Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 75 of 325
Found at i:20895009 original size:25 final size:25
Alignment explanation
Indices: 20894975--20895022 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
20894965 TTCATTTTGG
*
20894975 GAAGAAAAGAAGGAGAAGAAGAAAA
1 GAAGAAAAGAAGAAGAAGAAGAAAA
* *
20895000 GAAGAGAAGAAGAAGAAGGAGAA
1 GAAGAAAAGAAGAAGAAGAAGAA
20895023 GGAGGTGGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (25 bp):
GAAGAAAAGAAGAAGAAGAAGAAAA
Found at i:20895575 original size:17 final size:17
Alignment explanation
Indices: 20895555--20895587 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20895545 ATATCTTAAT
20895555 GAAAAAAAATACGAAAG
1 GAAAAAAAATACGAAAG
*
20895572 GAAATAAAATACGAAA
1 GAAAAAAAATACGAAA
20895588 AAAATTCGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.06, G:0.15, T:0.09
Consensus pattern (17 bp):
GAAAAAAAATACGAAAG
Found at i:20896053 original size:150 final size:149
Alignment explanation
Indices: 20895620--20896442 Score: 1028
Period size: 150 Copynumber: 5.6 Consensus size: 149
20895610 GCGGGTTTTT
** * *
20895620 TACTAAAATAATATAAAAATAAAATACAAAAATTGTATATTTTAAAAAATAAAATCCAAAAATTT
1 TACTAAAATAATATAAAAATAAAATACAAAAATAATATATTTTAAAAAATAAAATCCGAAAA-TA
* * *
20895685 GAAAAATACAAACAAAAG-GCTAAAATCAAGGTTATTTACTAAATTATT--AAAAAACACTAAAA
65 AAAAAATACCAAC-AAAGTGCCAAAATCAAGGTTATTTACTAAATTATTAAAAAAAACACTAAAA
20895747 TAATACATTTGAAACATTATG
129 TAATACATTTGAAACATTATG
* ** * *
20895768 TACTAAAATAATACAAAAAATAAAATAGGAAAATAGTATATTTTATAAAATAAAATCC-AAAATA
1 TACTAAAATAATA-TAAAAATAAAATACAAAAATAATATATTTTAAAAAATAAAATCCGAAAATA
** *
20895832 TAAAAAATATAAACAAA-TGGCCAAAATCAAGGTTATATACTAAATTATT-AAAAAAACACTAAA
65 -AAAAAATACCAACAAAGT-GCCAAAATCAAGGTTATTTACTAAATTATTAAAAAAAACACTAAA
20895895 ATAATACATTTGAAACATTATG
128 ATAATACATTTGAAACATTATG
* *
20895917 TACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAATCCGAAAAT
1 TACTAAAATAATAT--AAAAATAAAATACAAAAATAATATATTTTAAAAAATAAAATCCGAAAAT
*
20895981 AAAAAAATACCAACAAAGTGCCAAAATCAAGGTTACTTACTAAATTATTAAAAAAAACACTAAAA
64 AAAAAAATACCAACAAAGTGCCAAAATCAAGGTTATTTACTAAATTATTAAAAAAAACACTAAAA
*
20896046 TAATACATTTGAAACAATATG
129 TAATACATTTGAAACATTATG
*
20896067 TACTAAAATATTATAAAAAAATAAAATACAAAAATAATATATTTTAAAAAATAAAATCCGAAAAT
1 TACTAAAATA--ATATAAAAATAAAATACAAAAATAATATATTTTAAAAAATAAAATCCGAAAAT
* ** * * * * *
20896132 AAAAAAATATCAACAAAAAGTGTGAAAATCAGGGTTATTTATTAAATTA--ATATAAAA-ACTTA
64 AAAAAAATACCAAC--AAAGTGCCAAAATCAAGGTTATTTACTAAATTATTAAAAAAAACACTAA
20896194 AATAATACATTTGAAACATTATG
127 AATAATACATTTGAAACATTATG
* *
20896217 TACTAAAAT-A-ATAAAAATACAATA-AAAAATAATATATTTTAAAAAATAAAATTCGAAAATAA
1 TACTAAAATAATATAAAAATAAAATACAAAAATAATATATTTTAAAAAATAAAATCCGAAAATAA
* * * *
20896279 AAAAATACCAAC-AAGTGCCAAAATC-AGAGTTATTTATTAAATTA--ATAAAAAACATTTAAAT
66 AAAAATACCAACAAAGTGCCAAAATCAAG-GTTATTTACTAAATTATTAAAAAAAACACTAAAAT
20896340 AATACA-TT-ACAACATTATG
130 AATACATTTGA-AACATTATG
*
20896359 TACTAAAATAATATAAAAATAAAATA-AGAAAATAATATATTTT-AAAAATAAAATCTG--AA-A
1 TACTAAAATAATATAAAAATAAAATACA-AAAATAATATATTTTAAAAAATAAAATCCGAAAATA
*
20896419 AAAAAATACCAACAAAGGGCCAAA
65 AAAAAATACCAACAAAGTGCCAAA
20896443 GTCATCGAAT
Statistics
Matches: 609, Mismatches: 44, Indels: 50
0.87 0.06 0.07
Matches are distributed among these distances:
141 16 0.03
142 65 0.11
143 14 0.02
144 26 0.04
145 63 0.10
146 12 0.02
147 5 0.01
148 56 0.09
149 141 0.23
150 142 0.23
151 38 0.06
152 3 0.00
153 28 0.05
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.27
Consensus pattern (149 bp):
TACTAAAATAATATAAAAATAAAATACAAAAATAATATATTTTAAAAAATAAAATCCGAAAATAA
AAAAATACCAACAAAGTGCCAAAATCAAGGTTATTTACTAAATTATTAAAAAAAACACTAAAATA
ATACATTTGAAACATTATG
Found at i:20896109 original size:31 final size:30
Alignment explanation
Indices: 20896074--20896133 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
20896064 ATGTACTAAA
20896074 ATATTATAAAAAAATAAAATACAAAAATAAT
1 ATATT-TAAAAAAATAAAATACAAAAATAAT
* * *
20896105 ATATTTTAAAAAATAAAATCCGAAAATAA
1 ATATTTAAAAAAATAAAATACAAAAATAA
20896134 AAAAATATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (30 bp):
ATATTTAAAAAAATAAAATACAAAAATAAT
Found at i:20898298 original size:21 final size:20
Alignment explanation
Indices: 20898269--20898307 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
20898259 ACTTGAAGCA
*
20898269 GGGCACACGCCTGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
20898289 GGGCAACACGCCCGTGTGG
1 GGGC-ACACGCCCGTGTGG
20898308 CCATTATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.15, C:0.28, G:0.41, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:20902697 original size:53 final size:53
Alignment explanation
Indices: 20902616--20902766 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
20902606 CTTACACGGT
* *
20902616 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
20902671 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
20902724 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
20902767 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:20910213 original size:53 final size:53
Alignment explanation
Indices: 20910132--20910282 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
20910122 CTTACACGGT
* *
20910132 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
20910187 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
20910240 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
20910283 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:20920279 original size:13 final size:13
Alignment explanation
Indices: 20920263--20920287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20920253 TGCGACATGC
20920263 CCGTGCCATACAT
1 CCGTGCCATACAT
20920276 CCGTGCCATACA
1 CCGTGCCATACA
20920288 CCCATGGACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.20
Consensus pattern (13 bp):
CCGTGCCATACAT
Found at i:20927095 original size:49 final size:49
Alignment explanation
Indices: 20927036--20927158 Score: 167
Period size: 49 Copynumber: 2.5 Consensus size: 49
20927026 GTTGATACCG
* *
20927036 TGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGG-CTGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTC-GATGCCA
* * * *
20927085 TGTCCTAGACAGGTCTTATACTGACTCTCATCTATCGATGTCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGATGCCA
*
20927134 TGTCCCAGATAGGTCTTACACTGAC
1 TGTCCCAGACAGGTCTTACACTGAC
20927159 ATACAACAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
49 63 0.98
50 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGATGCCA
Found at i:20933355 original size:39 final size:37
Alignment explanation
Indices: 20933312--20933403 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 37
20933302 AATATAAATC
20933312 AACAATAATAATAACTAA-C-AATAATTAGGGTTTTTTACT
1 AACAATAATAATAAC-AACCTAATAA-TA--GTTTTTTACT
*
20933351 AACAATAATAACCAACAATCCTAATAATAGTTTTTTACT
1 AACAATAATAA-TAACAA-CCTAATAATAGTTTTTTACT
20933390 AACAATAATAATAA
1 AACAATAATAATAA
20933404 GAGTTTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
38 2 0.04
39 34 0.72
40 3 0.06
41 3 0.06
42 5 0.11
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (37 bp):
AACAATAATAATAACAACCTAATAATAGTTTTTTACT
Found at i:20933401 original size:26 final size:26
Alignment explanation
Indices: 20933372--20933429 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
20933362 CCAACAATCC
* *
20933372 TAATAATAGTTTTTTACTAACAATAA
1 TAATAAGAGTTTTTTACAAACAATAA
20933398 TAATAAGAGTTTTTTACAAACAATAA
1 TAATAAGAGTTTTTTACAAACAATAA
20933424 TAATAA
1 TAATAA
20933430 CTAACAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (26 bp):
TAATAAGAGTTTTTTACAAACAATAA
Found at i:20933437 original size:16 final size:16
Alignment explanation
Indices: 20933416--20933482 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 16
20933406 GTTTTTTACA
20933416 AACAATAATAATAACT
1 AACAATAATAATAACT
*
20933432 AACAATAATAACTAGC-
1 AACAATAATAA-TAACT
* *
20933448 AACAAAAATCAATAAAAAT
1 AACAATAAT-AAT--AACT
20933467 CAACAATAATAATAAC
1 -AACAATAATAATAAC
20933483 AGCAAAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
16 20 0.51
17 7 0.18
18 1 0.03
19 3 0.08
20 8 0.21
ACGTcount: A:0.64, C:0.15, G:0.01, T:0.19
Consensus pattern (16 bp):
AACAATAATAATAACT
Found at i:20937380 original size:21 final size:22
Alignment explanation
Indices: 20937353--20937409 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
20937343 ATATATTAAA
20937353 TTATTATTATTATTTATTATAG
1 TTATTATTATTATTTATTATAG
* *
20937375 TT-TTA-TATTTAATTATTATTG
1 TTATTATTA-TTATTTATTATAG
*
20937396 TTATTGTTATTATT
1 TTATTATTATTATT
20937410 ATTTAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 2 0.07
21 16 0.57
22 8 0.29
23 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTATTATTATTATTTATTATAG
Found at i:20937604 original size:15 final size:15
Alignment explanation
Indices: 20937584--20937612 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20937574 GAAATAAAGG
20937584 AAAGAAACAGAATGA
1 AAAGAAACAGAATGA
20937599 AAAGAAACAGAATG
1 AAAGAAACAGAATG
20937613 TGGAAACGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (15 bp):
AAAGAAACAGAATGA
