Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 115 of 318
Found at i:35253809 original size:24 final size:24
Alignment explanation
Indices: 35253768--35253815 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
35253758 TTATTTTAAT
* * * *
35253768 AAAACCTTAACCTTAAAAATCCTA
1 AAAACCCTAAACTAAAAAAGCCTA
35253792 AAAACCCTAAACTAAAAAAGCCTA
1 AAAACCCTAAACTAAAAAAGCCTA
35253816 GGGACTAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.25, G:0.02, T:0.19
Consensus pattern (24 bp):
AAAACCCTAAACTAAAAAAGCCTA
Found at i:35258264 original size:21 final size:20
Alignment explanation
Indices: 35258247--35258287 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
35258237 CTAAAAAAGC
*
35258247 GAAAAGAAAATGAGAAAAGAA
1 GAAAAGAAAAAGA-AAAAGAA
35258268 GAAAAGAAAAAGAAAAAGAA
1 GAAAAGAAAAAGAAAAAGAA
35258288 AGTGAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (20 bp):
GAAAAGAAAAAGAAAAAGAA
Found at i:35261195 original size:28 final size:28
Alignment explanation
Indices: 35261126--35261226 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
35261116 GACAAGATTG
* * * *
35261126 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
35261156 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35261184 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
35261213 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35261227 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35269139 original size:28 final size:28
Alignment explanation
Indices: 35269070--35269168 Score: 110
Period size: 28 Copynumber: 3.4 Consensus size: 28
35269060 GACAAGATTG
* * * *
35269070 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
35269100 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35269128 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
35269157 GCACTAAGTGTG
1 GCACTAAGTGTG
35269169 TGGATTCACT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.39
29 17 0.27
30 18 0.29
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35271468 original size:53 final size:53
Alignment explanation
Indices: 35271378--35271481 Score: 163
Period size: 53 Copynumber: 2.0 Consensus size: 53
35271368 ATTGCTTGTA
*
35271378 CAAAGACTGACGATGCCGTTCATATTTCCAATCTTTTCTTTAGGGACATTAGT
1 CAAAGACTGACGATGCCGTTCATATTTCCAATATTTTCTTTAGGGACATTAGT
* * * *
35271431 CAAATACTGACGGTGGCGTTCATATTTCTAATATTTTCTTTAGGGACATTA
1 CAAAGACTGACGATGCCGTTCATATTTCCAATATTTTCTTTAGGGACATTA
35271482 TTCGCTTGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (53 bp):
CAAAGACTGACGATGCCGTTCATATTTCCAATATTTTCTTTAGGGACATTAGT
Found at i:35279253 original size:4 final size:4
Alignment explanation
Indices: 35279244--35279269 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
35279234 TGTAGGTGTA
35279244 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
35279270 TTGTATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:35279335 original size:31 final size:31
Alignment explanation
Indices: 35279297--35279355 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
35279287 TCGTACAGTC
35279297 GAGTAAGGGCATTTGTTGTTCTTGTGTGGGG
1 GAGTAAGGGCATTTGTTGTTCTTGTGTGGGG
*
35279328 GAGTAAGGGCATTTGTTGTTTTTGTGTG
1 GAGTAAGGGCATTTGTTGTTCTTGTGTG
35279356 CTTCAATCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.14, C:0.05, G:0.39, T:0.42
Consensus pattern (31 bp):
GAGTAAGGGCATTTGTTGTTCTTGTGTGGGG
Found at i:35280384 original size:28 final size:28
Alignment explanation
Indices: 35280302--35280391 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
35280292 TGAACATGAC
*
35280302 TATAAATGTGAATTGGGCCT-GATAGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
35280331 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
35280360 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
35280388 TATA
1 TATA
35280392 CAGGTATGTG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:35282801 original size:8 final size:8
Alignment explanation
Indices: 35282788--35282815 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
35282778 AAGGTTAATA
35282788 TGGTCATT
1 TGGTCATT
35282796 TGGTCATT
1 TGGTCATT
35282804 TGGTCATT
1 TGGTCATT
35282812 TGGT
1 TGGT
35282816 ATATGATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.11, G:0.29, T:0.50
Consensus pattern (8 bp):
TGGTCATT
Found at i:35291046 original size:43 final size:42
Alignment explanation
Indices: 35290998--35291096 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
35290988 TCCCAAACGT
35290998 GGTCTTACATGTAATCAAACATCGATACC-ACTATCCTAGACAG
1 GGTCTTACATGTAATCAAACAT-GATACCGA-TATCCTAGACAG
* * * * * *
35291041 GGTCTTACACGAAATCAAATATGATGCCGATGTCCTAGACAT
1 GGTCTTACATGTAATCAAACATGATACCGATATCCTAGACAG
35291083 GGTCTTACATGTAA
1 GGTCTTACATGTAA
35291097 AATAGAAGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 27 0.57
43 20 0.43
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAACATGATACCGATATCCTAGACAG
Found at i:35295221 original size:11 final size:11
Alignment explanation
Indices: 35295190--35295224 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
35295180 TATTGCCTAT
35295190 TTTTTTTATTA
1 TTTTTTTATTA
35295201 TATATTTTTATTA
1 T-T-TTTTTATTA
35295214 TTTTTTTATTA
1 TTTTTTTATTA
35295225 ACTCGCATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.45
12 2 0.09
13 10 0.45
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTTATTA
Found at i:35296405 original size:48 final size:48
Alignment explanation
Indices: 35296334--35296453 Score: 195
Period size: 48 Copynumber: 2.5 Consensus size: 48
35296324 TGTTACAACA
*
35296334 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * *
35296382 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
*
35296430 TTCACATTAGCCGTTCGGCTTTAC
1 TTCACATTAGCCATTCGGCTTTAC
35296454 ATATATTTCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.38
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
Found at i:35296459 original size:30 final size:30
Alignment explanation
Indices: 35296424--35296483 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
35296414 CATATCTCAT
*
35296424 ATATATTTCACATTAGCCGTTCGGCTTTAC
1 ATATATTTCACATTAGCCATTCGGCTTTAC
35296454 ATATATTTCACATTAGCCATTCGGCTTTAC
1 ATATATTTCACATTAGCCATTCGGCTTTAC
35296484 CACATATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (30 bp):
ATATATTTCACATTAGCCATTCGGCTTTAC
Found at i:35296486 original size:126 final size:126
Alignment explanation
Indices: 35296334--35296579 Score: 420
Period size: 126 Copynumber: 2.0 Consensus size: 126
35296324 TGTTACAACA
* * * *
35296334 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCGCACACATATTTCACATTAGCCATTCG
* * *
35296399 GCTTTACGACATATACATATCTCATATATATTTCACATTAGCCGTTCGGCTTTACATATAT
66 GCTTTACCACATATACATATCTCACATATATTTCACATTAGCCATTCGGCTTTACATATAT
*
35296460 TTCACATTAGCCATTCGGCTTTACCACATATACATATCGCACATATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCGCACACATATTTCACATTAGCCATTCG
35296525 GCTTTACCACATATACATATCTCACATATATTTCACATTAGCCATTCGGCTTTAC
66 GCTTTACCACATATACATATCTCACATATATTTCACATTAGCCATTCGGCTTTAC
35296580 CACATATACA
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (126 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCGCACACATATTTCACATTAGCCATTCG
GCTTTACCACATATACATATCTCACATATATTTCACATTAGCCATTCGGCTTTACATATAT
Found at i:35296507 original size:78 final size:78
Alignment explanation
Indices: 35296378--35296531 Score: 263
Period size: 78 Copynumber: 2.0 Consensus size: 78
35296368 TATCTCATAC
* * * * *
35296378 ATATTTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATATTTCACATTAGCCG
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCGCACATATATTTCACATTAGCCA
35296443 TTCGGCTTTACAT
66 TTCGGCTTTACAT
35296456 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCGCACATATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCGCACATATATTTCACATTAGCCA
35296521 TTCGGCTTTAC
66 TTCGGCTTTAC
35296532 CACATATACA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (78 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCGCACATATATTTCACATTAGCCA
TTCGGCTTTACAT
Found at i:35296508 original size:48 final size:48
Alignment explanation
Indices: 35296452--35296953 Score: 833
Period size: 48 Copynumber: 10.5 Consensus size: 48
35296442 GTTCGGCTTT
*
35296452 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCGC
1 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
35296500 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
35296548 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
1 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
* * * * *
35296596 ATACATATTTCACATTCGCCATTCGGCTTTACCACATCTACATATCAC
1 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
*
35296644 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCAC
1 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
*
35296692 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTT
1 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
* *
35296740 ATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCAC
1 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
*
35296788 ACATATATTTCACATTAGCCATTCGGCTTTTCCACATATACATATCTC
1 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
* *
35296836 ATATATATTTCACATTAGCCATTCGGCTTTGCCACATATACATATCTC
1 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
