Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 90 of 210
Found at i:31084609 original size:21 final size:22
Alignment explanation
Indices: 31084583--31084646 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 22
31084573 CTAAACTTAA
*
31084583 AAACCCCAAAACTCT-AACCCT
1 AAACCCCAAAACCCTAAACCCT
*
31084604 AAA-CCCTAAACCCTAAACCCT
1 AAACCCCAAAACCCTAAACCCT
*
31084625 AAA--CCAAAACCCAAAACCCT
1 AAACCCCAAAACCCTAAACCCT
31084645 AA
1 AA
31084647 TAGGAGACAC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 26 0.68
21 12 0.32
ACGTcount: A:0.48, C:0.41, G:0.00, T:0.11
Consensus pattern (22 bp):
AAACCCCAAAACCCTAAACCCT
Found at i:31084610 original size:7 final size:7
Alignment explanation
Indices: 31084598--31084646 Score: 73
Period size: 7 Copynumber: 7.1 Consensus size: 7
31084588 CCAAAACTCT
31084598 AACCCTA
1 AACCCTA
31084605 AACCCTA
1 AACCCTA
31084612 AACCCTA
1 AACCCTA
31084619 AACCCTA
1 AACCCTA
*
31084626 AA-CCAA
1 AACCCTA
*
31084632 AACCCAA
1 AACCCTA
31084639 AACCCTA
1 AACCCTA
31084646 A
1 A
31084647 TAGGAGACAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
6 5 0.13
7 34 0.87
ACGTcount: A:0.49, C:0.41, G:0.00, T:0.10
Consensus pattern (7 bp):
AACCCTA
Found at i:31085162 original size:20 final size:21
Alignment explanation
Indices: 31085119--31085159 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
31085109 AGCACCACCA
31085119 ATTTTTTTAATATATATTTTT
1 ATTTTTTTAATATATATTTTT
31085140 ATTTTTTTAA-ATATTATTTT
1 ATTTTTTTAATATA-TATTTT
31085160 ATTAGTGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTTTTTAATATATATTTTT
Found at i:31085343 original size:16 final size:16
Alignment explanation
Indices: 31085322--31085352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31085312 TCCCTTCCGC
31085322 CACGCCCTCCACACTA
1 CACGCCCTCCACACTA
*
31085338 CACGCCCTGCACACT
1 CACGCCCTCCACACT
31085353 GCATTTTACA
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:0.23, C:0.55, G:0.10, T:0.13
Consensus pattern (16 bp):
CACGCCCTCCACACTA
Found at i:31085782 original size:108 final size:97
Alignment explanation
Indices: 31085648--31086325 Score: 544
Period size: 103 Copynumber: 6.8 Consensus size: 97
31085638 AAATTATTAG
* * *
31085648 TAATTTATGATTAT-GTTATAATTTGTTTGTTCTTTAGTTTAGTGTTTTGTGAATTTTTATTAAT
1 TAATTTATGATT-TGGTTATAAATTG-TTG-TGTTTAGTTTAGTGTTTTGTGATTTTTTATTAAT
*
31085712 GTAATTTTTTTGTTTTTTTAATTATTTTATAGTTATGTTGTTAA
63 GTAA---TTTT-TTTTTGT--TT-TTTTA-A-TTATGTTGTTAA
31085756 TAATTTATGATTTGGTTATAAATTGTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGTA
1 TAATTTATGATTTGGTTATAAATTGTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGTA
*
31085821 ATTTTTTTTTGTTTTTTTAATTATTTTGTTAA
66 ATTTTTTTTTGTTTTTTTAATTATGTTGTTAA
*
31085853 TAATTTATGATTAGGTTATAAATTGTTGTGTTTAG-TTAGTGTTTTGTGATTTTTTATTAATGTA
1 TAATTTATGATTTGGTTATAAATTGTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGTA
** * * * * *
31085917 A-----AATT-ATTTTATAGTTATTTTGTTAG
66 ATTTTTTTTTGTTTTTTTAATTATGTTGTTAA
* *
31085943 TAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTTTTTTGTGATTTTTTATTAATGT
1 TAATTTATGATTTGGTTATAAATTGTT-GTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGT
*** ** * * * **
31086008 AAAATTTTTAAAAAATAATTTTATAGTTATTTTGTTTG
65 --AATTTTT---TTTTGTTTTTTTAATTATGTTGTTAA
** *
31086046 TAATTTATGATTAAGTTATAAATTGTTAGTGTCTAGTTTAGTGTTTTGTGATTTTTTATTAATGT
1 TAATTTATGATTTGGTTATAAATTGTT-GTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGT
* * * * *
31086111 AAAATTATTTTTTAAAATAATTTTATATAGTTATTTTGTTAG
65 --AATT-TTTTTT----T-GTTTT-TTTAATTATGTTGTTAA
* * * *
31086153 TAATTTATGATTAGGTTATAAATCGTTAGTGTTTAGCTTAGTGTTTTGCGATTTTTTATTAATGT
1 TAATTTATGATTTGGTTATAAATTGTT-GTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGT
**** * * * *
31086218 AATTTTTTAAAAAATTTTTATAGTTATTTTGTTAG
65 AATTTTTT--TTTGTTTTTTTAATTATGTTGTTAA
* * * * * * *
31086253 TAATTTAAGATTAGGTTATAAATTATTATGTTTAGTTTAATTTTTTTTGATTTTTTATTAATGTA
1 TAATTTATGATTTGGTTATAAATTGTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGTA
*
31086318 AATTTTTT
66 ATTTTTTT
31086326 ATAACGTAAT
Statistics
Matches: 505, Mismatches: 42, Indels: 57
0.84 0.07 0.09
Matches are distributed among these distances:
90 44 0.09
91 10 0.02
92 27 0.05
94 2 0.00
96 30 0.06
97 45 0.09
98 1 0.00
99 43 0.09
100 43 0.09
101 5 0.01
102 9 0.02
103 92 0.18
104 7 0.01
105 5 0.01
106 40 0.08
107 80 0.16
108 22 0.04
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.58
Consensus pattern (97 bp):
TAATTTATGATTTGGTTATAAATTGTTGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGTA
ATTTTTTTTTGTTTTTTTAATTATGTTGTTAA
Found at i:31086034 original size:103 final size:103
Alignment explanation
Indices: 31085916--31086348 Score: 606
Period size: 103 Copynumber: 4.2 Consensus size: 103
31085906 TTATTAATGT
*
31085916 AAAATTATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTT
1 AAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTT
*
31085981 TAGTTTTTTGTGATTTTTTATTAATGTAAAATTTTTAA
66 TAGTGTTTTGTGATTTTTTATTAATGTAAAATTTTTAA
* * *
31086019 AAAATAATTTTATAGTTATTTTGTTTGTAATTTATGATTAAGTTATAAATTGTTAGTGTCTAGTT
1 AAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTT
**
31086084 TAGTGTTTTGTGATTTTTTATTAATGTAAAATTATTTTTT
66 TAGTGTTTTGTGATTTTTTATTAATGTAAAA-T-TTTTAA
*
31086124 AAAATAATTTTATATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATCGTTAGTGTTTAG
1 AAAATAA-TTT-TATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAG
* * *
31086189 CTTAGTGTTTTGCGATTTTTTATTAATGT-AATTTTTTAA
64 TTTAGTGTTTTGTGATTTTTTATTAATGTAAAATTTTTAA
* *
31086228 AAAAT--TTTTATAGTTATTTTGTTAGTAATTTAAGATTAGGTTATAAATTATTA-TGTTTAGTT
1 AAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTT
* * * * *
31086290 TAATTTTTTTTGATTTTTTATTAATGTAAATTTTTTAT
66 TAGTGTTTTGTGATTTTTTATTAATGTAAAATTTTTAA
** *
31086328 AACGTAATTTTAT-TTTATTTT
1 AAAATAATTTTATAGTTATTTT
31086349 TATTTATTTG
Statistics
Matches: 295, Mismatches: 28, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
99 31 0.11
100 54 0.18
101 10 0.03
102 6 0.02
103 91 0.31
104 10 0.03
105 12 0.04
106 5 0.02
107 76 0.26
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.56
Consensus pattern (103 bp):
AAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTT
TAGTGTTTTGTGATTTTTTATTAATGTAAAATTTTTAA
Found at i:31086208 original size:210 final size:204
Alignment explanation
Indices: 31085926--31086340 Score: 632
Period size: 210 Copynumber: 2.0 Consensus size: 204
31085916 AAAATTATTT
* * *
31085926 TATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTTTTTTG
1 TATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATCGTTAGTGTTTAGCTTAGTGTTTTG
* * *
31085991 TGATTTTTTATTAATGTAAAATTTTTAAAAAATAATTTTATAGTTATTTTGTTTGTAATTTATGA
66 CGATTTTTTATTAATGT-AAATTTTTAAAAAAT--TTTTATAGTTATTTTGTTAGTAATTTAAGA
* *
31086056 TTAAGTTATAAATTGTTAGTGTCTAGTTTAGTGTTTTGTGATTTTTTATTAATGTAAAATTATTT
128 TTAAGTTATAAATTATTA-TGTCTAGTTTAATGTTTTGTGATTTTTTATTAATGT-AAATT-TTT
*
31086121 TTTAAAATAATTTTA
190 TATAAAATAATTTTA
31086136 TATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATCGTTAGTGTTTAGCTTAGTGTTTTG
1 TATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATCGTTAGTGTTTAGCTTAGTGTTTTG
*
31086201 CGATTTTTTATTAATGTAATTTTTTAAAAAATTTTTATAGTTATTTTGTTAGTAATTTAAGATTA
66 CGATTTTTTATTAATGTAAATTTTTAAAAAATTTTTATAGTTATTTTGTTAGTAATTTAAGATTA
* * * * *
31086266 GGTTATAAATTATTATGTTTAGTTTAATTTTTTTTGATTTTTTATTAATGTAAATTTTTTATAAC
131 AGTTATAAATTATTATGTCTAGTTTAATGTTTTGTGATTTTTTATTAATGTAAATTTTTTATAAA
*
31086331 GTAATTTTA
196 ATAATTTTA
31086340 T
1 T
31086341 TTTATTTTTA
Statistics
Matches: 189, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
204 16 0.08
205 5 0.03
206 32 0.17
207 44 0.23
209 14 0.07
210 78 0.41
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (204 bp):
TATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATCGTTAGTGTTTAGCTTAGTGTTTTG
CGATTTTTTATTAATGTAAATTTTTAAAAAATTTTTATAGTTATTTTGTTAGTAATTTAAGATTA
AGTTATAAATTATTATGTCTAGTTTAATGTTTTGTGATTTTTTATTAATGTAAATTTTTTATAAA
ATAATTTTA
Found at i:31094112 original size:19 final size:19
Alignment explanation
Indices: 31094088--31094143 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
31094078 ATAACCTAAT
31094088 AAAATAACTTTCAAATAAC
1 AAAATAACTTTCAAATAAC
***
31094107 AAAATAA--AAAAATACTAAC
1 AAAATAACTTTCAA-A-TAAC
31094126 AAAATAACTTTCAAATAA
1 AAAATAACTTTCAAATAA
31094144 ATTAAAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 8
0.66 0.15 0.20
Matches are distributed among these distances:
17 2 0.07
18 1 0.04
19 21 0.78
20 1 0.04
21 2 0.07
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAATAACTTTCAAATAAC
Found at i:31094311 original size:25 final size:26
Alignment explanation
Indices: 31094283--31094331 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
31094273 AATAGCATTA
* *
31094283 AACTAAACAAAT-AATTTATAATAGT
1 AACTAAAAAAATAAATTTAAAATAGT
31094308 AACTAAAAAAATAAATTTAAAATA
1 AACTAAAAAAATAAATTTAAAATA
31094332 AATTAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (26 bp):
AACTAAAAAAATAAATTTAAAATAGT
Found at i:31094439 original size:18 final size:18
Alignment explanation
Indices: 31094416--31094450 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31094406 ATCCATATCA
* *
31094416 TTCTTTTTTTGTTCTCCT
1 TTCTTTCTTTCTTCTCCT
31094434 TTCTTTCTTTCTTCTCC
1 TTCTTTCTTTCTTCTCC
31094451 CTATCTTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.69
Consensus pattern (18 bp):
TTCTTTCTTTCTTCTCCT
Found at i:31094614 original size:27 final size:27
Alignment explanation
Indices: 31094540--31094615 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
31094530 AAAAATTGAC
*
31094540 CACTGGTGCCGCCTATCAGATAGGGGT
1 CACTAGTGCCGCCTATCAGATAGGGGT
* * *
31094567 CACCACTGGCGCCTA-CTAGATAGGGGT
1 CACTAGTGCCGCCTATC-AGATAGGGGT
31094594 CACTAGTGCCG-CTGATCAGATA
1 CACTAGTGCCGCCT-ATCAGATA
31094616 TGCACCACCC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.29, T:0.21
Consensus pattern (27 bp):
CACTAGTGCCGCCTATCAGATAGGGGT
Found at i:31101484 original size:3 final size:3
Alignment explanation
Indices: 31101476--31101513 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
31101466 GGTTTTGGGC
31101476 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
31101514 TTTATCTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:31101520 original size:6 final size:6
Alignment explanation