Found at i:20937623 original size:18 final size:15
Alignment explanation
Indices: 20937582--20937627 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
20937572 AGGAAATAAA
20937582 GGAAAGAAACAGAAT
1 GGAAAGAAACAGAAT
*
20937597 GAAAAGAAACAGAATGT
1 GGAAAGAAACAGAA--T
20937614 GGAAACGAAACAGA
1 GGAAA-GAAACAGA
20937628 GAAGAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 13 0.50
17 5 0.19
18 8 0.31
ACGTcount: A:0.59, C:0.09, G:0.26, T:0.07
Consensus pattern (15 bp):
GGAAAGAAACAGAAT
Found at i:20938041 original size:23 final size:21
Alignment explanation
Indices: 20937994--20938034 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
20937984 TTTGGTTAAA
20937994 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
20938016 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
20938035 AGTGAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Found at i:20938412 original size:15 final size:15
Alignment explanation
Indices: 20938364--20938413 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
20938354 TTTATCAAAT
*
20938364 TTATATTGACTGAAA
1 TTATATTGATTGAAA
* * *
20938379 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
20938394 TTATATTGATTGAAA
1 TTATATTGATTGAAA
20938409 TTATA
1 TTATA
20938414 ATATATATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:20938715 original size:21 final size:21
Alignment explanation
Indices: 20938690--20938732 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
20938680 AAATTTATTA
20938690 AATTGAGAAAGTGAATCAAAT
1 AATTGAGAAAGTGAATCAAAT
20938711 AATTGAGAAAGTGAATCAAAT
1 AATTGAGAAAGTGAATCAAAT
20938732 A
1 A
20938733 CCCTATTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.19, T:0.23
Consensus pattern (21 bp):
AATTGAGAAAGTGAATCAAAT
Found at i:20939327 original size:17 final size:17
Alignment explanation
Indices: 20939305--20939339 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
20939295 TATTTTTAAG
20939305 AAGTAAAGTGTGAATAT
1 AAGTAAAGTGTGAATAT
*
20939322 AAGTAAATTGTGAATAT
1 AAGTAAAGTGTGAATAT
20939339 A
1 A
20939340 TTGAAAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (17 bp):
AAGTAAAGTGTGAATAT
Found at i:20940680 original size:43 final size:44
Alignment explanation
Indices: 20940614--20940736 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 44
20940604 AGCTCATACA
* *
20940614 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAC-TATCG
1 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAACAAATCG
* *
20940657 ATGCC-ACTATCCCAGACAG-GGTCTTACACGTAAATC-ACAAATCG
1 ATGCCAAC-ATCCCAAAC-GTGGTCTTACATGT-AATCAACAAATCG
* *
20940701 ATGCCAACGTCCCAAACGTGGTCTTACATGAAATCA
1 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCA
20940737 CATATCAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.03
43 30 0.46
44 31 0.48
45 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (44 bp):
ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAACAAATCG
Found at i:20940714 original size:44 final size:45
Alignment explanation
Indices: 20940614--20940738 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 45
20940604 AGCTCATACA
*
20940614 ATGCCAACGTCCCAAACGTGGTCTTACATGT-AATCA-ACTATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACATGTAAATCACACAATCG
* * *
20940657 ATGCC-ACTATCCCAGACAG-GGTCTTACACGTAAATCACA-AATCG
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTACATGTAAATCACACAATCG
20940701 ATGCCAACGTCCCAAACGTGGTCTTACATG-AAATCACA
1 ATGCCAACGTCCCAAACGTGGTCTTACATGTAAATCACA
20940739 TATCAAAATC
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.03
43 32 0.46
44 32 0.46
45 3 0.04
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (45 bp):
ATGCCAACGTCCCAAACGTGGTCTTACATGTAAATCACACAATCG
Found at i:20942834 original size:14 final size:13
Alignment explanation
Indices: 20942798--20942836 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
20942788 TATATATTTT
*
20942798 TAAAAAATT-ATA
1 TAAAAAGTTAATA
20942810 TAAAAAGTTAATA
1 TAAAAAGTTAATA
20942823 TAAAAAGTTTAATA
1 TAAAAAG-TTAATA
20942837 CGAGCAGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 8 0.33
13 10 0.42
14 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (13 bp):
TAAAAAGTTAATA
Found at i:20948017 original size:21 final size:19
Alignment explanation
Indices: 20947988--20948045 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 19
20947978 TTTATATTAA
*
20947988 AAATGTTTAAATTAAATTATT
1 AAATTTTTAAATTAAA--ATT
20948009 AAATTTTTAAAGATTAAAATT
1 AAATTTTT-AA-ATTAAAATT
*
20948030 ATAATTTTTTAATTAA
1 A-AATTTTTAAATTAA
20948046 TTAAAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 5 0.16
21 12 0.38
22 9 0.28
23 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (19 bp):
AAATTTTTAAATTAAAATT
Found at i:20948048 original size:24 final size:23
Alignment explanation
Indices: 20947988--20948053 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
20947978 TTTATATTAA
*
20947988 AAATGTTT-AAATT-AAATTATT
1 AAATTTTTAAAATTAAAATTATT
20948009 AAATTTTTAAAGATTAAAATTA-T
1 AAATTTTTAAA-ATTAAAATTATT
*
20948032 AATTTTTTAATTAATTAAAATT
1 AAATTTTTAA--AATTAAAATT
20948054 TAAAAAACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.18
22 2 0.05
23 13 0.34
24 15 0.39
25 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
AAATTTTTAAAATTAAAATTATT
Found at i:20948464 original size:31 final size:31
Alignment explanation
Indices: 20948405--20948464 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
20948395 TAAATGATAT
*
20948405 TATACACATGAAACTTGAATTGTGATTCATA
1 TATACACATGAAACTTGAATTGTAATTCATA
* * * *
20948436 TATATACATGAAATTTTAATTTTAATTCA
1 TATACACATGAAACTTGAATTGTAATTCA
20948465 ATTGTACACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (31 bp):
TATACACATGAAACTTGAATTGTAATTCATA
Found at i:20948643 original size:29 final size:29
Alignment explanation
Indices: 20948589--20948679 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 29
20948579 GTGTTTTGCG
* * *
20948589 AAAATTAAATCAAATTAAAATTTCATGTAT
1 AAAATTAAA-CAAAATCAAAGTTCATGTAT
*
20948619 AAAATTAAACAAAATCAAAGTTCATGTAC
1 AAAATTAAACAAAATCAAAGTTCATGTAT
* * *
20948648 AACATTACACATTAGATCAAAGTTCATGTAT
1 AAAATTAAACA--AAATCAAAGTTCATGTAT
20948679 A
1 A
20948680 GTTTTGATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 25 0.49
30 9 0.18
31 17 0.33
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.31
Consensus pattern (29 bp):
AAAATTAAACAAAATCAAAGTTCATGTAT
Found at i:20951140 original size:3 final size:3
Alignment explanation
Indices: 20951132--20951168 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
20951122 TTAATTTAAT
20951132 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
20951169 GTTGATTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20951275 original size:21 final size:20
Alignment explanation
Indices: 20951250--20951297 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
20951240 GTATGTTTGT
*
20951250 ATTTATTTTATATTTTTATTG
1 ATTTATTTT-TATTTTTAATG
*
20951271 ATTTATAATTTATTTTTAATG
1 ATTTAT-TTTTATTTTTAATG
20951292 -TTTATT
1 ATTTATT
20951298 GAAGTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTTATTTTTATTTTTAATG
Found at i:20951551 original size:32 final size:32
Alignment explanation
Indices: 20951513--20951573 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
20951503 ATTATGAGTT
*
20951513 AAAAATTTATATCAACTTTTAAAATAACATAA
1 AAAAATTTATACCAACTTTTAAAATAACATAA
*
20951545 AAAAATTTATACCGACTTTTAAAATAACA
1 AAAAATTTATACCAACTTTTAAAATAACA
20951574 ATACATACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (32 bp):
AAAAATTTATACCAACTTTTAAAATAACATAA
Found at i:20952063 original size:3 final size:3
Alignment explanation
Indices: 20952055--20952089 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
20952045 CTTGCCGCCC
*
20952055 TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
20952090 CATGGCAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:20953221 original size:63 final size:63
Alignment explanation
Indices: 20953143--20953269 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
20953133 GCATTCTCAT
*
20953143 ATTCAACCAAGATTTACTTCAAAATTATAGCTCCATTTTCTGTTGCCTTTCCAGAAAGGAAAC
1 ATTCAACCAAGATTTACTTCAAAATTATAGCTCCATTTTCTGTTGCCTTTCCAAAAAGGAAAC
*
20953206 ATTCAACCAAGATTTACTTCAAAATTATAGCTTCATTTTCTGTTGCCTTTCCAAAAAGGAAAC
1 ATTCAACCAAGATTTACTTCAAAATTATAGCTCCATTTTCTGTTGCCTTTCCAAAAAGGAAAC
20953269 A
1 A
20953270 ATCATTTGCA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (63 bp):
ATTCAACCAAGATTTACTTCAAAATTATAGCTCCATTTTCTGTTGCCTTTCCAAAAAGGAAAC
Found at i:20959255 original size:31 final size:31
Alignment explanation
Indices: 20959220--20959281 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
20959210 TTGTAAAAGA
20959220 GATAGTATTAATTTTAAAATATTCAATTAAT
1 GATAGTATTAATTTTAAAATATTCAATTAAT
20959251 GATAGTATTAATTTTAAAATATTCAATTAAT
1 GATAGTATTAATTTTAAAATATTCAATTAAT
20959282 TATCATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (31 bp):
GATAGTATTAATTTTAAAATATTCAATTAAT
Found at i:20959333 original size:21 final size:21
Alignment explanation
Indices: 20959287--20959338 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
20959277 TTAATTATCA
* *