*** * * *
35296884 ATGCATATTTCACATTCGCCATTCGGCTTTACCACATCTACATATCAC
1 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
35296932 ACATATATTTCACATTAGCCAT
1 ACATATATTTCACATTAGCCAT
35296954 AGCTTATAAG
Statistics
Matches: 424, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 424 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
Found at i:35301752 original size:40 final size:40
Alignment explanation
Indices: 35301656--35301834 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
35301646 CGAATGATAT
* * * *
35301656 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
35301697 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
35301737 CCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
35301777 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
35301817 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
35301835 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 91 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:35301790 original size:80 final size:81
Alignment explanation
Indices: 35301656--35301834 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
35301646 CGAATGATAT
* * *
35301656 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
35301721 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
35301737 CCGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
35301800 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
35301817 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
35301835 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.69
81 25 0.29
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:35301847 original size:80 final size:80
Alignment explanation
Indices: 35301690--35301874 Score: 196
Period size: 80 Copynumber: 2.3 Consensus size: 80
35301680 GTGCTAAGTG
* * * *
35301690 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* **
35301755 GCATTTATGCGAGTT
66 ACATCGATGCGAGTT
* * *
35301770 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
*
35301834 GACAATCGA-GCGAGTC
65 GAC-ATCGATGCGAGTT
* * * *
35301850 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGG
35301875 TACGTGATTC
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
79 8 0.09
80 76 0.87
81 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACATCGATGCGAGTT
Found at i:35301855 original size:40 final size:40
Alignment explanation
Indices: 35301777--35301860 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
35301767 GTTACTAAAT
* * *
35301777 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
35301817 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
35301857 CCGG
1 CCGG
35301861 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:35309331 original size:40 final size:40
Alignment explanation
Indices: 35309233--35309411 Score: 187
Period size: 40 Copynumber: 4.5 Consensus size: 40
35309223 CGAATGATAT
* * * *
35309233 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * * *
35309274 CTGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
35309314 CCGGGTTAAGTCCCGAAGTCATTTATGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
35309354 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
35309394 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
35309412 ACAATCGAGC
Statistics
Matches: 113, Mismatches: 25, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
40 89 0.79
41 24 0.21
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:35309368 original size:80 final size:81
Alignment explanation
Indices: 35309233--35309411 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 81
35309223 CGAATGATAT
* * * * *
35309233 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCTGGGTTAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGCTAATTCCCGAAGGCAATT
* *
35309298 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * * *
35309314 CCGGGTTAAGTCCCGAAGTCATTTATGC-GAGTTACTAAATCCGGGCTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGCTAATTCCCGAAGGCAATT
* *
35309378 GTGCGAATCACTATAA
66 GTGCGAATCACCAAAA
*
35309394 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
35309412 ACAATCGAGC
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 59 0.71
81 24 0.29
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGCTAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:35309432 original size:40 final size:40
Alignment explanation
Indices: 35309354--35309437 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
35309344 GTTACTAAAT
* * *
35309354 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
35309394 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
35309434 CCGG
1 CCGG
35309438 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:35309445 original size:80 final size:80
Alignment explanation
Indices: 35309267--35309451 Score: 196
Period size: 80 Copynumber: 2.3 Consensus size: 80
35309257 GTGCTAAGTG
* * * * *
35309267 ACTAAATCTGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* ** *
35309332 TCATTTATGCGAGTT
66 ACATCGATGCGAGTC
* * * *
35309347 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
35309412 ACAATCGA-GCGAGTC
66 AC-ATCGATGCGAGTC
* *
35309427 GCTATATCC-GGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTT-AATTCCCGAAGG
35309452 TACGTGATTC
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
79 10 0.11
80 74 0.85
81 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACATCGATGCGAGTC
Found at i:35318186 original size:24 final size:24
Alignment explanation
Indices: 35318159--35318242 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
35318149 TTGGAGGCCT
35318159 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
* *
35318183 AGCCATTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
** *
35318208 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
35318233 AGCCCTTTTA
1 AGCCCTTTTA
35318243 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
24 14 0.27
25 37 0.73
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:35318206 original size:25 final size:25
Alignment explanation
Indices: 35318172--35318241 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
35318162 CTCTTTTAAT
* *
35318172 AACTGGGGCAAAGCCATTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35318197 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35318222 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
35318242 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:35318463 original size:27 final size:27
Alignment explanation
Indices: 35318401--35318463 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
35318391 TAGTCACTTG
*
35318401 CCCACAAGGGCAAAATAGTCATTTAAC
1 CCCACAAGGGCAAAATAGTAATTTAAC
* * * * *
35318428 ACC-CTAGGGGAAAATGGTAATTTTAC
1 CCCACAAGGGCAAAATAGTAATTTAAC
35318454 CCCACAAGGG
1 CCCACAAGGG
35318464 TATCTTGGTA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (27 bp):
CCCACAAGGGCAAAATAGTAATTTAAC
Found at i:35318472 original size:27 final size:26
Alignment explanation
Indices: 35318442--35318668 Score: 235
Period size: 27 Copynumber: 8.5 Consensus size: 26
35318432 TAGGGGAAAA
*
35318442 TGGTAATTTTACCCCACAAGGGTATCT
1 TGGTAATTTTACCCTACAAGGGTAT-T
* *
35318469 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTA-TT
35318496 TGGT-ATTTCTACCCTACAAGGGTATTT
1 TGGTAATTT-TACCCTACAAGGGTA-TT
* *
35318523 TGGTAATTCTACACTACAAGGGTATT
1 TGGTAATTTTACCCTACAAGGGTATT
*
35318549 TCGGT-ATTTCTACCCTACAAAGGTATT
1 T-GGTAATTT-TACCCTACAAGGGTATT
* *
35318576 TCGGTAACTCTACCCTACAAGGGTATT
1 T-GGTAATTTTACCCTACAAGGGTATT
* * *
35318603 TCAGTAACTCTACCCTACAAGGGTATT
1 T-GGTAATTTTACCCTACAAGGGTATT
*
35318630 TCAGTAATTTTACCCTAC-AGGGTATTT
1 T-GGTAATTTTACCCTACAAGGGTA-TT
35318657 TGGTAATTTTAC
1 TGGTAATTTTAC
35318669 AAACCAGGGG
Statistics
Matches: 176, Mismatches: 17, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
26 25 0.14
27 145 0.82
28 6 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (26 bp):
TGGTAATTTTACCCTACAAGGGTATT
Found at i:35318515 original size:54 final size:54
Alignment explanation
Indices: 35318442--35318661 Score: 284
Period size: 54 Copynumber: 4.1 Consensus size: 54
35318432 TAGGGGAAAA
* *
35318442 TGGTAATTT-TACCCCACAAGGGTATCTT-GGTAATTCTACCCTACAGGGGTATTT
1 TGGT-ATTTCTACCCTACAAGGGTAT-TTCGGTAATTCTACCCTACAAGGGTATTT
* *
35318496 TGGTATTTCTACCCTACAAGGGTATTTTGGTAATTCTACACTACAAGGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTT
* * *
35318550 CGGTATTTCTACCCTACAAAGGTATTTCGGTAACTCTACCCTACAAGGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTT
** ** * *
35318604 CAGTAACTCTACCCTACAAGGGTATTTCAGTAATTTTACCCTAC-AGGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTT
35318657 TGGTA
1 TGGTA
35318662 ATTTTACAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
53 18 0.12
54 129 0.88
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTT
Found at i:35318588 original size:81 final size:81
Alignment explanation
Indices: 35318442--35318662 Score: 286
Period size: 81 Copynumber: 2.7 Consensus size: 81
35318432 TAGGGGAAAA
* * * * **
35318442 TGGTAATTTTACCCCACAAGGGTATCTT-GGTAATTCTACCCTACAGGGGTATTTTGGTATTTCT
1 TGGTAATTCTACCCTACAAGGGTAT-TTCGGTATTTCTACCCTACAAGGGTATTTTGGTAACTCT
35318506 ACCCTACAAGGGTATTT
65 ACCCTACAAGGGTATTT
* * *
35318523 TGGTAATTCTACACTACAAGGGTATTTCGGTATTTCTACCCTACAAAGGTATTTCGGTAACTCTA