Indices: 31101479--31101587 Score: 51
Period size: 6 Copynumber: 18.2 Consensus size: 6
31101469 TTTGGGCTCA
* * * * * *
31101479 TCATCA TCATCA TCATCA TCATCA TCATCA TCATCT TTATCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * * * * *
31101527 TCACCT CCATTT TCA-CC TC-TACGT CCATCT TGATCT TAATCT TGATCT
1 TCATCT TCATCT TCATCT TCAT-C-T TCATCT TCATCT TCATCT TCATCT
*
31101575 TTATCT TCATCT T
1 TCATCT TCATCT T
31101588 GTTCTTTCGT
Statistics
Matches: 81, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
5 2 0.02
6 76 0.94
7 2 0.02
8 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.03, T:0.44
Consensus pattern (6 bp):
TCATCT
Found at i:31101580 original size:18 final size:18
Alignment explanation
Indices: 31101553--31101594 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
31101543 CTCTACGTCC
*
31101553 ATCTTGATCTTAATCTTG
1 ATCTTTATCTTAATCTTG
*
31101571 ATCTTTATCTTCATCTTG
1 ATCTTTATCTTAATCTTG
*
31101589 TTCTTT
1 ATCTTT
31101595 CGTGTTAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.07, T:0.57
Consensus pattern (18 bp):
ATCTTTATCTTAATCTTG
Found at i:31105045 original size:43 final size:41
Alignment explanation
Indices: 31104996--31105076 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 41
31104986 ATATGATTCG
* *
31104996 TGTAAGACCCTGTCTGGGATAGAGGCATCGATATGTGATAACA
1 TGTAAGACCATATCTGGGATA-AGGCATCG-TATGTGATAACA
* *
31105039 TGTAAGACCATATCTGGGATATGGCATTGTATGTGATA
1 TGTAAGACCATATCTGGGATAAGGCATCGTATGTGATA
31105077 TATGTGCTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 9 0.26
42 6 0.18
43 19 0.56
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATAAGGCATCGTATGTGATAACA
Found at i:31111166 original size:20 final size:20
Alignment explanation
Indices: 31111133--31111203 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
31111123 GAATAAGCAT
* *
31111133 TGAAAGTAAAGAAATGCAAA
1 TGAAAATAAGGAAATGCAAA
31111153 TGAAAATAAGGAAAT-C--A
1 TGAAAATAAGGAAATGCAAA
31111170 TGAAAGAGT-A--AAATGCAAA
1 TGAAA-A-TAAGGAAATGCAAA
31111189 TGAAAATAAGGAAAT
1 TGAAAATAAGGAAAT
31111204 CATGAAAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
16 4 0.10
17 8 0.20
18 4 0.10
19 8 0.20
20 17 0.41
ACGTcount: A:0.59, C:0.04, G:0.20, T:0.17
Consensus pattern (20 bp):
TGAAAATAAGGAAATGCAAA
Found at i:31111174 original size:17 final size:17
Alignment explanation
Indices: 31111152--31111210 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
31111142 AGAAATGCAA
31111152 ATGAAAATAAGGAAATC
1 ATGAAAATAAGGAAATC
31111169 ATGAAAGAGT-A--AAATGC
1 ATGAAA-A-TAAGGAAAT-C
31111186 AAATGAAAATAAGGAAATC
1 --ATGAAAATAAGGAAATC
31111205 ATGAAA
1 ATGAAA
31111211 GAGTAAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
16 4 0.12
17 14 0.41
18 4 0.12
19 8 0.24
20 4 0.12
ACGTcount: A:0.59, C:0.05, G:0.19, T:0.17
Consensus pattern (17 bp):
ATGAAAATAAGGAAATC
Found at i:31111185 original size:36 final size:36
Alignment explanation
Indices: 31111144--31111218 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
31111134 GAAAGTAAAG
31111144 AAATGCAAATGAAAATAAGGAAATCATGAAAGAGTA
1 AAATGCAAATGAAAATAAGGAAATCATGAAAGAGTA
31111180 AAATGCAAATGAAAATAAGGAAATCATGAAAGAGTA
1 AAATGCAAATGAAAATAAGGAAATCATGAAAGAGTA
31111216 AAA
1 AAA
31111219 CTTGCAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.16
Consensus pattern (36 bp):
AAATGCAAATGAAAATAAGGAAATCATGAAAGAGTA
Found at i:31115619 original size:41 final size:41
Alignment explanation
Indices: 31115517--31115625 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 41
31115507 GAGGTGTGAT
*
31115517 TTCGTGTAAGACCATGTTTGGGACATTGGCACCGATATGAGA
1 TTCGTGTAAGACCATGTCTGGGACATTGGCACCGATAT-AGA
* * *
31115559 TTACGTGTAAGACCTTGTCTAGGACTTTGGCACCG-TATATGA
1 TT-CGTGTAAGACCATGTCTGGGACATTGGCACCGATATA-GA
*
31115601 TTCGTGTAAGACCCTGTCTGGGACA
1 TTCGTGTAAGACCATGTCTGGGACA
31115626 GAGGCATCGA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 21 0.36
42 9 0.16
43 28 0.48
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TTCGTGTAAGACCATGTCTGGGACATTGGCACCGATATAGA
Found at i:31116349 original size:12 final size:12
Alignment explanation
Indices: 31116329--31116374 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
31116319 GACGAGTGAG
31116329 TTATTATTTTAA
1 TTATTATTTTAA
*
31116341 TTATCATTTT-A
1 TTATTATTTTAA
31116352 --ATT-TTTTAA
1 TTATTATTTTAA
31116361 TTATTATTTTAA
1 TTATTATTTTAA
31116373 TT
1 TT
31116375 TTTTCAGGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
8 4 0.14
9 3 0.11
11 4 0.14
12 17 0.61
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTATTTTAA
Found at i:31116360 original size:20 final size:20
Alignment explanation
Indices: 31116335--31116378 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
31116325 TGAGTTATTA
31116335 TTTTAATTATCATTTTAATT
1 TTTTAATTATCATTTTAATT
*
31116355 TTTTAATTATTATTTTAATT
1 TTTTAATTATCATTTTAATT
31116375 TTTT
1 TTTT
31116379 CAGGACTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTAATTATCATTTTAATT
Found at i:31117574 original size:12 final size:12
Alignment explanation
Indices: 31117557--31117581 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31117547 TCTCCACAGC
31117557 TCGTGTGAGCAA
1 TCGTGTGAGCAA
31117569 TCGTGTGAGCAA
1 TCGTGTGAGCAA
31117581 T
1 T
31117582 GATGTAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (12 bp):
TCGTGTGAGCAA
Found at i:31118662 original size:12 final size:12
Alignment explanation
Indices: 31118645--31118674 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31118635 TTAGTGAGTT
*
31118645 ACACGGCCTAGC
1 ACACGGCCTAAC
31118657 ACACGGCCTAAC
1 ACACGGCCTAAC
31118669 ACACGG
1 ACACGG
31118675 GCGTGTGGGG
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:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAAC
Found at i:31126110 original size:3 final size:3
Alignment explanation
Indices: 31126102--31126130 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
31126092 GCGATTATCC
31126102 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
31126131 CAAGTTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:31132307 original size:30 final size:29
Alignment explanation
Indices: 31132273--31132362 Score: 73
Period size: 30 Copynumber: 3.1 Consensus size: 29
31132263 TTTCTCATAC
31132273 AAATGATTAAAATCATTTAAAAATTATTAA
1 AAATGATTAAAAT-ATTTAAAAATTATTAA
* *
31132303 AAATGAAT-AAATA-TTAAGAA-TATTTAA
1 AAATGATTAAAATATTTAAAAATTA-TTAA
*
31132330 AATAT-ATATAATAATA-TTAAAAATTCTTAA
1 AA-ATGAT-TAA-AATATTTAAAAATTATTAA
31132360 AAA
1 AAA
31132363 CATAAAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
26 2 0.04
27 13 0.27
28 4 0.08
29 6 0.12
30 23 0.47
31 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (29 bp):
AAATGATTAAAATATTTAAAAATTATTAA
Found at i:31132347 original size:21 final size:20
Alignment explanation
Indices: 31132289--31132353 Score: 57
Period size: 21 Copynumber: 3.4 Consensus size: 20
31132279 TTAAAATCAT
31132289 TTAAAAAT-TATTAA-AA-A
1 TTAAAAATATATTAAGAATA
* *
31132306 TGAATAA-ATATTAAGAATA
1 TTAAAAATATATTAAGAATA
* *
31132325 TTTAAAATATATATAATAATA
1 TTAAAAATATAT-TAAGAATA
31132346 TTAAAAAT
1 TTAAAAAT
31132354 TCTTAAAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 11 0.31
18 2 0.06
19 5 0.14
20 4 0.11
21 14 0.39
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
TTAAAAATATATTAAGAATA
Found at i:31132764 original size:12 final size:10
Alignment explanation
Indices: 31132726--31132841 Score: 84
Period size: 10 Copynumber: 12.2 Consensus size: 10
31132716 TAATAGTTGG
*
31132726 ATAATTTCTT
1 ATAATTTTTT
* *
31132736 AGATTTTTTT
1 ATAATTTTTT
31132746 ATAATTTTTT
1 ATAATTTTTT
*
31132756 ATAA-TATTT
1 ATAATTTTTT
*
31132765 ATAACTTTTT
1 ATAATTTTTT
* *
31132775 ATAACTTGTT
1 ATAATTTTTT
31132785 ATAA-TTTTT
1 ATAATTTTTT
* *
31132794 ATAAGTTTAT
1 ATAATTTTTT
31132804 ATCAA--TTTT
1 AT-AATTTTTT
*
31132813 -TAATTTTTA
1 ATAATTTTTT
31132822 ATAA-TTTTT
1 ATAATTTTTT
31132831 AT-ATTTTTT
1 ATAATTTTTT
31132840 AT
1 AT
31132842 GTTAGCTCGA
Statistics
Matches: 86, Mismatches: 13, Indels: 15
0.75 0.11 0.13
Matches are distributed among these distances:
7 2 0.02
8 2 0.02
9 35 0.41
10 45 0.52
11 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:31132767 original size:19 final size:18
Alignment explanation
Indices: 31132742--31132833 Score: 82
Period size: 19 Copynumber: 4.9 Consensus size: 18
31132732 TCTTAGATTT
31132742 TTTTATAATTTTTTATAA-
1 TTTTATAA-TTTTTATAAC
31132760 TATTTATAACTTTTTATAAC
1 T-TTTATAA-TTTTTATAAC
*
31132780 TTGTTATAATTTTTATAAG
1 TT-TTATAATTTTTATAAC
*
31132799 TTTATATCAA-TTTT-TAAT
1 TTT-TAT-AATTTTTATAAC
31132817 TTTTAATAATTTTTATA
1 TTTT-ATAATTTTTATA
31132834 TTTTTTATGT
Statistics
Matches: 63, Mismatches: 3, Indels: 15
0.78 0.04 0.19
Matches are distributed among these distances:
17 3 0.05
18 14 0.22
19 37 0.59
20 9 0.14
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTATAATTTTTATAAC
Found at i:31132774 original size:29 final size:28
Alignment explanation
Indices: 31132741--31132841 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 28
31132731 TTCTTAGATT
*
31132741 TTTTTATAATTTTTTATAATATTTATAA
1 TTTTTATAATTTTTTATAATTTTTATAA
* *
31132769 CTTTTTATAACTTGTTATAATTTTTATAA
1 -TTTTTATAATTTTTTATAATTTTTATAA
*
31132798 GTTTATATCAA--TTTT-TAATTTTTAATAA
1 -TTTTTAT-AATTTTTTATAATTTTT-ATAA
31132826 TTTTTAT-ATTTTTTAT
1 TTTTTATAATTTTTTAT
31132842 GTTAGCTCGA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.02
27 18 0.30
28 8 0.13
29 31 0.52
30 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTTTATAATTTTTTATAATTTTTATAA
Found at i:31132840 original size:19 final size:18
Alignment explanation
Indices: 31132726--31132838 Score: 70
Period size: 19 Copynumber: 5.9 Consensus size: 18
31132716 TAATAGTTGG
* *
31132726 ATAATTTCTTAGATTTTTTT
1 ATAATTT-TTATA-TTTTTA
*
31132746 ATAATTTTTTATAATATTT-
1 ATAA-TTTTTAT-ATTTTTA
*
31132765 ATAACTTTTTATAACTTGTT-
1 ATAA-TTTTTAT-A-TTTTTA
**
31132785 ATAATTTTTATAAGTTTA
1 ATAATTTTTATATTTTTA
31132803 TATCAATTTTTA-ATTTTTA
1 -AT-AATTTTTATATTTTTA
31132822 ATAATTTTTATATTTTT
1 ATAATTTTTATATTTTT
31132839 TATGTTAGCT
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
17 10 0.13
18 9 0.12
19 27 0.36
20 26 0.34
21 4 0.05
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (18 bp):
ATAATTTTTATATTTTTA
Found at i:31133105 original size:38 final size:38
Alignment explanation
