Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold214
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: 1307275
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 88184 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:1406 original size:49 final size:49
Alignment explanation
Indices: 1334--1437 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
1324 GAAAAAAAAC
* * ** * *
1334 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
*
1383 AAATTAAAATTGAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
1432 AAATTA
1 AAATTA
1438 TAACACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
Found at i:3496 original size:75 final size:75
Alignment explanation
Indices: 3417--3853 Score: 874
Period size: 75 Copynumber: 5.8 Consensus size: 75
3407 AAATAGTCTA
3417 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGGAA
1 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGGAA
3482 TATTAAAAAT
66 TATTAAAAAT
3492 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGGAA
1 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGGAA
3557 TATTAAAAAT
66 TATTAAAAAT
3567 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGGAA
1 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGGAA
3632 TATTAAAAAT
66 TATTAAAAAT
3642 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGGAA
1 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGGAA
3707 TATTAAAAAT
66 TATTAAAAAT
3717 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGGAA
1 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGGAA
3782 TATTAAAAAT
66 TATTAAAAAT
3792 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTG
1 AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTG
3854 AAAAAAAATT
Statistics
Matches: 362, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 362 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.31
Consensus pattern (75 bp):
AAAAAATAATCCAAACTTTACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGGAA
TATTAAAAAT
Found at i:5009 original size:21 final size:21
Alignment explanation
Indices: 4984--5052 Score: 93
Period size: 21 Copynumber: 3.1 Consensus size: 21
4974 ACAGAAACGT
4984 AAAACATCAACTTAATACAGA
1 AAAACATCAACTTAATACAGA
5005 AAAACATCAACTTAATACAGAAA
1 AAAACATCAACTTAATACAG--A
*
5028 CCAAAACATGAACTTAATACAGA
1 --AAAACATCAACTTAATACAGA
5051 AA
1 AA
5053 CCAAAACATG
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
21 22 0.51
23 2 0.05
25 19 0.44
ACGTcount: A:0.58, C:0.19, G:0.06, T:0.17
Consensus pattern (21 bp):
AAAACATCAACTTAATACAGA
Found at i:5065 original size:25 final size:25
Alignment explanation
Indices: 4974--5061 Score: 121
Period size: 25 Copynumber: 3.6 Consensus size: 25
4964 TAATCCATAA
*
4974 ACAGAAACGTAAAACATCAACTTAAT
1 ACAGAAAC-CAAAACATCAACTTAAT
5000 ACAG--A--AAAACATCAACTTAAT
1 ACAGAAACCAAAACATCAACTTAAT
*
5021 ACAGAAACCAAAACATGAACTTAAT
1 ACAGAAACCAAAACATCAACTTAAT
5046 ACAGAAACCAAAACAT
1 ACAGAAACCAAAACAT
5062 GAACATTATA
Statistics
Matches: 57, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
21 20 0.35
23 1 0.02
24 1 0.02
25 31 0.54
26 4 0.07
ACGTcount: A:0.57, C:0.20, G:0.07, T:0.16
Consensus pattern (25 bp):
ACAGAAACCAAAACATCAACTTAAT
Found at i:12671 original size:5 final size:5
Alignment explanation
Indices: 12663--12689 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
12653 TTCAAATCTG
12663 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
