATCTTTGAAAGATTTGGAGTAATGTTTTGATA
66 TAATTTTACACTTTGAGTAAGGATTAAAAAATGATCTTTGAAAGATTTGGAGTAATGTTTTGATA
1006931 TTTGGCTTTGAAATGGTTCGAAATACTTTGTAAAATTATTTTGAAATTGTTTTAAGATTAAAACT
1 TTTGGCTTTGAAATGGTTCGAAATACTTTGTAAAATTATTTTGAAATTGTTTTAAGATTAAAACT
1006996 TAATTTTACACTTTGAGTAAGGATTAAAAAATGATCTTTGAAAGATTTGGAGTAATGTTTTGATA
66 TAATTTTACACTTTGAGTAAGGATTAAAAAATGATCTTTGAAAGATTTGGAGTAATGTTTTGATA
1007061 TT
1 TT
1007063 CGAATAATTC
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 132 1.00
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (130 bp):
TTTGGCTTTGAAATGGTTCGAAATACTTTGTAAAATTATTTTGAAATTGTTTTAAGATTAAAACT
TAATTTTACACTTTGAGTAAGGATTAAAAAATGATCTTTGAAAGATTTGGAGTAATGTTTTGATA
Found at i:1009033 original size:25 final size:25
Alignment explanation
Indices: 1008999--1009054 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
1008989 GGAAGGGTGA
1008999 TTATGCAAAAAGATAAAGTTGTGGC
1 TTATGCAAAAAGATAAAGTTGTGGC
*
1009024 TTATGCAAAAAGATAAATTTGTGGC
1 TTATGCAAAAAGATAAAGTTGTGGC
*
1009049 ATATGC
1 TTATGC
1009055 CTTGATAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (25 bp):
TTATGCAAAAAGATAAAGTTGTGGC
Found at i:1011709 original size:54 final size:54
Alignment explanation
Indices: 1011625--1012018 Score: 423
Period size: 54 Copynumber: 7.3 Consensus size: 54
1011615 CTATGTGTAT
* * *
1011625 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGA-TCA
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACT-G
* * *
1011679 TATCGACACTAAGTGTGTATCCCACAAAATTCATAATAAGTTTATGAATGACTG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTG
* * * * *** * *
1011733 TATGGGCACTAAGTGTACAATCCATGGAATTCATAAAAATTTTATGAACGACTG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTG
* * *
1011787 TATCAACACTAAGTGTGCAAACCATAAAATTCATAATAAGTTTATGAACGACTG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTG
* * *
1011841 TATCGGCACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTG
* * * * * **
1011895 TATCAACACTAAATGTGCAACCCATAGAACTCATAATAAGTTTATGAACGACCC
1 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTG
* * * * * * *
1011949 TATCTG-CACTAAGTGTACAACCCACAAAATTTATAATGAGCTCATGAATGACCG
1 TATC-GACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTG
* *
1012003 TATCGGCACTACGTGT
1 TATCGACACTAAGTGT
1012019 TCACCCCAAA
Statistics
Matches: 284, Mismatches: 53, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.00
54 282 0.99
55 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTG
Found at i:1011941 original size:162 final size:162
Alignment explanation
Indices: 1011631--1012018 Score: 472
Period size: 162 Copynumber: 2.4 Consensus size: 162
1011621 GTATTATCGG
* * *
1011631 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGA-TCATATCGACACTAAGTGT
1 CACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACT-GTATCGGCACTAAGTGT
* * * * *** * * *
1011695 GTATCCCACAAAATTCATAATAAGTTTATGAATGACTGTATGGGCACTAAGTGTACAATCCATGG
65 GCAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAACACTAAATGTACAACCCATAG
* * **
1011760 AATTCATAAAAATTTTATGAACGACTGTATCAA
130 AACTCATAAAAAGTTTATGAACGACCCTATCAA
* *
1011793 CACTAAGTGTGCAAACCATAAAATTCATAATAAGTTTATGAACGACTGTATCGGCACTAAGTGTG
1 CACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTGTATCGGCACTAAGTGTG
* *
1011858 CAACCCACATAATTCATAATAAGTTTATGAACGACCGTATCAACACTAAATGTGCAACCCATAGA
66 CAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAACACTAAATGTACAACCCATAGA
* **
1011923 ACTCATAATAAGTTTATGAACGACCCTATCTG
131 ACTCATAAAAAGTTTATGAACGACCCTATCAA
* * * * * * * *
1011955 CACTAAGTGTACAACCCACAAAATTTATAATGAGCTCATGAATGACCGTATCGGCACTACGTGT
1 CACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTGTATCGGCACTAAGTGT
1012019 TCACCCCAAA
Statistics
Matches: 191, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
162 190 0.99
163 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (162 bp):
CACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTGTATCGGCACTAAGTGTG
CAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAACACTAAATGTACAACCCATAGA
ACTCATAAAAAGTTTATGAACGACCCTATCAA
Found at i:1012013 original size:108 final size:108
Alignment explanation
Indices: 1011625--1012006 Score: 485
Period size: 108 Copynumber: 3.5 Consensus size: 108
1011615 CTATGTGTAT
* * * * *
1011625 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGATCATATCGACACTA
1 TATCGGCACTAAGTGTACAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAACACTA
* * * *
1011690 AGTGTGTATCCCACAAAATTCATAATAAGTTTATGAATGACTG
66 AGTGTGCAACCCATAAAATTCATAATAAGTTTATGAACGACTG
* * *** * * *
1011733 TATGGGCACTAAGTGTACAATCCATGGAATTCATAAAAATTTTATGAACGACTGTATCAACACTA
1 TATCGGCACTAAGTGTACAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAACACTA
*
1011798 AGTGTGCAAACCATAAAATTCATAATAAGTTTATGAACGACTG
66 AGTGTGCAACCCATAAAATTCATAATAAGTTTATGAACGACTG
* *
1011841 TATCGGCACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGACCGTATCAACACTA
1 TATCGGCACTAAGTGTACAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAACACTA
* * * **
1011906 AATGTGCAACCCATAGAACTCATAATAAGTTTATGAACGACCC
66 AGTGTGCAACCCATAAAATTCATAATAAGTTTATGAACGACTG
* * * * * *
1011949 TATCTGCACTAAGTGTACAACCCACAAAATTTATAATGAGCTCATGAATGACCGTATC
1 TATCGGCACTAAGTGTACAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATC
1012007 GGCACTACGT
Statistics
Matches: 235, Mismatches: 39, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
108 235 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (108 bp):
TATCGGCACTAAGTGTACAACCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAACACTA
AGTGTGCAACCCATAAAATTCATAATAAGTTTATGAACGACTG
Found at i:1012750 original size:22 final size:22
Alignment explanation
Indices: 1012725--1012772 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
1012715 TTCAAGTATC
*
1012725 GACAATGTTTCAAAAGTTATGT
1 GACAATGTTTCAAAAGTCATGT
1012747 GACAATGTTTCAAAAGTCATGT
1 GACAATGTTTCAAAAGTCATGT
1012769 GACA
1 GACA
1012773 TTTGTGACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (22 bp):
GACAATGTTTCAAAAGTCATGT
Found at i:1016059 original size:65 final size:64
Alignment explanation
Indices: 1015930--1016060 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 64
1015920 TGAAGATAAT
1015930 TCAAGACAATCTCAAGATGACCTCTGATCGAAAAAGTCTTATGCTGATCTAAAGAGAAAAGATA
1 TCAAGACAATCTCAAGATGACCTCTGATCGAAAAAGTCTTATGCTGATCTAAAGAGAAAAGATA
1015994 TCAAGACAATCTCAAGATGACCTCTGATCGAAAAAAGTCTTATGCTGATCTAAAGAGAAAAGATA
1 TCAAGACAATCTCAAGATGACCTCTGATCG-AAAAAGTCTTATGCTGATCTAAAGAGAAAAGATA
1016059 TC
1 TC
1016061 CGATAAGATT
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
64 30 0.45
65 36 0.55
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (64 bp):
TCAAGACAATCTCAAGATGACCTCTGATCGAAAAAGTCTTATGCTGATCTAAAGAGAAAAGATA
Found at i:1020097 original size:19 final size:19
Alignment explanation
Indices: 1020073--1020120 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
1020063 GATGCAAGTA
1020073 GTATCGATACTGATTGGAG
1 GTATCGATACTGATTGGAG
1020092 GTATCGATACTGATTGGAG
1 GTATCGATACTGATTGGAG
*
1020111 GTATAGATAC
1 GTATCGATAC
1020121 CATGAAGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.31
Consensus pattern (19 bp):
GTATCGATACTGATTGGAG
Found at i:1020658 original size:54 final size:54
Alignment explanation
Indices: 1020576--1021016 Score: 541
Period size: 54 Copynumber: 8.2 Consensus size: 54
1020566 TTATCGCTAT
* *
1020576 TAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACTGTAACAGCAC
1 TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATCAGCAC
1020630 TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGA-TCGTATCAGCAC
1 TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACT-GTATCAGCAC
* * *
1020684 TATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATGACCGTATC-GACAC
1 TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATCAG-CAC
* **
1020738 TAAGTGTTCAACCCATAGAATTCATAATAAGTTTATGAACGACTGTATCAGCAC
1 TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATCAGCAC
* *
1020792 TAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCAGCAC
1 TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATCAGCAC
* * ** * * * *
1020846 T-AGTTTGTAACCCACATAATTGATAATAAGTTTATGAACGA-TCGTATCGGAAT
1 TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACT-GTATCAGCAC
* ** *
1020899 TAAGTGTGCAACCAACATAATTCATAATAAGTTTATGAACGACCGTATC-GTCAC
1 TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATCAG-CAC
* ** * * * *
1020953 TAAGTGTGCAACCCACGAAATTCATAATAAACTCATGAATGACCGTATCGGCAC
1 TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATCAGCAC
*
1021007 TATGTGTGCA
1 TAAGTGTGCA
1021017 CCCCTAAGAA
Statistics
Matches: 338, Mismatches: 40, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
53 46 0.14
54 290 0.86