1 TGGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGGTAACTCTA
35318588 CCCTACAAGGGTATTT
66 CCCTACAAGGGTATTT
** * *
35318604 CAGTAACTCTACCCTACAAGGGTATTTCAGTAATTT-TACCCTAC-AGGGTATTTTGGTAA
1 TGGTAATTCTACCCTACAAGGGTATTTCGGT-ATTTCTACCCTACAAGGGTATTTTGGTAA
35318663 TTTTACAAAC
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
80 15 0.12
81 103 0.84
82 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (81 bp):
TGGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGGTAACTCTA
CCCTACAAGGGTATTT
Found at i:35318717 original size:54 final size:54
Alignment explanation
Indices: 35318648--35318774 Score: 202
Period size: 54 Copynumber: 2.4 Consensus size: 54
35318638 TTTACCCTAC
35318648 AGGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCGA-GGGTATTTTGGTAATTTTGTAAACCA
** *
35318702 AGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTGTAAACCA
*
35318756 AGGGTATTTTAGTAATTTT
1 AGGGTATTTTGGTAATTTT
35318775 GAATCGATGG
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 67 0.99
55 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.43
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTGTAAACCA
Found at i:35318775 original size:27 final size:27
Alignment explanation
Indices: 35318648--35318775 Score: 168
Period size: 27 Copynumber: 4.7 Consensus size: 27
35318638 TTTACCCTAC
**
35318648 AGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTGTAAACCA
*
35318675 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTGTAAACCA
* * * *
35318702 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTGGTAATTTT-GTAAACCA
35318729 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTGTAAACCA
*
35318756 AGGGTATTTTAGTAATTTTG
1 AGGGTATTTTGGTAATTTTG
35318776 AATCGATGGT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.42
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTGTAAACCA
Found at i:35318803 original size:52 final size:52
Alignment explanation
Indices: 35318685--35318966 Score: 152
Period size: 54 Copynumber: 5.3 Consensus size: 52
35318675 GGGGTATTTT
* ****
35318685 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTT
1 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTAC--ATCGAGGGTAAAAC
*
35318739 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGA-ATCGATGGTAAAAC
1 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT-ACATCGAGGGTAAAAC
* * * ***** * *
35318791 GGTAATTCTGTAAATCAAGGATAAAACGGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATT-T-TACATCGAGGGTAAAAC
* * * *** * * * *
35318845 GATAATTTTGTAAATCGAGGGTAAAATAATAATTCTATAAATCAAGGGTAAAAT
1 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATT-T-TACATCGAGGGTAAAAC
* * * ***** * *
35318899 GGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATT-T-TACATCGAGGGTAAAAC
35318953 GGTAATTTTGTAAA
1 GGTAATTTTGTAAA
35318967 TCGAGAGTAA
Statistics
Matches: 192, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
52 35 0.18
53 2 0.01
54 154 0.80
55 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (52 bp):
GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACATCGAGGGTAAAAC
Found at i:35318815 original size:27 final size:27
Alignment explanation
Indices: 35318776--35319029 Score: 328
Period size: 27 Copynumber: 9.4 Consensus size: 27
35318766 AGTAATTTTG
*
35318776 AATCGATGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
35318803 AATCAAGGATAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
35318830 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*** *
35318857 AATCGAGGGTAAAATAATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
35318884 AATCAAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
35318911 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
35318938 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
35318965 AATCGAGAGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
35318992 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
35319019 AATCGAGGGTA
1 AATCGAGGGTA
35319030 CTTTGGAACT
Statistics
Matches: 201, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 201 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:35327540 original size:12 final size:12
Alignment explanation
Indices: 35327506--35327532 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
35327496 ACGTGAAAAA
35327506 TAAAATAAATAT
1 TAAAATAAATAT
35327518 TAAAATAAATAT
1 TAAAATAAATAT
35327530 TAA
1 TAA
35327533 GAAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAATAAATAT
Found at i:35328527 original size:16 final size:16
Alignment explanation
Indices: 35328506--35328544 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
35328496 TAATGTTATT
35328506 CAGGCTTTGTGCCTAG
1 CAGGCTTTGTGCCTAG
*
35328522 CAGGCTTTGTGCTTAG
1 CAGGCTTTGTGCCTAG
*
35328538 CAAGCTT
1 CAGGCTT
35328545 AGTTCCAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.33
Consensus pattern (16 bp):
CAGGCTTTGTGCCTAG
Found at i:35328583 original size:38 final size:38
Alignment explanation
Indices: 35328525--35328599 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
35328515 TGCCTAGCAG
* *
35328525 GCTTTGTGCTTAGCAAGCTTAGT-TCCAGTGTTATTCAA
1 GCTTTGTGCCTAACAAGCTTAGTGT-CAGTGTTATTCAA
*
35328563 GCTTTGTGCCTAACAGGCTTAGTGTCAGTGTTATTCA
1 GCTTTGTGCCTAACAAGCTTAGTGTCAGTGTTATTCA
35328600 GGATTAGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 32 0.97
39 1 0.03
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.39
Consensus pattern (38 bp):
GCTTTGTGCCTAACAAGCTTAGTGTCAGTGTTATTCAA
Found at i:35328606 original size:22 final size:22
Alignment explanation
Indices: 35328576--35328621 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
35328566 TTGTGCCTAA
* *
35328576 CAGGCTTAGTGTCAGTGTTATT
1 CAGGATTAGTGACAGTGTTATT
35328598 CAGGATTAGTGACAGTGTTATT
1 CAGGATTAGTGACAGTGTTATT
35328620 CA
1 CA
35328622 AGCTTTGTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (22 bp):
CAGGATTAGTGACAGTGTTATT
Found at i:35328640 original size:60 final size:60
Alignment explanation
Indices: 35328550--35328668 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
35328540 AGCTTAGTTC
35328550 CAGTGTTATTCAAGCTTTGTGCCTAACAGGCTTAGTGTC-AGTGTTATTCAGGATTAGTGA
1 CAGTGTTATTCAAGCTTTGTGCCTAACAGGCTTAGTGTCGA-TGTTATTCAGGATTAGTGA
* * *
35328610 CAGTGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGTCGATGTTATTTAGGCTTAGTG
1 CAGTGTTATTCAAGCTTTGTGCCTAACAGGCTTAGTGTCGATGTTATTCAGGATTAGTG
35328669 CCTTGCAGGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 54 0.98
61 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (60 bp):
CAGTGTTATTCAAGCTTTGTGCCTAACAGGCTTAGTGTCGATGTTATTCAGGATTAGTGA
Found at i:35332696 original size:40 final size:40
Alignment explanation
Indices: 35332652--35332761 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
35332642 TTCACAATTT
* *
35332652 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
35332692 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
35332732 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
35332762 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:35340750 original size:40 final size:40
Alignment explanation
Indices: 35340706--35340815 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
35340696 TTCACAATTT
* *
35340706 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
35340746 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
35340786 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
35340816 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:35349286 original size:84 final size:84
Alignment explanation
Indices: 35349131--35349294 Score: 206
Period size: 84 Copynumber: 2.0 Consensus size: 84
35349121 CACGCATATC
** ** *
35349131 ATACAATGCCAACGTCCCAGACATGGTCTTACATGCAATCACATATTGATGCCGCTATCCTAGAT
1 ATACAATGCCAACGTCCCAGACATGGTCTTACACACAATCACATATTGATGCCAATATCCCAGAT
35349196 AGGGTCTTACACGAATCAA
66 AGGGTCTTACACGAATCAA
* * * *
35349215 ATACGATGCCAATGTCCCCA-ACATGGTCTTACACATAATCACATATTGATGCCAATGTCCCAGA
1 ATACAATGCCAACGT-CCCAGACATGGTCTTACACACAATCACATATTGATGCCAATATCCCAGA
*
35349279 -CGTGGTCTTACACGAA
65 TAG-GGTCTTACACGAA
35349295 AACACATATC
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 1 0.01
84 63 0.93
85 4 0.06
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (84 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACACACAATCACATATTGATGCCAATATCCCAGAT
AGGGTCTTACACGAATCAA
Found at i:35349301 original size:43 final size:43
Alignment explanation
Indices: 35349136--35349303 Score: 173
Period size: 43 Copynumber: 4.0 Consensus size: 43
35349126 ATATCATACA
* * *
35349136 ATGCCAACGTCCCAGACATGGTCTTACATGCAATCACATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATTG
** * * * * * *
35349179 ATGCCGCTATCCTAGATAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATTG
35349220 ATGCCAATGTCCCCA-ACATGGTCTTACAC-ATAATCACATATTG
1 ATGCCAATGT-CCCAGACATGGTCTTACACGA-AATCACATATTG
* *
35349263 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATAT
35349304 CGAAAATCCT
Statistics
Matches: 99, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 20 0.20
42 23 0.23
43 55 0.56
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATTG
Found at i:35356536 original size:46 final size:46
Alignment explanation
Indices: 35356307--35356536 Score: 370
Period size: 46 Copynumber: 5.0 Consensus size: 46
35356297 TTTCTTTCAT
