Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 8 of 91
Found at i:1284644 original size:20 final size:19
Alignment explanation
Indices: 1284619--1284657 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1284609 AGAATTCAAA
1284619 AAATAAAATTTTGATACATT
1 AAATAAAATTTTGA-ACATT
**
1284639 AAATAAGTTTTTGAACATT
1 AAATAAAATTTTGAACATT
1284658 CATTTATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (19 bp):
AAATAAAATTTTGAACATT
Found at i:1284772 original size:12 final size:12
Alignment explanation
Indices: 1284755--1284784 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1284745 TTAAATTTTT
1284755 TAAAATTAAATA
1 TAAAATTAAATA
1284767 TAAAATTAAATA
1 TAAAATTAAATA
*
1284779 AAAAAT
1 TAAAAT
1284785 AAAAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
TAAAATTAAATA
Found at i:1285258 original size:12 final size:12
Alignment explanation
Indices: 1285231--1285273 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
1285221 GTAAGATGAC
*
1285231 ATATACTTTTAAA
1 ATATA-TTTAAAA
1285244 ATATATTTAAAA
1 ATATATTTAAAA
*
1285256 ATATTAATTAAAA
1 ATA-TATTTAAAA
1285269 ATATA
1 ATATA
1285274 AAAATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATTTAAAA
Found at i:1285743 original size:10 final size:10
Alignment explanation
Indices: 1285728--1285782 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
1285718 TACTTAATTT
*
1285728 AATAATTTAA
1 AATAATATAA
1285738 AATAATATAA
1 AATAATATAA
*
1285748 TATAATATAA
1 AATAATATAA
*
1285758 TATAATATAA
1 AATAATATAA
* *
1285768 TATAAAACTAA
1 AATAATA-TAA
1285779 AATA
1 AATA
1285783 TAAGAATAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
10 34 0.85
11 6 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
AATAATATAA
Found at i:1285747 original size:5 final size:5
Alignment explanation
Indices: 1285729--1285772 Score: 70
Period size: 5 Copynumber: 8.8 Consensus size: 5
1285719 ACTTAATTTA
* *
1285729 ATAAT TTAAA ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
1285773 AACTAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:1292754 original size:26 final size:27
Alignment explanation
Indices: 1292716--1292779 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
1292706 TTTTTAACAT
* * *
1292716 TAAATAAATATATTTATGAA-TATATA
1 TAAATAAAAATATTTATGAACAATAAA
1292742 TAAATAAAAATATTTATGAACAATAAA
1 TAAATAAAAATATTTATGAACAATAAA
*
1292769 TAAATTAAAAT
1 TAAATAAAAAT
1292780 CAGATAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 19 0.58
27 14 0.42
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (27 bp):
TAAATAAAAATATTTATGAACAATAAA
Found at i:1292771 original size:23 final size:23
Alignment explanation
Indices: 1292693--1292773 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
1292683 TCATTTCAAT
* * * *
1292693 TAAATAAATTTATTTTTTAACAT
1 TAAATAAATATATTTATGAACAA
*
1292716 TAAATAAATATATTTATGAATATATA
1 TAAATAAATATATTTATG-A-ACA-A
*
1292742 TAAATAAAAATATTTATGAACAA
1 TAAATAAATATATTTATGAACAA
1292765 TAAATAAAT
1 TAAATAAAT
1292774 TAAAATCAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
23 24 0.51
24 3 0.06
25 3 0.06
26 17 0.36
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TAAATAAATATATTTATGAACAA
Found at i:1293370 original size:261 final size:261
Alignment explanation
Indices: 1292934--1293540 Score: 848
Period size: 261 Copynumber: 2.3 Consensus size: 261
1292924 GCCGAGAAGC
* * * * * **
1292934 AACTCTAGCTGTTTAATCGTGGAATAACGGTTTTTATTT-TAAAAATTTATTAAAAATAAAATTA
1 AACTATAGCAGTTTAATCGTGGAATAACAGTTTTT-TTTAAAAAAAATTATTAAAAATTGAATTA
*
1292998 TAATTATTAAATAAAATTAAAACATTTTACTAACAAATTTTTTTTGGTAAGAAAAATTCAAAGTA
65 TAATTA-T---TAAAATTAAAACATTTTACTAAC-AATTTTTTTTGGTAAAAAAAATTCAAAGTA
* *
1293063 GATAAATTGTTCAGTTCTCTAGATCATGACAAAATGTGTCATATTTGACAGTCTAAGATAGGTAA
125 GATAAATTGTTCAATTCTCTAGATCAAGACAAAATGTGTCATATTTGACAGTCTAAGATAGGTAA
* * *
1293128 TTATAAATTGTTCATTTACCTTATATCAGTATTAATAGATTGTTGTTTTTAGAGCTTTGGATTGT
190 TTATAAATTGTGCATTTACCTTATATCAGTATTAATAGACTGTTGTTTTTAGAGCTTTGAATTGT
1293193 GGCTATA
255 GGCTATA
*
1293200 AACTATAGCAGTTTAATCGTTGAATAACAGTTTTTTTTAGAAAAAAATTATTAAAAATTGAATTA
1 AACTATAGCAGTTTAATCGTGGAATAACAGTTTTTTTTA-AAAAAAATTATTAAAAATTGAATTA
** *
1293265 TAATTATTAAAATTTTAACATTTTACTAAC-ATTTTTTTT-GTAAAAAAAATTCAGAGGTAGATA
65 TAATTATTAAAATTAAAACATTTTACTAACAATTTTTTTTGGTAAAAAAAATTCA-AAGTAGATA
* * * * *
1293328 AGTTGTTTAA-TCTCCTAGATTAAGATAAAATGTGTCATATTTGACAGTCTAAGATAGGTGATTA
129 AATTGTTCAATTCT-CTAGATCAAGACAAAATGTGTCATATTTGACAGTCTAAGATAGGTAATTA
* * *
1293392 TAGATTGTGCATTTACCTTATATCAGTATTGATAGACTGTTGTTTTTAGAGTTTTGAATTGTGGC
193 TAAATTGTGCATTTACCTTATATCAGTATTAATAGACTGTTGTTTTTAGAGCTTTGAATTGTGGC
1293457 TATA
258 TATA
* *
1293461 AACTATAGCCGTTTAATCGTGGAATAACAG--TTTTTTAAAAAGAATTATTAAAAATTGAATTAT
1 AACTATAGCAGTTTAATCGTGGAATAACAGTTTTTTTTAAAAAAAATTATTAAAAATTGAATTAT
1293524 AATTATTAAAATTAAAA
66 AATTATTAAAATTAAAA
1293541 TTTTAACATT
Statistics
Matches: 307, Mismatches: 30, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
258 40 0.13
259 7 0.02
260 16 0.05
261 161 0.52
263 21 0.07
265 3 0.01
266 32 0.10
267 27 0.09
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.40
Consensus pattern (261 bp):
AACTATAGCAGTTTAATCGTGGAATAACAGTTTTTTTTAAAAAAAATTATTAAAAATTGAATTAT
AATTATTAAAATTAAAACATTTTACTAACAATTTTTTTTGGTAAAAAAAATTCAAAGTAGATAAA
TTGTTCAATTCTCTAGATCAAGACAAAATGTGTCATATTTGACAGTCTAAGATAGGTAATTATAA
ATTGTGCATTTACCTTATATCAGTATTAATAGACTGTTGTTTTTAGAGCTTTGAATTGTGGCTAT
A
Found at i:1297500 original size:3 final size:3
Alignment explanation
Indices: 1297492--1297517 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1297482 CCCTAACTAC
1297492 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
1297518 GAGATGACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1299099 original size:18 final size:20
Alignment explanation
Indices: 1299073--1299114 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
1299063 TTTAATTATC
1299073 ATATAAATAATTT-TT-TAA
1 ATATAAATAATTTATTATAA
* *
1299091 ATATGAATATTTTATTATAA
1 ATATAAATAATTTATTATAA
1299111 ATAT
1 ATAT
1299115 TTTTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 2 0.10
20 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATAAATAATTTATTATAA
Found at i:1303967 original size:17 final size:19
Alignment explanation
Indices: 1303945--1303984 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1303935 GGCATCCATC
1303945 AATGTGA-TAATA-ATAAT
1 AATGTGATTAATATATAAT
*
1303962 AATGTGATTTATATATAAT
1 AATGTGATTAATATATAAT
1303981 AATG
1 AATG
1303985 AAAGAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
19 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (19 bp):
AATGTGATTAATATATAAT
Found at i:1304205 original size:23 final size:24
Alignment explanation
Indices: 1304170--1304219 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
1304160 AAAAATAATA
1304170 TTTAATAGATTTAAATTTTAAA-T
1 TTTAATAGATTTAAATTTTAAACT
** **
1304193 TTTAATATCTTTATTTTTTAAACT
1 TTTAATAGATTTAAATTTTAAACT
1304217 TTT
1 TTT
1304220 TATTATCATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTAATAGATTTAAATTTTAAACT
Found at i:1307387 original size:11 final size:11
Alignment explanation
Indices: 1307369--1307398 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1307359 TAAATTAAAT
1307369 TATATTTTTTA
1 TATATTTTTTA
*
1307380 TTTATTTTTTA
1 TATATTTTTTA
1307391 TATATTTT
1 TATATTTT
1307399 AAATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TATATTTTTTA
Found at i:1308580 original size:34 final size:34
Alignment explanation
Indices: 1308506--1308580 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 34
1308496 TTTTATGTTT
*
1308506 TTGAAAATTCGCTTCCGAGATTATAATATAAATC
1 TTGAAAATTCACTTCCGAGATTATAATATAAATC
* * * * *
1308540 TCGAAAATTCATTTTCGAGAATTATATTATACA-C
1 TTGAAAATTCACTTCCGAG-ATTATAATATAAATC
1308574 TTGAAAA
1 TTGAAAA
1308581 CGAATTTTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
