Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 25 of 54
Found at i:10625446 original size:75 final size:73
Alignment explanation
Indices: 10625323--10625470 Score: 278
Period size: 75 Copynumber: 2.0 Consensus size: 73
10625313 AGTGCCAGCC
10625323 AGGTATCCAATGGTTGATGAAAAATATGAGAAAAGAAAAGAAGAAAATGAAAAAAAAAAAGAAAA
1 AGGTATCCAATGGTTGATGAAAAATATGAGAAAAGAAAAGAAGAAAATG-AAAAAAAAAAGAAAA
10625388 ATATAAATT
65 ATATAAATT
10625397 NAGGTATCCAATGGTTGATGAAAAATATGAGAAAAGAAAAGAAGAAAATGAAAAAAAAAAGAAAA
1 -AGGTATCCAATGGTTGATGAAAAATATGAGAAAAGAAAAGAAGAAAATGAAAAAAAAAAGAAAA
10625462 ATATAAATT
65 ATATAAATT
10625471 TATATTAATA
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 24 0.33
75 49 0.67
ACGTcount: A:0.61, C:0.03, G:0.18, T:0.18
Consensus pattern (73 bp):
AGGTATCCAATGGTTGATGAAAAATATGAGAAAAGAAAAGAAGAAAATGAAAAAAAAAAGAAAAA
TATAAATT
Found at i:10625599 original size:12 final size:12
Alignment explanation
Indices: 10625578--10625639 Score: 54
Period size: 12 Copynumber: 4.9 Consensus size: 12
10625568 TAAAAAGCAT
*
10625578 ATAATTAATTTA
1 ATAATAAATTTA
*
10625590 ATAATAAATTAAAA
1 ATAATAAATT--TA
*
10625604 ATAAAAAATTTA
1 ATAATAAATTTA
10625616 CATTAAT-AATTTA
1 -A-TAATAAATTTA
10625629 ATAATAAATTT
1 ATAATAAATTT
10625640 TTATATTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
11 4 0.10
12 16 0.40
13 7 0.17
14 13 0.32
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATAAATTTA
Found at i:10625599 original size:39 final size:37
Alignment explanation
Indices: 10625556--10625638 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 37
10625546 AATAGAAAAC
* *
10625556 AAATTAAATAATTAAAAA-GCATATAATTAATTTAATAAT
1 AAATTAAA-AATAAAAAATACAT-TAA-TAATTTAATAAT
10625595 AAATTAAAAATAAAAAATTTACATTAATAATTTAATAAT
1 AAATTAAAAATAAAAAA--TACATTAATAATTTAATAAT
10625634 AAATT
1 AAATT
10625639 TTTATATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
38 8 0.21
39 25 0.64
40 3 0.08
41 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.36
Consensus pattern (37 bp):
AAATTAAAAATAAAAAATACATTAATAATTTAATAAT
Found at i:10625634 original size:28 final size:26
Alignment explanation
Indices: 10625584--10625636 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
10625574 GCATATAATT
10625584 AATTTAATAATAAATTAAAAATAAAA
1 AATTTAATAATAAATTAAAAATAAAA
* *
10625610 AATTTACATTAATAATTTAATAATAAA
1 AATTTA-A-TAATAAATTAAAAATAAA
10625637 TTTTTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 1 0.04
28 16 0.70
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
AATTTAATAATAAATTAAAAATAAAA
Found at i:10625664 original size:24 final size:23
Alignment explanation
Indices: 10625636--10625691 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
10625626 TTAATAATAA
10625636 ATTTTTATATTTAATAAAAAATTT
1 ATTTTTATATTTAATAAAAAA-TT
* * *
10625660 ATTTTGATTTTTAATTAAAAATT
1 ATTTTTATATTTAATAAAAAATT
*
10625683 ATTATTATA
1 ATTTTTATA
10625692 ATAAAAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTTTTATATTTAATAAAAAATT
Found at i:10625708 original size:18 final size:18
Alignment explanation
Indices: 10625666--10625708 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
10625656 ATTTATTTTG
* *
10625666 ATTTT-TAATTAAAAATT
1 ATTTTATAATAAAAAATA
10625683 ATTATTATAATAAAAAATA
1 ATT-TTATAATAAAAAATA
10625702 ATTTTAT
1 ATTTTAT
10625709 CATTTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTTATAATAAAAAATA
Found at i:10625732 original size:11 final size:12
Alignment explanation
Indices: 10625710--10625738 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
10625700 TAATTTTATC
10625710 ATTTTATTAATT
1 ATTTTATTAATT
10625722 ATTTT-TTAATT
1 ATTTTATTAATT
10625733 ATTTTA
1 ATTTTA
10625739 AAAGTCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:10640238 original size:218 final size:219
Alignment explanation
Indices: 10639854--10640260 Score: 609
Period size: 218 Copynumber: 1.9 Consensus size: 219
10639844 GTATAACAAG
* * * * *
10639854 TATTGTTAAAATATTGATGTAAATATGTGAGATTTAATGTAACAAATTAATTAAGTCAAATAAAC
1 TATTATTAAAATATTGACGTAAATATGTAAGATTTAACGTAACAAATTAATTAAATCAAATAAAC
* * * **
10639919 ATAATTTTTTGAGAAATTAAACATTAAAATTTATATTCTTGAGTTTAAAGTATTTAACGATGTAC
66 ATAATGTTTCGAAAAATTAAACATTAAAATTTATATTCTCAAGTTTAAAGTATTTAACGATGTAC
* *
10639984 AAATTTTAATTTATAAATAAATAATGGTAAAGATAAAAATAATTATAATGAAAATTAGTTAATGT
131 AAATTTTAATTTATAAATAAATAATAGTAAAGATAAAAATAATTATAATAAAAATTAGTTAATGT
10640049 AAAACATTATAAAAGTGGAACACA
196 AAAACATTATAAAAGTGGAACACA
* *
10640073 TATTATTAAAATATTGACGTAAATATGTAAGATTTAACGTAACAAGTTAA-TAAATCAAATAAAT
1 TATTATTAAAATATTGACGTAAATATGTAAGATTTAACGTAACAAATTAATTAAATCAAATAAAC
* * * * *
10640137 ATAATGTTTCGAAAAATTAAATATTTAGATTTATATTCTCAAGTTTAAAGTATTTAACGGTTTAC
66 ATAATGTTTCGAAAAATTAAACATTAAAATTTATATTCTCAAGTTTAAAGTATTTAACGATGTAC
* * *
10640202 AAATTTTAATTTATAAATGAATAATAGTAAAGATAAAAGTAATTATAGTAAAAATTAGT
131 AAATTTTAATTTATAAATAAATAATAGTAAAGATAAAAATAATTATAATAAAAATTAGT
10640261 AGTTAAAAAA
Statistics
Matches: 166, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
218 121 0.73
219 45 0.27
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.37
Consensus pattern (219 bp):
TATTATTAAAATATTGACGTAAATATGTAAGATTTAACGTAACAAATTAATTAAATCAAATAAAC
ATAATGTTTCGAAAAATTAAACATTAAAATTTATATTCTCAAGTTTAAAGTATTTAACGATGTAC
AAATTTTAATTTATAAATAAATAATAGTAAAGATAAAAATAATTATAATAAAAATTAGTTAATGT
AAAACATTATAAAAGTGGAACACA
Found at i:10640521 original size:16 final size:16
Alignment explanation
Indices: 10640502--10640537 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
10640492 AATAATTATA
10640502 ATTAAA-TTAATTATTT
1 ATTAAATTTAATT-TTT
10640518 ATTAAATTTAATTTTT
1 ATTAAATTTAATTTTT
10640534 ATTA
1 ATTA
10640538 TAATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTAAATTTAATTTTT
Found at i:10641773 original size:15 final size:15
Alignment explanation
Indices: 10641755--10641874 Score: 52
Period size: 15 Copynumber: 7.9 Consensus size: 15
10641745 AAAATTTAAA
10641755 ATATTAATATTTTAT
1 ATATTAATATTTTAT
*** *
10641770 ATA-TAAT-TGAAAC
1 ATATTAATATTTTAT
*
10641783 ATTATTAATA-TTAAT
1 A-TATTAATATTTTAT
* * *
10641798 ATGATTAAAATATTAA
1 AT-ATTAATATTTTAT
*
10641814 ATATTAATATTTTAA
1 ATATTAATATTTTAT
*
10641829 ACTATTAATGTTTTAT
1 A-TATTAATATTTTAT
*
10641845 TTATTAA-ATTATTAAT
1 ATATTAATATT-TT-AT
10641861 ATATTTAAT-TTTTA
1 ATA-TTAATATTTTA
10641875 ATGAGTATTA
Statistics
Matches: 77, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
13 3 0.04
14 9 0.12
15 37 0.48
16 22 0.29
17 6 0.08
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (15 bp):
ATATTAATATTTTAT
Found at i:10641799 original size:26 final size:23
Alignment explanation
Indices: 10641750--10641837 Score: 79
Period size: 23 Copynumber: 3.6 Consensus size: 23
10641740 TTTGTAAAAT
10641750 TTAAAATATTAATATTTTATATATAA
1 TTAAAATATTAATA--TTA-ATATAA
*
10641776 TTGAAACATTATTAATATTAATATGA
1 TT-AAA-A-TATTAATATTAATATAA
*
10641802 TTAAAATATTAAATATTAATAT-T
1 TTAAAATATT-AATATTAATATAA
*
10641825 TTAAACTATTAAT
1 TTAAAATATTAAT
10641838 GTTTTATTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
22 3 0.05
23 13 0.24
24 12 0.22
25 3 0.05
26 9 0.16
27 6 0.11
28 1 0.02
29 8 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAAAATATTAATATTAATATAA
Found at i:10641870 original size:16 final size:16
Alignment explanation
Indices: 10641791--10641876 Score: 56
Period size: 16 Copynumber: 5.4 Consensus size: 16
10641781 ACATTATTAA
*
10641791 TATTAATATGATTAAAA
1 TATTAATAT-ATTAAAT
10641808 TATTAA-ATATTAATAT
1 TATTAATATATTAA-AT
10641824 T-TTAA-ACTATT-AAT
1 TATTAATA-TATTAAAT
* *
10641838 GT-TTTATTTATTAAAT
1 -TATTAATATATTAAAT
*
10641854 TATTAATATATTTAAT
1 TATTAATATATTAAAT
*
10641870 TTTTAAT
1 TATTAAT
10641877 GAGTATTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
14 2 0.04
15 20 0.36
16 28 0.50
17 6 0.11
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (16 bp):
TATTAATATATTAAAT
Found at i:10641924 original size:22 final size:23
Alignment explanation
Indices: 10641899--10641956 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
10641889 AAATAAAAAT
*
10641899 AAAA-ATTATTAATATTTTAATC
1 AAAATATTATTAATATTATAATC
* * *
10641921 AAAATAATATTAA-ATTATACTT
1 AAAATATTATTAATATTATAATC
10641943 AAAATATTATTAAT
1 AAAATATTATTAAT
10641957 TAAAATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 22 0.76
23 7 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAATATTATTAATATTATAATC
Found at i:10641961 original size:15 final size:15
Alignment explanation
Indices: 10641941--10641984 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
10641931 TAAATTATAC
10641941 TTAAAATATTATTAA
1 TTAAAATATTATTAA
* *
10641956 TTAAAATATAAGTAA
1 TTAAAATATTATTAA
*
10641971 TTAAATTA-TATTAA
1 TTAAAATATTATTAA
10641985 AATATTGATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
TTAAAATATTATTAA
Found at i:10641999 original size:15 final size:15
Alignment explanation
Indices: 10641941--10642042 Score: 53
Period size: 15 Copynumber: 7.4 Consensus size: 15
10641931 TAAATTATAC
* *
10641941 TTAAAATATTATTAA
1 TTAAAATATTAATAT
*
10641956 TTAAAATA-TAAGTAA
1 TTAAAATATTAA-TAT
10641971 TT--AA-ATT-ATA-
1 TTAAAATATTAATAT
*
10641981 TTAAAATATTGATAT
1 TTAAAATATTAATAT
*
10641996 TTAAATTATTAATAT
1 TTAAAATATTAATAT
*
10642011 TT--TA-ATTAAT-T
1 TTAAAATATTAATAT
* *
10642022 ATAAATTATTAATAT
1 TTAAAATATTAATAT
10642037 TTAAAA
1 TTAAAA
10642043 AATAAAATAA
Statistics
Matches: 66, Mismatches: 10, Indels: 22
0.67 0.10 0.22
Matches are distributed among these distances:
10 2 0.03
11 4 0.06
12 10 0.15
13 6 0.09
14 11 0.17
