Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold145
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: 2608604
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 28749 characters in sequence are not A, C, G, or T
File 10 of 15
Found at i:1779962 original size:10 final size:10
Alignment explanation
Indices: 1779947--1779982 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
1779937 GTAAGTAAAT
1779947 GAGAGAGAAA
1 GAGAGAGAAA
1779957 GAGAGAGAAA
1 GAGAGAGAAA
*
1779967 GAGAGAGAGA
1 GAGAGAGAAA
1779977 GAGAGA
1 GAGAGA
1779983 AGCGAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (10 bp):
GAGAGAGAAA
Found at i:1782155 original size:11 final size:11
Alignment explanation
Indices: 1782139--1782179 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
1782129 TAAAATTTAT
1782139 ATATTTATATC
1 ATATTTATATC
1782150 ATATTTATAT-
1 ATATTTATATC
*
1782160 -TATTTTTATC
1 ATATTTATATC
*
1782170 ATAATTATAT
1 ATATTTATAT
1782180 TTAAATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 8 0.32
11 17 0.68
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTTATATC
Found at i:1782169 original size:20 final size:20
Alignment explanation
Indices: 1782133--1782180 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1782123 CACATGTAAA
1782133 ATTTATA-TATTTATATCAT
1 ATTTATATTATTTATATCAT
*
1782152 ATTTATATTATTTTTATCAT
1 ATTTATATTATTTATATCAT
*
1782172 AATTATATT
1 ATTTATATT
1782181 TAAATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTATATTATTTATATCAT
Found at i:1782205 original size:20 final size:20
Alignment explanation
Indices: 1782133--1782203 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 20
1782123 CACATGTAAA
*
1782133 ATTTATATATTTA-TATCAT
1 ATTTATATAATTATTATCAT
* *
1782152 ATTTATATTATTTTTATCAT
1 ATTTATATAATTATTATCAT
*
1782172 AATTATATTTAAATTATTAT-AT
1 -ATT-TATAT-AATTATTATCAT
1782194 ATTTATATAA
1 ATTTATATAA
1782204 ATACATACAT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
19 12 0.29
20 10 0.24
21 6 0.15
22 6 0.15
23 7 0.17
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTATATAATTATTATCAT
Found at i:1782233 original size:43 final size:45
Alignment explanation
Indices: 1782186--1782299 Score: 106
Period size: 46 Copynumber: 2.4 Consensus size: 45
1782176 ATATTTAAAT
* *
1782186 TATTATATATTTATATAAATA-CATACATTTATTTTATTTTT-TA
1 TATTATATATTTATATAAATATCATACATTTATATAATTTTTATA
* * * *
1782229 TATTATAATCATATATAAAAATATTATATATTTATATAATTTTTGATA
1 TATTAT-AT-ATTTATATAAATATCATACATTTATATAATTTTT-ATA
1782277 TATCTATATTATTATATATAAAT
1 TAT-TATA-TATT-TATATAAAT
1782300 TTAGACGCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
43 6 0.11
44 2 0.04
45 11 0.20
46 16 0.29
48 8 0.15
49 12 0.22
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.54
Consensus pattern (45 bp):
TATTATATATTTATATAAATATCATACATTTATATAATTTTTATA
Found at i:1784495 original size:2 final size:2
Alignment explanation
Indices: 1784488--1784520 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1784478 TAGTACTCAA
1784488 AT AT 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 AT AT A
1784521 AATTATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1785267 original size:24 final size:26
Alignment explanation
Indices: 1785240--1785301 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 26
1785230 TTTTTCTTTA
1785240 AATATTTAATAAATTTAAT-TA-A-AT
1 AATATTTAATAAA-TTAATATATATAT
*
1785264 AATATTTTATAAATTAATATATATTAT
1 AATATTTAATAAATTAATATATA-TAT
1785291 AATATTTAATA
1 AATATTTAATA
1785302 TTCGAGTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 5 0.16
24 14 0.44
25 1 0.03
27 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AATATTTAATAAATTAATATATATAT
Found at i:1785285 original size:17 final size:19
Alignment explanation
Indices: 1785265--1785302 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
1785255 TAATTAAATA
*
1785265 ATATTTTATAA-A-TTAAT
1 ATATATTATAATATTTAAT
1785282 ATATATTATAATATTTAAT
1 ATATATTATAATATTTAAT
1785301 AT
1 AT
1785303 TCGAGTCCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATATTATAATATTTAAT
Found at i:1790648 original size:16 final size:16
Alignment explanation
Indices: 1790627--1790669 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
1790617 CAACTTAAAA
1790627 AAATATATAAAAAATT
1 AAATATATAAAAAATT
* * *
1790643 ATATATATTAAAATTT
1 AAATATATAAAAAATT
1790659 AAATAT-TAAAA
1 AAATATATAAAA
1790670 TTATTAATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATATATAAAAAATT
Found at i:1790664 original size:14 final size:15
Alignment explanation
Indices: 1790637--1790673 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
1790627 AAATATATAA
*
1790637 AAAATTATATATATT
1 AAAATTATAAATATT
1790652 AAAATT-TAAATATT
1 AAAATTATAAATATT
1790666 AAAATTAT
1 AAAATTAT
1790674 TAATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATTATAAATATT
Found at i:1790676 original size:16 final size:16
Alignment explanation
Indices: 1790637--1790681 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 16
1790627 AAATATATAA
*
1790637 AAAATTA-TATATATT
1 AAAATTATTAAATATT
1790652 AAAA-T-TTAAATATT
1 AAAATTATTAAATATT
*
1790666 AAAATTATTAATTATT
1 AAAATTATTAAATATT
1790682 TTATTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 12 0.48
15 5 0.20
16 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATTATTAAATATT
Found at i:1792339 original size:26 final size:28
Alignment explanation
Indices: 1792286--1792339 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 28
1792276 TGCTAATATA
*
1792286 TATATATATATATATATAAAGATGAATT
1 TATATATATATATATATAAAGATAAATT
1792314 TATATATAT-TA-ATATAAA-ATTAAATT
1 TATATATATATATATATAAAGA-TAAATT
1792340 ATTTTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 1 0.04
26 12 0.50
27 2 0.08
28 9 0.38
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
TATATATATATATATATAAAGATAAATT
Found at i:1793159 original size:2 final size:2
Alignment explanation
Indices: 1793152--1793183 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1793142 AAATATAAAA
1793152 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
1793184 TTTTCATAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1796042 original size:22 final size:23
Alignment explanation
Indices: 1795998--1796052 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
1795988 TATTTTTATA
1795998 ATAAATTTAAATAAAAATATTAAT
1 ATAAA-TTAAATAAAAATATTAAT
* *
1796022 ATCAATTAAATAATAAT-TTAAT
1 ATAAATTAAATAAAAATATTAAT
*
1796044 TTAAATTAA
1 ATAAATTAA
1796053 TCTTAATTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 12 0.44
23 11 0.41
24 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAAATTAAATAAAAATATTAAT
Found at i:1798357 original size:2 final size:2
Alignment explanation
Indices: 1798350--1798380 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1798340 CCAACCCGGT
1798350 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 T
1798381 TCCAAACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1803691 original size:211 final size:211
Alignment explanation
Indices: 1803327--1803749 Score: 787
Period size: 211 Copynumber: 2.0 Consensus size: 211
1803317 AATAATAATC
1803327 TTTTACTTTCAGAAAATGTGACAAACACCAAAAAACAAGCCACACTTTTAAAAAGAATCAAAACT
1 TTTTACTTTCAGAAAATGTGACAAACACCAAAAAACAAGCCACACTTTTAAAAAGAATCAAAACT
1803392 ACCCATTTCATTAAAAAAAATAAAAAAAATGTAATTCTTTCATTCTTACTCAACTTAAAAAAATT
66 ACCCATTTCATTAAAAAAAATAAAAAAAATGTAATTCTTTCATTCTTACTCAACTTAAAAAAATT
*
1803457 AAAATTAAACATTTCATAAAATGAAAAGCAATAGTTCAACTTACCAAGATCAGGAGTATCTCTAA