34 22 0.67
35 11 0.33
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (34 bp):
TTGAAAATTCACTTCCGAGATTATAATATAAATC
Found at i:1308620 original size:33 final size:33
Alignment explanation
Indices: 1308573--1308654 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 33
1308563 ATATTATACA
**
1308573 CTTGAAAACGAATTTTGAAAATATATTATA-ATT
1 CTTGAAAATAAATTTTGAAAATATA-TATACATT
* *
1308606 CTTGAAAATAAATTTTTAAAATTTATATAGCATT
1 CTTGAAAATAAATTTTGAAAATATATATA-CATT
* *
1308640 TTTGAAAATAGATTT
1 CTTGAAAATAAATTT
1308655 CTAAGATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 4 0.10
33 21 0.51
34 16 0.39
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.43
Consensus pattern (33 bp):
CTTGAAAATAAATTTTGAAAATATATATACATT
Found at i:1308664 original size:34 final size:34
Alignment explanation
Indices: 1308603--1308688 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
1308593 ATATATTATA
* * *
1308603 ATTCTTGAAAATAAATTTTTAAAATTTATATAGC
1 ATTCTTGAAAATAGATTTCTAAAATTTACATAGC
* * *
1308637 ATTTTTGAAAATAGATTTCTAAGATTTACATTGC
1 ATTCTTGAAAATAGATTTCTAAAATTTACATAGC
* *
1308671 ATTCTTAAAAATGGATTT
1 ATTCTTGAAAATAGATTT
1308689 TCGAAAATCA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (34 bp):
ATTCTTGAAAATAGATTTCTAAAATTTACATAGC
Found at i:1309710 original size:27 final size:28
Alignment explanation
Indices: 1309679--1309735 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
1309669 ATAAATTTTT
*
1309679 ATTAAATAAAA-TAA-ATTATTATTTTAA
1 ATTAAATAAAATTAATATT-TTATTTAAA
*
1309706 ATTAATTAAAATTAATATTTTATTTAAA
1 ATTAAATAAAATTAATATTTTATTTAAA
1309734 AT
1 AT
1309736 ATATATTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
28 13 0.50
29 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTAAATAAAATTAATATTTTATTTAAA
Found at i:1313101 original size:158 final size:158
Alignment explanation
Indices: 1312811--1313123 Score: 497
Period size: 158 Copynumber: 2.0 Consensus size: 158
1312801 GAGGAGGATG
* *
1312811 AAAAGTAAATTACTTTGCTCCTTTATCATACCTTTTGCAGACAAAGGGAGCTCTCAAGATTTTAA
1 AAAAGCAAATTACTTTGCTCCTTTATCATACCTTTTGCAGACAAAGGGAACTCTCAAGATTTTAA
* * *
1312876 ACCCACTCTCATCTTGAGCTTATCAGCCCCAAAGCTTTCCCTTTTACCCCAGAAAACAGCACTAA
66 ACCCACTCTCATCTTGAGCTTATCAGCCCCAAAACTTTACCTTTTACCCCAGAAAACAGCACCAA
*
1312941 ACAGAGTTCAGTCAAAACCCAAGTAATT
131 ACAGAGTTAAGTCAAAACCCAAGTAATT
*
1312969 AAAAGCAAATTACTTTGCTCCTTTATCATA-TTTTCTGCAGACAAAGGGAACTCTCAAG-TTCTT
1 AAAAGCAAATTACTTTGCTCCTTTATCATACCTTT-TGCAGACAAAGGGAACTCTCAAGATT-TT
*
1313032 AAACCCACTCAT-ATCTTGAGCTTATCAGCCCCAAAACTTTACCTTTTACCCCAGAAAACAGTAC
64 AAACCCACTC-TCATCTTGAGCTTATCAGCCCCAAAACTTTACCTTTTACCCCAGAAAACAGCAC
*
1313096 CAAACAGAGTTAAGTGAAAACCCAAGTA
128 CAAACAGAGTTAAGTCAAAACCCAAGTA
1313124 CCAGGAAAAA
Statistics
Matches: 143, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
157 5 0.03
158 137 0.96
159 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (158 bp):
AAAAGCAAATTACTTTGCTCCTTTATCATACCTTTTGCAGACAAAGGGAACTCTCAAGATTTTAA
ACCCACTCTCATCTTGAGCTTATCAGCCCCAAAACTTTACCTTTTACCCCAGAAAACAGCACCAA
ACAGAGTTAAGTCAAAACCCAAGTAATT
Found at i:1319768 original size:24 final size:24
Alignment explanation
Indices: 1319739--1319800 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
1319729 ATGAAATTTA
* *
1319739 AAATATAATATAATGATACAATAT
1 AAATATAATATAATAATAAAATAT
* *
1319763 AAATATAATACAAAAATAAAATAT
1 AAATATAATATAATAATAAAATAT
1319787 AAATATAATATAAT
1 AAATATAATATAAT
1319801 TTAAAATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATATAATATAATAATAAAATAT
Found at i:1319794 original size:13 final size:13
Alignment explanation
Indices: 1319720--1319794 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
1319710 TCTTTTAGTT
1319720 TATAAATATATGAAA
1 TATAAATATA--AAA
* *
1319735 TTTAAA-ATATAA
1 TATAAATATAAAA
*
1319747 TAT-AATGATACAA
1 TATAAAT-ATAAAA
1319760 TATAAATAT--AA
1 TATAAATATAAAA
* *
1319771 TACAAAAATAAAA
1 TATAAATATAAAA
1319784 TATAAATATAA
1 TATAAATATAA
1319795 TATAATTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
11 11 0.23
12 4 0.09
13 21 0.45
14 6 0.13
15 5 0.11
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (13 bp):
TATAAATATAAAA
Found at i:1320237 original size:14 final size:14
Alignment explanation
Indices: 1320192--1320251 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
1320182 TAAAATTATT
*
1320192 TTTTAAAA-TTATA
1 TTTTAAAATTTAAA
1320205 TTATT-AAATTTGAAA
1 TT-TTAAAATTT-AAA
1320220 -TTTAAAATTTAAA
1 TTTTAAAATTTAAA
*
1320233 TTTTAATATTTATAA
1 TTTTAAAATTTA-AA
1320248 TTTT
1 TTTT
1320252 TTTTTATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 10 0.26
14 21 0.54
15 8 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TTTTAAAATTTAAA
Found at i:1320260 original size:19 final size:19
Alignment explanation
Indices: 1320233--1320272 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1320223 AAAATTTAAA
1320233 TTTTAATATTTAT-AATTTT
1 TTTTAATA-TTATGAATTTT
*
1320252 TTTTTATATTATGAATTTT
1 TTTTAATATTATGAATTTT
1320271 TT
1 TT
1320273 ATATAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTAATATTATGAATTTT
Found at i:1321782 original size:14 final size:14
Alignment explanation
Indices: 1321759--1321810 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
1321749 ATATCAATTA
* *
1321759 TAATAAAATTTATT
1 TAATATAATTTTTT
1321773 TAATATAATTTTTT
1 TAATATAATTTTTT
1321787 TAATA-AATTTTTT
1 TAATATAATTTTTT
1321800 TAATTATAATT
1 TAA-TATAATT
1321811 ATAATAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 11 0.32
14 19 0.56
15 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TAATATAATTTTTT
Found at i:1321818 original size:28 final size:27
Alignment explanation
Indices: 1321748--1321818 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
1321738 ATTGAATTCA
1321748 AATATCAATTATAAT-A-AAATTTATTT
1 AATAT-AATTATAATAATAAATTTATTT
* ** *
1321774 AATATAATTTTTTTAATAAATTTTTTT
1 AATATAATTATAATAATAAATTTATTT
1321801 AATTATAATTATAATAAT
1 AA-TATAATTATAATAAT
1321819 TTTTATTACT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
25 6 0.17
26 6 0.17
27 11 0.31
28 12 0.34
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (27 bp):
AATATAATTATAATAATAAATTTATTT
Found at i:1324890 original size:16 final size:17
Alignment explanation
Indices: 1324869--1324907 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
1324859 TAAATTTATT
1324869 ATTTTATAT-TTATATC
1 ATTTTATATATTATATC
1324885 ATTTTA-ATATTATATC
1 ATTTTATATATTATATC
1324901 ATTTTAT
1 ATTTTAT
1324908 CCTATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTATATATTATATC
Found at i:1324890 original size:24 final size:24
Alignment explanation
Indices: 1324863--1324922 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
1324853 TTTTATTAAA
* *
1324863 TTTATTATTTTAT-ATTTATATCAT
1 TTTAATATTATATCATTT-TATCAT
1324887 TTTAATATTATATCATTTTATCCTAT
1 TTTAATATTATATCATTTTAT-C-AT
1324913 TTTAA-ATTAT
1 TTTAATATTAT
1324923 TAAATTTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 14 0.45
25 10 0.32
26 7 0.23
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTAATATTATATCATTTTATCAT
Found at i:1325786 original size:11 final size:11
Alignment explanation
Indices: 1325772--1325844 Score: 53
Period size: 11 Copynumber: 6.8 Consensus size: 11
1325762 TATTTATTAT
1325772 TAATAATATAA
1 TAATAATATAA
*
1325783 TAATATTA-ATA
1 TAATAATATA-A
*
1325794 TAATAAT-TAT
1 TAATAATATAA
* *
1325804 TATTAATATAT
1 TAATAATATAA
*
1325815 TATTAATATAA
1 TAATAATATAA
* *
1325826 TATTTATATAA
1 TAATAATATAA
1325837 TAA-AATAT
1 TAATAATAT
1325845 TATTTTATTA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
10 11 0.22
11 40 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAATAATATAA
Found at i:1325794 original size:14 final size:15
Alignment explanation
Indices: 1325770--1325872 Score: 97
Period size: 14 Copynumber: 6.7 Consensus size: 15
1325760 TCTATTTATT
*