55 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (54 bp):
TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATCAGCAC
Found at i:1020948 original size:215 final size:216
Alignment explanation
Indices: 1020576--1021016 Score: 616
Period size: 215 Copynumber: 2.0 Consensus size: 216
1020566 TTATCGCTAT
* * *
1020576 TAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACTGTAACAGCACTAAGTGTGCAA
1 TAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAACAGCACTAAGTGTGCAA
* * * * *
1020641 CCCACGGAATTCATAATAAGTTTATGAACGATCGTATCAGCACTATGTGTGCAACCCACGGAATT
66 CCCACAGAATTCATAATAAGTTTATGAACGATCGTATCAGAACTAAGTGTGCAACCAACAGAATT
* * **
1020706 CATAATAAGTTTATGAATGACCGTATCGACACTAAGTGTTCAACCCATAG-AATTCATAATAAGT
131 CATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCA-AGAAATTCATAATAAAC
* *
1020770 TTATGAACGACTGTATCAGCAC
195 TCATGAACGACCGTATCAGCAC
* * *
1020792 TAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCAGCACT-AGTTTGTAA
1 TAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAACAGCACTAAGTGTGCAA
* * * * *
1020856 CCCACATAATTGATAATAAGTTTATGAACGATCGTATCGGAATTAAGTGTGCAACCAACATAATT
66 CCCACAGAATTCATAATAAGTTTATGAACGATCGTATCAGAACTAAGTGTGCAACCAACAGAATT
* *
1020921 CATAATAAGTTTATGAACGACCGTATCGTCACTAAGTGTGCAACCCACGAAATTCATAATAAACT
131 CATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCAAGAAATTCATAATAAACT
* *
1020986 CATGAATGACCGTATCGGCAC
196 CATGAACGACCGTATCAGCAC
*
1021007 TATGTGTGCA
1 TAAGTGTGCA
1021017 CCCCTAAGAA
Statistics
Matches: 197, Mismatches: 27, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
214 1 0.01
215 145 0.74
216 51 0.26
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (216 bp):
TAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTAACAGCACTAAGTGTGCAA
CCCACAGAATTCATAATAAGTTTATGAACGATCGTATCAGAACTAAGTGTGCAACCAACAGAATT
CATAATAAGTTTATGAACGACCGTATCGACACTAAGTGTGCAACCCAAGAAATTCATAATAAACT
CATGAACGACCGTATCAGCAC
Found at i:1023353 original size:15 final size:17
Alignment explanation
Indices: 1023335--1023371 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1023325 ATTAAAAGAG
*
1023335 TTCATT-GATCAAG-GT
1 TTCATTAGACCAAGTGT
1023350 TTCATTAGACCAAGTGT
1 TTCATTAGACCAAGTGT
1023367 TTCAT
1 TTCAT
1023372 CTTGGAACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 6 0.32
17 7 0.37
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (17 bp):
TTCATTAGACCAAGTGT
Found at i:1026577 original size:54 final size:53
Alignment explanation
Indices: 1026490--1026924 Score: 555
Period size: 54 Copynumber: 8.1 Consensus size: 53
1026480 CTAGGTGTAT
*
1026490 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGATCG
1 TATC-GCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
** * *
1026544 TATCAGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACAATCG
1 TATC-GCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * *
1026598 TATCAGCTCTAAGTGTGCAAACCATGGAATTCATAATAAGTTTATGAACGACCG
1 TATC-GCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * **
1026652 TATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAATTTATGAACGACTA
1 TATCG-CACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
1026706 TATCGACACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
1 TATCG-CACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* ** *
1026760 TATTAGCACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAACGACTG
1 TA-TCGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * * * *
1026814 TATCGACATTAAGTATGCAACCCACGTAATTCATAATAAGTTTTTGAACGGCTG
1 TATCG-CACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * * *
1026868 TATCGTCACTAAGTGTTCAACCCACGAAATTCATAATGAGCTTATGAATGACCG
1 TATCG-CACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
1026922 TAT
1 TAT
1026925 TAGCACTACT
Statistics
Matches: 337, Mismatches: 41, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
53 3 0.01
54 332 0.99
55 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (53 bp):
TATCGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
Found at i:1026774 original size:162 final size:162
Alignment explanation
Indices: 1026490--1026932 Score: 629
Period size: 162 Copynumber: 2.7 Consensus size: 162
1026480 CTAGGTGTAT
*
1026490 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGA-TCGTATC-AGCAC
1 TATCGACACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACT-GTATCGA-CAC
* * * * *
1026553 TAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACAATCGTATCAGCTCTAAGTGTGCAA
64 TAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATTAGCACTAAGTGTGCAA
**
1026618 ACCATGGAATTCATAATAAGTTTATGAACGACCG
129 ACCACAGAATTCATAATAAGTTTATGAACGACCG
* * *
1026652 TATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAATTTATGAACGACTATATCGACACTA
1 TATCGACACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATCGACACTA
* *
1026717 AGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATTAGCACTAAGTGTGCAACC
66 AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATTAGCACTAAGTGTGCAAAC
* *
1026782 CACATAATTCATAATAAGTTTATGAACGACTG
131 CACAGAATTCATAATAAGTTTATGAACGACCG
* * * * * *
1026814 TATCGACATTAAGTATGCAACCCACGTAATTCATAATAAGTTTTTGAACGGCTGTATCGTCACTA
1 TATCGACACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATCGACACTA
* * * *
1026879 AGTGTTCAACCCACGAAATTCATAATGAGCTTATGAATGACCGTATTAGCACTA
66 AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATTAGCACTA
1026933 CTTGTTCACC
Statistics
Matches: 250, Mismatches: 29, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
162 248 0.99
163 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (162 bp):
TATCGACACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATCGACACTA
AGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATTAGCACTAAGTGTGCAAAC
CACAGAATTCATAATAAGTTTATGAACGACCG
Found at i:1031551 original size:20 final size:20
Alignment explanation
Indices: 1031528--1031579 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1031518 ACTGATGTGG
1031528 AGGTATCGATACCAGGAAGA
1 AGGTATCGATACCAGGAAGA
1031548 AGGTATCGATACCAGGAAGA
1 AGGTATCGATACCAGGAAGA
1031568 AGGTATCGATAC
1 AGGTATCGATAC
1031580 TGTGTTTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.17
Consensus pattern (20 bp):
AGGTATCGATACCAGGAAGA
Found at i:1032333 original size:54 final size:54
Alignment explanation
Indices: 1031955--1032312 Score: 464
Period size: 54 Copynumber: 6.6 Consensus size: 54
1031945 TGTATATTAC
* * *
1031955 CGGCACTAAGTGTGCAACCCACGGAATACATAATAAGTTTATGAACGGCCTTAT
1 CGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTAT
* * * *
1032009 CAGTACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAATGACCGTAT
1 CGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTAT
* * * **
1032063 CGACACTAAGTGTTCAACCCATGGAATTCATAATAAGTTTATGAACGACTATAT
1 CGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTAT
* * *
1032117 CGACACTAAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAACGATCGTAT
1 CGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTAT
* *** * *
1032171 CGGCACTAAGTGTGCAACACATATAATTCATAATAAGTTTATGAAAGGCCGTAT
1 CGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTAT
* * * * *
1032225 TGGCATTAAGTGCGCAACCTACGGAATTCATAATAAGTTTATGAACGACTGTAT
1 CGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTAT
* *
1032279 CGGTACTAAGTGTGCAACCCACAGAATTCATAAT
1 CGGCACTAAGTGTGCAACCCACGGAATTCATAAT
1032313 TAACTTATGA
Statistics
Matches: 258, Mismatches: 46, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 258 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (54 bp):
CGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTAT
Found at i:1036390 original size:54 final size:54
Alignment explanation
Indices: 1036321--1036557 Score: 379
Period size: 54 Copynumber: 4.4 Consensus size: 54
1036311 TATAAATAGT
* *
1036321 TTGCACAC-TCAGTGCCAATACAAAAATTCATAAACTTATTATGAATTTCTTAAG
1 TTGCACACAT-AGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAG
* *
1036375 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATAAATTTCATAAG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAG
*
1036429 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAG
* * *
1036483 TTACACACATAGTGCCAATATGGAAATTCAT-AACTCATTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAG
1036536 TTGCACACATAGTGCCAATACG
1 TTGCACACATAGTGCCAATACG
1036558 GTTATCATCT
Statistics
Matches: 171, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
53 42 0.25
54 128 0.75
55 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.31
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAAG
Found at i:1039787 original size:20 final size:20
Alignment explanation
Indices: 1039762--1039812 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1039752 GGAATCAATG