131 AAAATTAAACATTTCATAAAATGAAAAGCAATAGTTCAACTTACCAAGACCAGGAGTATCTCTAA
1803522 GCTCATATTTCAAATG
196 GCTCATATTTCAAATG
*
1803538 TTTTACTTTCAGAAAATGTGACAAACACCAAAAAACAAGCCACACTTTTTAAAA-AATCAAAACT
1 TTTTACTTTCAGAAAATGTGACAAACACCAAAAAACAAGCCACACTTTTAAAAAGAATCAAAACT
1803602 ACCCATTTCATT-AAAAAAATAAAAAAAAATGTAATTCTTTCATTCTTACTCAACTTAAAAAAAA
66 ACCCATTTCATTAAAAAAAAT-AAAAAAAATGTAATTCTTTCATTCTTACTCAACTT-AAAAAAA
*
1803666 TTAAAATTAAACATTTCATAAAATGAAAAGCACTAGTTCAACTTACCAAGACCAGGAGTATCTCT
129 TTAAAATTAAACATTTCATAAAATGAAAAGCAATAGTTCAACTTACCAAGACCAGGAGTATCTCT
1803731 AAGCTCATATTTCAAATG
194 AAGCTCATATTTCAAATG
1803749 T
1 T
1803750 GAATGCCTTC
Statistics
Matches: 207, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
209 8 0.04
210 57 0.28
211 142 0.69
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (211 bp):
TTTTACTTTCAGAAAATGTGACAAACACCAAAAAACAAGCCACACTTTTAAAAAGAATCAAAACT
ACCCATTTCATTAAAAAAAATAAAAAAAATGTAATTCTTTCATTCTTACTCAACTTAAAAAAATT
AAAATTAAACATTTCATAAAATGAAAAGCAATAGTTCAACTTACCAAGACCAGGAGTATCTCTAA
GCTCATATTTCAAATG
Found at i:1804194 original size:27 final size:27
Alignment explanation
Indices: 1804163--1804216 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1804153 CGGCAGCCGC
1804163 ATCGGGAGCTGGAACTGGAGGCAAAGT
1 ATCGGGAGCTGGAACTGGAGGCAAAGT
1804190 ATCGGGAGCTGGAACTGGAGGCAAAGT
1 ATCGGGAGCTGGAACTGGAGGCAAAGT
1804217 TCCAGGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.41, T:0.15
Consensus pattern (27 bp):
ATCGGGAGCTGGAACTGGAGGCAAAGT
Found at i:1804652 original size:14 final size:16
Alignment explanation
Indices: 1804630--1804661 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1804620 ATTTTTATAT
1804630 AAATAATTA-TATTTA
1 AAATAATTATTATTTA
1804645 AAAT-ATTATTATTTA
1 AAATAATTATTATTTA
1804660 AA
1 AA
1804662 TAAATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATAATTATTATTTA
Found at i:1804862 original size:25 final size:25
Alignment explanation
Indices: 1804830--1804910 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
1804820 TATTATTTTA
1804830 AATT-TTTAATAAATTAAAATATTT
1 AATTATTTAATAAATTAAAATATTT
* * *
1804854 AATTATTTATTTAATATAAAAAATTTT
1 AATTATTTAATAAAT-TAAAATA-TTT
* * *
1804881 AATTATTAAATATA-TAATAATTTTT
1 AATTATTTAATAAATTAA-AATATTT
1804906 AATTA
1 AATTA
1804911 ATAAAATAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
24 4 0.09
25 19 0.43
26 8 0.18
27 13 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
AATTATTTAATAAATTAAAATATTT
Found at i:1804915 original size:25 final size:25
Alignment explanation
Indices: 1804867--1804925 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
1804857 TATTTATTTA
*
1804867 ATATAAAAAATTTTAATTATTAAAT
1 ATATAAAAAATTTTAATTAATAAAT
* *
1804892 ATATAATAATTTTTAATTAATAAA-
1 ATATAAAAAATTTTAATTAATAAAT
1804916 ATA-AAAAAAT
1 ATATAAAAAAT
1804926 CAAATTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 5 0.17
24 3 0.10
25 21 0.72
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
ATATAAAAAATTTTAATTAATAAAT
Found at i:1805096 original size:23 final size:24
Alignment explanation
Indices: 1805056--1805113 Score: 100
Period size: 24 Copynumber: 2.4 Consensus size: 24
1805046 TAAATAAACT
1805056 TATTTTATAAATTAAAATAATATA
1 TATTTTATAAATTAAAATAATATA
1805080 TATTTTATAAATT-AAATAATATA
1 TATTTTATAAATTAAAATAATATA
1805103 TATTTATATAA
1 TATTT-TATAA
1805114 TATTTTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TATTTTATAAATTAAAATAATATA
Found at i:1805679 original size:14 final size:14
Alignment explanation
Indices: 1805642--1805681 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1805632 TATGTAAATA
* *
1805642 TTAAAATATTTAAT
1 TTAAAATTTTTTAT
1805656 TTAAAATTTTTTAT
1 TTAAAATTTTTTAT
1805670 TT-AAATTTTTTA
1 TTAAAATTTTTTA
1805682 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTAAAATTTTTTAT
Found at i:1807197 original size:23 final size:23
Alignment explanation
Indices: 1807140--1807198 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1807130 TTAATTTATT
* *
1807140 TTTTAATTTATAAATTAAAGTAA
1 TTTTAATTTTTAAATCAAAGTAA
* *
1807163 -TATAATTATTTAAATCAAATTAA
1 TTTTAATT-TTTAAATCAAAGTAA
1807186 TTTTAATTTTTAA
1 TTTTAATTTTTAA
1807199 TTATTTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 6 0.21
23 17 0.59
24 6 0.21
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTTAATTTTTAAATCAAAGTAA
Found at i:1813000 original size:2 final size:2
Alignment explanation
Indices: 1812995--1813023 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1812985 CGATGCTAGG
1812995 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1813024 TTAAGTTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1814739 original size:25 final size:24
Alignment explanation
Indices: 1814711--1814757 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
1814701 TTTTATATTT
1814711 ATATT-TTTAATTAAATTAAATAAAA
1 ATATTATTT-ATTAAA-TAAATAAAA
*
1814736 ATATTATTTATTATATAAATAA
1 ATATTATTTATTAAATAAATAA
1814758 TAATTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 10 0.50
26 3 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATTATTTATTAAATAAATAAAA
Found at i:1816394 original size:18 final size:19
Alignment explanation
Indices: 1816366--1816403 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1816356 TTATTTAAAT
1816366 TAAATAATAATTATTAATA
1 TAAATAATAATTATTAATA
*
1816385 TAAA-AATAATTTTTAATA
1 TAAATAATAATTATTAATA
1816403 T
1 T
1816404 TATTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAATAATAATTATTAATA
Found at i:1820684 original size:26 final size:25
Alignment explanation
Indices: 1820623--1820693 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 25
1820613 GAGTATCTTG
1820623 AATTTTTAAAATAAGTTTAATATTTTAA
1 AATTTTT-AAA-AA-TTTAATATTTTAA
* *
1820651 AGAATTTTAAAAATTTAATCTGTTTAA
1 A-ATTTTTAAAAATTTAATAT-TTTAA
1820678 AATTTTTAAAAATTTA
1 AATTTTTAAAAATTTA
1820694 GAGGGTCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
26 21 0.55
27 8 0.21
28 4 0.11
29 5 0.13
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (25 bp):
AATTTTTAAAAATTTAATATTTTAA
Found at i:1820780 original size:26 final size:26
Alignment explanation
Indices: 1820751--1820801 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
1820741 AATAATATTG
1820751 ATAAAGTTTAACTTTATCTGAGATTT
1 ATAAAGTTTAACTTTATCTGAGATTT
** *
1820777 ATAAAGTTTATTTTTATTTGAGATT
1 ATAAAGTTTAACTTTATCTGAGATT
1820802 CTAGATAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (26 bp):
ATAAAGTTTAACTTTATCTGAGATTT
Found at i:1829119 original size:37 final size:37
Alignment explanation
Indices: 1829036--1829121 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
1829026 AAATATTTGG
* * *
1829036 TTTAAATATATTTTTAATATTAATATATTTAATTTTTT
1 TTTAAATATA-TTTTAAAATTAATATATTTAATTTATA
* *
1829074 TTTTAATATATTTTAAAATT-ATATTTTTATATTTATA
1 TTTAAATATATTTTAAAATTAATATATTTA-ATTTATA
1829111 TTTAAATATAT
1 TTTAAATATAT
1829122 ATTATATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 8 0.20
37 24 0.59
38 9 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (37 bp):
TTTAAATATATTTTAAAATTAATATATTTAATTTATA
Found at i:1829138 original size:13 final size:13
Alignment explanation
Indices: 1829120--1829161 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1829110 ATTTAAATAT
1829120 ATATTATATAAAA
1 ATATTATATAAAA
* *
1829133 ATATTAAATATAA
1 ATATTATATAAAA
*
1829146 ATATTATAAAAAA
1 ATATTATATAAAA
1829159 ATA
1 ATA
1829162 AAAAATCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATTATATAAAA
Found at i:1829139 original size:24 final size:25
Alignment explanation