1325770 ATTAATAATATAATA
1 ATTATTAATATAATA
1325785 A-TATTAATATAATA
1 ATTATTAATATAATA
1325799 ATTATT-AT-TAATA
1 ATTATTAATATAATA
1325812 TATTATTAATATAATA
1 -ATTATTAATATAATA
* *
1325828 TTTATATAATAAAATA
1 ATTAT-TAATATAATA
1325844 TTATTTTATTAATATAATA
1 --A--TTATTAATATAATA
1325863 ATTA-TAATAT
1 ATTATTAATAT
1325873 CACTGTAACG
Statistics
Matches: 74, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
13 5 0.07
14 27 0.36
15 14 0.19
16 14 0.19
17 1 0.01
19 9 0.12
20 4 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATTAATATAATA
Found at i:1325810 original size:35 final size:36
Alignment explanation
Indices: 1325765--1325872 Score: 103
Period size: 40 Copynumber: 2.8 Consensus size: 36
1325755 TAAGCTCTAT
1325765 TTATTATTAATAATATAATAATATTAATATAAT-AA
1 TTATTATTAATAATATAATAATATTAATATAATAAA
*
1325800 TTATTATTAATATATTATTAATATAATATTTATATAATAAA
1 TTATTATTAATA-A-TA-T-A-ATAATATTAATATAATAAA
* *
1325841 ATATTATTTTATTAATATAATAAT-TATAATAT
1 TTATTA--TTAATAATATAATAATAT-TAATAT
1325873 CACTGTAACG
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
35 12 0.20
36 1 0.02
37 3 0.05
38 11 0.18
39 2 0.03
40 16 0.27
41 9 0.15
42 1 0.02
43 5 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (36 bp):
TTATTATTAATAATATAATAATATTAATATAATAAA
Found at i:1326045 original size:24 final size:22
Alignment explanation
Indices: 1326011--1326054 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
1326001 TTCAATTTTC
1326011 AAAAATAAAAAACTAAAAAAAACT
1 AAAAAT-AAAAAC-AAAAAAAACT
*
1326035 AAAAATTAAAACAAAAAAAA
1 AAAAATAAAAACAAAAAAAA
1326055 TAGAAACGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (22 bp):
AAAAATAAAAACAAAAAAAACT
Found at i:1329208 original size:3 final size:3
Alignment explanation
Indices: 1329200--1329245 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
1329190 AAACCTTCAA
** **
1329200 CTT CTT CTT CTT CTT CTT CTT CTT CAG CTT CTT CAG CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1329246 AGCTTCTCGC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.04, C:0.35, G:0.04, T:0.57
Consensus pattern (3 bp):
CTT
Found at i:1329218 original size:21 final size:21
Alignment explanation
Indices: 1329206--1329252 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
1329196 TCAACTTCTT
**
1329206 CTTCTTCTTCTTCTTCTTCAG
1 CTTCTTCAGCTTCTTCTTCAG
1329227 CTTCTTCAGCTTCTTCTTCAG
1 CTTCTTCAGCTTCTTCTTCAG
1329248 CTTCT
1 CTTCT
1329253 CGCCACCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.06, C:0.34, G:0.06, T:0.53
Consensus pattern (21 bp):
CTTCTTCAGCTTCTTCTTCAG
Found at i:1329246 original size:12 final size:12
Alignment explanation
Indices: 1329203--1329252 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
1329193 CCTTCAACTT
**
1329203 CTTCTTCTTCTT
1 CTTCTTCTTCAG
1329215 CTTCTTCTTCAG
1 CTTCTTCTTCAG
1329227 ---CTTCTTCAG
1 CTTCTTCTTCAG
1329236 CTTCTTCTTCAG
1 CTTCTTCTTCAG
1329248 CTTCT
1 CTTCT
1329253 CGCCACCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 9 0.27
12 24 0.73
ACGTcount: A:0.06, C:0.34, G:0.06, T:0.54
Consensus pattern (12 bp):
CTTCTTCTTCAG
Found at i:1329252 original size:9 final size:9
Alignment explanation
Indices: 1329194--1329242 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
1329184 GCCATTAAAC
*
1329194 CTTCAACTT
1 CTTCAGCTT
**
1329203 CTTCTTCTT
1 CTTCAGCTT
**
1329212 CTTCTTCTT
1 CTTCAGCTT
1329221 CTTCAGCTT
1 CTTCAGCTT
1329230 CTTCAGCTT
1 CTTCAGCTT
1329239 CTTC
1 CTTC
1329243 TTCAGCTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.08, C:0.35, G:0.04, T:0.53
Consensus pattern (9 bp):
CTTCAGCTT
Found at i:1329575 original size:43 final size:43
Alignment explanation
Indices: 1329512--1329597 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
1329502 CATTGTTTTG
* * *
1329512 TTTTGCTCGATGCGAGTGATTTTAAATTCGAATTTAATCAATA
1 TTTTGCTCGATGCGAATGATTTTAAATTCAAATTCAATCAATA
* * * *
1329555 TTTTGCTTGATGTGAATGATTTTAGATTCAAATTCAATTAATA
1 TTTTGCTCGATGCGAATGATTTTAAATTCAAATTCAATCAATA
1329598 AATTTTTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.44
Consensus pattern (43 bp):
TTTTGCTCGATGCGAATGATTTTAAATTCAAATTCAATCAATA
Found at i:1330396 original size:15 final size:15
Alignment explanation
Indices: 1330375--1330415 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1330365 ATAATTATAT
1330375 AATTATATTTTTAAA
1 AATTATATTTTTAAA
* *
1330390 TATTATATATTTAAA
1 AATTATATTTTTAAA
*
1330405 AATAATATTTT
1 AATTATATTTT
1330416 ATTAATTTCG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTATATTTTTAAA
Found at i:1335259 original size:13 final size:13
Alignment explanation
Indices: 1335252--1335287 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
1335242 AAAAACGATT
1335252 AAATAAAAAGTTA
1 AAATAAAAAGTTA
*
1335265 AAATAAAAAATTA
1 AAATAAAAAGTTA
1335278 AAATTAAAAA
1 AAA-TAAAAA
1335288 TAATAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAATAAAAAGTTA
Found at i:1335280 original size:20 final size:21
Alignment explanation
Indices: 1335252--1335301 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
1335242 AAAAACGATT
*
1335252 AAATAAAAAGTTAA-AATAAA
1 AAATTAAAAGTTAAAAATAAA
*
1335272 AAATTAAAA-TTAAAAATAAT
1 AAATTAAAAGTTAAAAATAAA
*
1335292 AAATTCAAAG
1 AAATTAAAAG
1335302 ATCTATAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
AAATTAAAAGTTAAAAATAAA
Found at i:1335330 original size:10 final size:10
Alignment explanation
Indices: 1335317--1335343 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1335307 TAAAGTGTGT
1335317 AAAATTTGAA
1 AAAATTTGAA
1335327 AAAATTTGAA
1 AAAATTTGAA
1335337 AAAATTT
1 AAAATTT
1335344 TAATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (10 bp):
AAAATTTGAA
Found at i:1335515 original size:12 final size:12
Alignment explanation
Indices: 1335498--1335534 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1335488 TATAAATTTT
1335498 AATTTTTATTAA
1 AATTTTTATTAA
1335510 AATTTTTATT-A
1 AATTTTTATTAA
1335521 AATTATTT-TTAA
1 AATT-TTTATTAA
1335533 AA
1 AA
1335535 AATTATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTTTTATTAA
Found at i:1337312 original size:18 final size:18
Alignment explanation
Indices: 1337279--1337328 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
1337269 TTATTTAATT
1337279 TTATATTTATATTTAAAAA
1 TTATATTTATA-TTAAAAA
1337298 TTATATTTATATTAAAAA
1 TTATATTTATATTAAAAA
*
1337316 TAATATTT-TATTA
1 TTATATTTATATTA
1337329 TTTTTAATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 5 0.17
18 14 0.47
19 11 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATATTTATATTAAAAA
Found at i:1343447 original size:49 final size:47
Alignment explanation
Indices: 1343320--1343447 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 47
1343310 GACTTGCAAA
* * *
1343320 AGAAGAATTTCAAGA-GAAAGAAGATTCTTAATAGGTAAGTTTGACAG
1 AGAAGAATTTTAAGAGGAAAG-AGATTCTTAATAGATAAGTTTGACAC
* * *
1343367 AGAAAAATTCTAAAAGGAAAGAGATTCTTAATAGATAAGTTTGACTTAC
1 AGAAGAATTTTAAGAGGAAAGAGATTCTTAATAGATAAGTTTGAC--AC
* *
1343416 AGAAGAATTTTAAGAGGAGAGGGATTCTTAAT
1 AGAAGAATTTTAAGAGGAAAGAGATTCTTAAT
1343448 GGGCAAGTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
47 34 0.51
48 5 0.07
49 28 0.42
ACGTcount: A:0.45, C:0.06, G:0.22, T:0.27
Consensus pattern (47 bp):
AGAAGAATTTTAAGAGGAAAGAGATTCTTAATAGATAAGTTTGACAC
Found at i:1343456 original size:49 final size:47
Alignment explanation
Indices: 1343320--1343458 Score: 154
Period size: 49 Copynumber: 2.9 Consensus size: 47
1343310 GACTTGCAAA
* *
1343320 AGAAGAATTTCAAGA-GAAAGAAGATTCTTAATAGGTAAGTTTGACAG
1 AGAAGAATTTTAAGAGGAAAG-AGATTCTTAATAGGTAAGTTTGACAC
* * * *
1343367 AGAAAAATTCTAAAAGGAAAGAGATTCTTAATAGATAAGTTTGACTTAC
1 AGAAGAATTTTAAGAGGAAAGAGATTCTTAATAGGTAAGTTTGAC--AC
* * * *
1343416 AGAAGAATTTTAAGAGGAGAGGGATTCTTAATGGGCAAGTTTG
1 AGAAGAATTTTAAGAGGAAAGAGATTCTTAATAGGTAAGTTTG
1343459 TATGGTTATA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 34 0.45
48 5 0.07