12690 TTATAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:13682 original size:19 final size:19
Alignment explanation
Indices: 13658--13694 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13648 AGCACTTAAA
13658 ATTTATACATTTTATTTTT
1 ATTTATACATTTTATTTTT
*
13677 ATTTATATATTTTATTTT
1 ATTTATACATTTTATTTT
13695 ATCAATCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTATACATTTTATTTTT
Found at i:13689 original size:13 final size:14
Alignment explanation
Indices: 13673--13731 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 14
13663 TACATTTTAT
13673 TTTTATTTATAT-A
1 TTTTATTTATATCA
13686 TTTTATTT-TATCA
1 TTTTATTTATATCA
* * *
13699 ATCTA-CTATATCA
1 TTTTATTTATATCA
13712 -TTTATTTATA-CA
1 TTTTATTTATATCA
13724 TTTTATTT
1 TTTTATTT
13732 TATTTTATCC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
12 9 0.24
13 28 0.76
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTATTTATATCA
Found at i:13941 original size:16 final size:15
Alignment explanation
Indices: 13920--13949 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13910 TCATCTACTT
13920 ATTTATTTATTCATTC
1 ATTTATTTA-TCATTC
13936 ATTTATTTATCATT
1 ATTTATTTATCATT
13950 TTAACGTCAT
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:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTATTTATCATTC
Found at i:14663 original size:16 final size:17
Alignment explanation
Indices: 14637--14669 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14627 CGACTCCATT
*
14637 TTTATTTTTAATAAAAG
1 TTTATTTTTAAAAAAAG
14654 TTTA-TTTTAAAAAAAG
1 TTTATTTTTAAAAAAAG
14670 ATTTCGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
TTTATTTTTAAAAAAAG
Found at i:15033 original size:29 final size:30
Alignment explanation
Indices: 14968--15034 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
14958 GAGCATTTAG
* **
14968 TAATATTTTTTTAAAAATTGAGGGGTTTAA
1 TAATAATTTTTTAAAAATTGAGGGGCCTAA
14998 T--TGAATTTTTT-AAAATTGAGGGGCCTAA
1 TAAT-AATTTTTTAAAAATTGAGGGGCCTAA
15026 TAATAATTT
1 TAATAATTT
15035 CTACAATTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 17 0.55
29 12 0.39
30 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (30 bp):
TAATAATTTTTTAAAAATTGAGGGGCCTAA
Found at i:15428 original size:10 final size:10
Alignment explanation
Indices: 15413--15468 Score: 62
Period size: 10 Copynumber: 5.7 Consensus size: 10
15403 TTTTAATTTT
15413 ATATTTTTAA
1 ATATTTTTAA
**
15423 ATATTTTTTG
1 ATATTTTTAA
15433 AT-TTTTTAA
1 ATATTTTTAA
*
15442 ATATTTTT-T
1 ATATTTTTAA
15451 ATAATTTTTAA
1 AT-ATTTTTAA
15462 ATATTTT
1 ATATTTT
15469 AAGGTTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 9 0.24
10 26 0.70
11 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:15438 original size:19 final size:19
Alignment explanation
Indices: 15409--15468 Score: 95
Period size: 19 Copynumber: 3.1 Consensus size: 19
15399 ATTTTTTTAA
15409 TTTTATATTTTTAAATATT
1 TTTTATATTTTTAAATATT
15428 TTTTGAT-TTTTTAAATATT
1 TTTT-ATATTTTTAAATATT
15447 TTTTATAATTTTTAAATATT
1 TTTTAT-ATTTTTAAATATT
15467 TT
1 TT
15469 AAGGTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.05
19 20 0.53
20 16 0.42
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTATATTTTTAAATATT
Found at i:15477 original size:19 final size:19
Alignment explanation
Indices: 15416--15478 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
15406 TAATTTTATA
*
15416 TTTTTAAATATTTTTTGAT
1 TTTTTAAATATTTTTAGAT
* *
15435 TTTTTAAATATTTTTTATAA
1 TTTTTAAATA-TTTTTAGAT
* *
15455 TTTTTAAATATTTTAAGGT
