Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold153
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: 3137677
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 14 of 24
Found at i:1830458 original size:18 final size:15
Alignment explanation
Indices: 1830437--1830502 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
1830427 TGATTTCAAA
1830437 ATTAATTATCAAAATAAT
1 ATTAATT-T-AAAAT-AT
1830455 ATTAATTTAAAATAT
1 ATTAATTTAAAATAT
1830470 ATT-A-TTAAAATAAT
1 ATTAATTTAAAAT-AT
*
1830484 ATTATATCT-AAATAT
1 ATTA-ATTTAAAATAT
1830499 ATTA
1 ATTA
1830503 TCAAAATACT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
13 7 0.16
14 6 0.14
15 11 0.26
16 10 0.23
17 2 0.05
18 7 0.16
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAATTTAAAATAT
Found at i:1830467 original size:29 final size:30
Alignment explanation
Indices: 1830441--1830517 Score: 113
Period size: 29 Copynumber: 2.6 Consensus size: 30
1830431 TTCAAAATTA
1830441 ATTATCAAAATAATATTA-ATTTAAAATAT
1 ATTATCAAAATAATATTATATTTAAAATAT
* *
1830470 ATTATTAAAATAATATTATATCT-AAATAT
1 ATTATCAAAATAATATTATATTTAAAATAT
*
1830499 ATTATCAAAATACTATTAT
1 ATTATCAAAATAATATTAT
1830518 TTTTGTCACA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 40 0.93
30 3 0.07
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (30 bp):
ATTATCAAAATAATATTATATTTAAAATAT
Found at i:1830477 original size:13 final size:13
Alignment explanation
Indices: 1830441--1830518 Score: 66
Period size: 14 Copynumber: 5.5 Consensus size: 13
1830431 TTCAAAATTA
*
1830441 ATTATCAAAATAAT
1 ATTATTAAAAT-AT
1830455 ATTAATTTAAAATAT
1 ATT-A-TTAAAATAT
1830470 ATTATTAAAATAAT
1 ATTATTAAAAT-AT
*
1830484 ATTATATCTAAATAT
1 ATTAT-T-AAAATAT
*
1830499 ATTATCAAAATACT
1 ATTATTAAAATA-T
1830513 ATTATT
1 ATTATT
1830519 TTTGTCACAT
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
13 12 0.23
14 17 0.32
15 14 0.26
16 10 0.19
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTATTAAAATAT
Found at i:1830814 original size:22 final size:21
Alignment explanation
Indices: 1830789--1830840 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
1830779 AAGTGACATC
*
1830789 ATATAAAAATA-AACTAAATAT
1 ATATAAAAATACAACGAAA-AT
1830810 AATATAAAAATACAACGAAAAT
1 -ATATAAAAATACAACGAAAAT
1830832 ATATAAAAA
1 ATATAAAAA
1830841 AAGATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 9 0.32
22 13 0.46
23 6 0.21
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
ATATAAAAATACAACGAAAAT
Found at i:1831458 original size:17 final size:17
Alignment explanation
Indices: 1831436--1831471 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1831426 TTTAAATAAA
1831436 TTTTTATATATTAATAT
1 TTTTTATATATTAATAT
* *
1831453 TTTTTATATTTTATTAT
1 TTTTTATATATTAATAT
1831470 TT
1 TT
1831472 AACAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTATATATTAATAT
Found at i:1831528 original size:18 final size:19
Alignment explanation
Indices: 1831505--1831547 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1831495 AAAATTTTAA
*
1831505 ATATTTATCAT-ATAAATT
1 ATATTTATCATAATAAAAT
*
1831523 ATATTTTTTCATAATAAAAT
1 ATA-TTTATCATAATAAAAT
1831543 ATATT
1 ATATT
1831548 CACCAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 9 0.43
20 9 0.43
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTTATCATAATAAAAT
Found at i:1831740 original size:14 final size:15
Alignment explanation
Indices: 1831721--1831759 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1831711 CCTGACACTA
1831721 TTTAAATAATA-TAT
1 TTTAAATAATATTAT
1831735 TTTAAAATAATATTAT
1 TTT-AAATAATATTAT
1831751 TTT-AATAAT
1 TTTAAATAAT
1831760 TAATTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTAAATAATATTAT
Found at i:1831744 original size:15 final size:16
Alignment explanation
Indices: 1831724--1831755 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1831714 GACACTATTT
1831724 AAATAATA-TATTTTA
1 AAATAATATTATTTTA
1831739 AAATAATATTATTTTA
1 AAATAATATTATTTTA
1831755 A
1 A
1831756 TAATTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATAATATTATTTTA
Found at i:1832224 original size:19 final size:22
Alignment explanation
Indices: 1832173--1832224 Score: 56
Period size: 25 Copynumber: 2.4 Consensus size: 22
1832163 TTTTAAAATA
1832173 AAATAAAATAATATTAATATTAT
1 AAATAAAATAATATT-ATATTAT
1832196 ATAATAAAAATAATATT-T-TT-T
1 A-AAT-AAAATAATATTATATTAT
1832217 AAATAAAA
1 AAATAAAA
1832225 AATTATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 4 0.15
20 3 0.11
21 2 0.07
22 2 0.07
23 2 0.07
24 3 0.11
25 11 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATAAAATAATATTATATTAT
Found at i:1832849 original size:22 final size:21
Alignment explanation
Indices: 1832824--1832864 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1832814 ATTAAAATAT
* *
1832824 TATTTTTATATTAATATTTATA
1 TATTATTAAATTAA-ATTTATA
1832846 TATTATTAAATTAAATTTA
1 TATTATTAAATTAAATTTA
1832865 AATAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTATTAAATTAAATTTATA
Found at i:1833857 original size:21 final size:20
Alignment explanation
Indices: 1833819--1833858 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1833809 TTTTGTTTTT
*
1833819 TTTTATCAATTTTATGTTAA
1 TTTTATCAATTTCATGTTAA
*
1833839 TTTTATTCAATTTCGTGTTA
1 TTTTA-TCAATTTCATGTTA
1833859 GAAATTTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTATCAATTTCATGTTAA
Found at i:1837538 original size:2 final size:2
Alignment explanation
Indices: 1837531--1837556 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1837521 TCTGGTTGAC
1837531 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
1837557 TCTCTGGATT
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:1838237 original size:2 final size:2
Alignment explanation
Indices: 1838232--1838275 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1838222 ATATATATAT
1838232 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1838274 AG
1 AG
1838276 GGGAAGGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1838664 original size:9 final size:9
Alignment explanation
Indices: 1838650--1838678 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1838640 TTTCTTCCTC
1838650 AAATAATTA
1 AAATAATTA
1838659 AAATAATTA
1 AAATAATTA
1838668 AAATAA-TA
1 AAATAATTA
1838676 AAA
1 AAA
1838679 CAACCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAATAATTA
Found at i:1839232 original size:24 final size:24
Alignment explanation
Indices: 1839205--1839260 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
1839195 TGGATAACGT
1839205 TTTATATAATTAATATT-TATTTAA
1 TTTATAT-ATTAATATTATATTTAA
* *
1839229 TTTACTAT-TTTATATTATATTTTA
1 TTTA-TATATTAATATTATATTTAA
1839253 TTTATATA
1 TTTATATA
1839261 GATCATTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 10 0.37
24 14 0.52
25 3 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTATATATTAATATTATATTTAA
Found at i:1843014 original size:15 final size:15
Alignment explanation
Indices: 1842994--1843032 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1842984 CGATAAAGAT
1842994 ATATATTTAATATGA
1 ATATATTTAATATGA
* * *
1843009 ATATATCTAATTTTA
1 ATATATTTAATATGA