20959287 TTATAGTTTAGGGTTTATGGT
1 TTATGGTTAAGGGTTTATGGT
*
20959308 ATATGGTTAAGGGTTTAAT-GT
1 TTATGGTTAAGGGTTT-ATGGT
20959329 TTATGAGTTA
1 TTATG-GTTA
20959339 CTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGGT
Found at i:20959417 original size:14 final size:14
Alignment explanation
Indices: 20959395--20959426 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
20959385 TCATTTAGGT
*
20959395 GTTAGGGGTTAAGG
1 GTTAAGGGTTAAGG
20959409 GTTAAGGGTTAAGG
1 GTTAAGGGTTAAGG
20959423 GTTA
1 GTTA
20959427 GTGGTTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.44, T:0.31
Consensus pattern (14 bp):
GTTAAGGGTTAAGG
Found at i:20959446 original size:7 final size:7
Alignment explanation
Indices: 20959400--20959499 Score: 67
Period size: 7 Copynumber: 14.1 Consensus size: 7
20959390 TAGGTGTTAG
*
20959400 GGGTTAA
1 GGGTTTA
*
20959407 GGGTTAA
1 GGGTTTA
*
20959414 GGGTTAA
1 GGGTTTA
20959421 GGG-TTA
1 GGGTTTA
*
20959427 GTGGTTCA
1 G-GGTTTA
*
20959435 TGGTTTA
1 GGGTTTA
20959442 GGGTTTA
1 GGGTTTA
* *
20959449 TGTTTTA
1 GGGTTTA
* *
20959456 GGATTCA
1 GGGTTTA
*
20959463 TGGTTTA
1 GGGTTTA
20959470 GGGTTTA
1 GGGTTTA
* *
20959477 AGGATTA
1 GGGTTTA
20959484 GGAGTTTA
1 GG-GTTTA
20959492 GGGTTTA
1 GGGTTTA
20959499 G
1 G
20959500 ATTAATTAGT
Statistics
Matches: 72, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
6 3 0.04
7 61 0.85
8 8 0.11
ACGTcount: A:0.21, C:0.02, G:0.37, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:20959484 original size:28 final size:28
Alignment explanation
Indices: 20959408--20959486 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
20959398 AGGGGTTAAG
* * *
20959408 GGTTAAGGG-TTAAGGGTTAGTGGTTCAT
1 GGTTTAGGGTTTAAGGATTAG-GATTCAT
* **
20959436 GGTTTAGGGTTTATGTTTTAGGATTCAT
1 GGTTTAGGGTTTAAGGATTAGGATTCAT
20959464 GGTTTAGGGTTTAAGGATTAGGA
1 GGTTTAGGGTTTAAGGATTAGGA
20959487 GTTTAGGGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 34 0.81
29 8 0.19
ACGTcount: A:0.22, C:0.03, G:0.35, T:0.41
Consensus pattern (28 bp):
GGTTTAGGGTTTAAGGATTAGGATTCAT
Found at i:20959608 original size:7 final size:7
Alignment explanation
Indices: 20959593--20959637 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
20959583 TTAATTATCA
*
20959593 TTATAGT
1 TTATGGT
20959600 TTATGGT
1 TTATGGT
20959607 TTATGGT
1 TTATGGT
*
20959614 TTAAGGT
1 TTATGGT
*
20959621 ATATGGT
1 TTATGGT
*
20959628 TTAGGGT
1 TTATGGT
20959635 TTA
1 TTA
20959638 AAGTGTATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (7 bp):
TTATGGT
Found at i:20959625 original size:21 final size:21
Alignment explanation
Indices: 20959601--20959705 Score: 72
Period size: 21 Copynumber: 4.9 Consensus size: 21
20959591 CATTATAGTT
20959601 TATGGTTTATGGTTTAAGGTA
1 TATGGTTTATGGTTTAAGGTA
* * *
20959622 TATGGTTTAGGGTTTAAAGTG
1 TATGGTTTATGGTTTAAGGTA
*
20959643 TATGAGTTACTAT--TTTAAGGTT
1 TATG-GTT--TATGGTTTAAGGTA
* *
20959665 TACGGATTATGGGTTTAAGG-A
1 TATGGTTTAT-GGTTTAAGGTA
* *
20959686 TTATGGATTACGGTTTAAGG
1 -TATGGTTTATGGTTTAAGG
20959706 GTTGGGGTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
19 3 0.05
21 33 0.50
22 28 0.42
24 2 0.03
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.43
Consensus pattern (21 bp):
TATGGTTTATGGTTTAAGGTA
Found at i:20959679 original size:15 final size:15
Alignment explanation
Indices: 20959661--20959691 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
20959651 ACTATTTTAA
*
20959661 GGTTTACGGATTATG
1 GGTTTAAGGATTATG
20959676 GGTTTAAGGATTATG
1 GGTTTAAGGATTATG
20959691 G
1 G
20959692 ATTACGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.03, G:0.35, T:0.39
Consensus pattern (15 bp):
GGTTTAAGGATTATG
Found at i:20959681 original size:22 final size:21
Alignment explanation
Indices: 20959656--20959705 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
20959646 GAGTTACTAT
* *
20959656 TTTAAGGTTTACGGATTATGGG
1 TTTAAGGATTACGGATTA-CGG
*
20959678 TTTAAGGATTATGGATTACGG
1 TTTAAGGATTACGGATTACGG
20959699 TTTAAGG
1 TTTAAGG
20959706 GTTGGGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.40
Consensus pattern (21 bp):
TTTAAGGATTACGGATTACGG
Found at i:20970411 original size:42 final size:42
Alignment explanation
Indices: 20970364--20970559 Score: 139
Period size: 42 Copynumber: 4.6 Consensus size: 42
20970354 ATAATTTTTT
** * *
20970364 TAAAGGTCATTTTTTTAGCGGCGTTTTTGATAAAAGTGCCGC
1 TAAAGGTCATACTTTTAGCGGCGTTTTAGATAAAAGCGCCGC
* * *
20970406 TAAAGGTTATACTTTTAGTGGCGTTTTAGGTAAAAGCGCCGC
1 TAAAGGTCATACTTTTAGCGGCGTTTTAGATAAAAGCGCCGC
* * * ** *
20970448 AAAAGATCATGACCTTTAGCGGCGTTTGT-G-GGAAAGCGTCGC
1 TAAAGGTCAT-ACTTTTAGCGGCGTTT-TAGATAAAAGCGCCGC
* * * ** *
20970490 GAAAGGTCATGACCTTTAGCGACGTTTGT-G-GGAAAGCGGCGC
1 TAAAGGTCAT-ACTTTTAGCGGCGTTT-TAGATAAAAGCGCCGC
*
20970532 TAAAGGTCATGACCTTTAGCGGCGTTTT
1 TAAAGGTCAT-ACTTTTAGCGGCGTTTT
20970560 TTTCACATAA
Statistics
Matches: 131, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 114 0.87
43 15 0.11
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (42 bp):
TAAAGGTCATACTTTTAGCGGCGTTTTAGATAAAAGCGCCGC
Found at i:20972649 original size:29 final size:29
Alignment explanation
Indices: 20972594--20972666 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 29
20972584 ATTTAATATG
*
20972594 TAATTTTATACATAAATTTTAATTTT-GT
1 TAATTTTATAAATAAATTTTAATTTTGGT
*
20972622 ATAATTTTATAAATAAAATTTTGA-TTTGGT
1 -TAATTTTATAAAT-AAATTTTAATTTTGGT
20972652 TCAATTCTTATAAAT
1 T-AATT-TTATAAAT
20972667 TATTAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 16 0.42
30 14 0.37
31 8 0.21
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.52
Consensus pattern (29 bp):
TAATTTTATAAATAAATTTTAATTTTGGT
Found at i:20972666 original size:31 final size:29
Alignment explanation
Indices: 20972594--20972666 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
20972584 ATTTAATATG
* *
20972594 TAATTTTATACATAAATTTTAATTTTGTA
1 TAATTTTATAAATAAATTTTAATTTGGTA
*
20972623 TAATTTTATAAATAAAATTTTGATTTGGT-
1 TAATTTTATAAAT-AAATTTTAATTTGGTA
20972652 TCAATTCTTATAAAT
1 T-AATT-TTATAAAT
20972667 TATTAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 13 0.34
30 17 0.45
31 8 0.21
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.52
Consensus pattern (29 bp):
TAATTTTATAAATAAATTTTAATTTGGTA
Found at i:20974520 original size:228 final size:228
Alignment explanation
Indices: 20974334--20975454 Score: 1713
Period size: 228 Copynumber: 4.9 Consensus size: 228
20974324 AAGCCTCAAA
* * * * ** *
20974334 ACAAGGTGAAGGGTCGATTCCTTCTGGATGTTATAATCAGCCAAGGTCCTCCCATCCTCAAGCTG
1 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTATAATCGGCCAAGGTACGGCCATCCTCGAGCTG
* * * * * * * * * * * *
20974399 CTTCCCTGCAAAGATCAAACGTTGTTGGTCTGGTGGGATCCCTTCCTTGTCTTGAATCTTCGCCT
66 TTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
* * * * * * * *
20974464 TTACATTGTCGATGGTGTCCGAACTCTCCACCTCTAAGGTGATGGTCTTGCCAGTCAAGGTTTTC
131 TTACATTATCGATGGTGTCAGAACTCTCGACCTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTG
* *
20974529 ACGAAGATCTGCATGCCCCCGCGAAGACGGAGG
196 ACGAAGATCTGCATACCCCCACGAAGACGGAGG
* * *
20974562 ACGAGGTGGAGGGTGGATTCCTTCTGGATATTATAATCGGCCAAGGTACGGCCATCTTCGAGCTG
1 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTATAATCGGCCAAGGTACGGCCATCCTCGAGCTG
*
20974627 TTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGGATTTTAGACT
66 TTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
* * * * * *
20974692 TGACATTGTCGATGGTGTCGGAGCTCTCGACTTCGAGGGTGATGGTCTTACCGGTTAAGGTTTTG
131 TTACATTATCGATGGTGTCAGAACTCTCGACCTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTG
20974757 ACGAAGATCTGCATACCCCCACGAAGACGGAGG
196 ACGAAGATCTGCATACCCCCACGAAGACGGAGG
* * *
20974790 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCGTCTTCGAGCTG
1 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTATAATCGGCCAAGGTACGGCCATCCTCGAGCTG
20974855 TTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
66 TTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
* *
20974920 TTACATTATCGATGGTGTCAGAGCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTG
131 TTACATTATCGATGGTGTCAGAACTCTCGACCTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTG
*
20974985 ACGAAGATCTGCATACCCCCACGAAGACGTAGG
196 ACGAAGATCTGCATACCCCCACGAAGACGGAGG
* *
20975018 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCATCTTCGAGCTG
1 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTATAATCGGCCAAGGTACGGCCATCCTCGAGCTG
* *
20975083 TTTTCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGGATTTTAGACT
66 TTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
* * * *
20975148 TCACATTATCGATGGTGTCGGAGCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTG
131 TTACATTATCGATGGTGTCAGAACTCTCGACCTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTG
20975213 ACGAAGATCTGCATACCCCCACGAAGACGGAGG
196 ACGAAGATCTGCATACCCCCACGAAGACGGAGG
* * *
20975246 ACAAGGTGGAGGGTGGATTCCTTCTGAATGTTGTAATCGGCCAAGGTACGGCCGTCCTCGAGCTG
1 ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTATAATCGGCCAAGGTACGGCCATCCTCGAGCTG
20975311 TTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
66 TTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