Indices: 31133044--31133117 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
31133034 AGGACAATGT
31133044 TTAACATTACAATCTCCCTTAAGATTTCTACCCAAAATC
1 TTAACATTACAATCT-CCTTAAGATTTCTACCCAAAATC
* *
31133083 TTAATATTACAAATCT-CTTAAGATTTCTACTCAAA
1 TTAACATTAC-AATCTCCTTAAGATTTCTACCCAAA
31133118 CCTTAAGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 18 0.56
39 9 0.28
40 5 0.16
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (38 bp):
TTAACATTACAATCTCCTTAAGATTTCTACCCAAAATC
Found at i:31134458 original size:22 final size:22
Alignment explanation
Indices: 31134430--31134480 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
31134420 CTAATAACAA
31134430 TATATTTTTATAAATTTTGAAT
1 TATATTTTTATAAATTTTGAAT
31134452 TATATTTTTATAAATTTTGAAT
1 TATATTTTTATAAATTTTGAAT
31134474 TATATTT
1 TATATTT
31134481 GATATGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TATATTTTTATAAATTTTGAAT
Found at i:31134747 original size:46 final size:46
Alignment explanation
Indices: 31134694--31134808 Score: 230
Period size: 46 Copynumber: 2.5 Consensus size: 46
31134684 AATGTTATTG
31134694 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACTT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACTT
31134740 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACTT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACTT
31134786 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
31134809 ATCAGTATGG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGGCTACTT
Found at i:31134813 original size:23 final size:23
Alignment explanation
Indices: 31134694--31134814 Score: 170
Period size: 23 Copynumber: 5.3 Consensus size: 23
31134684 AATGTTATTG
31134694 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
31134717 TTCAATGGTAGCTACGGCTACTT
1 ATCAGTGGTAGCTTCGGCTACAT
31134740 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
31134763 TTCAATGGTAGCTACGGCTACTT
1 ATCAGTGGTAGCTTCGGCTACAT
31134786 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
31134809 ATCAGT
1 ATCAGT
31134815 ATGGCACTTA
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 82 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:31135815 original size:45 final size:45
Alignment explanation
Indices: 31135764--31135858 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
31135754 TTTCAATTAG
* *
31135764 TTATTATGACTTGAATTGTAAATTCATATGGATGAAACCAAACAA
1 TTATTATGAATTGAATTGTAAATTCATATGGATGAAACCAAAAAA
31135809 TTATTATGAATTGAATTGTAAATTCATATGGATGAAACCAAAAAA
1 TTATTATGAATTGAATTGTAAATTCATATGGATGAAACCAAAAAA
31135854 TTATT
1 TTATT
31135859 TGTTAGTATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (45 bp):
TTATTATGAATTGAATTGTAAATTCATATGGATGAAACCAAAAAA
Found at i:31139792 original size:103 final size:106
Alignment explanation
Indices: 31139664--31139862 Score: 332
Period size: 103 Copynumber: 1.9 Consensus size: 106
31139654 AAAAATAATA
* * *
31139664 AAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGATGGGTTTCGA-TT-TC
1 AAGGCAATATTTTACGTTTGGAAATTCGAGAAAACATGCCCTAACGTGATGGGTTTCGATTTCTC
31139727 -TTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGT
66 GTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGT
* *
31139767 AAGGCAATATTTTACGTTTGGAAATTTGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTC
1 AAGGCAATATTTTACGTTTGGAAATTCGAGAAAACATGCCCTAACGTGATGGGTTTCGATTTCTC
31139832 GTTCGACCAAATAGCCAAATATCCTTTTAAA
66 GTTCGACCAAATAGCCAAATATCCTTTTAAA
31139863 TCTAAATCCA
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
103 54 0.61
104 2 0.02
105 2 0.02
106 30 0.34
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (106 bp):
AAGGCAATATTTTACGTTTGGAAATTCGAGAAAACATGCCCTAACGTGATGGGTTTCGATTTCTC
GTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGT
Found at i:31140168 original size:84 final size:85
Alignment explanation
Indices: 31140026--31140191 Score: 307
Period size: 84 Copynumber: 2.0 Consensus size: 85
31140016 CCCGAACCTC
*
31140026 TTTTTTTAAATTTCGTGGACTAAAATCGTTGTTTTAATAAAATTAAATCGTTTATTAAAAACAAC
1 TTTTTTTAAATTTCGTGGACCAAAATCGTTGTTTTAATAAAATTAAATCGTTTATTAAAAACAAC
31140091 CACTTTTCAAGGTGATCTGG
66 CACTTTTCAAGGTGATCTGG
31140111 TTTTTTT-AATTTCGTGGACCAAAATCGTTGTTTTAATAAAATTAAATCGTTTATTAAAAACAAC
1 TTTTTTTAAATTTCGTGGACCAAAATCGTTGTTTTAATAAAATTAAATCGTTTATTAAAAACAAC
*
31140175 CACTTTTCAATGTGATC
66 CACTTTTCAAGGTGATC
31140192 CGATCACACC
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
84 72 0.91
85 7 0.09
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (85 bp):
TTTTTTTAAATTTCGTGGACCAAAATCGTTGTTTTAATAAAATTAAATCGTTTATTAAAAACAAC
CACTTTTCAAGGTGATCTGG
Found at i:31143745 original size:18 final size:19
Alignment explanation
Indices: 31143701--31143746 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
31143691 TTTTTAAAAG
31143701 AAAAAGAAAGAAAAAGATAA
1 AAAAAG-AAGAAAAAGATAA
*
31143721 AAGAAGAAG-AAAAGA-AGA
1 AAAAAGAAGAAAAAGATA-A
31143739 AAAAAGAA
1 AAAAAGAA
31143747 AAATGAGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.04
18 14 0.61
19 3 0.13
20 5 0.22
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (19 bp):
AAAAAGAAGAAAAAGATAA
Found at i:31145154 original size:89 final size:89
Alignment explanation
Indices: 31144970--31145527 Score: 665
Period size: 89 Copynumber: 6.3 Consensus size: 89
31144960 GATAGCAGGT
** * * * *
31144970 CTTGCCTTCCTGTACTGACAGCAAATCAGA-TCGAAGACACCAG-TCTTGCTTTCCTGTACTGAC
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACT-GAAGATAGCAGATCTTGCCTTCCTGTACTGAC
* * * *
31145033 AGTGAAGCAGA-CTGAAGATAACAGAT
65 AGCGAAGCAGATC-GAAGACACCAG-C
* * *
31145059 CTTGCCTTCCTGTACTGACAACGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTATTGACA
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
*
31145124 GCGAAGCAGATTGAAGACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * * * *
31145148 CTTGCCTTCCTATATTGACAACGGAGCAGACTAAAGATAGTAGATCTTGCCTTCCTGTACTGACA
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
* * *
31145213 ACGAAGCAGATCGAAGACACTAGT
66 GCGAAGCAGATCGAAGACACCAGC
* *
31145237 TTTGCCTTCCTGTACTAACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
* * * *
31145302 ACGAAGTAGATCGAAGATACTAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * ** * *
31145326 CTTGCCTTCCTGTACTGATAGCGGAGTAGACTGAAGGGAGCAGATCTTGCCTTTCTATACTGACA
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
31145391 GCGAAGCAGATCGAAGACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * *
31145415 CTTGCCTTCTTGTACTGACAGCGGAGCAGACTGAAGGTAGCAGATCTTGTCTTCCTGTACTGACA
1 CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
* * * * *
31145480 GCGGAGCA-AACTGAAGATAACAGAT
66 GCGAAGCAGATC-GAAGACACCAG-C
31145505 CTTGCCTTCCTGTACTGACAGCG
1 CTTGCCTTCCTGTACTGACAGCG
31145528 AAGCCAATCG
Statistics
Matches: 407, Mismatches: 57, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
88 2 0.00
89 345 0.85
90 60 0.15
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (89 bp):
CTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
GCGAAGCAGATCGAAGACACCAGC
Found at i:31145540 original size:223 final size:223
Alignment explanation
Indices: 31144970--31145635 Score: 745
Period size: 223 Copynumber: 3.0 Consensus size: 223
31144960 GATAGCAGGT
* * * * *
31144970 CTTGCCTTCCTGTACTGACAGCAAATCAGATCGAAGACACCAGTCTTGCTTTCCTGTACTGACAG
1 CTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACTAGTCTTGCCTTCCTGTACTGACAG
* * * *
31145035 TGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAACGGAGCAGA-CTGAAGATAG
66 CGGAGCAGACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATC-GAAGATAC
* * * * * * * *
31145099 TAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATTGAAGACACCAG-CCTTGCCTTCCTATAT
130 TAG-CCTTGCCTTCCTGTACTGACAGCGGAGCAGAATGAAGACAGCAGATCTTGCCTTTCTATAC
* * * * ** *
31145163 TGACAACGGAGCAGA-CTAAAGATAGTAGAT
194 TGACAGCGAAGCAGATC-GAAGACACCAGAC
* *
31145193 CTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACTAGTTTTGCCTTCCTGTACTAACAG
1 CTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACTAGTCTTGCCTTCCTGTACTGACAG
* *
31145258 CGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGTAGATCGAAGATACT
66 CGGAGCAGACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACT
* * * **
31145323 AGCCTTGCCTTCCTGTACTGATAGCGGAGTAGACTGAAGGGAGCAGATCTTGCCTTTCTATACTG
131 AGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAATGAAGACAGCAGATCTTGCCTTTCTATACTG
31145388 ACAGCGAAGCAGATCGAAGACACCAG-C
196 ACAGCGAAGCAGATCGAAGACACCAGAC
* * * ** *
31145415 CTTGCCTTCTTGTACTGACAGCGGAGCAGA-CTGAAGGTAGC-AGATCTTGTCTTCCTGTACTGA
1 CTTGCCTTCCTGTACTGACAACGAAGCAGATC-GAAGACA-CTAG-TCTTGCCTTCCTGTACTGA
* *
31145478 CAGCGGAGCAAACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCCA-ATCGAAGA
63 CAGCGGAGCAGACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAACGAAG-CAGATCGAAGA
* * * * * * * * * *
31145542 CACCAACCTCGCCTTCTTGTTCTGACAGTGGAGCAGAATGAAGATAGTAGATCTTG-CTTTCCTG
127 TACTAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAATGAAGACAGCAGATCTTGCCTTT-CTA
31145606 TACTGACAGCGAAGCAGATCGAAGACACCA
191 TACTGACAGCGAAGCAGATCGAAGACACCA
31145636 TAGTTTGAGC
Statistics
Matches: 377, Mismatches: 58, Indels: 16
0.84 0.13 0.04
Matches are distributed among these distances:
221 1 0.00
222 73 0.19
223 300 0.80
224 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (223 bp):
CTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGACACTAGTCTTGCCTTCCTGTACTGACAG
CGGAGCAGACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACT
AGCCTTGCCTTCCTGTACTGACAGCGGAGCAGAATGAAGACAGCAGATCTTGCCTTTCTATACTG
ACAGCGAAGCAGATCGAAGACACCAGAC
Found at i:31145568 original size:89 final size:89
Alignment explanation
Indices: 31144956--31145635 Score: 411
Period size: 89 Copynumber: 7.6 Consensus size: 89
31144946 AACAGATCAG
* * * * ** * *
31144956 TGAAGATAGCAGGTCTTGCCTTCCTGTACTGACAGCAAATCAGATCGAAGACACCAGTCTTGCTT
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAACCTCGCCT
* * *
31145021 TCCTGTACTGACAGTGAAGCAGAC
66 TCCTGTACTGACAGCGGAGCAGAA
* * * ** * *
31145045 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAACGGAGCAGA-CTGAAGATAGTAGATCTTGC
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCA-ACCTCGC
* * *
31145109 CTTCCTGTATTGACAGCGAAGCAGAT
64 CTTCCTGTACTGACAGCGGAGCAGAA
* * * * * * * * * ** * *
31145135 TGAAGACACCAG-CCTTGCCTTCCTATATTGACAACGGAGCAGA-CTAAAGATAGTAGATCTTGC
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCA-ACCTCGC