1843024 ATATATTTA
1 ATATATTTA
1843033 GAAAATTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (15 bp):
ATATATTTAATATGA
Found at i:1844234 original size:12 final size:12
Alignment explanation
Indices: 1844200--1844236 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
1844190 AAGCATTAGC
* *
1844200 ACGATGACGACG
1 ACGATGACAATG
1844212 ACGATGACAATG
1 ACGATGACAATG
1844224 ACGATGACAATG
1 ACGATGACAATG
1844236 A
1 A
1844237 AATGTTGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (12 bp):
ACGATGACAATG
Found at i:1845489 original size:12 final size:12
Alignment explanation
Indices: 1845472--1845501 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1845462 GCATAGTGTA
1845472 TATATATATATT
1 TATATATATATT
*
1845484 TATATATTTATT
1 TATATATATATT
1845496 TATATA
1 TATATA
1845502 ACATTCCATG
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATATATT
Found at i:1845946 original size:30 final size:30
Alignment explanation
Indices: 1845908--1845968 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
1845898 TTTCAAAAAC
*
1845908 AATTTTAAAAAATAATTTTTTAT-TTTTAA
1 AATTTTTAAAAATAATTTTTTATATTTTAA
1845937 AATTTTTAAAAATAATTTTTTATATTTTAA
1 AATTTTTAAAAATAATTTTTTATATTTTAA
1845967 AA
1 AA
1845969 ATAATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
AATTTTTAAAAATAATTTTTTATATTTTAA
Found at i:1845955 original size:21 final size:21
Alignment explanation
Indices: 1845931--1845974 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1845921 AATTTTTTAT
1845931 TTTTAAA-ATTTTTAAAAATAA
1 TTTTAAATA-TTTTAAAAATAA
**
1845952 TTTTTTATATTTTAAAAATAA
1 TTTTAAATATTTTAAAAATAA
1845973 TT
1 TT
1845975 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTAAATATTTTAAAAATAA
Found at i:1845963 original size:22 final size:22
Alignment explanation
Indices: 1845929--1845987 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
1845919 ATAATTTTTT
* *
1845929 ATTTTTAAAATTTTTAAAAATA
1 ATTTTTTATATTTTTAAAAATA
1845951 ATTTTTTATA-TTTTAAAAATA
1 ATTTTTTATATTTTTAAAAATA
1845972 ATTATTTT-TATTTTTA
1 ATT-TTTTATATTTTTA
1845988 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTTTATATTTTTAAAAATA
Found at i:1845983 original size:21 final size:21
Alignment explanation
Indices: 1845940--1845985 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
1845930 TTTTTAAAAT
1845940 TTTTAAAAATAATTTTTTATA
1 TTTTAAAAATAATTTTTTATA
1845961 TTTTAAAAATAATTATTTT-TA
1 TTTTAAAAATAATT-TTTTATA
1845982 TTTT
1 TTTT
1845986 TATTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTAAAAATAATTTTTTATA
Found at i:1848713 original size:33 final size:33
Alignment explanation
Indices: 1848671--1848735 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
1848661 GTAACTAGCA
*
1848671 TATGAAAACATGAAACAACCCAGAATTTATAAG
1 TATGAAAACATGAAAAAACCCAGAATTTATAAG
1848704 TATGAAAACATGAAAAAACCCAGAATTTATAA
1 TATGAAAACATGAAAAAACCCAGAATTTATAA
1848736 CAATATTGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.22
Consensus pattern (33 bp):
TATGAAAACATGAAAAAACCCAGAATTTATAAG
Found at i:1850526 original size:22 final size:23
Alignment explanation
Indices: 1850490--1850533 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1850480 TTTTTATTTA
* *
1850490 AAATAAAAATTTTATTTAAATAC
1 AAATAAAAATATTATTAAAATAC
1850513 AAATAAAAA-ATTATTAAAATA
1 AAATAAAAATATTATTAAAATA
1850534 AAACAGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATAAAAATATTATTAAAATAC
Found at i:1851001 original size:18 final size:18
Alignment explanation
Indices: 1850961--1851010 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
1850951 ATATTATTAT
* *
1850961 ATAAAAATAAT-TAAAAT
1 ATAAATATAATATAAAAA
1850978 AT-AATATAATATAAAAA
1 ATAAATATAATATAAAAA
*
1850995 ATAAATATTATATAAA
1 ATAAATATAATATAAA
1851011 TACATAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 7 0.25
17 9 0.32
18 12 0.43
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAATATAATATAAAAA
Found at i:1851009 original size:28 final size:30
Alignment explanation
Indices: 1850945--1851001 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 30
1850935 AATATATTTT
* *
1850945 AATATAATATTATTATATAAAAATAATTAA
1 AATATAATATTAATATATAAAAATAAATAA
1850975 AATATAATA-TAATATA-AAAAATAAATA
1 AATATAATATTAATATATAAAAATAAATA
1851002 TTATATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.40
29 6 0.24
30 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
AATATAATATTAATATATAAAAATAAATAA
Found at i:1851011 original size:11 final size:11
Alignment explanation
Indices: 1850944--1851012 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
1850934 TAATATATTT
1850944 TAATATAATATTA
1 TAATATAA-A-TA
* *
1850957 TTATATAAAAA
1 TAATATAAATA
1850968 TAAT-TAAAATA
1 TAATAT-AAATA
1850979 TAATATAATATA
1 TAATATAA-ATA
* *
1850991 AAAAATAAATA
1 TAATATAAATA
*
1851002 TTATATAAATA
1 TAATATAAATA
1851013 CATAAACATA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
10 1 0.02
11 25 0.57
12 11 0.25
13 7 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATATAAATA
Found at i:1851548 original size:21 final size:21
Alignment explanation
Indices: 1851486--1851548 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
1851476 AAGCATGAAG
*
1851486 TATTAATAAAAGTATAGAAAA
1 TATTAATAAAAGTACAGAAAA
*
1851507 T-CTAATAATAA--AGCATG-AAA
1 TATTAATAA-AAGTA-CA-GAAAA
1851527 TATTAATAAAAGTACAGAAAA
1 TATTAATAAAAGTACAGAAAA
1851548 T
1 T
1851549 TTATCATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 14
0.65 0.06 0.29
Matches are distributed among these distances:
19 1 0.03
20 14 0.44
21 16 0.50
22 1 0.03
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.27
Consensus pattern (21 bp):
TATTAATAAAAGTACAGAAAA
Found at i:1853646 original size:143 final size:143
Alignment explanation
Indices: 1853387--1853683 Score: 454
Period size: 143 Copynumber: 2.1 Consensus size: 143
1853377 TATTCACTTC
1853387 ATAATAATATTAAATTGAAATTTCTTTTTCTTTTACATTTTCTTGTACATAAATGCATAGATGTA
1 ATAA-AATATTAAATTGAAATTTCTTTTTCTTTTACATTTTCTTGTACATAAATGCATAGATGTA
* **
1853452 GACTTGTGCGAATGGCAGGGATATCCATCCACTCCAATTATTAATTAATTGATAAAAATTATTTT
65 GACTTGTGCGAATGGCAGGCATATCCATCCACTCCAATTATTAATTAATTGATAAAAATTATCCT
1853517 ATTTAAATTTTTATA
130 ATTTAAA-TTTTATA
* **
1853532 ATAAAATATTAAATTGAAATTTTCTTTTTCTTTTACA-TTT-TTGTATATAAATTTATAGATGTA
1 ATAAAATATTAAATTGAAA-TTTCTTTTTCTTTTACATTTTCTTGTACATAAATGCATAGATGTA
* * * *
1853595 GACTTGTGCGAATGGTAGGCATATCCGTCCGCTCCAATTATTAATTCATTGATAAAAATTATCCT
65 GACTTGTGCGAATGGCAGGCATATCCATCCACTCCAATTATTAATTAATTGATAAAAATTATCCT
1853660 ATTTAAATTTTATA
130 ATTTAAATTTTATA
1853674 ATAAATATAT
1 ATAAA-ATAT
1853684 GAAAATATAA
Statistics
Matches: 140, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
142 12 0.09
143 89 0.64
144 18 0.13
145 21 0.15
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (143 bp):
ATAAAATATTAAATTGAAATTTCTTTTTCTTTTACATTTTCTTGTACATAAATGCATAGATGTAG
ACTTGTGCGAATGGCAGGCATATCCATCCACTCCAATTATTAATTAATTGATAAAAATTATCCTA
TTTAAATTTTATA
Found at i:1853702 original size:14 final size:16
Alignment explanation
Indices: 1853674--1853706 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
1853664 AAATTTTATA