15 33 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
TTAAAATATTAATAT
Found at i:10642022 original size:16 final size:15
Alignment explanation
Indices: 10641981--10642041 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
10641971 TTAAATTATA
* *
10641981 TTAAAATATTGATAT
1 TTAAATTATTAATAT
10641996 TTAAATTATTAATAT
1 TTAAATTATTAATAT
*
10642011 TT---TAATTAAT-T
1 TTAAATTATTAATAT
*
10642022 ATAAATTATTAATAT
1 TTAAATTATTAATAT
10642037 TTAAA
1 TTAAA
10642042 AAATAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
11 2 0.06
12 7 0.19
14 7 0.19
15 20 0.56
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTAAATTATTAATAT
Found at i:10653336 original size:19 final size:19
Alignment explanation
Indices: 10653285--10653337 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
10653275 TCCTTCTGTC
10653285 AATATAACTATT--AAAAA
1 AATATAACTATTAAAAAAA
* *
10653302 ATTAT-ACTTTTCAAAAAAA
1 AATATAACTATT-AAAAAAA
10653321 AATATAACTATTAAAAA
1 AATATAACTATTAAAAA
10653338 CCAACATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
16 5 0.18
17 4 0.14
19 14 0.50
20 5 0.18
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
AATATAACTATTAAAAAAA
Found at i:10654852 original size:13 final size:14
Alignment explanation
Indices: 10654816--10654853 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
10654806 GATTCATTTG
10654816 TTTTGTAATAAAATA
1 TTTTGTAA-AAAATA
10654831 TTTTGTAAAAAATA
1 TTTTGTAAAAAATA
10654845 TTTT-TAAAA
1 TTTTGTAAAA
10654854 TTTATACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.22
14 10 0.43
15 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (14 bp):
TTTTGTAAAAAATA
Found at i:10655233 original size:74 final size:74
Alignment explanation
Indices: 10655149--10655290 Score: 221
Period size: 74 Copynumber: 1.9 Consensus size: 74
10655139 ATAAATGGAA
* * *
10655149 TAAATTTTACTAATAATTATAATAAAAAATATTTCAAAGATCATCATTTGATGAATATACATTTA
1 TAAATCTTACTAAAAATTATAATAAAAAATATTTCAAAGATCATCATTTAATGAATATACATTTA
10655214 TAATAGGTT
66 TAATAGGTT
* ** *
10655223 TAAATCTTACTAAAAATTATAATAAAAAATATTTCAATGATTGTCATTTAATGAATATATATTTA
1 TAAATCTTACTAAAAATTATAATAAAAAATATTTCAAAGATCATCATTTAATGAATATACATTTA
10655288 TAA
66 TAA
10655291 ATATAGGTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (74 bp):
TAAATCTTACTAAAAATTATAATAAAAAATATTTCAAAGATCATCATTTAATGAATATACATTTA
TAATAGGTT
Found at i:10659993 original size:21 final size:21
Alignment explanation
Indices: 10659967--10660007 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10659957 AAACAGAAGG
10659967 TTTCTCACTGCAGCAAAATTC
1 TTTCTCACTGCAGCAAAATTC
* *
10659988 TTTCTCGCTGCAGCGAAATT
1 TTTCTCACTGCAGCAAAATT
10660008 TAACTAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (21 bp):
TTTCTCACTGCAGCAAAATTC
Found at i:10660020 original size:60 final size:59
Alignment explanation
Indices: 10659897--10660061 Score: 183
Period size: 60 Copynumber: 2.7 Consensus size: 59
10659887 TAGGAGACCA
* * * *
10659897 AAACAGAAGGTTTTTCACTGCAGCGAGATTTTTTCTCGCTACAGCGAAATTGTAACCCAG
1 AAACAGAAGG-TTTTCACTGCAGCAAGATTCTTTCTCGCTGCAGCGAAATTGTAACCAAG
* *
10659957 AAACAGAAGGTTTCTCACTGCAGCAAAATTCTTTCTCGCTGCAGCGAAATT-TAACTAATG
1 AAACAGAAGGTTT-TCACTGCAGCAAGATTCTTTCTCGCTGCAGCGAAATTGTAACCAA-G
*
10660017 AAACAG-AGAGTTTT-ACGTTGCAGCAAGATTCCTTTTTCGCTGCAG
1 AAACAGAAG-GTTTTCAC--TGCAGCAAGATT-CTTTCTCGCTGCAG
10660062 TGAGAGGCTA
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
58 2 0.02
59 11 0.12
60 65 0.71
61 13 0.14
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (59 bp):
AAACAGAAGGTTTTCACTGCAGCAAGATTCTTTCTCGCTGCAGCGAAATTGTAACCAAG
Found at i:10661341 original size:19 final size:20
Alignment explanation
Indices: 10661307--10661345 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10661297 AGAAGAAAAC
10661307 AGCTGCTGAAAATTTCAAGA
1 AGCTGCTGAAAATTTCAAGA
*
10661327 AGCTGCTG-GAATTTCAAGA
1 AGCTGCTGAAAATTTCAAGA
10661346 TATTTATAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (20 bp):
AGCTGCTGAAAATTTCAAGA
Found at i:10663946 original size:13 final size:14
Alignment explanation
Indices: 10663928--10663957 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
10663918 AAAGTGATCT
10663928 GAAACTGGTT-AAA
1 GAAACTGGTTGAAA
10663941 GAAACTGGTTGAAA
1 GAAACTGGTTGAAA
10663955 GAA
1 GAA
10663958 GTCAAAGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.47, C:0.07, G:0.27, T:0.20
Consensus pattern (14 bp):
GAAACTGGTTGAAA
Found at i:10669612 original size:26 final size:26
Alignment explanation
Indices: 10669566--10669659 Score: 136
Period size: 26 Copynumber: 3.6 Consensus size: 26
10669556 TGCCCTTCTC
*
10669566 TTTGTTAAATGATACAA-AAAGAAAAA
1 TTTG-TAAATGATACAACAAAGAATAA
10669592 TTTGTAAATGATACAACAAAGAATAA
1 TTTGTAAATGATACAACAAAGAATAA
*
10669618 TTTATAAATGATACAACAAAGAATAA
1 TTTGTAAATGATACAACAAAGAATAA
* *
10669644 TTTGGAGATGATACAA
1 TTTGTAAATGATACAA
10669660 AAAATGTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 12 0.19
26 50 0.81
ACGTcount: A:0.53, C:0.06, G:0.13, T:0.28
Consensus pattern (26 bp):
TTTGTAAATGATACAACAAAGAATAA
Found at i:10685546 original size:299 final size:299
Alignment explanation
Indices: 10684997--10685598 Score: 839
Period size: 299 Copynumber: 2.0 Consensus size: 299
10684987 CTACCATAAG
* ** *
10684997 TCAAAGGGCCAAACGAACCAATGTAACCGTTCACTGGGCTTTCAGTGGCTCTGTGGGAGCCGAGT
1 TCAAAGGGCCAAACAAACCAATGTAACCACTCACTGGGCTTCCAGTGGCTCTGTGGGAGCCGAGT
* * ***
10685062 CTTCCTCCTCCCCTGATGAGAGTTCTTTCCTTTGCAACTTCACTCATCCGTCGTGTGCCTAGAAA
66 CTTCCTCCTCCCCTAATGAGAGCTCTTTCCTTTGCAACTTCACTCATCCGTCACATGCCTAGAAA
* * * * *
10685127 TTCAATGACAACTTCGCCGAATGAAAGGTAATGCCTAGGCGCATTATTAACTTTGATTACCTAAA
131 TTCAAAGACAACTTCACCAAATGAAAGGTAAGGCCTAGGCGCATTATTAACTTTAATTACCTAAA
* * *
10685192 ATCCATTCATTTTTCGTATCTTGCCAATTTTGAGAATTCAGGCTAGACTTATTACTTGAAATTGA
196 ATCCATTCATTTTTCGCATCTTGCCAATTTTGAGAATTCAAGCTAGACGTATTACTTGAAATTGA
* *
10685257 ATCAGAAGTATTATGAGAATTTAGTTAGGATCTTTTATT
261 ATCAGAAATATTATGAGAACTTAGTTAGGATCTTTTATT
* * *
10685296 TCAAAGGGCCAAACAAACCAATGTAACCACTCATTGGGCTTCCGGTGGCTCTGTTGGAGCCGAGT
1 TCAAAGGGCCAAACAAACCAATGTAACCACTCACTGGGCTTCCAGTGGCTCTGTGGGAGCCGAGT
* *
10685361 TTTCCTCTTCCCCTAATG-GAAGCTCTTTCCTTTGCAACTTCACTCATCCGTCACATGCCTAGAA
66 CTTCCTCCTCCCCTAATGAG-AGCTCTTTCCTTTGCAACTTCACTCATCCGTCACATGCCTAGAA
* * * ** *
10685425 ATTTAAAGACAACTTCACCAAATGAAAGGTAAGG-CTCGGGTGCATTATTGCCTTTAATTACCTG
130 ATTCAAAGACAACTTCACCAAATGAAAGGTAAGGCCT-AGGCGCATTATTAACTTTAATTACCTA
* * * * * *
10685489 GATTCCTTTCATTTTTTGCATCTTGCCAATTTTGAGAATTTAAGCTGGACGTATTACTTGAAATT
194 AAATCCATTCATTTTTCGCATCTTGCCAATTTTGAGAATTCAAGCTAGACGTATTACTTGAAATT
*
10685554 GAATCAGAAATATTATGAGAACTTGGTTAGGATCTTTTATT
259 GAATCAGAAATATTATGAGAACTTAGTTAGGATCTTTTATT
10685595 TCAA
1 TCAA
10685599 TGCCACTTAA
Statistics
Matches: 264, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
298 3 0.01
299 261 0.99
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (299 bp):
TCAAAGGGCCAAACAAACCAATGTAACCACTCACTGGGCTTCCAGTGGCTCTGTGGGAGCCGAGT
CTTCCTCCTCCCCTAATGAGAGCTCTTTCCTTTGCAACTTCACTCATCCGTCACATGCCTAGAAA
TTCAAAGACAACTTCACCAAATGAAAGGTAAGGCCTAGGCGCATTATTAACTTTAATTACCTAAA
ATCCATTCATTTTTCGCATCTTGCCAATTTTGAGAATTCAAGCTAGACGTATTACTTGAAATTGA
ATCAGAAATATTATGAGAACTTAGTTAGGATCTTTTATT
Found at i:10687657 original size:19 final size:20
Alignment explanation
Indices: 10687617--10687657 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
10687607 CATATATTAA
*
10687617 TTAAACAAAAATACTATTAT
1 TTAAACAAAAATACTATAAT
10687637 TTAAA-AAAAA-ACATATAAT
1 TTAAACAAAAATAC-TATAAT
10687656 TT
1 TT
10687658 CTTTGGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 2 0.11
19 12 0.63
20 5 0.26
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAAACAAAAATACTATAAT
Found at i:10688082 original size:25 final size:25
Alignment explanation
Indices: 10688054--10688101 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
10688044 TAAGCTCTTA
10688054 TAATT-AAAAATTAATTAATTATTAT
1 TAATTCAAAAATTAATT-ATTATTAT
* *
10688079 TAATTCAAACATTACTTATTATT
1 TAATTCAAAAATTAATTATTATT
10688102 TATATCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (25 bp):
TAATTCAAAAATTAATTATTATTAT
Found at i:10688305 original size:20 final size:20
Alignment explanation
Indices: 10688261--10688305 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
10688251 TATTTAACTG
*
10688261 AAATTAAAAATATAAAAATT
1 AAATTAAAAATATAAAAAAT
*
10688281 TAATTAAACAA-ATAAAAAAT
1 AAATTAAA-AATATAAAAAAT
10688301 AAATT
1 AAATT
10688306 TTTTTAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATTAAAAATATAAAAAAT
Found at i:10688983 original size:30 final size:31
Alignment explanation
Indices: 10688948--10689006 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
10688938 AGATAAGTTG
*
10688948 TTTGA-TAAAATAATTTATATAAAT-TTTAAT
1 TTTGATTAAAATAA-TTATAAAAATATTTAAT
*
10688978 TTTGATTAAAATTATTATAAAAATATTTA
1 TTTGATTAAAATAATTATAAAAATATTTA
10689007 CTAAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (31 bp):
TTTGATTAAAATAATTATAAAAATATTTAAT
Found at i:10704311 original size:18 final size:20
Alignment explanation
Indices: 10704290--10704330 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 20
10704280 TGCAATAAAA
10704290 ATTCTAAAA-TAAA-TAAT-T
1 ATTC-AAAATTAAAGTAATGT
10704308 ATTCAAAATTAAAGTAATGT
1 ATTCAAAATTAAAGTAATGT
10704328 ATT
1 ATT
10704331 ATGTTCTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
19 4 0.20
20 4 0.20
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (20 bp):
ATTCAAAATTAAAGTAATGT
Found at i:10705875 original size:25 final size:24
Alignment explanation