*
20975376 TTACATTATCGATGGTGTCAGAACTCTCAACCTCGAGGGTGATGGTCTTGCCGG-TAAGGGTTTT
131 TTACATTATCGATGGTGTCAGAACTCTCGACCTCGAGGGTGATGGTCTTGCCGGTTAA-GGTTTT
20975440 GACGAAGATCTGCAT
195 GACGAAGATCTGCAT
20975455 CTTTTGAGAG
Statistics
Matches: 830, Mismatches: 62, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
227 3 0.00
228 827 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (228 bp):
ACAAGGTGGAGGGTGGATTCCTTCTGGATGTTATAATCGGCCAAGGTACGGCCATCCTCGAGCTG
TTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACT
TTACATTATCGATGGTGTCAGAACTCTCGACCTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTG
ACGAAGATCTGCATACCCCCACGAAGACGGAGG
Found at i:20976519 original size:22 final size:23
Alignment explanation
Indices: 20976491--20976533 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20976481 ATAATTAAAA
*
20976491 ATAAAAA-AAACTGATAAAAATC
1 ATAAAAACAAACTGAAAAAAATC
*
20976513 ATAAAAACAAATTGAAAAAAA
1 ATAAAAACAAACTGAAAAAAA
20976534 ACTAAAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (23 bp):
ATAAAAACAAACTGAAAAAAATC
Found at i:20976539 original size:22 final size:21
Alignment explanation
Indices: 20976487--20976540 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
20976477 ATCGATAATT
*
20976487 AAAAA-TAAAAAAAACTGATA
1 AAAAACTAAAAAAAACTGAAA
* *
20976507 AAAATCATAAAAACAAATTGAAA
1 AAAAAC-TAAAAA-AAACTGAAA
20976530 AAAAACTAAAA
1 AAAAACTAAAA
20976541 TCAACCATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 4 0.15
22 11 0.41
23 12 0.44
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (21 bp):
AAAAACTAAAAAAAACTGAAA
Found at i:20977729 original size:23 final size:23
Alignment explanation
Indices: 20977699--20977745 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
20977689 TGTTGTCACG
*
20977699 TCATGACGTC-GTTTATCAACTTA
1 TCATGACGTCACTTTATC-ACTTA
20977722 TCATGACGTCACTTTATCACTTA
1 TCATGACGTCACTTTATCACTTA
20977745 T
1 T
20977746 AAAACTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (23 bp):
TCATGACGTCACTTTATCACTTA
Found at i:20981303 original size:16 final size:16
Alignment explanation
Indices: 20981284--20981338 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
20981274 GTTTGGTTCA
*
20981284 CTGTAATGAAATAGGG
1 CTGTAATGAAATAGAG
20981300 CTGTAATTG-AATAGAG
1 CTGTAA-TGAAATAGAG
*
20981316 TTGTAAT-AGAATAGAG
1 CTGTAATGA-AATAGAG
20981332 CTGTAAT
1 CTGTAAT
20981339 CATTAATTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.03
16 30 0.91
17 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (16 bp):
CTGTAATGAAATAGAG
Found at i:20981536 original size:26 final size:26
Alignment explanation
Indices: 20981507--20981602 Score: 90
Period size: 25 Copynumber: 3.7 Consensus size: 26
20981497 TTGTTATTAA
*
20981507 ATTTTAGTAAAATTAATATTAAATAT
1 ATTTTAATAAAATTAATATTAAATAT
* *
20981533 A-TTTAA-AAAATAAATAATTTAATCAT
1 ATTTTAATAAAATTAAT-ATTAAAT-AT
* * *
20981559 ATTTTAACATAATTATTATTAAATAT
1 ATTTTAATAAAATTAATATTAAATAT
*
20981585 AATTTAATAAAA-TAATAT
1 ATTTTAATAAAATTAATAT
20981603 ATAATTTAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
24 8 0.15
25 15 0.27
26 15 0.27
27 11 0.20
28 6 0.11
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (26 bp):
ATTTTAATAAAATTAATATTAAATAT
Found at i:20981585 original size:52 final size:58
Alignment explanation
Indices: 20981517--20981635 Score: 151
Period size: 52 Copynumber: 2.2 Consensus size: 58
20981507 ATTTTAGTAA
* * * *
20981517 AATTAATATTAAATAT-ATTTAA-AAAAT-A-A-ATAATTTAATCATAT-TTTAACAT
1 AATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAACATCCTTAACAT
*
20981569 AATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAACATCCTTAATAT
1 AATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAACATCCTTAACAT
20981627 AATTATTAT
1 AATTATTAT
20981636 ATGAATTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
52 15 0.27
53 6 0.11
54 5 0.09
55 1 0.02
56 1 0.02
57 13 0.23
58 15 0.27
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (58 bp):
AATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAACATCCTTAACAT
Found at i:20981671 original size:23 final size:21
Alignment explanation
Indices: 20981640--20981682 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20981630 TATTATATGA
20981640 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
20981663 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
20981683 GCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:20989155 original size:40 final size:40
Alignment explanation
Indices: 20989100--20989415 Score: 492
Period size: 40 Copynumber: 7.9 Consensus size: 40
20989090 GAGAGTTATT
*
20989100 TATATCCGGGCTAAGTTCCGAAGAGCATTTGTGCTAGTGA
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
*
20989140 TATATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
* *
20989180 TGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
* * *
20989220 TGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTTA
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
20989260 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
* *
20989300 TGTATTCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
*
20989340 TATATCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
* **
20989380 TATATCCGTGCTAA-ACCTCGAAG-GCATTCGTGCTAG
1 TATATCCGGGCTAAGTTC-CGAAGAGCATTCGTGCTAG
20989416 AATTATGAGG
Statistics
Matches: 257, Mismatches: 18, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 14 0.05
40 243 0.95
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (40 bp):
TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
Found at i:20989258 original size:22 final size:22
Alignment explanation
Indices: 20989193--20989258 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 22
20989183 ATCCGGGCTA
20989193 AGTTCTGAAGAGCATTCGTGCT
1 AGTTCTGAAGAGCATTCGTGCT
* * * *
20989215 AG---TG-A-TGTATCCGGGCT
1 AGTTCTGAAGAGCATTCGTGCT
20989232 AAGTTCTGAAGAGCATTCGTGCT
1 -AGTTCTGAAGAGCATTCGTGCT
20989255 AGTT
1 AGTT
20989259 ATATATCCGG
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
21 2 0.07
22 7 0.23
23 8 0.27
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (22 bp):
AGTTCTGAAGAGCATTCGTGCT
Found at i:20989335 original size:23 final size:23
Alignment explanation
Indices: 20989269--20989335 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
20989259 ATATATCCGG
20989269 GCTAAGTTCCGAAGAGCATTCGT
1 GCTAAGTTCCGAAGAGCATTCGT
* * *
20989292 GCT-AG-T--G-A-TGTATTCGG
1 GCTAAGTTCCGAAGAGCATTCGT
20989309 GCTAAGTTCCGAAGAGCATTCGT
1 GCTAAGTTCCGAAGAGCATTCGT
20989332 GCTA
1 GCTA
20989336 GTGATATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 9 0.28
18 3 0.09
19 2 0.06
21 2 0.06
22 3 0.09
23 13 0.41
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (23 bp):
GCTAAGTTCCGAAGAGCATTCGT
Found at i:20998106 original size:36 final size:37
Alignment explanation
Indices: 20998031--20998107 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
20998021 GTTTACCTAG
***
20998031 AGGACGCTAGATGAAAGGGAGGAGTGTTGGAGTCGAA
1 AGGACGCTAGATGAAAGGGAGGAGTGTCAAAGTCGAA
* *
20998068 AGGATGCTAGATGAAGGGGAGGAGTGTCAAAGTC-AA
1 AGGACGCTAGATGAAAGGGAGGAGTGTCAAAGTCGAA
20998104 AGGA
1 AGGA
20998108 AGCGAGGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 6 0.17
37 29 0.83
ACGTcount: A:0.35, C:0.08, G:0.42, T:0.16
Consensus pattern (37 bp):
AGGACGCTAGATGAAAGGGAGGAGTGTCAAAGTCGAA
Found at i:21003653 original size:20 final size:20
Alignment explanation
Indices: 21003628--21003680 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
21003618 AAGGGTTAGG
21003628 CACACGGGCGTGTCCCAAAC
1 CACACGGGCGTGTCCCAAAC
21003648 CACACGGGCGTGTCCCAAAC
1 CACACGGGCGTGTCCCAAAC
21003668 CACACGGGCGTGT
1 CACACGGGCGTGT
21003681 GCCCCTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.23, C:0.38, G:0.28, T:0.11
Consensus pattern (20 bp):
CACACGGGCGTGTCCCAAAC
Found at i:21004691 original size:38 final size:38
Alignment explanation
Indices: 21004601--21004758 Score: 192
Period size: 38 Copynumber: 4.1 Consensus size: 38
21004591 TCCAGTCATT
* * * *
21004601 AGCACTAAGCCTGCGGGACTTTAAGCTCAGATATAATACC
1 AGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATTCC
* * * *
21004641 AGCACTAGGCCTGCGGGATTTAACCTGGACATAATTCC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
21004679 AGCACGAAGCCTGCGGGATTTAACCCGGATAT-ATTACC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATT-CC
* *
21004717 AGCATGAAACCTGCGGGATTTAACCCGGATATAATTCC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
21004755 AGCA
1 AGCA
21004759 TATAGCCTGC
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
37 3 0.03
38 76 0.73
39 8 0.08
40 17 0.16
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
Found at i:21004730 original size:76 final size:78
Alignment explanation
Indices: 21004601--21004787 Score: 220
Period size: 76 Copynumber: 2.4 Consensus size: 78
21004591 TCCAGTCATT
* * **
21004601 AGCACTAAGCCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCCTGCGGGATTTAACC
1 AGCACGAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACTAAACCTGCGGGATTTAACC
*
21004666 TGGACATAATTCC
66 CGGACATAATTCC
* *