1039762 GTATCGATACCTTTCTCATA
1 GTATCGATACCTTTCTCATA
** *
1039782 GTATCGATGTCTTTCTTATA
1 GTATCGATACCTTTCTCATA
1039802 GTATCGATACC
1 GTATCGATACC
1039813 CACCTCAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (20 bp):
GTATCGATACCTTTCTCATA
Found at i:1045885 original size:54 final size:54
Alignment explanation
Indices: 1045827--1046115 Score: 452
Period size: 54 Copynumber: 5.4 Consensus size: 54
1045817 ATTAAGTAGT
** * *
1045827 TTGCACACCCAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
*
1045881 TTGCACACATAGTGCCAATATGGAAATTCATAAACTCATTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
* ** *
1045935 TTGTACACATAGTGCCAATAAAGAAATTCATAAACTCATTATGAATTTCATAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
* *
1045989 TTGCACACATAATGCCAATACGGAAATTCATACACTCATTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
* *
1046043 TTGCAAAAATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
*
1046097 TTGCACACATAGTGTCAAT
1 TTGCACACATAGTGCCAAT
1046116 CGGTAATCAC
Statistics
Matches: 213, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 213 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
Found at i:1051864 original size:57 final size:56
Alignment explanation
Indices: 1051785--1051946 Score: 182
Period size: 57 Copynumber: 2.8 Consensus size: 56
1051775 AACTCTCCTA
* *
1051785 CAATATTTCTAC-AAAGTATTACTTCCCATAGAGATGAAAATGATCGATACTCTTATG
1 CAATACTTCTACAAAAG-ATTACTTCCCAT-GAGATGAAAATGATCGATACTATTATG
* * * * *
1051842 CAATACTTCTAGAAAAGATTACTTCCCATGAAGATAAAAATGATCGGTATTATTCTG
1 CAATACTTCTACAAAAGATTACTTCCCATG-AGATGAAAATGATCGATACTATTATG
* * * *
1051899 TAATATTTCTACAAAGGATTACTTCCCATTGAGAAGAAAATGATCGAT
1 CAATACTTCTACAAAAGATTACTTCCCA-TGAGATGAAAATGATCGAT
1051947 GCATCAAGAA
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
56 1 0.01
57 81 0.92
58 6 0.07
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (56 bp):
CAATACTTCTACAAAAGATTACTTCCCATGAGATGAAAATGATCGATACTATTATG
Found at i:1053035 original size:57 final size:56
Alignment explanation
Indices: 1052956--1053117 Score: 182
Period size: 57 Copynumber: 2.8 Consensus size: 56
1052946 AACTCTCCTA
* *
1052956 CAATATTTCTAC-AAAGTATTACTTCCCATAGAGATGAAAATGATCGATACTCTTATG
1 CAATACTTCTACAAAAG-ATTACTTCCCAT-GAGATGAAAATGATCGATACTATTATG
* * * * *
1053013 CAATACTTCTAGAAAAGATTACTTCCCATGAAGATAAAAATGATCGGTATTATTCTG
1 CAATACTTCTACAAAAGATTACTTCCCATG-AGATGAAAATGATCGATACTATTATG
* * * *
1053070 TAATATTTCTACAAAGGATTACTTCCCATGGAGAAGAAAATGATCGAT
1 CAATACTTCTACAAAAGATTACTTCCCAT-GAGATGAAAATGATCGAT
1053118 GCATCAAGAA
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
56 1 0.01
57 82 0.93
58 5 0.06
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (56 bp):
CAATACTTCTACAAAAGATTACTTCCCATGAGATGAAAATGATCGATACTATTATG
Found at i:1059600 original size:23 final size:23
Alignment explanation
Indices: 1059539--1059600 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
1059529 ATAGGGCAGA
* * *
1059539 GGGAATCGATACCCCC-TTGCAG
1 GGGAACCGATTCCCCCTTTGAAG
*
1059561 GGGAACTGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
1059584 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
1059601 AGGGGAATCG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 13 0.38
23 21 0.62
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:1059624 original size:19 final size:19
Alignment explanation
Indices: 1059582--1059618 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1059572 CCCCCTTTGA
*
1059582 AGGGGAACCGATTCCCCCT
1 AGGGGAACCGATACCCCCT
*
1059601 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
1059619 ATGGGGTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.35, G:0.27, T:0.14
Consensus pattern (19 bp):
AGGGGAACCGATACCCCCT
Found at i:1063735 original size:18 final size:18
Alignment explanation
Indices: 1063706--1063755 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
1063696 ACCCATTTTA
1063706 TTATTT-TTTATTTTATT
1 TTATTTATTTATTTTATT
1063723 TTATTTATTTA-TTTATT
1 TTATTTATTTATTTTATT
1063740 TT-TGGTTATTTATTTT
1 TTAT--TTATTTATTTT
1063756 TCTTTATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 1 0.03
17 14 0.48
18 11 0.38
19 3 0.10
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (18 bp):
TTATTTATTTATTTTATT
Found at i:1063762 original size:14 final size:14
Alignment explanation
Indices: 1063710--1063762 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
1063700 ATTTTATTAT
1063710 TTTTTATTTTATTT-
1 TTTTTA-TTTATTTA
*
1063724 TATTTATTTATTTA
1 TTTTTATTTATTTA
**
1063738 TTTTTGGTTATTTA
1 TTTTTATTTATTTA
*
1063752 TTTTTCTTTAT
1 TTTTTATTTAT
1063763 ATTTTTAGGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 7 0.22
14 25 0.78
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:1064073 original size:19 final size:19
Alignment explanation
Indices: 1064032--1064074 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1064022 AAATTTTTGT
* *
1064032 TGAATATCTTGAGTTTCGT
1 TGAATATCTTGAATTTCGA
1064051 TGAATATCTTAGAATTTC-A
1 TGAATATCTT-GAATTTCGA
1064070 TGAAT
1 TGAAT
1064075 GTTTTGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (19 bp):
TGAATATCTTGAATTTCGA
Found at i:1065791 original size:49 final size:49
Alignment explanation
Indices: 1065733--1066002 Score: 257
Period size: 49 Copynumber: 5.6 Consensus size: 49
1065723 ACTGCTCTAG
* ** *
1065733 AATGAAAGTTAAATGCAGAATGGTGTGTTTTTTGTAGAAAGGTGCCACT
1 AATGCAAGTTAAATGCAGAATGGTGCATTTTTGGTAGAAAGGTGCCACT
* * *
1065782 AATGCAAGTTAAATGCAGAATGGTGCATTTTTGGCAGAAATGAGCCACT
1 AATGCAAGTTAAATGCAGAATGGTGCATTTTTGGTAGAAAGGTGCCACT
* * * **
1065831 AATACAAGTTAAATGCAGAATGGTGCATTTCTT-GTATAAAAGTATCACT
1 AATGCAAGTTAAATGCAGAATGGTGCATTT-TTGGTAGAAAGGTGCCACT
* * * * *
1065880 AATGCAAGTTAAATGCATAAT-G-G---TTTTAGCATAAATGTGCCACT
1 AATGCAAGTTAAATGCAGAATGGTGCATTTTTGGTAGAAAGGTGCCACT
* * ** *
1065924 AATGCCAGTAAAATGCTTAAAGGTGCATTTTTGGTAGAAAGG-GTCCACT
1 AATGCAAGTTAAATGCAGAATGGTGCATTTTTGGTAGAAAGGTG-CCACT
* *
1065973 AATGCAAGTTAAATGCATAACGGTGCATTT
1 AATGCAAGTTAAATGCAGAATGGTGCATTT
1066003 CGGCATAAAA
Statistics
Matches: 181, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
43 2 0.01
44 31 0.17
45 1 0.01
46 1 0.01
47 1 0.01
48 2 0.01
49 141 0.78
50 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
AATGCAAGTTAAATGCAGAATGGTGCATTTTTGGTAGAAAGGTGCCACT
Found at i:1065973 original size:93 final size:95
Alignment explanation
Indices: 1065738--1066002 Score: 268
Period size: 93 Copynumber: 2.8 Consensus size: 95
1065728 TCTAGAATGA
* * ** * *
1065738 AAGTTAAATGCAGAATGGTGTGTTTTTTGTAGAAAGGTGCCACTAATGCAAGTTAAATGCAGAAT
1 AAGTAAAATGCAGAAAGGTG-CATTTTTGTAGAAAGGTACCACTAATGCAAGTTAAATGCATAAT
*
1065803 GGTGCATTTTTGGCAGAAATGAGCCACTAATAC
65 GGTG-A-TTTTAGCAGAAATGAGCCACTAATAC
* * * * *
1065836 AAGTTAAATGCAGAATGGTGCATTTCTTGTATAAAAGTATCACTAATGCAAGTTAAATGCATAAT
1 AAGTAAAATGCAGAAAGGTGCATTT-TTGTAGAAAGGTACCACTAATGCAAGTTAAATGCATAAT
* * *
1065901 -G-G-TTTTAGCATAAATGTGCCACTAATGC
65 GGTGATTTTAGCAGAAATGAGCCACTAATAC
* **
1065929 CAGTAAAATGCTTAAAGGTGCATTTTTGGTAGAAAGGGT-CCACTAATGCAAGTTAAATGCATAA
1 AAGTAAAATGCAGAAAGGTGCATTTTT-GTAGAAA-GGTACCACTAATGCAAGTTAAATGCATAA
*
1065993 CGGTGCATTT
64 TGGTG-ATTT
1066003 CGGCATAAAA
Statistics
Matches: 140, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
92 2 0.01
93 72 0.51
94 3 0.02
95 1 0.01
96 1 0.01
97 7 0.05
98 54 0.39
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.31
Consensus pattern (95 bp):
AAGTAAAATGCAGAAAGGTGCATTTTTGTAGAAAGGTACCACTAATGCAAGTTAAATGCATAATG
GTGATTTTAGCAGAAATGAGCCACTAATAC
Found at i:1068442 original size:14 final size:14
Alignment explanation
Indices: 1068410--1068447 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1068400 TTATTTTACC
*
1068410 ATTATTT-TTATTT
1 ATTATTTATTTTTT
*
1068423 AGTATTTATTTTTT
1 ATTATTTATTTTTT
1068437 ATTATTTATTT
1 ATTATTTATTT
1068448 ACTTTCATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
ATTATTTATTTTTT
Found at i:1075660 original size:17 final size:17
Alignment explanation
Indices: 1075622--1075653 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1075612 TATAGCCAAC
1075622 AAAATTTCACTATTCAT
1 AAAATTTCACTATTCAT
1075639 AAAATTT-ACTATTCA
1 AAAATTTCACTATTCA
1075654 CGTAAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATTTCACTATTCAT
Found at i:1076732 original size:27 final size:29
Alignment explanation
Indices: 1076702--1076757 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 29
1076692 ATTACACGTA
1076702 TGATTATATATCTATT-ATTTT-TTATTT
1 TGATTATATATCTATTAATTTTATTATTT
*
1076729 TGATTATCTATCTATTAATTTTATTATTT
1 TGATTATATATCTATTAATTTTATTATTT
1076758 AATTATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 15 0.58
28 5 0.19
29 6 0.23