49 36 0.48
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.27
Consensus pattern (47 bp):
AGAAGAATTTTAAGAGGAAAGAGATTCTTAATAGGTAAGTTTGACAC
Found at i:1343843 original size:20 final size:20
Alignment explanation
Indices: 1343818--1343856 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1343808 ACAACTAGTA
1343818 GATCTTGTTTCTCATCCGTG
1 GATCTTGTTTCTCATCCGTG
1343838 GATCTTGTTTCTCATCCGT
1 GATCTTGTTTCTCATCCGT
1343857 AAATGTAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.18, T:0.46
Consensus pattern (20 bp):
GATCTTGTTTCTCATCCGTG
Found at i:1344001 original size:31 final size:31
Alignment explanation
Indices: 1343963--1344047 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
1343953 AGGCTTTTAG
* *
1343963 CCCAACAAATGGTATCAGAGCTGTGATGTTT
1 CCCAACAAGTGGTATCAGAGCTGTGATGTTC
*
1343994 CCCAACAAGTGGTATCAGAGCTGTGGTGTTC
1 CCCAACAAGTGGTATCAGAGCTGTGATGTTC
1344025 CCCAACAAGTGGTATCAGAGCTG
1 CCCAACAAGTGGTATCAGAGCTG
1344048 AAGGTTCGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (31 bp):
CCCAACAAGTGGTATCAGAGCTGTGATGTTC
Found at i:1344118 original size:25 final size:24
Alignment explanation
Indices: 1344090--1344166 Score: 75
Period size: 25 Copynumber: 3.2 Consensus size: 24
1344080 AAGATGTGGA
1344090 AAGAGCTAATGGTTCGAGACATGGG
1 AAGAG-TAATGGTTCGAGACATGGG
** *
1344115 AAGAGTTAACAGTTCGAGATATGGG
1 AAGAG-TAATGGTTCGAGACATGGG
* **
1344140 AAGAGT-TTGGTTTAAGACATGGG
1 AAGAGTAATGGTTCGAGACATGGG
1344163 AAGA
1 AAGA
1344167 AATAAGCTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
23 15 0.36
24 1 0.02
25 26 0.62
ACGTcount: A:0.35, C:0.08, G:0.34, T:0.23
Consensus pattern (24 bp):
AAGAGTAATGGTTCGAGACATGGG
Found at i:1344144 original size:50 final size:50
Alignment explanation
Indices: 1344041--1344166 Score: 116
Period size: 50 Copynumber: 2.6 Consensus size: 50
1344031 AAGTGGTATC
* * * * *
1344041 AGAGCTGAA-GGTTCGAAACATGAGAAGAGTTGAAGATTTAAGATGTGGAA
1 AGAGCT-AATGGTTCGAGACATGGGAAGAGTTAAAGATTCAAGATATGGAA
* *
1344091 AGAGCTAATGGTTCGAGACATGGGAAGAGTTAACAG-TTCGAGATATGGGA
1 AGAGCTAATGGTTCGAGACATGGGAAGAGTTAA-AGATTCAAGATATGGAA
* **
1344141 AGAG-T-TTGGTTTAAGACATGGGAAGA
1 AGAGCTAATGGTTCGAGACATGGGAAGA
1344167 AATAAGCTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
48 18 0.28
49 3 0.05
50 41 0.64
51 2 0.03
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.23
Consensus pattern (50 bp):
AGAGCTAATGGTTCGAGACATGGGAAGAGTTAAAGATTCAAGATATGGAA
Found at i:1344395 original size:11 final size:11
Alignment explanation
Indices: 1344379--1344409 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1344369 AATCTCATAA
1344379 GAGATTTGTTT
1 GAGATTTGTTT
1344390 GAGATTTGTTT
1 GAGATTTGTTT
*
1344401 GGGATTTGT
1 GAGATTTGT
1344410 CAGATATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:1344517 original size:47 final size:48
Alignment explanation
Indices: 1344444--1344582 Score: 147
Period size: 49 Copynumber: 2.9 Consensus size: 48
1344434 GACTTGCAAA
* * *
1344444 AGAAGAATTC-CAAGGGAAAGAGGATTCTTAATAGGTAAGTTTGAC-AG
1 AGAAGAATTCTAAAAGGAAAGA-GATTCTTAATAGGTAAGTTTGACTAC
*
1344491 AGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGTAAGTTTAACTTAC
1 AGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGTAAGTTTGAC-TAC
* * * * * * *
1344540 AGGAGAATTTTAAGAGGAGAGGGATTCTTAATGGGCAAGTTTG
1 AGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGTAAGTTTG
1344583 TATGGTTATA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
47 32 0.42
48 9 0.12
49 36 0.47
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (48 bp):
AGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGTAAGTTTGACTAC
Found at i:1345111 original size:31 final size:31
Alignment explanation
Indices: 1345068--1345138 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
1345058 GGCTTTTAGC
*
1345068 CCAACAAATGGTATCAGAGCTGTGATGTT-T
1 CCAACAAATGGTATCAGAACTGTGATGTTCT
* *
1345098 CTCAACAAGTGGTATCAGAACTGTGGTGTTCT
1 C-CAACAAATGGTATCAGAACTGTGATGTTCT
1345130 CCAACAAAT
1 CCAACAAAT
1345139 ACTTCAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.03
31 32 0.91
32 2 0.06
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (31 bp):
CCAACAAATGGTATCAGAACTGTGATGTTCT
Found at i:1345412 original size:33 final size:33
Alignment explanation
Indices: 1345375--1345458 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
1345365 CAATAGATTC
* * *
1345375 AAAATTAATAAAATATTTTTTAAATATAAAAAT
1 AAAAATAATAAAATATTATATAAATATAAAAAT
* *
1345408 -AAAATAATTTAAATATTATATAAATATAAAATT
1 AAAAATAA-TAAAATATTATATAAATATAAAAAT
1345441 AAATAAATAATAAAATAT
1 -AA-AAATAATAAAATAT
1345459 ATGTACCGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
32 6 0.15
33 21 0.51
35 8 0.20
36 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (33 bp):
AAAAATAATAAAATATTATATAAATATAAAAAT
Found at i:1345441 original size:16 final size:16
Alignment explanation
Indices: 1345395--1345460 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
1345385 AAATATTTTT
*
1345395 TAAATATAAAAATA-A
1 TAAATATAAAATTATA
* *
1345410 AATAATTTAAATATTATA
1 TA-AATATAAA-ATTATA
*
1345428 TAAATATAAAATTAAA
1 TAAATATAAAATTATA
1345444 TAAATAATAAAA-TATA
1 TAAAT-ATAAAATTATA
1345460 T
1 T
1345461 GTACCGAGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
15 1 0.03
16 21 0.52
17 16 0.40
18 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAATATAAAATTATA
Found at i:1345447 original size:27 final size:27
Alignment explanation
Indices: 1345398--1345449 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1345388 TATTTTTTAA
*
1345398 ATATAAAAATAAAATAATTTAAATATT
1 ATATAAAAATAAAATAATATAAATATT
*
1345425 ATATAAATATAAAATTAA-ATAAATA
1 ATATAAAAATAAAA-TAATATAAATA
1345450 ATAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
ATATAAAAATAAAATAATATAAATATT
Found at i:1346699 original size:11 final size:10
Alignment explanation
Indices: 1346675--1346709 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
1346665 GAATTATATC
1346675 TTTTTATTAA
1 TTTTTATTAA
1346685 TTTTTATTAA
1 TTTTTATTAA
1346695 -TTTT-TTAA
1 TTTTTATTAA
1346703 TTTTTAT
1 TTTTTAT
1346710 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.17
9 8 0.35
10 11 0.48
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTATTAA
Found at i:1355585 original size:27 final size:27
Alignment explanation
Indices: 1355522--1355590 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
1355512 TTTAAATTTT
*
1355522 ATTT-AATTTTAAAATATATTTTAAAA
1 ATTTAAATTTTAAAATAAATTTTAAAA
* *
1355548 AATTAATATTTTAATATAAATTTTAAAA
1 ATTTAA-ATTTTAAAATAAATTTTAAAA
1355576 ATTTAAATTTATAAA
1 ATTTAAATTT-TAAA
1355591 TTTAACTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.09
27 5 0.14
28 27 0.77
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTAAATTTTAAAATAAATTTTAAAA
Found at i:1355591 original size:14 final size:15
Alignment explanation
Indices: 1355539--1355595 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 15
1355529 TTTAAAATAT
*
1355539 ATTTTAAAAAATTAA
1 ATTTTAAAAATTTAA
*
1355554 TATTTT---AATATAA
1 -ATTTTAAAAATTTAA
1355567 ATTTTAAAAATTTAA
1 ATTTTAAAAATTTAA
*
1355582 A-TTTATAAATTTAA
1 ATTTTAAAAATTTAA
1355596 CTGATTGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 5 0.15
13 5 0.15
14 12 0.35
15 7 0.21
16 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTAAAAATTTAA
Found at i:1365419 original size:22 final size:23
Alignment explanation
Indices: 1365363--1365420 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
1365353 AAAAAATAAC
1365363 AAAAAATAATTTTAAAATATTAA
1 AAAAAATAATTTTAAAATATTAA
* * *
1365386 AAGTAAA-GATTTT-ATATATTAA
1 AA-AAAATAATTTTAAAATATTAA
1365408 AAAAAATAATTTT
1 AAAAAATAATTTT
1365421 GAGATATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.11
22 15 0.54
23 7 0.25
24 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (23 bp):
AAAAAATAATTTTAAAATATTAA
Found at i:1366095 original size:18 final size:19