* *
31145198 CTTCCTGTACTGACAACGAAGCAG-A
64 CTTCCTGTACTGACAGCGGAGCAGAA
* * * * * * * *
31145223 TCGAAGA-CACTAG-TTTTGCCTTCCTGTACTAACAGCGGAGCAGA-CTGAAGATAGCAGATCTT
1 T-GAAGATAAC-AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCA-ACCTC
* * *
31145285 GCCTTCCTGTACTGACAACGAAGTAG-A
62 GCCTTCCTGTACTGACAGCGGAGCAGAA
* * * * ** * * *
31145312 TCGAAGAT-ACTAG-CCTTGCCTTCCTGTACTGATAGCGGAGTAGA-CTGAAGGGAGCAGATCTT
1 T-GAAGATAAC-AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCA-ACCTC
* * *
31145374 GCCTTTCTATACTGACAGCGAAGCAG-A
62 GCCTTCCTGTACTGACAGCGGAGCAGAA
* * * * * ** * * *
31145401 TCGAAGACACCAG-CCTTGCCTTCTTGTACTGACAGCGGAGCAGA-CTGAAGGTAGCAGATCTTG
1 T-GAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCA-ACCTCG
*
31145464 TCTTCCTGTACTGACAGCGGAGCA-AA
63 CCTTCCTGTACTGACAGCGGAGCAGAA
31145490 CTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCCA-ATCGAAGACACCAACCTCGC
1 -TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAG-CAGATCGAAGACACCAACCTCGC
* * *
31145554 CTTCTTGTTCTGACAGTGGAGCAGAA
64 CTTCCTGTACTGACAGCGGAGCAGAA
** *
31145580 TGAAGATAGTAGATCTTGCTTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCA
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCA
31145636 TAGTTTGAGC
Statistics
Matches: 506, Mismatches: 72, Indels: 26
0.84 0.12 0.04
Matches are distributed among these distances:
88 5 0.01
89 424 0.84
90 74 0.15
91 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (89 bp):
TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAACCTCGCCT
TCCTGTACTGACAGCGGAGCAGAA
Found at i:31145630 original size:134 final size:134
Alignment explanation
Indices: 31144956--31145623 Score: 774
Period size: 134 Copynumber: 5.0 Consensus size: 134
31144946 AACAGATCAG
* * * * *
31144956 TGAAGATAGCAGGTCTTGCCTTCCTGTACTGACAGCAAATCAGATCGAAGACACCAGTCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * ** *
31145021 TCCTGTACTGACAGTGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAACGGAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGGAGC
31145086 AGAC
131 AGAC
* * *
31145090 TGAAGATAGTAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * * *
31145155 TCCTATATTGACAACGGAGCAGACTAAAGATAGTAGATCTTGCCTTCCTGTACTGACAACGAAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGGAGC
31145220 AGA-
131 AGAC
* * * * * * *
31145223 TCGAAGACA-CTAG-TTTTGCCTTCCTGTACTAACAGCGGAGCAGA-CTGAAGATAGCAGATCTT
1 T-GAAGATAGC-AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-CCTT
* * * * * *
31145285 GCCTTCCTGTACTGACAACGAAGTAGA-TCGAAGATACTAG-CCTTGCCTTCCTGTACTGATAGC
62 GCCTTCCTGTACTGACAGCGGAGCAGACT-GAAGATAGTAGATCTTGCCTTCCTGTACTGACAGC
*
31145348 GGAGTAGAC
126 GGAGCAGAC
** * *
31145357 TGAAGGGAGCAGATCTTGCCTTTCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
31145422 TCTTGTACTGACAGCGGAGCAGACTGAAGGTAGCAGATCTTGTCTTCCTGTACTGACAGCGGAGC
66 TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGGAGC
*
31145487 AAAC
131 AGAC
* * *
31145491 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCCA-ATCGAAGACACCAACCTCGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAG-CAGATCGAAGACACCAGCCTTGCC
* * * * * *
31145555 TTCTTGTTCTGACAGTGGAGCAGAATGAAGATAGTAGATCTTGCTTTCCTGTACTGACAGCGAAG
65 TTCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGGAG
31145620 CAGA
130 CAGA
31145624 TCGAAGACAC
Statistics
Matches: 446, Mismatches: 76, Indels: 24
0.82 0.14 0.04
Matches are distributed among these distances:
133 105 0.24
134 338 0.76
135 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (134 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTGACAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGGAGC
AGAC
Found at i:31145719 original size:44 final size:44
Alignment explanation
Indices: 31145669--31145883 Score: 227
Period size: 44 Copynumber: 4.8 Consensus size: 44
31145659 GATAGCAGAC
*
31145669 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGT
* * * * **
31145713 CTTATCTCCCTAAAGTTGCAGTAGAGCAGACT-AAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTA-CAAGT
* * * *
31145758 CTTATCTCTCTGAATTTGCAGTAGAGCAGGTTGAAGA-TACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTACAAGT
* *
31145802 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGT
* * * *
31145846 CCTATCTCCCTGAAGTTTACAGTGGAGCGGATTAAAAT
1 CTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAAT
31145884 GATAGATTTT
Statistics
Matches: 140, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
43 3 0.02
44 84 0.60
45 50 0.36
46 2 0.01
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGT
Found at i:31145799 original size:89 final size:89
Alignment explanation
Indices: 31145648--31145831 Score: 289
Period size: 89 Copynumber: 2.1 Consensus size: 89
31145638 GTTTGAGCAA
* * *
31145648 AGCAGATTAAAGATAGCAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
1 AGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAATTACAAGT
31145713 CTTATCTCCCTAAAGTTGCAGTAG
66 CTTATCTCCCTAAAGTTGCAGTAG
* *
31145737 AGCAGACTAAAGATAGCAAACCTTATCTCTCTGAATTTGCAGTAGAGCAGGTTGAAGA-TACAAG
1 AGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAA-ATTACAAG
* *
31145801 TCTTATCTCCCTGAAGTTGCAGTGG
65 TCTTATCTCCCTAAAGTTGCAGTAG
31145826 AGCAGA
1 AGCAGA
31145832 TTGAAGTTAC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
89 86 0.99
90 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
AGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAATTACAAGT
CTTATCTCCCTAAAGTTGCAGTAG
Found at i:31145897 original size:45 final size:45
Alignment explanation
Indices: 31145669--31145907 Score: 150
Period size: 44 Copynumber: 5.4 Consensus size: 45
31145659 GATAGCAGAC
* * * * *
31145669 CTTATCTCCCTGAAG-TTGCAGTGGAGCAGGTTGAAATTACAAGT
1 CTTATCTCCCTGAAGTTTACAGTGGAGCAGATTAAAATGACTAGT
* * * * * **
31145713 CTTATCTCCCTAAAG-TTGCAGTAGAGCAGACTAAAGAT-AGCAAAC
1 CTTATCTCCCTGAAGTTTACAGTGGAGCAGATTAAA-ATGA-CTAGT
* * * * * *
31145758 CTTATCTCTCTGAA-TTTGCAGTAGAGCAGGTTGAAGAT-ACAAGT
1 CTTATCTCCCTGAAGTTTACAGTGGAGCAGATT-AAAATGACTAGT
* * * *
31145802 CTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTGAAGTTACTAGT
1 CTTATCTCCCTGAAGTTTACAGTGGAGCAGATTAAAATGACTAGT
* *
31145846 CCTATCTCCCTGAAGTTTACAGTGGAGCGGATTAAAATGA-TAGAT
1 CTTATCTCCCTGAAGTTTACAGTGGAGCAGATTAAAATGACTAG-T
* * *
31145891 TTTATCTCTCTAAAGTT
1 CTTATCTCCCTGAAGTT
31145908 GTACTAGAGC
Statistics
Matches: 156, Mismatches: 31, Indels: 15
0.77 0.15 0.07
Matches are distributed among these distances:
43 2 0.01
44 84 0.54
45 68 0.44
46 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTTACAGTGGAGCAGATTAAAATGACTAGT
Found at i:31145916 original size:133 final size:131
Alignment explanation
Indices: 31145669--31145919 Score: 315
Period size: 133 Copynumber: 1.9 Consensus size: 131
31145659 GATAGCAGAC
* * *
31145669 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCCTATCTCCCTAAAGTTACAG
* * *
31145734 TAGAGCAGACTAAAGATAGCAAACCTTATCTCTCTGAATTTGCAGTAGAGCAGGTTGAAGATACA
66 TAGAGCAGACTAAAGATAG--AACCTTATCTCTCTAAAGTTGCACTAGAGCAGGTTGAAGATACA
31145799 AGT
129 AGT
* * *
31145802 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAGTCCTATCTCCCTGAAGTTTACA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCCTATCTCCCTAAAG-TTACA
* * * ** *
31145867 GTGGAGCGGATTAAAATGATAG-ATTTTATCTCTCTAAAGTTGTACTAGAGCAG
65 GTAGAGCAGACT-AAA-GATAGAACCTTATCTCTCTAAAGTTGCACTAGAGCAG
31145920 ATCACACCAT
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
133 79 0.79
134 13 0.13
135 3 0.03
136 5 0.05
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (131 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCCTATCTCCCTAAAGTTACAG
TAGAGCAGACTAAAGATAGAACCTTATCTCTCTAAAGTTGCACTAGAGCAGGTTGAAGATACAAG
T
Found at i:31146105 original size:131 final size:131
Alignment explanation
Indices: 31145930--31146183 Score: 348
Period size: 131 Copynumber: 1.9 Consensus size: 131
31145920 ATCACACCAT
*
31145930 AACCAGTCCTATCTCCCTAAGCAGCAATGGAGTAGGTTGAAGATTGCAGATCCTATCTCCCTAAG
1 AACCAATCCTATCTCCCTAA-CAGCAATGGAGTAGGTTGAAGATTGCAGATCCTATCTCCCTAAG
* * ***
31145995 TAGTAGCGGAGCAGATTGTGGACGGCGAATCTTATCTTCCCAAAGTAGTAGAGAAGCAAATTTAG
65 CAGTAGCGGAGCAGACTAAAGACGGCGAATCTTATCTTCCCAAAGTAGTAGAGAAGCAAATTTAG
31146060 GC
130 GC
* * *
31146062 AACCAATCCTATCTCCCTGAA-AGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTTTCCCTAAG
1 AACCAATCCTATCTCCCT-AACAGCAATGGAGTAGGTTGAAGATTGCAGATCCTATCTCCCTAAG
* * * * * *
31146126 CAGTAGTGGAGCAGACTAAAGATGGTGAATCTTATCTTCTCAAGGTAGTAGGGAAGCA
65 CAGTAGCGGAGCAGACTAAAGACGGCGAATCTTATCTTCCCAAAGTAGTAGAGAAGCA
31146184 GACTAAAACC
Statistics
Matches: 106, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
131 87 0.82
132 17 0.16
133 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (131 bp):
AACCAATCCTATCTCCCTAACAGCAATGGAGTAGGTTGAAGATTGCAGATCCTATCTCCCTAAGC
AGTAGCGGAGCAGACTAAAGACGGCGAATCTTATCTTCCCAAAGTAGTAGAGAAGCAAATTTAGG
C
Found at i:31147631 original size:3 final size:3
Alignment explanation
Indices: 31147617--31147655 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
31147607 AATTTAGTAC
*
31147617 TAT TAT TGT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
31147656 TACTCATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:31149030 original size:30 final size:30
Alignment explanation
Indices: 31148995--31149072 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
31148985 GTTACTATTT
31148995 TTTTATAAGT-TTT-TAATA-ATTTTTATACAA
1 TTTTATAA-TATTTATAATATA-TTTTAT-CAA
*
31149025 TTTTATAATATTTATAATATATTTTATTAA
1 TTTTATAATATTTATAATATATTTTATCAA
* *
31149055 TTTTATAAAAATTATAAT
1 TTTTATAATATTTATAAT
31149073 TTTTATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 1 0.02
30 29 0.69
31 11 0.26
32 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (30 bp):
TTTTATAATATTTATAATATATTTTATCAA
Found at i:31149078 original size:9 final size:9
Alignment explanation
Indices: 31148994--31149089 Score: 70
Period size: 9 Copynumber: 10.1 Consensus size: 9
31148984 TGTTACTATT
31148994 TTTTTATAA
1 TTTTTATAA
31149003 GTTTTTAATAA
1 -TTTTT-ATAA
31149014 TTTTTATACA
1 TTTTTATA-A
*
31149024 ATTTTATAA
1 TTTTTATAA
*
31149033 TATTTATAATA
1 TTTTTAT-A-A
31149044 TATTTTATTAA
1 T-TTTTA-TAA
31149055 -TTTTATAA
1 TTTTTATAA
***
31149063 AAATTATAA
1 TTTTTATAA
31149072 TTTTTAT-A
1 TTTTTATAA
31149080 TTTTTATAA
1 TTTTTATAA
31149089 T
1 T
31149090 AGCTGTCATG
Statistics
Matches: 69, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