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (29 bp):
TGATTATATATCTATTAATTTTATTATTT
Found at i:1077063 original size:26 final size:25
Alignment explanation
Indices: 1077026--1077114 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 25
1077016 AATATTTTAA
1077026 AATTAATATATTTTTTATAATAAATA-
1 AATTAAT-TATTTTTTA-AATAAATAT
*
1077052 ATATTAATTATTATATTAAATAAATAT
1 A-ATTAATTATT-TTTTAAATAAATAT
* *
1077079 AATTAATCATTTTATAAAATTACAATAT
1 AATTAATTATTTT-TTAAA-TA-AATAT
*
1077107 AAATAATT
1 AATTAATT
1077115 TATATAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
25 1 0.02
26 26 0.51
27 13 0.25
28 11 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
AATTAATTATTTTTTAAATAAATAT
Found at i:1077065 original size:22 final size:22
Alignment explanation
Indices: 1077025--1077083 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
1077015 TAATATTTTA
* * *
1077025 AAATTAATATATTTTTTATAAT
1 AAATAAATATAATTATTATAAT
*
1077047 AAAT-AATATTAATTATTATATT
1 AAATAAATA-TAATTATTATAAT
1077069 AAATAAATATAATTA
1 AAATAAATATAATTA
1077084 ATCATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 4 0.12
22 24 0.75
23 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATAAATATAATTATTATAAT
Found at i:1080434 original size:116 final size:116
Alignment explanation
Indices: 1080230--1081348 Score: 1758
Period size: 116 Copynumber: 9.7 Consensus size: 116
1080220 TACTATTCAC
* *
1080230 GTGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATTGCCCTA
1 GTGAAGACGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
1080295 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGAACCCAAAGTG
66 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAGTG
*
1080346 GTGAAGACGCGTTCCTGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 GTGAAGACGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
1080411 TTATGTCACTCATGTCCCTCGGGGACACTATTCATGTCA-TAACCCAAAGTG
66 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGT-ACCCAAAGTG
* * * * *
1080462 GTGAAGGCGCGTTCCCAGGGGGCGTCTTCCATTATTTTGTAAAAGAATATGTTATCATTGCCCTA
1 GTGAAGACGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1080527 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCA-TAACCCAAAGTG
66 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGT-ACCCAAAGTG
* * *
1080578 GTGAAGGCGCGTTCCCGGGGGGTGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTGCCCTA
1 GTGAAGACGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
1080643 TTATGTCACTCATGTCCCTCAGGGGCACTATTCATGTCAGTTCCCAAAGTG
66 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAGTG
* *
1080694 GTGAA-A-GCATGTTCCCGGGGGGCGCTTTCTATTATTTTGTCAGAGAATATGTTATCATTGCCC
1 GTGAAGACGC--GTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
1080757 TATTATGTCACTCATGTCCCTC-GGGGCACTATTCATGTCAGTACCCAAAGTG
64 TATTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAGTG
* * * *
1080809 GTAAAGGCGAGTTCCCGGGGGGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 GTGAAGACGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
1080874 TTATGTCAATCATGTCCCTCGGGGGCACTATTCATTTCAGTACCCAAAGTG
66 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAGTG
* *
1080925 GTGAAGGCGCGTT-CCTGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 GTGAAGACGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
1080989 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATTTCAGTACCCAAAGTG
66 TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAGTG
* *
1081040 GTGAA-AGCACGTTCCCGGGGGGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 GTGAAGA-CGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
*
1081104 ATTATATCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAGTG
65 ATTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAGTG
* * *
1081156 GTAAAGGA-GCGTTCCCGGGGGGCACCTTCCATTAGTTTGTCAGAGAATATGTTAT-ATTGCCCT
1 GTGAA-GACGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* *
1081219 ATTATGTCACTTATGTCCCTC-GGGGCACTATTCATATCAGTACCCAAAGTG
65 ATTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAGTG
* * *
1081270 GTGAA-AGTGCGTTCCC-GTGGGCGCCATCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 GTGAAGA-CGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1081333 ATTATGTCACTCATGT
65 ATTATGTCACTCATGT
1081349 GAAATTGGAT
Statistics
Matches: 931, Mismatches: 58, Indels: 30
0.91 0.06 0.03
Matches are distributed among these distances:
112 1 0.00
113 34 0.04
114 66 0.07
115 240 0.26
116 587 0.63
117 2 0.00
118 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (116 bp):
GTGAAGACGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCCAAAGTG
Found at i:1081419 original size:23 final size:23
Alignment explanation
Indices: 1081393--1081455 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1081383 ATGTGAAGTT
*
1081393 TGAAAAAATTGGATAAAATATTA
1 TGAATAAATTGGATAAAATATTA
*
1081416 TGAATAAATTGGATAAAATGTTA
1 TGAATAAATTGGATAAAATATTA
* *
1081439 TGGATAAATTGAATAAA
1 TGAATAAATTGGATAAA
1081456 TGTTAAGTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (23 bp):
TGAATAAATTGGATAAAATATTA
Found at i:1081515 original size:63 final size:63
Alignment explanation
Indices: 1081416--1081540 Score: 196
Period size: 63 Copynumber: 2.0 Consensus size: 63
1081406 TAAAATATTA
* * * * *
1081416 TGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTTAAGTGATCAGTTGGTTGTT
1 TGAATAAATTGGATAAAATGTTATGGACAAATTGAATAAATATGAAGTGATAAGTTAGTTGTT
*
1081479 TGAATATATTGGATAAAATGTTATGGACAAATTGAATAAATATGAAGTGATAAGTTAGTTGT
1 TGAATAAATTGGATAAAATGTTATGGACAAATTGAATAAATATGAAGTGATAAGTTAGTTGT
1081541 GAGCATGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (63 bp):
TGAATAAATTGGATAAAATGTTATGGACAAATTGAATAAATATGAAGTGATAAGTTAGTTGTT
Found at i:1081625 original size:14 final size:14
Alignment explanation
Indices: 1081606--1081650 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
1081596 GGATAAGTTG
*
1081606 GTTTTAAAGTATAT
1 GTTTTAATGTATAT
1081620 GTTTTAATGTATAT
1 GTTTTAATGTATAT
1081634 GTTTTAATGTATAT
1 GTTTTAATGTATAT
1081648 GTT
1 GTT
1081651 AAAGATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.56
Consensus pattern (14 bp):
GTTTTAATGTATAT
Found at i:1082372 original size:21 final size:21
Alignment explanation
Indices: 1082305--1082374 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
1082295 GGTGTCATAA
*
1082305 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
1082326 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
1082347 AACCCTGAGGGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
1082368 AACCCTG
1 AACCCTG
1082375 TGGAGATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.07
21 39 0.87
22 3 0.07
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.19
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:1084230 original size:17 final size:17
Alignment explanation
Indices: 1084177--1084232 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
1084167 ATTTAAATAA
*
1084177 ATAATAATTATATAAAT
1 ATAATATTTATATAAAT
* *
1084194 ATTAT-TTTA-ATAAAAA
1 ATAATATTTATAT-AAAT
1084210 ATAATATTTATATAAAT
1 ATAATATTTATATAAAT
1084227 ATAATA
1 ATAATA
1084233 ATAAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 2 0.06
16 10 0.32
17 17 0.55
18 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATATTTATATAAAT
Found at i:1084235 original size:30 final size:32
Alignment explanation
Indices: 1084170--1084242 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 32
1084160 TTAATTAATT
*
1084170 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAATAATTATATAAATATTA-TATAA
*
1084204 TAAAAAATAATATTTATATAAATA-TA-ATAA
1 TAAAAAATAATAATTATATAAATATTATATAA
1084234 TAAAAAATA
1 TAAAAAATA
1084243 TAACAACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 12 0.32
32 2 0.05
33 19 0.51
34 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
TAAAAAATAATAATTATATAAATATTATATAA
Found at i:1084974 original size:47 final size:47
Alignment explanation
Indices: 1084903--1084992 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
1084893 TTGTACAATA
1084903 GGATAGCTCCCAAGCAATCAAGATGTTGGTTGATGAAGACCCTAATC
1 GGATAGCTCCCAAGCAATCAAGATGTTGGTTGATGAAGACCCTAATC
*
1084950 GGATAGCTCCCAAGCAATCGAGATGTTGGTTGATGAAGACCCT
1 GGATAGCTCCCAAGCAATCAAGATGTTGGTTGATGAAGACCCT
1084993 GCTCGAAGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (47 bp):
GGATAGCTCCCAAGCAATCAAGATGTTGGTTGATGAAGACCCTAATC
Found at i:1089849 original size:157 final size:157
Alignment explanation
Indices: 1089563--1089877 Score: 621
Period size: 157 Copynumber: 2.0 Consensus size: 157
1089553 ACAGTTCATC
1089563 ACAAACTGAAAAGTAAAAGAAAAGAAAGTCTATTAGCATACTGAACAATAAAGCCGGTGCTTCTG
1 ACAAACTGAAAAGTAAAAGAAAAGAAAGTCTATTAGCATACTGAACAATAAAGCCGGTGCTTCTG
*