1853674 ATAAATATATGAAAAT
1 ATAAATATATGAAAAT
1853690 ATAAATA-AT-AAAAT
1 ATAAATATATGAAAAT
1853704 ATA
1 ATA
1853707 TTTTAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
ATAAATATATGAAAAT
Found at i:1853729 original size:19 final size:19
Alignment explanation
Indices: 1853691--1853728 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1853681 TATGAAAATA
1853691 TAAATAATAAAATATATTT
1 TAAATAATAAAATATATTT
*
1853710 TAAATAGTAAAATA-ATTT
1 TAAATAATAAAATATATTT
1853728 T
1 T
1853729 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TAAATAATAAAATATATTT
Found at i:1855521 original size:31 final size:30
Alignment explanation
Indices: 1855477--1855539 Score: 101
Period size: 32 Copynumber: 2.1 Consensus size: 30
1855467 TGAATTAAAA
1855477 TAAAAATTTTTT-AATATAAACTTTTATTAT
1 TAAAAATTTTTTAAATATAAACTTTTA-TAT
1855507 TAAAAATTTTTTTAAATATAAACTTTTATAT
1 TAAAAA-TTTTTTAAATATAAACTTTTATAT
1855538 TA
1 TA
1855540 TTATCATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 6 0.19
31 11 0.35
32 14 0.45
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (30 bp):
TAAAAATTTTTTAAATATAAACTTTTATAT
Found at i:1855533 original size:16 final size:15
Alignment explanation
Indices: 1855483--1855533 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
1855473 AAAATAAAAA
1855483 TTTTTTAATATAAAC
1 TTTTTTAATATAAAC
* * *
1855498 TTTTATTATTAAAAAT
1 TTTT-TTAATATAAAC
1855514 TTTTTTAAATATAAAC
1 TTTTTT-AATATAAAC
1855530 TTTT
1 TTTT
1855534 ATATTATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTTTAATATAAAC
Found at i:1855566 original size:18 final size:18
Alignment explanation
Indices: 1855533--1855568 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1855523 TATAAACTTT
*
1855533 TATATTATTATCATTAAA
1 TATATTATTATAATTAAA
*
1855551 TATATTATTTTAATTAAA
1 TATATTATTATAATTAAA
1855569 CGACGATACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATTATTATAATTAAA
Found at i:1856325 original size:28 final size:28
Alignment explanation
Indices: 1856272--1856325 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
1856262 TTAAAATATT
* **
1856272 ATTTAATAATAAAAATATTTTTATTTAA
1 ATTTAATAATAAAAATATATAAATTTAA
*
1856300 ATTTAATTATAAAAATATATAAATTT
1 ATTTAATAATAAAAATATATAAATTT
1856326 TAATAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTAATAATAAAAATATATAAATTTAA
Found at i:1856339 original size:23 final size:22
Alignment explanation
Indices: 1856297--1856340 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
1856287 TATTTTTATT
*
1856297 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTAAAAAAATATA
1856319 TAAATTTTAA-TAAAAATAATAT
1 TAAA-TTTAATTAAAAA-AATAT
1856341 TTTATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAATTTAATTAAAAAAATATA
Found at i:1856342 original size:17 final size:19
Alignment explanation
Indices: 1856308--1856344 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1856298 AAATTTAATT
1856308 ATAAAAATATATAAATTTTA
1 ATAAAAATATAT-AATTTTA
1856328 ATAAAAATA-AT-ATTTTA
1 ATAAAAATATATAATTTTA
1856345 TAATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAAAATATATAATTTTA
Found at i:1856896 original size:50 final size:50
Alignment explanation
Indices: 1856812--1857048 Score: 359
Period size: 50 Copynumber: 4.8 Consensus size: 50
1856802 TATACTTAGA
* * * * *
1856812 GTCAACAATTATGACTACATTTCTCCATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
1856862 GTCAACAATTATGGTCACCTCTCTCTATTATCAAAAGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
1856912 GTCAACAATTATGGCTACCTCCCTCTATTGTCAAAGATTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
1856962 GTCAACAATTATGGCCACCTC-CTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
*
1857011 GTCAACAATTATGGCCACATCTCTCTATTGTCAAAGGT
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGT
1857049 ACTTTCCACC
Statistics
Matches: 169, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
49 47 0.28
50 122 0.72
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:1861406 original size:49 final size:50
Alignment explanation
Indices: 1861212--1861448 Score: 323
Period size: 50 Copynumber: 4.8 Consensus size: 50
1861202 TATACTTAGA
* * * *
1861212 GTCAACAATTATGACCACCTTTCTCCATTGTTAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * * *
1861262 GTCAATAATTATGGTCACCTCTATCTATTGTCAAAGTTTGGTGAAAAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
*
1861312 GTCAACAATTATGGCCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
1861362 GTCAACAATTATAGCCACC-CCCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
*** *
1861411 GTCAACAATTATGATTACTTCTCTCTATTGTCAAAGGT
1 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGT
1861449 ACTTTCCACC
Statistics
Matches: 162, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
49 42 0.26
50 120 0.74
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:1861434 original size:99 final size:100
Alignment explanation
Indices: 1861212--1861448 Score: 325
Period size: 99 Copynumber: 2.4 Consensus size: 100
1861202 TATACTTAGA
* * * *
1861212 GTCAACAATTATGACCACCTT-TCTCCATTGTTAAAGGTTGGTGAAGAATCGTCAATAATTATGG
1 GTCAACAATTATGACCA-CTTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATAG
* * *
1861276 TCACCTCTATCTATTGTCAAAGTTTGGTGAAAAATC
65 CCACCTCCATCTATTGTCAAAGGTTGGTGAAAAATC
* * *
1861312 GTCAACAATTATGGCCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATCGTCAACAATTATAGC
1 GTCAACAATTATGACCACTTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATAGC
* *
1861377 CACC-CCCTCTATTGTCAAAGGTTGGTGAAGAATC
66 CACCTCCATCTATTGTCAAAGGTTGGTGAAAAATC
**
1861411 GTCAACAATTATGATTACTTCTCTCTATTGTCAAAGGT
1 GTCAACAATTATGACCACTTCTCTCTATTGTCAAAGGT
1861449 ACTTTCCACC
Statistics
Matches: 119, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
99 61 0.51
100 58 0.49
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (100 bp):
GTCAACAATTATGACCACTTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATAGC
CACCTCCATCTATTGTCAAAGGTTGGTGAAAAATC
Found at i:1861819 original size:2 final size:2
Alignment explanation
Indices: 1861812--1861846 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1861802 AATGATATTT
1861812 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1861847 TAGTCACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1862199 original size:2 final size:2
Alignment explanation
Indices: 1862192--1862232 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
1862182 AAATTCTGTA
**
1862192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GC AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1862233 CACATATGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1862239 original size:12 final size:12
Alignment explanation
Indices: 1862192--1862239 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
1862182 AAATTCTGTA
*
1862192 ATATATATATAT
1 ATATACATATAT
*
1862204 ATATATATATAT
1 ATATACATATAT
*
1862216 ATATGCATATAT
1 ATATACATATAT
*
1862228 ATATACACATAT
1 ATATACATATAT
1862240 GCAGATGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (12 bp):
ATATACATATAT
Found at i:1864971 original size:13 final size:13
Alignment explanation