** * * *
35356307 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
** *
35356353 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* *
35356399 GTTGCCATGGTATTTTTCAACCATTGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
35356445 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
35356491 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
35356537 AGAGCACACT
Statistics
Matches: 175, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 175 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:35358687 original size:3 final size:3
Alignment explanation
Indices: 35358679--35358719 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
35358669 TACTTTATAT
35358679 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
35358720 GACTTTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:35365317 original size:55 final size:52
Alignment explanation
Indices: 35365164--35365365 Score: 153
Period size: 55 Copynumber: 3.8 Consensus size: 52
35365154 ATTAGGGTTT
* * *
35365164 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTC-AGACATGGCAA-TGGTAA-GTTTATAAGGC
* * * * *
35365219 AAGGATATCATGTAAGACTATGTCAGGACATGACATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCA-GACATGGCAATGGTAAGTT--TATAAGGC
* *
35365274 AAAGG-TCCCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTT-CAA---
1 -AAGGATACCATGTAAGACCATGTC-AGACATGGCAATGGTAAGTTTATAAGGC
* * * * *
35365323 AAGGATTCCACGTAAGGCCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTC-AGACATGGCAATGGTAAG
35365366 GTACTCGTGT
Statistics
Matches: 120, Mismatches: 21, Indels: 18
0.75 0.13 0.11
Matches are distributed among these distances:
48 4 0.03
49 32 0.27
52 2 0.02
53 4 0.03
54 6 0.05
55 67 0.56
56 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGTCAGACATGGCAATGGTAAGTTTATAAGGC
Found at i:35365460 original size:23 final size:24
Alignment explanation
Indices: 35365434--35365480 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
35365424 AAGGTAAGGT
*
35365434 AAGGTAAGACGAGTT-ATACTAAA
1 AAGGTAAGACAAGTTCATACTAAA
*
35365457 AAGGTAAGACAAGTTCATGCTAAA
1 AAGGTAAGACAAGTTCATACTAAA
35365481 GAGCAAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATACTAAA
Found at i:35368830 original size:28 final size:29
Alignment explanation
Indices: 35368763--35368863 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
35368753 ATAGTGAATC
*
35368763 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
35368792 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
35368820 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
35368850 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35368864 AAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:35382620 original size:40 final size:39
Alignment explanation
Indices: 35382455--35382638 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
35382445 AAATTGAATG
* * *
35382455 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
35382495 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
35382535 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
35382575 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
35382614 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
35382639 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:35382663 original size:80 final size:81
Alignment explanation
Indices: 35382495--35382683 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
35382485 GCTGGAAATT
* * * *
35382495 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
35382560 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
35382576 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
35382639 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
35382655 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
35382684 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:35395742 original size:29 final size:27
Alignment explanation
Indices: 35395708--35395810 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
35395698 TACTCAATCA
*
35395708 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
35395737 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
35395766 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
35395795 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
35395811 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:35399849 original size:50 final size:50
Alignment explanation
Indices: 35399774--35400020 Score: 271
Period size: 50 Copynumber: 4.9 Consensus size: 50
35399764 ACCGAAGCTT
* *
35399774 TCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * *
35399824 TCTGGAACACGTAGTAGCCTGCACTTAGTATTACACACGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * ** *
35399874 TCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * * *** *
35399926 -CAGGTACGCATAGTAGCCTGCAGTTAGTACTACACATACGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * *
35399975 TTTGGTACACGTAGTAGCCTGCACGTAGTACTACACAAGTGACCTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTA
35400021 AAACTGTCTT
Statistics
Matches: 158, Mismatches: 36, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 2 0.01
50 120 0.76
51 34 0.22
52 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:35399984 original size:101 final size:100
Alignment explanation
Indices: 35399774--35400018 Score: 267
Period size: 101 Copynumber: 2.4 Consensus size: 100
35399764 ACCGAAGCTT
* * * * *
35399774 TCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGAACACGTAGT
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAAGTGACCAATCAATCAGGAACACATAGT
* ** * * *
35399839 AGCCTGCACTTAGTATTACACACGTGACTTATCCA
66 AGCCTGCACTTAGTACTACACACACGACCTAACAA
* * * * * * *
35399874 TCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTAA-CAGGTACGCATA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAAGTGA-CCAA-TCAATCAGGAACACATA
* *
35399938 GTAGCCTGCAGTTAGTACTACACATACGACCTAACAA
64 GTAGCCTGCACTTAGTACTACACACACGACCTAACAA
* *
35399975 TTTGGTACACGTAGTAGCCTGCACGTAGTACTACACAAGTGACC
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAAGTGACC
35400019 TAAAACTGTC
Statistics
Matches: 118, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
100 39 0.33
101 76 0.64
102 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACAAGTGACCAATCAATCAGGAACACATAGT
AGCCTGCACTTAGTACTACACACACGACCTAACAA
Found at i:35400062 original size:151 final size:150
Alignment explanation
Indices: 35399777--35400063 Score: 367
Period size: 151 Copynumber: 1.9 Consensus size: 150
35399767 GAAGCTTTCT
* ** *
35399777 GGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGAACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGAACACGTAGTAGC
* * * * * * * *
35399842 CTGCACTTAGTATTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTACACTTAGTACTA
66 CTGCACGTAGTACTACACAAGTGACTAAACCATCTGAAACACATAGTAGCCTACACATAGTAC-A
35399907 CACACGTGATCGAAGTTAACA
130 CACACGTGATCGAAGTTAACA
* * *
35399928 GGTACGCATAGTAGCCTGCAGTTAGTACTACACATACGACCTAACAATTTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGAACACGTAGTAGC
** * *
35399993 CTGCACGTAGTACTACACAAGTGACCTAAAACTGTCTTAAACACATAGTAGCCTACACATGGTAC
66 CTGCACGTAGTACTACACAAGTGA-CT-AAACCATCTGAAACACATAGTAGCCTACACATAGTA-
35400058 CACACA
128 CACACA
35400064 TGTGTTCTTA
Statistics
Matches: 114, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
151 79 0.69
152 2 0.02
153 32 0.28
154 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGAACACGTAGTAGC
CTGCACGTAGTACTACACAAGTGACTAAACCATCTGAAACACATAGTAGCCTACACATAGTACAC
ACACGTGATCGAAGTTAACA
Found at i:35403084 original size:43 final size:43
Alignment explanation
Indices: 35403035--35403123 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
35403025 AATTCACTTT
35403035 TACTGAATGTAGTGAACAATTTCTTTTCTCTCAAAATCTATAA
1 TACTGAATGTAGTGAACAATTTCTTTTCTCTCAAAATCTATAA
35403078 TACTGAATGTAGTGAACAATTTCTTTTCTCTCAAAATCTATAA
1 TACTGAATGTAGTGAACAATTTCTTTTCTCTCAAAATCTATAA
35403121 TAC
1 TAC
35403124 CGTTCTCAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (43 bp):
TACTGAATGTAGTGAACAATTTCTTTTCTCTCAAAATCTATAA
Found at i:35406518 original size:180 final size:180
Alignment explanation
Indices: 35406216--35406567 Score: 519
Period size: 180 Copynumber: 2.0 Consensus size: 180
35406206 TATAGATGCT
* * *
35406216 AAATTAAGATCCGTTAATTTTCCCAAAAACTAGACTCACATATATTCTTACCATAAAAGTTTCAG
1 AAATTAAGAACCGCTAATTTTCCCAAAAACTAGACTCACATATATTCTTACCATAAAAGTTTCAA
* *
35406281 AATTTTTGGTTTATCCAATTAGTACAGTTTATTCATTAAAGTTACCCCTGTTTCACTGTC-CAAT
66 AATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAGATACCCCTGTTTCACTGTCTCAA-
* *
35406345 ACTTCTAACCTCTCATCACTAAAAATTATTTATCTCATGGTACGGGACTCC
130 ACTTCCAACCTCTCATCACTAAAAATTATTTAACTCATGGTACGGGACTCC
* * *
35406396 AAATTAAGAACTGCTAATTTTTCCAGAAACTAGACTCACATATATTCTTACCATAAAA-TTTCCA
1 AAATTAAGAACCGCTAATTTTCCCAAAAACTAGACTCACATATATTCTTACCATAAAAGTTT-CA
* *
35406460 AAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAGATACCCTTGTTTCACTGTCTGAA
65 AAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAGATACCCCTGTTTCACTGTCTCAA
* * * * *
35406525 AGTTCCGATCTTTCTTCACTAAAAATTATTTAACTCATGGTAC
130 ACTTCCAACCTCTCATCACTAAAAATTATTTAACTCATGGTAC
35406568 AGATCTCGGA
Statistics
Matches: 153, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
179 3 0.02
180 148 0.97
