Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_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: 3402722
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 17
Found at i:2893244 original size:22 final size:23
Alignment explanation
Indices: 2893155--2893257 Score: 124
Period size: 23 Copynumber: 4.7 Consensus size: 23
2893145 AGAACCCGAT
*
2893155 GGGGGTATCGATTCCC--T-AAA
1 GGGGGAATCGATTCCCATTCAAA
*
2893175 GAGGGAATCGATTCCCATTCAAA
1 GGGGGAATCGATTCCCATTCAAA
*
2893198 GGGGGAATTGATTCCCATTCAAA
1 GGGGGAATCGATTCCCATTCAAA
* *
2893221 GGGGGAATCGGTTCCCCTTC-AA
1 GGGGGAATCGATTCCCATTCAAA
*
2893243 GGGGGTATCGATTCC
1 GGGGGAATCGATTCC
2893258 TCCTGCACTA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
20 14 0.20
22 16 0.23
23 41 0.58
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (23 bp):
GGGGGAATCGATTCCCATTCAAA
Found at i:2903573 original size:81 final size:82
Alignment explanation
Indices: 2903430--2903811 Score: 348
Period size: 81 Copynumber: 4.7 Consensus size: 82
2903420 GTTTTTTGAC
* * * * *** *
2903430 AAACGTCGCGATATCCAAATATATAGTGGCGTTTTTGTGCAAACGCCGCTAAAAACGTGTACTTT
1 AAACGCCGCAATATCCGAATATATAGCGGCGTTTTTGCAAAAACGCCGCTAAAAACATGTACTTT
2903495 AGTGGCATTTATGTAAA
66 AGTGGCATTTATGTAAA
** * *
2903512 AAACGCCGCAATATCCGAATATATAG-GGCGTTTTCACAAAAACGCCGCTAAAATCACGTACTTT
1 AAACGCCGCAATATCCGAATATATAGCGGCGTTTTTGCAAAAACGCCGCTAAAAACATGTACTTT
* * * *
2903576 AGTGGTATTTTTG-GAC
66 AGTGGCATTTATGTAAA
* * ** * *** * *
2903592 AAACGACGCGATATCC-AA-ATATAATGGTGTTTTTGTGCAAACACTGCT-AAAA-ATGCATACT
1 AAACGCCGCAATATCCGAATATATAGCGGCGTTTTTGCAAAAACGCCGCTAAAAACATG--TACT
2903653 TTAGTGGCATTTATGTAAAA
64 TTAGTGGCATTTATGT-AAA
* *
2903673 AAACGCCGCAA-ATCAGAATATATAGCGGCGTTTTTTGCGAAAACGCCGCTAAAAACATGTACTT
1 AAACGCCGCAATATCCGAATATATAGCGGCG-TTTTTGCAAAAACGCCGCTAAAAACATGTACTT
* *
2903737 TAGTGGC-GTTATGTATA
65 TAGTGGCATTTATGTAAA
* * * *
2903754 AAACGCCGCAATAGCCCAGATATATAGTGGCGTTTTTGTAAAAACGCCGCTATAAAAC
1 AAACGCCGCAATATCCGA-ATATATAGCGGCGTTTTTGCAAAAACGCCGCTA-AAAAC
2903812 TTGTGCAATA
Statistics
Matches: 237, Mismatches: 50, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
77 2 0.01
78 8 0.03
79 34 0.14
80 18 0.08
81 66 0.28
82 58 0.24
83 44 0.19
84 4 0.02
85 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (82 bp):
AAACGCCGCAATATCCGAATATATAGCGGCGTTTTTGCAAAAACGCCGCTAAAAACATGTACTTT
AGTGGCATTTATGTAAA
Found at i:2903645 original size:80 final size:80
Alignment explanation
Indices: 2903421--2903810 Score: 258
Period size: 82 Copynumber: 4.8 Consensus size: 80
2903411 TGTAGCGGCG
* *
2903421 TTTTTTGACAAACGTCGCGATATCCAAATATATAGTGGCGTTTTTGTGCAAACGCCGCTAAAAA-
1 TTTTTGGACAAACGACGCGATATCCAAATATATA-TGGCGTTTTTGTGCAAACGCCGCTAAAAAT
*
2903485 CGTGTACTTTAGTGGCA
65 C-AGTACTTTAGTGGCA
* * * * * * * *****
2903502 TTTATGTAAAAAACGCCGCAATATCCGAATATATAGGGCGTTTTCACAAAAACGCCGCT-AAAAT
1 TTTTTG-GACAAACGACGCGATATCCAAATATATATGGCGTTTTTGTGCAAACGCCGCTAAAAAT
*
2903566 CACGTACTTTAGTGGTA
65 CA-GTACTTTAGTGGCA
* * *
2903583 TTTTTGGACAAACGACGCGATATCCAAATATA-ATGGTGTTTTTGTGCAAACACTGCTAAAAATG
1 TTTTTGGACAAACGACGCGATATCCAAATATATATGGCGTTTTTGTGCAAACGCCGCTAAAAAT-
2903647 CA-TACTTTAGTGGCA
65 CAGTACTTTAGTGGCA
* * ** * *
2903662 TTTATGTA-AAAAAACGCCGCAAAT-CAGAATATATAGCGGCGTTTTT-TGCGAAAACGCCGCTA
1 TTTTTGGACAAACGACG-CG-ATATCCA-AATATATA-TGGCGTTTTTGTGC--AAACGCCGCTA
2903724 AAAA-CATGTACTTTAGTGGC-
60 AAAATCA-GTACTTTAGTGGCA
* * * * * * * * **
2903744 GTTATGTATAAAACGCCGCAATAGCCCAGATATATAGTGGCGTTTTTGTAAAAACGCCGCTATAA
1 TTTTTGGA-CAAACGACGCGATA-TCCAAATATATA-TGGCGTTTTTGTGCAAACGCCGCTA-AA
2903809 AA
62 AA
2903811 CTTGTGCAAT
Statistics
Matches: 238, Mismatches: 51, Indels: 38
0.73 0.16 0.12
Matches are distributed among these distances:
78 6 0.03
79 38 0.16
80 39 0.16
81 49 0.21
82 51 0.21
83 47 0.20
84 8 0.03
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (80 bp):
TTTTTGGACAAACGACGCGATATCCAAATATATATGGCGTTTTTGTGCAAACGCCGCTAAAAATC
AGTACTTTAGTGGCA
Found at i:2903659 original size:160 final size:164
Alignment explanation
Indices: 2903421--2903742 Score: 474
Period size: 162 Copynumber: 2.0 Consensus size: 164
2903411 TGTAGCGGCG
* * *
2903421 TTTTTTGACAAACGTCGCGATATCCAAATATATAGTGGCGTTTTTGTGCAAACGCCGCTAAAAAC
1 TTTTTGGACAAACGACGCGATATCCAAATATATAGTGGCGTTTTTGTGCAAACACCGCTAAAAAC
** *
2903486 GTGTACTTTAGTGGCATTTATGT-AAAAAACGCCGCAATATCCGAATATATAG-GGCG-TTTTCA
66 GCATACTTTAGTGGCATTTATGTAAAAAAACGCCGCAA-ATCAGAATATATAGCGGCGTTTTTCA
*
2903548 CAAAAACGCCGCTAAAATCACGTACTTTAGTGGTA
130 CAAAAACGCCGCTAAAAACACGTACTTTAGTGGTA
* * *
2903583 TTTTTGGACAAACGACGCGATATCCAAATATA-A-TGGTGTTTTTGTGCAAACACTGCTAAAAAT
1 TTTTTGGACAAACGACGCGATATCCAAATATATAGTGGCGTTTTTGTGCAAACACCGCTAAAAAC
**
2903646 GCATACTTTAGTGGCATTTATGTAAAAAAACGCCGCAAATCAGAATATATAGCGGCGTTTTTTGC
66 GCATACTTTAGTGGCATTTATGTAAAAAAACGCCGCAAATCAGAATATATAGCGGCGTTTTTCAC
* *
2903711 GAAAACGCCGCTAAAAACATGTACTTTAGTGG
131 AAAAACGCCGCTAAAAACACGTACTTTAGTGG
2903743 CGTTATGTAT
Statistics
Matches: 143, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
160 60 0.42
161 19 0.13
162 64 0.45
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (164 bp):
TTTTTGGACAAACGACGCGATATCCAAATATATAGTGGCGTTTTTGTGCAAACACCGCTAAAAAC
GCATACTTTAGTGGCATTTATGTAAAAAAACGCCGCAAATCAGAATATATAGCGGCGTTTTTCAC
AAAAACGCCGCTAAAAACACGTACTTTAGTGGTA
Found at i:2905074 original size:113 final size:111
Alignment explanation
Indices: 2904923--2905146 Score: 414
Period size: 113 Copynumber: 2.0 Consensus size: 111
2904913 AATTCATGAA
2904923 TGTGTGATATTTTATTTTGATGTTCCTGATCTTCAAATGGCTTTCACTTTTATGAAATCTGGATA
1 TGTGTGATATTTTATTTTGATGTTCCTGATCTTCAAATGGCTTTCACTTTTATGAAATCTGGATA
2904988 TTTTTTGACCATTTATCTTATCTAGAAGATTTTACTGCATGTAATC
66 TTTTTTGACCATTTATCTTATCTAGAAGATTTTACTGCATGTAATC
2905034 TGTGTGATA-TTTATTTAATGATGTTCCTTGATCTTCAAATGGCTTTCACTTTTATGAAATCTGG
1 TGTGTGATATTTTATTT--TGATGTTCC-TGATCTTCAAATGGCTTTCACTTTTATGAAATCTGG
2905098 ATATTTTTTGACCATTTATCTTATCTAGAAGATTTTACTGCATGTAATC
63 ATATTTTTTGACCATTTATCTTATCTAGAAGATTTTACTGCATGTAATC
2905147 ACTCAAGGGA
Statistics
Matches: 110, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
110 7 0.06
111 9 0.08
112 9 0.08
113 85 0.77
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.47
Consensus pattern (111 bp):
TGTGTGATATTTTATTTTGATGTTCCTGATCTTCAAATGGCTTTCACTTTTATGAAATCTGGATA
TTTTTTGACCATTTATCTTATCTAGAAGATTTTACTGCATGTAATC
Found at i:2905533 original size:64 final size:64
Alignment explanation
Indices: 2905424--2905552 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 64
2905414 ATTTCTTAGC
2905424 ACTCTGACTGCAATCTTTGACTAACTGTTCTCTGTAGGCAGCACTGTGCTCCATACGGATCATA
1 ACTCTGACTGCAATCTTTGACTAACTGTTCTCTGTAGGCAGCACTGTGCTCCATACGGATCATA
2905488 ACTCTGACTGCAATCTTTGACTAAACTGTTCTCTGTAGGCA-CACTGTGCTCCATACGGATCATA
1 ACTCTGACTGCAATCTTTGACT-AACTGTTCTCTGTAGGCAGCACTGTGCTCCATACGGATCATA
2905552 A
1 A
2905553 AGAAGTTCCG
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
64 46 0.72
65 18 0.28
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (64 bp):
ACTCTGACTGCAATCTTTGACTAACTGTTCTCTGTAGGCAGCACTGTGCTCCATACGGATCATA
Found at i:2908637 original size:41 final size:41
Alignment explanation
Indices: 2908558--2908795 Score: 143
Period size: 41 Copynumber: 5.9 Consensus size: 41
2908548 CCTTGATTTA
* ** * * *
2908558 AATTGAATTAGATTGTGAATTAATACATGTTGCTATGATCT
1 AATTGAATTGGATTGTGAATTAATGTATGCTACCATGATCT
*
2908599 AATTGAATTGGTTTGTGAATTAATGTATGCTACCATGAT-T
1 AATTGAATTGGATTGTGAATTAATGTATGCTACCATGATCT
* * * *
2908639 GAATCATG--TTGAATGGTGAATTATTGTATGCTACCATGATCG
1 -AAT--TGAATTGGATTGTGAATTAATGTATGCTACCATGATCT
* * *
2908681 AATT-AAGTT-GAATGATGAATTAATGTATGCTATCATGATCG
1 AATTGAA-TTGGATTG-TGAATTAATGTATGCTACCATGATCT
* * * * * *
2908722 AA-TCAAGTTGAATAGTGAATTATTGTATGCTTCC-TGATCG
1 AATTGAA-TTGGATTGTGAATTAATGTATGCTACCATGATCT
* * *
2908762 AA-TCAAGTT-GATGGTGAATTATTGTATGCTACCA
1 AATTGAA-TTGGATTGTGAATTAATGTATGCTACCA
2908796 CGAGGAATCA
Statistics
Matches: 160, Mismatches: 26, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
39 22 0.14
40 19 0.12
41 115 0.72
42 2 0.01
43 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (41 bp):
AATTGAATTGGATTGTGAATTAATGTATGCTACCATGATCT
Found at i:2908790 original size:39 final size:41
Alignment explanation
Indices: 2908613--2908858 Score: 322
Period size: 41 Copynumber: 6.1 Consensus size: 41
2908603 GAATTGGTTT
* * *
2908613 GTGAATTAATGTATGCTACCATGATTGAATCATGTTGAATG
1 GTGAATTATTGTATGCTACCATGATCGAATCAAGTTGAATG
*
2908654 GTGAATTATTGTATGCTACCATGATCGAATTAAGTTGAATG
1 GTGAATTATTGTATGCTACCATGATCGAATCAAGTTGAATG
* * * *
2908695 ATGAATTAATGTATGCTATCATGATCGAATCAAGTTGAATA
1 GTGAATTATTGTATGCTACCATGATCGAATCAAGTTGAATG
*
2908736 GTGAATTATTGTATGCTTCC-TGATCGAATCAAGTTG-ATG
1 GTGAATTATTGTATGCTACCATGATCGAATCAAGTTGAATG
* *
2908775 GTGAATTATTGTATGCTACCACGA-GGAATCAAGTTGAATG
1 GTGAATTATTGTATGCTACCATGATCGAATCAAGTTGAATG
* * *
2908815 GTGAATTA-TGTATGTTA-CATTACCGAATCAAGTTGAATG
1 GTGAATTATTGTATGCTACCATGATCGAATCAAGTTGAATG
*
2908854 ATGAA
1 GTGAA
2908859 AGTATTTCAT
Statistics
Matches: 180, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
38 3 0.02
39 59 0.33
40 29 0.16
41 89 0.49
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.35
Consensus pattern (41 bp):
GTGAATTATTGTATGCTACCATGATCGAATCAAGTTGAATG
Found at i:2912268 original size:25 final size:25
Alignment explanation
Indices: 2912234--2912291 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
2912224 ATTGGTATAA
*
2912234 ATGATCTATGTGATTATATAAGAAT
1 ATGATATATGTGATTATATAAGAAT
2912259 ATGATATATGTGATTATATAAGAAT
1 ATGATATATGTGATTATATAAGAAT
2912284 ATGATATA
1 ATGATATA
2912292 AGTTATATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.40
Consensus pattern (25 bp):
ATGATATATGTGATTATATAAGAAT
Found at i:2912450 original size:6 final size:6
Alignment explanation
Indices: 2912439--2913520 Score: 1681
Period size: 6 Copynumber: 183.3 Consensus size: 6
2912429 AGCTCTATGA
2912439 GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
*
2912485 GTATAT GTATAT GTATAT GTATAT GTATAT GTGTAAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTAT-AT GTATAT GTATAT
* *
2912534 GTCTGTAT ATATAT GTATAT GTATAT GTATA- GTATAT GTATAT GTATAT
1 G--TATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
*
2912583 GTATAT GTATATAT GTATAT GTATAT AATATAT GTATAT GTATATAT GTATAT
1 GTATAT G--TATAT GTATAT GTATAT -GTATAT GTATAT G--TATAT GTATAT
2912636 GTATAT G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* * *
2912682 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTTTAT ATGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
*
2912730 GTATAT GTATAT GTATAT GTATAT GTATGTAT GTATAT GTATAT TTATAT
1 GTATAT GTATAT GTATAT GTATAT GTA--TAT GTATAT GTATAT GTATAT
2912780 G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
2912826 GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
2912872 GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
2912918 GTATAT GTATAT GTATAT GTATAT GT-TAT GTATAT G--TAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