Indices: 10705843--10705896 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
10705833 TAAAAAAATA
*
10705843 AATAAAAATATATAATT-TTAATTTTT
1 AATAAAAA-ATAAAATTATT-A-TTTT
10705869 AATAAAAAATAAAATTATTATTTT
1 AATAAAAAATAAAATTATTATTTT
10705893 AATA
1 AATA
10705897 TTATCACGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 8 0.31
25 8 0.31
26 10 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AATAAAAAATAAAATTATTATTTT
Found at i:10708472 original size:32 final size:32
Alignment explanation
Indices: 10708431--10708501 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
10708421 TGCAATGCCT
*
10708431 CAAATGGGTATTTTTTATTTTTC-ATAAATAAG
1 CAAATGGGTATTTATT-TTTTTCGATAAATAAG
*
10708463 CAAATGGGTATTTATTTTTTTCGATAAATGAG
1 CAAATGGGTATTTATTTTTTTCGATAAATAAG
10708495 CAAATGG
1 CAAATGG
10708502 CATGTTTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 6 0.17
32 30 0.83
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (32 bp):
CAAATGGGTATTTATTTTTTTCGATAAATAAG
Found at i:10719593 original size:43 final size:42
Alignment explanation
Indices: 10719485--10719782 Score: 370
Period size: 43 Copynumber: 7.0 Consensus size: 42
10719475 CTGGTGATAG
* *
10719485 TGATGTATTTTCTAGCGCTAACTTTACAGATTTTGTATTGCA
1 TGATGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCA
* * * * *
10719527 T-ACTTCATTTTCTATTACTAACTTTACAAATTTTGTATTGTA
1 TGA-TGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCA
*
10719569 TTGATGCATTTTCTAGTGCTAACTTTGCAGATTTTGTATTGCA
1 -TGATGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCA
* * * * *
10719612 T-ACTTCATTTTCTATTACTAACTTTACAAATTTTGTATTGTA
1 TGA-TGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCA
10719654 TTGATGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCA
1 -TGATGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCA
*
10719697 TTGATGCATTTTCTAGTGCTAACTTTTCAGATTTTGTATTGCA
1 -TGATGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCA
*
10719740 T-ACTTCATTTTCTA-TCGCTAACTTTACAGATTTTGTATTGCA
1 TGA-TGCATTTTCTAGT-GCTAACTTTACAGATTTTGTATTGCA
10719782 T
1 T
10719783 ACTTCTACAC
Statistics
Matches: 221, Mismatches: 27, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
41 4 0.02
42 104 0.47
43 111 0.50
44 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (42 bp):
TGATGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCA
Found at i:10719628 original size:85 final size:85
Alignment explanation
Indices: 10719485--10719787 Score: 452
Period size: 85 Copynumber: 3.6 Consensus size: 85
10719475 CTGGTGATAG
* *
10719485 TGATGTATTTTCTAGCGCTAACTTTACAGATTTTGTATTGCATACTTCATTTTCTATTACTAACT
1 TGATGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCATACTTCATTTTCTATTACTAACT
10719550 TTACAAATTTTGTATTGTAT
66 TTACAAATTTTGTATTGTAT
*
10719570 TGATGCATTTTCTAGTGCTAACTTTGCAGATTTTGTATTGCATACTTCATTTTCTATTACTAACT
1 TGATGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCATACTTCATTTTCTATTACTAACT
10719635 TTACAAATTTTGTATTGTAT
66 TTACAAATTTTGTATTGTAT
* * *
10719655 TGATGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCATTGA-TGCATTTTCTAGTGCTAA
1 TGATGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCA-T-ACTTCATTTTCTATTACTAA
* * *
10719719 CTTTTCAGATTTTGTATTGCA-
64 CTTTACAAATTTTGTATTGTAT
*
10719740 T-ACTTCATTTTCTA-TCGCTAACTTTACAGATTTTGTATTGCATACTTC
1 TGA-TGCATTTTCTAGT-GCTAACTTTACAGATTTTGTATTGCATACTTC
10719788 TACACGGTAA
Statistics
Matches: 201, Mismatches: 12, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
83 1 0.00
84 5 0.02
85 160 0.80
86 34 0.17
87 1 0.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (85 bp):
TGATGCATTTTCTAGTGCTAACTTTACAGATTTTGTATTGCATACTTCATTTTCTATTACTAACT
TTACAAATTTTGTATTGTAT
Found at i:10719718 original size:128 final size:127
Alignment explanation
Indices: 10719491--10719785 Score: 457
Period size: 128 Copynumber: 2.3 Consensus size: 127
10719481 ATAGTGATGT
* * * *
10719491 ATTTTCTAGCGCTAACTTTACAGATTTTGTATTGCATACTTCATTTTCTATTACTAACTTTACAA
1 ATTTTCTATCACTAACTTTACAGATTTTGTATTGCATACTGCATTTTCTAGTACTAACTTTACAA
*
10719556 ATTTTGTATTGTATTGATGCATTTTCTAGTGCTAACTTTGCAGATTTTGTATTGCATACTTC
66 ATTTTGTATTGCATTGATGCATTTTCTAGTGCTAACTTTGCAGATTTTGTATTGCATACTTC
* * * *
10719618 ATTTTCTATTACTAACTTTACAAATTTTGTATTGTATTGA-TGCATTTTCTAGTGCTAACTTTAC
1 ATTTTCTATCACTAACTTTACAGATTTTGTATTGCA-T-ACTGCATTTTCTAGTACTAACTTTAC
* *
10719682 AGATTTTGTATTGCATTGATGCATTTTCTAGTGCTAACTTTTCAGATTTTGTATTGCATACTTC
64 AAATTTTGTATTGCATTGATGCATTTTCTAGTGCTAACTTTGCAGATTTTGTATTGCATACTTC
*
10719746 ATTTTCTATCGCTAACTTTACAGATTTTGTATTGCATACT
1 ATTTTCTATCACTAACTTTACAGATTTTGTATTGCATACT
10719786 TCTACACGGT
Statistics
Matches: 150, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
126 1 0.01
127 33 0.22
128 115 0.77
129 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (127 bp):
ATTTTCTATCACTAACTTTACAGATTTTGTATTGCATACTGCATTTTCTAGTACTAACTTTACAA
ATTTTGTATTGCATTGATGCATTTTCTAGTGCTAACTTTGCAGATTTTGTATTGCATACTTC
Found at i:10736922 original size:132 final size:131
Alignment explanation
Indices: 10736681--10736946 Score: 500
Period size: 132 Copynumber: 2.0 Consensus size: 131
10736671 TAACTAATCT
10736681 AAAG-ACTGAAAGAAGAAGATTACAGCCACCCTAAACATCTGTTGTTTTTGACCAAACGAAAAGA
1 AAAGAACTGAAAGAAGAAGATTACAGCCACCCTAAACATCTGTTGTTTTTGACCAAACGAAAAGA
10736745 AAAACATCTTTTATTCTTGAAAATTGCACACCATGCTTTGG-AAAAAAAAAAAGAAAAAAGAAAA
66 AAAACATCTTTTATTCTTGAAAATTGCACACCATGCTTTGGAAAAAAAAAAAAG-AAAAAGAAAA
10736809 GA
130 GA
10736811 AAAGANACTGAAAGAAGAAGATTACAGCCACCCTAAACATCTGTTGTTTTTGACCAAACGAAAAG
1 AAAGA-ACTGAAAGAAGAAGATTACAGCCACCCTAAACATCTGTTGTTTTTGACCAAACGAAAAG
10736876 AAAAACATCTTTTATTCTTGAAAATTGCACACCATGCTTTGGAAAAAAAAAAAAGAAAAAGAAAA
65 AAAAACATCTTTTATTCTTGAAAATTGCACACCATGCTTTGGAAAAAAAAAAAAGAAAAAGAAAA
10736941 GA
130 GA
10736943 AAAG
1 AAAG
10736947 CACACATATT
Statistics
Matches: 133, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
130 4 0.03
132 117 0.88
133 12 0.09
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (131 bp):
AAAGAACTGAAAGAAGAAGATTACAGCCACCCTAAACATCTGTTGTTTTTGACCAAACGAAAAGA
AAAACATCTTTTATTCTTGAAAATTGCACACCATGCTTTGGAAAAAAAAAAAAGAAAAAGAAAAG
A
Found at i:10737145 original size:26 final size:26
Alignment explanation
Indices: 10737116--10737168 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
10737106 AAAAAATATA
*
10737116 GGACTAAGTATTATAA-TAATTAACAT
1 GGACTAAGTATT-TAATTAATGAACAT
10737142 GGACTAAGTATTTAATTAATGAACAT
1 GGACTAAGTATTTAATTAATGAACAT
10737168 G
1 G
10737169 CAAAGACCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (26 bp):
GGACTAAGTATTTAATTAATGAACAT
Found at i:10739742 original size:144 final size:144
Alignment explanation
Indices: 10739484--10739818 Score: 517
Period size: 144 Copynumber: 2.3 Consensus size: 144
10739474 AACTAGGTTA
* * * * * * *
10739484 CCAATTGAGTTAGGCAATGCTCCAGAAAAATTCGTAGAACTTAAATCCAAAACTTTCAATGAAAC
1 CCAATGGAATTAGGCAATGCTCCAGAGAGATTCGTAAAACTTAGATCCAAAACTTCCAATGAAAC
* *
10739549 TAAATTGCCAATGGAATTAGGCAATGCTCCAGAGAAGGACGTGTAACTTAGATCCAAATCTTTCA
66 TAAATTGCCAATGGAATTAGGCAATGCTCCAGAGAAGGACGTGTAACTTAGAACCAAATATTTCA
10739614 ATGAAACTAAATTG
131 ATGAAACTAAATTG
* **
10739628 CCAATGGAATTAGGCAATGCTCCAGAGAGATTCATAAAACTTAGATCCAAATGTTCCAATGAAAC
1 CCAATGGAATTAGGCAATGCTCCAGAGAGATTCGTAAAACTTAGATCCAAAACTTCCAATGAAAC
* * *
10739693 TAAATTGCCAATGGAATTAGGCAATGCTCCAGAGAAGGATGTGTGACTTAGAAGCAAATATTTCA
66 TAAATTGCCAATGGAATTAGGCAATGCTCCAGAGAAGGACGTGTAACTTAGAACCAAATATTTCA
10739758 ATGAAACTAAATTG
131 ATGAAACTAAATTG
* *
10739772 CCAATGGAATTAGGCAATGCTCCAGAGAGATTTGTAAGACTTAGATC
1 CCAATGGAATTAGGCAATGCTCCAGAGAGATTCGTAAAACTTAGATC
10739819 TAATAGCTCA
Statistics
Matches: 173, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 173 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (144 bp):
CCAATGGAATTAGGCAATGCTCCAGAGAGATTCGTAAAACTTAGATCCAAAACTTCCAATGAAAC
TAAATTGCCAATGGAATTAGGCAATGCTCCAGAGAAGGACGTGTAACTTAGAACCAAATATTTCA
ATGAAACTAAATTG
Found at i:10739798 original size:72 final size:72
Alignment explanation
Indices: 10739521--10739799 Score: 413
Period size: 72 Copynumber: 3.9 Consensus size: 72
10739511 AAATTCGTAG
*
10739521 AACTTAAATCCAAA-ACTTTCAATGAAACTAAATTGCCAATGGAATTAGGCAATGCTCCAGAGAA
1 AACTTAGATCCAAATA-TTTCAATGAAACTAAATTGCCAATGGAATTAGGCAATGCTCCAGAGAA
*
10739585 GGACGTGT
65 GGATGTGT
*
10739593 AACTTAGATCCAAATCTTTCAATGAAACTAAATTGCCAATGGAATTAGGCAATGCTCCAGAG-A-
1 AACTTAGATCCAAATATTTCAATGAAACTAAATTGCCAATGGAATTAGGCAATGCTCCAGAGAAG
*
10739656 GAT-TCAT
66 GATGT-GT
* *
10739663 AAAACTTAGATCCAAATGTTCCAATGAAACTAAATTGCCAATGGAATTAGGCAATGCTCCAGAGA
1 --AACTTAGATCCAAATATTTCAATGAAACTAAATTGCCAATGGAATTAGGCAATGCTCCAGAGA
10739728 AGGATGTGT
64 AGGATGTGT
* **
10739737 GACTTAGAAGCAAATATTTCAATGAAACTAAATTGCCAATGGAATTAGGCAATGCTCCAGAGA
1 AACTTAGATCCAAATATTTCAATGAAACTAAATTGCCAATGGAATTAGGCAATGCTCCAGAGA
10739800 GATTTGTAAG
Statistics
Matches: 188, Mismatches: 12, Indels: 14
0.88 0.06 0.07
Matches are distributed among these distances:
69 1 0.01
70 3 0.02
71 1 0.01
72 177 0.94
73 1 0.01
74 4 0.02
75 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (72 bp):
AACTTAGATCCAAATATTTCAATGAAACTAAATTGCCAATGGAATTAGGCAATGCTCCAGAGAAG
GATGTGT
Found at i:10739813 original size:72 final size:71
Alignment explanation
Indices: 10739484--10739816 Score: 404
Period size: 72 Copynumber: 4.6 Consensus size: 71
10739474 AACTAGGTTA
* * * * *
10739484 CCAATTGAGTTAGGCAATGCTCCAGAAAAATTCGTAGAACTTA-AATCCAAA-ACTTTCAATGAA
1 CCAATGGAATTAGGCAATGCTCCAGAGAGATTTGTAG-ACTTAGAA-CCAAATA-TTTCAATGAA
10739547 ACTAAATTG
63 ACTAAATTG
** * *
10739556 CCAATGGAATTAGGCAATGCTCCAGAGAAGGACGTGTA-ACTTAGATCCAAATCTTTCAATGAAA