181 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (180 bp):
AAATTAAGAACCGCTAATTTTCCCAAAAACTAGACTCACATATATTCTTACCATAAAAGTTTCAA
AATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAGATACCCCTGTTTCACTGTCTCAAA
CTTCCAACCTCTCATCACTAAAAATTATTTAACTCATGGTACGGGACTCC
Found at i:35407328 original size:52 final size:50
Alignment explanation
Indices: 35407087--35407330 Score: 269
Period size: 50 Copynumber: 4.8 Consensus size: 50
35407077 ACTGAAGCTC
* * *
35407087 TCTGGTATACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
** * ***
35407137 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGATCGATGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CTAACAA
* **
35407189 -CAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* *
35407238 TCTGGTACACGTAGTAGCCTGCACTTAGTACTATACATGTGACCTAA-AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* *
35407287 T-TGTCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACATGTG
35407331 TTCTTACAAT
Statistics
Matches: 162, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.01
49 6 0.04
50 81 0.50
51 37 0.23
52 36 0.22
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:35418096 original size:40 final size:40
Alignment explanation
Indices: 35417899--35418082 Score: 225
Period size: 40 Copynumber: 4.6 Consensus size: 40
35417889 CGAATGATGT
* * *
35417899 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
35417939 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
35417979 CCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35418017 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35418058 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35418083 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 82 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35418104 original size:79 final size:79
Alignment explanation
Indices: 35417899--35418105 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 79
35417889 CGAATGATGT
* *
35417899 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
*
35417962 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* *
35417979 CCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
35418041 TGTGCGAGTTACT-ATAA
63 TGTGCGAGTTACTAAT-A
* **
35418058 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAA
35418106 ATTTCGAAGG
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
78 3 0.03
79 62 0.57
80 44 0.40
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:35424063 original size:40 final size:40
Alignment explanation
Indices: 35424018--35424147 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
35424008 CGGAATATAA
*
35424018 CCGGATATAACCACGT-GCACAAATACCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
35424058 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
35424098 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
35424138 CCGGATATAA
1 CCGGATATAA
35424148 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:35427372 original size:93 final size:93
Alignment explanation
Indices: 35427260--35427430 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
35427250 GCCCATAAGT
* *
35427260 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35427325 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35427353 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35427418 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35427431 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35427446 original size:46 final size:46
Alignment explanation
Indices: 35427252--35427432 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
35427242 TGTAACCCGC
* * *
35427252 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
35427298 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
35427348 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
35427391 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
35427433 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:35429843 original size:30 final size:30
Alignment explanation
Indices: 35429799--35429887 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
35429789 CAAAGATAAC
35429799 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
35429828 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
35429858 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
35429888 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:35429847 original size:15 final size:15
Alignment explanation
Indices: 35429799--35429878 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
35429789 CAAAGATAAC
*
35429799 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
35429813 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
35429828 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
35429843 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
35429858 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
35429873 AAGAAA
1 AAGAAA
35429879 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35429887 original size:15 final size:15
Alignment explanation
Indices: 35429810--35429887 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
35429800 AGAAAACCGA
35429810 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
35429825 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
35429839 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
35429854 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
35429870 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
35429885 ATA
1 ATA
35429888 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35432909 original size:93 final size:93
Alignment explanation
Indices: 35432797--35432967 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
35432787 GCCCATAAGT
* *
35432797 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35432862 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35432890 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35432955 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35432968 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35432983 original size:46 final size:46
Alignment explanation
Indices: 35432789--35432969 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
35432779 TGTAACCCGC
* * *
35432789 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
35432835 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
35432885 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
35432928 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
35432970 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:35435792 original size:32 final size:32
Alignment explanation
Indices: 35435750--35435812 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
35435740 TGATCTATGT
*
35435750 AGCATATGAGCTTGTGGAGAGGTCTGAGTTCG
1 AGCATATGAGCTCGTGGAGAGGTCTGAGTTCG
* * *
35435782 AGCATCTGAGCTCGTTGAGTGGTCTGAGTTC
1 AGCATATGAGCTCGTGGAGAGGTCTGAGTTC
35435813 ATAATGGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (32 bp):
AGCATATGAGCTCGTGGAGAGGTCTGAGTTCG
Found at i:35436823 original size:36 final size:36
Alignment explanation
Indices: 35436783--35436855 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
35436773 AGAAAATAAG
35436783 TAAAAGTGTAATTATGATTATATTTCCATGGAATCA
1 TAAAAGTGTAATTATGATTATATTTCCATGGAATCA
35436819 TAAAAGTGTAATTATGATTATATTTCCATGGAATCA
1 TAAAAGTGTAATTATGATTATATTTCCATGGAATCA
35436855 T
1 T
35436856 GTTGATAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (36 bp):
TAAAAGTGTAATTATGATTATATTTCCATGGAATCA
Found at i:35442910 original size:15 final size:15
Alignment explanation
Indices: 35442890--35442934 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
35442880 TATGATATTG
35442890 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
35442905 TATCTTGGATTTCTC
1 TATCTTGGATTTCTT
*
35442920 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
35442935 AATCCTAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:35442948 original size:30 final size:30
Alignment explanation
Indices: 35442890--35442948 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
35442880 TATGATATTG
* * * *
35442890 TATCTTGGATTTCTTTATCTTGGATTTCTC
1 TATCTTGGACTTCTTAATCCTAGATTTCTC
*
35442920 TATCTTGGACTTCTTAATCCTAGTTTTCT
1 TATCTTGGACTTCTTAATCCTAGATTTCT
35442949 TGTTATCTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.15, C:0.19, G:0.12, T:0.54
Consensus pattern (30 bp):
TATCTTGGACTTCTTAATCCTAGATTTCTC
Found at i:35444966 original size:9 final size:9
Alignment explanation
Indices: 35444952--35444979 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
35444942 ATAGCTAGGG
35444952 TTTTCAAGC
1 TTTTCAAGC
35444961 TTTTCAAGC
1 TTTTCAAGC
35444970 TTTTCAAGC
1 TTTTCAAGC
35444979 T
1 T
35444980 CAATAGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.46
Consensus pattern (9 bp):
TTTTCAAGC
Found at i:35450058 original size:49 final size:50
Alignment explanation
Indices: 35449941--35450070 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
35449931 TCAAATTCAA
* * **
35449941 TCACGTGTGTAGTACTAACTACAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTATCAGATGGTTAGG
* * *
35449991 TCATGTGTGTAGTACTAAGTGCAGGCTACTACAAGTA-CTGGATTGTT-GG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTATC-AGATGGTTAGG
* *
35450040 TCACATGTGTAGTACTAAGCGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
