Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 57 of 89
Found at i:12962378 original size:3 final size:3
Alignment explanation
Indices: 12962296--12962357 Score: 78
Period size: 3 Copynumber: 22.0 Consensus size: 3
12962286 TTTGTTTTAT
* *
12962296 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12962341 TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
12962358 AATAAATAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 8 0.15
3 45 0.85
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:12963925 original size:119 final size:118
Alignment explanation
Indices: 12963802--12964036 Score: 305
Period size: 119 Copynumber: 2.0 Consensus size: 118
12963792 ATTTTAATAT
* * * * *
12963802 TTATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAAAACAACTGGATGTCTATTTTCT
1 TTATTTATTTATTTTT-AATATCAAAGAAAAGAGCAGTCATAAAACAACTAGAAGTC-ATTTTCT
* *
12963865 GATATTTTTAAATAAATAAATATCTTATTTTATAAAT-TATATATTAATTATTTTAA
64 GATATTTCTAAATAAATAAATATCTTA-TTTATAAATATATAAATTAA-TATTTTAA
* ** *
12963921 TTATTTATTTATTTTTAATATCAAAGAAAAGAGCTGTCATAAGGCACCTAGAAGTCATTTTCTGA
1 TTATTTATTTATTTTTAATATCAAAGAAAAGAGCAGTCATAAAACAACTAGAAGTCATTTTCTGA
*
12963986 TATTTCTAAATAAATAAATATTTTATTTATAAATATATAAATTAATATTTT
66 TATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAATATTTT
12964037 CCATAATTAT
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
118 20 0.20
119 60 0.59
120 21 0.21
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (118 bp):
TTATTTATTTATTTTTAATATCAAAGAAAAGAGCAGTCATAAAACAACTAGAAGTCATTTTCTGA
TATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAATATTTTAA
Found at i:12966217 original size:15 final size:15
Alignment explanation
Indices: 12966181--12966219 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
12966171 AATTTACATT
12966181 TTTACATTT-GCATA
1 TTTACATTTGGCATA
*
12966195 TTTACATTTGGCATC
1 TTTACATTTGGCATA
*
12966210 TTTGCATTTG
1 TTTACATTTG
12966220 TATTTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (15 bp):
TTTACATTTGGCATA
Found at i:12971474 original size:20 final size:20
Alignment explanation
Indices: 12971449--12971490 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
12971439 ATAAAATCTG
12971449 TCAACTCTACAATTGATGAA
1 TCAACTCTACAATTGATGAA
**
12971469 TCAACTCTGTAATTGATGAA
1 TCAACTCTACAATTGATGAA
12971489 TC
1 TC
12971491 TGGACCACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (20 bp):
TCAACTCTACAATTGATGAA
Found at i:12972483 original size:76 final size:76
Alignment explanation
Indices: 12972388--12972561 Score: 217
Period size: 76 Copynumber: 2.3 Consensus size: 76
12972378 ATTAACAAGA
*
12972388 AGCAAATGTTGGGGCATGCTGAAAACCCTTTTT-AATCAAAATCAGGAATGTTGATGTATCCTGA
1 AGCAAATGTTGGGGCATGCTGAAAACCCTTTTTCAATCAAAATCAAGAATGTTGATGTATCCTGA
*
12972452 ATATTTATATC
66 ACATTTATATC
* * * * * **
12972463 AGCAAAATGCTGGGGCATGCTG-AAAGCCTTTTTCAATTAGAATGAAGAATGTTGATGTATTTTG
1 AGC-AAATGTTGGGGCATGCTGAAAACCCTTTTTCAATCAAAATCAAGAATGTTGATGTATCCTG
* *
12972527 AACGTTTGTATC
65 AACATTTATATC
*
12972539 AGCAATTGTTGGGGCATGCTGAA
1 AGCAAATGTTGGGGCATGCTGAA
12972562 GGCCCACATC
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
75 29 0.35
76 54 0.65
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (76 bp):
AGCAAATGTTGGGGCATGCTGAAAACCCTTTTTCAATCAAAATCAAGAATGTTGATGTATCCTGA
ACATTTATATC
Found at i:12973907 original size:22 final size:23
Alignment explanation
Indices: 12973856--12973911 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
12973846 ATCTACACTC
* *
12973856 TTCAAAGATGATAGATTCCCTTT
1 TTCAAAGATGACAAATTCCCTTT
* *
12973879 TTAAAAGATGACAAATTCTC-TT
1 TTCAAAGATGACAAATTCCCTTT
12973901 TTCAAAGATGA
1 TTCAAAGATGA
12973912 AAGCTTTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (23 bp):
TTCAAAGATGACAAATTCCCTTT
Found at i:12974541 original size:113 final size:113
Alignment explanation
Indices: 12974336--12975303 Score: 1535
Period size: 113 Copynumber: 8.6 Consensus size: 113
12974326 GATTCTAGAA
*
12974336 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
12974401 CAACTTTTCGCTTGAATTTATCATTCGATGGATCAGCATTACCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
12974449 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
12974514 AAACTTTTCGCTTGAATTCATCCTTCGATGGATCAGCATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
*
12974562 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
12974627 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
* *
12974675 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
12974740 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
*
12974788 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
12974853 CAAATTTTCGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGTC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
* *
12974901 GAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
12974966 CAACTTTTCGCTTGAATTTATCATTCGATGAACCAGCATTGCCAGGGC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
*
12975014 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
12975079 CAACTTTTTGCTTGAATTTATCATTCGATGGACCAGCATTGCCAGGGC
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
* * *
12975127 GAGTTCATAATAAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAACTTG--
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * * * *
12975190 ------TT-GCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAG-A
66 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAG-GTC
* *
12975231 GAGTTCATAATGAGAAGAATTCATCTGAAG-AGGAAGAGGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
12975295 CAATCTTTT
66 CAA-CTTTT
12975304 GCATGATTCT
Statistics
Matches: 806, Mismatches: 39, Indels: 21
0.93 0.05 0.02
Matches are distributed among these distances:
103 29 0.04
104 57 0.07
105 3 0.00
112 2 0.00
113 715 0.89
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (113 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGCCAGGTC
Found at i:12975661 original size:3 final size:3
Alignment explanation
Indices: 12975572--12975640 Score: 99
Period size: 3 Copynumber: 24.0 Consensus size: 3
12975562 TTTGTTTTAT
* *
12975572 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12975618 TTA TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
12975641 AATAAATAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 6 0.10
3 55 0.90
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12976296 original size:30 final size:30
Alignment explanation
Indices: 12976260--12976321 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
12976250 CAAAACCCGA
12976260 AGGTACTTTTGTAGATTTGCTCCGATTGGG
1 AGGTACTTTTGTAGATTTGCTCCGATTGGG
12976290 AGGTACTTTTGTAGATTTGCTCCGATTGGG
1 AGGTACTTTTGTAGATTTGCTCCGATTGGG
12976320 AG
1 AG
12976322 CTTTTTAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.18, C:0.13, G:0.31, T:0.39
Consensus pattern (30 bp):
AGGTACTTTTGTAGATTTGCTCCGATTGGG
Found at i:12976926 original size:14 final size:15
Alignment explanation
Indices: 12976889--12976923 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12976879 TTTGATTATT
* *
12976889 TTTTTTAATATTTTA
1 TTTTTTAATACTATA
12976904 TTTTTTAATACTATA
1 TTTTTTAATACTATA
12976919 TTTTT
1 TTTTT
12976924 AATTCCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTAATACTATA
Found at i:12976979 original size:13 final size:12
Alignment explanation
Indices: 12976932--12976995 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
12976922 TTAATTCCTT
*
12976932 TTATTTTAATTA
1 TTATTTTTATTA
** *
12976944 TTATTTGCAATA
1 TTATTTTTATTA
12976956 TTATTTATTATTA
1 TTATTT-TTATTA
12976969 TTACTTTTTATTA
1 TTA-TTTTTATTA
*
12976982 TTATTCTTATTA
1 TTATTTTTATTA
12976994 TT
1 TT
12976996 TATATAAATA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 25 0.58
13 15 0.35
14 3 0.07
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:12976998 original size:16 final size:16
Alignment explanation
Indices: 12976960--12976995 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
12976950 GCAATATTAT
*
12976960 TTATTATTATTACTTT
1 TTATTATTATTACTTA
12976976 TTATTATTATT-CTTA
1 TTATTATTATTACTTA
12976991 TTATT
1 TTATT
12976996 TATATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTATTATTACTTA
Found at i:12977216 original size:119 final size:120
Alignment explanation
Indices: 12977086--12977316 Score: 290
Period size: 120 Copynumber: 1.9 Consensus size: 120
12977076 ATTTTAATAT
* * * *
12977086 TTATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTTAA-ACAACTGGATGTCTATTTTC
1 TTATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTC-TTAAGACAACTAGAAGTC-ATTTTC
* *
12977148 TGATATTTTTAAATAAATAAATATCTTATTTTATAAAT-TATATATTAATTGTTTTAA
64 TGATATTTCTAAATAAATAAATATCTTA-TTTATAAATATATAAATTAATTGTTTTAA
* ** * * *
12977205 TTATTTATTTATTTTTGAATATCAAAGAAAAGAGTTGTCTTAAGGCACCTAGAAGTCCTTTTCTG
1 TTATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAGACAACTAGAAGTCATTTTCTG
*
12977270 ATATTTCTAAATAAATAAATATTTTATTTATAAATATATAAATTAAT
66 ATATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAAT
12977317 ATTTTCTATA
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
119 30 0.32
120 48 0.51
121 17 0.18
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (120 bp):
TTATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAGACAACTAGAAGTCATTTTCTG
ATATTTCTAAATAAATAAATATCTTATTTATAAATATATAAATTAATTGTTTTAA
Found at i:12979443 original size:20 final size:20
Alignment explanation
Indices: 12979417--12979465 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
12979407 AATTACCTTT
12979417 CATCGATGCCTTCCAGTGTG
1 CATCGATGCCTTCCAGTGTG
*
12979437 TATCGATGCCTTCCAGTGTG
1 CATCGATGCCTTCCAGTGTG
12979457 CATCGATGC
1 CATCGATGC
12979466 ACCTTCCGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.29, G:0.24, T:0.31
Consensus pattern (20 bp):
CATCGATGCCTTCCAGTGTG
Found at i:12982267 original size:12 final size:12
Alignment explanation
Indices: 12982250--12982274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12982240 TCTGATAAAA
12982250 AAATAACATTTT
1 AAATAACATTTT
12982262 AAATAACATTTT
1 AAATAACATTTT
12982274 A
1 A
12982275 TCAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATAACATTTT
Found at i:12997911 original size:30 final size:30
Alignment explanation
Indices: 12997871--12997963 Score: 159
Period size: 30 Copynumber: 3.1 Consensus size: 30
12997861 CCGTTAATAA
* * *
12997871 ATTGGCATAATTATATATTTGGTCTTTAAT
1 ATTGGAATAATTATACATTTGGTCCTTAAT
12997901 ATTGGAATAATTATACATTTGGTCCTTAAT
1 ATTGGAATAATTATACATTTGGTCCTTAAT
12997931 ATTGGAATAATTATACATTTGGTCCTTAAT
1 ATTGGAATAATTATACATTTGGTCCTTAAT
12997961 ATT
1 ATT
12997964 TACATATTCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (30 bp):
ATTGGAATAATTATACATTTGGTCCTTAAT
Found at i:12998562 original size:37 final size:36
Alignment explanation
Indices: 12998521--12998644 Score: 99
Period size: 37 Copynumber: 3.3 Consensus size: 36
12998511 GATTTGGATT
12998521 GGTTAATAATTTTCAAATAAATTTTGGTTCGATTAAC
1 GGTTAATAATTTTCAAAT-AATTTTGGTTCGATTAAC
* *** * * * *
12998558 GGTTAAAGAAAAAT-AATTTATTTT-ATTCGGTTAATTC
1 GGTT-AATAATTTTCAAATAATTTTGGTTCGATTAA--C