1 CCAATGGAATTAGGCAATGCTCCAGAG-A-GATTTGTAGACTTAGAACCAAATATTTCAATGAAA
10739620 CTAAATTG
64 CTAAATTG
** * * * *
10739628 CCAATGGAATTAGGCAATGCTCCAGAGAGATTCATAAAACTTAGATCCAAATGTTCCAATGAAAC
1 CCAATGGAATTAGGCAATGCTCCAGAGAGATTTGT-AGACTTAGAACCAAATATTTCAATGAAAC
10739693 TAAATTG
65 TAAATTG
* *
10739700 CCAATGGAATTAGGCAATGCTCCAGAGAAGGATGTGT-GACTTAGAAGCAAATATTTCAATGAAA
1 CCAATGGAATTAGGCAATGCTCCAGAG-A-GATTTGTAGACTTAGAACCAAATATTTCAATGAAA
10739764 CTAAATTG
64 CTAAATTG
10739772 CCAATGGAATTAGGCAATGCTCCAGAGAGATTTGTAAGACTTAGA
1 CCAATGGAATTAGGCAATGCTCCAGAGAGATTTGT-AGACTTAGA
10739817 TCTAATAGCT
Statistics
Matches: 227, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
70 9 0.04
71 3 0.01
72 204 0.90
73 3 0.01
74 8 0.04
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (71 bp):
CCAATGGAATTAGGCAATGCTCCAGAGAGATTTGTAGACTTAGAACCAAATATTTCAATGAAACT
AAATTG
Found at i:10747022 original size:17 final size:17
Alignment explanation
Indices: 10747000--10747034 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10746990 TATACAGAGA
10747000 ATTACAAGTATAAAAAT
1 ATTACAAGTATAAAAAT
*
10747017 ATTACAGGTATAAAAAT
1 ATTACAAGTATAAAAAT
10747034 A
1 A
10747035 AGAAAGCCTA
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:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (17 bp):
ATTACAAGTATAAAAAT
Found at i:10749344 original size:17 final size:18
Alignment explanation
Indices: 10749324--10749362 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10749314 GATTTAAAGT
10749324 TCTTGATAAAATAA-AAC
1 TCTTGATAAAATAATAAC
* *
10749341 TCTTTATTAAATAATAAC
1 TCTTGATAAAATAATAAC
10749359 TCTT
1 TCTT
10749363 ATTTTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (18 bp):
TCTTGATAAAATAATAAC
Found at i:10749572 original size:28 final size:28
Alignment explanation
Indices: 10749541--10749682 Score: 169
Period size: 29 Copynumber: 4.9 Consensus size: 28
10749531 AAATATTTTA
*
10749541 TCTTGTCTAAATTAAGACAAATATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
* * *
10749569 TCTTGACT-AATTAAGACAAAAAAATATTTT
1 TCTTGTCTAAATTAAGAC--AAACAT-GTTT
* *
10749599 TCTTGTCTTAAATTAAGGCAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATGTTT
*
10749628 TCTTGTCTAACTTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATGTTT
10749657 TCTTGTCTAAATTAAGACAAACATGT
1 TCTTGTCTAAATTAAGACAAACATGT
10749683 CAAAGCTGTC
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
27 9 0.09
28 24 0.25
29 41 0.42
30 14 0.14
31 1 0.01
32 8 0.08
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:10749611 original size:59 final size:58
Alignment explanation
Indices: 10749516--10749682 Score: 221
Period size: 59 Copynumber: 2.8 Consensus size: 58
10749506 CTCTTGTCTG
*
10749516 TAATTAAGACAAAAAAAATATTTTATCTTGTCTAAATTAAGACAAATATGTTTTCTTGAC
1 TAATTAAGAC-AAAAAAATATTTT-TCTTGTCTAAATTAAGACAAACATGTTTTCTTGAC
* * *
10749576 TAATTAAGACAAAAAAATATTTTTCTTGTCTTAAATTAAGGCAAACATATTTTCTTGTC
1 TAATTAAGACAAAAAAATATTTTTCTTGTC-TAAATTAAGACAAACATGTTTTCTTGAC
* * *
10749635 TAACTTAAGAC-CAAACAT-GTTTTCTTGTCTAAATTAAGACAAACATGT
1 TAA-TTAAGACAAAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGT
10749683 CAAAGCTGTC
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
57 17 0.18
58 17 0.18
59 45 0.47
60 17 0.18
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.38
Consensus pattern (58 bp):
TAATTAAGACAAAAAAATATTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTGAC
Found at i:10774718 original size:18 final size:20
Alignment explanation
Indices: 10774674--10774719 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
10774664 TATGTTTATT
*
10774674 ATTATTTTTTATTATTATAT
1 ATTATTTTTTATTATTATAC
**
10774694 ACCATTTTTT-TTA-TATAC
1 ATTATTTTTTATTATTATAC
10774712 ATTATTTT
1 ATTATTTT
10774720 AAACAACAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTATTTTTTATTATTATAC
Found at i:10775039 original size:33 final size:33
Alignment explanation
Indices: 10774993--10775058 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
10774983 TATTCACTTG
* *
10774993 TTATTGTTGTTATTTTTAT-ATATTTTTTAATTT
1 TTATTGTTATTATTATTATGA-ATTTTTTAATTT
* *
10775026 TTATTTTTATTATTATTATGAATTTTTTTATTT
1 TTATTGTTATTATTATTATGAATTTTTTAATTT
10775059 ACTTACTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (33 bp):
TTATTGTTATTATTATTATGAATTTTTTAATTT
Found at i:10775051 original size:24 final size:24
Alignment explanation
Indices: 10775002--10775070 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
10774992 GTTATTGTTG
*
10775002 TTATTTTTATATATT-TTTTAATTT
1 TTATTTTTAT-TATTATTTGAATTT
10775026 TTATTTTTATTATTATTATGAATTT
1 TTATTTTTATTATTATT-TGAATTT
10775051 TT-TTATTTACTTACTTATTT
1 TTATT-TTTA-TTA-TTATTT
10775071 TATATATATG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 4 0.10
24 14 0.36
25 12 0.31
26 4 0.10
27 5 0.13
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (24 bp):
TTATTTTTATTATTATTTGAATTT
Found at i:10775763 original size:21 final size:22
Alignment explanation
Indices: 10775706--10775766 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
10775696 TCTCTCTCCC
* *
10775706 TCGGCGGATCTCTCTCCTTCTG
1 TCGGCCGATCTCTCTCTTTCTG
*
10775728 TCGGCCGATCCCTCTCTTTC-G
1 TCGGCCGATCTCTCTCTTTCTG
**
10775749 TCGGCCTCTCTCTCTCTT
1 TCGGCCGATCTCTCTCTT
10775767 CTCTCTACTC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.03, C:0.41, G:0.18, T:0.38
Consensus pattern (22 bp):
TCGGCCGATCTCTCTCTTTCTG
Found at i:10776057 original size:23 final size:21
Alignment explanation
Indices: 10776018--10776065 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 21
10776008 AGCCATCCCC
10776018 TTTTTTTTTTTAATTTATATA
1 TTTTTTTTTTTAATTTATATA
*
10776039 TTTTTCTTTATTTATTTTATATA
1 TTTTT-TTT-TTTAATTTATATA
10776062 TTTT
1 TTTT
10776066 ATTTGGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 3 0.12
23 16 0.67
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTTTAATTTATATA
Found at i:10777231 original size:14 final size:15
Alignment explanation
Indices: 10777203--10777245 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
10777193 AATATAGATT
10777203 TATGAAAATAATATA
1 TATGAAAATAATATA
10777218 TATGAAAA-AATATA
1 TATGAAAATAATATA
*
10777232 TATAATAAATAATA
1 TATGA-AAATAATA
10777246 AAAATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 10 0.40
15 11 0.44
16 4 0.16
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (15 bp):
TATGAAAATAATATA
Found at i:10786460 original size:27 final size:26
Alignment explanation
Indices: 10786430--10786570 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 26
10786420 CAAGAGCACA
*
10786430 TGAAAAAAATATTGTTACATGTCATGT
1 TGAAAAAAA-ATTGTTACACGTCATGT
* *
10786457 TGAAAAAAAAAGTTATCACACGTCATGT
1 TG-AAAAAAAA-TTGTTACACGTCATGT
* * *
10786485 TGATAAAAAAGTTCTTATACGTCATGT
1 TGA-AAAAAAATTGTTACACGTCATGT
*
10786512 TGAAAAAAAATTGGTACACGTCATGT
1 TGAAAAAAAATTGTTACACGTCATGT
* *
10786538 TAGAAAAAAAGTTTTTACACGTCATGT
1 T-GAAAAAAAATTGTTACACGTCATGT
10786565 TGAAAA
1 TGAAAA
10786571 GATGTTATTG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
26 25 0.26
27 43 0.45
28 28 0.29
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.31
Consensus pattern (26 bp):
TGAAAAAAAATTGTTACACGTCATGT
Found at i:10786546 original size:53 final size:54
Alignment explanation
Indices: 10786444--10786570 Score: 170
Period size: 53 Copynumber: 2.4 Consensus size: 54
10786434 AAAAATATTG
*
10786444 TTACATGTCATGTTGAAAAAAAAAGTTATCACACGTCATGTTGATAAAAAAGTTC
1 TTACACGTCATGTTG-AAAAAAAAGTTATCACACGTCATGTTGATAAAAAAGTTC
* * *
10786499 TTATACGTCATGTTGAAAAAAAA-TTGGT-ACACGTCATGTTAGA-AAAAAAGTTT
1 TTACACGTCATGTTGAAAAAAAAGTT-ATCACACGTCATGTT-GATAAAAAAGTTC
10786552 TTACACGTCATGTTGAAAA
1 TTACACGTCATGTTGAAAA
10786571 GATGTTATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
53 41 0.63
54 11 0.17
55 13 0.20
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (54 bp):
TTACACGTCATGTTGAAAAAAAAGTTATCACACGTCATGTTGATAAAAAAGTTC
Found at i:10786600 original size:80 final size:80
Alignment explanation
Indices: 10786432--10786617 Score: 216
Period size: 80 Copynumber: 2.3 Consensus size: 80
10786422 AGAGCACATG
10786432 AAAAAAATATTGTTACATGTCATGTTGAAAAAAAAAGTTATCACACGTCATGTTGATAAAAAAGT
1 AAAAAAA-ATTGTTACATGTCATGTTGAAAAAAAAAGTTATCACACGTCATGTTGATAAAAAAGT
10786497 TCTTATACGTCATGTT
65 TCTTATACGTCATGTT
* * * * * * *
10786513 GAAAAAAAATTGGTACACGTCATGTT-AGAAAAAAAGTTTTTACACGTCATGTTGA-AAAGATGT
1 -AAAAAAAATTGTTACATGTCATGTTGAAAAAAAAAGTTATCACACGTCATGTTGATAAAAAAG-
*
10786576 TATTGTTATACGTCATGTT
64 --TTCTTATACGTCATGTT
* *
10786595 -CAAAAAGTTGTTACATGTCATGT
1 AAAAAAAATTGTTACATGTCATGT
10786618 AAAAATATTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.06
80 45 0.51
81 16 0.18
82 23 0.26
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (80 bp):
AAAAAAAATTGTTACATGTCATGTTGAAAAAAAAAGTTATCACACGTCATGTTGATAAAAAAGTT
CTTATACGTCATGTT
Found at i:10786600 original size:82 final size:82
Alignment explanation
Indices: 10786432--10786600 Score: 209
Period size: 82 Copynumber: 2.1 Consensus size: 82
10786422 AGAGCACATG
* *
10786432 AAAAAAATATTGTTACATGTCATGTTGAAAAAAAAAGTTATCACACGTCATGTTGATAAAAAAGT
1 AAAAAAATATTGGTACACGTCATGTTGAAAAAAAAAGTTATCACACGTCATGTTGATAAAAAAGT
*
10786497 TCTTATACGTCATGTTG
66 TCTTATACGTCATGTTC
* * * * *
10786514 AAAAAAA-ATTGGTACACGTCATGTT-AGAAAAAAAGTTTTTACACGTCATGTTGA-AAAGATGT
1 AAAAAAATATTGGTACACGTCATGTTGAAAAAAAAAGTTATCACACGTCATGTTGATAAAAAAG-
*
10786576 TATTGTTATACGTCATGTTC
65 --TTCTTATACGTCATGTTC
10786596 AAAAA
1 AAAAA
10786601 GTTGTTACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 5 0.07