Indices: 1829112--1829161 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
1829102 ATATTTATAT
*
1829112 TTAAATAT-ATATTATATAAAAATA
1 TTAAATATAATATTATAAAAAAATA
1829136 TTAAATATAAATATTATAAAAAAATA
1 TTAAATAT-AATATTATAAAAAAATA
1829162 AAAAATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
26 15 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TTAAATATAATATTATAAAAAAATA
Found at i:1829167 original size:26 final size:26
Alignment explanation
Indices: 1829120--1829194 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
1829110 ATTTAAATAT
* **
1829120 ATATTATATAAAAATATTAAATATAA
1 ATATTATAAAAAAATAAAAAATATAA
1829146 ATATTATAAAAAAATAAAAAATCA-AA
1 ATATTATAAAAAAATAAAAAAT-ATAA
* * *
1829172 ATATCAT-AAACAATAAACAATAT
1 ATATTATAAAAAAATAAAAAATAT
1829195 GTAAGGGGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
24 1 0.02
25 12 0.29
26 27 0.66
27 1 0.02
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (26 bp):
ATATTATAAAAAAATAAAAAATATAA
Found at i:1829524 original size:2 final size:2
Alignment explanation
Indices: 1829519--1829547 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1829509 CATACGTGTG
1829519 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1829548 AAATAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1829909 original size:23 final size:23
Alignment explanation
Indices: 1829846--1829911 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
1829836 AATTAAAAAA
1829846 TAAA-AAATATTT--TT-TTAAT
1 TAAATAAATATTTAATTATTAAT
* *
1829865 TAAATAAATTTTTAATTTTTAAT
1 TAAATAAATATTTAATTATTAAT
*
1829888 TAAAT-CATATTTAATCTATTAAT
1 TAAATAAATATTTAAT-TATTAAT
1829911 T
1 T
1829912 CTATATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 4 0.11
20 7 0.18
22 10 0.26
23 17 0.45
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
TAAATAAATATTTAATTATTAAT
Found at i:1832303 original size:3 final size:3
Alignment explanation
Indices: 1832295--1832321 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1832285 CAATAGCCAC
1832295 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1832322 ACGCATCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1832449 original size:16 final size:15
Alignment explanation
Indices: 1832399--1832467 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 15
1832389 TCGCCCCACT
1832399 TATTGAAATAAATAAA
1 TATT-AAATAAATAAA
1832415 TTAATTAAA-AAATTAAA
1 -T-ATTAAATAAA-TAAA
1832432 TATTAAATATAATAAA
1 TATTAAATA-AATAAA
*
1832448 TATTTAATAAA-AATA
1 TATTAAATAAATAA-A
1832463 TATTA
1 TATTA
1832468 TTTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
14 2 0.04
15 13 0.29
16 17 0.38
17 10 0.22
18 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (15 bp):
TATTAAATAAATAAA
Found at i:1832479 original size:26 final size:28
Alignment explanation
Indices: 1832445--1832499 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
1832435 TAAATATAAT
*
1832445 AAATATTTAATAAAAATAT-ATTATTTA
1 AAATATTTAATAAAAATATAATAATTTA
*
1832472 AAAT-TTTAATATAAATATAATAATTTA
1 AAATATTTAATAAAAATATAATAATTTA
1832499 A
1 A
1832500 GTGTGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATATTTAATAAAAATATAATAATTTA
Found at i:1832604 original size:16 final size:16
Alignment explanation
Indices: 1832561--1832604 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
1832551 TTAAAAATAA
**
1832561 TTTTAATTTTAATTTT
1 TTTTAATTTTAAAATT
1832577 TTTTAATTTTTAAAATT
1 TTTTAA-TTTTAAAATT
*
1832594 TTTTAACTTTA
1 TTTTAATTTTA
1832605 CAATAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTAATTTTAAAATT
Found at i:1833988 original size:21 final size:20
Alignment explanation
Indices: 1833942--1834004 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
1833932 CACATACTAG
1833942 TTTTTTATTTAAAAATGTTAAAA
1 TTTTTTA-TT-AAAAT-TTAAAA
*
1833965 TTTTTTATTAAAATTTATATA
1 TTTTTTATTAAAATTTA-AAA
*
1833986 TTTTATAATT-AAATTTAAA
1 TTTT-TTATTAAAATTTAAA
1834005 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 4 0.11
21 18 0.51
22 6 0.17
23 7 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTTATTAAAATTTAAAA
Found at i:1836934 original size:22 final size:23
Alignment explanation
Indices: 1836891--1836935 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1836881 ATTTTTTTAT
*
1836891 ATATTTTGATAAATTAAAAAATA
1 ATATTTTGATAAATAAAAAAATA
*
1836914 ATATTTT-ATCAATAAAAAAATA
1 ATATTTTGATAAATAAAAAAATA
1836936 TAAAACATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
ATATTTTGATAAATAAAAAAATA
Found at i:1837404 original size:3 final size:3
Alignment explanation
Indices: 1837396--1837426 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1837386 TGAAAAAATA
1837396 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1837427 TGGTGTAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1838000 original size:22 final size:21
Alignment explanation
Indices: 1837954--1838014 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 21
1837944 CTATATTTTT
* *
1837954 ATATTTATGTTATA-TAAA-A
1 ATATTTATATTAAATTAAATA
*
1837973 ATATTTTTTATT-AATTAAATA
1 ATA-TTTATATTAAATTAAATA
1837994 ATAATTTATATTAAATTAAAT
1 AT-ATTTATATTAAATTAAAT
1838015 CGATTTAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.12
20 10 0.30
21 10 0.30
22 9 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATTTATATTAAATTAAATA
Found at i:1838005 original size:21 final size:22
Alignment explanation
Indices: 1837968--1838014 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
1837958 TTATGTTATA
* *
1837968 TAAA-AATATTTTTTATT-AAT
1 TAAATAATAATTTATATTAAAT
1837988 TAAATAATAATTTATATTAAAT
1 TAAATAATAATTTATATTAAAT
1838010 TAAAT
1 TAAAT
1838015 CGATTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 11 0.48
22 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATAATAATTTATATTAAAT
Found at i:1838519 original size:20 final size:21
Alignment explanation
Indices: 1838487--1838537 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
1838477 TAATTAAAAC
*
1838487 ATATTATATATATG-TT-TTA
1 ATATTATAAATATGATTATTA
1838506 ATATTTATAAATATGATTATTA
1 ATA-TTATAAATATGATTATTA
1838528 ATATTATAAA
1 ATATTATAAA
1838538 ATTATAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 3 0.11
20 10 0.36
21 9 0.32
22 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
ATATTATAAATATGATTATTA
Found at i:1838564 original size:30 final size:28
Alignment explanation
Indices: 1838514--1838597 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 28
1838504 TAATATTTAT
* *
1838514 AAATATGATTATTAATATTATAAAATTATA
1 AAATAT-ATTAATAA-ATTATAAAATGATA
* *
1838544 AAATATTTTAAATAAAATTATAATATGATA
1 AAATATATT-AAT-AAATTATAAAATGATA
*
1838574 AAATATATTCATAAATTATAAAAT
1 AAATATATTAATAAATTATAAAAT
1838598 ATTAAATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 11 0.24
29 4 0.09
30 28 0.62
31 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (28 bp):
AAATATATTAATAAATTATAAAATGATA
Found at i:1839489 original size:15 final size:15
Alignment explanation
Indices: 1839469--1839498 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1839459 AAAAATAATA
*
1839469 TAAATTATTATTATT
1 TAAATTAATATTATT
1839484 TAAATTAATATTATT
1 TAAATTAATATTATT
1839499 ATTATACCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAATTAATATTATT
Found at i:1844752 original size:27 final size:26
Alignment explanation
Indices: 1844722--1844789 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 26
1844712 ATATTTAAAT
1844722 AAATTATATTTAATAATAAAATTAATA
1 AAATTATATTTAA-AATAAAATTAATA
* *
1844749 AAATTATTTTTAAAAT-ATATTAATA
1 AAATTATATTTAAAATAAAATTAATA
1844774 AAATTAATATTTAAAA
1 AAATT-ATATTTAAAA