35450071 TGCGTACTAG
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 31 0.45
50 38 0.55
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTATCAGATGGTTAGG
Found at i:35450303 original size:16 final size:15
Alignment explanation
Indices: 35450282--35450311 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
35450272 GAATGGAGTA
35450282 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
35450298 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
35450312 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:35462677 original size:40 final size:40
Alignment explanation
Indices: 35462611--35462777 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
35462601 AAATTGAATG
* * *
35462611 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
35462650 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
35462690 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
35462730 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
35462770 ATATCCGG
1 ATATCCGG
35462778 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:35470686 original size:40 final size:40
Alignment explanation
Indices: 35470620--35470786 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
35470610 AAATTGAATG
* * *
35470620 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
35470659 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
35470699 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * *
35470739 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAT-GTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-TGGTAATT
35470779 ATATCCGG
1 ATATCCGG
35470787 TTATATTCCG
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:35473335 original size:68 final size:67
Alignment explanation
Indices: 35473263--35473412 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
35473253 CATCATGTGT
* * * *
35473263 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
35473325 ATGTAG
62 ATGTAG
** * *
35473331 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
35473396 AG
66 AG
35473398 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
35473413 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:35473368 original size:64 final size:64
Alignment explanation
Indices: 35473287--35473470 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
35473277 AGACATTATG
* *
35473287 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
35473351 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
35473416 AA
63 AA
* * * *
35473418 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
35473471 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:35479407 original size:23 final size:22
Alignment explanation
Indices: 35479331--35479429 Score: 94
Period size: 23 Copynumber: 4.4 Consensus size: 22
35479321 AATAAGGATA
*
35479331 ATATATATAAAAAATATACATG
1 ATATATATAAAAAATATATATG
*
35479353 ATATAGTATAAAAAATATATAACTA
1 ATATA-TATAAAAAATATAT-A-TG
35479378 ATA-ATACTAAAAAATATATATG
1 ATATATA-TAAAAAATATATATG
* * * *
35479400 ATATATA-CATAAACATATACG
1 ATATATATAAAAAATATATATG
35479421 ATATATATA
1 ATATATATA
35479430 TTAGAAATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
21 17 0.27
22 9 0.14
23 19 0.30
24 14 0.22
25 4 0.06
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.32
Consensus pattern (22 bp):
ATATATATAAAAAATATATATG
Found at i:35479418 original size:47 final size:47
Alignment explanation
Indices: 35479329--35479418 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 47
35479319 ATAATAAGGA
*
35479329 TAATATATATAAAAAATATACATGATATAGTATAAAAAATATATAAC
1 TAATATATATAAAAAATATACATGATATAGTACAAAAAATATATAAC
* *
35479376 TAATA-ATACTAAAAAATATATATGATATA-TACATAAACATATA
1 TAATATATA-TAAAAAATATACATGATATAGTACA-AAAAATATA
35479419 CGATATATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 6 0.16
47 32 0.84
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (47 bp):
TAATATATATAAAAAATATACATGATATAGTACAAAAAATATATAAC
Found at i:35479707 original size:3 final size:3
Alignment explanation
Indices: 35479699--35479732 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
35479689 AAATGGTAAG
35479699 AAT AAT AAT AAT AAT AAT AAT -AT AAAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A
35479733 TTGAGATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.86
4 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:35479907 original size:19 final size:18
Alignment explanation
Indices: 35479883--35479919 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
35479873 AATATGTTCA
35479883 CAACAATAATAATAATAAT
1 CAACAATAAT-ATAATAAT
35479902 CAACAATAATATAATAAT
1 CAACAATAATATAATAAT
35479920 AATATAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (18 bp):
CAACAATAATATAATAAT
Found at i:35482543 original size:90 final size:89
Alignment explanation
Indices: 35482271--35482572 Score: 391
Period size: 90 Copynumber: 3.4 Consensus size: 89
35482261 CGATCCTGAG
* *
35482271 CTCAACTCTCGCAATATGAGTTGGTCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAATA
1 CTCACCTCTCGCAATATGAGTTGATCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAATA
35482336 CCTCATCATGTGACCGAGGCTCAA
66 CCTCATCATGTGACCGAGGCTCAA
** * * *
35482360 CTCACCTCTCATAATATGAGTTGATTTTTTTTGAAAAATATAAATTG-AAAG-A-A--TTGAAAA
1 CTCACCTCTCGCAATATGAGTTGATCTTTTTTG-AAACT-TAATTTGAAAAGTAGATTTTGAAAA
* * *
35482420 TACCTCAGCACGTGAACCAAGGCTCAA
64 TACCTCATCATGTG-ACCGAGGCTCAA
*
35482447 CTCACCTCTCGCAATATGAGTT-AGTCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAGT
1 CTCACCTCTCGCAATATGAGTTGA-TCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAAT
* *
35482511 ACCTTATCATATGACCCGAGGCTCAA
65 ACCTCATCATGTGA-CCGAGGCTCAA
*
35482537 CTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAA
1 CTCACCTCTCGCAATATGAGTTGATCTTTTTTGAAA
35482573 AATATAAATT
Statistics
Matches: 180, Mismatches: 22, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
85 6 0.03
86 28 0.16
87 40 0.22
88 2 0.01
89 30 0.17
90 67 0.37
91 7 0.04
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (89 bp):
CTCACCTCTCGCAATATGAGTTGATCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAATA
CCTCATCATGTGACCGAGGCTCAA
Found at i:35484541 original size:40 final size:39
Alignment explanation
Indices: 35484455--35484598 Score: 171
Period size: 40 Copynumber: 3.6 Consensus size: 39
35484445 TACTCGAATG
* *
35484455 ATATCCGGGCTAAGTCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCT-AGTGACT
* * * *
35484495 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTTGTAACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTGACT
* *
35484535 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACT
*
35484575 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
35484599 CTTGGGCGAG
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 70 0.80
41 17 0.19
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGACT
Found at i:35492566 original size:40 final size:40
Alignment explanation
Indices: 35492465--35492609 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
35492455 TACTCGAATG
* *
35492465 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* * *
35492506 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
35492546 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
35492586 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
35492610 CTTGGGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:35496958 original size:24 final size:24
Alignment explanation
Indices: 35496926--35497012 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
35496916 ATTTAAGGTC
*
35496926 CGCACACATAGTGCTATATAATCT
1 CGCACACATAGTGCCATATAATCT
* * *
35496950 CGCACACATAGTGCCATGTAGTTTT
1 CGCACACATAGTGCCATATA-ATCT
* ** * *
35496975 TGCACACATAGTGCCGCATAACCA
1 CGCACACATAGTGCCATATAATCT
35496999 CGCACACATAGTGC
1 CGCACACATAGTGC
35497013 TGAAATTTCT
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 31 0.63
25 18 0.37
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (24 bp):
CGCACACATAGTGCCATATAATCT
Found at i:35499367 original size:71 final size:71
Alignment explanation
Indices: 35499283--35499446 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35499273 CGATTTGTCT
35499283 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35499348 CTTTCA
66 CTTTCA
35499354 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35499419 CTTTCA
66 CTTTCA
35499425 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35499447 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35499484 original size:71 final size:70
Alignment explanation
Indices: 35499283--35499480 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
35499273 CGATTTGTCT
* * * *
35499283 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35499348 CTTTCA
65 CTTTCA
* * * *
35499354 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35499419 CTTTCA
65 CTTTCA
* *
35499425 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35499481 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35506904 original size:70 final size:71
Alignment explanation
Indices: 35506821--35506983 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
35506811 CGATTTGTCT
35506821 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35506885 CTTTCA
66 CTTTCA
35506891 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35506956 CTTTCA