12998595 GGTTAATAATTTTCAAATAATTTTGGGTTCGATTAAC
1 GGTTAATAATTTTCAAATAATTTT-GGTTCGATTAAC
*
12998632 GGTCAAATAATTT
1 GGT-TAATAATTT
12998645 CGGTTCGATT
Statistics
Matches: 63, Mismatches: 17, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
35 8 0.13
36 10 0.16
37 24 0.38
38 13 0.21
39 8 0.13
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (36 bp):
GGTTAATAATTTTCAAATAATTTTGGTTCGATTAAC
Found at i:12998644 original size:100 final size:96
Alignment explanation
Indices: 12998533--12998729 Score: 254
Period size: 95 Copynumber: 2.0 Consensus size: 96
12998523 TTAATAATTT
* * * * *
12998533 TCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATTCGGT
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAA-AAATCAGTTGATTCGG----TTCGGT
12998598 TAATAATTTTCAAAT-AATTTTGGGTTCGATTAACGG
61 TAATAATTTTCAAATAAATTTT-GGTTCGATTAACGG
* * *
12998634 TCAAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGGTTCGGTTAATA
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAAATCAGTTGATTCGGTTCGGTTAATA
12998698 ATTTTCAAATAAATTTTGGTTCGATTAACGG
66 ATTTTCAAATAAATTTTGGTTCGATTAACGG
12998729 T
1 T
12998730 TAAAGAAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
95 36 0.41
96 6 0.07
99 10 0.11
100 29 0.33
101 6 0.07
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (96 bp):
TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAAATCAGTTGATTCGGTTCGGTTAATA
ATTTTCAAATAAATTTTGGTTCGATTAACGG
Found at i:12998735 original size:169 final size:162
Alignment explanation
Indices: 12998362--12998834 Score: 701
Period size: 160 Copynumber: 2.9 Consensus size: 162
12998352 AAAAATATTA
* *
12998362 GGTTAATAATTTTCAAATAAATTTCGGATC-AGTTAACGGTT-AAGAAAAA-AATAATTTATTTT
1 GGTTAATAATTTTCAAATAAATTTTGGTTCGA-TTAACGGTTAAAGAAAAATAAT-ATTTATTTT
* * * *
12998424 A-TCGGGTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCAATTA
64 ATTCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTA
*
12998488 ATGATTAAAG-AAAAAAATCGGTTGATTTGGATT
129 ATGGTTAAAGAAAAAAAATCGGTTGATTTGGATT
12998521 GGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTC
1 GGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAA--TA-TTTATT-
*
12998586 GGTTAATTCGGTTAATAATTTTCAAATAATTTTGGGTTCGATTAACGGTCAAATAATTTCGGTTC
62 --TT-ATTCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTCGGTTC
12998651 GATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGG-TT
124 GATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGGATT
12998689 CGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAAT-A-ATTTATTTTA
1 -GGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAATATTTATTTTA
* * *
12998752 TTCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTAAAATAATTTTGGTTTGATTAA
65 TTCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
12998817 TGGTTAAAGAAAAAAAAT
130 TGGTTAAAGAAAAAAAAT
12998835 TTGGTTAATA
Statistics
Matches: 289, Mismatches: 12, Indels: 25
0.89 0.04 0.08
Matches are distributed among these distances:
159 37 0.13
160 89 0.31
161 4 0.01
162 1 0.00
163 7 0.02
164 6 0.02
165 1 0.00
166 2 0.01
167 1 0.00
168 70 0.24
169 71 0.25
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (162 bp):
GGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAATATTTATTTTAT
TCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAAT
GGTTAAAGAAAAAAAATCGGTTGATTTGGATT
Found at i:12998784 original size:65 final size:67
Alignment explanation
Indices: 12998634--12998794 Score: 229
Period size: 65 Copynumber: 2.4 Consensus size: 67
12998624 CGATTAACGG
* *
12998634 TCAAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAAAAAATCGGTTGATTTGGTTCGGTTAATA
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAAAT--GTTGATTTGATTCGGTTAATA
12998698 ATTT
64 ATTT
* * *
12998702 TCAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAAT-TT-ATTTTATTCGGTTAATAAT
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAAATGTTGATTTGATTCGGTTAATAAT
12998765 TT
66 TT
*
12998767 TCAAATAAATTTGGGTTCGATTAACGGT
1 TCAAATAAATTTCGGTTCGATTAACGGT
12998795 AAAATAATTT
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
65 46 0.53
66 2 0.02
68 6 0.07
69 32 0.37
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (67 bp):
TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAAAATGTTGATTTGATTCGGTTAATAAT
TT
Found at i:12998897 original size:82 final size:80
Alignment explanation
Indices: 12998755--12998923 Score: 275
Period size: 82 Copynumber: 2.1 Consensus size: 80
12998745 TATTTTATTC
* *
12998755 GGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTAAAATAATTTTGGTTTGATTAATGG
1 GGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTAAAATAATTTCGGTTCGATTAAT-G
12998820 TTAAAGAAAAAAAATTT
65 TTAAAG-AAAAAAATTT
* *
12998837 GGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGT
1 GGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTAAAATAATTTCGGTTCGATTAATGT
12998902 TAAAGAAAAAAATTT
66 TAAAGAAAAAAATTT
*
12998917 AGTTAAT
1 GGTTAAT
12998924 TCGGTTCGGT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 16 0.20
81 7 0.09
82 59 0.72
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.39
Consensus pattern (80 bp):
GGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTAAAATAATTTCGGTTCGATTAATGT
TAAAGAAAAAAATTT
Found at i:12998942 original size:82 final size:83
Alignment explanation
Indices: 12998770--12999036 Score: 256
Period size: 94 Copynumber: 3.1 Consensus size: 83
12998760 ATAATTTTCA
* * * *
12998770 AATAAATTTGGGTTCGATTAACGGTAAAATAATTTTGGTTTGATTAATGGTTAAAGAAAAAAAAT
1 AATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAAT-GTTAAAG-AAAAAAAT
* ** *
12998835 TTGGTTAATAATTTTC---A
64 TTGGTTAATTAGGTTCGGTT
12998852 AATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAAAGAAAAAAATTT
1 AATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAAAGAAAAAAATTT
* *
12998917 AGTTAATTCGGTTCGGTTAAT
66 GGTTAATTAGGTTCGG-T--T
*
12998938 AATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCAGTTCGATTAATGTTAAAGAA
1 AA---T-AAAT---TTT-GGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAAAGAA
* * *
12999003 AAAAA-TCGGTTGATTTGGTTCGGTT
58 AAAAATTTGGTTAATTAGGTTCGGTT
12999028 AAT-AATTTT
1 AATAAATTTT
12999037 CAAATAAATT
Statistics
Matches: 156, Mismatches: 15, Indels: 28
0.78 0.08 0.14
Matches are distributed among these distances:
80 19 0.12
81 7 0.04
82 47 0.30
85 3 0.02
86 2 0.01
87 1 0.01
89 1 0.01
90 7 0.04
92 1 0.01
93 17 0.11
94 51 0.33
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (83 bp):
AATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAAAGAAAAAAATTT
GGTTAATTAGGTTCGGTT
Found at i:12998945 original size:94 final size:93
Alignment explanation
Indices: 12998837--12999055 Score: 375
Period size: 94 Copynumber: 2.3 Consensus size: 93
12998827 AAAAAAATTT
* *
12998837 GGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGT
1 GGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCAGTTCGATTAATGT
*
12998902 TAAAGAAAAAAATTTAGTTAATTCGGTTC
66 TAAAGAAAAAAA-TCAGTTAATTCGGTTC
12998931 GGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCAGTTCGATTAATGT
1 GGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCAGTTCGATTAATGT
* * *
12998996 TAAAGAAAAAAATCGGTTGATTTGGTTC
66 TAAAGAAAAAAATCAGTTAATTCGGTTC
12999024 GGTTAATAATTTTCAAATAAATTTCGGTTCGA
1 GGTTAATAATTTTCAAATAAATTTCGGTTCGA
12999056 AATAAATAAT
Statistics
Matches: 119, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 44 0.37
94 75 0.63
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (93 bp):
GGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCAGTTCGATTAATGT
TAAAGAAAAAAATCAGTTAATTCGGTTC
Found at i:13001232 original size:11 final size:11
Alignment explanation
Indices: 13001216--13001292 Score: 61
Period size: 11 Copynumber: 7.2 Consensus size: 11
13001206 TTATATAGTT
13001216 TATAAACTATA
1 TATAAACTATA
13001227 TATAAA--ATA
1 TATAAACTATA
* ***
13001236 TACAGTGTATA
1 TATAAACTATA
*
13001247 TATAAAGTATA
1 TATAAACTATA
*
13001258 TATATTA-TATA
1 TATA-AACTATA
*
13001269 AATAAACTATA
1 TATAAACTATA
13001280 TATAAACTATA
1 TATAAACTATA
13001291 TA
1 TA
13001293 GTTTATATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
9 6 0.12
10 1 0.02
11 44 0.85
12 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (11 bp):
TATAAACTATA
Found at i:13001280 original size:141 final size:139
Alignment explanation
Indices: 13001079--13001390 Score: 391
Period size: 141 Copynumber: 2.3 Consensus size: 139
13001069 ATTAAAACAA
* * * * *
13001079 TTAT-AATATATAT-ATATATATA-TATATATATAAAACTATATAGTTTATATATAAAGTATATA
1 TTATAAATATATATAAAATATAAAGTGTATATATAAAACTATATAGTTTATAAATAAACTATATA
* * *
13001141 TAAATTATATAGTTTATATTTATATTATTATATACTATATATAAACTATATATATTATGTATAAG
66 TAAACTATATAGTTTATATTTATATTATTATATACTATAGATAAACTATATATATTATGTATAAA
*
13001206 TTATATAGT
131 CTATATAGT
*
13001215 TTATAAACTATATATAAAATATACAGTGTATATATAAAGTA-TATATA-TTATATAAATAAACTA
1 TTATAAA-TATATATAAAATATAAAGTGTATATATAAA--ACTATATAGTT-TATAAATAAACTA
* **
13001278 TATATAAACTATATAGTTTATATTTATATTATTGTATACTATAGATACTCTATATATATTATGTA
62 TATATAAACTATATAGTTTATATTTATATTATTATATACTATAGATAAACTATATATATTATGTA
13001343 TAAACTATATAGT
127 TAAACTATATAGT
* * * * *
13001356 TTTTTAATATATATTATATATAAATTGTATATATA
1 TTATAAATATATATAAAATATAAAGTGTATATATA
13001391 TTATGTATAA
Statistics
Matches: 151, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
136 4 0.03
137 2 0.01
138 7 0.05
139 7 0.05
140 37 0.25
141 93 0.62
142 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (139 bp):
TTATAAATATATATAAAATATAAAGTGTATATATAAAACTATATAGTTTATAAATAAACTATATA
TAAACTATATAGTTTATATTTATATTATTATATACTATAGATAAACTATATATATTATGTATAAA
CTATATAGT
Found at i:13001386 original size:11 final size:11
Alignment explanation
Indices: 13001362--13001410 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
13001352 TAGTTTTTTA
*
13001362 ATATATATTAT
1 ATATAAATTAT
*
13001373 ATATAAATTGT
1 ATATAAATTAT
*
13001384 ATATATATTAT
1 ATATAAATTAT
* *
13001395 GTATAAACTAT
1 ATATAAATTAT
13001406 ATATA
1 ATATA
13001411 CCGTGTATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (11 bp):
ATATAAATTAT
Found at i:13001387 original size:22 final size:22
Alignment explanation
Indices: 13001362--13001507 Score: 71
Period size: 20 Copynumber: 7.0 Consensus size: 22
13001352 TAGTTTTTTA
* *
13001362 ATATATATTATATATAAATTGT
1 ATATATATTATATATAAACTAT
*
13001384 ATATATATTATGTATAAAC--T
1 ATATATATTATATATAAACTAT
*** *
13001404 ATATATACCGTGTATAAACTAT
1 ATATATATTATATATAAACTAT
* *
13001426 ATA-GT-TTATATATGAACTAT
1 ATATATATTATATATAAACTAT
* * *
13001446 -T-GA-ACTATATATAAATTAT
1 ATATATATTATATATAAACTAT
*
13001465 ATAGTTTATTA-ATATAAA-T-T
1 ATA-TATATTATATATAAACTAT
*
13001485 ATATGA-ATTATATAAAAACTAT
1 ATAT-ATATTATATATAAACTAT
13001507 A
1 A
13001508 CAACTTATAT
Statistics
Matches: 92, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
19 18 0.20
20 38 0.41
21 3 0.03
22 30 0.33
23 3 0.03
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (22 bp):
ATATATATTATATATAAACTAT
Found at i:13001428 original size:2 final size:2
Alignment explanation
Indices: 13001080--13001410 Score: 95