Alignment explanation
Indices: 1366056--1366098 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
1366046 AATTTTTATT
*
1366056 TATAAAAATTTAAAATATA
1 TATAAAAATTTAAAATAAA
1366075 TATAAAAA-TTAATAA-AAA
1 TATAAAAATTTAA-AATAAA
1366093 TATAAA
1 TATAAA
1366099 TTTGATTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATTTAAAATAAA
Found at i:1366247 original size:8 final size:9
Alignment explanation
Indices: 1366228--1366259 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
1366218 TTTAAATTAA
*
1366228 TTTTAAATT
1 TTTTTAATT
1366237 TTTTTAATT
1 TTTTTAATT
1366246 TTTTTAATT
1 TTTTTAATT
1366255 TTTTT
1 TTTTT
1366260 CTCGACCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTAATT
Found at i:1366793 original size:20 final size:20
Alignment explanation
Indices: 1366768--1366811 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1366758 TTTTTTATTA
1366768 AAAATAAGTAAATAA-AAATT
1 AAAATAA-TAAATAATAAATT
1366788 AAAATAATAAATAATAAATT
1 AAAATAATAAATAATAAATT
1366808 AAAA
1 AAAA
1366812 ATTTTCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAATAATAAATAATAAATT
Found at i:1366961 original size:13 final size:12
Alignment explanation
Indices: 1366935--1366959 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1366925 ATTTAAATTA
1366935 TAAATAATTTTT
1 TAAATAATTTTT
1366947 TAAATAATTTTT
1 TAAATAATTTTT
1366959 T
1 T
1366960 TACATATTAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAAATAATTTTT
Found at i:1370462 original size:18 final size:18
Alignment explanation
Indices: 1370412--1370462 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 18
1370402 AATTCACACA
1370412 TATATATATATTTATATAAT
1 TATATATA-ATTTAT-TAAT
1370432 TATA-AT-A-TT-TTAAT
1 TATATATAATTTATTAAT
1370446 TATATATAATTTATTAA
1 TATATATAATTTATTAA
1370463 GATTGAACCG
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
14 8 0.30
15 3 0.11
16 3 0.11
17 3 0.11
18 4 0.15
19 2 0.07
20 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATATAATTTATTAAT
Found at i:1380749 original size:9 final size:9
Alignment explanation
Indices: 1380735--1380768 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
1380725 AATTTTAAAA
1380735 TTTATTATT
1 TTTATTATT
1380744 TTTATTATT
1 TTTATTATT
1380753 TTTA-TATT
1 TTTATTATT
1380761 TTT-TTATT
1 TTTATTATT
1380769 ATATTATCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 11 0.46
9 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTATT
Found at i:1380859 original size:23 final size:22
Alignment explanation
Indices: 1380825--1380869 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
1380815 TACTCATTTA
1380825 TTTTTTTCATTGATTGATTTTT
1 TTTTTTTCATTGATTGATTTTT
*
1380847 TTTTCTTTCATTGGTTGATTTTT
1 TTTT-TTTCATTGATTGATTTTT
1380870 GGAGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.11, C:0.07, G:0.11, T:0.71
Consensus pattern (22 bp):
TTTTTTTCATTGATTGATTTTT
Found at i:1381058 original size:22 final size:22
Alignment explanation
Indices: 1381014--1381058 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1381004 AATTTTTTTT
*
1381014 ATTTTTATAAAATTTATAGATA
1 ATTTTTATAAAATTTATAAATA
1381036 ATTTTTATTAAAATTT-TAAATA
1 ATTTTTA-TAAAATTTATAAATA
1381058 A
1 A
1381059 AAATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTTTATAAAATTTATAAATA
Found at i:1384523 original size:8 final size:8
Alignment explanation
Indices: 1384506--1384546 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1384496 TGGATTAAAA
1384506 ATTATTTT
1 ATTATTTT
*
1384514 ATTATCTT
1 ATTATTTT
1384522 ATT-TTTT
1 ATTATTTT
*
1384529 AATATTTT
1 ATTATTTT
1384537 ATTATTTT
1 ATTATTTT
1384545 AT
1 AT
1384547 ACATATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (8 bp):
ATTATTTT
Found at i:1384528 original size:15 final size:16
Alignment explanation
Indices: 1384506--1384546 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
1384496 TGGATTAAAA
1384506 ATTATTTTATTATCTT
1 ATTATTTTATTATCTT
* *
1384522 ATT-TTTTAATATTTT
1 ATTATTTTATTATCTT
1384537 ATTATTTTAT
1 ATTATTTTAT
1384547 ACATATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTATTTTATTATCTT
Found at i:1384541 original size:18 final size:19
Alignment explanation
Indices: 1384520--1384555 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1384510 TTTTATTATC
*
1384520 TTATTTTTTA-ATATTTTA
1 TTATTTTATACATATTTTA
1384538 TTATTTTATACATATTTT
1 TTATTTTATACATATTTT
1384556 TTTAGATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATTTTATACATATTTTA
Found at i:1384542 original size:31 final size:31
Alignment explanation
Indices: 1384506--1384567 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
1384496 TGGATTAAAA
*
1384506 ATTATTTTATTATCTTA-TTTTTTA-ATATTTT
1 ATTATTTTA-TA-CATATTTTTTTAGATATTTT
1384537 ATTATTTTATACATATTTTTTTAGATATTTT
1 ATTATTTTATACATATTTTTTTAGATATTTT
1384568 TAATTACTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 3 0.11
30 9 0.32
31 16 0.57
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (31 bp):
ATTATTTTATACATATTTTTTTAGATATTTT
Found at i:1389052 original size:42 final size:42
Alignment explanation
Indices: 1388993--1389075 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
1388983 TTTACAATAT
* *
1388993 TCAAAGAGTTAGGAAGAAATTAGATTCTAGTGGGAACCATAG
1 TCAAAGAGCTAGGAAGAAACTAGATTCTAGTGGGAACCATAG
1389035 TCAAAGAGCTAGGAAGAAACTAGATTCTAGTGGGAACCATA
1 TCAAAGAGCTAGGAAGAAACTAGATTCTAGTGGGAACCATA
1389076 ATTTTAATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (42 bp):
TCAAAGAGCTAGGAAGAAACTAGATTCTAGTGGGAACCATAG
Found at i:1391573 original size:23 final size:23
Alignment explanation
Indices: 1391543--1391588 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1391533 GTAGGCCATC
1391543 AACATGGTTCATTTGCTTTATTA
1 AACATGGTTCATTTGCTTTATTA
*
1391566 AACATGGTTCATTTGTTTTATTA
1 AACATGGTTCATTTGCTTTATTA
1391589 TTTAAGGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (23 bp):
AACATGGTTCATTTGCTTTATTA
Found at i:1398929 original size:16 final size:16
Alignment explanation
Indices: 1398908--1398940 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1398898 TAGAACTAAA
1398908 ATGTATTACTAATAAT
1 ATGTATTACTAATAAT
*
1398924 ATGTATTACTGATAAT
1 ATGTATTACTAATAAT
1398940 A
1 A
1398941 AGTTATCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (16 bp):
ATGTATTACTAATAAT
Found at i:1404889 original size:30 final size:27
Alignment explanation
Indices: 1404833--1404905 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 27
1404823 TACCCTCAGG
*
1404833 CCTCAACATCGATGTTATGCTCAGTAC
1 CCTCAACATCGACGTTATGCTCAGTAC
1404860 CCTCAACATCGACGTTATGCTCATCAGTAC
1 CCTCAACATCGACGTTATG--C-TCAGTAC
1404890 CCTC-ACTATCGACGTT
1 CCTCAAC-ATCGACGTT
1404906 TATATTATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 18 0.44
29 3 0.07
30 20 0.49
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
CCTCAACATCGACGTTATGCTCAGTAC
Found at i:1412217 original size:21 final size:20
Alignment explanation
Indices: 1412191--1412230 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
1412181 TTATGGATTT
1412191 AATTT-AATTTATTAATTTTTA
1 AATTTAAATTTA--AATTTTTA
1412212 AATTTAAATTTAAATTTTT
1 AATTTAAATTTAAATTTTT
1412231 GTATATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTAAATTTAAATTTTTA
Found at i:1416704 original size:22 final size:22
Alignment explanation
Indices: 1416676--1416720 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1416666 AATGAAAAGA
*
1416676 AAACATTGTG-GTTGATAGCATT
1 AAACATTG-GCGTTGACAGCATT
1416698 AAACATTGGCGTTGACAGCATT
1 AAACATTGGCGTTGACAGCATT
1416720 A
1 A
1416721 CTACGAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (22 bp):
AAACATTGGCGTTGACAGCATT
Found at i:1421369 original size:24 final size:24
Alignment explanation
Indices: 1421341--1421392 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1421331 TTTCAAATCA
* * *
1421341 TATTATCTTTGTATC-TTTCATTCG
1 TATTATATTTATATCGTATCATT-G