80 26 0.35
81 16 0.21
82 28 0.37
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (82 bp):
AAAAAAATATTGGTACACGTCATGTTGAAAAAAAAAGTTATCACACGTCATGTTGATAAAAAAGT
TCTTATACGTCATGTTC
Found at i:10787458 original size:31 final size:31
Alignment explanation
Indices: 10787423--10787498 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
10787413 TGATAGGTAA
10787423 TTGTTCAATTTAGTTCATATACTAT-TGAATT
1 TTGTTCAATTTAGTTCATATACTATAT-AATT
* *
10787454 TTGTTCAATTTAATTCATGTACTATATAATT
1 TTGTTCAATTTAGTTCATATACTATATAATT
* *
10787485 TTGTTTAATGTAGT
1 TTGTTCAATTTAGT
10787499 CTTTATGACA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 38 0.97
32 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (31 bp):
TTGTTCAATTTAGTTCATATACTATATAATT
Found at i:10788379 original size:18 final size:18
Alignment explanation
Indices: 10788356--10788397 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10788346 AAGATATATC
10788356 TCTTTTATTCT-TTTTCTT
1 TCTTTT-TTCTCTTTTCTT
* *
10788374 TCTTTTTTGTCTTTTGTT
1 TCTTTTTTCTCTTTTCTT
10788392 TCTTTT
1 TCTTTT
10788398 CACGTAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (18 bp):
TCTTTTTTCTCTTTTCTT
Found at i:10796025 original size:28 final size:28
Alignment explanation
Indices: 10795991--10796063 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
10795981 TAATAAAGAG
*
10795991 CATGAAATTAATTTTAACTCCAATTGTA
1 CATGAAATTAATTTTAACTCCAATTGAA
* *
10796019 CTTGAAATTAATTTTAACTCCACTTGAA
1 CATGAAATTAATTTTAACTCCAATTGAA
10796047 CATGAAATTAATTTTAA
1 CATGAAATTAATTTTAA
10796064 TATTATGATC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (28 bp):
CATGAAATTAATTTTAACTCCAATTGAA
Found at i:10798483 original size:17 final size:16
Alignment explanation
Indices: 10798454--10798492 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
10798444 TCTTTGTAAT
10798454 TATTTTTAATTATATA
1 TATTTTTAATTATATA
*
10798470 TATTTTTATTTTATATA
1 TATTTTTA-ATTATATA
10798487 TATTTT
1 TATTTT
10798493 ATGAAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTTTAATTATATA
Found at i:10801935 original size:19 final size:19
Alignment explanation
Indices: 10801911--10801948 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10801901 ACTTCTAAAC
10801911 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
10801930 CTCAAATCATATTCCAATA
1 CTCAAATCATACTCCAATA
10801949 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:10806370 original size:19 final size:19
Alignment explanation
Indices: 10806346--10806383 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10806336 ACTTCTAAAC
10806346 CTCAAAACATACTCCAATA
1 CTCAAAACATACTCCAATA
* *
10806365 CTCAAATCATATTCCAATA
1 CTCAAAACATACTCCAATA
10806384 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAAACATACTCCAATA
Found at i:10811925 original size:19 final size:19
Alignment explanation
Indices: 10811901--10811938 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10811891 CCATTTGACT
10811901 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
10811920 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
10811939 ATTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:10815344 original size:2 final size:2
Alignment explanation
Indices: 10815337--10815361 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10815327 NNNNNNNNNN
10815337 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 T
10815362 TTTAACACCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10821332 original size:181 final size:181
Alignment explanation
Indices: 10821028--10821385 Score: 644
Period size: 181 Copynumber: 2.0 Consensus size: 181
10821018 CAACAAAAAC
**
10821028 AAACCAAATTTAATTGAGAGATACATGTAAGGAAGGAAAATTCCAACCCAATTTTGTTTTAATTG
1 AAACCAAATTTAATTGAGAGATACATAAAAGGAAGGAAAATTCCAACCCAATTTTGTTTTAATTG
* * *
10821093 AGAGACACATGCACCTAGCATTGAATTAAAAGAAAAACAAAATTCTTCAACAAGAAAAGAAATTA
66 AGAGACACATGCACCTAACATCGAATTAAAAGAAAAACAAAATTCTTCAAAAAGAAAAGAAATTA
10821158 CCAGAATTTGGGTGAGGGGAAGAATCTGAATCCAGCATAGACGGATTAACA
131 CCAGAATTTGGGTGAGGGGAAGAATCTGAATCCAGCATAGACGGATTAACA
10821209 AAACCAAATTTAATTGAGAGATACATAAAAGGAAGGAAAATTCCAACCCAATTTTGTTTTAATTG
1 AAACCAAATTTAATTGAGAGATACATAAAAGGAAGGAAAATTCCAACCCAATTTTGTTTTAATTG
* *
10821274 AGAGATACATGCACCTAATATCGAATTAAAAGAAAAACAAAATTCTTCAAAAAGAAAAGAAATTA
66 AGAGACACATGCACCTAACATCGAATTAAAAGAAAAACAAAATTCTTCAAAAAGAAAAGAAATTA
*
10821339 CCAGAATTTGGTTGAGGGGAAGAATCTGAATCCAGCATAGACGGATT
131 CCAGAATTTGGGTGAGGGGAAGAATCTGAATCCAGCATAGACGGATT
10821386 TAGTGACATG
Statistics
Matches: 169, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
181 169 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.24
Consensus pattern (181 bp):
AAACCAAATTTAATTGAGAGATACATAAAAGGAAGGAAAATTCCAACCCAATTTTGTTTTAATTG
AGAGACACATGCACCTAACATCGAATTAAAAGAAAAACAAAATTCTTCAAAAAGAAAAGAAATTA
CCAGAATTTGGGTGAGGGGAAGAATCTGAATCCAGCATAGACGGATTAACA
Found at i:10821681 original size:19 final size:20
Alignment explanation
Indices: 10821649--10821687 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
10821639 GAGATCATTA
*
10821649 CAATTATGAGTAAA-AATTT
1 CAATTATAAGTAAATAATTT
*
10821668 CAATTATAATTAAATAATTT
1 CAATTATAAGTAAATAATTT
10821688 TCTCATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
CAATTATAAGTAAATAATTT
Found at i:10822083 original size:26 final size:26
Alignment explanation
Indices: 10822033--10822085 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
10822023 AAATTGTACA
*
10822033 GGACTAAATATTATAATAATTAACAT
1 GGACTAAATATTATAATAATGAACAT
*
10822059 GGACTAAATATT-TAATTAGTGAACAT
1 GGACTAAATATTATAA-TAATGAACAT
10822085 G
1 G
10822086 CAAAGATCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (26 bp):
GGACTAAATATTATAATAATGAACAT
Found at i:10825063 original size:72 final size:71
Alignment explanation
Indices: 10824972--10825645 Score: 737
Period size: 72 Copynumber: 9.4 Consensus size: 71
10824962 AACAAGGTTA
* * * *
10824972 CCAATTGAGTTAGGCAATGCTCCAGAAAAATTCGTAGAACTTAAATCCAAAACTTTCAATGAAAC
1 CCAATGGAATTAGGCAATGCTCCAGAAAGATTCGTAGAACTTAGATCCAAAA-TTTCAATGAAAC
10825037 TAAATTG
65 TAAATTG
* * * * *
10825044 CCAATGGAAGTAGGCAATGCTCCAGAGAGGGA-T-GT-GCCACTTAGAACCAAATATCTCAATGA
1 CCAATGGAATTAGGCAATGCTCCAGA-A-AGATTCGTAG-AACTTAGATCCAAA-ATTTCAATGA
10825106 AACTAAATTG
62 AACTAAATTG
* * *
10825116 CCAATGGAATTAGGCAATGCTCCAGAAATATTCGTAAAACTTAGAGCCAAAATTTCCAATGAAAC
1 CCAATGGAATTAGGCAATGCTCCAGAAAGATTCGTAGAACTTAGATCCAAAATTT-CAATGAAAC
10825181 TAAATTG
65 TAAATTG
* * * ***
10825188 CCAATCGAATTAGGCAATGCTCCAGAAATATTCGTAAAACTTAGGGACAAAATTTCCAATGAAAC
1 CCAATGGAATTAGGCAATGCTCCAGAAAGATTCGTAGAACTTAGATCCAAAATTT-CAATGAAAC
10825253 TAAATTG
65 TAAATTG
* *** * * *
10825260 CCAATGGAATTAGGTAATGCTCCA-AAGAGGGACGTCGTACTTAGATCCAAATGTTTCAATGAAA
1 CCAATGGAATTAGGCAATGCTCCAGAA-AGATTCGTAGAACTTAGATCCAAA-ATTTCAATGAAA
10825324 CTAAATTG
64 CTAAATTG
* *** * *
10825332 CCAATGGAATTAGGCAATGCTCCAGAGAGGGGCGTGGAACGTAGATCCAAATATTTCAATGAAAC
1 CCAATGGAATTAGGCAATGCTCCAGAAAGATTCGTAGAACTTAGATCCAAA-ATTTCAATGAAAC
10825397 TAAATTG
65 TAAATTG
* * * * * * *
10825404 CCAATAGATTTAGGCAATACTCCAGAAAGCTTTGTAAAACTTAGATCCAAATCTTTCAATGAAAC
1 CCAATGGAATTAGGCAATGCTCCAGAAAGATTCGTAGAACTTAGATCCAAA-ATTTCAATGAAAC
10825469 TAAATTG
65 TAAATTG
* * * *
10825476 CCAATGGAATTAGGCAATGCTCTAGAAAAATTCGTAAAACTTAGAGCCAAAATTTCCAATGAAAC
1 CCAATGGAATTAGGCAATGCTCCAGAAAGATTCGTAGAACTTAGATCCAAAATTT-CAATGAAAC
10825541 TAAATTG
65 TAAATTG
* * *** * * *
10825548 CCAATGGAATTAGGTAATGCTCCAGAGAGGGACAT-GAAACTTAGATCTAAATCTTTCAATGAAA
1 CCAATGGAATTAGGCAATGCTCCAGAAAGATTCGTAG-AACTTAGATCCAAA-ATTTCAATGAAA
10825612 CTAAATTG
64 CTAAATTG
10825620 CCAATGGAATTAGGCAATGCTCCAGA
1 CCAATGGAATTAGGCAATGCTCCAGA
10825646 GAGGGACGTG
Statistics
Matches: 515, Mismatches: 73, Indels: 28
0.84 0.12 0.05
Matches are distributed among these distances:
70 1 0.00
71 11 0.02
72 492 0.96
73 10 0.02
74 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (71 bp):
CCAATGGAATTAGGCAATGCTCCAGAAAGATTCGTAGAACTTAGATCCAAAATTTCAATGAAACT
AAATTG
Found at i:10829586 original size:2 final size:2
Alignment explanation
Indices: 10829579--10829638 Score: 56
Period size: 2 Copynumber: 31.0 Consensus size: 2
10829569 TTTGCCCAAT
* *
10829579 TA TA TA TA TA TA TA TA TA TA TA -A CTA CTA T- TT TA -A NA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA -TA TA TA TA TA TA TA TA
10829619 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
10829639 AACTACATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
1 4 0.08
2 43 0.84
3 4 0.08
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10829628 original size:38 final size:37
Alignment explanation
Indices: 10829576--10829654 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 37
10829566 CCCTTTGCCC
10829576 AATTATATATATATATATATATAT-AACTACTATTTTA
1 AATTATATATATATATATATATATAAACTAC-ATTTTA
*
10829613 ANATTATATATATATATATATATATAAACTACATTTTT
1 A-ATTATATATATATATATATATATAAACTACATTTTA
10829651 AATT
1 AATT
10829655 TTTAATTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
37 4 0.10
38 29 0.74
39 6 0.15
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.48
Consensus pattern (37 bp):
AATTATATATATATATATATATATAAACTACATTTTA
Found at i:10830200 original size:93 final size:93
Alignment explanation
Indices: 10830040--10830579 Score: 735
Period size: 93 Copynumber: 5.8 Consensus size: 93
10830030 GCCTTACATG
* *
10830040 CATGCCAATAAAGTCTATGTTATATACCGAAAATGTGACATGTGTTTAA--GTGAATGTTGAATA
1 CATGCCAATAAAGTCTATG-TATATGCCGAAAATGTGACATGTATTTAATGGTGAATGTTGAATA
10830103 TATATCAAATAGTTAGTCTCTGGACCTTA
65 TATATCAAATAGTTAGTCTCTGGACCTTA