1844790 ATATTATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 13 0.35
26 12 0.32
27 12 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AAATTATATTTAAAATAAAATTAATA
Found at i:1844775 original size:13 final size:13
Alignment explanation
Indices: 1844709--1844777 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 13
1844699 CATTAGTATA
1844709 AAAATAT-TTAAAT
1 AAAATATATT-AAT
*
1844722 AAATTATATTTAAT
1 AAAATATA-TTAAT
1844736 AATAA-A-ATTAAT
1 AA-AATATATTAAT
**
1844748 AAAAT-TATTTTT
1 AAAATATATTAAT
1844760 AAAATATATTAAT
1 AAAATATATTAAT
1844773 AAAAT
1 AAAAT
1844778 TAATATTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.05
12 16 0.36
13 17 0.39
14 6 0.14
15 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATATATTAAT
Found at i:1844792 original size:19 final size:20
Alignment explanation
Indices: 1844770--1844809 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1844760 AAAATATATT
1844770 AATAAAATTA-ATATTTAAA
1 AATAAAATTATATATTTAAA
**
1844789 AATATTATTATATATTTAAA
1 AATAAAATTATATATTTAAA
1844809 A
1 A
1844810 TATGATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATAAAATTATATATTTAAA
Found at i:1845394 original size:19 final size:19
Alignment explanation
Indices: 1845370--1845406 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1845360 ACAGAGGAAG
1845370 GATATGTTTTCAGGAGAAA
1 GATATGTTTTCAGGAGAAA
*
1845389 GATATGTTTTGAGGAGAA
1 GATATGTTTTCAGGAGAA
1845407 GAAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (19 bp):
GATATGTTTTCAGGAGAAA
Found at i:1854319 original size:7 final size:7
Alignment explanation
Indices: 1854307--1854351 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
1854297 AAGAAATTTC
1854307 TTTCTTT
1 TTTCTTT
1854314 TTTCTTT
1 TTTCTTT
*
1854321 TTTTTTT
1 TTTCTTT
1854328 TTTCTTT
1 TTTCTTT
*
1854335 TTAGTTTTT
1 TT--TCTTT
1854344 TTTCTTT
1 TTTCTTT
1854351 T
1 T
1854352 ATTCATTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 26 0.81
9 6 0.19
ACGTcount: A:0.02, C:0.09, G:0.02, T:0.87
Consensus pattern (7 bp):
TTTCTTT
Found at i:1854319 original size:11 final size:11
Alignment explanation
Indices: 1854303--1854336 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1854293 CGACAAGAAA
1854303 TTTCTTTCTTT
1 TTTCTTTCTTT
1854314 TTTCTTT-TTT
1 TTTCTTTCTTT
*
1854324 TTTTTTTCTTT
1 TTTCTTTCTTT
1854335 TT
1 TT
1854337 AGTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTCTTTCTTT
Found at i:1854333 original size:21 final size:21
Alignment explanation
Indices: 1854303--1854351 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1854293 CGACAAGAAA
*
1854303 TTTC-TTTCTTTTTTCTTTTT
1 TTTCTTTTCTTTTTACTTTTT
* *
1854323 TTTTTTTTCTTTTTAGTTTTT
1 TTTCTTTTCTTTTTACTTTTT
1854344 TTTCTTTT
1 TTTCTTTT
1854352 ATTCATTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.86
Consensus pattern (21 bp):
TTTCTTTTCTTTTTACTTTTT
Found at i:1854342 original size:16 final size:14
Alignment explanation
Indices: 1854311--1854351 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 14
1854301 AATTTCTTTC
1854311 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
1854325 TTTTTTCTTTTTAGTT
1 TTTTTTCTTTTT--TT
1854341 TTTTTTCTTTT
1 TTTTTTCTTTT
1854352 ATTCATTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 12 0.48
16 13 0.52
ACGTcount: A:0.02, C:0.07, G:0.02, T:0.88
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:1854924 original size:26 final size:26
Alignment explanation
Indices: 1854891--1854944 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
1854881 ACTTTATAAT
1854891 ATATATTAACTAAGTTCTAATAAAAA
1 ATATATTAACTAAGTTCTAATAAAAA
*
1854917 ATATATTAATTAAGTTCTAATAAAAA
1 ATATATTAACTAAGTTCTAATAAAAA
1854943 AT
1 AT
1854945 TAAGCTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (26 bp):
ATATATTAACTAAGTTCTAATAAAAA
Found at i:1855907 original size:31 final size:33
Alignment explanation
Indices: 1855866--1855950 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 33
1855856 TTAATTTAAT
*
1855866 ATAATAAATAAAATTTATTAT-TATTTAAATTA
1 ATAATAAATAAAATTTATTATATAATTAAATTA
1855898 AT-ATAAAT-AAATTTAATATATATAATTAAATTA
1 ATAATAAATAAAATTT-AT-TATATAATTAAATTA
1855931 ATAATACAA-AAAATATTATT
1 ATAATA-AATAAAAT-TTATT
1855951 TAATATATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
30 6 0.13
31 8 0.18
32 5 0.11
33 12 0.27
34 4 0.09
35 8 0.18
36 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (33 bp):
ATAATAAATAAAATTTATTATATAATTAAATTA
Found at i:1855922 original size:19 final size:18
Alignment explanation
Indices: 1855898--1855933 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1855888 ATTTAAATTA
1855898 ATATAAATAAATTTAATAT
1 ATATAAATAAA-TTAATAT
*
1855917 ATATAATTAAATTAATA
1 ATATAAATAAATTAATA
1855934 ATACAAAAAA
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAAATAAATTAATAT
Found at i:1856003 original size:16 final size:16
Alignment explanation
Indices: 1855982--1856028 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 16
1855972 ATTAATTTTT
1855982 AATTATCTTTTAATA-A
1 AATTAT-TTTTAATATA
1855998 AATTATTATTTAATATA
1 AATTATT-TTTAATATA
1856015 AATATATTTTTAAT
1 AAT-TATTTTTAAT
1856029 TATTTATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.04
16 13 0.46
17 10 0.36
18 4 0.14
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTATTTTTAATATA
Found at i:1857129 original size:33 final size:32
Alignment explanation
Indices: 1857092--1857160 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
1857082 TGTGTGATTC
*
1857092 AATAAGTTAGCATTTAAATTAAATTAATAAAAT
1 AATAAATTAGCATTTAAATTAAATT-ATAAAAT
*** *
1857125 AATAAATTTTTATTTAAATTTAATTATAAAAT
1 AATAAATTAGCATTTAAATTAAATTATAAAAT
1857157 AATA
1 AATA
1857161 TAAACTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 11 0.35
33 20 0.65
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (32 bp):
AATAAATTAGCATTTAAATTAAATTATAAAAT
Found at i:1857622 original size:11 final size:12
Alignment explanation
Indices: 1857604--1857655 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 12
1857594 TTTATATAAA
1857604 TTATATATTATTT
1 TTATATATTA-TT
1857617 TAATATATATTATAT
1 T--TATATATTAT-T
1857632 TTATATAATTATT
1 TTATAT-ATTATT
1857645 TTA-ATATTATT
1 TTATATATTATT
1857656 AAAAAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
11 6 0.17
12 2 0.06
13 10 0.29
14 6 0.17
15 11 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATATATTATT
Found at i:1857627 original size:32 final size:32
Alignment explanation
Indices: 1857517--1857655 Score: 107
Period size: 38 Copynumber: 4.3 Consensus size: 32
1857507 TTTAATTTAA
** *
1857517 TAATATATATTTATATATTTTAT-TA-TATTA
1 TAATATATATTTATATAAATTATATATTATTT
1857547 TAAT-TAATATATTA-ATAAATTATATTATTATAGTTT
1 TAATAT-ATAT-TTATATAAATTATA-TA-T-TA-TTT
1857583 TAAAATATATATTTATATAAATTATATATTATTT
1 T--AATATATATTTATATAAATTATATATTATTT
1857617 TAATATATA-TTATAT---TTATATAATTATTT
1 TAATATATATTTATATAAATTATAT-ATTATTT
1857646 TAATAT-TATT
1 TAATATATATT
1857656 AAAAAAAATT
Statistics
Matches: 92, Mismatches: 3, Indels: 29
0.74 0.02 0.23
Matches are distributed among these distances:
28 8 0.09
29 15 0.16
30 15 0.16
31 9 0.10
32 10 0.11
34 4 0.04
35 4 0.04
36 4 0.04
37 5 0.05
38 17 0.18
39 1 0.01
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (32 bp):
TAATATATATTTATATAAATTATATATTATTT
Found at i:1857896 original size:20 final size:23
Alignment explanation
Indices: 1857854--1857909 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 23
1857844 TTTAAATATT
*
1857854 TTATATTATATATTTAATTTTTA
1 TTATATTATATATTTAATATTTA
1857877 TTATATTATA-A-TT-ATATTTA