66 CTTTCA
35506962 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35506984 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35507021 original size:71 final size:70
Alignment explanation
Indices: 35506821--35507017 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
35506811 CGATTTGTCT
* * * *
35506821 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35506885 CTTTCA
65 CTTTCA
* * * *
35506891 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35506956 CTTTCA
65 CTTTCA
* *
35506962 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35507018 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 53 0.45
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35513099 original size:40 final size:40
Alignment explanation
Indices: 35513003--35513181 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
35512993 CGAATGATAT
* * * *
35513003 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
35513044 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
35513084 CCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
35513124 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
35513164 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
35513182 ACAATCGAGC
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 91 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:35513137 original size:80 final size:81
Alignment explanation
Indices: 35513003--35513181 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
35512993 CGAATGATAT
* * *
35513003 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
35513068 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * *
35513084 CCGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
35513147 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
35513164 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
35513182 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.69
81 25 0.29
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:35513194 original size:80 final size:80
Alignment explanation
Indices: 35513037--35513221 Score: 196
Period size: 80 Copynumber: 2.3 Consensus size: 80
35513027 GTGCTAAGTG
* * * *
35513037 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
* **
35513102 GCATTTATGCGAGTT
66 ACATCGATGCGAGTT
* * *
35513117 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
*
35513181 GACAATCGA-GCGAGTC
65 GAC-ATCGATGCGAGTT
* * * *
35513197 GCTATATCCGGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGG
35513222 TACGTGATTC
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
79 8 0.09
80 76 0.87
81 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACATCGATGCGAGTT
Found at i:35513202 original size:40 final size:40
Alignment explanation
Indices: 35513124--35513207 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
35513114 GTTACTAAAT
* * *
35513124 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
35513164 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
35513204 CCGG
1 CCGG
35513208 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:35514875 original size:18 final size:18
Alignment explanation
Indices: 35514835--35514878 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
35514825 GATTGGGAAA
* *
35514835 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
35514853 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
35514871 AGGATACA
1 AGGATACA
35514879 CACTTGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:35515661 original size:20 final size:19
Alignment explanation
Indices: 35515631--35515674 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
35515621 ATACAATTTT
35515631 ATTTT-AAATC-AATGTAATA
1 ATTTTAAAATCAAAT-TAA-A
35515650 ATTTTAAAATCAAATTAAA
1 ATTTTAAAATCAAATTAAA
35515669 ATTTTA
1 ATTTTA
35515675 TCTCGTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.52
20 8 0.35
21 3 0.13
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (19 bp):
ATTTTAAAATCAAATTAAA
Found at i:35517063 original size:39 final size:39
Alignment explanation
Indices: 35517009--35517085 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
35516999 ATGCAGAACA
**
35517009 CATATTAATGATGTTCAAACTATGACATAGTTAAAGACT
1 CATATTAATGATGTTCAAACTATGACATAAATAAAGACT
35517048 CATATTAATGATGTTCAAACTATGACATAAATAAAGAC
1 CATATTAATGATGTTCAAACTATGACATAAATAAAGAC
35517086 ACAAACTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (39 bp):
CATATTAATGATGTTCAAACTATGACATAAATAAAGACT
Found at i:35522560 original size:15 final size:15
Alignment explanation
Indices: 35522537--35522570 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
35522527 TAAAAATAAG
*
35522537 ATAACTTTTAAAGGA
1 ATAAATTTTAAAGGA
35522552 ATAAATTTTAAAGGA
1 ATAAATTTTAAAGGA
35522567 ATAA
1 ATAA
35522571 TTTGGATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (15 bp):
ATAAATTTTAAAGGA
Found at i:35526863 original size:39 final size:39
Alignment explanation
Indices: 35526809--35526884 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
35526799 TGCAGAACAC
*
35526809 ATATTAATGATGTTCAAACTATGACATAATTAAAGACTT
1 ATATTAATGATGTTCAAACTATGACATAAATAAAGACTT
35526848 ATATTAATGATGTTCAAACTATGACATAAATAAAGAC
1 ATATTAATGATGTTCAAACTATGACATAAATAAAGAC
35526885 ACAAACTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (39 bp):
ATATTAATGATGTTCAAACTATGACATAAATAAAGACTT
Found at i:35527965 original size:36 final size:37
Alignment explanation
Indices: 35527925--35528001 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
35527915 ATTAATTAAC
*
35527925 ATTACATAAATG-AAAAATTTTAAATAATATTCAAAA
1 ATTACATAAATGAAAAAAATTTAAATAATATTCAAAA
35527961 ATTACATAAATGAAAAAAATTTAAATAATATTCAAAA
1 ATTACATAAATGAAAAAAATTTAAATAATATTCAAAA
35527998 ATTA
1 ATTA
35528002 AAATTAACCC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 12 0.31
37 27 0.69
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (37 bp):
ATTACATAAATGAAAAAAATTTAAATAATATTCAAAA
Found at i:35527969 original size:18 final size:18
Alignment explanation
Indices: 35527944--35528003 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
35527934 ATGAAAAATT
35527944 TTAAATAATATTCAAAAA
1 TTAAATAATATTCAAAAA
* **
35527962 TTACATAA-ATGAAAAAAA
1 TTAAATAATAT-TCAAAAA
35527980 TTTAAATAATATTCAAAAA
1 -TTAAATAATATTCAAAAA
35527999 TTAAA
1 TTAAA
35528004 ATTAACCCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 2 0.06
18 17 0.52
19 12 0.36
20 2 0.06
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (18 bp):
TTAAATAATATTCAAAAA
Found at i:35527997 original size:19 final size:19
Alignment explanation
Indices: 35527937--35528005 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
35527927 TACATAAATG
35527937 AAAAATTTTAAATAATATTC
1 AAAAA-TTTAAATAATATTC
* **
35527957 AAAAA-TTACATAA-ATGAA
1 AAAAATTTAAATAATAT-TC
35527975 AAAAATTTAAATAATATTC
1 AAAAATTTAAATAATATTC
*
35527994 AAAAATTAAAAT
1 AAAAATTTAAAT
35528006 TAACCCTTAC
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.05
18 12 0.31
19 18 0.46
20 7 0.18
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (19 bp):
AAAAATTTAAATAATATTC
Found at i:35528196 original size:21 final size:21
Alignment explanation
Indices: 35528163--35528212 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
35528153 TAAAGAGAGC
* *
35528163 TTTGAGAAATTTAATGG-GAAA
1 TTTGAGAGATTT-AGGGAGAAA
*
35528184 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAGATTTAGGGAGAAA
35528205 TTTGAGAG
1 TTTGAGAG
35528213 TTTTTTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (21 bp):
TTTGAGAGATTTAGGGAGAAA
Found at i:35530047 original size:22 final size:21
Alignment explanation
Indices: 35530012--35530054 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
35530002 CATCACATAA
35530012 TATCTTAAAGTTTACGTTTTTC
1 TATCTTAAAGTTTAC-TTTTTC
* *
35530034 TATCTTGAATTTTACTTTTTC
1 TATCTTAAAGTTTACTTTTTC
35530055 AAATGATCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.58
Consensus pattern (21 bp):
TATCTTAAAGTTTACTTTTTC
Found at i:35532923 original size:26 final size:25
Alignment explanation
Indices: 35532894--35532951 Score: 91
Period size: 24 Copynumber: 2.3 Consensus size: 25
35532884 ATTACTATTT
35532894 GATGTAATTGACTTTTTATGAAAGAA
1 GATGTAATTG-CTTTTTATGAAAGAA
*
35532920 GATGTAA-TGGTTTTTATGAAAGAA
1 GATGTAATTGCTTTTTATGAAAGAA
35532944 GATGTAAT
1 GATGTAAT
35532952 GGTTACCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 21 0.70
25 2 0.07
26 7 0.23
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (25 bp):
GATGTAATTGCTTTTTATGAAAGAA
Found at i:35532937 original size:24 final size:24
Alignment explanation
Indices: 35532906--35532955 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
35532896 TGTAATTGAC
35532906 TTTTTATGAAAGAAGATGTAATGG
1 TTTTTATGAAAGAAGATGTAATGG
35532930 TTTTTATGAAAGAAGATGTAATGG
1 TTTTTATGAAAGAAGATGTAATGG
35532954 TT
1 TT
35532956 ACCATGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (24 bp):
TTTTTATGAAAGAAGATGTAATGG
Found at i:35532962 original size:24 final size:24
Alignment explanation
Indices: 35532911--35532962 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
35532901 TTGACTTTTT
***
35532911 ATGAAAGAAGATGTAATGGTTTTT
1 ATGAAAGAAGATGTAATGGTTACC
35532935 ATGAAAGAAGATGTAATGGTTACC
1 ATGAAAGAAGATGTAATGGTTACC
35532959 ATGA
1 ATGA