Period size: 2 Copynumber: 165.0 Consensus size: 2
13001070 TTAAAACAAT
*
13001080 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA -A AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * *
13001121 GTT TA TA TA TA AA GTA TA TA TA AA T- TA TA TA GTT TA TA TT TA
1 -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* *
13001163 TA T- TA T- TA TA TA CTA TA TA TA AA CTA TA TA TA T- TA TG TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
13001204 -A GT- TA TA TA GTT TA TA AA CTA TA TA TA -A AA TA TA CA GTG TA
1 TA -TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
* * * *
13001245 TA TA TA AA GTA TA TA TA T- TA TA TA AA TA AA CTA TA TA TA AA CTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* * * * *
13001289 TA TA GTT TA TA TT TA TA T- TA T- TG TA TA CTA TA GA TA CTC TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA
* * * *
13001330 TA TA TA T- TA TG TA TA AA CTA TA TA GT- TT TT TA -A TA TA TA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
13001370 TA TA TA TA AA T- TG TA TA TA TA T- TA TG TA TA AA CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
13001411 CCGTGTATAA
Statistics
Matches: 239, Mismatches: 53, Indels: 74
0.65 0.14 0.20
Matches are distributed among these distances:
1 18 0.08
2 202 0.85
3 19 0.08
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:13001581 original size:22 final size:22
Alignment explanation
Indices: 13001556--13001636 Score: 117
Period size: 22 Copynumber: 3.6 Consensus size: 22
13001546 ATATATTATG
*
13001556 TATAAATTATATAGTTTATTAA
1 TATAAACTATATAGTTTATTAA
13001578 TATAAACTATATAGTTTATTAA
1 TATAAACTATATAGTTTATTAA
13001600 TATAAACTATATAGTTTATATATA
1 TATAAACTATATAGTTTAT-TA-A
* *
13001624 TATATAGTATATA
1 TATAAACTATATA
13001637 TGGTTTAGGG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
22 40 0.74
23 2 0.04
24 12 0.22
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (22 bp):
TATAAACTATATAGTTTATTAA
Found at i:13001754 original size:11 final size:10
Alignment explanation
Indices: 13001702--13001776 Score: 52
Period size: 9 Copynumber: 7.8 Consensus size: 10
13001692 TAGATAGTAG
13001702 TATATA-AAC
1 TATATATAAC
13001711 TATATATAAAC
1 TATATAT-AAC
*
13001722 CATATATAA-
1 TATATATAAC
*
13001731 TATATA-AAT
1 TATATATAAC
13001740 TATATAT-AC
1 TATATATAAC
**
13001749 TATATA-ATT
1 TATATATAAC
*
13001758 TACATATGAAC
1 TATATAT-AAC
13001769 TATATATA
1 TATATATA
13001777 TAGTTTAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
8 2 0.04
9 29 0.58
10 3 0.06
11 16 0.32
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (10 bp):
TATATATAAC
Found at i:13001783 original size:24 final size:24
Alignment explanation
Indices: 13001744--13001798 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
13001734 ATAAATTATA
13001744 TATACTATATAATTTACAT-ATGAAC
1 TATA-TATATAATTTA-ATAATGAAC
*
13001769 TATATATATAGTTTAATAATGAAC
1 TATATATATAATTTAATAATGAAC
13001793 TATATA
1 TATATA
13001799 AACTATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 2 0.07
24 22 0.79
25 4 0.14
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (24 bp):
TATATATATAATTTAATAATGAAC
Found at i:13001807 original size:24 final size:23
Alignment explanation
Indices: 13001755--13001807 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
13001745 ATACTATATA
*
13001755 ATTTACATATGAACTATATATAT
1 ATTTACATATGAACTATATAAAT
13001778 AGTTTA-ATAATGAACTATATAAACT
1 A-TTTACAT-ATGAACTATATAAA-T
13001803 ATTTA
1 ATTTA
13001808 TATAGTATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 21 0.81
25 2 0.08
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (23 bp):
ATTTACATATGAACTATATAAAT
Found at i:13001840 original size:2 final size:2
Alignment explanation
Indices: 13001833--13001923 Score: 78
Period size: 2 Copynumber: 44.0 Consensus size: 2
13001823 AAATATAAAT
* * *
13001833 TA TA TA TA TA TA AA CTA TA TA TA CTA TA TA GTT TA CA TA TGA -A
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA T-A TA
* *
13001876 T- TA TA TA TA AA AA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13001918 TA TA TA
1 TA TA TA
13001924 AACTATAATT
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
1 2 0.03
2 66 0.89
3 6 0.08
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:13001844 original size:46 final size:43
Alignment explanation
Indices: 13001793--13001984 Score: 134
Period size: 46 Copynumber: 4.5 Consensus size: 43
13001783 AATAATGAAC
*
13001793 TATATAAACTATTTATATAGTATACACTACAAATATAAATTATATA
1 TATATAAACTATATATATA-TATACACTAC--ATATAAATTATATA
*** *
13001839 TATATAAACTATATATACTATATAGTTTACATATGAATTATATA
1 TATATAAACTATATATA-TATATACACTACATATAAATTATATA
*
13001883 TA-A-AAACTATATATATATAT--A-T--ATATATA-TATATA
1 TATATAAACTATATATATATATACACTACATATAAATTATATA
* * * * *
13001918 TATATAAACTATA-ATTTATACAAACTATATACTACAGTTA-ATA
1 TATATAAACTATATATATATATACACTACATA-TA-AATTATATA
* *
13001961 TTTATATACTATATAATATATATA
1 TATATAAACTATAT-ATATATATA
13001985 GTTTACATTA
Statistics
Matches: 117, Mismatches: 16, Indels: 27
0.73 0.10 0.17
Matches are distributed among these distances:
35 8 0.07
36 12 0.10
37 8 0.07
38 2 0.02
39 1 0.01
41 8 0.07
42 14 0.12
43 15 0.13
44 17 0.15
45 7 0.06
46 23 0.20
47 2 0.02
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (43 bp):
TATATAAACTATATATATATATACACTACATATAAATTATATA
Found at i:13001851 original size:22 final size:21
Alignment explanation
Indices: 13001793--13001931 Score: 69
Period size: 22 Copynumber: 6.7 Consensus size: 21
13001783 AATAATGAAC
**
13001793 TATATAAACTATTTATATAGTA
1 TATATAAACTATAAATATA-TA
* *
13001815 TACACTACAAATATAAAT-TATA
1 TATA-TA-AACTATAAATATATA
*
13001837 TATATATAAACTATATATACTATA
1 TAT--ATAAACTATAAATA-TATA
* * *
13001861 TAGTTTACA-TATGAAT-TATA
1 TA-TATAAACTATAAATATATA
*
13001881 TATAAAAACTAT--ATATATA
1 TATATAAACTATAAATATATA
*
13001900 TATAT--A-TATATATATATA
1 TATATAAACTATAAATATATA
13001918 TATATAAACTATAA
1 TATATAAACTATAA
13001932 TTTATACAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 29
0.66 0.12 0.22
Matches are distributed among these distances:
16 3 0.03
17 1 0.01
18 14 0.16
19 11 0.13
20 10 0.11
21 4 0.05
22 20 0.23
23 9 0.10
24 14 0.16
25 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.41
Consensus pattern (21 bp):
TATATAAACTATAAATATATA
Found at i:13001862 original size:18 final size:18
Alignment explanation
Indices: 13001713--13001984 Score: 65
Period size: 18 Copynumber: 14.9 Consensus size: 18
13001703 ATATAAACTA
* *
13001713 TATATAAACCATATATAA
1 TATATAAACTATATATAC
*
13001731 TATATAAATTATATATAC
1 TATATAAACTATATATAC
** *
13001749 TATATAATTTACATATGAAC
1 TATATAAACTATATAT--AC
* *
13001769 TATAT--A-TATAGTTTAA
1 TATATAAACTATA-TATAC
* *
13001785 TA-ATGAACTATATAAAC
1 TATATAAACTATATATAC
* * *
13001802 TATTTATATAGTATACACTAC
1 TA--TATAAACTATATA-TAC
*
13001823 AAATATAAA-T-TATATA-
1 -TATATAAACTATATATAC
13001839 TATATAAACTATATATAC
1 TATATAAACTATATATAC
*
13001857 TATATAGTTTACATATGAATTATA-
1 TATATA---AAC-TAT--A-TATAC
*
13001881 TATAAAAACTATATATA-
1 TATATAAACTATATATAC
*
13001898 TATATATATA-TATATATATA
1 TATATA-A-ACTATATATA-C
*
13001918 TATATAAACTATA-AT-T
1 TATATAAACTATATATAC
*
13001934 TATACAAACTATATACTAC
1 TATATAAACTATATA-TAC
*
13001953 -AGT-TAATA-TTTATATAC
1 TA-TATAA-ACTATATATAC
13001970 TATAT-AA-TATATATA
1 TATATAAACTATATATA
13001985 GTTTACATTA
Statistics
Matches: 190, Mismatches: 31, Indels: 68
0.66 0.11 0.24
Matches are distributed among these distances:
15 9 0.05
16 24 0.13
17 31 0.16
18 68 0.36
19 9 0.05
20 29 0.15
21 6 0.03
22 4 0.02
24 6 0.03
25 4 0.02
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (18 bp):
TATATAAACTATATATAC
Found at i:13001862 original size:20 final size:20
Alignment explanation
Indices: 13001670--13002145 Score: 105
Period size: 20 Copynumber: 23.9 Consensus size: 20
13001660 TTATATAGTT
*
13001670 TATATATAAACTATATA-ATT
1 TATATATAAACTATATATA-C
* * * *
13001690 TATAGATAGTAGTATATAAAC
1 TATATATA-AACTATATATAC
*
13001711 TATATATAAACCATATATA-
1 TATATATAAACTATATATAC
*
13001730 -ATATATAAATTATATATAC
1 TATATATAAACTATATATAC
**
13001749 TATATAATTTAC-ATATGA-AC
1 TATAT-ATAAACTATAT-ATAC
* * * *
13001769 TATATATATAGTTTA-ATAA
1 TATATATAAACTATATATAC
*
13001788 TGAACTATATAAACTATTTATATAG
1 T--A-TATATAAACTA--TATATAC
* *
13001813 TATACACTACAAATATAAATTATA-
1 TATATA-TA-AACTAT--A-TATAC
13001837 TATATATAAACTATATATAC
1 TATATATAAACTATATATAC
**
13001857 TATATAGTTTAC-ATATGAATTA-
1 TATATA-TAAACTATAT--A-TAC
*
13001879 TATATAAAAACTATATATA-
1 TATATATAAACTATATATAC
*
13001898 TATATATATA-TATATATA-
1 TATATATAAACTATATATAC
13001916 TATATATAAACTATA-AT--
1 TATATATAAACTATATATAC
*
13001933 T-TATACAAACTATATACTAC
1 TATATATAAACTATATA-TAC
* *
13001953 -AGT-TA-ATA-TTTATATAC
1 TA-TATATAAACTATATATAC
* *
13001970 TATATAATATA-TATAGTTTAC
1 TATAT-ATAAACTATA-TATAC
*
13001991 -AT-TAT-TAC-ATATGA-AC
1 TATATATAAACTATAT-ATAC
*
13002007 TATATATATAAACTATATAGT-T
1 --TATATATAAACTATATA-TAC
** * * *
13002029 TACCTATGAATTATATATAG
1 TATATATAAACTATATATAC
* * *
13002049 TTTATTAATGAACTATATAAAC
1 TATA-T-ATAAACTATATATAC
* * *
13002071 TATTTATATAGTATATACTA-
1 TATATATAAACTATATA-TAC
*
13002091 TATATAAAAACTATATATA-
1 TATATATAAACTATATATAC
*
13002110 TATAATATAAACTATA-AT-T
1 TAT-ATATAAACTATATATAC
13002129 TATATATAAACTATATA
1 TATATATAAACTATATA
13002146 GTTTACATAT
Statistics
Matches: 338, Mismatches: 64, Indels: 109
0.66 0.13 0.21
Matches are distributed among these distances:
16 15 0.04
17 11 0.03
18 58 0.17
19 42 0.12
20 103 0.30
21 35 0.10
22 47 0.14
23 7 0.02
24 12 0.04
25 8 0.02
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (20 bp):
TATATATAAACTATATATAC
Found at i:13001914 original size:33 final size:33
Alignment explanation
Indices: 13001825--13001917 Score: 84
Period size: 33 Copynumber: 2.8 Consensus size: 33
13001815 TACACTACAA
* * * *
13001825 ATATAAAT-TATATATATATAAACTATATATACT
1 ATATATATATATATATATATATA-TATAAAAACT
* *
13001858 ATATAGTTTACATATGA-AT-TATATATAAAAACT
1 ATATA-TATATATAT-ATATATATATATAAAAACT
13001891 ATATATATATATATATATATATATATA
1 ATATATATATATATATATATATATATA
13001918 TATATAAACT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
31 1 0.02
32 9 0.19
33 26 0.55
34 4 0.09
35 6 0.13
36 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (33 bp):
ATATATATATATATATATATATATATAAAAACT
Found at i:13001948 original size:108 final size:107
Alignment explanation
Indices: 13001723--13001928 Score: 249
Period size: 108 Copynumber: 1.9 Consensus size: 107
13001713 TATATAAACC
* * ***
13001723 ATATATAATATATAAATTATATATACTATATAATTTACATATGAACTATATATATAGTTTAATAA
1 ATATAT-ATATATAAACTATATATACTATATAATTTACATATGAACTATATATAAAAACTAATAA
* *
13001788 TGAACTATATAAACTATTTATATAGTATACACTACAAATATAA
65 TGAACTATATAAACTATATATATAGTATAAACTACAAATATAA
* *
13001831 ATTATATATATATAAACTATATATACTATATAGTTTACATATGAATTATATATAAAAACTATATA
1 A-TATATATATATAAACTATATATACTATATAATTTACATATGAACTATATATAAAAACTA-ATA
*
13001896 TAT-ATA-TATATATA-TATATATATA-TATAAACTA
64 -ATGA-ACTATATAAACTATATATATAGTATAAACTA
13001929 TAATTTATAC
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
107 8 0.10
108 57 0.68
109 16 0.19
110 3 0.04