2912963 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT -T-TAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* *
2913009 GTATTAT ATGTAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTA-TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
2913058 G--TAT GT-TAT GTATAT GTATAT GTATAT GTATAT GTATAT GT-TAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
2913102 GTATAT GTATAT GT-TAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
2913149 GTAT-T G-ATAT GTATAT GTATAT GTATAT GTAT-T GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
2913194 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTA-AT GTAT-T
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
2913240 GTATAT GTATAT G--TAT GTATAT GTATA- GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
2913285 GTATA- GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
* *
2913332 GTATAT GTATAT GTATAT ATGTAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
2913380 GTATAT GTATAT GTAT-T GT-TAT GTATAT GTA-AT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
*
2913425 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT ATATGTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTA--TAT
2913475 GTATAT GTATCTAT GTATAT GTATAT GTATAT GTATAT GTATAT GT
1 GTATAT GTA--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GT
2913521 GATGATTTGG
Statistics
Matches: 1004, Mismatches: 25, Indels: 94
0.89 0.02 0.08
Matches are distributed among these distances:
4 38 0.04
5 67 0.07
6 852 0.85
7 14 0.01
8 33 0.03
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:2917013 original size:6 final size:6
Alignment explanation
Indices: 2916981--2917023 Score: 61
Period size: 6 Copynumber: 7.0 Consensus size: 6
2916971 GAATTAAAAA
2916981 TATAAT TATATAT TATATAT T-TAAT TATAAT TATAAT TATAAT
1 TATAAT TATA-AT TATA-AT TATAAT TATAAT TATAAT TATAAT
2917024 AATGTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 3 0.09
6 22 0.63
7 10 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TATAAT
Found at i:2924969 original size:27 final size:27
Alignment explanation
Indices: 2924936--2924996 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
2924926 TTACAAAATC
2924936 ATCTCTATAGGAATGGTAACAAATCAT
1 ATCTCTATAGGAATGGTAACAAATCAT
2924963 ATCTCTATAGGAATGGTAACAAATCAT
1 ATCTCTATAGGAATGGTAACAAATCAT
2924990 ATCTCTA
1 ATCTCTA
2924997 ATTCTTACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (27 bp):
ATCTCTATAGGAATGGTAACAAATCAT
Found at i:2928708 original size:27 final size:27
Alignment explanation
Indices: 2928677--2928744 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
2928667 TCTATTTACA
2928677 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
2928704 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
2928731 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
2928745 ATTCCTACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 9 0.22
27 32 0.78
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:2937210 original size:24 final size:24
Alignment explanation
Indices: 2937183--2937243 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
2937173 GTAAACGGAG
*
2937183 ATATCAGAAATCAAAACAAAATTC
1 ATATCAGAAATCAAAACAAAATCC
* * *
2937207 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAAAACAAAATCC
*
2937231 AGATCAG-AATCAA
1 ATATCAGAAATCAA
2937244 CAGAATTCAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.52, C:0.18, G:0.10, T:0.20
Consensus pattern (24 bp):
ATATCAGAAATCAAAACAAAATCC
Found at i:2939669 original size:19 final size:20
Alignment explanation
Indices: 2939634--2939672 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2939624 TTTAATGCTC
2939634 GGTCAAAGCCAGTCAACGGT
1 GGTCAAAGCCAGTCAACGGT
*
2939654 GGTCAACGCC-GTCAACGGT
1 GGTCAAAGCCAGTCAACGGT
2939673 CATGGTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.26, C:0.28, G:0.31, T:0.15
Consensus pattern (20 bp):
GGTCAAAGCCAGTCAACGGT
Found at i:2939699 original size:20 final size:21
Alignment explanation
Indices: 2939654--2939700 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
2939644 AGTCAACGGT
*
2939654 GGTCAACGCCGTCAACGGTCAT
1 GGTCAACG-CGTCAACGGTCAG
2939676 GGTCAACG-GTCAACGGGTC-G
1 GGTCAACGCGTCAAC-GGTCAG
2939696 GGTCA
1 GGTCA
2939701 GGTAAACAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 11 0.48
21 4 0.17
22 8 0.35
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.17
Consensus pattern (21 bp):
GGTCAACGCGTCAACGGTCAG
Found at i:2941722 original size:24 final size:24
Alignment explanation
Indices: 2941695--2941751 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
2941685 GCAAACGGAG
*
2941695 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAAAACAGAATCC
* *
2941719 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAAAACAGAATCC
*
2941743 AGATCAGAA
1 ATATCAGAA
2941752 TCAGAATTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.12, T:0.19
Consensus pattern (24 bp):
ATATCAGAAATCAAAACAGAATCC
Found at i:2946654 original size:24 final size:24
Alignment explanation
Indices: 2946627--2946698 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
2946617 GTAAATTAAG
2946627 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAAAACAGAATTC
* * *
2946651 ATATCAGATATCATAACAGAATCC
1 ATATCAGAAATCAAAACAGAATTC
* * *
2946675 AGATCAG-AATCAGAACTGAATTC
1 ATATCAGAAATCAAAACAGAATTC
2946698 A
1 A
2946699 GGTAACGTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 13 0.32
24 27 0.68
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (24 bp):
ATATCAGAAATCAAAACAGAATTC
Found at i:2949186 original size:13 final size:13
Alignment explanation
Indices: 2949168--2949199 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2949158 CAACGGTCAA
2949168 CGGGTCAACAGGT
1 CGGGTCAACAGGT
*
2949181 CGGGTCAACGGGT
1 CGGGTCAACAGGT
2949194 CGGGTC
1 CGGGTC
2949200 GGGTTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.25, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACAGGT
Found at i:2951304 original size:24 final size:23
Alignment explanation
Indices: 2951268--2951363 Score: 93
Period size: 24 Copynumber: 4.0 Consensus size: 23
2951258 GTAAATGGAT
*
2951268 ATATCAGAAATCAAAACAGAATTC
1 ATATCAG-AATCAGAACAGAATTC
* *
2951292 ATATCAGATATCAGAACAAAATCC
1 ATATCAGA-ATCAGAACAGAATTC
*
2951316 AGATCAGAATCAGAACAGAATTC
1 ATATCAGAATCAGAACAGAATTC
** * *
2951339 AGGTAATGTATCAGAACAGAATTC
1 ATATCA-GAATCAGAACAGAATTC
2951363 A
1 A
2951364 ATTCGGAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
23 18 0.30
24 43 0.70
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.21
Consensus pattern (23 bp):
ATATCAGAATCAGAACAGAATTC
Found at i:2951340 original size:12 final size:12
Alignment explanation
Indices: 2951272--2951340 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
2951262 ATGGATATAT
* *
2951272 CAGAAATCAAAA
1 CAGAATTCAGAA
* *
2951284 CAGAATTCATAT
1 CAGAATTCAGAA
2951296 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* * *
2951308 CAAAATCCAGAT
1 CAGAATTCAGAA
2951320 CAGAA-TCAGAA
1 CAGAATTCAGAA
2951331 CAGAATTCAG
1 CAGAATTCAG
2951341 GTAATGTATC
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
11 11 0.26
12 30 0.70
13 2 0.05
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:2958588 original size:13 final size:13
Alignment explanation
Indices: 2958572--2958614 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
2958562 TGGATTTATT
*
2958572 TTTATTTTATTTT
1 TTTATTTTATTTA
*
2958585 TTTATATTATTTA
1 TTTATTTTATTTA
*
2958598 TGTATTTT-TTTA
1 TTTATTTTATTTA
2958610 TTTAT
1 TTTAT
2958615 ATATATATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:2958677 original size:36 final size:35
Alignment explanation
Indices: 2958646--2958972 Score: 163
Period size: 37 Copynumber: 8.8 Consensus size: 35
2958636 TTTTTGATTT
*
2958646 TTTTAGAAAATGTATATATTATATAGTTTTTGAAAACA
1 TTTT-GAAAATATATATATTATATAGTTTTTG--AACA
*
2958684 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATATTATATAGTTTTTG--AACA
*
2958721 TTTTG--AA-A-ATATA-TATATAGTTTTTAAAAACA
1 TTTTGAAAATATATATATTATATAGTTTTT--GAACA
*
2958753 TTTTAAAAACTTATATATATATATATA-TAGTTTTGAAATCA
1 TTTTGAAAA--TATATATAT-TATATAGT--TTTTG-AA-CA
* * * *
2958794 TTTTAAAAATTTATATAATATATA-ATTTTGAAATCA
1 TTTTGAAAATATATATATTATATAGTTTTTG-AA-CA
* * *
2958830 TTTTGAAAACT-TATATAATATATGGTTTTTTAAAAACA
1 TTTTGAAAA-TATATATATTATATAG-TTTTT--GAACA
* * **
2958868 TTTTGAAAATATATATAGTATATAATTTTAAAAAACA
1 TTTTGAAAATATATATATTATATAGTTTT--TGAACA
*
2958905 TTTTGAAAACTATATA-A-TATATAG-TTTTGAAAACTT
1 TTTTGAAAA-TATATATATTATATAGTTTTTG--AAC-A
*
2958941 TTTTAAAAAATATATATATAATATATAGTTTT
1 TTTT-GAAAATATATATAT--TATATAGTTTT
2958973 AAAATATATT
Statistics
Matches: 236, Mismatches: 21, Indels: 61
0.74 0.07 0.19
Matches are distributed among these distances:
32 20 0.08
33 5 0.02
34 3 0.01
35 8 0.03
36 47 0.20
37 63 0.27
38 47 0.20
39 10 0.04
40 15 0.06
41 18 0.08
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (35 bp):
TTTTGAAAATATATATATTATATAGTTTTTGAACA
Found at i:2958737 original size:30 final size:33
Alignment explanation
Indices: 2958665--2958761 Score: 115
Period size: 32 Copynumber: 2.8 Consensus size: 33
2958655 ATGTATATAT
* *
2958665 TATATAGTTTTTGAAAACATTTTGAAAATATATATAA
1 TATATAGTTTTTAAAAACATTTT-AAAA-ATA-CT-A
* *
2958702 TATATAGTTTTTGAAAACATTTTGAAAATA-TA
1 TATATAGTTTTTAAAAACATTTTAAAAATACTA
2958734 TATATAGTTTTTAAAAACATTTTAAAAA
1 TATATAGTTTTTAAAAACATTTTAAAAA
2958762 CTTATATATA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
32 27 0.47
33 1 0.02
35 3 0.05
36 3 0.05
37 23 0.40
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.43
Consensus pattern (33 bp):
TATATAGTTTTTAAAAACATTTTAAAAATACTA
Found at i:2958884 original size:74 final size:74
Alignment explanation
Indices: 2958646--2958976 Score: 331
Period size: 74 Copynumber: 4.4 Consensus size: 74
2958636 TTTTTGATTT
* * * *
2958646 TTTTAGAAAATGTATATATTATATAGTTTTTGAAAACATTTTGAAAA-TATATATAATATATAG-
1 TTTT-GAAAATATATATAATATATA-ATTTTAAAAACATTTTGAAAACT-TATATAATATATAGT
2958709 TTTTTGAAAACA
63 TTTTTGAAAACA
* *
2958721 TTTTGAAAATATATAT-ATA-GT--TTTTAAAAACATTTTAAAAACTTATATATATATATA-TAT
1 TTTTGAAAATATATATAATATATAATTTTAAAAACATTTTGAAAACTTATATA-ATATATAGT-T
*
2958781 AGTTTTGAAATCA
64 --TTTTGAAAACA
* * * * *
2958794 TTTTAAAAATTTATATAATATATAATTTTGAAATCATTTTGAAAACTTATATAATATATGGTTTT
1 TTTTGAAAATATATATAATATATAATTTTAAAAACATTTTGAAAACTTATATAATATATAGTTTT
*
2958859 TTAAAAACA
66 TTGAAAACA
*
2958868 TTTTGAAAATATATATAGTATATAATTTTAAAAAACATTTTGAAAAC-TATATAATATATAG--T
1 TTTTGAAAATATATATAATATATAATTTT-AAAAACATTTTGAAAACTTATATAATATATAGTTT
*
2958930 TTTGAAAACTT
65 TTTGAAAAC-A
* *
2958941 TTTTAAAAAATATATATATAATATATAGTTTTAAAA
1 TTTT--GAAA-ATATATATAATATATAATTTTAAAA
2958977 TATATTATTA
Statistics
Matches: 214, Mismatches: 26, Indels: 32
0.79 0.10 0.12
Matches are distributed among these distances:
69 24 0.11
70 8 0.04
71 1 0.00
72 10 0.05
73 30 0.14
74 62 0.29
75 27 0.13
76 26 0.12
77 26 0.12