Indices: 1864953--1864991 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1864943 TGATAAAATA
1864953 TTTAATTTTTAAT
1 TTTAATTTTTAAT
*
1864966 TTTAATTATTAAAT
1 TTTAATT-TTTAAT
1864980 TTT-ATTTTTAAT
1 TTTAATTTTTAAT
1864992 AATTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 10 0.43
14 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTAATTTTTAAT
Found at i:1864978 original size:29 final size:30
Alignment explanation
Indices: 1864946--1865011 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
1864936 TAATTATTGA
*
1864946 TAAAATATTTAATTTT-TAATTTTAATTAT
1 TAAAATATTTAATTTTATAATTTTAAATAT
*
1864975 T-AAAT-TTTATTTTTAATAATTTTAAATAT
1 TAAAATATTTAATTTT-ATAATTTTAAATAT
1865004 TAAGAATA
1 TAA-AATA
1865012 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
27 8 0.27
28 4 0.13
29 14 0.47
30 1 0.03
31 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TAAAATATTTAATTTTATAATTTTAAATAT
Found at i:1864982 original size:20 final size:20
Alignment explanation
Indices: 1864954--1864991 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1864944 GATAAAATAT
*
1864954 TTAATTTTTAATTTTAATTA
1 TTAAATTTTAATTTTAATTA
*
1864974 TTAAATTTTATTTTTAAT
1 TTAAATTTTAATTTTAAT
1864992 AATTTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTAAATTTTAATTTTAATTA
Found at i:1865305 original size:8 final size:8
Alignment explanation
Indices: 1865281--1865321 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
1865271 TCTTATCTGC
1865281 ATATTTAT
1 ATATTTAT
**
1865289 ATAAATAT
1 ATATTTAT
1865297 ATATTTAT
1 ATATTTAT
1865305 ATATTTAT
1 ATATTTAT
*
1865313 ATATATAT
1 ATATTTAT
1865321 A
1 A
1865322 AAAAATTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATATTTAT
Found at i:1869104 original size:13 final size:13
Alignment explanation
Indices: 1869056--1869114 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 13
1869046 GAGAATAAAT
*
1869056 ATTATTTT-TAAA
1 ATTATTTTAAAAA
* *
1869068 ATTTTTTTAAAAT
1 ATTATTTTAAAAA
*
1869081 ATAATTTTAAAAA
1 ATTATTTTAAAAA
*
1869094 ATTATTATAAAAA
1 ATTATTTTAAAAA
*
1869107 ATAATTTT
1 ATTATTTT
1869115 TCATAATTAA
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
12 7 0.19
13 29 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTATTTTAAAAA
Found at i:1869104 original size:26 final size:25
Alignment explanation
Indices: 1869052--1869114 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
1869042 TATTGAGAAT
* * * *
1869052 AAATATTATTTTTAAAATTTTTTTA
1 AAATATAATTTTAAAAATTATTATA
1869077 AAATATAATTTTAAAAAATTATTATA
1 AAATATAATTTT-AAAAATTATTATA
*
1869103 AAAAATAATTTT
1 AAATATAATTTT
1869115 TCATAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AAATATAATTTTAAAAATTATTATA
Found at i:1869122 original size:26 final size:24
Alignment explanation
Indices: 1869075--1869132 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
1869065 AAAATTTTTT
*
1869075 TAAAATATAATTTTAAAAAATTATTA
1 TAAAAAATAATTTTAAAAAATTA--A
** *
1869101 TAAAAAATAATTTTTCATAATTAA
1 TAAAAAATAATTTTAAAAAATTAA
1869125 TAAAAAAT
1 TAAAAAAT
1869133 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 9 0.32
26 19 0.68
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAAAATAATTTTAAAAAATTAA
Found at i:1869144 original size:9 final size:9
Alignment explanation
Indices: 1869127--1869156 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1869117 ATAATTAATA
1869127 AAAAATTTT
1 AAAAATTTT
*
1869136 AAAATTTTT
1 AAAAATTTT
1869145 AAAAATTTT
1 AAAAATTTT
1869154 AAA
1 AAA
1869157 TTTTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAAAATTTT
Found at i:1869150 original size:18 final size:18
Alignment explanation
Indices: 1869127--1869163 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1869117 ATAATTAATA
1869127 AAAAATTTTAAAATTTTT
1 AAAAATTTTAAAATTTTT
*
1869145 AAAAATTTTAAATTTTTT
1 AAAAATTTTAAAATTTTT
1869163 A
1 A
1869164 TTTAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAAATTTTAAAATTTTT
Found at i:1869179 original size:16 final size:15
Alignment explanation
Indices: 1869151--1869200 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 15
1869141 TTTTAAAAAT
1869151 TTTAAATTT--TTTA
1 TTTAAATTTAATTTA
1869164 TTTAAATTTAAATTTA
1 TTTAAATTT-AATTTA
* * *
1869180 ATCAAATTTAATCTA
1 TTTAAATTTAATTTA
1869195 TTTAAA
1 TTTAAA
1869201 CACTTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
13 9 0.31
15 9 0.31
16 11 0.38
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTAAATTTAATTTA
Found at i:1870127 original size:15 final size:15
Alignment explanation
Indices: 1870096--1870129 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1870086 ATGGAGATTT
*
1870096 TTAACTTAAACCGAA
1 TTAACTTAAACCAAA
*
1870111 TTAACTTAAATCAAA
1 TTAACTTAAACCAAA
1870126 TTAA
1 TTAA
1870130 AAGGTTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (15 bp):
TTAACTTAAACCAAA
Found at i:1870785 original size:2 final size:2
Alignment explanation
Indices: 1870778--1870802 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1870768 ATGGTAGCCC
1870778 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
1870803 CTTTGATGAT
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:1873027 original size:22 final size:23
Alignment explanation
Indices: 1872987--1873029 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1872977 TTAATTAATT
1872987 TAAAATTAAAATAACTTAAATCA
1 TAAAATTAAAATAACTTAAATCA
*
1873010 TAAAATTTAAA-AACTTAAAT
1 TAAAATTAAAATAACTTAAAT
1873030 TAATCAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAAATTAAAATAACTTAAATCA
Found at i:1873721 original size:33 final size:32
Alignment explanation
Indices: 1873666--1873729 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
1873656 TTAAAATATT
* *
1873666 AAAAAATTATTTTTATATTAATATATATAAATA
1 AAAAAATTATTATTATAATAATA-ATATAAATA
*
1873699 AAAAAATTTATTATTA-AATAATAATTTAAAT
1 AAAAAA-TTATTATTATAATAATAATATAAAT
1873730 CAATTAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 7 0.26
33 12 0.44
34 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
AAAAAATTATTATTATAATAATAATATAAATA
Found at i:1876604 original size:22 final size:21
Alignment explanation
Indices: 1876570--1876628 Score: 72
Period size: 19 Copynumber: 3.0 Consensus size: 21
1876560 TAAAAAAATT
*
1876570 ATTAAATTGATAT-TTTTAT-
1 ATTAAATTTATATATTTTATA
1876589 ATTAATATTTATATATTTTATA
1 ATTAA-ATTTATATATTTTATA
1876611 ATTAAATTTA-A-ATTTTAT
1 ATTAAATTTATATATTTTAT
1876629 TTTTTTATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 12 0.33
20 8 0.22
21 11 0.31
22 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTAAATTTATATATTTTATA
Found at i:1878242 original size:2 final size:2
Alignment explanation
Indices: 1878231--1878262 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1878221 GCCTCTGCAA
1878231 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1878263 AGTCGGCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1878853 original size:35 final size:35
Alignment explanation
Indices: 1878807--1878874 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
1878797 TTTACATTAA
* * *
1878807 ATTTAATTTTTAAGTATAATATTT-TATTTAAATTT
1 ATTTAAATTTTAAATA-AATATTTAAATTTAAATTT