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (107 bp):
ATATATATATATAAACTATATATACTATATAATTTACATATGAACTATATATAAAAACTAATAAT
GAACTATATAAACTATATATATAGTATAAACTACAAATATAA
Found at i:13002059 original size:22 final size:22
Alignment explanation
Indices: 13002020--13002067 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13002010 ATATATAAAC
*
13002020 TATATAGTTTACCTATGAATTA
1 TATATAGTTTACCTATGAACTA
*
13002042 TATATAGTTTA-TTAATGAACTA
1 TATATAGTTTACCT-ATGAACTA
13002064 TATA
1 TATA
13002068 AACTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (22 bp):
TATATAGTTTACCTATGAACTA
Found at i:13002105 original size:18 final size:17
Alignment explanation
Indices: 13002084--13002145 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
13002074 TTATATAGTA
13002084 TATACTATATATAAAAAC
1 TATA-TATATATAAAAAC
13002102 TATATATATATAATATAAAC
1 TATATATATAT-A-A-AAAC
* *
13002122 TATAATTTATATATAAAC
1 TAT-ATATATATAAAAAC
13002140 TATATA
1 TATATA
13002146 GTTTACATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
17 9 0.24
18 12 0.32
19 1 0.03
20 8 0.22
21 7 0.19
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (17 bp):
TATATATATATAAAAAC
Found at i:13002150 original size:20 final size:20
Alignment explanation
Indices: 13002009--13002162 Score: 93
Period size: 20 Copynumber: 7.7 Consensus size: 20
13001999 ATATGAACTA
13002009 TATATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
**
13002029 TACCTATGAATTA-TATATAGTT
1 TATATAT-AA--ACTATATAGTT
* ***
13002051 TAT-TAATGAACTATATAAAC
1 TATAT-ATAAACTATATAGTT
* * * * *
13002071 TATTTATATAGTATATACTA
1 TATATATAAACTATATAGTT
* *
13002091 TATATAAAAACTATATA-TA
1 TATATATAAACTATATAGTT
13002110 TATAATATAAACTATA-A-TT
1 TAT-ATATAAACTATATAGTT
13002129 TATATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
* *
13002149 TACATATGAACTAT
1 TATATATAAACTAT
13002163 GTATATAAAA
Statistics
Matches: 104, Mismatches: 21, Indels: 18
0.73 0.15 0.13
Matches are distributed among these distances:
18 12 0.12
19 12 0.12
20 61 0.59
21 5 0.05
22 13 0.12
23 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (20 bp):
TATATATAAACTATATAGTT
Found at i:13002480 original size:18 final size:18
Alignment explanation
Indices: 13002457--13002495 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13002447 TTAAATTTTT
*
13002457 ATATAATAATCCTAA-TTA
1 ATATAAAAAT-CTAATTTA
13002475 ATATAAAAATCTAATTTA
1 ATATAAAAATCTAATTTA
13002493 ATA
1 ATA
13002496 ATTTGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATAAAAATCTAATTTA
Found at i:13002595 original size:15 final size:16
Alignment explanation
Indices: 13002575--13002606 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
13002565 TTTTGAATAT
13002575 ATTTATAAA-ATAAAA
1 ATTTATAAATATAAAA
13002590 ATTTATAAATATAAAA
1 ATTTATAAATATAAAA
13002606 A
1 A
13002607 AATATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTTATAAATATAAAA
Found at i:13002807 original size:16 final size:16
Alignment explanation
Indices: 13002786--13002848 Score: 81
Period size: 16 Copynumber: 3.9 Consensus size: 16
13002776 TCAATTACAT
13002786 GTCAAGTTCAAAACAG
1 GTCAAGTTCAAAACAG
*
13002802 GTCAAGTTCAAAACAA
1 GTCAAGTTCAAAACAG
*
13002818 GTTAAGTTCAAAACAG
1 GTCAAGTTCAAAACAG
* * *
13002834 TTCAGGTTGAAAACA
1 GTCAAGTTCAAAACA
13002849 ACTCGATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.22
Consensus pattern (16 bp):
GTCAAGTTCAAAACAG
Found at i:13002830 original size:32 final size:32
Alignment explanation
Indices: 13002789--13002849 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
13002779 ATTACATGTC
13002789 AAGTTCAAAACAGGTCAAGTTCAAAACAAGTT
1 AAGTTCAAAACAGGTCAAGTTCAAAACAAGTT
* * *
13002821 AAGTTCAAAACAGTTCAGGTTGAAAACAA
1 AAGTTCAAAACAGGTCAAGTTCAAAACAA
13002850 CTCGATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.21
Consensus pattern (32 bp):
AAGTTCAAAACAGGTCAAGTTCAAAACAAGTT
Found at i:13004999 original size:19 final size:19
Alignment explanation
Indices: 13004977--13005014 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13004967 CCGGGTATTT
* *
13004977 GGGTAAGTATCGGGTACCC
1 GGGTAAGTACCGGATACCC
13004996 GGGTAAGTACCGGATACCC
1 GGGTAAGTACCGGATACCC
13005015 TAAATAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.34, T:0.18
Consensus pattern (19 bp):
GGGTAAGTACCGGATACCC
Found at i:13007151 original size:142 final size:142
Alignment explanation
Indices: 13006880--13007149 Score: 362
Period size: 142 Copynumber: 1.9 Consensus size: 142
13006870 CAAACGCCCC
* * * * * *
13006880 AATATATATCATATATAGTGGCGTTTTTATTAAACGTCGCAATTTATCAGTACTTTAGTGGCGTT
1 AATAGATATCATATATAGTGGCGTTCTTAATAAACGCCGCAATTTATCAATACTTTAGTGGCGCT
*** * * *
13006945 TTTTAATTACAAATGTTGCAATTTATGAGTCTTTTATCATCCCTGAACCTTTAATGGCATTTTTA
66 TTTTAATTACAAACACTACAATTTATGAGTATTTTATCATCCCAGAACCTTTAATGGCATTTTTA
13007010 GTCAAATAACGT
131 GTCAAATAACGT
* *
13007022 AATAGATATCATATATAGTGGCGTTCTTAATAAACGCCGTAATTTTTCAATACTTTAGTGGC-CT
1 AATAGATATCATATATAGTGGCGTTCTTAATAAACGCCGCAATTTATCAATACTTTAGTGGCGCT
* * * * *
13007086 TTTTAATTACAAACACTACATTTTTTTAGTATTTTATCATCCCAGAACCTTTAGTGGCTTTTTT
66 TTTTAATTACAAACACTACAATTTATGAGTATTTTATCATCCCAGAACCTTTAATGGCATTTTT
13007150 TAAATAAACG
Statistics
Matches: 109, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
141 54 0.50
142 55 0.50
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (142 bp):
AATAGATATCATATATAGTGGCGTTCTTAATAAACGCCGCAATTTATCAATACTTTAGTGGCGCT
TTTTAATTACAAACACTACAATTTATGAGTATTTTATCATCCCAGAACCTTTAATGGCATTTTTA
GTCAAATAACGT
Found at i:13007838 original size:30 final size:30
Alignment explanation
Indices: 13007799--13007860 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
13007789 CCAAAACTGA
**
13007799 TAGTGTAGGCACTAAACGTGTAGTTTACCC
1 TAGTGTAGGCACTAAACGCATAGTTTACCC
*
13007829 TAGTTTAGGCACTAAACGCATAGTTTACCC
1 TAGTGTAGGCACTAAACGCATAGTTTACCC
13007859 TA
1 TA
13007861 TATATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (30 bp):
TAGTGTAGGCACTAAACGCATAGTTTACCC
Found at i:13014128 original size:53 final size:55
Alignment explanation
Indices: 13014054--13014234 Score: 201
Period size: 53 Copynumber: 3.3 Consensus size: 55
13014044 GGAGTATGGA
* * *
13014054 ACTCGAATAATCTTTAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
13014109 AC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * *
13014162 ACTCGAACAATCTTCAACAAAT-GGGTCCGCTCCCTATTTC-TCTAGGGAGTAT-AG
1 ACTCGAACAATCTTCAAC-AATCGCGTCTGCCCCCTATTTCTTC-AGAGAGTATAAG
*
13014216 AACTCGAACATCTCTTCAA
1 -ACTCGAACA-ATCTTCAA
13014235 ACGGGTTCGC
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
53 47 0.44
54 6 0.06
55 45 0.42
56 10 0.09
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (55 bp):
ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:13014359 original size:102 final size:103
Alignment explanation
Indices: 13014179--13014943 Score: 1053
Period size: 104 Copynumber: 7.4 Consensus size: 103
13014169 CAATCTTCAA
* * * * * * *
13014179 CAAATGGGTCCGCTCCCTATTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCAAACGGGTTCG
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACA--TCTTCAAACGGGTTCG
* * * *
13014244 CTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACA-TCTT
64 CTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACACTCTT
* * *
13014283 CAAACGGGTTCGCTCCTTCTTTTTTTAAGGAGTATAGAACTCGAACATCTTCAAACGAGTTCGCT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
* *
13014348 CCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCTT
66 CCCTCTTTCTCTAGGGAGTATGGAACTCGAACA-CTCTT
* * *
13014387 C--ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTC-AACTGGGTTCGC
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAAC-GGGTTCGC
*
13014449 TCCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTT
65 TCCCTCTTTCTCTAGGGAGTATGGAACTCGA-ACA-CTCTT
*
13014489 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAATGGGTTCGCT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
*
13014554 CCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTT
66 CCCTCTTTCTCTAGGGAGTATGGAACTCGA-ACA-CTCTT
*
13014593 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAATGGGTTCGCT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
*
13014658 CCCTCTTTCTCTAGGGAGTATGGAACATAG-ACATCTCTT
66 CCCTCTTTCTCTAGGGAGTATGGAAC-TCGAACA-CTCTT
13014697 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
* * ** * * *
13014762 CCTTCTTTCTTTAAAGAGTATAGAACTCGCATA-TCTT
66 CCCTCTTTCTCTAGGGAGTATGGAACTCGAACACTCTT
* * * *
13014799 CACACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCAAACGGGTTCGCT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
13014864 CCCTCTTTCTCTAGGGAGTATGGAACTCGAACA-TCTT
66 CCCTCTTTCTCTAGGGAGTATGGAACTCGAACACTCTT
*
13014901 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCG
13014944 CATATCTTTA
Statistics
Matches: 604, Mismatches: 47, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
101 4 0.01
102 269 0.45
103 2 0.00
104 326 0.54
105 3 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (103 bp):
CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCT
CCCTCTTTCTCTAGGGAGTATGGAACTCGAACACTCTT
Found at i:13014951 original size:51 final size:51
Alignment explanation
Indices: 13014179--13014943 Score: 984
Period size: 51 Copynumber: 14.8 Consensus size: 51
13014169 CAATCTTCAA
* * * * * *
13014179 CAAATGGGTCCGCTCCCTATTTCTCTAGGGAGTATAGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACA--TCTT
* *
13014232 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * *
13014283 CAAACGGGTTCGCTCCTTCTTTTTTTAAGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * *
13014334 CAAACGAGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACA--TCTT
* *
13014387 C--ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * *
13014436 C-AACTGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTT
1 CAAAC-GGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGA-ACA--TCTT
*
13014489 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * * *
13014540 CAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACT-TAGACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGA-ACA--TCTT
*
13014593 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * * *
13014644 CAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACATAG-ACATCTCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAAC-TCGAACA--TCTT
*
13014697 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
** * * *
13014748 CAAACGGGTTCGCTCCTTCTTTCTTTAAAGAGTATAGAACTCGCATATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* * *
13014799 CACACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATGGAACTCGGACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* *
13014850 CAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
* *
13014901 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
1 CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCG
13014944 CATATCTTTA
Statistics
Matches: 638, Mismatches: 57, Indels: 36
0.87 0.08 0.05
Matches are distributed among these distances:
49 5 0.01
50 4 0.01
51 446 0.70
52 4 0.01
53 174 0.27
54 5 0.01