21004679 AGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATTACCAGCA-TGAAACCTGCGGGATTTAAC
1 AGCACGAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACT-AAACCTGCGGGATTTAAC
*
21004741 CCGGATATAATTCC
65 CCGGACATAATTCC
* * * *
21004755 AGCA-TATAGCCTGCGAGTCTTTAAGCCCGGATA
1 AGCACGA-AGCCTGCGGGACTTTAAGCCCAGATA
21004788 CACATCAAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
75 2 0.02
76 57 0.61
77 10 0.11
78 25 0.27
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.23
Consensus pattern (78 bp):
AGCACGAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACTAAACCTGCGGGATTTAACC
CGGACATAATTCC
Found at i:21004759 original size:38 final size:38
Alignment explanation
Indices: 21004607--21004787 Score: 188
Period size: 38 Copynumber: 4.7 Consensus size: 38
21004597 CATTAGCACT
* * *
21004607 AAGCCTGCGGGACTTTAAGCTCAGATATAATACCAGCACT-
1 AAGCCTGCGGGA-TTTAA-CCCGGATATAATTCCAGCA-TG
* * * *
21004647 AGGCCTGCGGGATTTAACCTGGACATAATTCCAGCACG
1 AAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATG
21004685 AAGCCTGCGGGATTTAACCCGGATAT-ATTACCAGCATG
1 AAGCCTGCGGGATTTAACCCGGATATAATT-CCAGCATG
*
21004723 AAACCTGCGGGATTTAACCCGGATATAATTCCAGCAT-
1 AAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATG
**
21004760 ATAGCCTGCGAGTCTTTAAGCCCGGATA
1 A-AGCCTGCG-GGATTTAA-CCCGGATA
21004788 CACATCAAAT
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
37 4 0.03
38 83 0.69
39 14 0.12
40 19 0.16
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (38 bp):
AAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATG
Found at i:21012153 original size:38 final size:38
Alignment explanation
Indices: 21012063--21012249 Score: 198
Period size: 38 Copynumber: 4.8 Consensus size: 38
21012053 TCCAGTCACT
* * * * * *
21012063 AGCACTAAGCCCGCGGGACTTTAAGCTCAGATATAATACT
1 AGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATTCC
* * *
21012103 AGCACTAGGCCTGCGGGATTTAACCCGGACATAATTCC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
*
21012141 AGCACGAAGCCTGCGAGATTTAACCCGGATAT-ATTACC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATT-CC
21012179 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
**
21012217 AGCAC-ATAGCCTGCGAGTCTTTAAGCCCGGATA
1 AGCACGA-AGCCTGCG-GGATTTAA-CCCGGATA
21012250 CACATCAAAT
Statistics
Matches: 128, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
37 4 0.03
38 86 0.67
39 14 0.11
40 24 0.19
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (38 bp):
AGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCC
Found at i:21012183 original size:76 final size:78
Alignment explanation
Indices: 21012082--21012249 Score: 234
Period size: 76 Copynumber: 2.2 Consensus size: 78
21012072 CCCGCGGGAC
* * * * *
21012082 TTTAAGCTCAGATATAATACTAGCACTAGGCCTGCGGGATTTAACCCGGACATAATTCCAGCACG
1 TTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGACATAATTCCAGCAC-
21012147 A-AGCCTGCGAG-A
65 ATAGCCTGCGAGTA
* *
21012159 TTTAA-CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCACA
1 TTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGACATAATTCCAGCACA
*
21012223 TAGCCTGCGAGTC
66 TAGCCTGCGAGTA
21012236 TTTAAGCCCGGATA
1 TTTAAGCCCGGATA
21012250 CACATCAAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
75 1 0.01
76 61 0.76
77 10 0.12
78 8 0.10
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (78 bp):
TTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGACATAATTCCAGCACA
TAGCCTGCGAGTA
Found at i:21023902 original size:93 final size:93
Alignment explanation
Indices: 21023794--21023962 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 93
21023784 GCCCCTAAGT
* *** *
21023794 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
21023859 CGAGTTCGGATTCCTAGTTACATTTCAC
66 CGAGTTCGGATTCCTAGTTACATTTCAC
* *
21023887 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTTAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
21023952 CGAGTTCGGAT
66 CGAGTTCGGAT
21023963 GCTCAACCAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATTCCTAGTTACATTTCAC
Found at i:21023954 original size:46 final size:45
Alignment explanation
Indices: 21023789--21023961 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
21023779 AACCCGCCCC
* * **
21023789 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGAATTCGCATCCA
*
21023835 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATTC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATTCGC-A--TCCA
* *
21023881 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATTCGCATCCA
* *
21023928 TAAGTGAACTCAGACTTAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21023962 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 59 0.55
47 31 0.29
48 2 0.02
49 5 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATTCGCATCCA
Found at i:21029468 original size:93 final size:92
Alignment explanation
Indices: 21029310--21029479 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 92
21029300 GCCCCTAAGT
* *
21029310 GAACTCGGACTCAACTCAACAGCTTGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACAGCTTGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
21029375 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
* *
21029402 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTGGGACTCAACTCA
1 GAACTCGGACTCAACTCAAC-AGCTT-GGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
21029466 ACGAGTTCGGATGC
64 ACGAGTTCGGATGC
21029480 TTAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
92 22 0.31
93 50 0.69
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACAGCTTGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:21029469 original size:46 final size:46
Alignment explanation
Indices: 21029305--21029476 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
21029295 AACCCGCCCC
* *
21029305 TAAGTGAACTCGGACTCAACTCAAC-AGCTT-GGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCACATCCA
*
21029350 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* * *
21029398 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
21029443 TAAGTGAACTGGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21029477 TGCTTAACCA
Statistics
Matches: 106, Mismatches: 10, Indels: 21
0.77 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 29 0.27
46 32 0.30
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:21034381 original size:24 final size:24
Alignment explanation
Indices: 21034354--21034402 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
21034344 ACTGTTGCCC
21034354 CCTTCAACTGGCAGAACAAATCAT
1 CCTTCAACTGGCAGAACAAATCAT
*
21034378 CCTTCAACTGGTAGAACAAATCAT
1 CCTTCAACTGGCAGAACAAATCAT
21034402 C
1 C
21034403 AATCCTCGGT
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:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (24 bp):
CCTTCAACTGGCAGAACAAATCAT
Found at i:21037847 original size:39 final size:39
Alignment explanation
Indices: 21037761--21037952 Score: 133
Period size: 39 Copynumber: 4.9 Consensus size: 39
21037751 ACTTGAAACC
** * *
21037761 AATTACCAGCAC-AAGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACGAAGCCTGC-GGACCTTAAGCCCGGACAT
* * *
21037800 AATACCAGCTCGAAGCCTGCGAGA-CTTTAGCCCGGACAT
1 AATTCCAGCACGAAGCCTGCG-GACCTTAAGCCCGGACAT
* * * *
21037839 ATTTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATAT
1 AATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGACAT
* * * *
21037878 AATTCCAGCAC-ACAGCCTGTGGACCCTAAGTCCGGATAT
1 AATTCCAGCACGA-AGCCTGCGGACCTTAAGCCCGGACAT
* * * *
21037917 AATTCCAACAC-ATAGCCTGCAGACCCTAAGTCCGGA
1 AATTCCAGCACGA-AGCCTGCGGACCTTAAGCCCGGA
21037953 TATACATCAA
Statistics
Matches: 127, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
38 17 0.13
39 110 0.87
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (39 bp):
AATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGACAT
Found at i:21037879 original size:78 final size:78
Alignment explanation
Indices: 21037793--21037956 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 78
21037783 GAATTTAAAC
* * * * * *
21037793 CCGG-TATAATACCAGCTCGA-AGCCTGCGAGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ACAGCCTGCG-GACCCTAAGCCCGGACATAATTCCAACACATAGC
* *
21037855 CTGCGGACCTTAAGT
64 CTGCAGACCCTAAGT
* * * *
21037870 CCGGATATAATTCCAGCACACAGCCTGTGGACCCTAAGTCCGGATATAATTCCAACACATAGCCT
1 CCGGATATAATACCAGCACACAGCCTGCGGACCCTAAGCCCGGACATAATTCCAACACATAGCCT
21037935 GCAGACCCTAAGT
66 GCAGACCCTAAGT
21037948 CCGGATATA
1 CCGGATATA
21037957 CATCAATATC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 7 0.10
78 65 0.90
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (78 bp):
CCGGATATAATACCAGCACACAGCCTGCGGACCCTAAGCCCGGACATAATTCCAACACATAGCCT
GCAGACCCTAAGT
Found at i:21037953 original size:39 final size:39
Alignment explanation
Indices: 21037831--21037956 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
21037821 AGACTTTAGC
* * * *
21037831 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
21037870 CCGGATATAATTCCAGCACACAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
21037909 CCGGATATAATTCCAACACATAGCCTGCAGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
21037948 CCGGATATA
1 CCGGATATA