1421365 TATTATATTTATATCGTATCATTG
1 TATTATATTTATATCGTATCATTG
1421389 TATT
1 TATT
1421393 GTTTTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.58
Consensus pattern (24 bp):
TATTATATTTATATCGTATCATTG
Found at i:1422407 original size:150 final size:150
Alignment explanation
Indices: 1422136--1422427 Score: 469
Period size: 150 Copynumber: 1.9 Consensus size: 150
1422126 GCCCAGCCAA
1422136 TCAAGGCCTCAGACAACAAACAGTTCAATGAAGACAGAGTTCAATCATGATTCAGTTGACATTGA
1 TCAAGGCCTCAGACAACAAACAGTTCAATGAAGACAGAGTTCAATCATGATTCAGTTGACATTGA
1422201 TATCCAAAATATCAAAAAAAACCGAATACAACATCCAAGCTACCAAAAGGAAGGATTAGCAATGG
66 TATCCAAAATATCAAAAAAAACCGAATACAACATCCAAGCTACCAAAAGGAAGGATTAGCAATGG
1422266 AATGGAAATCGAAACTCAAC
131 AATGGAAATCGAAACTCAAC
* * * *
1422286 TCAAGGCCTCAGGCAACAAACAGTTCATTGAATACAGAGTTCAATTATGATTTCAGTTGACATTG
1 TCAAGGCCTCAGACAACAAACAGTTCAATGAAGACAGAGTTCAATCATGA-TTCAGTTGACATTG
* * ** * *
1422351 ATATCCAACATATC-GAAAAAATTGAGTACAATATCCAAGCTACCAAAAGGAAGGATTAGCAATG
65 ATATCCAAAATATCAAAAAAAACCGAATACAACATCCAAGCTACCAAAAGGAAGGATTAGCAATG
*
1422415 GAATGGAAGTCGA
130 GAATGGAAATCGA
1422428 CAAGCAAAAG
Statistics
Matches: 130, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
150 103 0.79
151 27 0.21
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.21
Consensus pattern (150 bp):
TCAAGGCCTCAGACAACAAACAGTTCAATGAAGACAGAGTTCAATCATGATTCAGTTGACATTGA
TATCCAAAATATCAAAAAAAACCGAATACAACATCCAAGCTACCAAAAGGAAGGATTAGCAATGG
AATGGAAATCGAAACTCAAC
Found at i:1424383 original size:21 final size:24
Alignment explanation
Indices: 1424359--1424407 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 24
1424349 ATTAATTTTT
*
1424359 TATTTTACA-TTTAAATT-T-AAA
1 TATTTTAAATTTTAAATTATCAAA
*
1424380 TATTTA-AATTTTAAATTATCAAA
1 TATTTTAAATTTTAAATTATCAAA
1424403 TATTT
1 TATTT
1424408 AAAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 13 0.57
22 1 0.04
23 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
TATTTTAAATTTTAAATTATCAAA
Found at i:1424384 original size:14 final size:15
Alignment explanation
Indices: 1424367--1424395 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1424357 TTTATTTTAC
1424367 ATTTAAA-TTTAAAT
1 ATTTAAATTTTAAAT
1424381 ATTTAAATTTTAAAT
1 ATTTAAATTTTAAAT
1424396 TATCAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTAAATTTTAAAT
Found at i:1425173 original size:10 final size:10
Alignment explanation
Indices: 1425160--1425194 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
1425150 TTAAATTGTA
1425160 TTATATATTT
1 TTATATATTT
1425170 TTAT-TAATTT
1 TTATAT-ATTT
1425180 TTATATATTT
1 TTATATATTT
1425190 TTATA
1 TTATA
1425195 AATAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 1 0.04
10 21 0.91
11 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATATATTT
Found at i:1427020 original size:15 final size:14
Alignment explanation
Indices: 1426971--1427032 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
1426961 TCAACGAAAA
1426971 TAAAATAATTTAAT
1 TAAAATAATTTAAT
* * *
1426985 TTAATTAATTATATT
1 TAAAATAATT-TAAT
*
1427000 TTAAATAATTTAAT
1 TAAAATAATTTAAT
*
1427014 TCAAAATTAATTGAAT
1 T-AAAA-TAATTTAAT
1427030 TAA
1 TAA
1427033 CTAAATAAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
14 12 0.32
15 17 0.45
16 9 0.24
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
TAAAATAATTTAAT
Found at i:1427952 original size:11 final size:11
Alignment explanation
Indices: 1427935--1428023 Score: 65
Period size: 11 Copynumber: 7.6 Consensus size: 11
1427925 CAAAATAATT
1427935 AAATATAAATA
1 AAATATAAATA
*
1427946 CAATATAAATAA
1 AAATATAAAT-A
1427958 AAATATAAA-A
1 AAATATAAATA
*
1427968 ATAATATAATTTA
1 A-AATATAA-ATA
*
1427981 AAATATTAATA
1 AAATATAAATA
*
1427992 ATATATAAATTTA
1 AAATATAAA--TA
1428005 ATAATATTAAA-A
1 A-AATA-TAAATA
1428017 AAATATA
1 AAATATA
1428024 TTTTTTATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
10 4 0.06
11 29 0.47
12 17 0.27
13 5 0.08
14 3 0.05
15 4 0.06
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATATAAATA
Found at i:1427965 original size:23 final size:23
Alignment explanation
Indices: 1427917--1428001 Score: 75
Period size: 23 Copynumber: 3.7 Consensus size: 23
1427907 TAATAATTTA
*
1427917 AAATACAACA-AAATAATTAAATAT
1 AAATACAATATAAATAA--AAATAT
1427941 AAATACAATATAAATAAAAATAT
1 AAATACAATATAAATAAAAATAT
* * * *
1427964 AAAAATAATATAATTTAAAATAT
1 AAATACAATATAAATAAAAATAT
*
1427987 TAATA-ATATATAAAT
1 AAATACA-ATATAAAT
1428002 TTAATAATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 1 0.02
23 35 0.69
24 9 0.18
25 6 0.12
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATACAATATAAATAAAAATAT
Found at i:1427969 original size:25 final size:24
Alignment explanation
Indices: 1427901--1427986 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 24
1427891 ACATAATAAT
* *
1427901 TAAATATAATAATTTAAAATACAACA
1 TAAATA-AA-AATATAAAATACAATA
1427927 -AAATAATTAAATAT-AAATACAATA
1 TAAATAA--AAATATAAAATACAATA
*
1427951 TAAATAAAAATATAAAA-ATAATA
1 TAAATAAAAATATAAAATACAATA
* *
1427974 TAATTTAAAATAT
1 TAAATAAAAATAT
1427987 TAATAATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
23 22 0.43
24 13 0.25
25 15 0.29
26 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAATAAAAATATAAAATACAATA
Found at i:1427992 original size:16 final size:15
Alignment explanation
Indices: 1427973--1428016 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
1427963 TAAAAATAAT
1427973 ATAATTTAAAATATTA
1 ATAATTTAAAAT-TTA
*
1427989 ATAATATATAAATTTA
1 ATAATTTA-AAATTTA
1428005 ATAATATTAAAA
1 ATAAT-TTAAAA
1428017 AAATATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATTTAAAATTTA
Found at i:1428086 original size:12 final size:12
Alignment explanation
Indices: 1428069--1428093 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1428059 TATAATTTTT
1428069 ATATAATATATA
1 ATATAATATATA
1428081 ATATAATATATA
1 ATATAATATATA
1428093 A
1 A
1428094 ATTTTAATAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATAATATATA
Found at i:1428088 original size:30 final size:31
Alignment explanation
Indices: 1428032--1428099 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
1428022 TATTTTTTAT
1428032 ATTTTTATATCAATACAAATTATAATATATA
1 ATTTTTATATCAATACAAATTATAATATATA
*
1428063 ATTTTTATAT-AATATATAA-TATAATATATA
1 ATTTTTATATCAATACA-AATTATAATATATA
*
1428093 AATTTTA
1 ATTTTTA
1428100 ATATTTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 22 0.65
31 12 0.35
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (31 bp):
ATTTTTATATCAATACAAATTATAATATATA
Found at i:1428109 original size:24 final size:24
Alignment explanation
Indices: 1428082--1428129 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1428072 TAATATATAA
1428082 TATAATATATAAATT-TTAATATTT
1 TATAATATATAAATTATTAA-ATTT
*
1428106 TATACTATATAAATTATTAAATTT
1 TATAATATATAAATTATTAAATTT
1428130 AACACAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TATAATATATAAATTATTAAATTT
Found at i:1428203 original size:2 final size:2
Alignment explanation
Indices: 1428196--1428240 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
1428186 AAATAAATTC
*
1428196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1428238 AT A
1 AT A
1428241 CCTTTTTCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1428351 original size:29 final size:27
Alignment explanation
Indices: 1428285--1428352 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 27
1428275 GGACCCAAAA
*
1428285 ATTAA-AAAAATTAATAAAAAAATAAT
1 ATTAACAAAAATAAATAAAAAAATAAT
*
1428311 -TCATACAGAAAATAAAATAAAATAAATAAT
1 ATTA-ACA-AAAAT-AAATAAAA-AAATAAT
1428341 ATTAACAAAAAT
1 ATTAACAAAAAT
1428353 TATAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
25 2 0.06
26 1 0.03
27 1 0.03
28 5 0.15
29 12 0.36
30 10 0.30
31 2 0.06
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (27 bp):
ATTAACAAAAATAAATAAAAAAATAAT
Found at i:1430099 original size:13 final size:13