1 TTATATTATATATTTAATATTTA
**
1857897 AAATATTATATAT
1 TTATATTATATAT
1857910 ATATAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 14 0.50
21 3 0.11
22 1 0.04
23 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATATTATATATTTAATATTTA
Found at i:1857905 original size:28 final size:27
Alignment explanation
Indices: 1857878--1857948 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
1857868 TAATTTTTAT
1857878 TATATTATAATTATATTTAAAATATTA
1 TATATTATAATTATATTTAAAATATTA
* * *
1857905 TATATATATAAATAAATTTAATATATTA
1 TATAT-TATAATTATATTTAAAATATTA
1857933 -ATAATT-TATATTATAT
1 TAT-ATTATA-ATTATAT
1857949 AAATTTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
26 2 0.06
27 13 0.36
28 21 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TATATTATAATTATATTTAAAATATTA
Found at i:1857923 original size:50 final size:49
Alignment explanation
Indices: 1857843--1857944 Score: 111
Period size: 50 Copynumber: 2.1 Consensus size: 49
1857833 ATATTTGATA
* * * *
1857843 ATTTAAATATTTTATATTATATATTTAATTTTTATTATATT-ATAA-TTAT
1 ATTTAAATATTATATATTATATA-ATAA-ATTTAATATATTAATAATTTAT
1857892 ATTTAAAATATTATATA-TATATAAATAAATTTAATATATTAATAATTTAT
1 ATTT-AAATATTATATATTATAT-AATAAATTTAATATATTAATAATTTAT
1857942 ATT
1 ATT
1857945 ATATAAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
48 10 0.22
49 16 0.36
50 19 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (49 bp):
ATTTAAATATTATATATTATATAATAAATTTAATATATTAATAATTTAT
Found at i:1857928 original size:17 final size:17
Alignment explanation
Indices: 1857846--1857952 Score: 71
Period size: 16 Copynumber: 6.3 Consensus size: 17
1857836 TTTGATAATT
*
1857846 TAAATATTTTATATTATA
1 TAAATAATTTATA-TATA
** *
1857864 TATTTAATTTTTAT-TA
1 TAAATAATTTATATATA
* *
1857880 TATTATAA-TTATATTTA
1 TA-AATAATTTATATATA
1857897 -AAAT-ATTATATATATA
1 TAAATAATT-TATATATA
1857913 TAAATAAATTTA-ATATA
1 TAAAT-AATTTATATATA
*
1857930 TTAATAATTTATATTATA
1 TAAATAATTTATA-TATA
1857948 TAAAT
1 TAAAT
1857953 TTTAAAATAT
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
14 1 0.01
15 3 0.04
16 23 0.33
17 21 0.30
18 19 0.27
19 3 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATAATTTATATATA
Found at i:1859683 original size:64 final size:64
Alignment explanation
Indices: 1859604--1859732 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
1859594 TCACGTTAGT
1859604 TAGGTTTTATTTTTCCAATCTTTTCTTTTGGTTTTTATATTTTTTTGTATGCCTCGTATTTTAA
1 TAGGTTTTATTTTTCCAATCTTTTCTTTTGGTTTTTATATTTTTTTGTATGCCTCGTATTTTAA
1859668 TAGGTTTTATTTTTCCAATCTTTTCTTTTGGTTTTTATATTTTTTTGTATGCCTCGTATTTTAA
1 TAGGTTTTATTTTTCCAATCTTTTCTTTTGGTTTTTATATTTTTTTGTATGCCTCGTATTTTAA
1859732 T
1 T
1859733 TGTGTAAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.63
Consensus pattern (64 bp):
TAGGTTTTATTTTTCCAATCTTTTCTTTTGGTTTTTATATTTTTTTGTATGCCTCGTATTTTAA
Found at i:1860249 original size:32 final size:33
Alignment explanation
Indices: 1860191--1860255 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1860181 ATAAAGTACT
*
1860191 TAAAATTATCAATATATCTTAAAATTTATATAAC
1 TAAAATTATCAACATA-CTTAAAATTTATATAAC
*
1860225 TAAAATTATTAACATA-TTAAAATTTATATAA
1 TAAAATTATCAACATACTTAAAATTTATATAA
1860256 ATATAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 15 0.52
34 14 0.48
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (33 bp):
TAAAATTATCAACATACTTAAAATTTATATAAC
Found at i:1860262 original size:17 final size:16
Alignment explanation
Indices: 1860225--1860278 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
1860215 TTTATATAAC
1860225 TAAAA-TTATTAACATA
1 TAAAATTTATTAA-ATA
1860241 TTAAAATTTATATAAATA
1 -TAAAATTTAT-TAAATA
* *
1860259 TAAAATATCTTAAATA
1 TAAAATTTATTAAATA
1860275 TAAA
1 TAAA
1860279 TATAATACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 10 0.30
17 13 0.39
18 7 0.21
19 3 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATTTATTAAATA
Found at i:1860263 original size:34 final size:33
Alignment explanation
Indices: 1860191--1860267 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
1860181 ATAAAGTACT
* *
1860191 TAAAATTATCAATATATCTTAAAATTTATATAAC
1 TAAAATTATCAACATA-CTTAAAATTTATATAAA
*
1860225 TAAAATTATTAACATA-TTAAAATTTATATAAA
1 TAAAATTATCAACATACTTAAAATTTATATAAA
*
1860257 TATAAAATATC
1 TA-AAATTATC
1860268 TTAAATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 17 0.46
33 6 0.16
34 14 0.38
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (33 bp):
TAAAATTATCAACATACTTAAAATTTATATAAA
Found at i:1868883 original size:15 final size:14
Alignment explanation
Indices: 1868837--1868889 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
1868827 AAAATTAAAT
1868837 TTTATTTAAATTTTTA
1 TTTATTTAAA--TTTA
*
1868853 TTTA-TCAAATTTA
1 TTTATTTAAATTTA
1868866 TTTATTTAAATTTAA
1 TTTATTTAAATTT-A
1868881 TTTATTTAA
1 TTTATTTAA
1868890 TAATTTATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 8 0.24
14 7 0.21
15 14 0.42
16 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATTTAAATTTA
Found at i:1870162 original size:18 final size:18
Alignment explanation
Indices: 1870152--1870206 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 18
1870142 ATTTATATCT
1870152 AATTAATAATTTAAATTA
1 AATTAATAATTTAAATTA
**
1870170 AATTAATAAAAT-AA-TA
1 AATTAATAATTTAAATTA
*
1870186 AATT--TAATTTAAATTT
1 AATTAATAATTTAAATTA
1870202 AATTA
1 AATTA
1870207 TAAAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
14 4 0.14
15 2 0.07
16 11 0.38
17 2 0.07
18 10 0.34
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAATAATTTAAATTA
Found at i:1870226 original size:32 final size:33
Alignment explanation
Indices: 1870157--1870249 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 33
1870147 TATCTAATTA
*
1870157 ATAATTTAAATTAAATTAATAAAATAATAA--ATT
1 ATAATTTAAATTTAATTAATAAAA-AA-AATTATT
*
1870190 -TAATTTAAATTTAATT-ATAAAAAAAATTTTT
1 ATAATTTAAATTTAATTAATAAAAAAAATTATT
*
1870221 ATAA-TT-AATTTAAATTCA-AAAAAAAATTA
1 ATAATTTAAATTT-AATTAATAAAAAAAATTA
1870250 AATAAATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
29 2 0.04
30 7 0.13
31 24 0.46
32 19 0.37
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (33 bp):
ATAATTTAAATTTAATTAATAAAAAAAATTATT
Found at i:1870560 original size:22 final size:22
Alignment explanation
Indices: 1870535--1870615 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 22
1870525 AATTTTTTTA
1870535 ATTTTAAAATATATATTTATAT
1 ATTTTAAAATATATATTTATAT
** *
1870557 ATTTTATTATATTATAATTATAT
1 ATTTTAAAATA-TATATTTATAT
* *
1870580 -TTAATAAAATTTATATTTATATT
1 ATT-TTAAAATATATATTTATA-T
*
1870603 AATTTTAATATAT
1 -ATTTTAAAATAT
1870616 TAATAATTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
22 20 0.47
23 15 0.35
24 6 0.14
25 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTAAAATATATATTTATAT
Found at i:1870580 original size:21 final size:21
Alignment explanation
Indices: 1870554--1870637 Score: 57
Period size: 21 Copynumber: 3.8 Consensus size: 21
1870544 TATATATTTA
1870554 TATATTTTATTATATTATAAT
1 TATATTTTATTATATTATAAT
1870575 TATATTTAATAAAATTTATATT-TATAT
1 TATATTT--T---A-TTATATTATA-AT
*
1870602 TA-ATTTTAATATATTAATAAT
1 TATATTTTATTATATT-ATAAT
*
1870623 T-TATATTATTATATT
1 TATATTTTATTATATT
1870638 TTTAATATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 20
0.68 0.04 0.27
Matches are distributed among these distances:
20 6 0.12
21 22 0.44
22 2 0.04
23 1 0.02
24 1 0.02
26 7 0.14
27 11 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATTTTATTATATTATAAT
Found at i:1870592 original size:39 final size:38
Alignment explanation