21037957 CATCAATATC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:21042775 original size:59 final size:60
Alignment explanation
Indices: 21042679--21042811 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
21042669 GACAAGATTG
* * *
21042679 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
21042739 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
21042798 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
21042812 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:21042824 original size:29 final size:29
Alignment explanation
Indices: 21042709--21042811 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
21042699 AAAATTGTAC
*
21042709 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
21042738 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
21042768 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
21042797 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
21042812 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:21045727 original size:50 final size:47
Alignment explanation
Indices: 21045652--21045965 Score: 190
Period size: 47 Copynumber: 6.7 Consensus size: 47
21045642 GTATAATGTC
* *
21045652 GATGCCATGTCCCTGACATGGTCTTACATTAGCTCTCTCATATCCGTGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-TCTCTCATATCC-TG-T
** *
21045702 GATGCCATGTCCCAGACATGGTCTTACACTTACACATCTCATAGCC---
1 GATGCCATGTCCCAGACATGGTCTTACAC-TAGTC-TCTCATATCCTGT
* *
21045748 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATTTCAATGT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGTCTCTCATATC-CTGT
*
21045793 CGATGCCATGTCCCAGACATGGTCTTACACT-GTCTCTCATA--ATGT
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGTCTCTCATATCCTGT
** * * * * *
21045838 GGCCGACGCATGTCCCAAACAT-GTCTTACACTAG-CTCTCGTTTCAATGCC
1 -GATG-C-CATGTCCCAGACATGGTCTTACACTAGTCTCTCATATC-CTG-T
* * * * * * *
21045888 GATGCCATGTACTAGACACGGTCTTACA-TTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGTCTCTCAT-ATCCT-G-T
21045936 GATG-CATGTCCCAGACAT-GTCTTACACTAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAG
21045966 CACACAAATA
Statistics
Matches: 211, Mismatches: 31, Indels: 47
0.73 0.11 0.16
Matches are distributed among these distances:
41 7 0.03
42 1 0.00
43 2 0.01
44 9 0.04
45 20 0.09
46 33 0.16
47 55 0.26
48 39 0.18
49 6 0.03
50 28 0.13
51 11 0.05
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGTCTCTCATATCCTGT
Found at i:21045780 original size:94 final size:91
Alignment explanation
Indices: 21045651--21045966 Score: 309
Period size: 94 Copynumber: 3.4 Consensus size: 91
21045641 GGTATAATGT
* * ** *
21045651 CGATGCCATGTCCCTGACATGGTCTTACATTAGCTCTCTCATATCCGTGTTGATGCCATGTCCCA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCTCAT-TCAATGTCGATGCCATGTCCCA
21045716 GACATGGTCTTACACTTACACATCTCATAGC
63 GACATGGTCTTACACTT-CAC-TCTCATAGC
21045747 CGATGCATGTCCCAGACATGTCTTACACTAG--CTCTCATTTCAATGTCGATGCCATGTCCCAGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCA-TTCAATGTCGATGCCATGTCCCAGA
* * *
21045810 CATGGTCTTACACTGTCTCTCATAATGTGGC
65 CATGGTCTTACACT-TCACTC-TCA--TAGC
* * * * *
21045841 CGACGCATGTCCCAAACATGTCTTACACTAGCTCTCGT--TTCAATGCCGATGCCATGTACTAGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCATTCAATGTCGATGCCATGTCCCAGA
* **
21045904 CACGGTCTTACA-TTGGCTCTCATAATGTGGC
65 CATGGTCTTACACTTCACTCTCAT-A----GC
21045935 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
21045967 ACACAAATAA
Statistics
Matches: 187, Mismatches: 20, Indels: 28
0.80 0.09 0.12
Matches are distributed among these distances:
89 1 0.01
91 4 0.02
92 49 0.26
93 3 0.02
94 108 0.58
95 13 0.07
96 8 0.04
97 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (91 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCATTCAATGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTTCACTCTCATAGC
Found at i:21045912 original size:142 final size:138
Alignment explanation
Indices: 21045644--21045966 Score: 324
Period size: 142 Copynumber: 2.3 Consensus size: 138
21045634 AACATAGGGT
* * ** *
21045644 ATAATGTCGATGCCATGTCCCTGACATGGTCTTACATTAGCTCTCTCATATCCGTGTTGATGCCA
1 ATAATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCATAT-CGTGCCGACGCCA
* * *
21045709 TGTCCCAGACATGGTCTTACACTTACACATCTCATAGCCGATGCATGTCCCAGACATGTCTTACA
65 TGTCCCAAACATGGTCTTACACTTACACATCTCATAGCCGATGCATGTACCAGACAGGTCTTACA
21045774 CTAGCTCTC
130 CTAGCTCTC
21045783 ATTTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-TCTCTCATAAT-GTGGCCGAC
1 A--T-AATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCAT-ATCGT-GCCGAC
* *
21045845 G-CATGTCCCAAACAT-GTCTTACAC-TAGCTC-TCGTTTCA-ATGCCGATGCCATGTACTAGAC
61 GCCATGTCCCAAACATGGTCTTACACTTA-CACATC---TCATA-GCCGATG-CATGTACCAGAC
* *
21045905 ACGGTCTTACATTGGCTCTC
120 A-GGTCTTACACTAGCTCTC
21045925 ATAATGTGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 ATAATGT---CGATGCCATGTCCCAGACATGGTCTTACACTAGC
21045967 ACACAAATAA
Statistics
Matches: 155, Mismatches: 12, Indels: 31
0.78 0.06 0.16
Matches are distributed among these distances:
137 4 0.03
138 11 0.07
139 22 0.14
140 33 0.21
141 30 0.19
142 55 0.35
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (138 bp):
ATAATGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCATATCGTGCCGACGCCAT
GTCCCAAACATGGTCTTACACTTACACATCTCATAGCCGATGCATGTACCAGACAGGTCTTACAC
TAGCTCTC
Found at i:21050312 original size:15 final size:15
Alignment explanation
Indices: 21050288--21050319 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21050278 TATGCATGCA
*
21050288 AAATATAAAAGATAT
1 AAATACAAAAGATAT
21050303 AAATACAAAAGATAT
1 AAATACAAAAGATAT
21050318 AA
1 AA
21050320 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (15 bp):
AAATACAAAAGATAT
Found at i:21052292 original size:16 final size:17
Alignment explanation
Indices: 21052266--21052300 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
21052256 GCCAATACAT
21052266 ATTTATCATTCAATTCA
1 ATTTATCATTCAATTCA
21052283 ATTT-TCATTCAATTCA
1 ATTTATCATTCAATTCA
21052299 AT
1 AT
21052301 AATAACACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTATCATTCAATTCA
Found at i:21071755 original size:23 final size:23
Alignment explanation
Indices: 21071724--21071768 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21071714 TTTGGTGGTT
21071724 TTCTACATAATTATTCTATTTTTA
1 TTCTACATAATTATT-TATTTTTA
* *
21071748 TTCT-CATATTTCTTTATTTTT
1 TTCTACATAATTATTTATTTTT
21071769 TATTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.64
Consensus pattern (23 bp):
TTCTACATAATTATTTATTTTTA
Found at i:21093908 original size:43 final size:42
Alignment explanation
Indices: 21093855--21094053 Score: 170
Period size: 42 Copynumber: 4.7 Consensus size: 42
21093845 CGTTTATGAA
* * *
21093855 AAAAATGCCGCTATAGAACATGATCTTTAGCGGCGCTATTTCG
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCT-TTTCC
* * ** *
21093898 ACATACGCCGCTAAAGAACATGATCTTTAGCGATGCTTTCCC
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCC
*
21093940 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTT-CC
* * ** * *
21093983 ACAAATGCAACTATA-AA-ATAGA-CTTTTAGCGACGCTTTTCTC
1 AAAAACGCCGCTAAAGAACAT-GATC-TTTAGCGGCGCTTTTC-C
* * *
21094025 ACAAACGCCGCTAAAAAACATGACCTTTA
1 AAAAACGCCGCTAAAGAACATGATCTTTA
21094054 AAAATTTATT
Statistics
Matches: 125, Mismatches: 24, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
41 4 0.03
42 67 0.54
43 51 0.41
44 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTCC
Found at i:21100464 original size:19 final size:20
Alignment explanation
Indices: 21100440--21100477 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
21100430 GGTACCACCA
21100440 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
21100459 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
21100478 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:21100817 original size:93 final size:93
Alignment explanation
Indices: 21100707--21100877 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
21100697 GCCCCTAAGT
* * *
21100707 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCGTCCATAAATAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATAAACTCGGACTCAACTCAA
21100772 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
21100800 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATAAACTCGGACTCAACTCAA
21100865 CGAGTTCGGATGC
66 CGAGTTCGGATGC
21100878 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATAAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21100874 original size:46 final size:46
Alignment explanation
Indices: 21100702--21100874 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
21100692 AACCCGCCCC
* * * * *
21100702 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCGTCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
21100748 TAAATAAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
21100796 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
21100841 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21100875 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:21100893 original size:46 final size:45
Alignment explanation
Indices: 21100754--21100893 Score: 128