1878842 ATTTAAATTTTAAATAAATATTTAAATTTAAAT
1 ATTTAAATTTTAAATAAATATTTAAATTTAAAT
1878875 AAATAGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 7 0.24
35 22 0.76
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (35 bp):
ATTTAAATTTTAAATAAATATTTAAATTTAAATTT
Found at i:1878865 original size:19 final size:19
Alignment explanation
Indices: 1878841--1878898 Score: 75
Period size: 18 Copynumber: 3.1 Consensus size: 19
1878831 TATTTAAATT
1878841 TATTTAAATTTTAAATAAA
1 TATTTAAATTTTAAATAAA
1878860 TATTTAAA-TTTAAATAAA
1 TATTTAAATTTTAAATAAA
*
1878878 TAGTTT-AATTTATGAATAAA
1 TA-TTTAAATTT-TAAATAAA
1878898 T
1 T
1878899 TTATTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 14 0.40
19 13 0.37
20 8 0.23
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TATTTAAATTTTAAATAAA
Found at i:1879324 original size:3 final size:3
Alignment explanation
Indices: 1879304--1879347 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
1879294 ACATACAGCA
* *
1879304 AAG AAA AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1879348 TTGTTAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1879802 original size:20 final size:20
Alignment explanation
Indices: 1879774--1879821 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
1879764 GAATTTATAT
*
1879774 AAATATATAAAATTTAAAATA
1 AAATATATAAAA-TAAAAATA
*
1879795 AAAT-TATAATATAAAAATA
1 AAATATATAAAATAAAAATA
*
1879814 AAAAATAT
1 AAATATAT
1879822 GAATACGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 10 0.43
20 9 0.39
21 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATATATAAAATAAAAATA
Found at i:1881212 original size:16 final size:16
Alignment explanation
Indices: 1881191--1881282 Score: 69
Period size: 17 Copynumber: 5.5 Consensus size: 16
1881181 ATTTAAAAAT
1881191 TTTAAATTTTTTTAAA
1 TTTAAATTTTTTTAAA
* *
1881207 TTTAAATTAATTTAAAA
1 TTTAAATT-TTTTTAAA
* *
1881224 TTT-TATTATTTATTATA
1 TTTAAATT-TTT-TTAAA
*
1881241 TTATTAATTTTTTTAAAA
1 TT-TAAATTTTTTT-AAA
* *
1881259 TTTAAATATTTTTGAA
1 TTTAAATTTTTTTAAA
1881275 TTTAAATT
1 TTTAAATT
1881283 CATCGATTTC
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
16 23 0.39
17 25 0.42
18 8 0.14
19 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (16 bp):
TTTAAATTTTTTTAAA
Found at i:1881345 original size:16 final size:15
Alignment explanation
Indices: 1881305--1881370 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 15
1881295 GTTAATTTTT
*
1881305 TTTATTAAA-TTAAA
1 TTTAATAAATTTAAA
1881319 TTTAATCAAATTTAAA
1 TTTAAT-AAATTTAAA
1881335 TTTAAATAAATTAATCAAA
1 TTT-AATAAATT--T-AAA
**
1881354 TTTTTTAAATTTAAA
1 TTTAATAAATTTAAA
1881369 TT
1 TT
1881371 AAAATTGATA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
14 5 0.12
15 8 0.19
16 14 0.33
17 3 0.07
18 7 0.16
19 6 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAATAAATTTAAA
Found at i:1881448 original size:23 final size:23
Alignment explanation
Indices: 1881422--1881466 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1881412 TTAGACTAGA
*
1881422 TATGTTCATGAGTAAAGTGATGT
1 TATGTCCATGAGTAAAGTGATGT
1881445 TATGTCCATGAGTAAAGTGATG
1 TATGTCCATGAGTAAAGTGATG
1881467 CTGCAGCTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (23 bp):
TATGTCCATGAGTAAAGTGATGT
Found at i:1881939 original size:23 final size:24
Alignment explanation
Indices: 1881913--1881965 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1881903 AGTTTATTAG
1881913 TTAAA-AAGGGATATTTTAATCTA
1 TTAAATAAGGGATATTTTAATCTA
*
1881936 TTAAATTAGGGATATTTTAATCTA
1 TTAAATAAGGGATATTTTAATCTA
1881960 TTAAAT
1 TTAAAT
1881966 TTCATATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (24 bp):
TTAAATAAGGGATATTTTAATCTA
Found at i:1881947 original size:24 final size:24
Alignment explanation
Indices: 1881919--1881966 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1881909 TTAGTTAAAA
1881919 AGGGATATTTTAATCTATTAAATT
1 AGGGATATTTTAATCTATTAAATT
1881943 AGGGATATTTTAATCTATTAAATT
1 AGGGATATTTTAATCTATTAAATT
1881967 TCATATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (24 bp):
AGGGATATTTTAATCTATTAAATT
Found at i:1882043 original size:25 final size:25
Alignment explanation
Indices: 1881992--1882043 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
1881982 ATTTTTTAAC
* *
1881992 TAATTATTATTTATTGAATTCTCTT
1 TAATTATTATTTATTAAATTCTATT
*
1882017 TAATTATTCATTTTTTAAATT-TATT
1 TAATTATT-ATTTATTAAATTCTATT
1882042 TA
1 TA
1882044 TTAATAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (25 bp):
TAATTATTATTTATTAAATTCTATT
Found at i:1883045 original size:27 final size:27
Alignment explanation
Indices: 1883014--1883073 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
1883004 ATATTTGAAA
*
1883014 TTTAAT-TTGAGATAAATCGAATTTCAC
1 TTTAATCTT-AGATAAATCAAATTTCAC
1883041 TTTAAATCTTAGATAAATCAAATTTCAC
1 TTT-AATCTTAGATAAATCAAATTTCAC
1883069 TTTAA
1 TTTAA
1883074 ATCTCAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 5 0.17
28 23 0.77
29 2 0.07
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (27 bp):
TTTAATCTTAGATAAATCAAATTTCAC
Found at i:1883054 original size:28 final size:28
Alignment explanation
Indices: 1883023--1883077 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
1883013 ATTTAATTTG
*
1883023 AGATAAATCGAATTTCACTTTAAATCTT
1 AGATAAATCAAATTTCACTTTAAATCTT
1883051 AGATAAATCAAATTTCACTTTAAATCT
1 AGATAAATCAAATTTCACTTTAAATCT
1883078 CAAGTTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (28 bp):
AGATAAATCAAATTTCACTTTAAATCTT
Found at i:1890575 original size:5 final size:5
Alignment explanation
Indices: 1890565--1890598 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
1890555 ATGCTTTGAA
1890565 TTTTC TTTTC TTTTC -TTT- TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
1890599 CTCTTAAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 6 0.22
5 21 0.78
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:1890588 original size:13 final size:13
Alignment explanation
Indices: 1890570--1890596 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1890560 TTGAATTTTC
1890570 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
1890583 TTTTCTTTTCTTT
1 TTTTCTTTTCTTT
1890596 T
1 T
1890597 CTCTCTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTCTTTTCTTT
Found at i:1891076 original size:22 final size:22
Alignment explanation
Indices: 1891020--1891084 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
1891010 TTTATTTAAA
* * *
1891020 TTAAAAAAATTAAAAATTAAATT
1 TTAAAATAATTAAATA-TAATTT
* *
1891043 TTAAATTTATTAAATATAATTT
1 TTAAAATAATTAAATATAATTT
*
1891065 TTAAAATAATTATATA-AATT
1 TTAAAATAATTAAATATAATT
1891085 ATTTTAATTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 4 0.12
22 18 0.53
23 12 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAAATAATTAAATATAATTT
Found at i:1891599 original size:16 final size:16
Alignment explanation
Indices: 1891578--1891608 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1891568 TTATATATTA
*
1891578 AATAAATATTTAATAT
1 AATAAATAATTAATAT
1891594 AATAAATAATTAATA
1 AATAAATAATTAATA
1891609 AAAATATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAAATAATTAATAT
Found at i:1892943 original size:3 final size:3
Alignment explanation
Indices: 1892935--1892976 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
1892925 ATTGGAGCCA
1892935 ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1892977 AAAATAAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1892962 original size:20 final size:20
Alignment explanation
Indices: 1892937--1892976 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1892927 TGGAGCCAAT
1892937 TATTATTATTATTATTATTA
1 TATTATTATTATTATTATTA
1892957 TATTATTATTATTATTATTA
1 TATTATTATTATTATTATTA
1892977 AAAATAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTATTATTATTATTATTA
Found at i:1894034 original size:26 final size:29
Alignment explanation
Indices: 1893960--1894031 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
1893950 TATTTTATAA
* *
1893960 ATTTTAATATGTTTATGTAT-TCATATTAT
1 ATTTT-ATATTTTTATTTATATCATATTAT
1893989 ATTTTATTATTTTTGATTTATATCATATTAT
1 ATTTTA-TATTTTT-ATTTATATCATATTAT
1894020 ATTTTA-ATTTTT
1 ATTTTATATTTTT
1894032 TTAATATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 1 0.03
29 17 0.45
30 5 0.13
31 15 0.39
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (29 bp):
ATTTTATATTTTTATTTATATCATATTAT
Found at i:1894488 original size:42 final size:43
Alignment explanation
Indices: 1894390--1894490 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 43
1894380 CTAATCGAAC
** *
1894390 TAATTGTTAAAAAAATTTTTTTTATTATTAATTTATCATACAT
1 TAATTGTTAAAAAAATACTTTTTATTATTAATTTATCAAACAT
* * * *
1894433 TAATTTTTTAAAAAA-ACTTTTTATTATTAATTTATTAAATAT
1 TAATTGTTAAAAAAATACTTTTTATTATTAATTTATCAAACAT
*
1894475 TAATCGTTAAAAAAAT
1 TAATTGTTAAAAAAAT
1894491 TCAAATCAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 34 0.72
43 13 0.28
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (43 bp):
TAATTGTTAAAAAAATACTTTTTATTATTAATTTATCAAACAT
Found at i:1896090 original size:34 final size:32
Alignment explanation
Indices: 1896021--1896090 Score: 88
Period size: 32 Copynumber: 2.1 Consensus size: 32
1896011 TGATATATTA
* *
1896021 ATATAAATTTTAATACTTTAACAATTTATATT
1 ATATAAATTTTAATACTTTAACAATTCATAAT
1896053 ATATAAATTTTAATACATTTTAA-ATATTCATAAT
1 ATATAAATTTTAATAC--TTTAACA-ATTCATAAT
1896087 ATAT
1 ATAT
1896091 TTGTATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 16 0.48
33 1 0.03
34 16 0.48
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (32 bp):
ATATAAATTTTAATACTTTAACAATTCATAAT
Found at i:1896112 original size:21 final size:20
Alignment explanation
Indices: 1896083--1896139 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
1896073 TAAATATTCA
1896083 TAATATATTTGTATTAAT-TTT
1 TAAT-TATTT-TATTAATATTT
*
1896104 TAAATTATTTTATATCATATTT
1 T-AATTATTTTAT-TAATATTT
1896126 TAATTATTTTATTA
1 TAATTATTTTATTA
1896140 TATAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 4 0.13
21 20 0.65
22 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TAATTATTTTATTAATATTT
Found at i:1896847 original size:17 final size:17
Alignment explanation
Indices: 1896825--1896860 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
1896815 TTAAAAATTA
1896825 AAATAT-TATTTTTATAT
1 AAATATATATTTTT-TAT
1896842 AAATATATATTTTTTAT
1 AAATATATATTTTTTAT
1896859 AA
1 AA
1896861 TTAAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATATATATTTTTTAT
Found at i:1897692 original size:23 final size:23
Alignment explanation
Indices: 1897666--1897710 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1897656 AAAATTAAAA
1897666 AATTAAAAAATATTTTTATTATT
1 AATTAAAAAATATTTTTATTATT
** * *
1897689 AATTTTAATATTTTTTTATTAT
1 AATTAAAAAATATTTTTATTAT
1897711 GTCTTATATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
AATTAAAAAATATTTTTATTATT
Found at i:1898702 original size:15 final size:15
Alignment explanation
Indices: 1898684--1898721 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1898674 AAACATTAAA
1898684 ATTTAAATAAAAATT
1 ATTTAAATAAAAATT
1898699 ATTTATAA-AAAAATT
1 ATTTA-AATAAAAATT
*
1898714 AATTAAAT
1 ATTTAAAT
1898722 TAAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 2 0.10
15 16 0.80
16 2 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTAAATAAAAATT
Found at i:1899215 original size:3 final size:3
Alignment explanation
Indices: 1899200--1899235 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1899190 GCTATGAGCA
*
1899200 CTT CTT CTC CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1899236 ATTATTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:1900318 original size:19 final size:19
Alignment explanation
Indices: 1900291--1900331 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1900281 AAGGATGAAT
* *
1900291 TTATTTTTTTTAAATAATA
1 TTATATTTTTAAAATAATA
*
1900310 TTATATTTTTAAAATTATA
1 TTATATTTTTAAAATAATA
1900329 TTA
1 TTA
1900332 GTAATTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATATTTTTAAAATAATA
Found at i:1901771 original size:23 final size:24
Alignment explanation
Indices: 1901741--1901799 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
1901731 AAAAACATTA
*
1901741 AATTAAAATATATGTATA-TATAT
1 AATTAAAATATATGTATATTAAAT
*
1901764 AATTAAAAATATATTTATATTAAAT
1 AATT-AAAATATATGTATATTAAAT
1901789 AA-TAAAATATA
1 AATTAAAATATA
1901800 AATTAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 12 0.38
24 14 0.44
25 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
AATTAAAATATATGTATATTAAAT
Found at i:1901776 original size:24 final size:22
Alignment explanation
Indices: 1901737--1901799 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
1901727 TAATAAAAAC
1901737 ATTAAATT-AAAATATATGTAT
1 ATTAAATTAAAAATATATGTAT
*
1901758 ATATATAATTAAAAATATATTTAT
1 AT-TA-AATTAAAAATATATGTAT
*
1901782 ATTAAATAATAAAATATA
1 ATTAAATTA-AAAATATA
1901800 AATTAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 2 0.06
22 6 0.17
23 14 0.39
24 14 0.39
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTAAATTAAAAATATATGTAT
Found at i:1901782 original size:18 final size:18
Alignment explanation
Indices: 1901755--1901806 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
1901745 AAAATATATG
1901755 TATATATATAATTAAA-AA
1 TATATATAT-ATTAAATAA
*
1901773 TATATTTATATTAAATAA
1 TATATATATATTAAATAA
* *
1901791 TAAAATATAAATTAAA
1 T-ATATATATATTAAA
1901807 ATTAGATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 6 0.21
18 11 0.39
19 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TATATATATATTAAATAA
Found at i:1901808 original size:35 final size:37
Alignment explanation
Indices: 1901758--1901826 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 37
1901748 ATATATGTAT
*
1901758 ATATATAATTAAAAA-TATATTTATATTAAATAATAAA
1 ATATATAATTAAAAATTAGATTTAT-TTAAATAATAAA
*
1901795 ATATA-AATT-AAAATTAGATTTATTTTAATAAT
1 ATATATAATTAAAAATTAGATTTATTTAAATAAT
1901827 TACAAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 12 0.41
36 12 0.41
37 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (37 bp):
ATATATAATTAAAAATTAGATTTATTTAAATAATAAA
Found at i:1901816 original size:36 final size:36
Alignment explanation
Indices: 1901758--1901826 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