1089628 AATATGAAGCTCGTTTTCACATGAGCATGATGGATCATAGGGGTATATAAATGAGCATCAGAAGT
66 AATAAGAAGCTCGTTTTCACATGAGCATGATGGATCATAGGGGTATATAAATGAGCATCAGAAGT
1089693 GATGGAAAACAAACGGGATAGTCGAAA
131 GATGGAAAACAAACGGGATAGTCGAAA
1089720 ACAAACTGAAAAGTAAAAGAAAAGAAAGTCTATTAGCATACTGAACAATAAAGCCGGTGCTTCTG
1 ACAAACTGAAAAGTAAAAGAAAAGAAAGTCTATTAGCATACTGAACAATAAAGCCGGTGCTTCTG
1089785 AATAAGAAGCTCGTTTTCACATGAGCATGATGGATCATAGGGGTATATAAATGAGCATCAGAAGT
66 AATAAGAAGCTCGTTTTCACATGAGCATGATGGATCATAGGGGTATATAAATGAGCATCAGAAGT
1089850 GATGGAAAACAAACGGGATAGTCGAAA
131 GATGGAAAACAAACGGGATAGTCGAAA
1089877 A
1 A
1089878 AGATCGGAAT
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (157 bp):
ACAAACTGAAAAGTAAAAGAAAAGAAAGTCTATTAGCATACTGAACAATAAAGCCGGTGCTTCTG
AATAAGAAGCTCGTTTTCACATGAGCATGATGGATCATAGGGGTATATAAATGAGCATCAGAAGT
GATGGAAAACAAACGGGATAGTCGAAA
Found at i:1093089 original size:2 final size:2
Alignment explanation
Indices: 1093084--1093114 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1093074 TTAAAAAAAA
1093084 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1093115 AGACTAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1093148 original size:12 final size:12
Alignment explanation
Indices: 1093131--1093224 Score: 76
Period size: 12 Copynumber: 8.1 Consensus size: 12
1093121 AGATAAAAAT
1093131 AATAATAATTAA
1 AATAATAATTAA
*
1093143 AGTAATAATTAA
1 AATAATAATTAA
1093155 AAT-AT-ATTAA
1 AATAATAATTAA
1093165 AAGTAATAA-TAA
1 AA-TAATAATTAA
1093177 AATAAT-ATTACA
1 AATAATAATTA-A
*
1093189 AATAAATAA-T-G
1 AAT-AATAATTAA
1093200 AATAA-AATTAA
1 AATAATAATTAA
*
1093211 AATTATAATATAA
1 AATAATAAT-TAA
1093224 A
1 A
1093225 CACACTTTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 21
0.72 0.05 0.23
Matches are distributed among these distances:
9 2 0.03
10 11 0.17
11 16 0.24
12 27 0.41
13 9 0.14
14 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (12 bp):
AATAATAATTAA
Found at i:1093171 original size:23 final size:22
Alignment explanation
Indices: 1093128--1093186 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 22
1093118 CTAAGATAAA
1093128 AATAATAATA-ATT-AAAGTAAT
1 AATAA-AATATATTAAAAGTAAT
1093149 AATTAAAATATATTAAAAGTAAT
1 AA-TAAAATATATTAAAAGTAAT
1093172 AATAAAATAATATTA
1 AATAAAAT-ATATTA
1093187 CAAATAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.18
22 12 0.35
23 16 0.47
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (22 bp):
AATAAAATATATTAAAAGTAAT
Found at i:1094841 original size:3 final size:3
Alignment explanation
Indices: 1094833--1094870 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
1094823 ATATATATAT
1094833 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1094871 AATGAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1094857 original size:17 final size:17
Alignment explanation
Indices: 1094835--1094869 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1094825 ATATATATTA
1094835 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
1094852 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
1094869 A
1 A
1094870 AAATGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:1094858 original size:20 final size:20
Alignment explanation
Indices: 1094833--1094870 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1094823 ATATATATAT
1094833 TAATAATAATAATAATAATA
1 TAATAATAATAATAATAATA
1094853 TAATAATAATAATAATAA
1 TAATAATAATAATAATAA
1094871 AATGAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAATAATAATAATAATAATA
Found at i:1095114 original size:46 final size:46
Alignment explanation
Indices: 1094996--1096322 Score: 2196
Period size: 46 Copynumber: 28.8 Consensus size: 46
1094986 GATGGAAATG
* *
1094996 TTGAAAACATCATCCACTGAAGGACTTACAGATGACCCAAAGG-TT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* * *
1095041 TTGAAAACATCATGCACTGAAGGGCTTATAGATGACCTGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* * * **
1095087 TGGAAAACATCATGCACTGAAACG-CTTACAGATAACCTAAAGGTTTT
1 TTGAAAACATCATGCACTG-AAGGACTTACAGATGACCCGAAGG-TTT
* *
1095134 TTGAAAACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTT
*
1095181 TTAAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1095227 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1095273 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* *
1095319 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAAGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
*
1095365 TTGAAAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGTTTTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG---TTT
1095414 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* *
1095460 TTGAAAACATCATGCACTAAAGGACTTATAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1095506 TTGAAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
*
1095551 TT-AAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
*
1095596 TTAAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* * *
1095642 TTGAAAACATCATGCACTGAAAGACTTACAGATGACCCAAATGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1095688 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1095734 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
**
1095780 TTGAAAACATCATGCACTGAAGGACTTACAGATGACTTGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* *
1095826 TTGAAAACATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTT
1095873 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
*
1095919 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1095965 TTGAAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
** **
1096010 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCTAAAATTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* * *
1096056 TTGAAAACATCATGAATTGAAGGACTTACAGATGACCCAAAGGTTTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG--TTT
*
1096104 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1096150 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
*
1096196 TTGAAAACATCATGCACTGAAGGACTTATAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
*
1096242 TTGAAAACACCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1096288 TTGAAAACATCATGCACTGAAGGACTTACAGATGA
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGA
1096323 GGGAAATAGT
Statistics
Matches: 1202, Mismatches: 67, Indels: 25
0.93 0.05 0.02
Matches are distributed among these distances:
44 31 0.03
45 106 0.09
46 851 0.71
47 127 0.11
48 42 0.03
49 45 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (46 bp):
TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
Found at i:1095584 original size:323 final size:323
Alignment explanation
Indices: 1094996--1096322 Score: 2209
Period size: 323 Copynumber: 4.1 Consensus size: 323
1094986 GATGGAAATG
* *
1094996 TTGAAAACATCATCCACTGAAGGACTTACAGATGACCC-AAAGGTTTTGAAAACATCATGCACTG
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAAGTTTTTGAAAACATCATGCACTG
* * * * * *
1095060 AAGGGCTTATAGATGACCTGAAGGTTTTGGAAAACATCATGCACTGAAACG-CTTACAGATAACC
66 AAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTG-AAGGACTTACAGATGACC
* * * *
1095124 TAAAGGTTTTTTGAAAACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTTTAAAAAC
130 CAAAGGTTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTTGAAAAC
1095189 ATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTT
194 ATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTT
1095254 ACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
259 ACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1095319 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAAGTTTTTGAAAACATCATGCACTG
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAAGTTTTTGAAAACATCATGCACTG
*
1095384 AAGGACTTACAAATGACCCGAAGGTTTTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
66 AAGGACTTACAGATGACCCGAAGG---TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * *
1095449 CCCGAAGG-TTTTTGAAAACATCATGCACTAAAGGACTTATAGATGACCCGAAGGTTTTTGAAAA
128 CCCAAAGGTTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAA
*
1095513 CATCATGCACTGAAGGACTTACAGATGA-CCGAAGGTTTTT-AAAACATCATGCACTAAAGGACT
193 CATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACT
*
1095576 TACAGATGACCCGAAGGTTTTTAAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
258 TACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1095641 T
323 T
* *
1095642 TTGAAAACATCATGCACTGAAAGACTTACAGATGACCCAAATGTTTTTGAAAACATCATGCACTG
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAAGTTTTTGAAAACATCATGCACTG
1095707 AAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCC
66 AAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCC
* **
1095772 GAAGG-TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACTTGAAGGTTTTTGAAAACAT
131 AAAGGTTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACAT
* *
1095836 CATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTTTGAAAACATCATGCACTGAAGGACTTA
196 CATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTTGAAAACATCATGCACTGAAGGACTTA
*
1095901 CAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGTTT
260 CAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
* *
1095965 TTGAAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGTTTTTGAAAACATCATGCACTG
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAAGTTTTTGAAAACATCATGCACTG
** ** * *
1096029 AAGGACTTACAGATGACCTAAAATTTTTTGAAAACATCATGAATTGAAGGACTTACAGATGACCC
66 AAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCC
*
1096094 AAAGGTTTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACA
131 AAAGG-TTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACA
1096159 TCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTA
195 TCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTA
* *
1096224 TAGATGACCCGAAGGTTTTTGAAAACACCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
260 CAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
1096288 TTGAAAACATCATGCACTGAAGGACTTACAGATGA
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGA
1096323 GGGAAATAGT
Statistics
Matches: 946, Mismatches: 48, Indels: 20
0.93 0.05 0.02
Matches are distributed among these distances:
320 124 0.13
321 7 0.01
322 95 0.10
323 457 0.48
324 144 0.15
325 37 0.04
326 45 0.05
327 37 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (323 bp):
TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAAGTTTTTGAAAACATCATGCACTG
AAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCC
AAAGGTTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACAT
CATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTAC
AGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTT
Found at i:1098480 original size:75 final size:75
Alignment explanation
Indices: 1098378--1098517 Score: 199
Period size: 75 Copynumber: 1.9 Consensus size: 75
1098368 AATACAAGCA
* * * *
1098378 TTCAAAATGCGTCCACATTCTTCATTCTGATTGAAAGGGGCTTTCAGCATGCCCCAACATTTGCT
1 TTCAAAATACATCAACATTCATCATTCTGATTGAAAGGGGCTTTCAGCATGCCCCAACATTTGCT
1098443 GATATAAATG
66 GATATAAATG
* * * * *
1098453 TTCAAAATACATCAACATTCATGATTCTGATTGAGAGGGTCTTTCAGTATGCCCCAGCATTTGCT
1 TTCAAAATACATCAACATTCATCATTCTGATTGAAAGGGGCTTTCAGCATGCCCCAACATTTGCT
1098518 TCTTGTTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 56 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (75 bp):
TTCAAAATACATCAACATTCATCATTCTGATTGAAAGGGGCTTTCAGCATGCCCCAACATTTGCT
GATATAAATG
Found at i:1106026 original size:2 final size:2
Alignment explanation
Indices: 1106019--1106048 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1106009 ATTTAAACAA
*
1106019 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1106049 TTGTAAGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1113120 original size:30 final size:30
Alignment explanation
Indices: 1113080--1113159 Score: 151
Period size: 30 Copynumber: 2.7 Consensus size: 30
1113070 CTTCACTTTT
*
1113080 TGTTTCATTTAATTTTTATTCATTCAAGCA
1 TGTTTAATTTAATTTTTATTCATTCAAGCA
1113110 TGTTTAATTTAATTTTTATTCATTCAAGCA
1 TGTTTAATTTAATTTTTATTCATTCAAGCA
1113140 TGTTTAATTTAATTTTTATT
1 TGTTTAATTTAATTTTTATT
1113160 TTTATTTTGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (30 bp):
TGTTTAATTTAATTTTTATTCATTCAAGCA
Found at i:1119187 original size:183 final size:184
Alignment explanation
Indices: 1118878--1119245 Score: 720
Period size: 183 Copynumber: 2.0 Consensus size: 184
1118868 CCTCGGTGAG
1118878 TCACCGAACTATGGTGGTGACTCACCATAGGGTAACAACGTGGATGGCATTTTTAGTCTTCTGGA
1 TCACCGAACTATGGTGGTGACTCACCATAGGGTAACAACGTGGATGGCATTTTTAGTCTTCTGGA
*
1118943 GGCTTCAATTAGGCGTGGCAGTAGCAGCGGCGTCAACGTGGGGCGGCTGACCGTCGGCAGTAGCT
66 GGCTTCAATTAGGCGTGGCAGTAGCAGCGGCGTCAACGTGGGGCGGCTGACCATCGGCAGTAGCT
1119008 GGTTGGACCATATGGCTTAGGAGTCGTCGGCAATAGCTGGTTGGACCATATGGC
131 GGTTGGACCATATGGCTTAGGAGTCGTCGGCAATAGCTGGTTGGACCATATGGC
1119062 TCACCGAACTATGGTGGTGACTCACCATAGGGTAAC-ACGTGGATGGCATTTTTAGTCTTCTGGA
1 TCACCGAACTATGGTGGTGACTCACCATAGGGTAACAACGTGGATGGCATTTTTAGTCTTCTGGA
1119126 GGCTTCAATTAGGCGTGGCAGTAGCAGCGGCGTCAACGTGGGGCGGCTGACCATCGGCAGTAGCT
66 GGCTTCAATTAGGCGTGGCAGTAGCAGCGGCGTCAACGTGGGGCGGCTGACCATCGGCAGTAGCT
1119191 GGTTGGACCATATGGCTTAGGAGTCGTCGGCAATAGCTGGTTGGACCATATGGC
131 GGTTGGACCATATGGCTTAGGAGTCGTCGGCAATAGCTGGTTGGACCATATGGC
1119245 T
1 T
1119246 TGGGAGTCGT
Statistics
Matches: 183, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
183 147 0.80
184 36 0.20
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (184 bp):
TCACCGAACTATGGTGGTGACTCACCATAGGGTAACAACGTGGATGGCATTTTTAGTCTTCTGGA
GGCTTCAATTAGGCGTGGCAGTAGCAGCGGCGTCAACGTGGGGCGGCTGACCATCGGCAGTAGCT
GGTTGGACCATATGGCTTAGGAGTCGTCGGCAATAGCTGGTTGGACCATATGGC
Found at i:1119230 original size:38 final size:38
Alignment explanation
Indices: 1119179--1119260 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 38
1119169 CGGCTGACCA
*
1119179 TCGGCAGTAGCTGGTTGGACCATATGGCTTAGGAGTCG
1 TCGGCAATAGCTGGTTGGACCATATGGCTTAGGAGTCG
*
1119217 TCGGCAATAGCTGGTTGGACCATATGGCTTGGGAGTCG
1 TCGGCAATAGCTGGTTGGACCATATGGCTTAGGAGTCG
*
1119255 TTGGCA
1 TCGGCA
1119261 GAGGCGGCGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.18, C:0.18, G:0.37, T:0.27
Consensus pattern (38 bp):
TCGGCAATAGCTGGTTGGACCATATGGCTTAGGAGTCG
Found at i:1119428 original size:3 final size:3
Alignment explanation
Indices: 1119410--1119467 Score: 91
Period size: 3 Copynumber: 19.0 Consensus size: 3
1119400 ATGTATTTTG
1119410 TAA TATA TATA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1119456 TAA TAA TAA TAA
1 TAA TAA TAA TAA
1119468 AACGAAATGA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.83
4 7 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1119447 original size:26 final size:27
Alignment explanation
Indices: 1119410--1119467 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
1119400 ATGTATTTTG
1119410 TAAT-ATATATATAATAATAATAATAA
1 TAATAATATATATAATAATAATAATAA
1119436 TAATAATA-ATATAATAATAATAATAA
1 TAATAATATATATAATAATAATAATAA
1119462 TAATAA
1 TAATAA
1119468 AACGAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
TAATAATATATATAATAATAATAATAA
Found at i:1122442 original size:41 final size:41
Alignment explanation
Indices: 1122399--1122546 Score: 156
Period size: 41 Copynumber: 3.6 Consensus size: 41
1122389 GTATAGCAGT
** * *
1122399 GTTTGTATAAAAATTCCACTAAAGTA-GAAGTCTACAGTGGT
1 GTTTGTATAAAAACACCACTAAAGTACG-AGTCTATAGTGGC
* *
1122440 GTTTGTATAAAAACACCACTAATGTACGAGTCTGTA-TCGGC
1 GTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGT-GGC
* ***
1122481 GTTTGTAAACACAAATGGCACTAAAGTACGAGTCTATAGTGGC
1 GTTTGTATA-A-AAACACCACTAAAGTACGAGTCTATAGTGGC
1122524 GTTTGTATAAAAACACCACTAAA
1 GTTTGTATAAAAACACCACTAAA
1122547 ATACTACTAT
Statistics
Matches: 86, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 49 0.57
42 3 0.03
43 32 0.37
44 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (41 bp):
GTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGTGGC
Found at i:1123305 original size:15 final size:15
Alignment explanation
Indices: 1123287--1123352 Score: 53
Period size: 15 Copynumber: 4.5 Consensus size: 15
1123277 TAGACTACGG
* *
1123287 TCACTTAGCACATAT
1 TCACGTAGCACATTT
*
1123302 TCACATAG-ACATTT
1 TCACGTAGCACATTT
* *
1123316 TCACGTAGGATATTT
1 TCACGTAGCACATTT
* **
1123331 TCACTTATAACATTT
1 TCACGTAGCACATTT
1123346 TCACGTA
1 TCACGTA
1123353 CAACATATTC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
14 12 0.29
15 29 0.71
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (15 bp):
TCACGTAGCACATTT
Found at i:1123357 original size:15 final size:15
Alignment explanation
Indices: 1123310--1123364 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
1123300 ATTCACATAG
**
1123310 ACATTTTCACGTAGG
1 ACATTTTCACGTACA
* * *
1123325 ATATTTTCACTTATA
1 ACATTTTCACGTACA
1123340 ACATTTTCACGTACA
1 ACATTTTCACGTACA
*
1123355 ACATATTCAC
1 ACATTTTCAC
1123365 ATATATCATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (15 bp):
ACATTTTCACGTACA
Found at i:1123364 original size:30 final size:30
Alignment explanation
Indices: 1123296--1123369 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
1123286 GTCACTTAGC
**
1123296 ACATATTCAC-ATAGACATTTTCACGTAGG
1 ACATATTCACTATAGACATTTTCACGTACA
* *
1123325 ATATTTTCACTTATA-ACATTTTCACGTACA
1 ACATATTCAC-TATAGACATTTTCACGTACA
1123355 ACATATTCACATATA
1 ACATATTCAC-TATA
1123370 TCATATAATC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 8 0.22
30 25 0.69
31 3 0.08
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (30 bp):
ACATATTCACTATAGACATTTTCACGTACA