8 11 0.16
9 26 0.38
10 19 0.28
11 7 0.10
12 5 0.07
13 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:31149628 original size:76 final size:76
Alignment explanation
Indices: 31149462--31149605 Score: 236
Period size: 76 Copynumber: 1.9 Consensus size: 76
31149452 ACTATTAAGG
*
31149462 ACATTAAATTAATAATTAAATATAAAAAACTTTTAAATTATTTTATTTTTAATGAAATTATTAAA
1 ACATTAAATTAATAATTAAATATAAAAAACTTTTAAATTATTTCATTTTTAATGAAATTATTAAA
31149527 AATATGTCAAA
66 AATATGTCAAA
* * *
31149538 ACATTAAACTAATAATTTAATATAACAAAAGTTTTAAATTATTTCATTTTT-ATGAAATTATTAA
1 ACATTAAATTAATAATTAAATATAA-AAAACTTTTAAATTATTTCATTTTTAATGAAATTATTAA
31149602 AAAT
65 AAAT
31149606 GTCCAATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
76 40 0.63
77 23 0.37
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (76 bp):
ACATTAAATTAATAATTAAATATAAAAAACTTTTAAATTATTTCATTTTTAATGAAATTATTAAA
AATATGTCAAA
Found at i:31163888 original size:11 final size:11
Alignment explanation
Indices: 31163868--31163913 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
31163858 TAGTTTTAGG
31163868 TTTA-GTTTTC
1 TTTAGGTTTTC
*
31163878 TCTAGGTTTTC
1 TTTAGGTTTTC
*
31163889 TTTAGTTTTTC
1 TTTAGGTTTTC
*
31163900 TTTAGTTTTTC
1 TTTAGGTTTTC
31163911 TTT
1 TTT
31163914 GCACTTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
10 3 0.09
11 29 0.91
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.70
Consensus pattern (11 bp):
TTTAGGTTTTC
Found at i:31163893 original size:21 final size:22
Alignment explanation
Indices: 31163868--31163913 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
31163858 TAGTTTTAGG
31163868 TTTAG-TTTTCTCTAGGTTTTC
1 TTTAGTTTTTCTCTAGGTTTTC
* *
31163889 TTTAGTTTTTCTTTAGTTTTTC
1 TTTAGTTTTTCTCTAGGTTTTC
31163911 TTT
1 TTT
31163914 GCACTTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.70
Consensus pattern (22 bp):
TTTAGTTTTTCTCTAGGTTTTC
Found at i:31165148 original size:35 final size:35
Alignment explanation
Indices: 31165102--31165173 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
31165092 TTAACTTAGA
31165102 TTTATTAAAACTATGTTCATACTATTACGAATAAT
1 TTTATTAAAACTATGTTCATACTATTACGAATAAT
*
31165137 TTTATTAAAACTATGTTCATACTGTTACGAATAAT
1 TTTATTAAAACTATGTTCATACTATTACGAATAAT
31165172 TT
1 TT
31165174 CATGGCAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (35 bp):
TTTATTAAAACTATGTTCATACTATTACGAATAAT
Found at i:31168363 original size:18 final size:18
Alignment explanation
Indices: 31168330--31168377 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
31168320 ATTCACCTAA
*
31168330 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
* *
31168349 ATCCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
31168367 ACCCAACCCAA
1 ACCCAACCCAA
31168378 TCATTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.42, C:0.46, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:31168370 original size:13 final size:13
Alignment explanation
Indices: 31168354--31168378 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31168344 CAAGTATCCA
31168354 ACCCAACCCAATT
1 ACCCAACCCAATT
31168367 ACCCAACCCAAT
1 ACCCAACCCAAT
31168379 CATTAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:31168692 original size:9 final size:9
Alignment explanation
Indices: 31168678--31168715 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
31168668 GTAGTGATTC
31168678 AATTCGGTT
1 AATTCGGTT
31168687 AATTCGGTT
1 AATTCGGTT
*
31168696 AATTCGGGT
1 AATTCGGTT
31168705 AATTCGGTT
1 AATTCGGTT
31168714 AA
1 AA
31168716 ATGCGTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:31168725 original size:18 final size:18
Alignment explanation
Indices: 31168682--31168726 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
31168672 TGATTCAATT
*
31168682 CGGTTAATTCGGTTAATT
1 CGGTTAATTCGGTTAATG
*
31168700 CGGGTAATTCGGTTAAATG
1 CGGTTAATTCGGTT-AATG
31168719 C-GTTAATT
1 CGGTTAATT
31168727 TTAACCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.40
Consensus pattern (18 bp):
CGGTTAATTCGGTTAATG
Found at i:31183307 original size:42 final size:42
Alignment explanation
Indices: 31183222--31183306 Score: 111
Period size: 41 Copynumber: 2.0 Consensus size: 42
31183212 CAAAAAAATA
* *
31183222 TTCAAAAATTCCAAAAATATTTTCCATTTTTATTTTTAATTT
1 TTCAAAAATTCCAAAAATATTTTCCACTTTCATTTTTAATTT
* *
31183264 TTCAAAAA-TCCAAAAATATTTAT-TACTTTCATTTTTATTTT
1 TTCAAAAATTCCAAAAATATTT-TCCACTTTCATTTTTAATTT
31183305 TT
1 TT
31183307 TTATTGCATG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 29 0.76
42 9 0.24
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (42 bp):
TTCAAAAATTCCAAAAATATTTTCCACTTTCATTTTTAATTT
Found at i:31190169 original size:95 final size:95
Alignment explanation
Indices: 31190035--31190212 Score: 277
Period size: 95 Copynumber: 1.9 Consensus size: 95
31190025 TCAATATATA
* * * * * *
31190035 TTCATAGTTGATTATAATGACTCATTAATCTAAGAAAGCAAATTAAAATTGAATTATAGAAGCAT
1 TTCATACTTGATTACAATGACTAATTAATCTAAAAAAGCAAATTAAAATTGAAGTATAGAAGCAC
31190100 AAACCACAAAAGCTATACGACTTCCGTCTT
66 AAACCACAAAAGCTATACGACTTCCGTCTT
*
31190130 TTCATACTTGATTACAATGACTAATTAA-CTTAAAAAAGCAAATTGAAATTGAAGTATAGAAGCA
1 TTCATACTTGATTACAATGACTAATTAATC-TAAAAAAGCAAATTAAAATTGAAGTATAGAAGCA
31190194 CAAACCACAAAAGCTATAC
65 CAAACCACAAAAGCTATAC
31190213 AACGTTTATC
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
94 1 0.01
95 74 0.99
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (95 bp):
TTCATACTTGATTACAATGACTAATTAATCTAAAAAAGCAAATTAAAATTGAAGTATAGAAGCAC
AAACCACAAAAGCTATACGACTTCCGTCTT
Found at i:31191900 original size:6 final size:6
Alignment explanation
Indices: 31191889--31191920 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
31191879 CTTATCCTCC
*
31191889 TTTTAT TTTTAT TTTTAT TTTTAT TTTAAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
31191921 GTGACATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:31194552 original size:20 final size:20
Alignment explanation
Indices: 31194506--31194555 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
31194496 TATATGTACG
*
31194506 TATATATATTATACTTTCTA
1 TATATATATTATAATTTCTA
* * *
31194526 AACATATTTTATAATTTCTA
1 TATATATATTATAATTTCTA
31194546 TATATATATT
1 TATATATATT
31194556 TTTCTTTATT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (20 bp):
TATATATATTATAATTTCTA
Found at i:31207366 original size:44 final size:43
Alignment explanation
Indices: 31207303--31207423 Score: 156
Period size: 44 Copynumber: 2.8 Consensus size: 43
31207293 GAAGATGGCA
* *
31207303 AATCTTATCTCCCTAAAGTTGCAGAGGAGCAGATTAAAGCCTAT
1 AATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAACC-AT
* *
31207347 AATCCTATCTCCCTGAAGTTGCAGTA-GAGCAGATTAAAATCAT
1 AATCTTATCTCCCTGAAGTTGCAG-AGGAGCAGATTAAAACCAT
*
31207390 AGATCTTATCTCTCTGAAGTTGCAGAGG-GCAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGAGGAGCAGAT
31207424 CGCATCTAGT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
43 10 0.15
44 57 0.84
45 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAACCAT
Found at i:31207481 original size:44 final size:45
Alignment explanation
Indices: 31207431--31207626 Score: 139
Period size: 44 Copynumber: 4.6 Consensus size: 45
31207421 GATCGCATCT
* *
31207431 AGTCTTATCTCCCTGAAGTGGCAGTGGAGCAAACTGAGTAAGA-A-
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAATAA-ACAC
* * * * *
31207475 AGTCTTATTTCCCTAAAATTGCAGTGGGGCAGACTGAATAAACAC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAATAAACAC
* *
31207520 A-TCCTATCTCCCTGAAGTTGCAGTGGAGC--A--GACT---CA-
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAATAAACAC
* * *
31207556 AGTCTTATCCCCCTGAAATTGCAGTAGG-GCAGACTGAATAAACA-
1 AGTCTTATCTCCCTGAAGTTGCAGT-GGAGCAAACTGAATAAACAC
* * * *
31207600 AATCCTATCTCCCTAAAGTTGTAGTGG
1 AGTCTTATCTCCCTGAAGTTGCAGTGG
31207627 GGTGGATTAG
Statistics
Matches: 118, Mismatches: 23, Indels: 23
0.72 0.14 0.14
Matches are distributed among these distances:
36 1 0.01
37 24 0.20
38 2 0.02
39 1 0.01
40 3 0.03
41 3 0.03
42 1 0.01
43 3 0.03
44 79 0.67
45 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAATAAACAC
Found at i:31207577 original size:81 final size:81
Alignment explanation
Indices: 31207474--31207626 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 81
31207464 CTGAGTAAGA
** * * *
31207474 AAGTCTTATTTCCCTAAAATTGCAGTGGGGCAGACTGAATAAACACATCCTATCTCCCTGAAGTT
1 AAGTCTTATCCCCCTAAAATTGCAGTAGGGCAGACTGAATAAACAAATCCTATCTCCCTAAAGTT
31207539 GCAGTGGAGCAGACTC
66 GCAGTGGAGCAGACTC
*
31207555 AAGTCTTATCCCCCTGAAATTGCAGTAGGGCAGACTGAATAAACAAATCCTATCTCCCTAAAGTT
1 AAGTCTTATCCCCCTAAAATTGCAGTAGGGCAGACTGAATAAACAAATCCTATCTCCCTAAAGTT
*
31207620 GTAGTGG
66 GCAGTGG
31207627 GGTGGATTAG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (81 bp):
AAGTCTTATCCCCCTAAAATTGCAGTAGGGCAGACTGAATAAACAAATCCTATCTCCCTAAAGTT
GCAGTGGAGCAGACTC
Found at i:31207653 original size:125 final size:127
Alignment explanation
Indices: 31207347--31207676 Score: 321
Period size: 125 Copynumber: 2.6 Consensus size: 127
31207337 TAAAGCCTAT
* * * * *
31207347 AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTAAAGTTGCAGTGGGGCAGATTAGAATAATAGATCTTATCTCTCTGAAGTTG
* * * * *
31207412 CAGAGG-GCAGATCGCATCTAGTCTTATCTCCCTGAAGTGGCAGTGGAGCAAACTGAGTAAGAA
66 CAGTGGAGCAGA-C-CATCAAGTCTTATCCCCCTGAAATGGCAGTGGAGCAAACTGAATAAGAA
* * * * * * * * *
31207475 AGTCTTATTTCCCTAAAATTGCAGTGGGGCAGACT-GAATAAACACATCCTATCTCCCTGAAGTT
1 AATCCTATCTCCCTAAAGTTGCAGTGGGGCAGATTAGAAT-AATAGATCTTATCTCTCTGAAGTT
* *
31207539 GCAGTGGAGCAGA-C-TCAAGTCTTATCCCCCTGAAATTGCAGTAGG-GCAGACTGAATAA-ACA
65 GCAGTGGAGCAGACCATCAAGTCTTATCCCCCTGAAATGGCAGT-GGAGCAAACTGAATAAGA-A
* ** * * *
31207600 AATCCTATCTCCCTAAAGTTGTAGTGGGGTGGATTAGAATAATGGATCTTATCTCTCTGAAATTA
1 AATCCTATCTCCCTAAAGTTGCAGTGGGGCAGATTAGAATAATAGATCTTATCTCTCTGAAGTTG
*
31207665 CAGTAGAGCAGA
66 CAGTGGAGCAGA
31207677 ACGCGTCAAA
Statistics
Matches: 160, Mismatches: 37, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
124 1 0.01
125 92 0.57
126 7 0.04
127 3 0.02
128 52 0.32
129 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (127 bp):
AATCCTATCTCCCTAAAGTTGCAGTGGGGCAGATTAGAATAATAGATCTTATCTCTCTGAAGTTG
CAGTGGAGCAGACCATCAAGTCTTATCCCCCTGAAATGGCAGTGGAGCAAACTGAATAAGAA
Found at i:31209405 original size:18 final size:18
Alignment explanation
Indices: 31209361--31209415 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 18
31209351 TATGTACGTA