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (74 bp):
TTTTGAAAATATATATAATATATAATTTTAAAAACATTTTGAAAACTTATATAATATATAGTTTT
TTGAAAACA
Found at i:2958987 original size:3 final size:3
Alignment explanation
Indices: 2958979--2959018 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
2958969 TTTTAAAATA
2958979 TAT TAT TAT TAT TAT TAT TAT TAT TCAT T-T TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA
2959019 ATTTTATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2960303 original size:12 final size:11
Alignment explanation
Indices: 2960223--2960308 Score: 52
Period size: 11 Copynumber: 7.5 Consensus size: 11
2960213 TTTTTTCACC
2960223 TTTTTTATTTCAT
1 TTTTTTA-TT-AT
*
2960236 TTTTGTTATTTCT
1 TTTT-TTA-TTAT
2960249 TCTTTTTATTA-
1 T-TTTTTATTAT
*
2960260 TTTTTTA--AC
1 TTTTTTATTAT
* *
2960269 ATTTTCATTAT
1 TTTTTTATTAT
*
2960280 TTTTTGATTAT
1 TTTTTTATTAT
2960291 TTATTTTATTAT
1 TT-TTTTATTAT
2960303 TTTTTT
1 TTTTTT
2960309 TCTTCTGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
8 1 0.02
9 5 0.08
10 6 0.10
11 17 0.29
12 12 0.20
13 9 0.15
14 9 0.15
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:2961039 original size:21 final size:21
Alignment explanation
Indices: 2961013--2961071 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
2961003 CGTTATATTT
*
2961013 TTATTTTTTATAAATAAAAAA
1 TTATTTTTTATAAAGAAAAAA
*
2961034 TTATTTTTTAAAAGAGAAAAAA
1 TTATTTTTTATAA-AGAAAAAA
2961056 TTAATTTCTTTATAAA
1 TT-ATTT-TTTATAAA
2961072 AAATCAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 12 0.38
22 9 0.28
23 5 0.16
24 6 0.19
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (21 bp):
TTATTTTTTATAAAGAAAAAA
Found at i:2961095 original size:27 final size:27
Alignment explanation
Indices: 2961065--2961129 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
2961055 ATTAATTTCT
2961065 TTATAAAAAATCAAATTTTTATTGAAA
1 TTATAAAAAATCAAATTTTTATTGAAA
2961092 TTATAAAAAATCAAATTTTTATTGAAA
1 TTATAAAAAATCAAATTTTTATTGAAA
2961119 TTATAAAAAAT
1 TTATAAAAAAT
2961130 AAAAAAACTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (27 bp):
TTATAAAAAATCAAATTTTTATTGAAA
Found at i:2962056 original size:15 final size:15
Alignment explanation
Indices: 2962036--2962065 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2962026 AAATCCCCTA
2962036 TATGGAAAAACTCTT
1 TATGGAAAAACTCTT
2962051 TATGGAAAAACTCTT
1 TATGGAAAAACTCTT
2962066 CCTCCATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
TATGGAAAAACTCTT
Found at i:2963231 original size:41 final size:42
Alignment explanation
Indices: 2963067--2963261 Score: 129
Period size: 42 Copynumber: 4.7 Consensus size: 42
2963057 AGTATTCTTC
* *
2963067 ATTGCGGCGTTTGTTGG-A-AAACGCCACTATAA--ACCACCCT
1 ATTGCGGCTTTTG-TGGTATAAACGCCACTA-AATTACCACTCT
* * * ** *
2963107 ATTGCGGCGTTTT-AGGTATATACACTGCTAATTTACCACTCT
1 ATTGCGGC-TTTTGTGGTATAAACGCCACTAAATTACCACTCT
* *
2963149 ATTGTGGCGTTTGTGGTATAAACGCCACTAAATTACCACTCT
1 ATTGCGGCTTTTGTGGTATAAACGCCACTAAATTACCACTCT
* *
2963191 ATTGCGGCTTTTG-GGCTA-AAACGCCGCTAAATGT-CTACTCT
1 ATTGCGGCTTTTGTGG-TATAAACGCCACTAAAT-TACCACTCT
* ** *
2963232 ATTACGGCATTTT-TACTATAAATGCCACTA
1 ATTGCGGC-TTTTGTGGTATAAACGCCACTA
2963262 TTGATTAACC
Statistics
Matches: 119, Mismatches: 25, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
39 2 0.02
40 10 0.08
41 43 0.36
42 64 0.54
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (42 bp):
ATTGCGGCTTTTGTGGTATAAACGCCACTAAATTACCACTCT
Found at i:2963406 original size:42 final size:41
Alignment explanation
Indices: 2963346--2963469 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 41
2963336 GCCACTATAA
* * *
2963346 ACCACCCTATTGCGGTGTTTTAGGTATAAACGCCGCTAATTT
1 ACCACTCTATTACGGTGTTTTAGGTA-AAACGCCGCTAAATT
*
2963388 ACCACTCTATTACAGTGTTTGTA-GTACAAACGCCGCTAAATT
1 ACCACTCTATTACGGTGTTT-TAGGTA-AAACGCCGCTAAATT
* *
2963430 ACCACTCTATTACGGCG-TTTGGGCTAAAACGCCGCTAAAT
1 ACCACTCTATTACGGTGTTTTAGG-TAAAACGCCGCTAAAT
2963470 GTCTACTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
40 1 0.01
41 17 0.24
42 51 0.72
43 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (41 bp):
ACCACTCTATTACGGTGTTTTAGGTAAAACGCCGCTAAATT
Found at i:2963453 original size:247 final size:247
Alignment explanation
Indices: 2963008--2963675 Score: 896
Period size: 247 Copynumber: 2.7 Consensus size: 247
2962998 TATAAAAAAC
* * * **
2963008 GCCACTATTGATTAATACTATTATGGCGTTTGTCAAAAAACGACGCTGAAGTATTCTTCATTGCG
1 GCCACTATTGATTAATCCTTTTATGGCGTTTGTCTAAAAACGACGCAAAAGTATTCTTCATTGCG
* * * *
2963073 GCGTTTGTTGGAAAACGCCACTATAAACCACCCTATTGCGGCGTTTTAGGTATATACACTGCTAA
66 GCGTTTGTTGGAAAACGCCACTATAAACCACCCTATTGCGGTGTTTTAGGTATAAACGCCGCTAA
*** * * * * * *
2963138 TTTACCACTCTATTGTGGCGTTTGTGGTATAAACGCCACTAAATTACCACTCTATTGCGGCTTTT
131 TTTACCACTCTATTACAGTGTTTGTAGTAAAAACGCCGCTAAATTACCACTCTATTACGGCGTTT
*
2963203 GGGCTAAAACGCCGCTAAATGTCTACTCTATTACGGCATTTTTACTATAAAT
196 GGGCTAAAACGCCGCTAAATGTCTACTATATTACGGCATTTTTACTATAAAT
* * *
2963255 GCCACTATTGATTAACCCTTTTATGGCATTTGTCTAAAAACGACGCAAAAGTATTCTTCAGTGCG
1 GCCACTATTGATTAATCCTTTTATGGCGTTTGTCTAAAAACGACGCAAAAGTATTCTTCATTGCG
* * *
2963320 ACATTTGTTGGAAAATGCCACTATAAACCACCCTATTGCGGTGTTTTAGGTATAAACGCCGCTAA
66 GCGTTTGTTGGAAAACGCCACTATAAACCACCCTATTGCGGTGTTTTAGGTATAAACGCCGCTAA
*
2963385 TTTACCACTCTATTACAGTGTTTGTAGTACAAACGCCGCTAAATTACCACTCTATTACGGCGTTT
131 TTTACCACTCTATTACAGTGTTTGTAGTAAAAACGCCGCTAAATTACCACTCTATTACGGCGTTT
*
2963450 GGGCTAAAACGCCGCTAAATGTCTACTATATTGCGGCATTTTTACTATAAAT
196 GGGCTAAAACGCCGCTAAATGTCTACTATATTACGGCATTTTTACTATAAAT
* * * * * *
2963502 GCCGCTATTGATTAATCCTTCTGTGGCGTTTGTCTAAAAATGACACAAAAGTGTTCTTCATTGCG
1 GCCACTATTGATTAATCCTTTTATGGCGTTTGTCTAAAAACGACGCAAAAGTATTCTTCATTGCG
* * ** *
2963567 GCGTTTGTTGGAAAAACGACACTATAAACCACCCTATTACGGCAT-TTTTA-CCAAAAACGCCGC
66 GCGTTTGTTGG-AAAACGCCACTATAAACCACCCTATTGCGG--TGTTTTAGGTATAAACGCCGC
*
2963630 TATATTT-CTACTCTATTACA-TCGTTTGTACG-AAAAACGCCGCTAAA
128 TA-ATTTACCACTCTATTACAGT-GTTTGTA-GTAAAAACGCCGCTAAA
2963676 GTCTCAATTT
Statistics
Matches: 370, Mismatches: 45, Indels: 11
0.87 0.11 0.03
Matches are distributed among these distances:
247 287 0.78
248 72 0.19
249 10 0.03
250 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (247 bp):
GCCACTATTGATTAATCCTTTTATGGCGTTTGTCTAAAAACGACGCAAAAGTATTCTTCATTGCG
GCGTTTGTTGGAAAACGCCACTATAAACCACCCTATTGCGGTGTTTTAGGTATAAACGCCGCTAA
TTTACCACTCTATTACAGTGTTTGTAGTAAAAACGCCGCTAAATTACCACTCTATTACGGCGTTT
GGGCTAAAACGCCGCTAAATGTCTACTATATTACGGCATTTTTACTATAAAT
Found at i:2965586 original size:2 final size:2
Alignment explanation
Indices: 2965579--2965615 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2965569 ATTTTAAAAG
2965579 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2965616 TCTTTTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2967383 original size:18 final size:19
Alignment explanation
Indices: 2967348--2967384 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2967338 ATTATTTAAA
*
2967348 AAAAACTTAATTTCTTTAT
1 AAAAACTCAATTTCTTTAT
2967367 AAAAACTCAATTT-TTTAT
1 AAAAACTCAATTTCTTTAT
2967385 TGAAATTATA
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:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAAACTCAATTTCTTTAT
Found at i:2970082 original size:12 final size:12
Alignment explanation
Indices: 2970065--2970089 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2970055 ACAAAGCACC
2970065 ATTTGGTGCCTA
1 ATTTGGTGCCTA
2970077 ATTTGGTGCCTA
1 ATTTGGTGCCTA
2970089 A
1 A
2970090 GTTATTTGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:2975674 original size:34 final size:34
Alignment explanation
Indices: 2975631--2975698 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
2975621 TCAAAGTCCG
*
2975631 TATGCTAGAAATAGGACCGCTAATCTGTAAGAAA
1 TATGCTAGAAATAGGACCGCGAATCTGTAAGAAA
2975665 TATGCTAGAAATAGGACCGCGAATCTGTAAGAAA
1 TATGCTAGAAATAGGACCGCGAATCTGTAAGAAA
2975699 ATTTTGAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (34 bp):
TATGCTAGAAATAGGACCGCGAATCTGTAAGAAA
Found at i:2980964 original size:27 final size:27
Alignment explanation
Indices: 2980934--2981021 Score: 158
Period size: 27 Copynumber: 3.3 Consensus size: 27
2980924 AGGTTCCAGA
2980934 GAACTATTCACAATAGTGAAATAGTGG
1 GAACTATTCACAATAGTGAAATAGTGG
2980961 GAACTATTCACAATAGTGAAATAGTGG
1 GAACTATTCACAATAGTGAAATAGTGG
*
2980988 GAACTATTCACGATAGTGAAATAGTGG
1 GAACTATTCACAATAGTGAAATAGTGG
*
2981015 GAGCTAT
1 GAACTAT
2981022 CCGTAAAAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (27 bp):
GAACTATTCACAATAGTGAAATAGTGG
Found at i:2990182 original size:20 final size:20
Alignment explanation
Indices: 2990152--2990207 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
2990142 TGCATTTTAA
2990152 TAATGGCATCCTTTCAAGCCC
1 TAAT-GCATCCTTTCAAGCCC
* *
2990173 TAATGCATCCTTTCATGCCT
1 TAATGCATCCTTTCAAGCCC
2990193 TAATGCATCCTTTCA
1 TAATGCATCCTTTCA
2990208 TGCATTTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (20 bp):
TAATGCATCCTTTCAAGCCC
Found at i:2990228 original size:46 final size:46
Alignment explanation
Indices: 2990178--2990406 Score: 379
Period size: 46 Copynumber: 5.0 Consensus size: 46
2990168 AGCCCTAATG
2990178 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGA
1 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGA
* *
2990224 CATCCTTTCATGCCTTAATGCATACTTTCATGCATTTTAGCTATGA
1 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGA
* ** *
2990270 CATCCTTTCATGCCTTACTGCATTATTTCATGCATTTTAGTTATGG
1 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGA
2990316 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGA
1 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGA
*
2990362 CATCCTTTCATGCCTTAATGCATCATTTCACT-CATTTTAGTTATG
1 CATCCTTTCATGCCTTAATGCATCCTTTCA-TGCATTTTAGTTATG
2990407 GATTCGGTTT
Statistics
Matches: 170, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 169 0.99
47 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.44
Consensus pattern (46 bp):
CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGA
Found at i:2990234 original size:26 final size:24
Alignment explanation
Indices: 2990175--2990374 Score: 144
Period size: 20 Copynumber: 8.7 Consensus size: 24
2990165 TCAAGCCCTA
*
2990175 ATGCATCCTTTCATGC--CTTA--
1 ATGCATCCTTTCATGCATTTTAGT
2990195 ATGCATCCTTTCATGCATTTTAGTT
1 ATGCATCCTTTCATGCATTTTAG-T
*
2990220 ATGACATCCTTTCATGC--CTTA--
1 ATG-CATCCTTTCATGCATTTTAGT
*
2990241 ATGCATACTTTCATGCATTTTAGCT
1 ATGCATCCTTTCATGCATTTTAG-T
*
2990266 ATGACATCCTTTCATGC--CTTA--
1 ATG-CATCCTTTCATGCATTTTAGT
* **
2990287 CTGCATTATTTCATGCATTTTAGTT
1 ATGCATCCTTTCATGCATTTTAG-T
*
2990312 ATGGCATCCTTTCATGC--CTTA--
1 AT-GCATCCTTTCATGCATTTTAGT
2990333 ATGCATCCTTTCATGCATTTTAGTT
1 ATGCATCCTTTCATGCATTTTAG-T
2990358 ATGACATCCTTTCATGC
1 ATG-CATCCTTTCATGC
2990375 CTTAATGCAT
Statistics
Matches: 141, Mismatches: 15, Indels: 42
0.71 0.08 0.21
Matches are distributed among these distances:
20 53 0.38
21 7 0.05
22 12 0.09
24 9 0.06
25 10 0.07
26 50 0.35
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (24 bp):