Alignment explanation
Indices: 1430081--1430105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1430071 AGTAAGAGCA
1430081 AGAAAATAAAAAG
1 AGAAAATAAAAAG
1430094 AGAAAATAAAAA
1 AGAAAATAAAAA
1430106 ATCTATTCAA
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:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AGAAAATAAAAAG
Found at i:1431134 original size:27 final size:29
Alignment explanation
Indices: 1431077--1431146 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 29
1431067 TAATATATAA
* *
1431077 AAATAAATATATTATAATAAAATAAATAT
1 AAATAAATATATTAAAATAAAATAAAGAT
* *
1431106 AAATAAAT-T-TTAAAATAAGATTAAGAT
1 AAATAAATATATTAAAATAAAATAAAGAT
* *
1431133 AAAAAAATAAATTA
1 AAATAAATATATTA
1431147 TTATTATTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 21 0.64
28 1 0.03
29 11 0.33
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (29 bp):
AAATAAATATATTAAAATAAAATAAAGAT
Found at i:1431866 original size:210 final size:210
Alignment explanation
Indices: 1431504--1431929 Score: 780
Period size: 210 Copynumber: 2.0 Consensus size: 210
1431494 CAGAGAACTT
*
1431504 GGTAGTCATAAGATGCTTGATGCCATGGAAAGCTAGTCCTTAACCTCCCATAGATATCAATATGT
1 GGTAGTCATAAGATGCTTGATGCCATGGAAAGCAAGTCCTTAACCTCCCATAGATATCAATATGT
* * *
1431569 TTTCCAGGCAACCTTCAAGAAATCTTGTGGTTGAACCTAGCACTTAGAAGGTTAATTACCATGGA
66 TTTCCAGGCAACCTTCAAGAAATCTCGTGGTTAAACCTAGCACTTACAAGGTTAATTACCATGGA
* *
1431634 AAGGACATAGGCTATAAAGGAAGTTATGCAGCATCCATCAACTGGAAATTCATCAAATTTGCATG
131 AAAGACATAGGCTATAAAGGAAGTTATGCAGCATCCATCAACTGGAAATTCATCAAAATTGCATG
1431699 GCAAAATACATAATG
196 GCAAAATACATAATG
*
1431714 GGTAGTCATAAGATGCTTGATGCCATGGAAAGCAAGTCCTTAACCTCCCATAGATATCAATGTGT
1 GGTAGTCATAAGATGCTTGATGCCATGGAAAGCAAGTCCTTAACCTCCCATAGATATCAATATGT
1431779 TTTCCAGGCAACCTTCAAGAAATCTCGTGGTTAAACCTAGCACTTACAAGGTTAATTACCATGGA
66 TTTCCAGGCAACCTTCAAGAAATCTCGTGGTTAAACCTAGCACTTACAAGGTTAATTACCATGGA
1431844 AAAGACATAGGCTATAAAGGAAGTTATGCAGCATCCATCAACTGGAAATTCATCAAAATTGCATG
131 AAAGACATAGGCTATAAAGGAAGTTATGCAGCATCCATCAACTGGAAATTCATCAAAATTGCATG
*
1431909 GCAAGATACATAATG
196 GCAAAATACATAATG
1431924 GGTAGT
1 GGTAGT
1431930 TCATGATTAA
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
210 208 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (210 bp):
GGTAGTCATAAGATGCTTGATGCCATGGAAAGCAAGTCCTTAACCTCCCATAGATATCAATATGT
TTTCCAGGCAACCTTCAAGAAATCTCGTGGTTAAACCTAGCACTTACAAGGTTAATTACCATGGA
AAAGACATAGGCTATAAAGGAAGTTATGCAGCATCCATCAACTGGAAATTCATCAAAATTGCATG
GCAAAATACATAATG
Found at i:1436384 original size:19 final size:18
Alignment explanation
Indices: 1436352--1436404 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
1436342 ATAGTAAAAA
1436352 ATTTGAGTTTGAGTTTAAT
1 ATTTGA-TTTGAGTTTAAT
* *
1436371 TTTTGATTTGGAGTTTGAT
1 ATTTGATTT-GAGTTTAAT
*
1436390 ATTCGATTTGAGTTT
1 ATTTGATTTGAGTTT
1436405 GATTGAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.55
Consensus pattern (18 bp):
ATTTGATTTGAGTTTAAT
Found at i:1436404 original size:18 final size:18
Alignment explanation
Indices: 1436359--1436407 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
1436349 AAAATTTGAG
* * *
1436359 TTTGAGTTTAATTTTTGA
1 TTTGAGTTTGATATTCGA
1436377 TTTGGAGTTTGATATTCGA
1 TTT-GAGTTTGATATTCGA
1436396 TTTGAGTTTGAT
1 TTTGAGTTTGAT
1436408 TGAATTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.55
Consensus pattern (18 bp):
TTTGAGTTTGATATTCGA
Found at i:1443312 original size:21 final size:18
Alignment explanation
Indices: 1443282--1443320 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 18
1443272 AAGAACAAAA
1443282 AAATAAGTAAATAATAAATC
1 AAATAAGTAAA-AA-AAATC
1443302 AAATACAGTAAAAAAAATC
1 AAATA-AGTAAAAAAAATC
1443321 CAAAACTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 7 0.39
21 6 0.33
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAGTAAAAAAAATC
Found at i:1444190 original size:13 final size:13
Alignment explanation
Indices: 1444172--1444212 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
1444162 TCATCCTTTT
*
1444172 TTATTTTTATATA
1 TTATTTTAATATA
1444185 TTATTTTAATATA
1 TTATTTTAATATA
**
1444198 CAATTTTAATATA
1 TTATTTTAATATA
1444211 TT
1 TT
1444213 TAATTTATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTTTAATATA
Found at i:1444269 original size:17 final size:19
Alignment explanation
Indices: 1444249--1444292 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
1444239 ATTTTCATTT
1444249 TATAAAAATT-T-AAAATA
1 TATAAAAATTATAAAAATA
1444266 TATAAAAAATTAATAAAAATA
1 TAT-AAAAATT-ATAAAAATA
1444287 TATAAA
1 TATAAA
1444293 TCGATTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.13
18 7 0.30
20 4 0.17
21 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAAAATTATAAAAATA
Found at i:1452570 original size:51 final size:51
Alignment explanation
Indices: 1452513--1452720 Score: 371
Period size: 51 Copynumber: 4.1 Consensus size: 51
1452503 GTGTGGGTAC
*
1452513 CCATATCCCCCTGGTGGAGCGTAATCATATACTGGAGGTGGAGGTGGGCAG
1 CCATATCCCCCTGGTGGAGCGTAACCATATACTGGAGGTGGAGGTGGGCAG
*
1452564 CTATATCCCCCTGGTGGAGCGTAACCATATACTGGAGGTGGAGGTGGGCAG
1 CCATATCCCCCTGGTGGAGCGTAACCATATACTGGAGGTGGAGGTGGGCAG
1452615 CCATATCCCCCTGGTGGAGCGTAACCATATACTGGAGGTGGAGGTGGGCAG
1 CCATATCCCCCTGGTGGAGCGTAACCATATACTGGAGGTGGAGGTGGGCAG
* * *
1452666 CCATATCCCCCTGGTGGAGCGTAACCATATACTGGAGATGGAGTTAGGCAG
1 CCATATCCCCCTGGTGGAGCGTAACCATATACTGGAGGTGGAGGTGGGCAG
1452717 CCAT
1 CCAT
1452721 GGCATGGTGG
Statistics
Matches: 151, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 151 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (51 bp):
CCATATCCCCCTGGTGGAGCGTAACCATATACTGGAGGTGGAGGTGGGCAG
Found at i:1452603 original size:24 final size:24
Alignment explanation
Indices: 1452576--1452657 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
1452566 ATATCCCCCT
1452576 GGTGGAGCGTAACCATATACTGGA
1 GGTGGAGCGTAACCATATACTGGA
* * ****
1452600 GGTGGAG-GTGGGCAGCCATATCCCCCT
1 GGTGGAGCGT----AACCATATACTGGA
1452627 GGTGGAGCGTAACCATATACTGGA
1 GGTGGAGCGTAACCATATACTGGA
1452651 GGTGGAG
1 GGTGGAG
1452658 GTGGGCAGCC
Statistics
Matches: 41, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
23 2 0.05
24 22 0.54
27 15 0.37
28 2 0.05
ACGTcount: A:0.23, C:0.20, G:0.38, T:0.20
Consensus pattern (24 bp):
GGTGGAGCGTAACCATATACTGGA
Found at i:1452630 original size:27 final size:27
Alignment explanation
Indices: 1452549--1452684 Score: 81
Period size: 27 Copynumber: 5.3 Consensus size: 27
1452539 ATATACTGGA
*
1452549 GGTGGAGGTGGGCAGCTATATCCCCCT
1 GGTGGAGGTGGGCAGCCATATCCCCCT
* * ****
1452576 GGTGGAGCGT----AACCATATACTGGA
1 GGTGGAG-GTGGGCAGCCATATCCCCCT
1452600 GGTGGAGGTGGGCAGCCATATCCCCCT
1 GGTGGAGGTGGGCAGCCATATCCCCCT
* * ****
1452627 GGTGGAGCGT----AACCATATACTGGA
1 GGTGGAG-GTGGGCAGCCATATCCCCCT
1452651 GGTGGAGGTGGGCAGCCATATCCCCCT
1 GGTGGAGGTGGGCAGCCATATCCCCCT
1452678 GGTGGAG
1 GGTGGAG
1452685 CGTAACCATA
Statistics
Matches: 74, Mismatches: 25, Indels: 20
0.62 0.21 0.17
Matches are distributed among these distances:
23 4 0.05
24 29 0.39
27 37 0.50
28 4 0.05
ACGTcount: A:0.20, C:0.23, G:0.38, T:0.20
Consensus pattern (27 bp):
GGTGGAGGTGGGCAGCCATATCCCCCT
Found at i:1452694 original size:24 final size:24
Alignment explanation
Indices: 1452566--1452695 Score: 66
Period size: 24 Copynumber: 5.2 Consensus size: 24
1452556 GTGGGCAGCT
1452566 ATATCCCCCTGGTGGAGCGTAACC
1 ATATCCCCCTGGTGGAGCGTAACC
* **** *
1452590 ATATACTGGAGGTGGAG-GTGGGCAGCC
1 ATATCCCCCTGGTGGAGCGT----AACC
1452617 ATATCCCCCTGGTGGAGCGTAACC
1 ATATCCCCCTGGTGGAGCGTAACC
* **** *
1452641 ATATACTGGAGGTGGAG-GTGGGCAGCC
1 ATATCCCCCTGGTGGAGCGT----AACC
1452668 ATATCCCCCTGGTGGAGCGTAACC
1 ATATCCCCCTGGTGGAGCGTAACC
1452692 ATAT
1 ATAT
1452696 ACTGGAGATG
Statistics
Matches: 72, Mismatches: 24, Indels: 20
0.62 0.21 0.17
Matches are distributed among these distances:
23 4 0.06
24 34 0.47
27 30 0.42
28 4 0.06
ACGTcount: A:0.22, C:0.25, G:0.32, T:0.21