* * * *
10830132 CATGCCAATAAAATCTATGTATATGCC-ACAAATGTGATATATATTCAATGGTGAATGTTGAATA
1 CATGCCAATAAAGTCTATGTATATGCCGA-AAATGTGACATGTATTTAATGGTGAATGTTGAATA
* *
10830196 TATATCAAATAGTTAGTCTTTGAACCTTA
65 TATATCAAATAGTTAGTCTCTGGACCTTA
* * * * *
10830225 CATACCAATAAAATCTATGTATACGCCAAAAATGTGCCATGTATTTAATGGTGAATGTTGAATAT
1 CATGCCAATAAAGTCTATGTATATGCCGAAAATGTGACATGTATTTAATGGTGAATGTTGAATAT
* *
10830290 ATATCAAACAGTTTGTCTCTGGACCTTA
66 ATATCAAATAGTTAGTCTCTGGACCTTA
*
10830318 CATGCCAATAAAGTCTATGTATATGCCGAAAATGTGACATGTATTTAATGGTGAAGGTTGAATAT
1 CATGCCAATAAAGTCTATGTATATGCCGAAAATGTGACATGTATTTAATGGTGAATGTTGAATAT
* *
10830383 ATATCAAATAGTTAGTCTTTGGACTTTA
66 ATATCAAATAGTTAGTCTCTGGACCTTA
* * * * *
10830411 CATGCCTATGAAGTCTTTGTATATGCCGAAAATGTGACGTGTATTTAAGGGTGATTAATGTTGAA
1 CATGCCAATAAAGTCTATGTATATGCCGAAAATGTGACATGTATTTAATGGTG---AATGTTGAA
* * *
10830476 TATATATCAAACAGCTAGCCTCTGGACCTTA
63 TATATATCAAATAGTTAGTCTCTGGACCTTA
* ** * *
10830507 CATGCCTATAAAGTCTATGTATATGTTGAAAATGTGACGTGTATTTAATGGTGAATGTTGAACAT
1 CATGCCAATAAAGTCTATGTATATGCCGAAAATGTGACATGTATTTAATGGTGAATGTTGAATAT
10830572 ATATCAAA
66 ATATCAAA
10830580 GTCTGTGGAC
Statistics
Matches: 396, Mismatches: 45, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
90 1 0.00
91 22 0.06
92 18 0.05
93 272 0.69
94 1 0.00
96 82 0.21
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (93 bp):
CATGCCAATAAAGTCTATGTATATGCCGAAAATGTGACATGTATTTAATGGTGAATGTTGAATAT
ATATCAAATAGTTAGTCTCTGGACCTTA
Found at i:10834505 original size:10 final size:10
Alignment explanation
Indices: 10834485--10834521 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
10834475 CCAAAAATCA
10834485 AAAAGAATACC
1 AAAA-AATACC
10834496 AAAAAATACC
1 AAAAAATACC
10834506 AAAAAAT--C
1 AAAAAATACC
10834514 AAAAAATA
1 AAAAAATA
10834522 TACACAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.32
10 13 0.52
11 4 0.16
ACGTcount: A:0.73, C:0.14, G:0.03, T:0.11
Consensus pattern (10 bp):
AAAAAATACC
Found at i:10834625 original size:34 final size:34
Alignment explanation
Indices: 10834583--10834798 Score: 207
Period size: 34 Copynumber: 6.3 Consensus size: 34
10834573 ATTTTTAGGG
* *
10834583 GGATAAAGCTTGGGTATTTGCCACCGGTTAGAGT
1 GGATAAAGCTTGGGTAGTTGCCACCGGTTAGAGA
* * *
10834617 GGGTAAAGCTTGGGTTAGTTGCCGCCGGTTAGGGA
1 GGATAAAGCTTGGG-TAGTTGCCACCGGTTAGAGA
* * ** * *
10834652 GGATAAAGCTTGAGTATTTGCTGCCAGTTAGAGG
1 GGATAAAGCTTGGGTAGTTGCCACCGGTTAGAGA
* * *
10834686 GGATAAAGCTTGGTTAGTTGCCACTGGTTAGAGT
1 GGATAAAGCTTGGGTAGTTGCCACCGGTTAGAGA
* * ** *
10834720 GGGTAAAGCTTGGGTTAGTTGCCGCCAATTAGGGA
1 GGATAAAGCTTGGG-TAGTTGCCACCGGTTAGAGA
* * * *
10834755 GGATAAAACTTAGGTATTTACCACCGGTTAGAGA
1 GGATAAAGCTTGGGTAGTTGCCACCGGTTAGAGA
10834789 GGATAAAGCT
1 GGATAAAGCT
10834799 GGGATCTATG
Statistics
Matches: 142, Mismatches: 38, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
34 89 0.63
35 53 0.37
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.28
Consensus pattern (34 bp):
GGATAAAGCTTGGGTAGTTGCCACCGGTTAGAGA
Found at i:10834658 original size:69 final size:67
Alignment explanation
Indices: 10834577--10834798 Score: 218
Period size: 69 Copynumber: 3.2 Consensus size: 67
10834567 TGGTTGATTT
* *
10834577 TTAGGGGGATAAAGCTTGGGTATTTGCCACCGGTTAGAGTGGG-TAAAGCTTGGGTTAGTTGCCG
1 TTAGGGGGATAAAGCTTGGGTATTTGCCACCAGTTAGAG-GGGATAAAGCTT-GGTTAGTTGCCA
10834641 CCGG
64 CCGG
* **
10834645 TTAGGGAGGATAAAGCTTGAGTATTTGCTGCCAGTTAGAGGGGATAAAGCTTGGTTAGTTGCCAC
1 TTAGGG-GGATAAAGCTTGGGTATTTGCCACCAGTTAGAGGGGATAAAGCTTGGTTAGTTGCCAC
*
10834710 TGG
65 CGG
* * * * * *
10834713 TTAGAGTGGG-TAAAGCTTGGGTTAGTTGCCGCCAATTAG-GGAGGATAAAACTTAGG-TATTTA
1 TTAG-G-GGGATAAAGCTTGGG-TATTTGCCACCAGTTAGAGG-GGATAAAGCTT-GGTTAGTTG
10834775 CCACCGG
61 CCACCGG
*
10834782 TTAGAGAGGATAAAGCT
1 TTAG-GGGGATAAAGCT
10834799 GGGATCTATG
Statistics
Matches: 131, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
68 41 0.31
69 87 0.66
70 3 0.02
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (67 bp):
TTAGGGGGATAAAGCTTGGGTATTTGCCACCAGTTAGAGGGGATAAAGCTTGGTTAGTTGCCACC
GG
Found at i:10834760 original size:103 final size:103
Alignment explanation
Indices: 10834577--10834798 Score: 322
Period size: 103 Copynumber: 2.2 Consensus size: 103
10834567 TGGTTGATTT
*
10834577 TTAG-GGGGATAAAGCTTGGGTATTTGCCACCGGTTAGAGTGGGTAAAGCTTGGGTTAGTTGCCG
1 TTAGAGGGGATAAAGCTTGGGTAGTTGCCACCGGTTAGAGTGGGTAAAGCTTGGGTTAGTTGCCG
** * * **
10834641 CCGGTTAGGGAGGATAAAGCTT-GAGTATTTGCTGCCAG
66 CCAATTAGGGAGGATAAAACTTAG-GTATTTACCACCAG
* *
10834679 TTAGAGGGGATAAAGCTTGGTTAGTTGCCACTGGTTAGAGTGGGTAAAGCTTGGGTTAGTTGCCG
1 TTAGAGGGGATAAAGCTTGGGTAGTTGCCACCGGTTAGAGTGGGTAAAGCTTGGGTTAGTTGCCG
*
10834744 CCAATTAGGGAGGATAAAACTTAGGTATTTACCACCGG
66 CCAATTAGGGAGGATAAAACTTAGGTATTTACCACCAG
*
10834782 TTAGAGAGGATAAAGCT
1 TTAGAGGGGATAAAGCT
10834799 GGGATCTATG
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
102 4 0.04
103 102 0.95
104 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (103 bp):
TTAGAGGGGATAAAGCTTGGGTAGTTGCCACCGGTTAGAGTGGGTAAAGCTTGGGTTAGTTGCCG
CCAATTAGGGAGGATAAAACTTAGGTATTTACCACCAG
Found at i:10835582 original size:2 final size:2
Alignment explanation
Indices: 10835575--10835608 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10835565 ATAGTCTTAA
10835575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10835609 GAATAATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10835721 original size:3 final size:3
Alignment explanation
Indices: 10835713--10835762 Score: 75
Period size: 3 Copynumber: 16.3 Consensus size: 3
10835703 GTAAAACGTA
10835713 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAAT AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT
10835759 AAT A
1 AAT A
10835763 TAGCTTTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10835744 original size:22 final size:22
Alignment explanation
Indices: 10835716--10835760 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
10835706 AAACGTAAAT
10835716 AATAAT-AATAATAATAATAATA
1 AATAATAAATAA-AATAATAATA
10835738 AATAATAAATAAAATAATAATA
1 AATAATAAATAAAATAATAATA
10835760 A
1 A
10835761 TATAGCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAAATAAAATAATAATA
Found at i:10835745 original size:25 final size:25
Alignment explanation
Indices: 10835711--10835762 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
10835701 AAGTAAAACG
10835711 TAAATAAT-AATAATAATAATAATAA
1 TAAATAATAAATAA-AATAATAATAA
10835736 TAAATAATAAATAAAATAATAATAA
1 TAAATAATAAATAAAATAATAATAA
10835761 TA
1 TA
10835763 TAGCTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
TAAATAATAAATAAAATAATAATAA
Found at i:10836077 original size:3 final size:3
Alignment explanation
Indices: 10836069--10836093 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10836059 TGTCCAAAAG
10836069 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
10836094 AATTTGTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10836198 original size:24 final size:25
Alignment explanation
Indices: 10836137--10836186 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10836127 ATAAAGAGAT
10836137 GAATAACAAAAATTGTTAATGGTGG
1 GAATAACAAAAATTGTTAATGGTGG
10836162 GAATAACAAAAATTGTTAATGGTGG
1 GAATAACAAAAATTGTTAATGGTGG
10836187 AAAATTCAAA
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:0.44, C:0.04, G:0.24, T:0.28
Consensus pattern (25 bp):
GAATAACAAAAATTGTTAATGGTGG
Found at i:10836316 original size:13 final size:13
Alignment explanation
Indices: 10836296--10836354 Score: 77
Period size: 13 Copynumber: 4.5 Consensus size: 13
10836286 AAAAAAGGAT
10836296 AAAT-AATAATAA
1 AAATAAATAATAA
*
10836308 TAATAAATAGATAAA
1 AAATAAATA-AT-AA
10836323 AAATAAA-AATAA
1 AAATAAATAATAA
10836335 AAATAAATAATAA
1 AAATAAATAATAA
10836348 AAATAAA
1 AAATAAA
10836355 CTTCACAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
12 12 0.29
13 18 0.44
14 3 0.07
15 8 0.20
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
AAATAAATAATAA
Found at i:10836326 original size:27 final size:26
Alignment explanation
Indices: 10836296--10836354 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
10836286 AAAAAAGGAT
* *
10836296 AAATAATAATAATAATAAATAGATAAA
1 AAATAAAAATAAAAATAAATA-ATAAA
10836323 AAATAAAAATAAAAATAAATAAT-AA
1 AAATAAAAATAAAAATAAATAATAAA
10836348 AAATAAA
1 AAATAAA
10836355 CTTCACAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 9 0.30
26 2 0.07
27 19 0.63
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (26 bp):
AAATAAAAATAAAAATAAATAATAAA
Found at i:10836354 original size:6 final size:6
Alignment explanation
Indices: 10836296--10836354 Score: 64
Period size: 6 Copynumber: 9.2 Consensus size: 6
10836286 AAAAAAGGAT
* *
10836296 AAATAA TAATAA TAATAA ATAGATAAA AAATAA AAATAA AAATAA ATAATAA
1 AAATAA AAATAA AAATAA A-A-AT-AA AAATAA AAATAA AAATAA A-AATAA
10836348 AAATAA A
1 AAATAA A
10836355 CTTCACAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
6 32 0.68
7 9 0.19
8 3 0.06
9 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (6 bp):
AAATAA
Found at i:10839861 original size:2 final size:2
Alignment explanation
Indices: 10839854--10839944 Score: 75
Period size: 2 Copynumber: 47.0 Consensus size: 2
10839844 TGGCTTTTTA
* * *
10839854 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT CT AT AC A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* **
10839895 AT A- AT A- AT AGT A- AT A- ANN NN AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
10839935 AT AT AT AT AT
1 AT AT AT AT AT
10839945 GTCTATCCAA
Statistics
Matches: 75, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