1901748 ATATATGTAT
*
1901758 ATATATAATTAAAAATATATTTATATTAAATAATAAA
1 ATATATAATTAAAAATAGATTTAT-TTAAATAATAAA
* *
1901795 ATATA-AATTAAAATTAGATTTATTTTAATAAT
1 ATATATAATTAAAAATAGATTTATTTAAATAAT
1901827 TACAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 8 0.28
36 16 0.55
37 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (36 bp):
ATATATAATTAAAAATAGATTTATTTAAATAATAAA
Found at i:1917477 original size:2 final size:2
Alignment explanation
Indices: 1917472--1917511 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
1917462 GGATAAATTT
*
1917472 TA TA TA TA TA TA TA TA TA TA TA GA TA -A TA TA -A TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1917511 T
1 T
1917512 TGGGTGTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1919062 original size:2 final size:2
Alignment explanation
Indices: 1919055--1919088 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1919045 TCCATCTGAT
1919055 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1919089 AAGAGAAATA
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):
TA
Found at i:1919920 original size:17 final size:17
Alignment explanation
Indices: 1919900--1919936 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1919890 AGTCAGACAC
1919900 ATTTGAATACGTATGAA
1 ATTTGAATACGTATGAA
*
1919917 ATTTGAATTCGTATGAA
1 ATTTGAATACGTATGAA
1919934 ATT
1 ATT
1919937 ATGATCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (17 bp):
ATTTGAATACGTATGAA
Found at i:1927607 original size:16 final size:15
Alignment explanation
Indices: 1927583--1927613 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1927573 TATATATTTG
1927583 AATTTTAATAATTAT
1 AATTTTAATAATTAT
1927598 AATTTATAATAATTAT
1 AATTT-TAATAATTAT
1927614 TATTATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTTTAATAATTAT
Found at i:1927615 original size:3 final size:3
Alignment explanation
Indices: 1927609--1927645 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1927599 ATTTATAATA
1927609 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1927646 CTAGAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1927833 original size:20 final size:18
Alignment explanation
Indices: 1927807--1927855 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 18
1927797 TTCGGATTGA
1927807 TTTAATTTAAATAATTATT
1 TTTAATTTAAATAA-TATT
*
1927826 TATTAATTAAAATAATATT
1 T-TTAATTTAAATAATATT
1927845 TTT-ATTTAAAT
1 TTTAATTTAAAT
1927856 TTAATTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 7 0.26
18 2 0.07
19 6 0.22
20 12 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAATTTAAATAATATT
Found at i:1927892 original size:9 final size:9
Alignment explanation
Indices: 1927878--1927903 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1927868 TTAATATAAA
1927878 ATATTTTAT
1 ATATTTTAT
1927887 ATATTTTAT
1 ATATTTTAT
1927896 ATATTTTA
1 ATATTTTA
1927904 AACAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
ATATTTTAT
Found at i:1929811 original size:10 final size:10
Alignment explanation
Indices: 1929789--1929818 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
1929779 AACTATATAA
1929789 TATATATTAAT
1 TATATATT-AT
1929800 TATATATTAT
1 TATATATTAT
1929810 TATATATTA
1 TATATATTA
1929819 AATAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATATATTAT
Found at i:1929830 original size:21 final size:21
Alignment explanation
Indices: 1929789--1929861 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
1929779 AACTATATAA
*
1929789 TATATATTAATTATATATTAT
1 TATATATTAATAATATATTAT
*
1929810 TATATATT-A-AATA-ATTTT
1 TATATATTAATAATATATTAT
*
1929828 TATCATA-TAAAAATATATGTAT
1 TAT-ATATTAATAATATAT-TAT
1929850 GTA-ATATTAATA
1 -TATATATTAATA
1929862 TATTTAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
18 8 0.20
19 7 0.17
20 5 0.12
21 13 0.32
22 6 0.15
23 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (21 bp):
TATATATTAATAATATATTAT
Found at i:1930338 original size:2 final size:2
Alignment explanation
Indices: 1930331--1930356 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1930321 TTTGATTGAA
1930331 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
1930357 TAATGTGTAA
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:1930867 original size:21 final size:21
Alignment explanation
Indices: 1930843--1930882 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1930833 TATTAAATAT
1930843 TATTTTA-AATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
1930864 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
1930883 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:1931358 original size:46 final size:46
Alignment explanation
Indices: 1931303--1931413 Score: 168
Period size: 46 Copynumber: 2.4 Consensus size: 46
1931293 ATCATATTCG
* *
1931303 AATATTTTTATATTTATATAAATTTAATAAGTTAATTATTTATTTAA
1 AATA-TTTTATATTTATATAAATTTAATAACTTAATAATTTATTTAA
* *
1931350 AATATTTTATATTGATATAAATTTGATAACTTAATAATTTATTTAA
1 AATATTTTATATTTATATAAATTTAATAACTTAATAATTTATTTAA
*
1931396 AATATTTTATTTTTATAT
1 AATATTTTATATTTATAT
1931414 GTTCCATATA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 54 0.93
47 4 0.07
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (46 bp):
AATATTTTATATTTATATAAATTTAATAACTTAATAATTTATTTAA
Found at i:1935007 original size:25 final size:27
Alignment explanation
Indices: 1934961--1935028 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 27
1934951 TTATTTATGA
*
1934961 TATTTTTAT-TATATTTAAAATAT-TT
1 TATTTTTATATAAATTTAAAATATATT
*
1934986 TATTTTTATATAAATTT-TAATATATT
1 TATTTTTATATAAATTTAAAATATATT
*
1935012 AATTATTTATATGAAAT
1 TATT-TTTATAT-AAAT
1935029 AAATTTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 14 0.39
26 11 0.31
27 7 0.19
28 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (27 bp):
TATTTTTATATAAATTTAAAATATATT
Found at i:1935221 original size:22 final size:23
Alignment explanation
Indices: 1935179--1935221 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1935169 AATTGAGTTT
*
1935179 ATAAAATTTAATTTAAAATAAAA
1 ATAAAATTTAATTAAAAATAAAA
*
1935202 ATAAAA-TTACTTAAAAATAA
1 ATAAAATTTAATTAAAAATAA
1935222 TTTAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAAAATTTAATTAAAAATAAAA
Found at i:1936101 original size:2 final size:2
Alignment explanation
Indices: 1936094--1936122 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1936084 TGTTATTTAA
1936094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1936123 ATAGAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1939854 original size:7 final size:7
Alignment explanation
Indices: 1939830--1939866 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
1939820 AAATCATAAT
1939830 AAATTT-
1 AAATTTA
1939836 AAATTT-
1 AAATTTA
1939842 -AATTTA
1 AAATTTA
1939848 AAATTTA
1 AAATTTA
1939855 AAATTTA
1 AAATTTA
1939862 AAATT
1 AAATT
1939867 AATTATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.17
6 6 0.21
7 18 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
AAATTTA
Found at i:1944090 original size:21 final size:21
Alignment explanation