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (51 bp):
CAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGAACTCGAACATCTT
Found at i:13015381 original size:36 final size:36
Alignment explanation
Indices: 13015323--13015512 Score: 220
Period size: 36 Copynumber: 5.2 Consensus size: 36
13015313 ACTCTTCTGA
* * **
13015323 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
13015360 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * * *
13015396 GAAGACTTATGATGATTTGCTTCACTATTCTCCAGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * *
13015432 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
13015468 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
13015504 GAAGGCTTA
1 GAAGGCTTA
13015513 GGATTGACTT
Statistics
Matches: 132, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
35 1 0.01
36 118 0.89
37 13 0.10
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:13027439 original size:20 final size:20
Alignment explanation
Indices: 13027416--13027458 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
13027406 GAGTTTATGG
13027416 TCTAGCCG-TTGAGGATGTTT
1 TCTAGCCGTTTG-GGATGTTT
13027436 TCTAGCCGTTTGGGATGTTT
1 TCTAGCCGTTTGGGATGTTT
13027456 TCT
1 TCT
13027459 CTGCAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.12, C:0.16, G:0.28, T:0.44
Consensus pattern (20 bp):
TCTAGCCGTTTGGGATGTTT
Found at i:13032882 original size:19 final size:21
Alignment explanation
Indices: 13032858--13032896 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
13032848 GGTGAAGTGA
13032858 TAAAATT-AGTG-TAAAAGAG
1 TAAAATTCAGTGATAAAAGAG
13032877 TAAAATTCAGTGATAAAAGA
1 TAAAATTCAGTGATAAAAGA
13032897 AATCCAACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.54, C:0.03, G:0.18, T:0.26
Consensus pattern (21 bp):
TAAAATTCAGTGATAAAAGAG
Found at i:13034352 original size:2 final size:2
Alignment explanation
Indices: 13034345--13034379 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13034335 TTTTAATGGA
13034345 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13034380 TTTTTGCTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13034563 original size:2 final size:2
Alignment explanation
Indices: 13034556--13034591 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13034546 ATCTATGTTA
13034556 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13034592 TTGTTGGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13040174 original size:24 final size:24
Alignment explanation
Indices: 13040147--13040195 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
13040137 TGCATGACAT
*
13040147 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTGTTATACATCA
13040171 TGTACATAGATGTGTTATACATCA
1 TGTACATAGATGTGTTATACATCA
13040195 T
1 T
13040196 CAGGAAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (24 bp):
TGTACATAGATGTGTTATACATCA
Found at i:13047957 original size:24 final size:24
Alignment explanation
Indices: 13047930--13047978 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
13047920 TGCATGACAT
*
13047930 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTGTTATACATCA
13047954 TGTACATAGATGTGTTATACATCA
1 TGTACATAGATGTGTTATACATCA
13047978 T
1 T
13047979 CAGGAAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (24 bp):
TGTACATAGATGTGTTATACATCA
Found at i:13051165 original size:54 final size:54
Alignment explanation
Indices: 13051106--13051387 Score: 365
Period size: 54 Copynumber: 5.2 Consensus size: 54
13051096 TTCATTGAGA
* ** * *
13051106 TGCACA-TGTAGTGCCTACACGATCATTCATAAACATATTATGAATTCCGT-GGT
1 TGCACACT-TAGTGCCTATACGATTGTTCATCAACATATGATGAATTCCGTGGGT
* * *
13051159 TCGCACACATAGTGCTTATACGGTTGTTCATCAACATATGATGAATT-CGTGGGT
1 T-GCACACTTAGTGCCTATACGATTGTTCATCAACATATGATGAATTCCGTGGGT
* *
13051213 TGCATACTTAGTGCCTATAC-AGTTGTTCATCAACATATGATGAATTTCGTGGGT
1 TGCACACTTAGTGCCTATACGA-TTGTTCATCAACATATGATGAATTCCGTGGGT
* * * *
13051267 TGTACACTTAGTGCCTATACGGTTGTTCATCAACATATGATAAATTTCGTGGGT
1 TGCACACTTAGTGCCTATACGATTGTTCATCAACATATGATGAATTCCGTGGGT
* *
13051321 TGCACACTTAGTGCCTATACGATTGTTCATCAATATATGATGAATTCCGTTGGT
1 TGCACACTTAGTGCCTATACGATTGTTCATCAACATATGATGAATTCCGTGGGT
13051375 TGCACACTTAGTG
1 TGCACACTTAGTG
13051388 GTTATAGTAC
Statistics
Matches: 201, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
53 44 0.22
54 157 0.78
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGATTGTTCATCAACATATGATGAATTCCGTGGGT
Found at i:13051300 original size:107 final size:107
Alignment explanation
Indices: 13051106--13051387 Score: 390
Period size: 107 Copynumber: 2.6 Consensus size: 107
13051096 TTCATTGAGA
* ** * * *
13051106 TGCACA-TGTAGTGCCTACACGATCATTCATAAACATATTATGAATTCCGTGGTTCGCACACATA
1 TGCACACT-TAGTGCCTATACGATTGTTCATCAACATATGATGAATTCCGTGGTT-GCACACTTA
* *
13051170 GTGCTTATACGGTTGTTCATCAACATATGATGAA-TTCGTGGGT
64 GTGCCTATACGGTTGTTCATCAACATATGATAAATTTCGTGGGT
* * *
13051213 TGCATACTTAGTGCCTATAC-AGTTGTTCATCAACATATGATGAATTTCGTGGGTTGTACACTTA
1 TGCACACTTAGTGCCTATACGA-TTGTTCATCAACATATGATGAATTCCGT-GGTTGCACACTTA
13051277 GTGCCTATACGGTTGTTCATCAACATATGATAAATTTCGTGGGT
64 GTGCCTATACGGTTGTTCATCAACATATGATAAATTTCGTGGGT
*
13051321 TGCACACTTAGTGCCTATACGATTGTTCATCAATATATGATGAATTCCGTTGGTTGCACACTTAG
1 TGCACACTTAGTGCCTATACGATTGTTCATCAACATATGATGAATTCCG-TGGTTGCACACTTAG
13051386 TG
65 TG
13051388 GTTATAGTAC
Statistics
Matches: 154, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
106 1 0.01
107 78 0.51
108 73 0.47
109 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (107 bp):
TGCACACTTAGTGCCTATACGATTGTTCATCAACATATGATGAATTCCGTGGTTGCACACTTAGT
GCCTATACGGTTGTTCATCAACATATGATAAATTTCGTGGGT
Found at i:13058650 original size:54 final size:54
Alignment explanation
Indices: 13058592--13058807 Score: 299
Period size: 54 Copynumber: 4.0 Consensus size: 54
13058582 GATGTATACG
** * * * * * *
13058592 TAGTGCCTATACGATCATTCATAAATAGATTATGAATTATGT-GGTTCGCACACA
1 TAGTGCCTATACGATTGTTCATCAACATATGATGAATTCTGTGGGTT-GCACACT
*
13058646 TAGTGCCTATACGATTGTTCATCGACATATGATGAATTCTGTGGGTTGCACACT
1 TAGTGCCTATACGATTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACT
* * *
13058700 TAGTGCCAATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACT
1 TAGTGCCTATACGATTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACT
*
13058754 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACT
1 TAGTGCCTATACGATTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACT
13058808 GAGGTGGTGT
Statistics
Matches: 146, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
54 142 0.97
55 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (54 bp):
TAGTGCCTATACGATTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACT
Found at i:13059030 original size:31 final size:31
Alignment explanation
Indices: 13058994--13059052 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
13058984 AACTTAAAAG
* * *
13058994 AGTTTTGCAATATTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
13059025 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
13059053 CCATACAACG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:13059103 original size:22 final size:22
Alignment explanation
Indices: 13059077--13059119 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13059067 TAATAAATTA
*
13059077 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
13059099 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
13059120 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:13059128 original size:22 final size:22
Alignment explanation
Indices: 13059079--13059127 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13059069 ATAAATTATT
* **
13059079 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
13059101 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
13059124 TAAA
1 TAAA
13059128 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:13059131 original size:54 final size:54
Alignment explanation
Indices: 13059067--13059692 Score: 466
Period size: 54 Copynumber: 11.6 Consensus size: 54
13059057 ACAACGACAA
*
13059067 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
13059121 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCGATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** ** *
13059178 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
13059233 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
13059287 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * * * * * *
13059344 TTTTAAATAAATCAATACATACTAATAAAT---TA-TTTAAAATAAATCAATTCACA-
1 TAATAAATTATTTAA-A-ATA--AATCAATCCATATTTTAAAATAAATCAATCCATAC
** * ** * * **
13059397 TTTTAAAATAAAT-CAATACATACTAATAAAT-TATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
** * ** * ** **
13059451 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
*
13059506 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
13059554 AAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
13059608 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
13059662 TAATAAATTTTTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
13059693 CAACTACAAT
Statistics
Matches: 473, Mismatches: 64, Indels: 70
0.78 0.11 0.12
Matches are distributed among these distances:
48 32 0.07
49 4 0.01
50 12 0.03
51 2 0.00
52 1 0.00
53 25 0.05
54 296 0.63
55 17 0.04
56 10 0.02
57 27 0.06
58 38 0.08
59 3 0.01
61 6 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:13059172 original size:80 final size:80
Alignment explanation
Indices: 13059082--13059638 Score: 503
Period size: 80 Copynumber: 6.9 Consensus size: 80
13059072 AATTATTTAA
*
13059082 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
13059147 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
13059162 AATAAATCAATCGATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
13059227 ACATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
13059246 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
13059311 ATCCATACAACTACAAT
64 ATCCATACAACTACAAT
*
13059328 AATAAATCAATCCATATTTT-AAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA-
*
13059392 TCACATTTTA-AAATA-AAT
65 TC-CA---TACAACTACAAT
* **
13059410 CAATACATACTAATAAAT-TATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAAT
1 -AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
*
13059464 CAATCCATACTAA-TAAATTATTT
62 CAATCCATAC-AACTACA--A--T
*** * * * *
13059487 AAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATC
1 --AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
* *
13059545 AATCCATACAAATAAATTATTT
63 AATCCATACAACTACA--A--T
13059567 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
13059632 ATCCATA
64 ATCCATA
13059639 TTTTAAAATA
Statistics
Matches: 406, Mismatches: 31, Indels: 74
0.79 0.06 0.14
Matches are distributed among these distances:
71 2 0.00
72 2 0.00
73 3 0.01
74 2 0.00
75 3 0.01
76 26 0.06
77 8 0.02
78 7 0.02
79 50 0.12
80 157 0.39
81 5 0.01
82 8 0.02
83 10 0.02
84 7 0.02
85 12 0.03
86 104 0.26
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:13059219 original size:134 final size:134
Alignment explanation
Indices: 13059067--13059826 Score: 719
Period size: 134 Copynumber: 5.6 Consensus size: 134