ATGCATCCTTTCATGCATTTTAGT
Found at i:2995232 original size:22 final size:18
Alignment explanation
Indices: 2995189--2995258 Score: 86
Period size: 18 Copynumber: 3.7 Consensus size: 18
2995179 TTCAGTATTC
*
2995189 GTCCCGTAGGACCACTAT
1 GTCCCGAAGGACCACTAT
2995207 GTCCCGAAGGACCACTGTATAT
1 GTCCCGAAGGACCAC----TAT
*
2995229 GTCCCGTAGGACCACTAT
1 GTCCCGAAGGACCACTAT
2995247 GTCCCGAAGGAC
1 GTCCCGAAGGAC
2995259 TACTCCTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
18 28 0.62
22 17 0.38
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.20
Consensus pattern (18 bp):
GTCCCGAAGGACCACTAT
Found at i:2996849 original size:20 final size:21
Alignment explanation
Indices: 2996824--2996862 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2996814 GGCTTCTGGA
2996824 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
2996844 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTAACCGGTTT
2996863 GACCGGTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:2996874 original size:18 final size:19
Alignment explanation
Indices: 2996845--2996885 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
2996835 CCGGTTTTCA
* *
2996845 ACCGGTTCTGACCGGTTTG
1 ACCGGTTCTGACCCGATTG
2996864 ACCGG-TCTGACCCGATTG
1 ACCGGTTCTGACCCGATTG
2996882 ACCG
1 ACCG
2996886 ACCCGACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (19 bp):
ACCGGTTCTGACCCGATTG
Found at i:2996920 original size:22 final size:22
Alignment explanation
Indices: 2996886--2996937 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
2996876 CGATTGACCG
* *
2996886 ACCCGACCTGACCGTTAACCCA
1 ACCCGACCCGACCCTTAACCCA
* * *
2996908 ACCCGGCCCGACCCTTGACCCG
1 ACCCGACCCGACCCTTAACCCA
2996930 ACCCGACC
1 ACCCGACC
2996938 GTTGACCGTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.52, G:0.17, T:0.10
Consensus pattern (22 bp):
ACCCGACCCGACCCTTAACCCA
Found at i:2996934 original size:17 final size:17
Alignment explanation
Indices: 2996908--2996944 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2996898 CGTTAACCCA
*
2996908 ACCCGGCCCGACCCTTG
1 ACCCGACCCGACCCTTG
*
2996925 ACCCGACCCGACCGTTG
1 ACCCGACCCGACCCTTG
2996942 ACC
1 ACC
2996945 GTTGACTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.51, G:0.22, T:0.11
Consensus pattern (17 bp):
ACCCGACCCGACCCTTG
Found at i:3004146 original size:11 final size:10
Alignment explanation
Indices: 3004120--3004179 Score: 59
Period size: 11 Copynumber: 5.9 Consensus size: 10
3004110 GGCTGCTGGA
3004120 AACCGGTTTT
1 AACCGGTTTT
3004130 -ACCGGTTTT
1 AACCGGTTTT
*
3004139 CAACCGGTTCT
1 -AACCGGTTTT
*
3004150 GACCGGTTTT
1 AACCGGTTTT
*
3004160 CAACCGGTTCT
1 -AACCGGTTTT
*
3004171 GACCGGTTT
1 AACCGGTTT
3004180 CGACTGGTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
9 9 0.22
10 15 0.38
11 16 0.40
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.35
Consensus pattern (10 bp):
AACCGGTTTT
Found at i:3004156 original size:10 final size:10
Alignment explanation
Indices: 3004141--3004203 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
3004131 CCGGTTTTCA
3004141 ACCGGTTCTG
1 ACCGGTTCTG
* *
3004151 ACCGGTTTTCA
1 ACCGGTTCT-G
3004162 ACCGGTTCTG
1 ACCGGTTCTG
3004172 ACCGGTT-TCG
1 ACCGGTTCT-G
*
3004182 ACTGG-TCTG
1 ACCGGTTCTG
3004191 AACCGGTT-TG
1 -ACCGGTTCTG
3004201 ACC
1 ACC
3004204 CGACCGACCG
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
9 6 0.14
10 27 0.64
11 9 0.21
ACGTcount: A:0.14, C:0.29, G:0.27, T:0.30
Consensus pattern (10 bp):
ACCGGTTCTG
Found at i:3004156 original size:21 final size:21
Alignment explanation
Indices: 3004120--3004179 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
3004110 GGCTGCTGGA
*
3004120 AACCGGTT-TTACCGGTTTTC
1 AACCGGTTCTGACCGGTTTTC
3004140 AACCGGTTCTGACCGGTTTTC
1 AACCGGTTCTGACCGGTTTTC
3004161 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTGACCGGTTT
3004180 CGACTGGTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 8 0.21
21 30 0.79
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.35
Consensus pattern (21 bp):
AACCGGTTCTGACCGGTTTTC
Found at i:3004255 original size:17 final size:17
Alignment explanation
Indices: 3004198--3004244 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
3004188 CTGAACCGGT
3004198 TTGACCCGA-CCGACCG
1 TTGACCCGACCCGACCG
3004214 --G-CCCGACCCGACCG
1 TTGACCCGACCCGACCG
3004228 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
3004245 GACCGTTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 5 0.19
14 8 0.30
16 1 0.04
17 13 0.48
ACGTcount: A:0.17, C:0.49, G:0.26, T:0.09
Consensus pattern (17 bp):
TTGACCCGACCCGACCG
Found at i:3006561 original size:64 final size:62
Alignment explanation
Indices: 3006456--3006612 Score: 165
Period size: 64 Copynumber: 2.5 Consensus size: 62
3006446 TAATGAAGGT
* * * * *
3006456 ATGCATCGATGCACTACTGATACATCGGTGCATAAAATGCATTCGATG-TTGTATTATTATAGAG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATT-TTA-AAAG
* *
3006520 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATGTTTCTATTTTAAAAG
*
3006583 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
3006613 ACACCTTCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
63 5 0.06
64 67 0.84
65 8 0.10
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (62 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATTTTAAAAG
Found at i:3010202 original size:46 final size:46
Alignment explanation
Indices: 3010128--3010436 Score: 438
Period size: 46 Copynumber: 6.7 Consensus size: 46
3010118 TATATATGTG
* * * * *
3010128 TTCATGCATTTTAATCAGGGCATCCTTTCATGCCCTAATGCATCCT
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCAT
* * * *
3010174 TTCATGTATTTTAGTTATGGAATTCTTTCATGCCTTAAAGCATCAT
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCAT
* * *
3010220 TTCATGCATTTTAGTTACGTCATCCTTTCATACCTTAATGCATCAT
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCAT
* *
3010266 TTCATACATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTT
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCAT
*
3010312 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTT
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCAT
****
3010358 TTCATGCATTTTAGTTATGGCATCCTTTCATATGATAATGCATCAT
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCAT
*
3010404 TTCATGCATTTTAGTTATGGCATCTTTTCATGC
1 TTCATGCATTTTAGTTATGGCATCCTTTCATGC
3010437 ATTTTAGTTA
Statistics
Matches: 233, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 233 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (46 bp):
TTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCAT
Found at i:3010289 original size:72 final size:72
Alignment explanation
Indices: 3010213--3010508 Score: 292
Period size: 72 Copynumber: 4.2 Consensus size: 72
3010203 ATGCCTTAAA
* * * *
3010213 GCATCATTTCATGCATTTTAGTTACGTCATCCTTTCATACCTTAATGCATCATTTCATACATTTT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATACCTTAATGCATCATTTCATGCATTTT
3010278 AGTTATG
66 AGTTATG
* * ** *
3010285 GCATCCTTTCATGC--CTTA---AT-GCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATG
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCAT--ACCTTA---AT-GCATCATTTCATG
*
3010344 C--CTTA---AT-
60 CATTTTAGTTATG
* ***
3010351 GCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATATGATAATGCATCATTTCATGCATTTT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATACCTTAATGCATCATTTCATGCATTTT
3010416 AGTTATG
66 AGTTATG
* * *
3010423 GCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATACCTTAATACATCCTTTCATGCATTTT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATACCTTAATGCATCATTTCATGCATTTT
3010488 AGTTATG
66 AGTTATG
*
3010495 ACATCCTTTCATGC
1 GCATCCTTTCATGC
3010509 CTTAATGCAT
Statistics
Matches: 182, Mismatches: 24, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
66 36 0.20
67 5 0.03
68 10 0.05
70 10 0.05
71 6 0.03
72 115 0.63
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (72 bp):
GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATACCTTAATGCATCATTTCATGCATTTT
AGTTATG
Found at i:3010442 original size:164 final size:164
Alignment explanation
Indices: 3010259--3010587 Score: 541
Period size: 164 Copynumber: 2.0 Consensus size: 164
3010249 ATACCTTAAT
* * *
3010259 GCATCATTTCATACATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGCATTTT
1 GCATCATTTCATACATTTTAGTTATGGCATCCTTTCATACCTTAATACATCCTTTCATGCATTTT
* * *
3010324 AGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCAT
66 AGTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTCCAT
**
3010389 ATGATAATGCATCATTTCATGCATTTTAGTTATG
131 ACCATAATGCATCATTTCATGCATTTTAGTTATG
* *
3010423 GCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATACCTTAATACATCCTTTCATGCATTTT
1 GCATCATTTCATACATTTTAGTTATGGCATCCTTTCATACCTTAATACATCCTTTCATGCATTTT
*
3010488 AGTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGTATCCTTCCAT
66 AGTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTCCAT
* *
3010553 GCCTTAATGCATCATTTCATGCATTTTAGTTATG
131 ACCATAATGCATCATTTCATGCATTTTAGTTATG
3010587 G
1 G
3010588 ATTCGATTTA
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
164 152 1.00
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (164 bp):
GCATCATTTCATACATTTTAGTTATGGCATCCTTTCATACCTTAATACATCCTTTCATGCATTTT
AGTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTCCAT
ACCATAATGCATCATTTCATGCATTTTAGTTATG
Found at i:3010474 original size:138 final size:135
Alignment explanation
Indices: 3010128--3010482 Score: 358
Period size: 138 Copynumber: 2.6 Consensus size: 135
3010118 TATATATGTG
* * * * * * **
3010128 TTCATGCATTTTAATCAGGGCATCCTTTCATGCCCTAATGCATCCTTTCATGTATTTTAGTTATG
1 TTCATACATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCAT-CACCTTA--TAT-
* * *
3010193 GA-ATTCTTTCATGCCTTAAAGCATCATTTCATGCATTTTAGTTACGTCATCCTTTCATACCTTA
62 GACATCCTTTCATGCCTTAAAGCATCATTTCATGCATTTTAGTTACGGCATCCTTTCATACCATA
3010257 ATGCATCAT
127 ATGCATCAT
* **
3010266 TTCATACATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAGTTATG
1 TTCATACATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCAT-CACCTTA--TATG
* * * * **
3010331 GCATCCTTTCATGCCTTAATGCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATATGATAA
63 ACATCCTTTCATGCCTTAAAGCATCATTTCATGCATTTTAGTTACGGCATCCTTTCATACCATAA
3010396 TGCATCAT
128 TGCATCAT
* * *
3010404 TTCATGCATTTTAGTTATGGCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCAT-ACCTTA-
1 TTCATACATTTTAGTTATGGCATCCTTTCATGC--CTTA---AT-GCATCCTTTCATCACCTTAT
3010467 AT-ACATCCTTTCATGC
60 ATGACATCCTTTCATGC
3010483 ATTTTAGTTA
Statistics
Matches: 187, Mismatches: 23, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
137 1 0.01
138 164 0.88
139 2 0.01
140 3 0.02
142 4 0.02
143 2 0.01
144 11 0.06
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (135 bp):
TTCATACATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATCACCTTATATGACA
TCCTTTCATGCCTTAAAGCATCATTTCATGCATTTTAGTTACGGCATCCTTTCATACCATAATGC
ATCAT
Found at i:3010500 original size:46 final size:46
Alignment explanation