Indices: 1944064--1944104 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1944054 TTACATTTTT
1944064 TTTCATCCAAAAAATACATTC
1 TTTCATCCAAAAAATACATTC
**
1944085 TTTCATCCAACCAATACATT
1 TTTCATCCAAAAAATACATT
1944105 ATTTTATTCA
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:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (21 bp):
TTTCATCCAAAAAATACATTC
Found at i:1945389 original size:22 final size:22
Alignment explanation
Indices: 1945359--1945425 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
1945349 TGTATTAATA
* *
1945359 TAAAATATAATTAATTTGAATT
1 TAAATTATAATTAATTTAAATT
*
1945381 TAAATTATAATAAATTTAAATT
1 TAAATTATAATTAATTTAAATT
1945403 T-AATT-TAA--AATTTAAAATT
1 TAAATTATAATTAATTT-AAATT
1945422 TAAA
1 TAAA
1945426 ATTAATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.12
19 6 0.15
20 5 0.12
21 4 0.10
22 20 0.50
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (22 bp):
TAAATTATAATTAATTTAAATT
Found at i:1945409 original size:11 final size:11
Alignment explanation
Indices: 1945369--1945471 Score: 59
Period size: 11 Copynumber: 9.1 Consensus size: 11
1945359 TAAAATATAA
*
1945369 TTAATTTGAAT
1 TTAATTTAAAT
*
1945380 TTAAATTATAA-
1 TTAATTTA-AAT
*
1945391 TAAATTTAAAT
1 TTAATTTAAAT
1945402 TTAATTTAAAAT
1 TTAATTT-AAAT
*
1945414 TTAAAATTTAAAA
1 TT--AATTTAAAT
*
1945427 TTAATTT--TT
1 TTAATTTAAAT
*
1945436 TTAAGTTTGAAT
1 TTAA-TTTAAAT
1945448 TTAATTTGAAAT
1 TTAATTT-AAAT
* *
1945460 TAAAATTAAAT
1 TTAATTTAAAT
1945471 T
1 T
1945472 GTTTGGACTC
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
9 4 0.06
10 5 0.07
11 31 0.44
12 21 0.30
13 5 0.07
14 5 0.07
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.50
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:1945416 original size:7 final size:7
Alignment explanation
Indices: 1945392--1945428 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
1945382 AAATTATAAT
1945392 AAATTT-
1 AAATTTA
1945398 AAATTT-
1 AAATTTA
1945404 -AATTTA
1 AAATTTA
1945410 AAATTTA
1 AAATTTA
1945417 AAATTTA
1 AAATTTA
1945424 AAATT
1 AAATT
1945429 AATTTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.17
6 6 0.21
7 18 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
AAATTTA
Found at i:1945571 original size:18 final size:18
Alignment explanation
Indices: 1945544--1945581 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1945534 TTATTTATAA
1945544 TTAAGCTTAAACTAAAAT
1 TTAAGCTTAAACTAAAAT
* *
1945562 TTAAGTTTAAATTAAAAT
1 TTAAGCTTAAACTAAAAT
1945580 TT
1 TT
1945582 TTAAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (18 bp):
TTAAGCTTAAACTAAAAT
Found at i:1945632 original size:19 final size:18
Alignment explanation
Indices: 1945584--1945633 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
1945574 TAAAATTTTT
1945584 AAAA-ATAATTAAAATAA
1 AAAATATAATTAAAATAA
1945601 AAAATATATATTAAAATTAA
1 AAAATATA-ATTAAAA-TAA
*
1945621 AAAATTTAATTAA
1 AAAATATAATTAA
1945634 TTTTATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.14
18 3 0.10
19 12 0.41
20 10 0.34
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATATAATTAAAATAA
Found at i:1946634 original size:2 final size:2
Alignment explanation
Indices: 1946629--1946667 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1946619 ATTTTTTTAA
*
1946629 AT AT AT AT AA AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1946668 GAGTTGAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1949799 original size:182 final size:182
Alignment explanation
Indices: 1949490--1949843 Score: 609
Period size: 182 Copynumber: 1.9 Consensus size: 182
1949480 TGGTTTTCCC
*
1949490 TTCTTAGGAAACTATGGGATCAAAGGCATTCTTGTACCATGTTAAAACTGATTAACAGAATGTGA
1 TTCTTAGGAAACTATGGGATCAAAGGCATCCTTGTACCATGTTAAAACTGATTAACAGAATGTGA
* * *
1949555 AGTTATATGCGGCTAAGAAGAATCAGAGAGGGGTTCAGTGGAAGCAAGGTAGCACGAATAACAAT
66 AGTTAAATGCGGCTAAGAAGAATCAGAGAAGGGTTCAGTGGAAGCAAGGTAGCACAAATAACAAT
1949620 GGTGGGAATGATAATATTTAAATGAAAGAGAGGTGGTGGGACTTGGTTTTGT
131 GGTGGGAATGATAATATTTAAATGAAAGAGAGGTGGTGGGACTTGGTTTTGT
*
1949672 TTCTTAGGAAACTATGGGATCAAAGGCATCCTTGTACCATGTTAAAACTGATTAACAGCATGTGA
1 TTCTTAGGAAACTATGGGATCAAAGGCATCCTTGTACCATGTTAAAACTGATTAACAGAATGTGA
* * * * *
1949737 AGTTAAATGCGGCTAAGGAGAATCAGATAAGGGTTGAGTGGAAGCAAGGTGGCACAAATAACAGT
66 AGTTAAATGCGGCTAAGAAGAATCAGAGAAGGGTTCAGTGGAAGCAAGGTAGCACAAATAACAAT
*
1949802 GTTGGGAATGATAATATTTAAATGAAAGAGAGGTGGTGGGAC
131 GGTGGGAATGATAATATTTAAATGAAAGAGAGGTGGTGGGAC
1949844 ACTAGAACAT
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
182 161 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.26
Consensus pattern (182 bp):
TTCTTAGGAAACTATGGGATCAAAGGCATCCTTGTACCATGTTAAAACTGATTAACAGAATGTGA
AGTTAAATGCGGCTAAGAAGAATCAGAGAAGGGTTCAGTGGAAGCAAGGTAGCACAAATAACAAT
GGTGGGAATGATAATATTTAAATGAAAGAGAGGTGGTGGGACTTGGTTTTGT
Found at i:1951369 original size:6 final size:6
Alignment explanation
Indices: 1951355--1951396 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
1951345 GGGACCGTGA
* * *
1951355 AAAG-G AAAGGG AAAGGG ACAGAG AAAGAG AAAGAG AAAGAG A
1 AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG A
1951397 TAGGGAGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.60, C:0.02, G:0.38, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:1951380 original size:18 final size:18
Alignment explanation
Indices: 1951355--1951412 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
1951345 GGGACCGTGA
*
1951355 AAAG-GAAAGGGAAAGGG
1 AAAGAGAAAGGGAAAGAG
* *
1951372 ACAGAGAAAGAGAAAGAG
1 AAAGAGAAAGGGAAAGAG
* *
1951390 AAAGAGATAGGGAGAGAG
1 AAAGAGAAAGGGAAAGAG
1951408 CAAAG
1 -AAAG
1951413 GCCCGGGATC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 3 0.09
18 25 0.78
19 4 0.12
ACGTcount: A:0.55, C:0.03, G:0.40, T:0.02
Consensus pattern (18 bp):
AAAGAGAAAGGGAAAGAG
Found at i:1952394 original size:6 final size:6
Alignment explanation
Indices: 1952383--1952408 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1952373 AATACATATT
1952383 TAAATA TAAATA TAAATA TAAATA TA
1 TAAATA TAAATA TAAATA TAAATA TA
1952409 TAATCTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:1952763 original size:20 final size:20
Alignment explanation
Indices: 1952738--1952801 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
1952728 AAAGCATAAA
1952738 AAATATATATATAATATTAT
1 AAATATATATATAATATTAT
1952758 AAATATA-ATTATAATA-TATT
1 AAATATATA-TATAATATTA-T
1952778 AAA-ATATGATATGAATATATAT
1 AAATATAT-ATAT-AATAT-TAT
1952800 AA
1 AA
1952802 GGATAAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
19 6 0.16
20 21 0.57
21 5 0.14
22 3 0.08
23 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
AAATATATATATAATATTAT
Found at i:1952784 original size:21 final size:22
Alignment explanation
Indices: 1952751--1952801 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
1952741 TATATATATA
1952751 ATATTATAAATATAATTAT-AAT
1 ATATTATAAATATAA-TATGAAT
*
1952773 ATATTA-AAATATGATATGAAT
1 ATATTATAAATATAATATGAAT
1952794 ATA-TATAA
1 ATATTATAA
1952802 GGATAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.19
21 15 0.58
22 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
ATATTATAAATATAATATGAAT
Done.