13059057 ACAACGACAA
*
13059067 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* *
13059132 TTAAAATAAATCAATCCATACAACTACAA-TAATAAATCAATCGATATTTTAAAATAAATCAATC
66 TTAAAATAAATCAATCCATACAA-TAAAATTAATAAATCAATCCATATTTTAAAATAAATCAATC
13059196 CATAC
130 CATAC
* * ** * ** * ** **
13059201 AAATAAATTATTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAAT-C-AATCCA-T
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATT
* **
13059263 ATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
64 A-TTTAAAATAAATCAATCCATAC-AATAAA--A-TT--AATAAATCAATCCAT---ATTTTAA-
13059328 AATAAATCAATCCATA-
118 AATAAATCAATCCATAC
** * * * * *
13059344 TTTTAAATAAATCAATACATACTAATAAAT---TA-TTTAAAATAAATCAAT---T-C----ACA
1 TAATAAATTATTTAA-A-ATA--AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAA
*
13059397 -T-TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT
62 TTATTTAAAATAAATCAATCCATAC-AATAAA--A-TT--AATAAATCAATCCATATTTTAAAAT
13059460 AAATCAATCCATAC
121 AAATCAATCCATAC
*** * * * *
13059474 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTA
13059532 TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
65 TTTAAAATAAATCAATCCATAC-AATAAA--A-TT--AATAAATCAATCCATATTTTAAAATAAA
13059597 TCAATCCATAC
124 TCAATCCATAC
*
13059608 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTTT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
13059673 TTAAAATAAATCAATCCATACAACTACAA-TAATAAATCAATCCATATTTTAAAATAAATCAATC
66 TTAAAATAAATCAATCCATACAA-TAAAATTAATAAATCAATCCATATTTTAAAATAAATCAATC
13059737 CATAC
130 CATAC
*
13059742 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
13059807 TTAAAATAAATCAATCCATA
66 TTAAAATAAATCAATCCATA
13059827 TTTTAAAATA
Statistics
Matches: 531, Mismatches: 57, Indels: 76
0.80 0.09 0.11
Matches are distributed among these distances:
126 6 0.01
128 3 0.01
129 19 0.04
130 20 0.04
131 5 0.01
133 60 0.11
134 296 0.56
135 15 0.03
136 9 0.02
138 5 0.01
139 3 0.01
140 39 0.07
141 3 0.01
142 7 0.01
143 13 0.02
144 19 0.04
145 3 0.01
147 6 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (134 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAATAAAATTAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATAC
Found at i:13059269 original size:22 final size:22
Alignment explanation
Indices: 13059243--13059285 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13059233 TAATAAATTA
13059243 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
13059265 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
13059286 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:13059294 original size:22 final size:22
Alignment explanation
Indices: 13059245--13059293 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13059235 ATAAATTATT
**
13059245 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
13059267 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
13059290 TAAA
1 TAAA
13059294 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:13059456 original size:22 final size:22
Alignment explanation
Indices: 13059430--13059472 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13059420 TAATAAATTA
13059430 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
13059452 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
13059473 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:13059481 original size:22 final size:22
Alignment explanation
Indices: 13059432--13059480 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13059422 ATAAATTATT
**
13059432 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
13059454 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
13059477 TAAA
1 TAAA
13059481 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:13059561 original size:22 final size:22
Alignment explanation
Indices: 13059488--13059561 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
13059478 AAATTATTTA
*
13059488 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
13059513 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
13059535 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
13059558 AAAT
1 AAAT
13059562 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:13059590 original size:22 final size:22
Alignment explanation
Indices: 13059564--13059606 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13059554 AAATAAATTA
13059564 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
13059586 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
13059607 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:13059615 original size:22 final size:22
Alignment explanation
Indices: 13059566--13059614 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13059556 ATAAATTATT
**
13059566 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
13059588 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
13059611 TAAA
1 TAAA
13059615 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:13059644 original size:22 final size:22
Alignment explanation
Indices: 13059618--13059660 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13059608 TAATAAATTA
13059618 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
13059640 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
13059661 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:13059665 original size:188 final size:188
Alignment explanation
Indices: 13059211--13059881 Score: 1272
Period size: 188 Copynumber: 3.6 Consensus size: 188
13059201 AAATAAATTA
13059211 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
13059276 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
* * *
13059341 ATATTTT-AAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATTCACAT
131 ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
13059398 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
13059463 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
*
13059528 ATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAT
131 ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
*
13059586 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
13059651 TCAATCCATACTAATAAATTTTTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
13059716 ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
131 ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
13059774 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
13059839 TCAATCCATACTAATAAATTATTTTAAAATAAATCAATCCATA
66 TCAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATA
13059882 TTTTATAATA
Statistics
Matches: 473, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
187 137 0.29
188 315 0.67
189 21 0.04
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (188 bp):
TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:13059669 original size:22 final size:22
Alignment explanation
Indices: 13059620--13059668 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13059610 ATAAATTATT
**
13059620 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
13059642 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
13059665 TAAA
1 TAAA
13059669 TTTTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:13059723 original size:80 final size:80
Alignment explanation
Indices: 13059623--13059772 Score: 291
Period size: 80 Copynumber: 1.9 Consensus size: 80
13059613 AATTATTTAA
*
13059623 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTTTTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
13059688 CCATACAACTACAAT
66 CCATACAACTACAAT
13059703 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
13059768 CCATA
66 CCATA
13059773 TTTTAAAATA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:13059749 original size:22 final size:23
Alignment explanation
Indices: 13059674--13059748 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
13059664 ATAAATTTTT
13059674 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
13059696 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
13059722 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
13059745 TAAA
1 TAAA
13059749 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:13059772 original size:54 final size:54
Alignment explanation
Indices: 13059328--13059892 Score: 523
Period size: 54 Copynumber: 10.5 Consensus size: 54
13059318 CAACTACAAT
*
13059328 AATAAATCAATCCATATTTT-AAATAAATCAATACATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * *
13059381 AATAAATCAATTCACATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
13059435 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** ** * ** *
13059489 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** ** ** * ** *
13059545 AATCCATACAAATAAAT-TATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** ** ** * ** *
13059599 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** ** * *
13059653 AATCCATACTAATAAATTTTTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAAT-C-AATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
13059703 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
13059757 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
13059811 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-TTTAA
*
13059866 AATAAATCAATCCATATTTTATAATAA
1 AATAAATCAATCCATATTTTAAAATAA
13059893 TTTATTTTAA
Statistics
Matches: 459, Mismatches: 34, Indels: 36
0.87 0.06 0.07
Matches are distributed among these distances:
48 31 0.07
49 3 0.01
50 6 0.01
51 1 0.00
52 1 0.00
53 19 0.04
54 321 0.70
55 38 0.08
56 5 0.01
57 13 0.03
58 21 0.05
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:13059778 original size:22 final size:22
Alignment explanation
Indices: 13059752--13059794 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13059742 TAATAAATTA
*
13059752 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
13059774 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
13059795 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:13059803 original size:22 final size:22
Alignment explanation
Indices: 13059754--13059802 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13059744 ATAAATTATT
* **
13059754 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATACATATAA
13059776 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
13059799 TAAA
1 TAAA
13059803 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:13059832 original size:22 final size:22
Alignment explanation
Indices: 13059806--13059848 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13059796 TAATAAATTA
13059806 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
13059828 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
13059849 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:13059857 original size:22 final size:22
Alignment explanation
Indices: 13059808--13059856 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13059798 ATAAATTATT
**
13059808 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
13059830 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
13059853 TAAA
1 TAAA
13059857 TTATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:13059864 original size:33 final size:32