Indices: 3010423--3010587 Score: 267
Period size: 46 Copynumber: 3.6 Consensus size: 46
3010413 TTTAGTTATG
* *
3010423 GCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATACCTTAAT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
* *
3010469 ACATCCTTTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
* *
3010515 GCATCCTTTCATGCATTTTAGTTATGGTATCCTTCCATGCCTTAAT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
*
3010561 GCATCATTTCATGCATTTTAGTTATGG
1 GCATCCTTTCATGCATTTTAGTTATGG
3010588 ATTCGATTTA
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 110 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAAT
Found at i:3010530 original size:118 final size:118
Alignment explanation
Indices: 3010305--3010541 Score: 393
Period size: 118 Copynumber: 2.0 Consensus size: 118
3010295 ATGCCTTAAT
* * *
3010305 GCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCTTTTCATGCATTTT
1 GCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATACCTTAATACATCCTTTCATGCATTTT
* **
3010370 AGTTATGGCATCCTTTCATATGATAATGCATCATTTCATGCATTTTAGTTATG
66 AGTTATGACATCCTTTCATACCATAATGCATCATTTCATGCATTTTAGTTATG
3010423 GCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATACCTTAATACATCCTTTCATGCATTTT
1 GCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATACCTTAATACATCCTTTCATGCATTTT
* * *
3010488 AGTTATGACATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATG
66 AGTTATGACATCCTTTCATACCATAATGCATCATTTCATGCATTTTAGTTATG
3010541 G
1 G
3010542 TATCCTTCCA
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 110 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (118 bp):
GCATCTTTTCATGCATTTTAGTTATGGCATCCTTTCATACCTTAATACATCCTTTCATGCATTTT
AGTTATGACATCCTTTCATACCATAATGCATCATTTCATGCATTTTAGTTATG
Found at i:3010553 original size:26 final size:26
Alignment explanation
Indices: 3010167--3010587 Score: 245
Period size: 26 Copynumber: 18.0 Consensus size: 26
3010157 ATGCCCTAAT
*
3010167 GCATCCTTTCATGTATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
* * * *
3010193 GAATTCTTTCATGC--CTTA---A-A
1 GCATCCTTTCATGCATTTTAGTTATG
* *
3010213 GCATCATTTCATGCATTTTAGTTACG
1 GCATCCTTTCATGCATTTTAGTTATG
* **
3010239 TCATCCTTTCAT--ACCTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
* *
3010259 GCATCATTTCATACATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
3010285 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
*
3010305 GCATCTTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
3010331 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
*
3010351 GCATCTTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
* *
3010377 GCATCCTTTCAT--A--TGA-TAAT-
1 GCATCCTTTCATGCATTTTAGTTATG
*
3010397 GCATCATTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
3010423 GCATCTTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
**
3010449 GCATCCTTTCAT--ACCTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
*
3010469 ACATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
* *
3010495 ACATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
3010515 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
* * *
3010541 GTATCCTTCCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
*
3010561 GCATCATTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
3010587 G
1 G
3010588 ATTCGATTTA
Statistics
Matches: 296, Mismatches: 51, Indels: 96
0.67 0.12 0.22
Matches are distributed among these distances:
20 93 0.31
21 15 0.05
22 26 0.09
24 26 0.09
25 16 0.05
26 120 0.41
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.45
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTAGTTATG
Found at i:3014878 original size:2 final size:2
Alignment explanation
Indices: 3014873--3014923 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
3014863 TCTCCTGCAA
3014873 AT 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 AT
3014915 AT AT AT AT A
1 AT AT AT AT A
3014924 CGATATGCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3024871 original size:23 final size:23
Alignment explanation
Indices: 3024845--3024889 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3024835 CACCACAGCT
*
3024845 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
3024868 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
3024890 ATATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:3025127 original size:149 final size:149
Alignment explanation
Indices: 3024857--3025171 Score: 537
Period size: 149 Copynumber: 2.1 Consensus size: 149
3024847 TATAATTGCA
3024857 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
*
3024921 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGCGTCTTTCCAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGCGTCTATCCAGACTTCACACATGTT
*
3024986 CCAAAGAATATACATATGTC
130 CCAAAGAATATACATATATC
3025006 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
* *
3025071 TCCTTAAGAATCATATACATATGCTAGGGATCATA-TATGTGTCTCAT-CAGACTTCACACATGT
66 TCCTTAAGAATCATATACATATACTAGGGATCA-AGTATGCGTCT-ATCCAGACTTCACACATGT
*
3025134 TCCAAAGAATATATATATATC
129 TCCAAAGAATATACATATATC
3025155 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
3025172 CCCTCGACTC
Statistics
Matches: 158, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
148 1 0.01
149 155 0.98
150 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGCGTCTATCCAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:3026079 original size:18 final size:18
Alignment explanation
Indices: 3026058--3026092 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3026048 TCCCATCTAG
3026058 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
3026076 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
3026093 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:3028828 original size:20 final size:21
Alignment explanation
Indices: 3028805--3028852 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
3028795 TTATCTTTGG
*
3028805 AGAAAAAGATA-AAATAGA-AA
1 AGAAAAAGA-AGAAATAAATAA
3028825 AGAAAAA-AAGAAATAAATAA
1 AGAAAAAGAAGAAATAAATAA
3028845 AGAAAAAG
1 AGAAAAAG
3028853 GGAAAATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 7 0.29
20 16 0.67
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (21 bp):
AGAAAAAGAAGAAATAAATAA
Found at i:3032326 original size:15 final size:14
Alignment explanation
Indices: 3032306--3032344 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
3032296 TTCTCTTTTC
3032306 TCTTTTTTCTTTGGT
1 TCTTTTTTCTTT-GT
*
3032321 TCTTTTTCTCTTTTT
1 TCTTTTT-TCTTTGT
3032336 TCTTTTTTC
1 TCTTTTTTC
3032345 AATTTAGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 15 0.68
16 5 0.23
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (14 bp):
TCTTTTTTCTTTGT
Found at i:3032329 original size:23 final size:24
Alignment explanation
Indices: 3032296--3032340 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
3032286 CCCACCTTAT
3032296 TTCTCTTTTCTCTTTTTTCTTTGG
1 TTCTCTTTTCTCTTTTTTCTTTGG
3032320 TTCT-TTTTCTCTTTTTTCTTT
1 TTCTCTTTTCTCTTTTTTCTTT
3032341 TTTCAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (24 bp):
TTCTCTTTTCTCTTTTTTCTTTGG
Found at i:3032342 original size:7 final size:7
Alignment explanation
Indices: 3032299--3032344 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
3032289 ACCTTATTTC
*
3032299 TCTTTTC
1 TCTTTTT
3032306 TCTTTTT
1 TCTTTTT
*
3032313 TCTTTGGT
1 TCTTT-TT
3032321 TCTTTTT
1 TCTTTTT
3032328 CTCTTTTT
1 -TCTTTTT
3032336 TCTTTTT
1 TCTTTTT
3032343 TC
1 TC
3032345 AATTTAGGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (7 bp):
TCTTTTT
Found at i:3042790 original size:36 final size:33
Alignment explanation
Indices: 3042709--3042790 Score: 83
Period size: 34 Copynumber: 2.3 Consensus size: 33
3042699 TATAACAACA
*
3042709 ATAATATCAATAAAAAATAGAAAATAAATATAAT
1 ATAATAT-AATAAAAAATAGAAAATAAATAAAAT
* * *
3042743 ATAATGGTAATAAAAATATAGCAAATTAATAGAAAT
1 ATAAT-ATAATAAAAA-ATAGAAAATAAATA-AAAT
3042779 ATATATATAATA
1 ATA-ATATAATA
3042791 TTATAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
34 13 0.33
35 13 0.33
36 11 0.28
37 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (33 bp):
ATAATATAATAAAAAATAGAAAATAAATAAAAT
Found at i:3042916 original size:17 final size:16
Alignment explanation
Indices: 3042870--3042918 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
3042860 TAATAGGTAT
3042870 ACAAAATAAATATATA
1 ACAAAATAAATATATA
**
3042886 A-AAAATGTATATATA
1 ACAAAATAAATATATA
3042901 ACAAAATAAATAATATA
1 ACAAAATAAAT-ATATA
3042918 A
1 A
3042919 ATAATAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 13 0.48
16 8 0.30
17 6 0.22
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (16 bp):
ACAAAATAAATATATA
Found at i:3053278 original size:42 final size:42
Alignment explanation
Indices: 3053231--3053314 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
3053221 CTCGAAATCT
*
3053231 CGTGTTTGTTTCA-CGTAATTCGTTTTCCGAAAAATATTTTCC
1 CGTGTTTATTTCATC-TAATTCGTTTTCCGAAAAATATTTTCC
** *
3053273 CGTGTTTATTTCATCTAATTCGTTTTTTGAAAAATGTTTTCC
1 CGTGTTTATTTCATCTAATTCGTTTTCCGAAAAATATTTTCC
3053315 AATGTTTGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (42 bp):
CGTGTTTATTTCATCTAATTCGTTTTCCGAAAAATATTTTCC
Found at i:3053583 original size:22 final size:23
Alignment explanation
Indices: 3053553--3053599 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
3053543 AAAATATATT
3053553 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
*
3053576 TATT-ATATTTTTAATAATATAA
1 TATTAATATTTCTAATAATATAA
3053598 TA
1 TA
3053600 AAATAATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:3053759 original size:27 final size:27
Alignment explanation
Indices: 3053679--3053764 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
3053669 AATAAAATTT
* *
3053679 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
3053706 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
3053733 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
3053762 ATA
1 ATA
3053765 ATCTAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:3053947 original size:27 final size:26
Alignment explanation
Indices: 3053917--3053993 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
3053907 ATTATAAAAA
3053917 TAATATTTAATAATAAATAAATTATTT
1 TAATATTT-ATAATAAATAAATTATTT
* *
3053944 TAATATTT-TAA-AAAT-AATAATAT
1 TAATATTTATAATAAATAAATTATTT
*
3053967 TAA-ATTTTATGATAAATAATATTATTT
1 TAATA-TTTATAATAAATAA-ATTATTT
3053994 ATTGTATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
22 1 0.03
23 12 0.30
24 6 0.15
25 7 0.17
26 1 0.03
27 13 0.32
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (26 bp):
TAATATTTATAATAAATAAATTATTT
Found at i:3054196 original size:15 final size:14
Alignment explanation
Indices: 3054162--3054220 Score: 82
Period size: 14 Copynumber: 4.1 Consensus size: 14
3054152 CTTGAAATGT
*
3054162 AATTCATTTTCCAG
1 AATTCAATTTCCAG
*
3054176 AATTCAAATTCCAG
1 AATTCAATTTCCAG
*
3054190 TAATTCATTTTCCAG
1 -AATTCAATTTCCAG
3054205 AATTCAATTTCCAG
1 AATTCAATTTCCAG
3054219 AA
1 AA