*
31209361 TATATATATTATACTTTC
1 TATATATATTATAATTTC
* *
31209379 TAAACATATTTTATAATTTC
1 T--ATATATATTATAATTTC
31209399 TATATATA-TAT-ATTTC
1 TATATATATTATAATTTC
31209415 T
1 T
31209416 TTATTTTCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 6 0.20
17 3 0.10
18 6 0.20
20 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATATATTATAATTTC
Found at i:31209407 original size:20 final size:20
Alignment explanation
Indices: 31209359--31209409 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
31209349 TATATGTACG
*
31209359 TATATATATATTATACTTTC
1 TATATATATATTATAATTTC
* * *
31209379 TAAACATATTTTATAATTTC
1 TATATATATATTATAATTTC
31209399 TATATATATAT
1 TATATATATAT
31209410 ATTTCTTTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATATATATTATAATTTC
Found at i:31210406 original size:96 final size:97
Alignment explanation
Indices: 31210236--31210428 Score: 379
Period size: 96 Copynumber: 2.0 Consensus size: 97
31210226 TAATTAAGGA
31210236 TTGTATTTTTAACTCTCGACATTAAGACATTAATTAATCAACTTGGTACTAATTTTTGGGCGTTA
1 TTGTATTTTTAACTCTCGACATTAAGACATTAATTAATCAACTTGGTACTAATTTTTGGGCGTTA
31210301 CGAGGGTGCTAATCCTTCCTCGTACGTAACTG
66 CGAGGGTGCTAATCCTTCCTCGTACGTAACTG
31210333 TTGTA-TTTTAACTCTCGACATTAAGACATTAATTAATCAACTTGGTACTAATTTTTGGGCGTTA
1 TTGTATTTTTAACTCTCGACATTAAGACATTAATTAATCAACTTGGTACTAATTTTTGGGCGTTA
31210397 CGAGGGTGCTAATCCTTCCTCGTACGTAACTG
66 CGAGGGTGCTAATCCTTCCTCGTACGTAACTG
31210429 ACTCCCGAAC
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 91 0.95
97 5 0.05
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.38
Consensus pattern (97 bp):
TTGTATTTTTAACTCTCGACATTAAGACATTAATTAATCAACTTGGTACTAATTTTTGGGCGTTA
CGAGGGTGCTAATCCTTCCTCGTACGTAACTG
Found at i:31220896 original size:21 final size:21
Alignment explanation
Indices: 31220870--31220909 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
31220860 AAGATTACAT
*
31220870 CATATCTAAGATTTCATATAC
1 CATATCTAAGATTGCATATAC
31220891 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
31220910 CCTCGAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (21 bp):
CATATCTAAGATTGCATATAC
Found at i:31221746 original size:44 final size:44
Alignment explanation
Indices: 31221677--31221970 Score: 362
Period size: 44 Copynumber: 6.7 Consensus size: 44
31221667 GCTATTTTCC
* * * *
31221677 ACCTACTCCACTGCTG-CTCAAGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTCA
* *
31221721 ACCTATTCAACTGCTGACCAGGGAGATAGGA-CCTACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCA
* *
31221765 ATCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
*
31221809 ACCTATTCCACTGCT-ACCCAGGGAGAT-GGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGA-CCAGGGAGATAGG-ATTCACAATCTTCA
* * *
31221853 ACTTATTCCACTGCTGACCAGGGAGATAGGATTCATAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * *
31221897 ACATATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * *
31221941 ACCTATTCCACTGTTGATCAGGGAAATAGG
1 ACCTATTCCACTGCTGACCAGGGAGATAGG
31221971 GCTGGGGTCA
Statistics
Matches: 218, Mismatches: 25, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
43 4 0.02
44 209 0.96
45 5 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
Found at i:31222029 original size:88 final size:88
Alignment explanation
Indices: 31221970--31222380 Score: 624
Period size: 88 Copynumber: 4.7 Consensus size: 88
31221960 AGGGAAATAG
* * * *
31221970 GGCTGGGGTCATCAATCTGCTTTGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
31222035 TCCGCTGCAACCCAAGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
31222058 GGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
31222123 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * *
31222146 GGCTGGTGTGTTCGATCTGCTTTGTTATTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
31222211 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
31222234 GGCTGGCGTCTTCGATTTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
31222299 TCCACTGCAACCTAGTGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
31222322 GGCTGGTGTCTTTGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATTTTTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
31222381 CTGATCTGCT
Statistics
Matches: 292, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 292 1.00
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:31222058 original size:44 final size:44
Alignment explanation
Indices: 31222008--31222146 Score: 111
Period size: 44 Copynumber: 3.2 Consensus size: 44
31221998 CGGTGCAGGA
*
31222008 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAAGG
1 AGGCAAGATCTGCTATTTTTAACCTACTCCGCTGCAACCCAAGG
* * * * ** * * ****
31222052 AGGCAAG-GCTGGTGTCTTCGATCTACTTCGCTGTCGGTGC-AGG
1 AGGCAAGATCTGCTATTTTTAACCTACTCCGCTG-CAACCCAAGG
* *
31222095 AAGGCAAGATCTGCTATTTTTAGCCTACTCCGCTGCAACCCAGGG
1 -AGGCAAGATCTGCTATTTTTAACCTACTCCGCTGCAACCCAAGG
31222140 AGGCAAG
1 AGGCAAG
31222147 GCTGGTGTGT
Statistics
Matches: 64, Mismatches: 27, Indels: 8
0.65 0.27 0.08
Matches are distributed among these distances:
43 20 0.31
44 25 0.39
45 19 0.30
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (44 bp):
AGGCAAGATCTGCTATTTTTAACCTACTCCGCTGCAACCCAAGG
Found at i:31222129 original size:45 final size:45
Alignment explanation
Indices: 31221993--31222129 Score: 111
Period size: 45 Copynumber: 3.1 Consensus size: 45
31221983 AATCTGCTTT
* *
31221993 GCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCC
1 GCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTACTCC
**** * * * * * * *
31222038 GCTG-CAACCCAAGG-AGGCAAG-GCTGGT-GTCTTCGATCTACTTC
1 GCTGTCGGTGC-AGGAAGGCAAGATCTGCTATTTTTAG-CCTACTCC
31222081 GCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTACTCC
1 GCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTACTCC
31222126 GCTG
1 GCTG
31222130 CAACCCAGGG
Statistics
Matches: 62, Mismatches: 24, Indels: 12
0.63 0.24 0.12
Matches are distributed among these distances:
42 3 0.05
43 16 0.26
44 18 0.29
45 21 0.34
46 4 0.06
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.27
Consensus pattern (45 bp):
GCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTACTCC
Found at i:31229195 original size:23 final size:22
Alignment explanation
Indices: 31229152--31229209 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
31229142 AAAGGGTATC
* *
31229152 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
31229173 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
31229196 TACATATCATATCT
1 TACAAATCATATCT
31229210 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:31229212 original size:19 final size:19
Alignment explanation
Indices: 31229165--31229262 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
31229155 AAATTAAATC
*
31229165 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
31229185 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
31229207 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
31229228 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
31229247 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
31229263 CTCGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
19 33 0.48
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:31229225 original size:21 final size:21
Alignment explanation
Indices: 31229199--31229261 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
31229189 CTAAGATTAC
31229199 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
31229220 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
31229239 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
31229260 AT
1 AT
31229262 CCTCGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:31252707 original size:21 final size:21
Alignment explanation
Indices: 31252681--31252720 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
31252671 TGGAGTCACT
31252681 CGAATCGAGTATCCAAGGACC
1 CGAATCGAGTATCCAAGGACC
31252702 CGAATCGAGTATCCAAGGA
1 CGAATCGAGTATCCAAGGA
31252721 GATTGATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (21 bp):
CGAATCGAGTATCCAAGGACC
Found at i:31258727 original size:20 final size:21
Alignment explanation
Indices: 31258681--31258740 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 21
31258671 TTATTTTATT
*
31258681 TAATATTAATATA-TTTTTAA
1 TAATATTATTATATTTTTTAA
**
31258701 TTTTATTATTATATTTTTTAA
1 TAATATTATTATATTTTTTAA
*
31258722 -AATATT-TATGTATTTTTTA
1 TAATATTAT-TATATTTTTTA
31258741 TATATTTCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 1 0.03
20 24 0.75
21 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TAATATTATTATATTTTTTAA
Found at i:31259317 original size:20 final size:20
Alignment explanation
Indices: 31259289--31259336 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
31259279 ATATAAACAT
* *
31259289 TAAAAATATAAAAATTGAAA
1 TAAATATATAAAAATTCAAA
31259309 TAAATATATAAAAATTCAAA
1 TAAATATATAAAAATTCAAA
*
31259329 TATATATA
1 TAAATATA
31259337 ATCTATNATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
TAAATATATAAAAATTCAAA
Found at i:31259333 original size:18 final size:17
Alignment explanation
Indices: 31259270--31259337 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 17
31259260 ATTTTCTCTT
* *
31259270 ATTAAATGTATATAAAC
1 ATTAAATATATATAAAA
31259287 ATTAAA-A-ATATAAAA
1 ATTAAATATATATAAAA
31259302 ATTGAAATAAATATATAAAA
1 ATT-AAAT--ATATATAAAA
31259322 ATTCAAATATATATAA
1 ATT-AAATATATATAA
31259338 TCTATNATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
15 10 0.23
16 3 0.07
17 6 0.14
18 8 0.19
19 1 0.02
20 15 0.35
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
ATTAAATATATATAAAA
Found at i:31267125 original size:21 final size:21
Alignment explanation
Indices: 31267099--31267140 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
31267089 ATCGAAGGTT
*
31267099 TCTGGTTCACATAAATCAAAA
1 TCTGGTACACATAAATCAAAA
31267120 TCTGGTACACATAAATCAAAA
1 TCTGGTACACATAAATCAAAA
31267141 CATTGCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (21 bp):
TCTGGTACACATAAATCAAAA
Found at i:31274583 original size:54 final size:54
Alignment explanation
Indices: 31274449--31274586 Score: 163
Period size: 54 Copynumber: 2.6 Consensus size: 54
31274439 GACACATAAC
* * *
31274449 CGTGTCTCAGCCCGTGTCTTAAACCGTGTAACTCACTGACTTAGATCACACGGT
1 CGTGTCGCAGACCGTGTCTCAAACCGTGTAACTCACTGACTTAGATCACACGGT
* * * *
31274503 CATGTTGCAAACCGTGTGC-CAAACCGTGTGACTCACTGACTT-GATACACACGGT