Consensus pattern (24 bp):
ATATCCCCCTGGTGGAGCGTAACC
Found at i:1456847 original size:25 final size:24
Alignment explanation
Indices: 1456810--1456890 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 24
1456800 TTTTAAAAAA
1456810 TTTAAAAAATTTTAATATAATTTTT
1 TTTAAAAAATTTTAATAT-ATTTTT
** **
1456835 TTTAAAATTTTTTTTTATTATTTTGT
1 TTTAAAAAATTTTAATA-TATTTT-T
*
1456861 TTAAAAAAATTTTAAT-TATTTTT
1 TTTAAAAAATTTTAATATATTTTT
1456884 TTTAAAA
1 TTTAAAA
1456891 TAATACATAA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
23 7 0.16
24 6 0.14
25 18 0.41
26 13 0.30
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (24 bp):
TTTAAAAAATTTTAATATATTTTT
Found at i:1460586 original size:2 final size:2
Alignment explanation
Indices: 1460579--1460608 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1460569 AAAAGGTTGA
1460579 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
1460609 TTGTTAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1463439 original size:22 final size:22
Alignment explanation
Indices: 1463411--1463475 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
1463401 AATAATTATT
1463411 TTATATTTAAATATATTAAAAA
1 TTATATTTAAATATATTAAAAA
*
1463433 TTATATTAAAATA-ATATACAAAA
1 TTATATTTAAATATAT-TA-AAAA
1463456 --A-ATTTAAA-AT-TTAAAAA
1 TTATATTTAAATATATTAAAAA
1463473 TTA
1 TTA
1463476 ATAAATCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
17 4 0.11
18 2 0.06
19 3 0.08
20 6 0.17
21 3 0.08
22 14 0.39
23 4 0.11
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TTATATTTAAATATATTAAAAA
Found at i:1471016 original size:2 final size:2
Alignment explanation
Indices: 1471009--1471036 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1470999 CCTTCCTTAC
1471009 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
1471037 TGCAATGGAT
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):
AT
Found at i:1484061 original size:12 final size:12
Alignment explanation
Indices: 1484046--1484071 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1484036 AGTTGAGCAT
1484046 GTTAATGAGAAA
1 GTTAATGAGAAA
1484058 GTTAATGAGAAA
1 GTTAATGAGAAA
1484070 GT
1 GT
1484072 GTGGTCGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (12 bp):
GTTAATGAGAAA
Found at i:1485376 original size:22 final size:23
Alignment explanation
Indices: 1485351--1485399 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1485341 TTTGATTGAA
* * *
1485351 TTAATTGA-TCATTAAATTAATT
1 TTAATTGATTAATAAAAATAATT
1485373 TTAATTGATTAATAAAAATAATT
1 TTAATTGATTAATAAAAATAATT
1485396 TTAA
1 TTAA
1485400 AAAAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TTAATTGATTAATAAAAATAATT
Found at i:1485436 original size:17 final size:17
Alignment explanation
Indices: 1485416--1485449 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1485406 TTTAATTTTC
* *
1485416 AATTAATTTAATTAAAA
1 AATTAAATTAATCAAAA
1485433 AATTAAATTAATCAAAA
1 AATTAAATTAATCAAAA
1485450 TTTTAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTAAATTAATCAAAA
Found at i:1485557 original size:13 final size:14
Alignment explanation
Indices: 1485541--1485573 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1485531 AATACTTTAA
1485541 TATTTAAAT-ATTT
1 TATTTAAATAATTT
1485554 TA-TTAAATAATTT
1 TATTTAAATAATTT
1485567 TATTTAA
1 TATTTAA
1485574 TTTATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 8 0.44
14 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTTAAATAATTT
Found at i:1485586 original size:21 final size:22
Alignment explanation
Indices: 1485552--1485598 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
1485542 ATTTAAATAT
*
1485552 TTTATTAAATAATTTTATTTAA
1 TTTATTAAATAATTTAATTTAA
*
1485574 TTTATTTAA-AATTTAATTTAA
1 TTTATTAAATAATTTAATTTAA
1485595 TTTA
1 TTTA
1485599 AATATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTATTAAATAATTTAATTTAA
Found at i:1485589 original size:16 final size:17
Alignment explanation
Indices: 1485568--1485600 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1485558 AAATAATTTT
1485568 ATTTAATTT-ATTTAAA
1 ATTTAATTTAATTTAAA
1485584 ATTTAATTTAATTTAAA
1 ATTTAATTTAATTTAAA
1485601 TATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTAATTTAATTTAAA
Found at i:1485749 original size:14 final size:14
Alignment explanation
Indices: 1485705--1485750 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1485695 AATAAAAATA
*
1485705 AAATAATTTAATTT
1 AAATAATTTAATTC
*
1485719 AATTAATTTAATATC
1 AAATAATTTAAT-TC
*
1485734 AAATAATTAAATTC
1 AAATAATTTAATTC
1485748 AAA
1 AAA
1485751 ATTAATCGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATAATTTAATTC
Found at i:1496385 original size:26 final size:26
Alignment explanation
Indices: 1496343--1496411 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
1496333 TATTTAATTC
* * *
1496343 AATTTTTATTAGT-TTTTAAATTTAA
1 AATTATTATTATTATTTTAAATATAA
1496368 AATT-TTATGTATTATTTT-AATATAA
1 AATTATTAT-TATTATTTTAAATATAA
*
1496393 AATTATTATTTTTATTTTA
1 AATTATTATTATTATTTTA
1496412 TAAAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.11
25 25 0.68
26 8 0.22
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (26 bp):
AATTATTATTATTATTTTAAATATAA
Found at i:1498796 original size:35 final size:37
Alignment explanation
Indices: 1498750--1498833 Score: 99
Period size: 35 Copynumber: 2.4 Consensus size: 37
1498740 AAATTTATAA
* *
1498750 ATTTTTAAAATTTTTTTTA-ATTCATATATCC-AAAT
1 ATTTTAAAAATTTTTTATAGATTCATATATCCGAAAT
1498785 ATTTTAAAAA---TTTATAGATTCATATATCCGTAAAT
1 ATTTTAAAAATTTTTTATAGATTCATATATCCG-AAAT
1498820 -TTTTAAAAATTTTT
1 ATTTTAAAAATTTTT
1498834 ATTTCTCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
32 5 0.12
33 12 0.29
34 9 0.22
35 13 0.32
37 2 0.05
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.51
Consensus pattern (37 bp):
ATTTTAAAAATTTTTTATAGATTCATATATCCGAAAT
Found at i:1505998 original size:15 final size:16
Alignment explanation
Indices: 1505973--1506003 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1505963 TTTGTTAGTA
1505973 AATTATTAATTTAATT
1 AATTATTAATTTAATT
1505989 AATT-TTAATTTAATT
1 AATTATTAATTTAATT
1506004 TACGAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTATTAATTTAATT
Found at i:1507689 original size:2 final size:2
Alignment explanation
Indices: 1507682--1507711 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1507672 CGACTAAATA
1507682 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
1507712 TATTTATGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1509306 original size:27 final size:27
Alignment explanation
Indices: 1509265--1509316 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1509255 AAAGGTAAGA
* *
1509265 AGAAGAAGAAAAACAAGAATAAAAAGG
1 AGAAGAACAAAAACAAGAACAAAAAGG
*
1509292 AGAAGAACAAGAACAAGAACAAAAA
1 AGAAGAACAAAAACAAGAACAAAAA
1509317 AAAGAAGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.71, C:0.08, G:0.19, T:0.02
Consensus pattern (27 bp):
AGAAGAACAAAAACAAGAACAAAAAGG
Found at i:1509322 original size:27 final size:27
Alignment explanation
Indices: 1509264--1509323 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
1509254 AAAAGGTAAG
* * *
1509264 AAGAAGAAGAAAAACAAGAATAAAAAG
1 AAGAAGAACAAAAACAAGAACAAAAAA
* *
1509291 GAGAAGAACAAGAACAAGAACAAAAAA
1 AAGAAGAACAAAAACAAGAACAAAAAA
1509318 AAGAAG
1 AAGAAG
1509324 GTTGCTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.72, C:0.07, G:0.20, T:0.02
Consensus pattern (27 bp):
AAGAAGAACAAAAACAAGAACAAAAAA
Found at i:1510391 original size:25 final size:25
Alignment explanation
Indices: 1510347--1510396 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1510337 ATGCATATTA
* *
1510347 TAATAGTTATTTAAATTAATGATTT
1 TAATAGTTATTTAAAATAATAATTT
1510372 TAAT-GTTATTTAAAGATAATAATTT
1 TAATAGTTATTTAAA-ATAATAATTT
1510397 ACAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (25 bp):
TAATAGTTATTTAAAATAATAATTT
Done.