Found at i:1130367 original size:21 final size:21
Alignment explanation
Indices: 1130341--1130395 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
1130331 CTACATCCAC
1130341 ATCAGTATCGATACTACTTCA
1 ATCAGTATCGATACTACTTCA
1130362 ATCAGTATCGATACTACTTCA
1 ATCAGTATCGATACTACTTCA
* *
1130383 ATCAATATTGATA
1 ATCAGTATCGATA
1130396 TTGTTCATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCAGTATCGATACTACTTCA
Found at i:1133776 original size:2 final size:2
Alignment explanation
Indices: 1133763--1133796 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1133753 TTTTAAGAAA
1133763 AT AT AT -T A- 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 AT
1133797 TCATTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1133833 original size:23 final size:21
Alignment explanation
Indices: 1133791--1133834 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1133781 ATATATATAT
*
1133791 ATATATTCATTTTTATAAATA
1 ATATATTCATTTTTAGAAATA
*
1133812 ATATATTTATTTACTTAGAAATA
1 ATATATTCATTT--TTAGAAATA
1133835 TCCGAAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (21 bp):
ATATATTCATTTTTAGAAATA
Found at i:1134064 original size:2 final size:2
Alignment explanation
Indices: 1134057--1134089 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1134047 ATTTAAACAA
1134057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1134090 AATAATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1135325 original size:3 final size:3
Alignment explanation
Indices: 1135317--1135384 Score: 86
Period size: 3 Copynumber: 23.0 Consensus size: 3
1135307 TGTATTTATT
*
1135317 TAA TAA TAA TAA TAA TAAA TAA AAA TAA -AA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
1135361 TAA TAA TTC TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
1135385 AACGAAATGA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.07
3 49 0.88
4 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1135635 original size:45 final size:45
Alignment explanation
Indices: 1135531--1137895 Score: 3678
Period size: 45 Copynumber: 52.6 Consensus size: 45
1135521 AAGGTCCTAT
* * * * * *
1135531 CATCTTGCACTGTAGGTCTTAGAGAAGACCCAAAGGATTTT--AAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAA
* * * *
1135575 CATCATGCACTGAAGGTCTTACCGATGACCCGAAGCTTTCGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
1135620 CTTCATGAACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
1135665 CATCATGCACTGAAGGGCTTACAGAGGACTCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * * *
1135710 CATTATGCACTGAAGGGCTTACCGATGACCCAAAGATTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1135755 CATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1135800 CATCATGCACTGAAGGGTTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1135845 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1135890 CATCATGCACTGAAGGGCTTACAGATGACCC-AATGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAA-GGTTTTGAAAA
1135935 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1135980 CATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1136025 CATCATGTACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * * * *
1136070 CATCATACAATGAAGGGCTTATAAAGGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * * *
1136115 CATCATGAACTGAAGGGCTTACAGATGACCTGAACGTCTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
1136160 CATCATGCACTGAAGGGCTTACAGATGACCCAAAAGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1136205 CATCATGCACTGAAGGGCCTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1136250 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1136295 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTAAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
1136340 CATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTGAGAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1136385 CATCATGCAATGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
1136430 TATCATGCAATGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
1136475 CATCATGCACTGAAAGGCTTACAGATAACCCGAAGCTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1136520 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTAAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1136565 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1136610 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * * * *
1136655 CACCATGCACTGAA-AGCTTACAAATTACCCGAAGGTTTTGGAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1136699 CATCATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
1136744 CATCATGTACTGAAGGGTTTACAAATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
1136789 CATCATGCACTGAAGAGCTTATAGATGACCCGAAGGTTTTAAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
1136834 CATCATGCACTGAAGGGCTTACAGATGACCCAAAAGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1136879 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1136924 CATCATGCACTGAAGGGCTTACAGATGACCCGAAAGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1136969 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTAAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
1137014 CATCATGCACTGAAGGGCTTATAGATGACCCGAAGGTTTTGAGAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1137059 CATCATGCAATGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
1137104 TATCATGCAATGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
1137149 CATCATGCACTGAAAGGCTTACAGATGACCCGAAGCTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
1137194 CATCATGCACTGAAGAGCTTACAGATGACCCGAAGGTTTTAAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1137239 CATCATGCACTGAAGGGCTTACAGATGACACGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1137284 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * * * *
1137329 CACCATGCACTGAAAGGCTTACAAATTACCCGAAGGTTTTGGAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
1137374 CATCATGCACTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
1137419 CATCATGTACTAAAGGG-TATACAAATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCT-TACAGATGACCCGAAGGTTTTGAAAA
* * *
1137464 CATCATGCACTGAAGAGCTTATAGATGACCCGATGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
1137509 CATCGTGTACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* ** *
1137554 CATCATGCACTGAAGGGATTACAGATGACTTGATGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
1137599 CATCATGCACTGAAGAGCTTACAAATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
1137644 CATCATGCACTGAAGGGTTTACAGATGACACGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * * *
1137689 CATCATGTACTGAATGGCTTATATATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
1137734 CATCATGTACTGAAGGGCTTACAAATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
1137779 CATCATGCACTGAAAGGCTTGCAGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
1137824 CATCATACATTGAAGCGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
1137869 CATCATGCATTGAAGGGCTTATAGATG
1 CATCATGCACTGAAGGGCTTACAGATG
1137896 TGGGAAATAG
Statistics
Matches: 2114, Mismatches: 200, Indels: 13
0.91 0.09 0.01
Matches are distributed among these distances:
43 3 0.00
44 71 0.03
45 2037 0.96
46 3 0.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (45 bp):
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
Found at i:1138576 original size:22 final size:22
Alignment explanation
Indices: 1138551--1138603 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
1138541 AATAAAGCTT
*
1138551 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAAAGAAAATCTATC
*
1138573 ATCTTTGAAGAGAAAATCTATC
1 ATCTTTGAAAAGAAAATCTATC
1138595 ATCTTTGAA
1 ATCTTTGAA
1138604 TAATGTAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCTTTGAAAAGAAAATCTATC
Found at i:1139035 original size:54 final size:53
Alignment explanation
Indices: 1138973--1139114 Score: 160
Period size: 54 Copynumber: 2.7 Consensus size: 53
1138963 ATGTGACAAT
* *
1138973 ACATTCATCATTTCTCGTGGCTTCTGCCCAGATTTTCGTAAAGCTTTTGATAAC
1 ACATTCATCATTTCTCGTGGCTTCTGCCCAGATTTTCATAAAGCATTTGA-AAC
* * * * *
1139027 ACATTCATCCTTTCTTGTGGCTTCTGGCTAGATGTTCATAAAGCATTTGAAAC
1 ACATTCATCATTTCTCGTGGCTTCTGCCCAGATTTTCATAAAGCATTTGAAAC
* ** *
1139080 ACATTCAT-ATTTTTCTGTGATTTCTGCACAGATTT
1 ACATTCATCATTTCTC-GTGGCTTCTGCCCAGATTT
1139115 CTGATCAATC
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
52 4 0.06
53 24 0.34
54 43 0.61
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (53 bp):
ACATTCATCATTTCTCGTGGCTTCTGCCCAGATTTTCATAAAGCATTTGAAAC
Found at i:1144290 original size:19 final size:18
Alignment explanation
Indices: 1144257--1144293 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1144247 TCACTGATTA
*
1144257 CATTTTCAATTAATTCTC