35532963 GATAAAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (24 bp):
ATGAAAGAAGATGTAATGGTTACC
Found at i:35537338 original size:48 final size:48
Alignment explanation
Indices: 35537267--35537984 Score: 1161
Period size: 48 Copynumber: 15.0 Consensus size: 48
35537257 ATAAATATAT
*
35537267 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
35537315 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
35537363 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
**
35537411 ATATGCATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
35537459 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
35537507 ATATATA--AGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
35537553 ATATATATAAGATATGTATATATGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
35537601 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTCATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
35537649 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
35537697 ATATGTCTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
35537745 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
35537793 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
35537841 ATATATGTGTGATATGTATATGTGGTAAAGTCGAACGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
35537889 ATATATATGAGATATGTATATTTCGTAAAGCCAAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
35537937 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
35537985 TGTTGTAACA
Statistics
Matches: 615, Mismatches: 53, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
46 45 0.07
48 570 0.93
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:35538081 original size:37 final size:37
Alignment explanation
Indices: 35538029--35538151 Score: 228
Period size: 37 Copynumber: 3.3 Consensus size: 37
35538019 GGAAATATAT
*
35538029 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35538066 TTCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
35538103 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
35538140 TCCGGGTAAGAC
1 TCCGGGTAAGAC
35538152 TTCGTAATAA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:35541503 original size:29 final size:29
Alignment explanation
Indices: 35541470--35541581 Score: 129
Period size: 29 Copynumber: 3.9 Consensus size: 29
35541460 ATAATATGAT
35541470 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* *
35541499 TTGGGCTTAGTGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* **
35541528 TTGGGCC-AGATGGGCCATTTGAATAAG-A
1 TTGGGCCTA-ATGGGCCATATGAATGTGAA
* * *
35541556 TTGGGCCTAGTGGGCTATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
35541582 ATGTAGGGGT
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
28 20 0.29
29 48 0.71
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.29
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:35541551 original size:58 final size:57
Alignment explanation
Indices: 35541470--35541581 Score: 145
Period size: 57 Copynumber: 1.9 Consensus size: 57
35541460 ATAATATGAT
** *
35541470 TTGGGCCTAATGGGCCATATGAATGTGAATTGGGCTTAGTGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCATATGAATGTGAA
* * *
35541528 TTGGGCC-AGATGGGCCATTTGAATAAGATTGGGCCTAGTGGGCTATATGCATGT
1 TTGGGCCTA-ATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATATGAATGT
35541582 ATGTAGGGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 25 0.53
58 22 0.47
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.29
Consensus pattern (57 bp):
TTGGGCCTAATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATATGAATGTGAA
Found at i:35546768 original size:26 final size:28
Alignment explanation
Indices: 35546739--35546796 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 28
35546729 TTTGCAACCT
**
35546739 AAAAGAACTTAAAA-AGAAAGTT-AAAA
1 AAAAGAACAAAAAATAGAAAGTTGAAAA
*
35546765 AAAA-AACAAAAAATAGAATGTTGAAAA
1 AAAAGAACAAAAAATAGAAAGTTGAAAA
35546792 AAAAG
1 AAAAG
35546797 TTTGTTAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 7 0.27
26 11 0.42
27 8 0.31
ACGTcount: A:0.71, C:0.03, G:0.12, T:0.14
Consensus pattern (28 bp):
AAAAGAACAAAAAATAGAAAGTTGAAAA
Found at i:35553034 original size:29 final size:29
Alignment explanation
Indices: 35553001--35553059 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
35552991 ATGGATTAAT
35553001 AAAGGTGTGCTGATGCTTGGTGTTTCCCA
1 AAAGGTGTGCTGATGCTTGGTGTTTCCCA
35553030 AAAGGTGTGCTGATGCTTGGTGTTTCCCA
1 AAAGGTGTGCTGATGCTTGGTGTTTCCCA
35553059 A
1 A
35553060 GTGACTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.34
Consensus pattern (29 bp):
AAAGGTGTGCTGATGCTTGGTGTTTCCCA
Found at i:35556900 original size:30 final size:30
Alignment explanation
Indices: 35556842--35556900 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
35556832 ATTTTCGGGC
* **
35556842 CTAGGGGTAAAATGATCATTTTGTCAAAGT
1 CTAGGGGCAAAATGATCATTTTACCAAAGT
* *
35556872 CTAGGGGCAAAATGGTTATTTTACCAAAG
1 CTAGGGGCAAAATGATCATTTTACCAAAG
35556901 ATATGCATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATGATCATTTTACCAAAGT
Found at i:35557398 original size:46 final size:46
Alignment explanation
Indices: 35557223--35557395 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
35557213 GGGTTACTGT
* * *
35557223 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGA
* * *
35557269 GAGCCAGTGTAAGACCATGTCTGGGACATTACATCAGCATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCAGCCTCGAGATGA
* * * * * *
35557317 GTGCTAGTATAAGACATATCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATG-A
*
35557364 -AGCCAGTGTAAGACATGCCTGGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
35557396 GGCTACGAGA
Statistics
Matches: 103, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
46 53 0.51
47 26 0.25
48 23 0.22
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGA
Found at i:35564319 original size:20 final size:20
Alignment explanation
Indices: 35564296--35564340 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
35564286 TTTCACTCTC
*
35564296 TTTTATTGTTTTTCTTCTT-T
1 TTTTATCGTTTTTCTT-TTCT
*
35564316 TTTTCTCGTTTTTCTTTTCT
1 TTTTATCGTTTTTCTTTTCT
35564336 TTTTA
1 TTTTA
35564341 CATTTTCACT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTATCGTTTTTCTTTTCT
Found at i:35567120 original size:46 final size:45
Alignment explanation
Indices: 35566971--35567234 Score: 228
Period size: 47 Copynumber: 5.7 Consensus size: 45
35566961 AGGGTAAGGT
* *
35566971 GCCGATGCCATGTCCTAGACATGGTCTTACGCTGGCTTATATCTCAA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTT-TATCTCAA
* * * **
35567018 GTCGATGGCATGTCCCAGACATGGTCTTACACTGACTATCATCTTGTA
1 GCCGAT-GCATGTCCCAGACATGGTCTTACACTGGCT-TTATC-TCAA
* * *
35567066 GTCTATGCATGTCCCAGACAT-GTCTTACACTGGCTTGTGTCTCAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTT-TATCTCAA
* * **
35567111 GGCCGATGCATGTCCCAGACAT-GTCTTACACTAGCCCTCGTCTCAA
1 -GCCGATGCATGTCCCAGACATGGTCTTACACT-GGCTTTATCTCAA
* * ***
35567157 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-TTAT-CTCAA
35567206 GCCGATGCATGTCCCAGACAT-GTCTTACA
1 GCCGATGCATGTCCCAGACATGGTCTTACA
35567235 ATAGCTCACA
Statistics
Matches: 181, Mismatches: 26, Indels: 21
0.79 0.11 0.09
Matches are distributed among these distances:
45 3 0.02
46 66 0.36
47 82 0.45
48 29 0.16
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTTATCTCAA
Found at i:35569944 original size:12 final size:12
Alignment explanation
Indices: 35569915--35569944 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35569905 ATTTTGGATG
*
35569915 TTATTGTTATTA
1 TTATTTTTATTA
35569927 TTATTTTTATTA
1 TTATTTTTATTA
35569939 TTATTT
1 TTATTT
35569945 CGTAGGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:35570836 original size:24 final size:23
Alignment explanation
Indices: 35570809--35570858 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
35570799 CCTTTTCCCC
*
35570809 TCTTCTTCATTCATATTTTTCTTT
1 TCTTCTTCATTCAT-CTTTTCTTT
* *
35570833 TCTTTTTCTTTCATCTTTTCTTT
1 TCTTCTTCATTCATCTTTTCTTT
35570856 TCT
1 TCT
35570859 CCATAGCCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (23 bp):
TCTTCTTCATTCATCTTTTCTTT
Found at i:35573698 original size:47 final size:47
Alignment explanation
Indices: 35573644--35574238 Score: 1010
Period size: 47 Copynumber: 12.6 Consensus size: 47
35573634 TATTTGAATA
*
35573644 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
35573691 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
35573738 AATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
35573787 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
35573834 AATGTGGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
35573881 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
35573928 AATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
35573977 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
35574024 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
35574071 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
35574118 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
35574165 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
35574212 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
35574239 TCCCGAAGGG
Statistics
Matches: 522, Mismatches: 22, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 432 0.83
49 90 0.17
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Done.