1 CGTGTCGCAGACCGTGT-CTCAAACCGTGTAACTCACTGACTTAGAT-CACACGGT
* *
31274557 CGTGTCGCAGGCCGTGTCTCAGACCGTGTA
1 CGTGTCGCAGACCGTGTCTCAAACCGTGTA
31274587 TGGCACACGG
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
53 4 0.06
54 63 0.93
55 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (54 bp):
CGTGTCGCAGACCGTGTCTCAAACCGTGTAACTCACTGACTTAGATCACACGGT
Found at i:31277690 original size:13 final size:13
Alignment explanation
Indices: 31277674--31277702 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
31277664 TGTAAAAAAA
31277674 TTATTTTAATTTT
1 TTATTTTAATTTT
31277687 TTA-TTTAATTTT
1 TTATTTTAATTTT
31277699 TTAT
1 TTAT
31277703 ATTTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.80
13 3 0.20
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTAATTTT
Found at i:31298146 original size:31 final size:31
Alignment explanation
Indices: 31298111--31298171 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
31298101 ACAAAATAGT
*
31298111 CACTAAACAATTTAAAAGTTTTTATTTAAGC
1 CACTAAACAATATAAAAGTTTTTATTTAAGC
* * *
31298142 CACTAGACTATATGAAAGTTTTTATTTAAG
1 CACTAAACAATATAAAAGTTTTTATTTAAG
31298172 ATACTACGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (31 bp):
CACTAAACAATATAAAAGTTTTTATTTAAGC
Found at i:31299444 original size:38 final size:38
Alignment explanation
Indices: 31299402--31299474 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
31299392 CCCCTTGATT
31299402 TTTATAGTTTTTATTTTTAATATTTTTTTAGATTTAAA
1 TTTATAGTTTTTATTTTTAATATTTTTTTAGATTTAAA
31299440 TTTATAGTTTTTATTTTTAATATTTTTTTAGATTT
1 TTTATAGTTTTTATTTTTAATATTTTTTTAGATTT
31299475 TTCTTATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (38 bp):
TTTATAGTTTTTATTTTTAATATTTTTTTAGATTTAAA
Found at i:31303673 original size:11 final size:11
Alignment explanation
Indices: 31303657--31303700 Score: 88
Period size: 11 Copynumber: 4.0 Consensus size: 11
31303647 TGGGTGTGTG
31303657 AAAGTTGCTCT
1 AAAGTTGCTCT
31303668 AAAGTTGCTCT
1 AAAGTTGCTCT
31303679 AAAGTTGCTCT
1 AAAGTTGCTCT
31303690 AAAGTTGCTCT
1 AAAGTTGCTCT
31303701 CAAGGTATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (11 bp):
AAAGTTGCTCT
Found at i:31314722 original size:121 final size:121
Alignment explanation
Indices: 31314509--31314915 Score: 789
Period size: 121 Copynumber: 3.4 Consensus size: 121
31314499 ATATAAAAAA
* *
31314509 TATATGTTTTTATTAAATTATATTTAATAATAATTAT-TTTAAATTATATTTTATAGTATTATAT
1 TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATAT
31314573 ATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
66 ATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
31314629 TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATAT
1 TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATAT
31314694 ATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
66 ATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
31314750 TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATAT
1 TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATAT
31314815 ATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
66 ATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
31314871 TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAAT
1 TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAAT
31314916 NNNNNNNNNN
Statistics
Matches: 284, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
120 36 0.13
121 248 0.87
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (121 bp):
TATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATAT
ATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
Found at i:31314755 original size:37 final size:37
Alignment explanation
Indices: 31314692--31314876 Score: 106
Period size: 38 Copynumber: 4.7 Consensus size: 37
31314682 ATAGTATTAT
* *
31314692 ATATTATG-ATTTTAGTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
31314729 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * ***
31314769 ATATTTAATAATAATTATGTTAAAATTATAT-TTTATAGTATTA
1 ATA-TTAAGAAT--TT-TATT-AAATTATATAAGAATA-T-TTA
* *
31314812 TATATTATG-ATTTTAGTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
31314850 ATATTAAGAATTTTATTAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
31314877 TTTTTATTAA
Statistics
Matches: 113, Mismatches: 20, Indels: 30
0.69 0.12 0.18
Matches are distributed among these distances:
37 28 0.25
38 32 0.28
39 7 0.06
40 9 0.08
41 7 0.06
42 2 0.02
43 6 0.05
44 11 0.10
45 10 0.09
46 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:31321409 original size:2 final size:2
Alignment explanation
Indices: 31321404--31321430 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31321394 ACACACACAC
31321404 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
31321431 ACAATGCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:31327723 original size:2 final size:2
Alignment explanation
Indices: 31327716--31327744 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
31327706 GAATTTACAA
31327716 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
31327745 ACAATGCCTT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:31327939 original size:30 final size:30
Alignment explanation
Indices: 31327889--31327977 Score: 116
Period size: 25 Copynumber: 3.1 Consensus size: 30
31327879 ATTTCTTATG
*
31327889 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
31327920 CCAATATTTGATACTCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
31327949 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
31327975 CCA
1 CCA
31327978 TAAATATAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
25 22 0.43
26 2 0.04
29 2 0.04
30 18 0.35
31 7 0.14
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:31329943 original size:20 final size:20
Alignment explanation
Indices: 31329906--31329942 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
31329896 ATTACAATTT
31329906 TAATATTTTAATATTTTTAG
1 TAATATTTTAATATTTTTAG
*
31329926 TAAT-TTTTTATATTTTT
1 TAATATTTTAATATTTTT
31329943 TGCAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TAATATTTTAATATTTTTAG
Found at i:31329949 original size:19 final size:19
Alignment explanation
Indices: 31329911--31329951 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
31329901 AATTTTAATA
*
31329911 TTTTAATATTTTTAGTAAT
1 TTTTAATATTTTTAGCAAT
* *
31329930 TTTTTATATTTTTTGCAAT
1 TTTTAATATTTTTAGCAAT
31329949 TTT
1 TTT
31329952 ATAAGTTTTC
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:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTAATATTTTTAGCAAT
Found at i:31329986 original size:19 final size:17
Alignment explanation
Indices: 31329964--31330002 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
31329954 AAGTTTTCTA
*
31329964 TTTAAATAATTATTTTAAT
1 TTTAAAT-ATT-TTATAAT
31329983 TTTAAATATTTTATAAT
1 TTTAAATATTTTATAAT
31330000 TTT
1 TTT
31330003 TTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAAATATTTTATAAT
Found at i:31330085 original size:22 final size:22
Alignment explanation
Indices: 31330041--31330087 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
31330031 ATCTTTTCTA
* * *
31330041 TTTTTAAAATTTTTATTAGTTT
1 TTTTTAAAATTTTAAATAATTT
31330063 TTTTTAAAATTTTAAATAATTT
1 TTTTTAAAATTTTAAATAATTT
31330085 TTT
1 TTT
31330088 GCAATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTAAAATTTTAAATAATTT
Found at i:31333876 original size:208 final size:205
Alignment explanation
Indices: 31333518--31333925 Score: 683
Period size: 208 Copynumber: 2.0 Consensus size: 205
31333508 TATTTATCAT
* *
31333518 TTTTCCTCCAAATTTGAAGTATAAGGTATGTTTTTTTTTCAAACTTTTCATAGATTTTGAATATT
1 TTTTCCTCCAAATTTGAAGTATAAGGTATGTTCTTTCTTCAAACTTTTCATAGATTTTGAATATT
*
31333583 TGAAACTTGTTTTACATATATGTACCATAGTTTTTTGTTTTATCAAGTATATTAAAAGTTGTCAT
66 TGAAACTTGTTTTACATATATGTACCATAGTTTTTTGTTTTATCAAGTATATTAAAAGTTGCCAT
* * *
31333648 TAAAGGATATTGATGAAACTTGGAAGCTTATAAAATTATGTGAAATGTGGATGTTTTTGAATGGA
131 TAAAGGATATTGATGAAACTTGGAAACTTATAAAATTAAGTGAAATGTGGATGTTTTTGAATGAA
31333713 AAATGTATAA
196 AAATGTATAA
* *
31333723 TTTTCCTTCAAATTTTAAGTATAAGGTATG-TCTTTCTTCAAACTTTTCATAGATTTTGAATATT
1 TTTTCCTCCAAATTTGAAGTATAAGGTATGTTCTTTCTTCAAACTTTTCATAGATTTTGAATATT
31333787 TGAAACTTGTTTTACATATATGTACCAATAGTTTTTTTTTGTTTTATCAAGTATATTAAAAGTTG
66 TGAAACTTGTTTTACATATATGTACC-ATAG---TTTTTTGTTTTATCAAGTATATTAAAAGTTG
* *
31333852 CCATTAAAGGATATTGATGAAACTTGGAAACTTATAAAATTAAGTGAAATGTGTATGTTTTTGGA
127 CCATTAAAGGATATTGATGAAACTTGGAAACTTATAAAATTAAGTGAAATGTGGATGTTTTTGAA
31333917 TGAAAAATG
192 TGAAAAATG
31333926 ATTAGGAGAC
Statistics
Matches: 189, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
204 58 0.31
205 32 0.17
208 99 0.52
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (205 bp):
TTTTCCTCCAAATTTGAAGTATAAGGTATGTTCTTTCTTCAAACTTTTCATAGATTTTGAATATT
TGAAACTTGTTTTACATATATGTACCATAGTTTTTTGTTTTATCAAGTATATTAAAAGTTGCCAT
TAAAGGATATTGATGAAACTTGGAAACTTATAAAATTAAGTGAAATGTGGATGTTTTTGAATGAA
AAATGTATAA
Found at i:31348024 original size:217 final size:217
Alignment explanation
Indices: 31347649--31348083 Score: 870
Period size: 217 Copynumber: 2.0 Consensus size: 217
31347639 TAATAGTAAA
31347649 ATAGTAGCAAAATATGGAGAAAATAACAAGAAAATAACATTAAAAAAAAAGCAAATTTTTTTGGT
1 ATAGTAGCAAAATATGGAGAAAATAACAAGAAAATAACATTAAAAAAAAAGCAAATTTTTTTGGT
31347714 CATTTAGTGAATTCGTGCCAGGCCAGGTCCAAGCAAAAAATGTCTTACCCGAGGCCTAGCCTGTT
66 CATTTAGTGAATTCGTGCCAGGCCAGGTCCAAGCAAAAAATGTCTTACCCGAGGCCTAGCCTGTT
31347779 TTTTAAACGGGCCTTATTTTTTTGTTCAAGCCTATTTTTCGAGCCTATATTTTTGCCCAAACCCC
131 TTTTAAACGGGCCTTATTTTTTTGTTCAAGCCTATTTTTCGAGCCTATATTTTTGCCCAAACCCC
31347844 CCCACATTTCGGGCAGGTCTTC
196 CCCACATTTCGGGCAGGTCTTC
31347866 ATAGTAGCAAAATATGGAGAAAATAACAAGAAAATAACATTAAAAAAAAAGCAAATTTTTTTGGT
1 ATAGTAGCAAAATATGGAGAAAATAACAAGAAAATAACATTAAAAAAAAAGCAAATTTTTTTGGT
31347931 CATTTAGTGAATTCGTGCCAGGCCAGGTCCAAGCAAAAAATGTCTTACCCGAGGCCTAGCCTGTT
66 CATTTAGTGAATTCGTGCCAGGCCAGGTCCAAGCAAAAAATGTCTTACCCGAGGCCTAGCCTGTT
31347996 TTTTAAACGGGCCTTATTTTTTTGTTCAAGCCTATTTTTCGAGCCTATATTTTTGCCCAAACCCC
131 TTTTAAACGGGCCTTATTTTTTTGTTCAAGCCTATTTTTCGAGCCTATATTTTTGCCCAAACCCC
31348061 CCCACATTTCGGGCAGGTCTTC
196 CCCACATTTCGGGCAGGTCTTC
31348083 A
1 A
31348084 AGCTGGGCCG
Statistics
Matches: 218, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
217 218 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (217 bp):
ATAGTAGCAAAATATGGAGAAAATAACAAGAAAATAACATTAAAAAAAAAGCAAATTTTTTTGGT