Indices: 1870549--1870698 Score: 134
Period size: 39 Copynumber: 3.9 Consensus size: 38
1870539 TAAAATATAT
*
1870549 ATTTATATATTTTATTATATTATAATTATATTTAATAAA
1 ATTTATATATTATATT-TATTATAATTATATTTAATAAA
* *
1870588 ATTTATAT-TTATATTAATTTTAA-TATA-TTAAT--A
1 ATTTATATATTATATTTATTATAATTATATTTAATAAA
* *
1870621 ATTTATATTATTATATTT-TTAATATATAATATTTTAATAAT
1 ATTTATA-TATTATATTTATT-ATA-ATTATA-TTTAATAAA
*
1870662 TTTTAAGTATATTATATTTA-TATAATTATATTTAATA
1 ATTT-A-TATATTATATTTATTATAATTATATTTAATA
1870699 TTATAAATTT
Statistics
Matches: 90, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
33 8 0.09
34 3 0.03
35 14 0.16
36 5 0.06
37 9 0.10
38 6 0.07
39 20 0.22
40 5 0.06
41 6 0.07
42 12 0.13
43 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (38 bp):
ATTTATATATTATATTTATTATAATTATATTTAATAAA
Found at i:1870593 original size:16 final size:15
Alignment explanation
Indices: 1870574--1870629 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
1870564 TATATTATAA
1870574 TTATATTTAATAAAAT
1 TTATATTTAAT-AAAT
*
1870590 TTATATTTATATTAATT
1 TTATATTTA-A-TAAAT
1870607 TTAATATATTAAT-AAT
1 TT-ATAT-TTAATAAAT
1870623 TTATATT
1 TTATATT
1870630 ATTATATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 4 0.12
16 13 0.38
17 7 0.21
18 6 0.18
19 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATTTAATAAAT
Found at i:1870595 original size:45 final size:49
Alignment explanation
Indices: 1870539--1870629 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 49
1870529 TTTTTAATTT
*
1870539 TAAAATATATATTTATA-T-ATTTTATTATATT-ATAA-TTATATTTAA
1 TAAAATATATATTTATATTAATTTTAATATATTAATAATTTATATTTAA
*
1870584 TAAAATTTATATTTATATTAATTTTAATATATTAATAATTTATATT
1 TAAAATATATATTTATATTAATTTTAATATATTAATAATTTATATT
1870630 ATTATATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 16 0.40
46 1 0.03
47 12 0.30
48 4 0.10
49 7 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (49 bp):
TAAAATATATATTTATATTAATTTTAATATATTAATAATTTATATTTAA
Found at i:1870603 original size:27 final size:27
Alignment explanation
Indices: 1870563--1870631 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
1870553 ATATATTTTA
1870563 TTATA-TTATAATTATA-TTTAATAAAAT
1 TTATATTTAT-ATTATATTTTAAT-AAAT
*
1870590 TTATATTTATATTA-ATTTTAATATAT
1 TTATATTTATATTATATTTTAATAAAT
*
1870616 TAATAATTTATATTAT
1 TTAT-ATTTATATTAT
1870632 TATATTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
26 7 0.19
27 25 0.69
28 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTATATTTATATTATATTTTAATAAAT
Found at i:1870641 original size:16 final size:16
Alignment explanation
Indices: 1870605--1870659 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 16
1870595 TTTATATTAA
1870605 TTTTAATATATTAATA-
1 TTTTAATATA-TAATAT
* *
1870621 ATTT-ATATTATTATAT
1 TTTTAATA-TATAATAT
1870637 TTTTAATATATAATA-
1 TTTTAATATATAATAT
1870652 TTTTAATA
1 TTTTAATA
1870660 ATTTTTAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 15 0.47
16 14 0.44
17 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAATATATAATAT
Found at i:1870652 original size:24 final size:26
Alignment explanation
Indices: 1870635--1870688 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
1870625 ATATTATTAT
1870635 ATTTTTAA-TATATAATATTTTAATA
1 ATTTTTAAGTATATAATATTTTAATA
*
1870660 ATTTTTAAGTATATTATA-TTTATATA
1 ATTTTTAAGTATATAATATTTTA-ATA
1870686 ATT
1 ATT
1870689 ATATTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTTTTAAGTATATAATATTTTAATA
Found at i:1870942 original size:14 final size:14
Alignment explanation
Indices: 1870919--1871019 Score: 55
Period size: 16 Copynumber: 6.8 Consensus size: 14
1870909 CGTTAATTTG
1870919 TATATTT-T-ATAT
1 TATATTTATAATAT
* * *
1870931 TATATTTTTTATTT
1 TATATTTATAATAT
*
1870945 TTTATTATATAATAAT
1 TATATT-TATAAT-AT
1870961 TATATTTATAATATT
1 TATATTTATAATA-T
*
1870976 ATATATTTATAAAAATT
1 -TATATTTAT-AATA-T
1870993 TATATTT-TAATAATT
1 TATATTTATAAT-A-T
1871008 TATATTATATAA
1 TATATT-TATAA
1871020 ATTTTAAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 15
0.76 0.09 0.16
Matches are distributed among these distances:
12 7 0.10
13 1 0.01
14 11 0.15
15 21 0.30
16 23 0.32
17 8 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTTATAATAT
Found at i:1870966 original size:16 final size:16
Alignment explanation
Indices: 1870947--1871019 Score: 89
Period size: 16 Copynumber: 4.6 Consensus size: 16
1870937 TTTTATTTTT
1870947 TATTATATAATAA-TTA
1 TATT-TATAATAATTTA
1870963 TATTTATAAT-ATTATA
1 TATTTATAATAATT-TA
*
1870979 TATTTATAAAAATTTA
1 TATTTATAATAATTTA
1870995 TATTT-TAATAATTTA
1 TATTTATAATAATTTA
1871010 TATTATATAA
1 TATT-TATAA
1871020 ATTTTAAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
14 1 0.02
15 20 0.40
16 23 0.46
17 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTATAATAATTTA
Found at i:1871019 original size:32 final size:31
Alignment explanation
Indices: 1870929--1871020 Score: 100
Period size: 32 Copynumber: 3.0 Consensus size: 31
1870919 TATATTTTAT
* * * *
1870929 ATTATATTTT-TTATTTTTTATTATATAATA
1 ATTATATTTTAATAATTTATATTATATAAAA
1870959 ATTATATTTATAAT-ATTATATATT-TATAAAA
1 ATTATATTT-TAATAATT-TATATTATATAAAA
1870990 ATTTATATTTTAATAATTTATATTATATAAA
1 A-TTATATTTTAATAATTTATATTATATAAA
1871021 TTTTAAAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
30 9 0.17
31 20 0.38
32 23 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (31 bp):
ATTATATTTTAATAATTTATATTATATAAAA
Found at i:1871022 original size:15 final size:15
Alignment explanation
Indices: 1870947--1871023 Score: 68
Period size: 15 Copynumber: 4.9 Consensus size: 15
1870937 TTTTATTTTT
*
1870947 TATTATATAATAATTA
1 TATTATATAA-ATTTA
1870963 TATT-TATAATATTATA
1 TATTATATAA-ATT-TA
*
1870979 TATTTATAAAAATTTA
1 TA-TTATATAAATTTA
*
1870995 TATTTTA-ATAATTTA
1 TATTATATA-AATTTA
1871010 TATTATATAAATTT
1 TATTATATAAATTT
1871024 TAAAATATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.02
15 29 0.56
16 13 0.25
17 5 0.10
18 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATATAAATTTA
Found at i:1873063 original size:19 final size:19
Alignment explanation
Indices: 1873041--1873078 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1873031 CAAATCAATT
1873041 AATTAGATAA-AAATTAAAA
1 AATTAGA-AATAAATTAAAA
*
1873060 AATTATAAATAAATTAAAA
1 AATTAGAAATAAATTAAAA
1873079 TAAAAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
AATTAGAAATAAATTAAAA
Found at i:1873822 original size:20 final size:20
Alignment explanation
Indices: 1873789--1873829 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
1873779 ATTTTTTATT
1873789 TAAATTTAATTATAAAAATA
1 TAAATTTAATTATAAAAATA
1873809 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
1873829 T
1 T
1873830 TTTTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATTTAATTATAAAAATA
Found at i:1874269 original size:16 final size:16
Alignment explanation
Indices: 1874248--1874330 Score: 68
Period size: 16 Copynumber: 5.3 Consensus size: 16
1874238 TATTTATTAA
1874248 AATAAAATAAATTTAT
1 AATAAAATAAATTTAT
*
1874264 AATAAAATAATTATTAT
1 AATAAAATAAAT-TTAT
1874281 -ATAAAAATAAAATTTA-
1 AAT-AAAAT-AAATTTAT
* * *
1874297 ATTAAATTAAA-TTAA
1 AATAAAATAAATTTAT
1874312 AATAAAAT-AA-TTAT
1 AATAAAATAAATTTAT
1874326 AATAA
1 AATAA
1874331 TAATTTAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
14 13 0.24
15 9 0.16
16 17 0.31
17 13 0.24
18 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAAAATAAATTTAT
Found at i:1874335 original size:26 final size:25
Alignment explanation
Indices: 1874264--1874340 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 25