Period size: 46 Copynumber: 3.0 Consensus size: 45
21100744 TCCATAAATA
*
21100754 AACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGTG
* * *
21100801 AACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAGTG
1 AACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAGTG
21100847 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGTG
21100893 A
1 A
21100894 CATGTCACTT
Statistics
Matches: 77, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.43
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGTG
Found at i:21107570 original size:19 final size:20
Alignment explanation
Indices: 21107546--21107583 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
21107536 GGTACCACCA
21107546 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
21107565 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
21107584 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:21107924 original size:47 final size:49
Alignment explanation
Indices: 21107807--21107981 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 49
21107797 AACCCGCCCC
* * * *
21107807 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCGTCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACATCCA
**
21107853 TAA-ATAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * *
21107900 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
21107945 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
21107982 TCAACCATCC
Statistics
Matches: 106, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 28 0.26
46 32 0.30
47 31 0.29
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:21107980 original size:93 final size:92
Alignment explanation
Indices: 21107812--21107981 Score: 277
Period size: 92 Copynumber: 1.8 Consensus size: 92
21107802 GCCCCTAAGT
* * *
21107812 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCGTCCATAAATAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATAACTCGGACTCAACTCAAC
21107877 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* * *
21107904 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAT-AACTCGGACTCAACTCAA
21107969 CGAGTTCGGATGC
65 CGAGTTCGGATGC
21107982 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 40 0.56
93 31 0.44
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21107997 original size:46 final size:45
Alignment explanation
Indices: 21107858--21107997 Score: 128
Period size: 46 Copynumber: 3.0 Consensus size: 45
21107848 GTCCATAAAT
*
21107858 AACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGTG
* * *
21107905 AACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAGTG
1 AACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAGTG
21107951 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGTG
21107997 A
1 A
21107998 CATGTCACTT
Statistics
Matches: 77, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.43
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGTG
Found at i:21116398 original size:6 final size:7
Alignment explanation
Indices: 21116371--21116396 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21116361 ATTTGAGTGT
21116371 TTTTTTA
1 TTTTTTA
21116378 TTTTTTA
1 TTTTTTA
21116385 TTTTTTA
1 TTTTTTA
21116392 TTTTT
1 TTTTT
21116397 ATGATTTAGA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:21118142 original size:2 final size:2
Alignment explanation
Indices: 21118135--21118163 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21118125 AAAATTGCAT
21118135 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21118164 TCTGTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21124403 original size:27 final size:28
Alignment explanation
Indices: 21124365--21124419 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
21124355 AGAGATGGAG
*
21124365 GTAAGTAAAAAAAAG-GGAAGAAAAAAC
1 GTAAGTAAAAAAAAGAAGAAGAAAAAAC
21124392 GTAAGTAAAAAAAAGAAGAAGAAAAAAC
1 GTAAGTAAAAAAAAGAAGAAGAAAAAAC
21124420 TAGTAGCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.69, C:0.04, G:0.20, T:0.07
Consensus pattern (28 bp):
GTAAGTAAAAAAAAGAAGAAGAAAAAAC
Found at i:21127885 original size:4 final size:4
Alignment explanation
Indices: 21127878--21127907 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
21127868 AGCTTTAACT
21127878 ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
21127908 CACAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
ATAG
Found at i:21128272 original size:17 final size:18
Alignment explanation
Indices: 21128252--21128287 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
21128242 ATGAAAAATT
21128252 AAAAAGAAAA-AAAAAGA
1 AAAAAGAAAAGAAAAAGA
21128269 AAAAAGAAAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
21128287 A
1 A
21128288 CCCTAGGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:21131570 original size:27 final size:27
Alignment explanation
Indices: 21131519--21131572 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21131509 TGAACTACCT
* * *
21131519 TATGTTTATTGTCCCAGCGGGCTATCC
1 TATGTTTACTGTCCCAGCAGACTATCC
*
21131546 TATGTTTACTGTCCCGGCAGACTATCC
1 TATGTTTACTGTCCCAGCAGACTATCC
21131573 CGTGTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (27 bp):
TATGTTTACTGTCCCAGCAGACTATCC
Found at i:21131578 original size:27 final size:27
Alignment explanation
Indices: 21131520--21131580 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
21131510 GAACTACCTT
* * * *
21131520 ATGTTTATTGTCCCAGCGGGCTATCCT
1 ATGTTTACTGTCCCAGCAGACTATCCC
*
21131547 ATGTTTACTGTCCCGGCAGACTATCCC
1 ATGTTTACTGTCCCAGCAGACTATCCC
*
21131574 GTGTTTA
1 ATGTTTA
21131581 TTATTTTGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.36
Consensus pattern (27 bp):
ATGTTTACTGTCCCAGCAGACTATCCC
Found at i:21141513 original size:17 final size:17
Alignment explanation
Indices: 21141492--21141537 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
21141482 TCCGACGTTA
21141492 TTTTTTTTCTTCT-TTC
1 TTTTTTTTCTTCTCTTC
*
21141508 TCTTTTTTTCATCTCTTC
1 T-TTTTTTTCTTCTCTTC
*
21141526 TTTTTCTTCTTC
1 TTTTTTTTCTTC
21141538 CATTCTGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 20 0.80
18 4 0.16
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTTTCTTCTCTTC
Found at i:21149173 original size:2 final size:2
Alignment explanation
Indices: 21149166--21149197 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
21149156 CATGTATAAC
21149166 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21149198 TATGTTAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:21161865 original size:17 final size:17
Alignment explanation
Indices: 21161843--21161877 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21161833 AATATAGAAA
*
21161843 GTAATCTTAGAAGATTT
1 GTAATCTAAGAAGATTT
*
21161860 GTAATCTAATAAGATTT
1 GTAATCTAAGAAGATTT
21161877 G
1 G
21161878 ATTTTGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (17 bp):
GTAATCTAAGAAGATTT
Found at i:21166205 original size:34 final size:34
Alignment explanation
Indices: 21166153--21166222 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
21166143 CCTGATTAGT
*
21166153 TTATCAGTTTAATCCATTTGCTTATTTTTCTTTC
1 TTATCAGTTCAATCCATTTGCTTATTTTTCTTTC
*
21166187 TTATCAGTTCAATTCATTTGCTTATTTTTCTTTC
1 TTATCAGTTCAATCCATTTGCTTATTTTTCTTTC
21166221 TT
1 TT
21166223 TCTTTATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (34 bp):
TTATCAGTTCAATCCATTTGCTTATTTTTCTTTC
Found at i:21172032 original size:2 final size:2
Alignment explanation
Indices: 21172025--21172052 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21172015 GTTGTAAGCT
21172025 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
21172053 CACATGCCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21176110 original size:2 final size:2
Alignment explanation
Indices: 21176103--21176128 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21176093 GAATCCTCCA
21176103 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
21176129 GATGTGATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21177442 original size:19 final size:20
Alignment explanation
Indices: 21177405--21177444 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
21177395 CCAAACAATT
*
21177405 TTATAATATAAATTTAGTGC
1 TTATAATATAAATTCAGTGC
21177425 TTATAATA-AAATTCAGTGC
1 TTATAATATAAATTCAGTGC
21177444 T
1 T
21177445 AAAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (20 bp):
TTATAATATAAATTCAGTGC
Found at i:21177833 original size:2 final size:2
Alignment explanation
Indices: 21177826--21177850 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21177816 GTTTTTACTC
21177826 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21177851 ACCACAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21178898 original size:14 final size:14
Alignment explanation
Indices: 21178881--21178926 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
21178871 TCAAAACTTT
*
21178881 GAACCTTAAACCTC
1 GAACCTTGAACCTC
*
21178895 GAACCTCGAACCTC
1 GAACCTTGAACCTC
*
21178909 GAA-CTTGAACCTT
1 GAACCTTGAACCTC
21178922 GAACC
1 GAACC
21178927 CCGAACCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.33, C:0.35, G:0.13, T:0.20
Consensus pattern (14 bp):
GAACCTTGAACCTC