1 CATTTTCAATAAATTCTC
1144275 CATTTATCAATAAATTCTC
1 CATTT-TCAATAAATTCTC
1144294 GAATTCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (18 bp):
CATTTTCAATAAATTCTC
Found at i:1147986 original size:2 final size:2
Alignment explanation
Indices: 1147973--1148006 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1147963 TTTTAAGAAA
1147973 AT AT AT -T A- 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 AT
1148007 TCATTTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1148144 original size:25 final size:25
Alignment explanation
Indices: 1148103--1148168 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
1148093 AAAAATAAAT
*
1148103 AAATATTAATAAAAAATTTATATAA
1 AAATATTAATAAAAAATTAATATAA
*
1148128 AAATAATTAA-AATAAATTAATATATA
1 AAAT-ATTAATAAAAAATTAATATA-A
*
1148154 TAAT-TTATATAAAAA
1 AAATATTA-ATAAAAA
1148169 TAGGATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
24 3 0.09
25 17 0.52
26 13 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATATTAATAAAAAATTAATATAA
Found at i:1148150 original size:42 final size:38
Alignment explanation
Indices: 1148094--1148170 Score: 100
Period size: 38 Copynumber: 1.9 Consensus size: 38
1148084 TTAATATTAA
1148094 AAAATAAATAAATATTAATAAAAAATTTATATAAAAATAATT
1 AAAATAAATAAATA-T-AT--AAAATTTATATAAAAATAATT
* *
1148136 AAAATAAATTAATATATATAATTTATATAAAAATA
1 AAAATAAATAAATATATAAAATTTATATAAAAATA
1148171 GGATATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 17 0.52
40 2 0.06
41 1 0.03
42 13 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (38 bp):
AAAATAAATAAATATATAAAATTTATATAAAAATAATT
Found at i:1148327 original size:3 final size:3
Alignment explanation
Indices: 1148290--1148315 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1148280 ATATATATAT
1148290 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
1148316 TAAAGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:1149599 original size:3 final size:3
Alignment explanation
Indices: 1149591--1149659 Score: 95
Period size: 3 Copynumber: 23.0 Consensus size: 3
1149581 TGTATTTATT
*
1149591 TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1149637 T-T TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
1149660 AACGAAATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 54 0.93
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1152294 original size:29 final size:29
Alignment explanation
Indices: 1152262--1152317 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
1152252 TCCTGGAAAG
*
1152262 TAAAGGCAAGAAT-TAAAATAATAGAAATT
1 TAAAGGCAAAAATAT-AAATAATAGAAATT
*
1152291 TAAAGGGAAAAATATAAATAATAGAAA
1 TAAAGGCAAAAATATAAATAATAGAAA
1152318 ATAAATCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.14, T:0.21
Consensus pattern (29 bp):
TAAAGGCAAAAATATAAATAATAGAAATT
Found at i:1154078 original size:14 final size:14
Alignment explanation
Indices: 1154044--1154084 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
1154034 GTTTGTATTA
1154044 ATAATAAT-AATA-
1 ATAATAATAAATAT
1154056 ATAATAATAAATAT
1 ATAATAATAAATAT
*
1154070 ATCATAATAAATAT
1 ATAATAATAAATAT
1154084 A
1 A
1154085 GAATGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 8 0.31
13 4 0.15
14 14 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAAATAT
Found at i:1154267 original size:16 final size:15
Alignment explanation
Indices: 1154246--1154278 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
1154236 TCCAGATTCT
1154246 TCTGTGATGGATGAGA
1 TCTGTGATGGAT-AGA
1154262 TCTGTGATGGATAGA
1 TCTGTGATGGATAGA
1154277 TC
1 TC
1154279 CGATTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.33
Consensus pattern (15 bp):
TCTGTGATGGATAGA
Found at i:1154490 original size:118 final size:118
Alignment explanation
Indices: 1154282--1154977 Score: 708
Period size: 118 Copynumber: 5.9 Consensus size: 118
1154272 ATAGATCCGA
* * * *
1154282 TTGAAAAAGTTCTTCTCATTATGAACTTTTTCTCCCTCATCATG-TGAGTTCTTCTCATTACGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATC-GGATGAGTTCTTCTCATTATGAA
* ** *
1154346 CCCTTATAATGGAAATACTT-ATCCACCTCCTTCTGTGATGGAATCGAACCAAGG
65 CCATTCCATTGGAAATA-TTGATCCACCTCCTTCTGTGATGGAATCGAACCAAGG
* * ** **
1154400 TTGAACAAGGTATTCTCATTATGAACTTATTCTCCCTCATTAGATGAGTTCTTCTCATTACAAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
* ** *
1154465 CCTTCCATTGGAAATATTGATCCACCTCCTTCTGTGATATAATCGAACCATGG
66 CATTCCATTGGAAATATTGATCCACCTCCTTCTGTGATGGAATCGAACCAAGG
* * * *
1154518 TTGAACATGTTCTTCTCAATATGAAAATT-TTCTCCCTCATCGGATGAGTTCTTCTCATTATTAA
1 TTGAACAAGTTCTTCTCATTATG-AACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTATGAA
* * * * * * * * *
1154582 CTC-TCCCATTGGTAATGTGGATCCACTTTCTTCTGTGATGGATTCGAACAAAGA
65 C-CATTCCATTGGAAATATTGATCCACCTCCTTCTGTGATGGAATCGAACCAAGG
* * *
1154636 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTTAT-TG--GAGTTCTTTTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
** * * * * **
1154698 CATTTTATTGGAAATATTGATACACCTCATTCTCTTATGGAATATAACCAAGG
66 CATTCCATTGGAAATATTGATCCACCTCCTTCTGTGATGGAATCGAACCAAGG
* * * * * *
1154751 TTCAACAAGTTCTTCTCATTATGAATTTCTTCTCCCTCATCGGATGTGTTCTGCACATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
* * * * * * * * *
1154816 TATT-TACTGGAAATGTTGATCCACCTCATTATGTGATGGAATAGAGCTAAGG
66 CATTCCATTGGAAATATTGATCCACCTCCTTCTGTGATGGAATCGAACCAAGG
* * * * *
1154868 TTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATTAGTTATTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
* * *
1154933 CATTCCATTAGAAATGTTGA-CCATCTCCTTCTGTGATGGAATCGA
66 CATTCCATTGGAAATATTGATCCACCTCCTTCTGTGATGGAATCGA
1154978 GTGAAATGTT
Statistics
Matches: 474, Mismatches: 94, Indels: 21
0.80 0.16 0.04
Matches are distributed among these distances:
114 1 0.00
115 88 0.19
116 1 0.00
117 127 0.27
118 252 0.53
119 5 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (118 bp):
TTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCATCGGATGAGTTCTTCTCATTATGAAC
CATTCCATTGGAAATATTGATCCACCTCCTTCTGTGATGGAATCGAACCAAGG
Found at i:1156508 original size:54 final size:54
Alignment explanation
Indices: 1156300--1156516 Score: 310
Period size: 55 Copynumber: 4.0 Consensus size: 54
1156290 TTACCGTTAT
* * *
1156300 CATCAAGAAATCCCTAAAAATTAGGCTTGGATTCTTTAAAAATTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAA
1156354 CATCAAGAAACCCCTTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAA
1 CATCAAGAAACCCC-TAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAA
* * * * *
1156409 CATAAAAAAATCCCCTAAAAATTAGGCTCAGCTTATTTCAAAATTCATTTGAAAA
1 CATCAAGAAA-CCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAA
* *
1156464 CATCAAGAAACCCCT-AAAATTAGGCGTAGCTTCTTTTAAAAATTCTTTTGAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTC-TTTAAAAATTCATTTGAAA
1156517 CACCATGTTA
Statistics
Matches: 145, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
53 15 0.10
54 35 0.24
55 91 0.63
56 4 0.03
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.31
Consensus pattern (54 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAA
Found at i:1156606 original size:57 final size:56
Alignment explanation
Indices: 1156543--1156702 Score: 178
Period size: 57 Copynumber: 2.8 Consensus size: 56
1156533 AAGAAATCTA
* * *
1156543 TGAAAATTAGAATTAGTTTCTTTGAAAAATCATTTGAAGAAATCATCAATAAACTTC
1 TGAAAATTAGAATTAGCTTCTTTGAAAATTCATTTGAA-AAATCATCAAAAAACTTC
* * * *
1156600 TGAAAA-TCGAACTTGGCTTCTTTGAAAATTCATTTGAAATTATCATTAAAAAACTTC
1 TGAAAATTAGAA-TTAGCTTCTTTGAAAATTCATTTGAAA-AATCATCAAAAAACTTC
* ** *
1156657 CGAAAATCGGACTTAGCTTCTTTGAAAATTCATTTGAAAATATCAT
1 TGAAAATTAGAATTAGCTTCTTTGAAAATTCATTTGAAAA-ATCAT
1156703 ATTAGGTAAC
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
56 5 0.06
57 79 0.92
58 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (56 bp):
TGAAAATTAGAATTAGCTTCTTTGAAAATTCATTTGAAAAATCATCAAAAAACTTC
Found at i:1158107 original size:28 final size:28
Alignment explanation
Indices: 1158067--1158128 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
1158057 GCTGACTTGT
*
1158067 GGAGGTAGAGTGTTTTAAGTTGATTTGG
1 GGAGGTAGAGTGTTTCAAGTTGATTTGG
*
1158095 GGAGGTA-ATGTGTTTCAGGTTGATTTGG
1 GGAGGTAGA-GTGTTTCAAGTTGATTTGG
1158123 GGAGGT
1 GGAGGT
1158129 CTAGCTTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.19, C:0.02, G:0.42, T:0.37
Consensus pattern (28 bp):
GGAGGTAGAGTGTTTCAAGTTGATTTGG
Found at i:1158912 original size:21 final size:20
Alignment explanation
Indices: 1158886--1158925 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1158876 TTCTTTTCGC
*
1158886 TCTCTTATTTCTTTATTTTTT
1 TCTCTTATTT-ATTATTTTTT
1158907 TCTCTTATTTATTATTTTT
1 TCTCTTATTTATTATTTTT
1158926 CTTTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (20 bp):
TCTCTTATTTATTATTTTTT
Done.