1 5 0.07
2 68 0.91
3 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:10840863 original size:56 final size:54
Alignment explanation
Indices: 10840816--10840967 Score: 180
Period size: 56 Copynumber: 2.7 Consensus size: 54
10840806 GGTACTGTAG
* *
10840816 TCATTACTTACAGATTTCTGTTGAAAATTACCAACGAAATTCTATCGGTAATTTAC
1 TCATTACTTACGGATTT-TGTTG-AAATTACCAACGAAATTCTATCGGTAATTTAA
* * * *
10840872 TCATTACCTATGGATTTTTGTTGGAAATTACCAACAAAATTTTATCGGTAATTTAA
1 TCATTACTTACGGA-TTTTGTT-GAAATTACCAACGAAATTCTATCGGTAATTTAA
* *
10840928 TCATTA-TCTACGGATTTTGTTGGAATTACCAACGGAATTC
1 TCATTACT-TACGGATTTTGTTGAAATTACCAACGAAATTC
10840968 CTTCAATAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
54 15 0.19
55 7 0.09
56 55 0.68
57 4 0.05
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (54 bp):
TCATTACTTACGGATTTTGTTGAAATTACCAACGAAATTCTATCGGTAATTTAA
Found at i:10843472 original size:13 final size:13
Alignment explanation
Indices: 10843454--10843478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10843444 TATTTAAGCA
10843454 ATAAATTAATTAT
1 ATAAATTAATTAT
10843467 ATAAATTAATTA
1 ATAAATTAATTA
10843479 ATTGTTTAGG
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAATTAATTAT
Found at i:10870019 original size:19 final size:19
Alignment explanation
Indices: 10869995--10870032 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10869985 CCATTTGACT
*
10869995 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
10870014 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
10870033 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:10882843 original size:15 final size:14
Alignment explanation
Indices: 10882821--10882859 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
10882811 TATATTTTTC
10882821 AAAAAAAAACAAGA
1 AAAAAAAAACAAGA
*
10882835 AATAAAAAAATAAGA
1 AA-AAAAAAACAAGA
*
10882850 TAAAAAAAAC
1 AAAAAAAAAC
10882860 TTTGCATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (14 bp):
AAAAAAAAACAAGA
Found at i:10885984 original size:21 final size:18
Alignment explanation
Indices: 10885943--10885987 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
10885933 TATAAATCTC
*
10885943 ATTTTTATTAAAAAAAAT
1 ATTTTAATTAAAAAAAAT
10885961 ATTTTAATTGAAAAACATAAT
1 ATTTTAATT-AAAAA-A-AAT
10885982 ATTTTA
1 ATTTTA
10885988 TAATTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 5 0.22
20 1 0.04
21 9 0.39
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTTTAATTAAAAAAAAT
Found at i:10886850 original size:22 final size:23
Alignment explanation
Indices: 10886807--10886850 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
10886797 CTACCTTTTT
* **
10886807 CACTTGTTTTTCTTGATTTTCCA
1 CACTTGTTTCTCTTGAAATTCCA
10886830 CACTT-TTTCTCTTGAAATTCC
1 CACTTGTTTCTCTTGAAATTCC
10886851 TCACCTAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.16, C:0.25, G:0.07, T:0.52
Consensus pattern (23 bp):
CACTTGTTTCTCTTGAAATTCCA
Found at i:10887131 original size:27 final size:28
Alignment explanation
Indices: 10887101--10887153 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
10887091 TGTCCTGGTG
*
10887101 GTGG-AAAATTACAATTTTGCCCCTAGA
1 GTGGCAAAATTACAATTTTACCCCTAGA
*
10887128 GTGGCAAAATTACCATTTTACCCCTA
1 GTGGCAAAATTACAATTTTACCCCTA
10887154 TACTCCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (28 bp):
GTGGCAAAATTACAATTTTACCCCTAGA
Found at i:10887220 original size:19 final size:19
Alignment explanation
Indices: 10887196--10887233 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10887186 ACTTCTAAAC
10887196 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
10887215 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
10887234 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:10887930 original size:36 final size:36
Alignment explanation
Indices: 10887847--10888050 Score: 240
Period size: 36 Copynumber: 5.8 Consensus size: 36
10887837 CAAGCACTTG
* *
10887847 ATTAAAATTGTTTAATT-AA--GTTGTGCCTAATTA
1 ATTAAAATTATTTAATTAAATTGTTGGGCCTAATTA
**
10887880 ATT-AAATTATTTAATTAAATCATTGGGCCTAATTA
1 ATTAAAATTATTTAATTAAATTGTTGGGCCTAATTA
10887915 ATTAAAATTATTTAATTAAATTGTTGGGCCTAATTA
1 ATTAAAATTATTTAATTAAATTGTTGGGCCTAATTA
*
10887951 ATTAAAATTATTTAATTAAATTGTTGGGCTTAATTA
1 ATTAAAATTATTTAATTAAATTGTTGGGCCTAATTA
* * * * *
10887987 ATT-AAATTGTTTAATTAAGTTATCGGGCCTAATTG
1 ATTAAAATTATTTAATTAAATTGTTGGGCCTAATTA
** *
10888022 ATT-AAATTAAATAATTAAGTTAGTTGGGC
1 ATTAAAATTATTTAATTAAATT-GTTGGGC
10888051 TTCTATAGGA
Statistics
Matches: 149, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
32 12 0.08
33 5 0.03
35 59 0.40
36 73 0.49
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.44
Consensus pattern (36 bp):
ATTAAAATTATTTAATTAAATTGTTGGGCCTAATTA
Found at i:10888000 original size:71 final size:71
Alignment explanation
Indices: 10887847--10888052 Score: 258
Period size: 71 Copynumber: 2.9 Consensus size: 71
10887837 CAAGCACTTG
* ** *
10887847 ATTAAAATTGTTTAATT-AA--GTTGTGCCTAATTAATTAAATTATTTAATTAAATCATTGGGCC
1 ATTAAAATTGTTTAATTAAATTGTTGGGCCTAATTAATTAAATTATTTAATTAAATTGTTGGGCT
10887909 TAATTA
66 TAATTA
*
10887915 ATTAAAATTATTTAATTAAATTGTTGGGCCTAATTAATTAAAATTATTTAATTAAATTGTTGGGC
1 ATTAAAATTGTTTAATTAAATTGTTGGGCCTAATTAATT-AAATTATTTAATTAAATTGTTGGGC
10887980 TTAATTA
65 TTAATTA
* * * * ** *
10887987 ATT-AAATTGTTTAATTAAGTTATCGGGCCTAATTGATTAAATTAAATAATTAAGTTAGTTGGGC
1 ATTAAAATTGTTTAATTAAATTGTTGGGCCTAATTAATTAAATTATTTAATTAAATT-GTTGGGC
10888051 TT
65 TT
10888053 CTATAGGACT
Statistics
Matches: 120, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
68 16 0.13
69 2 0.02
70 15 0.12
71 55 0.46
72 32 0.27
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (71 bp):
ATTAAAATTGTTTAATTAAATTGTTGGGCCTAATTAATTAAATTATTTAATTAAATTGTTGGGCT
TAATTA
Found at i:10932743 original size:37 final size:37
Alignment explanation
Indices: 10932702--10932773 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
10932692 TCGCGACGGT
* * *
10932702 TGTCACGGGCCCGATGGGAGT-TTCGGGTCGTGACAGA
1 TGTCACAGGCCCGAGGGGAGTACT-GGGTCGTGACAGA
*
10932739 TGTCACAGGCTCGAGGGGAGTACTGGGTCGTGACA
1 TGTCACAGGCCCGAGGGGAGTACTGGGTCGTGACA
10932774 TAAAATTTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 29 0.97
38 1 0.03
ACGTcount: A:0.18, C:0.21, G:0.40, T:0.21
Consensus pattern (37 bp):
TGTCACAGGCCCGAGGGGAGTACTGGGTCGTGACAGA
Found at i:10935452 original size:87 final size:87
Alignment explanation
Indices: 10935346--10935546 Score: 235
Period size: 87 Copynumber: 2.3 Consensus size: 87
10935336 TGTGAATTTG
* * * *
10935346 TATTTAATCTATCAAAAGACATAATTTA-CATTTTTTTTTGGAAAAAAATTGAAGGCCATC-ATT
1 TATTTAATATATCAAAAGACATAATTTATCATTTTTTTTTAGAAAAAAATGGAAGACCATCTATT
*
10935409 TAATTTTAACTAGATATGATTTTA
66 TAATTTCAA--AGATATGATTTTA
* * * ** * *
10935433 TATTTCATTTATCAAAAGACATAACTTATTTTTTTTTTTTAGAAAAAAATGGAAGACTATCTTTT
1 TATTTAATATATCAAAAGACATAATTTATCATTTTTTTTTAGAAAAAAATGGAAGACCATCTATT
*
10935498 TAATTTCAAAGATATGATTTTT
66 TAATTTCAAAGATATGATTTTA
* *
10935520 TATTTAATATATCAAAAAACATGATTT
1 TATTTAATATATCAAAAGACATAATTT
10935547 TCTATTTCTA
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
87 59 0.62
88 26 0.27
89 10 0.11
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (87 bp):
TATTTAATATATCAAAAGACATAATTTATCATTTTTTTTTAGAAAAAAATGGAAGACCATCTATT
TAATTTCAAAGATATGATTTTA
Found at i:10944899 original size:26 final size:26
Alignment explanation
Indices: 10944870--10944924 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
10944860 ATTTAATATC
* *
10944870 AATAATCATAAAAACAATTATAAAAA
1 AATAATAATAAAAACAAGTATAAAAA
* * *
10944896 AATAATAATAACATCAAGTATAATAA
1 AATAATAATAAAAACAAGTATAAAAA
10944922 AAT
1 AAT
10944925 TCAACACAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.25
Consensus pattern (26 bp):
AATAATAATAAAAACAAGTATAAAAA
Found at i:10945611 original size:33 final size:31
Alignment explanation
Indices: 10945551--10945624 Score: 105
Period size: 32 Copynumber: 2.4 Consensus size: 31
10945541 TTTTAATGTC
*
10945551 ATATATTTTATTTTATTTCTTATTATAATATT
1 ATATATTTTATTTTATTTCTTAATATAAT-TT
10945583 ATATATTTTATTTTCATTTCTTAATATAATTT
1 ATATATTTTATTTT-ATTTCTTAATATAATTT
*
10945615 -TCTATTTTAT
1 ATATATTTTAT
10945625 ATATTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
31 9 0.23
32 16 0.41
33 14 0.36
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (31 bp):
ATATATTTTATTTTATTTCTTAATATAATTT
Found at i:10959590 original size:27 final size:27
Alignment explanation
Indices: 10959539--10959590 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
10959529 ATGTCCTGGT
*
10959539 GGTGGAAAATTACAATTTTGCCCCTAG
1 GGTGGAAAATTACAATTTTGACCCTAG
*
10959566 GGTGGTAAAATTACTATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
10959591 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTAG
Found at i:10959668 original size:20 final size:20
Alignment explanation
Indices: 10959645--10959682 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10959635 CTCAAAATCT
10959645 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
10959665 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
10959683 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:10972495 original size:23 final size:23
Alignment explanation
Indices: 10972467--10972511 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10972457 CAACATAAAC
10972467 TTTTTCTAAATCACATAAGAATA
1 TTTTTCTAAATCACATAAGAATA
10972490 TTTTTCTAAATCACATAAGAAT
1 TTTTTCTAAATCACATAAGAAT
10972512 TCTAAGCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (23 bp):
TTTTTCTAAATCACATAAGAATA
Found at i:10975152 original size:15 final size:15