1874254 ATAAATTTAT
*
1874264 AATAAAATAATTAT--TAT-ATAAA
1 AATAAAATAATTATAATATAATTAA
1874286 AATAAAATTTAATTA-AAT-TAAATTAA
1 AATAAAA--TAATTATAATAT-AATTAA
1874312 AATAAAATAATTATAATAATAATTTAA
1 AATAAAATAATTATAAT-ATAA-TTAA
1874339 AA
1 AA
1874341 CACTAAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
22 7 0.16
24 13 0.30
25 4 0.09
26 13 0.30
27 7 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
AATAAAATAATTATAATATAATTAA
Found at i:1875739 original size:39 final size:39
Alignment explanation
Indices: 1875685--1875759 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
1875675 ATGTATGAAA
1875685 GGGCAGAGCAGTACTAGTGATTTTCAGAAATTAAACCAG
1 GGGCAGAGCAGTACTAGTGATTTTCAGAAATTAAACCAG
1875724 GGGCAGAGCAGTACTAGTGATTTTCAGAAATTAAAC
1 GGGCAGAGCAGTACTAGTGATTTTCAGAAATTAAAC
1875760 AAAGTTCGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (39 bp):
GGGCAGAGCAGTACTAGTGATTTTCAGAAATTAAACCAG
Found at i:1876346 original size:3 final size:3
Alignment explanation
Indices: 1876338--1876371 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1876328 GTTAATCCTG
1876338 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1876372 CTTAGATGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:1881961 original size:17 final size:17
Alignment explanation
Indices: 1881912--1881962 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
1881902 TATTAAAAAG
1881912 ATTTATAT-AATAT-AA
1 ATTTATATAAATATAAA
1881927 A-TTAT-TAATATATCAAA
1 ATTTATATAA-ATAT-AAA
1881944 ATTTATATAAATATAAA
1 ATTTATATAAATATAAA
1881961 AT
1 AT
1881963 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.17
15 5 0.17
17 8 0.27
18 8 0.27
19 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTATATAAATATAAA
Found at i:1882352 original size:2 final size:2
Alignment explanation
Indices: 1882347--1882374 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1882337 AAAAAAAAAA
1882347 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
1882375 TTGGGCAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1882837 original size:2 final size:2
Alignment explanation
Indices: 1882821--1882857 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1882811 ATAACACTGG
* *
1882821 TA TA TA CA TA CA 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 TA T
1882858 TCCACACAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1883216 original size:2 final size:2
Alignment explanation
Indices: 1883209--1883245 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1883199 GTATAGTATG
1883209 TA 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 TA T
1883246 CAGTTGCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1888031 original size:12 final size:12
Alignment explanation
Indices: 1888014--1888057 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
1888004 CATATTAATT
1888014 AAATTTTAAATA
1 AAATTTTAAATA
*
1888026 AAATTTTTATAAATT
1 AAA--TTT-TAAATA
1888041 AAATTTTAAATA
1 AAATTTTAAATA
1888053 AAATT
1 AAATT
1888058 AATTGACTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 13 0.48
13 3 0.11
14 3 0.11
15 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATTTTAAATA
Found at i:1888061 original size:16 final size:17
Alignment explanation
Indices: 1888010--1888059 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
1888000 TATTCATATT
1888010 AATTAAATTTTAAATAA
1 AATTAAATTTTAAATAA
1888027 AA-T---TTTT--AT-A
1 AATTAAATTTTAAATAA
1888037 AATTAAATTTTAAATAA
1 AATTAAATTTTAAATAA
1888054 AATTAA
1 AATTAA
1888060 TTGACTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 14
0.65 0.00 0.35
Matches are distributed among these distances:
10 3 0.12
11 3 0.12
13 4 0.15
14 4 0.15
16 3 0.12
17 9 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAATTTTAAATAA
Found at i:1889338 original size:23 final size:21
Alignment explanation
Indices: 1889287--1889343 Score: 51
Period size: 23 Copynumber: 2.5 Consensus size: 21
1889277 TAAAAAATTA
*
1889287 TTTTTAATTATAATTTTGAGCT
1 TTTTTAATT-TAATTTTGAACT
1889309 TAATTTTAATTTAATTTTGATCACT
1 T--TTTTAATTTAATTTTGA--ACT
*
1889334 TTTTTTATTT
1 TTTTTAATTT
1889344 TCAATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
22 1 0.03
23 17 0.59
24 8 0.28
25 3 0.10
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTTTAATTTAATTTTGAACT
Found at i:1889339 original size:24 final size:23
Alignment explanation
Indices: 1889284--1889350 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
1889274 AAATAAAAAA
*
1889284 TTATTTTTAATTATAATTTTGAGC
1 TTATTTTTAATT-TAATTTTGAAC
*
1889308 TTAATTTTAATTTAATTTTGATCAC
1 TTATTTTTAATTTAATTTTGA--AC
*
1889333 TT-TTTTTATTTTCAATTT
1 TTATTTTTAATTT-AATTT
1889351 AAATAGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 9 0.25
24 19 0.53
25 8 0.22
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (23 bp):
TTATTTTTAATTTAATTTTGAAC
Found at i:1891471 original size:17 final size:19
Alignment explanation
Indices: 1891451--1891491 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
1891441 AATATCATAA
1891451 TAAATATTTTTA-AT-TTT
1 TAAATATTTTTATATATTT
1891468 TAAA-ATTTTTATATATTT
1 TAAATATTTTTATATATTT
1891486 TAAATA
1 TAAATA
1891492 ATTATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.33
17 6 0.29
18 7 0.33
19 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TAAATATTTTTATATATTT
Found at i:1892186 original size:16 final size:15
Alignment explanation
Indices: 1892161--1892190 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1892151 AACTTATTTC
1892161 ATTTAATTTAAATAA
1 ATTTAATTTAAATAA
1892176 ATTTAAATTTAAATA
1 ATTT-AATTTAAATA
1892191 TTTATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAATTTAAATAA
Found at i:1895156 original size:27 final size:26
Alignment explanation
Indices: 1895119--1895188 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 26
1895109 CATTAACCCA
1895119 TTTATTATTAAAAATTTAATATATTTAT
1 TTTATTATT-AAAATTT-ATATATTTAT
*
1895147 TTTA-TATTAATATTTATATA--T-T
1 TTTATTATTAAAATTTATATATTTAT
*
1895169 TTTATAATT-AAATTTATATA
1 TTTATTATTAAAATTTATATA
1895189 AAATATTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 15 0.39
23 4 0.11
25 5 0.13
26 6 0.16
27 4 0.11
28 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TTTATTATTAAAATTTATATATTTAT
Found at i:1895174 original size:22 final size:22
Alignment explanation
Indices: 1895130--1895188 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 22
1895120 TTATTATTAA
*
1895130 AAATTTAATATATTTATTTTATATT
1 AAATTT-ATATATTT-TTATA-ATT
1895155 AATATTTATATATTTTTATAATT
1 AA-ATTTATATATTTTTATAATT
1895178 AAATTTATATA
1 AAATTTATATA
1895189 AAATATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 9 0.28
23 5 0.16
24 4 0.12
25 10 0.31
26 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTTATATATTTTTATAATT
Found at i:1896113 original size:29 final size:30
Alignment explanation
Indices: 1896038--1896110 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
1896028 CTTTAGATAT
1896038 ATTTA-ATTT-AATAAATTTTTAACTTTTA
1 ATTTATATTTAAATAAATTTTTAACTTTTA
* * *
1896066 A-TTATACTAAAATAAATTTTT-ATTTTTGA
1 ATTTATATTTAAATAAATTTTTAACTTTT-A
1896095 ATTTATATTTAAATAA
1 ATTTATATTTAAATAA
1896111 TTTAATATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
27 3 0.08
28 8 0.22
29 13 0.36
30 12 0.33
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (30 bp):
ATTTATATTTAAATAAATTTTTAACTTTTA
Found at i:1896382 original size:2 final size:2
Alignment explanation
Indices: 1896377--1896402 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1896367 ATAAAAAAAA