Alignment explanation
Indices: 13059825--13059962 Score: 128
Period size: 30 Copynumber: 4.3 Consensus size: 32
13059815 AATCAATCCA
13059825 TATTTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTTAAAATAAATCAATCCATA-TAATAAAT
*
13059858 TATTTTAAAATAAATCAATCCATATTTTATAATAATT
1 TATTTTAAAATAAATCAATCC--A---TATAATAAAT
* **
13059895 TATTTTAAAATAAAT-TAT-TTTATAATAAAT
1 TATTTTAAAATAAATCAATCCATATAATAAAT
*
13059925 TATTTTAAAATAAAT-AA-CC-T-TATTAAAT
1 TATTTTAAAATAAATCAATCCATATAATAAAT
13059953 TA-TTTAAAAT
1 TATTTTAAAAT
13059963 TATTTTAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
27 8 0.09
28 9 0.10
29 1 0.01
30 25 0.27
33 21 0.23
35 1 0.01
36 2 0.02
37 22 0.24
38 2 0.02
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (32 bp):
TATTTTAAAATAAATCAATCCATATAATAAAT
Found at i:13059871 original size:15 final size:15
Alignment explanation
Indices: 13059851--13059939 Score: 88
Period size: 15 Copynumber: 5.5 Consensus size: 15
13059841 AATCCATACT
13059851 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
13059866 AATAAATCAATCCATATTTTAT
1 AATAAAT---T--AT--TTTAA
*
13059888 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
13059903 AATAAATTATTTTAT
1 AATAAATTATTTTAA
13059918 AATAAATTATTTTAA
1 AATAAATTATTTTAA
13059933 AATAAAT
1 AATAAAT
13059940 AACCTTATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
15 45 0.74
17 2 0.03
18 1 0.02
19 1 0.02
20 2 0.03
22 10 0.16
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:13059984 original size:18 final size:18
Alignment explanation
Indices: 13059963--13060005 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
13059953 TATTTAAAAT
13059963 TATTTTAATAAATAACTA
1 TATTTTAATAAATAACTA
*
13059981 TATTTTAATAAATAATTA
1 TATTTTAATAAATAACTA
13059999 TATTTTA
1 TATTTTA
13060006 TAATTGTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTTAATAAATAACTA
Found at i:13060255 original size:54 final size:54
Alignment explanation
Indices: 13060191--13060419 Score: 397
Period size: 54 Copynumber: 4.2 Consensus size: 54
13060181 CAAACACCAC
* * *
13060191 CTTAGTGCCTAGACGGTTGTTCATCAACATATGATGAATATC-GTGGATTGCATA
1 CTTAGTGCCTATACGGTTGTTCATCAACATATGATGAAT-TCTGTGGGTTGCACA
*
13060245 CTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTATGGGTTGCACA
1 CTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACA
*
13060299 CTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGTTGCACA
1 CTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACA
13060353 CTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACA
1 CTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACA
13060407 CTTAGTGCCTATA
1 CTTAGTGCCTATA
13060420 GTACATATAG
Statistics
Matches: 167, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
53 2 0.01
54 165 0.99
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (54 bp):
CTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACA
Found at i:13063285 original size:6 final size:7
Alignment explanation
Indices: 13063265--13063290 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13063255 TCAGTAAACT
13063265 ATTAAAA
1 ATTAAAA
13063272 ATTAAAA
1 ATTAAAA
13063279 ATTAAAA
1 ATTAAAA
13063286 ATTAA
1 ATTAA
13063291 TTTTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATTAAAA
Found at i:13065813 original size:2 final size:2
Alignment explanation
Indices: 13065808--13065834 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13065798 TCATCACCCC
13065808 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13065835 GGGTTCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13066313 original size:119 final size:120
Alignment explanation
Indices: 13066085--13066328 Score: 375
Period size: 119 Copynumber: 2.0 Consensus size: 120
13066075 TTGAGATTTA
* * *
13066085 CCATTTAAGAGACACTTGATTTGTAAAGCGATTTATGACTTCACATGATTCTTTTTAGTTTGGCA
1 CCATTTAAGAGACACTTGATTTGTAAAGAGAATTATGACTTCACATGATTCTTTTTAGTTTGACA
* *
13066150 TGTGTGAATAATTTTATTTTATATTTTCCTTTACTATATATTATTTAAGGTTTGT
66 TGTGTGAATAATTTTATTTTATATTTTCATTTACTATATATTATTTAAGGCTTGT
**
13066205 CCATTTAAGAGACACTTGATTTGTAAAGAGAATTATGACTTTGCATGATT-TTTTTAGTTTGACA
1 CCATTTAAGAGACACTTGATTTGTAAAGAGAATTATGACTTCACATGATTCTTTTTAGTTTGACA
* * *
13066269 T-TCGTGAATAGTTTTATTTTATATTTTCATTTATTGTATATTATTTAAGGCTTGT
66 TGT-GTGAATAATTTTATTTTATATTTTCATTTACTATATATTATTTAAGGCTTGT
13066324 CCATT
1 CCATT
13066329 GCTTTATTCA
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
118 1 0.01
119 66 0.58
120 46 0.41
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.48
Consensus pattern (120 bp):
CCATTTAAGAGACACTTGATTTGTAAAGAGAATTATGACTTCACATGATTCTTTTTAGTTTGACA
TGTGTGAATAATTTTATTTTATATTTTCATTTACTATATATTATTTAAGGCTTGT
Found at i:13066641 original size:15 final size:15
Alignment explanation
Indices: 13066621--13066652 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
13066611 AACTGGTTCT
13066621 GCTCCATTCCCTGAA
1 GCTCCATTCCCTGAA
13066636 GCTCCATTCCCTGAA
1 GCTCCATTCCCTGAA
13066651 GC
1 GC
13066653 GAATGTGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.25
Consensus pattern (15 bp):
GCTCCATTCCCTGAA
Found at i:13067040 original size:2 final size:2
Alignment explanation
Indices: 13067033--13067076 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
13067023 GAAATTTCTT
13067033 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13067075 TA
1 TA
13067077 ACATTTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13067606 original size:58 final size:58
Alignment explanation
Indices: 13067528--13067807 Score: 470
Period size: 58 Copynumber: 4.8 Consensus size: 58
13067518 CATATTTCCC
* * * *
13067528 ATACGGAAATTCATACACTTAGTATAAATCTCTTAACTTTTTACACGCAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
13067586 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGGCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
13067644 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTGTGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
* *
13067702 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCAAACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
13067760 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
13067808 TTAGTGTCAT
Statistics
Matches: 206, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 206 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (58 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCA
Found at i:13068164 original size:20 final size:21
Alignment explanation
Indices: 13068136--13068180 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
13068126 TGGTTCTTTA
13068136 GTATCGATAC-CCATACCATG
1 GTATCGATACACCATACCATG
* *
13068156 GTATTGATACTACCATACTATG
1 GTATCGATAC-ACCATACCATG
13068178 GTA
1 GTA
13068181 CCGAACTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (21 bp):
GTATCGATACACCATACCATG
Found at i:13068515 original size:21 final size:21
Alignment explanation
Indices: 13068490--13068550 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
13068480 ATTAGATTAT
13068490 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
*
13068511 CCAGGGGGAACAGATT-CCCC
1 CCAGGGGGTACAGATTCCCCC
13068531 CCAGGGGGTATC-GATTCCCC
1 CCAGGGGGTA-CAGATTCCCC
13068551 GGGAACATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.20, C:0.36, G:0.30, T:0.15
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCCCC
Found at i:13068546 original size:20 final size:20
Alignment explanation
Indices: 13068490--13068550 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
13068480 ATTAGATTAT
13068490 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATT-CCCC
*
13068511 CCAGGGGGAACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
13068531 CCAGGGGGTATC-GATTCCCC
1 CCAGGGGGTA-CAGATTCCCC
13068551 GGGAACATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 21 0.57
21 16 0.43
ACGTcount: A:0.20, C:0.36, G:0.30, T:0.15
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:13068573 original size:34 final size:35
Alignment explanation
Indices: 13068516--13068601 Score: 147
Period size: 34 Copynumber: 2.5 Consensus size: 35
13068506 CCCCCCCAGG
13068516 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
*
13068551 GGGAACATATTCCCCCCA-GGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
*
13068585 GGGTACAGATTCCCCCC
1 GGGAACAGATTCCCCCC
13068602 TGCATGGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 31 0.65
35 17 0.35
ACGTcount: A:0.20, C:0.36, G:0.26, T:0.19
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
Found at i:13068740 original size:21 final size:21
Alignment explanation
Indices: 13068714--13068755 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13068704 ATTTGAATAT
*
13068714 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
13068735 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
13068756 CCCATTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:13070074 original size:12 final size:12
Alignment explanation
Indices: 13070053--13070083 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13070043 GAAAGGGAAG
*
13070053 AGAAGGAAAACA
1 AGAAGAAAAACA
13070065 AGAAGAAAAACA
1 AGAAGAAAAACA
13070077 AGAAGAA
1 AGAAGAA
13070084 TGAGGACGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.06, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAAGAAAAACA
Found at i:13071355 original size:156 final size:155
Alignment explanation
Indices: 13071172--13071484 Score: 617
Period size: 156 Copynumber: 2.0 Consensus size: 155
13071162 GTTTTAATGC
13071172 AAATGATATCTCTCTAACAATTGATATCAACTTTTCAAATACTTTGATTTTATAAATGTTTAAAA
1 AAATGATATCTCTCTAACAATTGATATCAACTTTTCAAATACTTTGATTTTATAAATGTTTAAAA
13071237 AAATTTGACCTAAATTTAAATGTTTATGCATGTTGGTTTAAATAAAAATGATATCCCTCTAATAA
66 AAATTTGACCTAAATTTAAATGTTTATGCATG-TGGTTTAAATAAAAATGATATCCCTCTAATAA
13071302 TTGATATCAAAAATTTTCAAATGCAT
130 TTGATATCAAAAATTTTCAAATGCAT
13071328 AAATGATATCTCTCTAACAATTGATATCAACTTTTCAAATACTTTGATTTTATAAATGTTTAAAA
1 AAATGATATCTCTCTAACAATTGATATCAACTTTTCAAATACTTTGATTTTATAAATGTTTAAAA
13071393 AAATTTGACCTAAATTTAAATGTTTATGCATGTGGTTTAAATAAAAATGATATCCCTCTAATAAT
66 AAATTTGACCTAAATTTAAATGTTTATGCATGTGGTTTAAATAAAAATGATATCCCTCTAATAAT
13071458 TGATATCAAAAATTTTCAAATGCAT
131 TGATATCAAAAATTTTCAAATGCAT
13071483 AA
1 AA
13071485 CATTTTTAGA
Statistics
Matches: 157, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
155 60 0.38
156 97 0.62
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (155 bp):
AAATGATATCTCTCTAACAATTGATATCAACTTTTCAAATACTTTGATTTTATAAATGTTTAAAA
AAATTTGACCTAAATTTAAATGTTTATGCATGTGGTTTAAATAAAAATGATATCCCTCTAATAAT
TGATATCAAAAATTTTCAAATGCAT
Found at i:13072191 original size:21 final size:21
Alignment explanation
Indices: 13072165--13072225 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
13072155 ATCAGATTTT
13072165 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
*
13072186 CCAGGGGGAACAGATT-CCCC
1 CCAGGGGGTACAGATTCCCCC
*
13072206 CCGGGGGGTATC-GATTCCCC
1 CCAGGGGGTA-CAGATTCCCC
13072226 GGGAACAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.15
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCCCC
Found at i:13072205 original size:20 final size:20
Alignment explanation
Indices: 13072165--13072247 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
13072155 ATCAGATTTT
*
13072165 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGAACAGATT-CCCC
13072186 CCAGGGGGAACAGATTCCCC
1 CCAGGGGGAACAGATTCCCC
* *
13072206 CCGGGGGGTATC-GATT--CC
1 CCAGGGGG-AACAGATTCCCC
13072224 CC---GGGAACAGATTCCCC
1 CCAGGGGGAACAGATTCCCC
13072241 CCAGGGG
1 CCAGGGG
13072248 TATCGATTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
14 2 0.04
15 7 0.14
17 4 0.08
18 4 0.08
20 17 0.33
21 17 0.33
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.13
Consensus pattern (20 bp):
CCAGGGGGAACAGATTCCCC
Found at i:13072248 original size:34 final size:35
Alignment explanation
Indices: 13072191--13072275 Score: 136
Period size: 34 Copynumber: 2.5 Consensus size: 35
13072181 CCCCCCCAGG
*
13072191 GGGAACAGATTCCCCCCGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCGAGGGGTATCGATTCCCC
*
13072226 GGGAACAGATTCCCCCC-AGGGGTATCGATTCCCT
1 GGGAACAGATTCCCCCCGAGGGGTATCGATTCCCC
*
13072260 GGGTACAGATTCCCCC
1 GGGAACAGATTCCCCC
13072276 TGCATGGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 30 0.64
35 17 0.36
ACGTcount: A:0.19, C:0.34, G:0.28, T:0.19
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCGAGGGGTATCGATTCCCC
Found at i:13072257 original size:19 final size:20
Alignment explanation
Indices: 13072169--13072258 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
13072159 GATTTTCCAG
13072169 GGGGT-ACAGATTCCCCCCCA
1 GGGGTAACAGATT-CCCCCCA
* *
13072189 GGGGGAACAGATTCCCCCCGG
1 GGGGTAACAGATTCCCCCC-A
*
13072210 GGGGTATC-GATT--CCCC-
1 GGGGTAACAGATTCCCCCCA
13072226 -GGG-AACAGATTCCCCCCA
1 GGGGTAACAGATTCCCCCCA
*
13072244 GGGGTATC-GATTCCC
1 GGGGTAACAGATTCCC
13072259 TGGGTACAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
14 2 0.04
15 7 0.12
17 4 0.07
18 4 0.07
19 10 0.18
20 16 0.29
21 13 0.23
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.17
Consensus pattern (20 bp):
GGGGTAACAGATTCCCCCCA
Found at i:13072427 original size:22 final size:21
Alignment explanation
Indices: 13072388--13072430 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
13072378 ATTTGAATAT
**
13072388 TATGAAGGGGTATTGATTCCC
1 TATGAAGGGGTACCGATTCCC
13072409 TATGAAGGGGGTACCGATTCCC
1 TATGAA-GGGGTACCGATTCCC
13072431 CCCATTCTGG
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:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:13072492 original size:21 final size:21
Alignment explanation
Indices: 13072459--13072498 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
13072449 TTTTTGTATA
*
13072459 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
13072481 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
13072499 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:13077250 original size:23 final size:24
Alignment explanation
Indices: 13077224--13077292 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 24
13077214 CACCACAGCT
*
13077224 CGTATAAATGCACCGAAGTGCCA-
1 CGTAGAAATGCACCGAAGTGCCAG
* *
13077247 CGTAGAATTGCACCGTAGTG-CAG
1 CGTAGAAATGCACCGAAGTGCCAG
*
13077270 CGTAGAAATACACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
13077293 TATAAGGTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 2 0.05
23 34 0.89
24 2 0.05
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (24 bp):
CGTAGAAATGCACCGAAGTGCCAG
Found at i:13082231 original size:23 final size:23
Alignment explanation
Indices: 13082178--13082243 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
13082168 GTCACCACAA
*
13082178 CTCGTATAAATGCACCGAAGTGC
1 CTCGTAGAAATGCACCGAAGTGC
* * *
13082201 CTCTTAGAATTGCACCGTAGTGC
1 CTCGTAGAAATGCACCGAAGTGC
13082224 CGT-GTAGAAATGCACCGAAG
1 C-TCGTAGAAATGCACCGAAG
13082244 GGCCATATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (23 bp):
CTCGTAGAAATGCACCGAAGTGC
Found at i:13082595 original size:39 final size:39
Alignment explanation
Indices: 13082552--13082637 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
13082542 CGTAAATCAC
13082552 TTTCACATATCACGTAGCTCATATCCACTTTTCAAACTA
1 TTTCACATATCACGTAGCTCATATCCACTTTTCAAACTA
*
13082591 TTTCACATATCACGTAGCTCATATCCACTTTTCATACTA
1 TTTCACATATCACGTAGCTCATATCCACTTTTCAAACTA
13082630 TTTCACAT
1 TTTCACAT
13082638 TTCTTGTCAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.29, C:0.28, G:0.05, T:0.38
Consensus pattern (39 bp):
TTTCACATATCACGTAGCTCATATCCACTTTTCAAACTA
Found at i:13083969 original size:144 final size:148
Alignment explanation
Indices: 13083776--13084064 Score: 534
Period size: 148 Copynumber: 2.0 Consensus size: 148
13083766 ACACTAATCT
13083776 ATTTCTTAGACCAAAAAGAAAGGTATAATTCTATTTCCTTGAAGTGCATCGATGCA-T-TACAGT
1 ATTTCTTAGACCAAAAAGAAAGGTATAATTCTATTTCCTTGAAGTGCATCGATGCATTCTACAGT
13083839 GTATCGATGCTTCCC-T-ACATGTGCATCGATGCACTCCTTATGCATTTATGTATTAATTACATT
66 GTATCGATGCTTCCCTTAACATGTGCATCGATGCACTCCTTATGCATTTATGTATTAATTACATT
13083902 CGATGTTTCCATTTTATC
131 CGATGTTTCCATTTTATC
13083920 ATTTCTTAGACC-AAAAGAAAGGTATAATTCTATTTCCCTTGAAGTGCATCGATGCATTCTACAG
1 ATTTCTTAGACCAAAAAGAAAGGTATAATTCTATTT-CCTTGAAGTGCATCGATGCATTCTACAG
13083984 TGTATCGATGCTTCCCTTAACATGTGCATCGATGCACTCCTTATGCATTTATGTATTAATTACAT
65 TGTATCGATGCTTCCCTTAACATGTGCATCGATGCACTCCTTATGCATTTATGTATTAATTACAT
13084049 TCGATGTTTCCATTTT
130 TCGATGTTTCCATTTT
13084065 TAATGGGTGC
Statistics
Matches: 140, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
143 23 0.16
144 32 0.23
145 1 0.01
146 21 0.15
147 1 0.01
148 62 0.44
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (148 bp):
ATTTCTTAGACCAAAAAGAAAGGTATAATTCTATTTCCTTGAAGTGCATCGATGCATTCTACAGT
GTATCGATGCTTCCCTTAACATGTGCATCGATGCACTCCTTATGCATTTATGTATTAATTACATT
CGATGTTTCCATTTTATC
Found at i:13087524 original size:23 final size:23
Alignment explanation
Indices: 13087498--13087566 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
13087488 CACCACAACT
*
13087498 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
13087521 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
13087544 TGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
13087567 TATAAGGTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:13087913 original size:39 final size:39
Alignment explanation
Indices: 13087870--13087955 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
13087860 CGTAAATCAC
*
13087870 TTTCACATATCACGTAGCTCTTATCCACTTTTCAAACTA
1 TTTCACATATCACGTAGCTCATATCCACTTTTCAAACTA
*
13087909 TTTCACATATCACGTAGCTCATATCCACTTTTCATACTA
1 TTTCACATATCACGTAGCTCATATCCACTTTTCAAACTA
13087948 TTTCACAT
1 TTTCACAT
13087956 TTCTTATCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.28, C:0.28, G:0.05, T:0.40
Consensus pattern (39 bp):
TTTCACATATCACGTAGCTCATATCCACTTTTCAAACTA
Found at i:13092777 original size:58 final size:58
Alignment explanation
Indices: 13092658--13092988 Score: 574
Period size: 58 Copynumber: 5.7 Consensus size: 58
13092648 TTCCATATAA
* * *
13092658 AAATTCATACACTTAGTATAAATCTCTTAA-TTTTTGCACGCAAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGG
* * *
13092715 AAATTCATACACTTAGTATTAATTTCTTAACTTTTTACACACAAAGTGCCCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGG
13092773 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGG
* *
13092831 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTACCCAATACTG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGG
13092889 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGG
*
13092947 AAATTCATACACTTAGTATGAATATCTTAACTTTTTGCACAC
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
13092989 TTAGTGACAT
Statistics
Matches: 260, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
57 28 0.11
58 232 0.89
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.34
Consensus pattern (58 bp):
AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGG
Found at i:13097132 original size:168 final size:169
Alignment explanation
Indices: 13096853--13097190 Score: 660
Period size: 168 Copynumber: 2.0 Consensus size: 169
13096843 TATACGTTAT
13096853 TATTGCAGTATATGTTGATAATTTAAATTTTATTGAACTCCCTGAAGAGATTCAAACTGCAGTTG
1 TATTGCAGTATATGTTGATAATTTAAATTTTATTGAACTCCCTGAAGAGATTCAAACTGCAGTTG
13096918 ATTGTTTGAAGAAAGAATTCAAGATGAAAGACCTTGGAAAAATGAAATTTTATTTGGGGTTACAA
66 ATTGTTTGAAGAAAGAATTCAAGATGAAAGACCTTGGAAAAATGAAATTTTATTTGGGGTTACAA
13096983 ATTGAACACCTAAAAGATGGAATCTTGTGAATCAATCAA
131 ATTGAACACCTAAAAGATGGAATCTTGTGAATCAATCAA
13097022 TATTGCAGTATATGTTGATAATTTAAATTTTATTGAACT-CCTGAAGAGATTCAAACTGCAGTTG
1 TATTGCAGTATATGTTGATAATTTAAATTTTATTGAACTCCCTGAAGAGATTCAAACTGCAGTTG
13097086 ATTGTTTGAAGAAAGAATTCAAGATGAAAGACCTTGGAAAAATGAAATTTTATTTGGGGTTACAA
66 ATTGTTTGAAGAAAGAATTCAAGATGAAAGACCTTGGAAAAATGAAATTTTATTTGGGGTTACAA
*
13097151 ATTGAACACCTAAAAGATGGAATCTTGTGCATCAATCAA
131 ATTGAACACCTAAAAGATGGAATCTTGTGAATCAATCAA
13097190 T
1 T
13097191 GTATATAGAA
Statistics
Matches: 168, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
168 129 0.77
169 39 0.23
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (169 bp):
TATTGCAGTATATGTTGATAATTTAAATTTTATTGAACTCCCTGAAGAGATTCAAACTGCAGTTG
ATTGTTTGAAGAAAGAATTCAAGATGAAAGACCTTGGAAAAATGAAATTTTATTTGGGGTTACAA
ATTGAACACCTAAAAGATGGAATCTTGTGAATCAATCAA
Found at i:13108855 original size:58 final size:57
Alignment explanation
Indices: 13108766--13108879 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 57
13108756 GCTCCACAAT
13108766 AAGGATTTTTAACAAACTCACTAATTTGTTCTTTCTTTTTCTAGGACAAAGAGTAAG
1 AAGGATTTTTAACAAACTCACTAATTTGTTCTTTCTTTTTCTAGGACAAAGAGTAAG
*
13108823 AAGGATTTTCTAACAAATTCACTAATTTGTTCTTTCTTTTTCTAGGACAAAGAGTAA
1 AAGGATTTT-TAACAAACTCACTAATTTGTTCTTTCTTTTTCTAGGACAAAGAGTAA
13108880 CCTTTACAAC
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
57 9 0.16
58 46 0.84
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (57 bp):
AAGGATTTTTAACAAACTCACTAATTTGTTCTTTCTTTTTCTAGGACAAAGAGTAAG
Found at i:13109947 original size:10 final size:10
Alignment explanation
Indices: 13109929--13109962 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
13109919 GGATCGGCTT
13109929 AAAATCGGAA
1 AAAATCGGAA
*
13109939 AAAACCGGAA
1 AAAATCGGAA
*
13109949 AAAATTGGAA
1 AAAATCGGAA
13109959 AAAA
1 AAAA
13109963 ACCGCCAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.65, C:0.09, G:0.18, T:0.09
Consensus pattern (10 bp):
AAAATCGGAA
Found at i:13110181 original size:16 final size:16
Alignment explanation
Indices: 13110151--13110181 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13110141 TAATATTGAA
*
13110151 ACTTGAACTCGAAAAG
1 ACTTGAACTCAAAAAG
13110167 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
13110182 AAAATTAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:13111026 original size:18 final size:19
Alignment explanation
Indices: 13110989--13111033 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
13110979 GTATTAAATC
13110989 ATATTA-ATTTTTTATAAT
1 ATATTATATTTTTTATAAT
*
13111007 ATATTATATTTTTT-TCAT
1 ATATTATATTTTTTATAAT
*
13111025 ATTTTATAT
1 ATATTATAT
13111034 CATGTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
ATATTATATTTTTTATAAT
Done.