3054221 AACCAATTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 27 0.69
15 12 0.31
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:3054202 original size:29 final size:29
Alignment explanation
Indices: 3054160--3054218 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
3054150 TTCTTGAAAT
3054160 GTAATTCATTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
*
3054189 GTAATTCATTTTCCAGAATTCAATTTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
3054218 G
1 G
3054219 AAAACCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.39
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCCA
Found at i:3054265 original size:15 final size:15
Alignment explanation
Indices: 3054245--3054291 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
3054235 AAACAAACAG
*
3054245 TTACTGTAATTTGAA
1 TTACTGGAATTTGAA
**
3054260 TTACTGGAAAATGAA
1 TTACTGGAATTTGAA
3054275 TTACTGGAATTTGAA
1 TTACTGGAATTTGAA
3054290 TT
1 TT
3054292 TTGGAAAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.40
Consensus pattern (15 bp):
TTACTGGAATTTGAA
Found at i:3054303 original size:14 final size:15
Alignment explanation
Indices: 3054256--3054306 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
3054246 TACTGTAATT
3054256 TGAATTACTGGAAAA
1 TGAATTACTGGAAAA
**
3054271 TGAATTACTGGAATT
1 TGAATTACTGGAAAA
*
3054286 TGAATT-TTGGAAAA
1 TGAATTACTGGAAAA
3054300 TGAATTA
1 TGAATTA
3054307 TATTTCTGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAAAA
Found at i:3054306 original size:29 final size:30
Alignment explanation
Indices: 3054245--3054306 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
3054235 AAACAAACAG
*
3054245 TTACTGTAATTTGAATTACTGGAAAATGAA
1 TTACTGGAATTTGAATTACTGGAAAATGAA
*
3054275 TTACTGGAATTTGAATT-TTGGAAAATGAA
1 TTACTGGAATTTGAATTACTGGAAAATGAA
3054304 TTA
1 TTA
3054307 TATTTCTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.39
Consensus pattern (30 bp):
TTACTGGAATTTGAATTACTGGAAAATGAA
Found at i:3054720 original size:24 final size:23
Alignment explanation
Indices: 3054677--3054722 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
3054667 ATTAATTAGT
*
3054677 ATATTTTAATTATCTTTATTAAA
1 ATATTTTAATTATCTATATTAAA
3054700 ATATCTTTAGATTAT-TATATTAA
1 ATAT-TTTA-ATTATCTATATTAA
3054723 TATTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
ATATTTTAATTATCTATATTAAA
Found at i:3054761 original size:28 final size:30
Alignment explanation
Indices: 3054710--3054821 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 30
3054700 ATATCTTTAG
*
3054710 ATTATTATAT-TAATATTAAATATATAAATA
1 ATTATTATATAT-TTATTAAATATATAAATA
*
3054740 A-TATTAT-TCA-TTATTAAATATATAAAAA
1 ATTATTATAT-ATTTATTAAATATATAAATA
*
3054768 ATTATTATATATTTATTAAA-ATAAAAATA
1 ATTATTATATATTTATTAAATATATAAATA
*
3054797 TAATATCT-TATA-TTATTATAATATA
1 -ATTAT-TATATATTTATTA-AATATA
3054822 ATTGATTATT
Statistics
Matches: 68, Mismatches: 5, Indels: 17
0.76 0.06 0.19
Matches are distributed among these distances:
28 18 0.26
29 26 0.38
30 20 0.29
31 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
ATTATTATATATTTATTAAATATATAAATA
Found at i:3054855 original size:14 final size:14
Alignment explanation
Indices: 3054836--3054885 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 14
3054826 ATTATTTTAT
3054836 TATAATATTAAAAA
1 TATAATATTAAAAA
*
3054850 TATAATATTATAATAT
1 TATAATATTA-AA-AA
3054866 TATAAATATTAATAAA
1 TAT-AATATTAA-AAA
3054882 TATA
1 TATA
3054886 TTTTAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 10 0.33
15 3 0.10
16 9 0.30
17 8 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TATAATATTAAAAA
Found at i:3054861 original size:22 final size:23
Alignment explanation
Indices: 3054833--3054879 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
3054823 TTGATTATTT
3054833 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
*
3054855 TATTATAATATTATAAATATTAA
1 TATTATAATATTAAAAATATTAA
3054878 TA
1 TA
3054880 AATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:3054867 original size:30 final size:29
Alignment explanation
Indices: 3054833--3054909 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
3054823 TTGATTATTT
3054833 TATTATAATATTAA-AAATATAATATTATAA
1 TATTATAATATTAATAAATAT-ATATTA-AA
*
3054863 TATTATAAATATTAATAAATATATTTTAAA
1 TATTAT-AATATTAATAAATATATATTAAA
*
3054893 TATTTTAATAATTAATA
1 TATTATAAT-ATTAATA
3054910 TTTTGATGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 3 0.07
30 20 0.48
31 13 0.31
32 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TATTATAATATTAATAAATATATATTAAA
Found at i:3054869 original size:8 final size:8
Alignment explanation
Indices: 3054833--3054876 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
3054823 TTGATTATTT
3054833 TATTATAA
1 TATTATAA
3054841 TATTA-AA
1 TATTATAA
*
3054848 -AATATAA
1 TATTATAA
3054855 TATTATAA
1 TATTATAA
3054863 TATTATAAA
1 TATTAT-AA
3054872 TATTA
1 TATTA
3054877 ATAAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 3 0.10
7 4 0.13
8 17 0.55
9 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TATTATAA
Found at i:3054882 original size:10 final size:9
Alignment explanation
Indices: 3054833--3054884 Score: 53
Period size: 8 Copynumber: 6.3 Consensus size: 9
3054823 TTGATTATTT
3054833 TATTAT-AA
1 TATTATAAA
3054841 TATTA-AAA
1 TATTATAAA
3054849 -A-TAT-AA
1 TATTATAAA
3054855 TATTAT-AA
1 TATTATAAA
3054863 TATTATAAA
1 TATTATAAA
3054872 TATTAATAAA
1 TATT-ATAAA
3054882 TAT
1 TAT
3054885 ATTTTAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
6 4 0.11
7 2 0.05
8 18 0.47
9 6 0.16
10 8 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TATTATAAA
Found at i:3054900 original size:23 final size:22
Alignment explanation
Indices: 3054837--3054913 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
3054827 TTATTTTATT
** *
3054837 ATAATATTAAAAATA-TAATATT
1 ATAATATTTTAAATATTAATA-A
*
3054859 ATAATATTATAAATATTAATAA
1 ATAATATTTTAAATATTAATAA
3054881 AT-ATATTTTAAATATTTTAATAA
1 ATAATATTTTAAATA--TTAATAA
*
3054904 TTAATATTTT
1 ATAATATTTT
3054914 GATGAAAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 11 0.23
22 16 0.34
23 13 0.28
24 7 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATATTTTAAATATTAATAA
Found at i:3055593 original size:35 final size:34
Alignment explanation
Indices: 3055547--3055657 Score: 141
Period size: 35 Copynumber: 3.2 Consensus size: 34
3055537 AAAATAGTCC
*
3055547 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAA-TAAT
* *
3055582 TCAATTTCATTCTAAACCCTAAATTCCAAAAAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAATAAT
** * *
3055616 TCAATTAAATTCTAAACCCCAAATTCTAAAATACT
1 TCAATTTCATTCTAAACCCCAAATTC-CAAATAAT
3055651 TCAATTT
1 TCAATTT
3055658 AAGGTTGTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
34 26 0.40
35 39 0.60
ACGTcount: A:0.41, C:0.23, G:0.01, T:0.34
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAATAAT
Found at i:3055628 original size:34 final size:34
Alignment explanation
Indices: 3055555--3055656 Score: 123
Period size: 34 Copynumber: 2.9 Consensus size: 34
3055545 CCTCAATTTC
* * **
3055555 ATTCTAAACCCCAATTTCCAAAGTAATTCAATTTC
1 ATTCTAAACCCCAAATTCCAAA-AAATTCAATTAA
*
3055590 ATTCTAAACCCTAAATTCCAAAAAATTCAATTAA
1 ATTCTAAACCCCAAATTCCAAAAAATTCAATTAA
* *
3055624 ATTCTAAACCCCAAATTCTAAAATACTTCAATT
1 ATTCTAAACCCCAAATTCCAAAA-AATTCAATT
3055657 TAAGGTTGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
34 30 0.52
35 28 0.48
ACGTcount: A:0.43, C:0.24, G:0.01, T:0.32
Consensus pattern (34 bp):
ATTCTAAACCCCAAATTCCAAAAAATTCAATTAA
Found at i:3060948 original size:18 final size:18
Alignment explanation
Indices: 3060925--3060963 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
3060915 TGCTTATGTG
3060925 CTAGATTTCAATCATATC
1 CTAGATTTCAATCATATC
*
3060943 CTAGATTTCAATCATGTC
1 CTAGATTTCAATCATATC
3060961 CTA
1 CTA
3060964 AGAAATCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (18 bp):
CTAGATTTCAATCATATC
Found at i:3061817 original size:22 final size:19
Alignment explanation
Indices: 3061791--3061847 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
3061781 ATAAGGCAGA
3061791 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCC-T--AG
* *
3061813 GGGAACCGATTCCCCCTAG
1 GGGAATCGATACCCCCTAG
3061832 GGGAATCGATACCCCC
1 GGGAATCGATACCCCC
3061848 CTGGGGTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 16 0.52
21 1 0.03
22 14 0.45
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (19 bp):
GGGAATCGATACCCCCTAG
Found at i:3065313 original size:35 final size:35
Alignment explanation
Indices: 3065252--3065319 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
3065242 ACTCAACAAA
* * *
3065252 GGTTTAGAATGTAATTGAATTATTTTGGAATTTAG
1 GGTTTAGAATGAAATTGAAGTATTTTGAAATTTAG
*
3065287 GGTTTAGAATGAAATT-AAGGTGTTTTGAAATTT
1 GGTTTAGAATGAAATTGAA-GTATTTTGAAATTT
3065320 TGAACATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.07
35 26 0.93
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (35 bp):
GGTTTAGAATGAAATTGAAGTATTTTGAAATTTAG
Found at i:3067515 original size:40 final size:40
Alignment explanation
Indices: 3067459--3067539 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
3067449 TTTTGATAAT
*
3067459 TCTCTTTTCACCAGAACAAGCTGAAAGAAGAATACAAACC
1 TCTCTTTTCACCAGAACAAGCTGAAAGAAGAATAAAAACC
* *
3067499 TCTCTTTTCACTAGAACAAGCTGGAAGAAGAATAAAAACC
1 TCTCTTTTCACCAGAACAAGCTGAAAGAAGAATAAAAACC
3067539 T
1 T
3067540 TGGGACCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (40 bp):
TCTCTTTTCACCAGAACAAGCTGAAAGAAGAATAAAAACC
Found at i:3075603 original size:19 final size:19
Alignment explanation
Indices: 3075542--3075595 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
3075532 GGTCAGATTG
* * *
3075542 GTCAATAGTCAATGGGTCGA
1 GTCAA-AGTCAACGGGCCAA
3075562 GTCAAAGTCAACGGGCCAA
1 GTCAAAGTCAACGGGCCAA
*
3075581 GTCAAAGTTAACGGG
1 GTCAAAGTCAACGGG
3075596 TTAGGTCAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 25 0.83
20 5 0.17
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.19
Consensus pattern (19 bp):
GTCAAAGTCAACGGGCCAA
Found at i:3077476 original size:2 final size:2
Alignment explanation
Indices: 3077469--3077512 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
3077459 TAAAACAATT
3077469 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3077511 TA
1 TA
3077513 AAAGTAGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3080560 original size:29 final size:29
Alignment explanation
Indices: 3080514--3080595 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
3080504 GACTTTTTTG
* *
3080514 GTCAAAATCAACGTTCAACGGTTAGACCA
1 GTCAAAATTAACGGTCAACGGTTAGACCA
* ** * * *
3080543 GTCAAAGTTAACGGTCAATTGTCAGATCG
1 GTCAAAATTAACGGTCAACGGTTAGACCA
3080572 GTCAAAATTAACGGTCAACAGGTT
1 GTCAAAATTAACGGTCAAC-GGTT
3080596 GGTCAAAGTC
Statistics
Matches: 40, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
29 38 0.95
30 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (29 bp):
GTCAAAATTAACGGTCAACGGTTAGACCA