1896377 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
1896403 GTAAAACTAT
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:1897358 original size:2 final size:2
Alignment explanation
Indices: 1897351--1897384 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1897341 CATTCACTGG
*
1897351 CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1897385 TTTCTCGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:1897713 original size:3 final size:3
Alignment explanation
Indices: 1897701--1897738 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
1897691 CGCCGATACA
* *
1897701 AAC AAA AAC AAC AGC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1897739 AAGCAGCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.29, G:0.03, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:1904806 original size:2 final size:2
Alignment explanation
Indices: 1904799--1904824 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1904789 GTTTTATTCA
1904799 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
1904825 ACACACACAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1904829 original size:2 final size:2
Alignment explanation
Indices: 1904824--1904849 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1904814 CTCTCTCTCT
1904824 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
1904850 TAGATCCTAT
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:1913158 original size:26 final size:25
Alignment explanation
Indices: 1913114--1913163 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
1913104 ATTTTTTATA
** *
1913114 TAATAAAAATATTTTTATATAAATT
1 TAATAAAAATATTAATATAAAAATT
1913139 TAATAATAAATATTAATATAAAAAT
1 TAATAA-AAATATTAATATAAAAAT
1913164 AATGAAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TAATAAAAATATTAATATAAAAATT
Found at i:1913166 original size:24 final size:24
Alignment explanation
Indices: 1913113--1913171 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 24
1913103 TATTTTTTAT
* *
1913113 ATAATAAAAATATTTTTATATAAAT
1 ATAATAAAAATA-TTTAATATAAAA
*
1913138 TTAATAATAAATA-TTAATATAAAA
1 ATAATAA-AAATATTTAATATAAAA
*
1913162 ATAATGAAAA
1 ATAATAAAAA
1913172 CAACAAAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
23 3 0.11
24 14 0.50
25 6 0.21
26 5 0.18
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAATAAAAATATTTAATATAAAA
Found at i:1926605 original size:11 final size:10
Alignment explanation
Indices: 1926584--1926644 Score: 60
Period size: 9 Copynumber: 6.5 Consensus size: 10
1926574 ATTAATATCA
1926584 TATATTT-AT
1 TATATTTAAT
1926593 TATATTATAAT
1 TATATT-TAAT
1926604 TATATTTAA-
1 TATATTTAAT
1926613 TAT-TTTAA-
1 TATATTTAAT
1926621 TATATTTAAT
1 TATATTTAAT
* *
1926631 CAT-TTTTAT
1 TATATTTAAT
1926640 TATAT
1 TATAT
1926645 CATTAACATA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
8 8 0.18
9 21 0.48
10 7 0.16
11 8 0.18
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
TATATTTAAT
Found at i:1926605 original size:28 final size:28
Alignment explanation
Indices: 1926570--1926630 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
1926560 ATATAAATAA
* *
1926570 TATAATTA-ATATCATATATTTATTATAT
1 TATAATTATATATAATAT-TTTAATATAT
*
1926598 TATAATTATATTTAATATTTTAATATAT
1 TATAATTATATATAATATTTTAATATAT
1926626 T-TAAT
1 TATAAT
1926631 CATTTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 4 0.14
28 18 0.62
29 7 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
TATAATTATATATAATATTTTAATATAT
Found at i:1926609 original size:20 final size:17
Alignment explanation
Indices: 1926551--1926630 Score: 65
Period size: 18 Copynumber: 4.6 Consensus size: 17
1926541 ACAAAAAATT
*
1926551 TATATTTAAATATAAATAA
1 TATATTT-AATAT-TATAA
* *
1926570 TATAATTAATATCAT-A
1 TATATTTAATATTATAA
*
1926586 TAT-TTATTATATTATAA
1 TATATT-TAATATTATAA
*
1926603 TTATATTTAATATTTTAA
1 -TATATTTAATATTATAA
1926621 TATATTTAAT
1 TATATTTAAT
1926631 CATTTTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
15 1 0.02
16 11 0.22
17 13 0.26
18 17 0.34
19 8 0.16
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTTAATATTATAA
Found at i:1926643 original size:19 final size:17
Alignment explanation
Indices: 1926602--1926644 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
1926592 TTATATTATA
1926602 ATTATATTTAATATTTT
1 ATTATATTTAATATTTT
*
1926619 AATATATTTAATCATTTTT
1 ATTATATTTAAT-A-TTTT
1926638 ATTATAT
1 ATTATAT
1926645 CATTAACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.50
18 1 0.05
19 10 0.45
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATATTTAATATTTT
Found at i:1927302 original size:26 final size:26
Alignment explanation
Indices: 1927259--1927308 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1927249 GACAAAGAAA
* *
1927259 TTTATTTATATTAAATTTTTATAATT
1 TTTATATATATTAAATTTTAATAATT
1927285 TTTATATA-ATTAATATTTTAATAA
1 TTTATATATATTAA-ATTTTAATAA
1927309 ATTGATCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTATATATATTAAATTTTAATAATT
Found at i:1928485 original size:16 final size:17
Alignment explanation
Indices: 1928431--1928513 Score: 66
Period size: 16 Copynumber: 4.9 Consensus size: 17
1928421 AATTTACTTG
* *
1928431 AATTTAAATTTGATTTA
1 AATTTAAAATTAATTTA
1928448 AATTTAATAATTAATAAATTA
1 AATTTAA-AATTAAT---TTA
1928469 AATTTAAAATT-ATTTA
1 AATTTAAAATTAATTTA
* *
1928485 AACTTAAAA-AAATTTA
1 AATTTAAAATTAATTTA
1928501 AA-TT-AAATTAATT
1 AATTTAAAATTAATT
1928514 CATACTTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
14 3 0.05
15 6 0.11
16 18 0.33
17 7 0.13
18 5 0.09
19 2 0.04
20 4 0.07
21 10 0.18
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (17 bp):
AATTTAAAATTAATTTA
Found at i:1928486 original size:21 final size:22
Alignment explanation
Indices: 1928445--1928492 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
1928435 TAAATTTGAT
1928445 TTAAATTTAATAATTAATAAA-
1 TTAAATTTAATAATTAATAAAC
*
1928466 TTAAATTTAA-AATTATTTAAAC
1 TTAAATTTAATAATTA-ATAAAC
1928488 TTAAA
1 TTAAA
1928493 AAAATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 5 0.21
21 14 0.58
22 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAATTTAATAATTAATAAAC
Found at i:1928513 original size:15 final size:16
Alignment explanation
Indices: 1928475--1928524 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
1928465 ATTAAATTTA
1928475 AAATT-ATTTAAACTT
1 AAATTAATTTAAACTT
**
1928490 AAAAAAATTTAAA-TT
1 AAATTAATTTAAACTT
* *
1928505 AAATTAATTCATACTT
1 AAATTAATTTAAACTT
1928521 AAAT
1 AAAT
1928525 CGATTTAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAATTTAAACTT
Found at i:1929475 original size:3 final size:3
Alignment explanation
Indices: 1929467--1929497 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1929457 TTAATTTTTA
*
1929467 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1929498 GATAAATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1929839 original size:15 final size:15
Alignment explanation
Indices: 1929828--1929926 Score: 58
Period size: 13 Copynumber: 7.3 Consensus size: 15
1929818 AAAAATAAAT
1929828 ATATATTTAATATAA
1 ATATATTTAATATAA
* **
1929843 ATATATTTAATTTTTT
1 ATATATTTAA-TATAA
1929859 ATATATTTAA-A-AA
1 ATATATTTAATATAA
1929872 A-AT-TTTAA-A-AA
1 ATATATTTAATATAA
*
1929883 ATATATTT--TATAT
1 ATATATTTAATATAA
*
1929896 TTATATTTAA-AT--
1 ATATATTTAATATAA
*
1929908 ATATATTAAATATAA
1 ATATATTTAATATAA
1929923 ATAT
1 ATAT
1929927 TAAACATAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
11 9 0.14
12 13 0.20
13 14 0.22
14 2 0.03
15 14 0.22
16 12 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATATTTAATATAA
Done.