CATTTAGTGAATTCGTGCCAGGCCAGGTCCAAGCAAAAAATGTCTTACCCGAGGCCTAGCCTGTT
TTTTAAACGGGCCTTATTTTTTTGTTCAAGCCTATTTTTCGAGCCTATATTTTTGCCCAAACCCC
CCCACATTTCGGGCAGGTCTTC
Found at i:31348430 original size:18 final size:18
Alignment explanation
Indices: 31348407--31348442 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
31348397 ACTACAATAC
*
31348407 TGGAATAATTTAGAAACA
1 TGGAATAATTTAAAAACA
31348425 TGGAATAATTTAAAAACA
1 TGGAATAATTTAAAAACA
31348443 AACCAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.28
Consensus pattern (18 bp):
TGGAATAATTTAAAAACA
Found at i:31360604 original size:5 final size:5
Alignment explanation
Indices: 31360594--31360618 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
31360584 TTGATGTTCT
31360594 TCATC TCATC TCATC TCATC TCATC
1 TCATC TCATC TCATC TCATC TCATC
31360619 GTTTCGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (5 bp):
TCATC
Found at i:31363053 original size:16 final size:15
Alignment explanation
Indices: 31363032--31363061 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
31363022 TAAGCAACAC
31363032 GAAAAGAAACAAAAAA
1 GAAAAGAAA-AAAAAA
31363048 GAAAAGAAAAAAAA
1 GAAAAGAAAAAAAA
31363062 TTGCCAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (15 bp):
GAAAAGAAAAAAAAA
Found at i:31368276 original size:3 final size:3
Alignment explanation
Indices: 31368268--31368296 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
31368258 AGAGAGAGAG
31368268 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
31368297 CGATTCCACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:31373941 original size:15 final size:15
Alignment explanation
Indices: 31373916--31373950 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
31373906 GACTCTATTT
*
31373916 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
31373930 TAATTAATATTAAGA
1 TAATTAATATTAAGA
31373945 TAATTA
1 TAATTA
31373951 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:31379674 original size:21 final size:20
Alignment explanation
Indices: 31379649--31379710 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
31379639 GGCACTCAAT
31379649 TTTTATTTATTATTATTATTA
1 TTTTATTTATT-TTATTATTA
*
31379670 TTTTATTTACTTTATTTATTA
1 TTTTATTTATTTTA-TTATTA
*
31379691 CTTTATTTTATTTTATTATT
1 TTTTA-TTTATTTTATTATT
31379711 TATTACTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 3 0.08
21 25 0.69
22 8 0.22
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATTTATTTTATTATTA
Found at i:31379676 original size:17 final size:17
Alignment explanation
Indices: 31379651--31379714 Score: 67
Period size: 17 Copynumber: 3.5 Consensus size: 17
31379641 CACTCAATTT
31379651 TTATTTATTATTATTATTA
1 TTATTTATT-TTATT-TTA
*
31379670 TTTTATTTACTTTA-TTTA
1 --TTATTTATTTTATTTTA
31379688 TTACTTTATTTTATTTTA
1 TTA-TTTATTTTATTTTA
31379706 TTATTTATT
1 TTATTTATT
31379715 ACTTATTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.08
17 14 0.36
18 10 0.26
19 1 0.03
20 3 0.08
21 8 0.21
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTATTTTATTTTA
Found at i:31379684 original size:26 final size:25
Alignment explanation
Indices: 31379650--31379722 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 25
31379640 GCACTCAATT
*
31379650 TTTATTTA-TTATTATTATTATTTTA
1 TTTATTTATTTATTACT-TTATTTTA
31379675 TTTACTTTATTTATTACTTTATTTTA
1 TTTA-TTTATTTATTACTTTATTTTA
31379701 TTT-TATTATTTATTAC-TTATTT
1 TTTAT-TTATTTATTACTTTATTT
31379723 GGATATTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
24 7 0.16
25 15 0.34
26 15 0.34
27 7 0.16
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTATTTATTTATTACTTTATTTTA
Found at i:31379857 original size:12 final size:12
Alignment explanation
Indices: 31379840--31379871 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
31379830 AAACAGCCTA
31379840 TATTCCAGATAC
1 TATTCCAGATAC
31379852 TATTCCAGATAC
1 TATTCCAGATAC
31379864 TATTCCAG
1 TATTCCAG
31379872 CCCAGAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (12 bp):
TATTCCAGATAC
Found at i:31379909 original size:22 final size:23
Alignment explanation
Indices: 31379881--31379944 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
31379871 GCCCAGAATG
* *
31379881 CCTGCAGCCAAACTACCC-TATT
1 CCTGCAGCCAAACCACCCTTATC
31379903 CCTGCAGCC-AACCACCCTTATC
1 CCTGCAGCCAAACCACCCTTATC
*
31379925 CCTGCACCCAAGCACCACCC
1 CCTGCAGCCAA--ACCACCC
31379945 CTCAGTACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.20
22 20 0.57
23 1 0.03
25 7 0.20
ACGTcount: A:0.25, C:0.50, G:0.09, T:0.16
Consensus pattern (23 bp):
CCTGCAGCCAAACCACCCTTATC
Found at i:31381077 original size:1 final size:1
Alignment explanation
Indices: 31381073--31381160 Score: 50
Period size: 1 Copynumber: 88.0 Consensus size: 1
31381063 AATAATAAAT
* * * * * * * * * *
31381073 AAAAATAAAAATAAATAAAAAGAAAAAGAAAAAGAAAAAGAAAAAAAGAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
31381138 GAAAAAGAAAAAGAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
31381161 TAATTTGGGG
Statistics
Matches: 59, Mismatches: 28, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (1 bp):
A
Found at i:31381078 original size:19 final size:17
Alignment explanation
Indices: 31381054--31381093 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
31381044 CTAAAGTATA
31381054 AAAAATATAAATAATAAAT
1 AAAAA-ATAAA-AATAAAT
31381073 -AAAAATAAAAATAAAT
1 AAAAAATAAAAATAAAT
31381089 AAAAA
1 AAAAA
31381094 GAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.35
17 9 0.45
18 4 0.20
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAAATAAAAATAAAT
Found at i:31381086 original size:23 final size:22
Alignment explanation
Indices: 31381073--31381149 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
31381063 AATAATAAAT
*
31381073 AAAAATAAAAATAAATAAAAAG
1 AAAAAGAAAAATAAATAAAAAG
* *
31381095 AAAAAGAAAAAGAAA-AAGAA-
1 AAAAAGAAAAATAAATAAAAAG
* *
31381115 AAAAAGAAAAAGAAAAAGAAAAAG
1 AAAAAG-AAAA-ATAAATAAAAAG
31381139 AAAAAGAAAAA
1 AAAAAGAAAAA
31381150 GAAAAAGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.13
21 8 0.17
22 18 0.39
23 8 0.17
24 6 0.13
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (22 bp):
AAAAAGAAAAATAAATAAAAAG
Found at i:31381088 original size:16 final size:16
Alignment explanation
Indices: 31381051--31381099 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
31381041 TTCCTAAAGT
*
31381051 ATAAA-AAATATAAATA
1 ATAAATAAAAATAAA-A
31381067 ATAAATAAAAATAAAA
1 ATAAATAAAAATAAAA
*
31381083 ATAAATAAAAAGAAAA
1 ATAAATAAAAATAAAA
31381099 A
1 A
31381100 GAAAAAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 22 0.73
17 8 0.27
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (16 bp):
ATAAATAAAAATAAAA
Found at i:31381098 original size:6 final size:6
Alignment explanation
Indices: 31381089--31381160 Score: 126
Period size: 6 Copynumber: 11.7 Consensus size: 6
31381079 AAAAATAAAT
31381089 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG --AAAAAG AAAAAG AAAAAG AAAAAG
31381139 AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAA
31381161 TAATTTGGGG
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
6 58 0.91
8 6 0.09
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:31381834 original size:15 final size:15
Alignment explanation
Indices: 31381816--31381845 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31381806 CTTTTAGGAA
31381816 TTTAAGTAGGATTAG
1 TTTAAGTAGGATTAG
31381831 TTTAAGTAGGATTAG
1 TTTAAGTAGGATTAG
31381846 ACTATCTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (15 bp):
TTTAAGTAGGATTAG
Found at i:31383529 original size:30 final size:30
Alignment explanation
Indices: 31383493--31383550 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
31383483 GGGATATTCC
31383493 TCTTCATCCATAAG-ATTAAGATTAGCCAAA
1 TCTTCATCCA-AAGTATTAAGATTAGCCAAA
* *
31383523 TCTTCATCCAACGTATTAATATTAGCCA
1 TCTTCATCCAAAGTATTAAGATTAGCCA
31383551 TGATGCACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (30 bp):
TCTTCATCCAAAGTATTAAGATTAGCCAAA
Found at i:31386055 original size:18 final size:19
Alignment explanation
Indices: 31386032--31386067 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
31386022 TTATTATAAT
*
31386032 ATTTTTGTATTT-AATTTA
1 ATTTTTATATTTGAATTTA
31386050 ATTTTTATATTTGAATTT
1 ATTTTTATATTTGAATTT
31386068 TTTCGTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
ATTTTTATATTTGAATTTA
Found at i:31388729 original size:18 final size:19
Alignment explanation
Indices: 31388706--31388741 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
31388696 TTATTATAAT
*
31388706 ATTTTTGTATTT-AATTTA
1 ATTTTTATATTTGAATTTA
31388724 ATTTTTATATTTGAATTT
1 ATTTTTATATTTGAATTT
31388742 TTTCGTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
ATTTTTATATTTGAATTTA
Found at i:31391429 original size:11 final size:11
Alignment explanation
Indices: 31391416--31391483 Score: 73
Period size: 11 Copynumber: 5.7 Consensus size: 11
31391406 TTTAATTTTT
*
31391416 TTGAAAAAAAT
1 TTGAAAAAAAA
31391427 TTGAAAAGAAAAAAA
1 TTG--AA-AAA-AAA
*
31391442 TTGAAAAACAAT
1 TTGAAAAA-AAA
31391454 TTGAAAAAAAA
1 TTGAAAAAAAA
31391465 TTGAAAAAAAA
1 TTGAAAAAAAA
31391476 TTGAAAAA
1 TTGAAAAA
31391484 TAGTAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
11 24 0.49
12 13 0.27
13 4 0.08
14 3 0.06
15 5 0.10
ACGTcount: A:0.68, C:0.01, G:0.10, T:0.21
Consensus pattern (11 bp):
TTGAAAAAAAA
Found at i:31391449 original size:16 final size:16
Alignment explanation
Indices: 31391418--31391448 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31391408 TAATTTTTTT
31391418 GAAAAAAATTTGAAAA
1 GAAAAAAATTTGAAAA
31391434 GAAAAAAA-TTGAAAA
1 GAAAAAAATTTGAAAA
31391449 ACAATTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (16 bp):
GAAAAAAATTTGAAAA
Found at i:31391461 original size:23 final size:22
Alignment explanation
Indices: 31391435--31391516 Score: 80
Period size: 19 Copynumber: 3.7 Consensus size: 22
31391425 ATTTGAAAAG
*
31391435 AAAAAAATTGAAAAACAATTTGA
1 AAAAAAATTGAAAAA-AAATTGA
31391458 AAAAAAATTGAAAAAAAATTG-
1 AAAAAAATTGAAAAAAAATTGA
* *
31391479 --AAAAATAGTAAAAAAATTAGA
1 AAAAAAATTGAAAAAAAATT-GA
*
31391500 CAAAAAAAATGAAAAAA
1 -AAAAAAATTGAAAAAA
31391517 TGACTTTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
19 16 0.33
20 1 0.02
22 5 0.10
23 15 0.31
24 11 0.23
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (22 bp):
AAAAAAATTGAAAAAAAATTGA
Done.