Found at i:3080608 original size:18 final size:19
Alignment explanation
Indices: 3080585--3080623 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
3080575 AAAATTAACG
*
3080585 GTCAACAGGT-TGGTCAAA
1 GTCAACAGGTCGGGTCAAA
*
3080603 GTCAACGGGTCGGGTCAAA
1 GTCAACAGGTCGGGTCAAA
3080622 GT
1 GT
3080624 TAACGTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.21
Consensus pattern (19 bp):
GTCAACAGGTCGGGTCAAA
Found at i:3088579 original size:22 final size:23
Alignment explanation
Indices: 3088554--3088596 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
3088544 TCTTTTTACA
3088554 TGATCATATTT-TTAT-TATTTAG
1 TGATCA-ATTTATTATGTATTTAG
*
3088576 TGATTAATTTATTATGTATTT
1 TGATCAATTTATTATGTATTT
3088597 TTTTATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (23 bp):
TGATCAATTTATTATGTATTTAG
Found at i:3108866 original size:16 final size:16
Alignment explanation
Indices: 3108833--3108872 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
3108823 GTTTACTTTA
3108833 GAATGATT-AAGAGTT
1 GAATGATTCAAGAGTT
3108848 GAATGATTCAA-ATGTT
1 GAATGATTCAAGA-GTT
3108864 GAATG-TTCA
1 GAATGATTCA
3108873 GAGGCTCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (16 bp):
GAATGATTCAAGAGTT
Found at i:3117735 original size:29 final size:27
Alignment explanation
Indices: 3117591--3117773 Score: 106
Period size: 29 Copynumber: 6.4 Consensus size: 27
3117581 GATCAGATGA
* *
3117591 TATTTTAGTAATTATTTTGAAATTGGTGG
1 TATTTT-GTAATTATTTTGAAAAT-GTGC
* *
3117620 TATTTTGGTAATTATTTTAAAAAAAAGTGC
1 TATTTT-GTAATTATTTT--GAAAATGTGC
* *
3117650 TATTTTTGTAAATTTTTTTTAAAATGAT--
1 TA-TTTTGT-AATTATTTTGAAAATG-TGC
* * ** *
3117678 AATTTTG--ATT-TTTTAAAAAAAATGA
1 TATTTTGTAATTATTTT-GAAAATGTGC
3117703 TATTTTAGTAATTATTTTGAAAATTGTGC
1 TATTTT-GTAATTATTTTGAAAA-TGTGC
3117732 TATTTTGATAATTATTTTGAAAATGCTGC
1 TATTTTG-TAATTATTTTGAAAATG-TGC
3117761 TATTTTTGTAATT
1 TA-TTTTGTAATT
3117774 TTTAAAAAAG
Statistics
Matches: 121, Mismatches: 17, Indels: 32
0.71 0.10 0.19
Matches are distributed among these distances:
23 5 0.04
24 7 0.06
25 5 0.04
26 1 0.01
27 5 0.04
28 11 0.09
29 59 0.49
30 13 0.11
31 15 0.12
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (27 bp):
TATTTTGTAATTATTTTGAAAATGTGC
Found at i:3119385 original size:20 final size:22
Alignment explanation
Indices: 3119340--3119397 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
3119330 GCATGGATAG
3119340 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
3119364 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
* *
3119384 TGTACCGATGCACT
1 TGCATCGATGCACT
3119398 TCAATGGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 2 0.06
24 13 0.41
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:3120317 original size:18 final size:18
Alignment explanation
Indices: 3120294--3120454 Score: 250
Period size: 18 Copynumber: 8.9 Consensus size: 18
3120284 GTTCTTAAGG
*
3120294 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAC
3120312 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
*
3120330 AATGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
3120348 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
*
3120366 AATGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
3120384 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
*
3120402 AGTGGTCCTTAGGGACAC
1 AGTGGTCCTTCGGGACAC
* *
3120420 AGTGGTCCTTCGAGACAT
1 AGTGGTCCTTCGGGACAC
* *
3120438 AGTGATCCTACGGGACA
1 AGTGGTCCTTCGGGACA
3120455 AATTCTACGT
Statistics
Matches: 131, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 131 1.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.23
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAC
Found at i:3124009 original size:21 final size:20
Alignment explanation
Indices: 3123985--3124024 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3123975 TTCTTTTATA
* *
3123985 ATGTTATATGATATGTTATGT
1 ATGTTAAATGA-ATGATATGT
3124006 ATGTTAAATGAATGATATG
1 ATGTTAAATGAATGATATG
3124025 AATACATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
ATGTTAAATGAATGATATGT
Found at i:3124115 original size:15 final size:14
Alignment explanation
Indices: 3124080--3124106 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3124070 GAAGGGATTG
3124080 TATGAGAACATGTA
1 TATGAGAACATGTA
3124094 TATGAGAACATGT
1 TATGAGAACATGT
3124107 TTTATGAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (14 bp):
TATGAGAACATGTA
Found at i:3124457 original size:17 final size:18
Alignment explanation
Indices: 3124423--3124545 Score: 196
Period size: 18 Copynumber: 6.9 Consensus size: 18
3124413 GTTCTTAAGG
3124423 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
3124441 AGTGGTCCTTC-GGACAC
1 AGTGGTCCTTCGGGACAC
3124458 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
3124476 AGTGGT-CTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
3124493 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
* *
3124511 AATGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAC
* *
3124529 AGTGATCCTACGGGACA
1 AGTGGTCCTTCGGGACA
3124546 AATTCTACGC
Statistics
Matches: 98, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
17 34 0.35
18 64 0.65
ACGTcount: A:0.20, C:0.26, G:0.32, T:0.23
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAC
Found at i:3124462 original size:35 final size:36
Alignment explanation
Indices: 3124423--3124545 Score: 196
Period size: 35 Copynumber: 3.5 Consensus size: 36
3124413 GTTCTTAAGG
3124423 AGTGGTCCTTCGGGACACAGTGGTCCTTC-GGACAC
1 AGTGGTCCTTCGGGACACAGTGGTCCTTCGGGACAC
3124458 AGTGGTCCTTCGGGACACAGTGGT-CTTCGGGACAC
1 AGTGGTCCTTCGGGACACAGTGGTCCTTCGGGACAC
* *
3124493 AGTGGTCCTTCGGGACACAATGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACACAGTGGTCCTTCGGGACAC
* *
3124529 AGTGATCCTACGGGACA
1 AGTGGTCCTTCGGGACA
3124546 AATTCTACGC
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
34 4 0.05
35 53 0.65
36 25 0.30
ACGTcount: A:0.20, C:0.26, G:0.32, T:0.23
Consensus pattern (36 bp):
AGTGGTCCTTCGGGACACAGTGGTCCTTCGGGACAC
Found at i:3125744 original size:10 final size:9
Alignment explanation
Indices: 3125722--3125746 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3125712 AATCCCAAAT
3125722 AAAAAATTG
1 AAAAAATTG
3125731 AAAAAATTG
1 AAAAAATTG
3125740 AAAAAAT
1 AAAAAAT
3125747 ATTTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (9 bp):
AAAAAATTG
Found at i:3133897 original size:24 final size:24
Alignment explanation
Indices: 3133865--3133989 Score: 137
Period size: 24 Copynumber: 5.2 Consensus size: 24
3133855 TTTTCGATTT
*
3133865 GATTACTGATCTGATACTTGACATA
1 GATT-CTGATCTGATACTTGACATG
*
3133890 GATTCTGATCTGATA-TCTGACGTG
1 GATTCTGATCTGATACT-TGACATG
* *
3133914 GATTCTGATCTAATACTTGACTTG
1 GATTCTGATCTGATACTTGACATG
*
3133938 GATTCTGATC-GAATACTTGACCTG
1 GATTCTGATCTG-ATACTTGACATG
* * *
3133962 GATTTTGATATGATACTTGACCTG
1 GATTCTGATCTGATACTTGACATG
3133986 GATT
1 GATT
3133990 ATGTTTTGAT
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
23 1 0.01
24 81 0.92
25 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (24 bp):
GATTCTGATCTGATACTTGACATG
Found at i:3136054 original size:10 final size:10
Alignment explanation
Indices: 3136039--3136063 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3136029 ACATCAAAAA
3136039 GTGAAAGTGT
1 GTGAAAGTGT
3136049 GTGAAAGTGT
1 GTGAAAGTGT
3136059 GTGAA
1 GTGAA
3136064 CATTATTAGG
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:0.32, C:0.00, G:0.40, T:0.28
Consensus pattern (10 bp):
GTGAAAGTGT
Found at i:3137347 original size:60 final size:60
Alignment explanation
Indices: 3137221--3137339 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 60
3137211 TAGTTAGGTG
* * * * * ** *
3137221 ACCATTTTGTAACTTTTAATAGTTGAGGGACTTAACAAGGTAACATTCTATAGTCGGAGA
1 ACCATTTTATAACTTCTAATAGTCGAGGGACTTAACAAAGCAACACCCTATAATCGGAGA
*
3137281 ACCATTTTATAACTTCTAATAGTCG-GGTGACTTAATAAAGCAACACCCTATAATCGGAG
1 ACCATTTTATAACTTCTAATAGTCGAGG-GACTTAACAAAGCAACACCCTATAATCGGAG
3137340 GGCCATTTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 2 0.04
60 47 0.96
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (60 bp):
ACCATTTTATAACTTCTAATAGTCGAGGGACTTAACAAAGCAACACCCTATAATCGGAGA
Found at i:3149729 original size:29 final size:28
Alignment explanation
Indices: 3149652--3149729 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 28
3149642 TAAATATATG
*
3149652 TTTAATTTTTATATTATATTCATAAATAA
1 TTTAAATTTTATATT-TATTCATAAATAA
* *
3149681 ---AAATTTTA-ATATATTGATAAATGAA
1 TTTAAATTTTATATTTATTCATAAAT-AA
* *
3149706 TTTAACTTTTATATTTATTTATAA
1 TTTAAATTTTATATTTATTCATAA
3149730 TTGATTAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
24 10 0.26
25 4 0.11
26 7 0.18
28 7 0.18
29 10 0.26
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (28 bp):
TTTAAATTTTATATTTATTCATAAATAA
Found at i:3152386 original size:17 final size:16
Alignment explanation
Indices: 3152363--3152405 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
3152353 AGATTTTAGA
*
3152363 TTTAAATAATTATATT
1 TTTAAATAATTACATT
3152379 TATTAAATAA-TACATT
1 T-TTAAATAATTACATT
3152395 TTT-AATAATTA
1 TTTAAATAATTA
3152406 AAAATAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.21
15 4 0.17
16 7 0.29
17 8 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAATAATTACATT
Found at i:3162349 original size:15 final size:15
Alignment explanation
Indices: 3162322--3162366 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
3162312 CTTACATGTA
*
3162322 CATGAATACATAATATG
1 CATGAA-ACATAAGA-G
3162339 CAT-AAACATAAGAG
1 CATGAAACATAAGAG
3162353 CATGAAACATAAGA
1 CATGAAACATAAGA
3162367 TATATATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 4 0.15
15 17 0.65
16 2 0.08
17 3 0.12
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (15 bp):
CATGAAACATAAGAG
Found at i:3167245 original size:13 final size:13
Alignment explanation
Indices: 3167227--3167254 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3167217 AATCAAACTA
3167227 TTGACCATTGACT
1 TTGACCATTGACT
3167240 TTGACCATTGACT
1 TTGACCATTGACT
3167253 TT
1 TT
3167255 TTCTGTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGACCATTGACT
Found at i:3167908 original size:42 final size:42
Alignment explanation
Indices: 3167794--3167938 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 42
3167784 CTGCATGGGA
*
3167794 TCCTCTACGGAGGGCATAATCCCTATCCTAATTCTACATGAG
1 TCCTCTAGGGAGGGCATAATCCCTATCCTAATTCTACATGAG
* * *
3167836 --ATCTATGGAGGGCATAATCCCTATCCTAATTCTATATGAG
1 TCCTCTAGGGAGGGCATAATCCCTATCCTAATTCTACATGAG
* * *
3167876 TTCCTCTAGGGA-GGCATAATCCCCT-TCTTAATTCTGCATGTG
1 -TCCTCTAGGGAGGGCATAAT-CCCTATCCTAATTCTACATGAG
3167918 ATCCTCTACGGGA--GCATAATC
1 -TCCTCTA-GGGAGGGCATAATC
3167939 TCCATCCCGT
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
40 37 0.42
41 1 0.01
42 35 0.40
43 15 0.17
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (42 bp):
TCCTCTAGGGAGGGCATAATCCCTATCCTAATTCTACATGAG
Found at i:3169831 original size:222 final size:222
Alignment explanation
Indices: 3169439--3169885 Score: 862