Alignment explanation
Indices: 10975129--10975166 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
10975119 AAAAATTAAT
*
10975129 TAAAA-AAATAATAA
1 TAAAATAAATAAAAA
10975143 TAAAATAAATAAAAA
1 TAAAATAAATAAAAA
10975158 T-AAATAAAT
1 TAAAATAAAT
10975167 TGTAACTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAATAAATAAAAA
Found at i:10983033 original size:20 final size:20
Alignment explanation
Indices: 10983016--10983053 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10983006 CCTCAAATCT
10983016 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
*
10983036 TACTCCAATAAGTGAAAT
1 TACTCCAATAAGTCAAAT
10983054 GGGCCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:10987324 original size:5 final size:5
Alignment explanation
Indices: 10987310--10987349 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
10987300 CTATTCAATC
* * *
10987310 TAACC TAACT TAACT TAATT TAACT TATCT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT
10987350 GGACTTGGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (5 bp):
TAACT
Found at i:10987411 original size:15 final size:15
Alignment explanation
Indices: 10987391--10987436 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
10987381 TCCTTAAAAC
10987391 AACTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
10987406 AACTTTAAAATCCAA
1 AACTTTAAAATCAAA
* *
10987421 AGCTTTAAAACCAAA
1 AACTTTAAAATCAAA
10987436 A
1 A
10987437 TATCTTATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:10989810 original size:27 final size:27
Alignment explanation
Indices: 10989754--10989810 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
10989744 NNNAAAATGT
*
10989754 CCTGGTGGTGGAAAATTACAATTTGCC
1 CCTGGTGGTGGAAAATTACAATTTGAC
* *
10989781 CCTGG-GGTGGCAAAATTACCATTTTAC
1 CCTGGTGGTGG-AAAATTACAATTTGAC
10989808 CCT
1 CCT
10989811 TTTACTCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (27 bp):
CCTGGTGGTGGAAAATTACAATTTGAC
Found at i:10994744 original size:24 final size:22
Alignment explanation
Indices: 10994714--10994774 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 22
10994704 AAAGAATGAG
*
10994714 AAAAAGAAGGAAAGTAGAGAGAA
1 AAAAAGAAGGAAAGGAGAGAG-A
* *
10994737 ATAAAAGAGATGATGAGGAGAGAGA
1 A-AAAAGA-AGGA-AAGGAGAGAGA
10994762 AAAAAGAAGGAAA
1 AAAAAGAAGGAAA
10994775 AATTTGGAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
22 1 0.03
23 4 0.13
24 12 0.40
25 5 0.17
26 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (22 bp):
AAAAAGAAGGAAAGGAGAGAGA
Found at i:10994821 original size:20 final size:20
Alignment explanation
Indices: 10994796--10994845 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
10994786 GTGTCAGCCA
* * *
10994796 AAGAAAGAAGAATAAGAGAG
1 AAGAAAAAAGAAGAAGAAAG
10994816 AAGAAAAAAGAAGAAGAAAG
1 AAGAAAAAAGAAGAAGAAAG
10994836 AA-AAAAAAGA
1 AAGAAAAAAGA
10994846 GAAAAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (20 bp):
AAGAAAAAAGAAGAAGAAAG
Found at i:10994827 original size:10 final size:10
Alignment explanation
Indices: 10994799--10994852 Score: 58
Period size: 10 Copynumber: 5.3 Consensus size: 10
10994789 TCAGCCAAAG
10994799 AAAGAAGAATA
1 AAAGAAGAA-A
10994810 AGAGAGAAGAAA
1 A-A-AGAAGAAA
*
10994822 AAAGAAGAAG
1 AAAGAAGAAA
10994832 AAAGAA-AAA
1 AAAGAAGAAA
10994841 AAAG-AGAAA
1 AAAGAAGAAA
10994850 AAA
1 AAA
10994853 AGAGGATGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 1 0.03
9 12 0.32
10 13 0.34
11 2 0.05
12 3 0.08
13 7 0.18
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (10 bp):
AAAGAAGAAA
Found at i:10995047 original size:49 final size:50
Alignment explanation
Indices: 10994932--10995049 Score: 175
Period size: 51 Copynumber: 2.4 Consensus size: 50
10994922 AATTCAACTA
*
10994932 AAGGCCGACAGGAGGAGAGAAAGAAGAAAGGAAAGGAAATGAGAGAGAAGG
1 AAGGCCGACGGGAGGAGAGAAAGAAGAAAGGAAAGGAAAT-AGAGAGAAGG
*
10994983 AAGGCCGACGAGAGGAGAGAAAGAAGAAAGGAAAGGAAAT-GAGAGAAGG
1 AAGGCCGACGGGAGGAGAGAAAGAAGAAAGGAAAGGAAATAGAGAGAAGG
* **
10995032 AAGGTCGGTGGGAGGAGA
1 AAGGCCGACGGGAGGAGA
10995050 AGGGAGAGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 23 0.38
51 38 0.62
ACGTcount: A:0.47, C:0.06, G:0.43, T:0.03
Consensus pattern (50 bp):
AAGGCCGACGGGAGGAGAGAAAGAAGAAAGGAAAGGAAATAGAGAGAAGG
Found at i:10995061 original size:49 final size:50
Alignment explanation
Indices: 10994932--10995035 Score: 176
Period size: 51 Copynumber: 2.1 Consensus size: 50
10994922 AATTCAACTA
10994932 AAGGCCGAC-AGGAGGAGAGAAAGAAGAAAGGAAAGGAAATGAGAGAGAAGG
1 AAGGCCGACGA-GAGGAGAGAAAGAAGAAAGGAAAGGAAAT-AGAGAGAAGG
10994983 AAGGCCGACGAGAGGAGAGAAAGAAGAAAGGAAAGGAAAT-GAGAGAAGG
1 AAGGCCGACGAGAGGAGAGAAAGAAGAAAGGAAAGGAAATAGAGAGAAGG
10995032 AAGG
1 AAGG
10995036 TCGGTGGGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
49 13 0.25
51 38 0.73
52 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.41, T:0.02
Consensus pattern (50 bp):
AAGGCCGACGAGAGGAGAGAAAGAAGAAAGGAAAGGAAATAGAGAGAAGG
Found at i:11006532 original size:26 final size:27
Alignment explanation
Indices: 11006479--11006564 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
11006469 TCTCCTTAAC
* *
11006479 TTCTTTC-TATTGGGCCATGCCCATTT
1 TTCTTTCTTGTTGGGTCATGCCCATTT
*
11006505 TTCTTTCTTGTTGGGTCATGGCCATTT
1 TTCTTTCTTGTTGGGTCATGCCCATTT
* *
11006532 TTCTTTCTTGTTGGGTCGTGCCCGTTT
1 TTCTTTCTTGTTGGGTCATGCCCATTT
11006559 TTCTTT
1 TTCTTT
11006565 TCTTTTCTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 7 0.13
27 46 0.87
ACGTcount: A:0.06, C:0.22, G:0.20, T:0.52
Consensus pattern (27 bp):
TTCTTTCTTGTTGGGTCATGCCCATTT
Found at i:11006591 original size:4 final size:5
Alignment explanation
Indices: 11006557--11006588 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11006547 TCGTGCCCGT
11006557 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
11006589 CTTCCACCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:11009317 original size:21 final size:21
Alignment explanation
Indices: 11009291--11009379 Score: 115
Period size: 21 Copynumber: 4.2 Consensus size: 21
11009281 GTTCATGAAA
* *
11009291 TTCATGTCAAAGATTGATGCC
1 TTCATGACAAAGACTGATGCC
11009312 TTCATGACAAAGACTGATGCC
1 TTCATGACAAAGACTGATGCC
* *
11009333 TTCATGATAAAGACAGATGCC
1 TTCATGACAAAGACTGATGCC
* *
11009354 TTCATGACAAATACTAATGCC
1 TTCATGACAAAGACTGATGCC
*
11009375 ATCAT
1 TTCAT
11009380 TCAAAGTCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (21 bp):
TTCATGACAAAGACTGATGCC
Found at i:11009892 original size:19 final size:18
Alignment explanation
Indices: 11009859--11009894 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
11009849 TCGAAACTCT
11009859 TATTTTTTTAGTTATTTG
1 TATTTTTTTAGTTATTTG
*
11009877 TATTTTATTTATTTATTT
1 TATTTT-TTTAGTTATTT
11009895 TCATTAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (18 bp):
TATTTTTTTAGTTATTTG
Found at i:11011345 original size:21 final size:21
Alignment explanation
Indices: 11011319--11011358 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11011309 TATCTCTAGT
11011319 AGTAGTAATACTAGCAGTAAG
1 AGTAGTAATACTAGCAGTAAG
* *
11011340 AGTAGTAATAGTAGTAGTA
1 AGTAGTAATACTAGCAGTA
11011359 GTAACTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (21 bp):
AGTAGTAATACTAGCAGTAAG
Found at i:11013711 original size:8 final size:8
Alignment explanation
Indices: 11013700--11013757 Score: 77
Period size: 8 Copynumber: 7.6 Consensus size: 8
11013690 AAGCAAAGAG
11013700 AGAAAGGA
1 AGAAAGGA
11013708 AGAAAGG-
1 AGAAAGGA
11013715 AGAAAGGA
1 AGAAAGGA
*
11013723 ATAAAGGA
1 AGAAAGGA
*
11013731 AGAAAGAA
1 AGAAAGGA
11013739 AGAAAGG-
1 AGAAAGGA
11013746 AGAAA-GA
1 AGAAAGGA
11013753 AGAAA
1 AGAAA
11013758 AAAACTAAGG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
6 1 0.02
7 17 0.39
8 26 0.59
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.02
Consensus pattern (8 bp):
AGAAAGGA
Found at i:11013719 original size:15 final size:15
Alignment explanation
Indices: 11013688--11013757 Score: 88
Period size: 15 Copynumber: 4.5 Consensus size: 15
11013678 GGATCAGCTT
11013688 GGAAGCAAAGAGAGAAA
1 GGAAG-AAAG-GAGAAA
11013705 GGAAGAAAGGAGAAA
1 GGAAGAAAGGAGAAA
*
11013720 GGAATAAAGGAAGAAA
1 GGAAGAAAGG-AGAAA
*
11013736 GAAAGAAAGGAGAAA
1 GGAAGAAAGGAGAAA
11013751 -GAAGAAA
1 GGAAGAAA
11013758 AAAACTAAGG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
14 6 0.12
15 20 0.42
16 17 0.35
17 5 0.10
ACGTcount: A:0.63, C:0.01, G:0.34, T:0.01
Consensus pattern (15 bp):
GGAAGAAAGGAGAAA
Found at i:11015381 original size:2 final size:2
Alignment explanation
Indices: 11015374--11015399 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11015364 ATTGGATTTG
11015374 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
11015400 GGTTGAAATA
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:11015479 original size:2 final size:2
Alignment explanation
Indices: 11015472--11015498 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11015462 NNNNNNNNNN
11015472 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11015499 GGTTTGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11015538 original size:17 final size:19
Alignment explanation
Indices: 11015498--11015538 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
11015488 TATATATATA
*
11015498 TGGTTTGAAATAATTATCT
1 TGGTTTGAAATAAATATCT
11015517 T-GTTT-AAATAAAT-TCT
1 TGGTTTGAAATAAATATCT
11015533 TGGTTT
1 TGGTTT
11015539 TTCATATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 4 0.20
17 11 0.55
18 4 0.20
19 1 0.05
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (19 bp):
TGGTTTGAAATAAATATCT
Done.