Found at i:21178899 original size:7 final size:7
Alignment explanation
Indices: 21178889--21178933 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
21178879 TTGAACCTTA
21178889 AACCTCG
1 AACCTCG
21178896 AACCTCG
1 AACCTCG
21178903 AACCTCG
1 AACCTCG
*
21178910 AA-CTTG
1 AACCTCG
*
21178916 AACCTTG
1 AACCTCG
*
21178923 AACCCCG
1 AACCTCG
21178930 AACC
1 AACC
21178934 CAAGGTTGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.31, C:0.40, G:0.13, T:0.16
Consensus pattern (7 bp):
AACCTCG
Found at i:21178920 original size:20 final size:20
Alignment explanation
Indices: 21178895--21178932 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21178885 CTTAAACCTC
*
21178895 GAACCTCGAACCTCGAACTT
1 GAACCTCGAACCCCGAACTT
*
21178915 GAACCTTGAACCCCGAAC
1 GAACCTCGAACCCCGAAC
21178933 CCAAGGTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.37, G:0.16, T:0.16
Consensus pattern (20 bp):
GAACCTCGAACCCCGAACTT
Found at i:21179830 original size:3 final size:3
Alignment explanation
Indices: 21179822--21179860 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
21179812 CAAATCATAC
21179822 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21179861 AAGGTGACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:21181338 original size:4 final size:4
Alignment explanation
Indices: 21181329--21181356 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
21181319 TTTATTCCAG
21181329 TAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT
21181357 GTTCTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:21185813 original size:3 final size:3
Alignment explanation
Indices: 21185805--21185852 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
21185795 ATTTAGTTTT
21185805 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21185853 ATGAATTAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:21186442 original size:17 final size:17
Alignment explanation
Indices: 21186420--21186454 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21186410 AATATAGAAA
*
21186420 GTAATCTTAGAAGATTT
1 GTAATCTAAGAAGATTT
*
21186437 GTAATCTAATAAGATTT
1 GTAATCTAAGAAGATTT
21186454 G
1 G
21186455 ATTTTGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (17 bp):
GTAATCTAAGAAGATTT
Found at i:21189492 original size:26 final size:26
Alignment explanation
Indices: 21189463--21189544 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
21189453 TGGTACAAAT
*
21189463 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
21189489 TGATAATGTATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
21189515 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
21189541 TGAT
1 TGAT
21189545 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:21191084 original size:26 final size:25
Alignment explanation
Indices: 21191032--21191084 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
21191022 TTTACAGTTT
21191032 TACCCCTAGTAGATAAATTACCGAAA
1 TACCCCTAG-AGATAAATTACCGAAA
*
21191058 TACCCCTAG-GATTAAATTGACCTAAA
1 TACCCCTAGAGA-TAAATT-ACCGAAA
21191084 T
1 T
21191085 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGATAAATTACCGAAA
Found at i:21194184 original size:26 final size:26
Alignment explanation
Indices: 21194150--21194208 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
21194140 TTACCCCATC
21194150 AAAATTTTGACGATTTTACCCTTAGT
1 AAAATTTTGACGATTTTACCCTTAGT
* * *
21194176 AAAATTTTGATGATTTTGCCCTTGGT
1 AAAATTTTGACGATTTTACCCTTAGT
21194202 AAAATTT
1 AAAATTT
21194209 CAAGAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.44
Consensus pattern (26 bp):
AAAATTTTGACGATTTTACCCTTAGT
Found at i:21210589 original size:15 final size:15
Alignment explanation
Indices: 21210569--21210611 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
21210559 TAATGTAAAT
*
21210569 TGGATTTCCTTATCA
1 TGGATTTCTTTATCA
*
21210584 TGGATTTCTTTATCT
1 TGGATTTCTTTATCA
21210599 TGGATTTCTTTAT
1 TGGATTTCTTTAT
21210612 TCTGGGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:21210951 original size:15 final size:15
Alignment explanation
Indices: 21210931--21210960 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21210921 GATGCATGTT
21210931 GAATTGTTCTATTGA
1 GAATTGTTCTATTGA
*
21210946 GAATTGTTCTGTTGA
1 GAATTGTTCTATTGA
21210961 CTAGAAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (15 bp):
GAATTGTTCTATTGA
Found at i:21223109 original size:39 final size:40
Alignment explanation
Indices: 21223009--21223193 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
21222999 TCGAATGATG
* * *
21223009 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
** *
21223048 ATCCGAACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
21223089 TCCGGGCTAAG-CCCGAAGGCA-TTGTTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAT
*
21223128 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
21223167 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21223194 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 3 0.02
39 32 0.26
40 74 0.61
41 13 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:21225444 original size:21 final size:21
Alignment explanation
Indices: 21225406--21225445 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21225396 AATTACTCCA
*
21225406 AGAAGCCGATTGATTCATCTC
1 AGAAGCCGATTCATTCATCTC
21225427 AGAAGCCGGATTCA-TCATC
1 AGAAGCC-GATTCATTCATC
21225446 AAGGCTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (21 bp):
AGAAGCCGATTCATTCATCTC
Found at i:21225536 original size:21 final size:22
Alignment explanation
Indices: 21225511--21225562 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 22
21225501 TTTGTATTCT
21225511 TTATTTT-TCTGAGATGTTTTC
1 TTATTTTATCTGAGATGTTTTC
*
21225532 TTATTTAGTTATGTGAGATGTTTTC
1 TTA-TT--TTATCTGAGATGTTTTC
21225557 TTATTT
1 TTATTT
21225563 AGTTATGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 3 0.12
24 4 0.15
25 16 0.62
ACGTcount: A:0.17, C:0.06, G:0.15, T:0.62
Consensus pattern (22 bp):
TTATTTTATCTGAGATGTTTTC
Found at i:21225569 original size:25 final size:25
Alignment explanation
Indices: 21225520--21225569 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
21225510 TTTATTTTTC
21225520 TGAGATGTTTTCTTATTTAGTTATG
1 TGAGATGTTTTCTTATTTAGTTATG
21225545 TGAGATGTTTTCTTATTTAGTTATG
1 TGAGATGTTTTCTTATTTAGTTATG
21225570 AACGAAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.04, G:0.20, T:0.56
Consensus pattern (25 bp):
TGAGATGTTTTCTTATTTAGTTATG
Found at i:21229323 original size:24 final size:21
Alignment explanation
Indices: 21229287--21229329 Score: 59
Period size: 24 Copynumber: 1.9 Consensus size: 21
21229277 ACTTTAATAC
21229287 GAGTTAGTACAAGTATGTACTT
1 GAGTTAGTACAAGT-TGTACTT
21229309 GAGTTATGTTACAAGTTGTAC
1 GAGTTA-G-TACAAGTTGTAC
21229330 AAGTATGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 6 0.32
24 7 0.37
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.37
Consensus pattern (21 bp):
GAGTTAGTACAAGTTGTACTT
Found at i:21236832 original size:178 final size:178
Alignment explanation
Indices: 21236533--21237042 Score: 966
Period size: 178 Copynumber: 2.9 Consensus size: 178
21236523 AATAAACCCC
21236533 CTTGAGCCTAACAAGCCATTTCTTGTATTACCCTTAATACTGACCCTTAACCCATTATTGTTGAA
1 CTTGAGCCTAACAAGCCATTTCTTGTATTACCCTTAATACTGACCCTTAACCCATTATTGTTGAA
21236598 ATCCCCTAAATTAATTTAATCCCTATTTTTGTCGAGATTTGAGTTGAAGAAATTGCTTAGCTATG
66 ATCCCCTAAATTAATTTAATCCCTATTTTTGTCGAGATTTGAGTTGAAGAAATTGCTTAGCTATG
21236663 TCTTGTTTTTAATAATTTAGCCTAATAATTTGATCCCTAGTAAACCTT
131 TCTTGTTTTTAATAATTTAGCCTAATAATTTGATCCCTAGTAAACCTT
21236711 CTTGAGCCTAACAAGCCATTTCTTGTATTACCCTTAATACTGACCCTTAACCCATTATTGTTGAA
1 CTTGAGCCTAACAAGCCATTTCTTGTATTACCCTTAATACTGACCCTTAACCCATTATTGTTGAA
*
21236776 ATCCCCTAAATTAATTTAATCCCTATTTTTGTCGAGATTTAAGTTGAAGAAATTGCTTAGCTATG
66 ATCCCCTAAATTAATTTAATCCCTATTTTTGTCGAGATTTGAGTTGAAGAAATTGCTTAGCTATG
21236841 TCTTGTTTTTAATAATTTAGCCTAATAATTTGATCCCTAGTAAACCTT
131 TCTTGTTTTTAATAATTTAGCCTAATAATTTGATCCCTAGTAAACCTT
*
21236889 CTTGAGCCTAACAAACCATTTCTTGTATTACCCTTAATACTGACCCTTAACCCATTATTGTTGAA
1 CTTGAGCCTAACAAGCCATTTCTTGTATTACCCTTAATACTGACCCTTAACCCATTATTGTTGAA
* * *
21236954 ATCCCCTAAATTAATTTGATCCCTATTTTTGTTGAGATTTGAGTTGAAGAAATTACTTAGCTATG
66 ATCCCCTAAATTAATTTAATCCCTATTTTTGTCGAGATTTGAGTTGAAGAAATTGCTTAGCTATG
*
21237019 TCTTGTTTTTAATAAGTTAGCCTA
131 TCTTGTTTTTAATAATTTAGCCTA
21237043 TGTATTTAAC
Statistics
Matches: 325, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
178 325 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (178 bp):
CTTGAGCCTAACAAGCCATTTCTTGTATTACCCTTAATACTGACCCTTAACCCATTATTGTTGAA
ATCCCCTAAATTAATTTAATCCCTATTTTTGTCGAGATTTGAGTTGAAGAAATTGCTTAGCTATG
TCTTGTTTTTAATAATTTAGCCTAATAATTTGATCCCTAGTAAACCTT
Found at i:21240175 original size:16 final size:16
Alignment explanation
Indices: 21240154--21240188 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
21240144 TGAAATGAAA
*
21240154 ATGGGAGGGGGTTACC
1 ATGGGAGCGGGTTACC
21240170 ATGGGAGCGGGTTACC
1 ATGGGAGCGGGTTACC
21240186 ATG
1 ATG
21240189 TGTTTCGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.20, C:0.14, G:0.46, T:0.20
Consensus pattern (16 bp):
ATGGGAGCGGGTTACC
Done.