Period size: 222 Copynumber: 2.0 Consensus size: 222
3169429 ATAAGATCTT
3169439 AATATCAATCTCAAGCCCAAGCAAAGTAAAAGTCCAACAGACCCATTGCCTGAACCAACCAAGGT
1 AATATCAATCTCAAGCCCAAGCAAAGTAAAAGTCCAACAGACCCATTGCCTGAACCAACCAAGGT
3169504 CCAAATTGAACTGGGTCAATCCAACCCAAGCAATCCGGCAATTTTGACCCATTATGACAGCCCAG
66 CCAAATTGAACTGGGTCAATCCAACCCAAGCAATCCGGCAATTTTGACCCATTATGACAGCCCAG
3169569 AATTCTTTTTTTAGGAAATTAGAGCACTTTGACTTTTTAATTTGAGATCTACGGCGGTTGCTACA
131 AATTCTTTTTTTAGGAAATTAGAGCACTTTGACTTTTTAATTTGAGATCTACGGCGGTTGCTACA
3169634 GTAATTAATTCGTTAAATACTATAGCA
196 GTAATTAATTCGTTAAATACTATAGCA
3169661 AATATCAATCTCAAGCCCAAGCAAAGTAAAAGTCCAACAGACCCATTGCCTGAACCAACCAAGGT
1 AATATCAATCTCAAGCCCAAGCAAAGTAAAAGTCCAACAGACCCATTGCCTGAACCAACCAAGGT
3169726 CCAAATTGAACTGGGTCAATCCAAACCCAAGCAATCCGGCCAATTTTGACCCATTATGACAGCCC
66 CCAAATTGAACTGGGTCAATCC-AACCCAAGCAATCCGG-CAATTTTGACCCATTATGACAGCCC
3169791 AGAATTC-TTTTTTAGGAAATTAGAGCACTTTGAC-TTTTAATTTGAGATCTACGGCGGTTGCTA
129 AGAATTCTTTTTTTAGGAAATTAGAGCACTTTGACTTTTTAATTTGAGATCTACGGCGGTTGCTA
3169854 CAGTAATTAATTCGTTAAATACTATAGCA
194 CAGTAATTAATTCGTTAAATACTATAGCA
3169883 AAT
1 AAT
3169886 GTGGTACAAC
Statistics
Matches: 223, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
222 148 0.66
223 43 0.19
224 32 0.14
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (222 bp):
AATATCAATCTCAAGCCCAAGCAAAGTAAAAGTCCAACAGACCCATTGCCTGAACCAACCAAGGT
CCAAATTGAACTGGGTCAATCCAACCCAAGCAATCCGGCAATTTTGACCCATTATGACAGCCCAG
AATTCTTTTTTTAGGAAATTAGAGCACTTTGACTTTTTAATTTGAGATCTACGGCGGTTGCTACA
GTAATTAATTCGTTAAATACTATAGCA
Found at i:3175994 original size:17 final size:18
Alignment explanation
Indices: 3175948--3175994 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
3175938 ATACTAAAAG
3175948 GGAATTAGAATCTGTGAA
1 GGAATTAGAATCTGTGAA
* *
3175966 GGAATTAAAATCTGT-CA
1 GGAATTAGAATCTGTGAA
*
3175983 GGAATTGGAATC
1 GGAATTAGAATC
3175995 CAATTTCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.28
Consensus pattern (18 bp):
GGAATTAGAATCTGTGAA
Found at i:3176763 original size:218 final size:219
Alignment explanation
Indices: 3176378--3176869 Score: 699
Period size: 218 Copynumber: 2.2 Consensus size: 219
3176368 TATTTTATTT
* * *
3176378 AATATATGAATTAGAAACCCACCCGACATGAAATAAAAAAATTATTTTTATTCAATAAAAACATT
1 AATATATGAATTAGAAACCGACCCGAAAT--AATAAAAAAA-TA--TTT-TTCAATAAAAACAGT
3176443 GACTTAATTGAAAAATTTATATAAAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAA
60 GACTTAATTGAAAAATTTATATAAAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAA
* *
3176508 TTATATATTTTTCGGTCGGGTCCGGTTTTTTTCACCCTAAACCCAAACCCGACCCGACCCGAATA
125 TTATATATATTT--GTCGGGTCCGGTATTTTTCACCCTAAACCCAAACCCGACCCGACCCGAATA
3176573 TCACACTT-AAAAA-A-A-CCGACCCGACCCG
188 TCACACTTAAAAAATAGACCCGACCCGACCCG
3176601 AATATATGAATTAGAAATCCGACCCGAAATAATAAAAAAATATTTTTCAAT-AAAACAGTGACTT
1 AATATATGAATTAGAAA-CCGACCCGAAATAATAAAAAAATATTTTTCAATAAAAACAGTGACTT
*
3176665 AATTGAAAAAAATTATATATAGAGGGGTATTATTGTAATTATTCCTAATATATATAAGGTAAAAT
65 AATTG--AAAAATT-TATATAAAGGGGTATTATTGTAATTATTCCTAA-ATATATAAGGTAAAAT
* * * *
3176730 TGTATATATTT-TCGGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGACCCGAATATCA
126 TATATATATTTGTCGGGTCCGGTATTTTTCACCCTAAACCCAAACCCGACCCGACCCGAATATCA
3176794 CACTTAAAAAAATAGACCCGACCCGACCCG
191 CACTT-AAAAAATAGACCCGACCCGACCCG
* * *
3176824 AATATATGAATTAGAACCCGACCTGAAATAATAATAAAATATTTTT
1 AATATATGAATTAGAAACCGACCCGAAATAATAAAAAAATATTTTT
3176870 ATTCAATATA
Statistics
Matches: 246, Mismatches: 13, Indels: 21
0.88 0.05 0.08
Matches are distributed among these distances:
217 17 0.07
218 60 0.24
219 10 0.04
220 37 0.15
221 28 0.11
222 38 0.15
223 46 0.19
224 10 0.04
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (219 bp):
AATATATGAATTAGAAACCGACCCGAAATAATAAAAAAATATTTTTCAATAAAAACAGTGACTTA
ATTGAAAAATTTATATAAAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATAT
ATATTTGTCGGGTCCGGTATTTTTCACCCTAAACCCAAACCCGACCCGACCCGAATATCACACTT
AAAAAATAGACCCGACCCGACCCG
Found at i:3178629 original size:40 final size:42
Alignment explanation
Indices: 3178518--3179064 Score: 151
Period size: 44 Copynumber: 12.5 Consensus size: 42
3178508 TAAATTTAAT
*
3178518 TTTTTTACCTTTATAATTAAGG-TACTAATTTTATACAATCTC
1 TTTTTTACCTTTATAATTAAGGCTACTAATTTT-TTCAATCTC
** *
3178560 ACTTTTA--TATT-TAATTGAAGTCT-CTAATTTTTTCAATC-C
1 TTTTTTACCT-TTATAATT-AAGGCTACTAATTTTTTCAATCTC
*
3178599 TTTTTTACCTTTATAATTAAGGCTAC-AATTTTTTTAATCTC
1 TTTTTTACCTTTATAATTAAGGCTACTAATTTTTTCAATCTC
* * * * *
3178640 ACTTGTTAACTTTATAATTAAGGC-CCTTAAGTCTTTT-AATCTC
1 -TTTTTTACCTTTATAATTAAGGCTAC-TAA-TTTTTTCAATCTC
* * * * *
3178683 ACTTTCTACCTTTTCTACATTTAATTGAGGC-CCTAATTTTTTTAATC-C
1 -TTTTTTACC--TT-T--A--TAATTAAGGCTACTAATTTTTTCAATCTC
* * *
3178731 TACTTTTTAACTTTATAATTGAGGCT-CTTAAGTTTTTTCAATATC
1 T--TTTTTACCTTTATAATTAAGGCTAC-TAA-TTTTTTCAATCTC
* * * *
3178776 GCTTTCTACCTTTTACCTTTCAA-TGAGGCCT-CTAAGTTTTTTTAATCTC
1 -TTTTTTACC-TTTA----T-AATTAAGG-CTACTAA-TTTTTTCAATCTC
* ** * *
3178825 AATTTTTACCTTTATAATTGAA-GCCCCTAACTTTTT-AATCCC
1 -TTTTTTACCTTTATAATT-AAGGCTACTAATTTTTTCAATCTC
* * * * *
3178867 CTTTTTAACTTTATAATTGAGGC-CCTTAAGTTTTTTTAATCTC
1 TTTTTTACCTTTATAATTAAGGCTAC-TAA-TTTTTTCAATCTC
* * **
3178910 ACTTTTTACCTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTC
1 -TTTTTTACCTTTATAATTAAGGCTACTAA-TTTTTTCAATCTC
* * * * *
3178954 AATTTCTACATTTATAATTGAGG-TCCCTAAGTTTTTTCAATCTC
1 -TTTTTTACCTTTATAATTAAGGCT-ACTAA-TTTTTTCAATCTC
** * * * *
3178998 GATTATACCTTTATAATTGAGAC-ATCTATTTTTTTTCAATCTC
1 TTTTTTACCTTTATAATTAAGGCTA-CTA-ATTTTTTCAATCTC
* ** *
3179041 AATTTCCAACTTTATAATTAAGGC
1 -TTTTTTACCTTTATAATTAAGGC
3179065 CTCTAAGTTT
Statistics
Matches: 397, Mismatches: 60, Indels: 94
0.72 0.11 0.17
Matches are distributed among these distances:
39 6 0.02
40 34 0.09
41 43 0.11
42 47 0.12
43 64 0.16
44 121 0.30
45 10 0.03
46 2 0.01
47 2 0.01
48 11 0.03
49 41 0.10
50 16 0.04
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.48
Consensus pattern (42 bp):
TTTTTTACCTTTATAATTAAGGCTACTAATTTTTTCAATCTC
Found at i:3178723 original size:92 final size:92
Alignment explanation
Indices: 3178627--3178997 Score: 364
Period size: 92 Copynumber: 4.1 Consensus size: 92
3178617 AAGGCTACAA
* * *
3178627 TTTTTTTAATCTCACTTGTTAACTTTATAATTAAGGCCCTTAAGTCTTTT-AATCTCACTTTCTA
1 TTTTTTTAATCTCACTTTTTAACTTTATAATTAAGGCCCCTAAGTTTTTTCAATCTCACTTTCTA
3178691 CCTTTTCTACATTTAATTGAGGCCCTAA-
66 CC-TTT-TACATTTAATTGAGGCCCTAAG
* * * * *
3178719 TTTTTTTAATC-CTACTTTTTAACTTTATAATTGAGGCTCTTAAGTTTTTTCAATATCGCTTTCT
1 TTTTTTTAATCTC-ACTTTTTAACTTTATAATTAAGGCCCCTAAGTTTTTTCAATCTCACTTTCT
*
3178783 ACCTTTTACCTTTCAA-TGAGGCCTCTAAG
65 ACCTTTTACATTT-AATTGAGGCC-CTAAG
* * * * *
3178812 TTTTTTTAATCTCAATTTTTACCTTTATAATTGAA-GCCCCTAA-CTTTTT-AATC-CCCTTTTT
1 TTTTTTTAATCTCACTTTTTAACTTTATAATT-AAGGCCCCTAAGTTTTTTCAATCTCACTTTCT
*
3178873 AAC-TTT--A--TAATTGAGGCCCTTAAG
65 ACCTTTTACATTTAATTGAGGCCC-TAAG
* * *
3178897 TTTTTTTAATCTCACTTTTTACCTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCAATTTCTA
1 TTTTTTTAATCTCACTTTTTAACTTTATAATTAAGGCCCCTAAGTTTTTTCAATCTCACTTTCTA
*
3178962 -CATTT--A--TAATTGAGGTCCCTAAG
66 CCTTTTACATTTAATTGAGG-CCCTAAG
*
3178985 TTTTTTCAATCTC
1 TTTTTTTAATCTC
3178998 GATTATACCT
Statistics
Matches: 239, Mismatches: 25, Indels: 34
0.80 0.08 0.11
Matches are distributed among these distances:
84 4 0.02
85 51 0.21
86 5 0.02
87 5 0.02
88 35 0.15
89 6 0.03
90 8 0.03
91 17 0.07
92 58 0.24
93 48 0.20
94 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (92 bp):
TTTTTTTAATCTCACTTTTTAACTTTATAATTAAGGCCCCTAAGTTTTTTCAATCTCACTTTCTA
CCTTTTACATTTAATTGAGGCCCTAAG
Found at i:3178898 original size:85 final size:88
Alignment explanation
Indices: 3178694--3179075 Score: 301
Period size: 87 Copynumber: 4.4 Consensus size: 88
3178684 CTTTCTACCT
* * *
3178694 TTTCTACA-TT-TAATTGAGGCCC-TAA-TTTTTTTAATC-CTACTTTTTAACTTTATAATTGAG
1 TTTCTACATTTATAATTGAGGCCCTTAAGTTTTTTTAATCTC-AATTTTTACCTTTATAATTGAA
* * * * **
3178754 GCTCTTAAGTTTTTTCAATATCGC
65 GCCCCTAAGCTTTTTCAATCTCAA
*
3178778 TTTCTACCTTTTACCTTTCAA-TGAGG-CCTCTAAGTTTTTTTAATCTCAATTTTTACCTTTATA
1 TTTCTA-CATTTA----T-AATTGAGGCCCT-TAAGTTTTTTTAATCTCAATTTTTACCTTTATA
**
3178841 ATTGAAGCCCCTAA-CTTTTT-AATC-CCC
59 ATTGAAGCCCCTAAGCTTTTTCAATCTCAA
* * *
3178868 TTTTTA-ACTTTATAATTGAGGCCCTTAAGTTTTTTTAATCTCACTTTTTACCTTTATAATTGAG
1 TTTCTACA-TTTATAATTGAGGCCCTTAAGTTTTTTTAATCTCAATTTTTACCTTTATAATTGAA
*
3178932 GCCCCTAAGTTTTTTCAATCTCAA
65 GCCCCTAAGCTTTTTCAATCTCAA
* * *
3178956 TTTCTACATTTATAATTGAGGTCCC-TAAGTTTTTTCAATCTCGA-TTATACCTTTATAATTG-A
1 TTTCTACATTTATAATTGAGG-CCCTTAAGTTTTTTTAATCTCAATTTTTACCTTTATAATTGAA
** ***
3179018 GACATCTATTTTTTTTCAATCTCAA
65 G-CCCCTAAGCTTTTTCAATCTCAA
* *
3179043 TTTCCA-ACTTTATAATTAAGG-CCTCTAAGTTTT
1 TTTCTACA-TTTATAATTGAGGCCCT-TAAGTTTT
3179076 CAATTTTATA
Statistics
Matches: 246, Mismatches: 28, Indels: 45
0.77 0.09 0.14
Matches are distributed among these distances:
84 8 0.03
85 54 0.22
86 12 0.05
87 64 0.26
88 35 0.14
89 8 0.03
90 9 0.04
91 9 0.04
92 10 0.04
93 36 0.15
94 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.47
Consensus pattern (88 bp):
TTTCTACATTTATAATTGAGGCCCTTAAGTTTTTTTAATCTCAATTTTTACCTTTATAATTGAAG
CCCCTAAGCTTTTTCAATCTCAA
Found at i:3178945 original size:43 final size:43
Alignment explanation
Indices: 3178600--3179075 Score: 347
Period size: 44 Copynumber: 10.8 Consensus size: 43
3178590 TTTCAATCCT
* ** *
3178600 TTTTTACCTTTATAATTAAGGCTAC-AATTTTTTTAATCTCAC
1 TTTTTACCTTTATAATTGAGGCCCCTAAGTTTTTTAATCTCAC
* * * * *
3178642 TTGTTAACTTTATAATTAAGGCCCTTAAGTCTTTTAATCTCAC
1 TTTTTACCTTTATAATTGAGGCCCCTAAGTTTTTTAATCTCAC
* *
3178685 TTTCTACCTTTTCTACATTTAATTGAGG-CCCTAATTTTTTTAATC-CTAC
1 TTTTTACC--TT-T--A--TAATTGAGGCCCCTAAGTTTTTTAATCTC-AC
* * * * *
3178734 TTTTTAACTTTATAATTGAGGCTCTTAAGTTTTTTCAATATCGC
1 TTTTTACCTTTATAATTGAGGCCCCTAAGTTTTTT-AATCTCAC
* * *
3178778 TTTCTACCTTTTACCTTTCAA-TGAGGCCTCTAAGTTTTTTTAATCTCAA
1 TTTTTACC-TTTA----T-AATTGAGGCCCCTAAG-TTTTTTAATCTCAC
* * *
3178827 TTTTTACCTTTATAATTGAAGCCCCTAA-CTTTTTAATC-CCC
1 TTTTTACCTTTATAATTGAGGCCCCTAAGTTTTTTAATCTCAC
* *
3178868 TTTTTAACTTTATAATTGAGGCCCTTAAGTTTTTTTAATCTCAC
1 TTTTTACCTTTATAATTGAGGCCCCTAAG-TTTTTTAATCTCAC
*
3178912 TTTTTACCTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCAA
1 TTTTTACCTTTATAATTGAGGCCCCTAAGTTTTTT-AATCTCAC
* * *
3178956 TTTCTACATTTATAATTGAGGTCCCTAAGTTTTTTCAATCTCGA-
1 TTTTTACCTTTATAATTGAGGCCCCTAAGTTTTTT-AATCTC-AC
* * ** ** *
3179000 -TTATACCTTTATAATTGAGACATCTATTTTTTTTCAATCTCAA
1 TTTTTACCTTTATAATTGAGGCCCCTAAGTTTTTT-AATCTCAC
** * * *
3179043 TTTCCAACTTTATAATTAAGGCCTCTAAGTTTT
1 TTTTTACCTTTATAATTGAGGCCCCTAAGTTTT
3179076 CAATTTTATA
Statistics
Matches: 345, Mismatches: 62, Indels: 52
0.75 0.14 0.11
Matches are distributed among these distances:
41 26 0.08
42 39 0.11
43 80 0.23
44 121 0.35
45 8 0.02
46 2 0.01
47 2 0.01
48 6 0.02
49 45 0.13
50 16 0.05
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.47
Consensus pattern (43 bp):
TTTTTACCTTTATAATTGAGGCCCCTAAGTTTTTTAATCTCAC
Done.