1 TTTTTAAATATTTTTAGAT
15474 TTTTT
1 TTTTT
15479 TGGATGATGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTAAATATTTTTAGAT
Found at i:17345 original size:23 final size:23
Alignment explanation
Indices: 17310--17360 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
17300 GGATAGTGAG
*
17310 TGTAATATACCGAAAATTACTAC
1 TGTAATACACCGAAAATTACTAC
*
17333 TGTAATACCCCGAAAATTACTAC
1 TGTAATACACCGAAAATTACTAC
*
17356 AGTAA
1 TGTAA
17361 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACACCGAAAATTACTAC
Found at i:20144 original size:32 final size:32
Alignment explanation
Indices: 20108--20251 Score: 182
Period size: 32 Copynumber: 4.5 Consensus size: 32
20098 AGCGCGGTTC
* *
20108 TGTGAAATGATAACAAATATCACCTTTCATTT
1 TGTGAAATGATAACAAATATCAACTTTAATTT
* * *
20140 TGTGAAATGATAACAAGT-TACGACTTAAATTT
1 TGTGAAATGATAACAAATAT-CAACTTTAATTT
* * * *
20172 TATGAAATAATAACAATTAACAACTTTAATTT
1 TGTGAAATGATAACAAATATCAACTTTAATTT
20204 TGTGAAATGATAACAAATATCAACTTTAATTT
1 TGTGAAATGATAACAAATATCAACTTTAATTT
*
20236 TGTTAAATGATAACAA
1 TGTGAAATGATAACAA
20252 TATTCCTCTA
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
31 1 0.01
32 93 0.99
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (32 bp):
TGTGAAATGATAACAAATATCAACTTTAATTT
Found at i:28556 original size:229 final size:228
Alignment explanation
Indices: 28291--28940 Score: 749
Period size: 230 Copynumber: 2.8 Consensus size: 228
28281 ATTAAAGCAG
* * * *
28291 AACGCAGGGTTCGGTGTTGATCAATTGTTGCTTTAGCGGCGCTAATCTAGAAACGCCGCCAAAGA
1 AACGCAGCGTTCGGTGTTAATCAATTGTCGCTTTAGCGGCGCTAATCTAAAAACGCCGCCAAAGA
* * * *
28356 TCGGTATTAACGGCGCTTATATACTAAACGCCACAGAAAGTTAACCGAAATGCATCGTTTGGCCT
66 TCGGTATTAACGGCGCTTA-AGA-TAAACGCCGCAGAAAGTTAACCAAAACGCATCGTTTGGCCT
* * * *
28421 CGAGGTATAGTGGCATTTAGCGGCGCTTTAGTTA-C-AACGCCACTAAAGATCTTCATTAGCGGC
129 TGATGTATGGTGGCATTTAGCGGCGCTTTA-TAACCGAACGCCACTAAAGATCTTCATTAGCGGC
* *
28484 GATTTCACCATAGCGCCGCAAAAG-AAGTTAAAACTA
193 GATTTCACCAAAACGCCGC-AAAGTAAGTTAAAACTA
* * * * *
28520 AACGCAGCGTTCGGTGTTCATCAATTGTGGCTTTAGCGGCGC-AAACATAAAAACGCCGCTAAAA
1 AACGCAGCGTTCGGTGTTAATCAATTGTCGCTTTAGCGGCGCTAATC-TAAAAACGCCGCCAAAG
* *
28584 ATCGATATTAACGGCGCTTACCAGATAAACGCCGCAGAAAGCTAACCAAAACGCATCGTTTGGCC
65 ATCGGTATTAACGGCGCTTA--AGATAAACGCCGCAGAAAGTTAACCAAAACGCATCGTTTGGCC
*
28649 TTGATGTATGGTGGCATTTAGCGGCGCTTT-TAACCTGAACGCCACTAAAGATCTTCATTAACGG
128 TTGATGTATGGTGGCATTTAGCGGCGCTTTATAACC-GAACGCCACTAAAGATCTTCATTAGCGG
* *** ** **
28713 CGTTTTCGTTAAAACGCCGCCGAGTCTGTTAAAACTA
192 CGATTTCACCAAAACGCCGCAAAGTAAGTTAAAACTA
* * * * * * * * *
28750 AATGCAGCGTTTGGTTTTAATGAATTG-CGATTCCAGTGGCGCTAAT-AAAAAATCGCCGCGAAA
1 AACGCAGCGTTCGGTGTTAATCAATTGTCGCTT-TAGCGGCGCTAATCTAAAAA-CGCCGCCAAA
* * *
28813 GATCAGAATTAACGGTGCTTAACGAATAAACGCCGCAGAAAGTTAACCAAAACGCATCGTTTGGC
64 GATCGGTATTAACGGCGCTTAA-G-ATAAACGCCGCAGAAAGTTAACCAAAACGCATCGTTTGGC
*
28878 CTTGATTTATGGTGGCATTTAGCGGCGCTTTA-AACCGAACGCCACTAAAGATCTTCATTAGCG
127 CTTGATGTATGGTGGCATTTAGCGGCGCTTTATAACCGAACGCCACTAAAGATCTTCATTAGCG
28941 CAAAATATGT
Statistics
Matches: 360, Mismatches: 49, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
227 2 0.01
228 5 0.01
229 172 0.48
230 179 0.50
231 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (228 bp):
AACGCAGCGTTCGGTGTTAATCAATTGTCGCTTTAGCGGCGCTAATCTAAAAACGCCGCCAAAGA
TCGGTATTAACGGCGCTTAAGATAAACGCCGCAGAAAGTTAACCAAAACGCATCGTTTGGCCTTG
ATGTATGGTGGCATTTAGCGGCGCTTTATAACCGAACGCCACTAAAGATCTTCATTAGCGGCGAT
TTCACCAAAACGCCGCAAAGTAAGTTAAAACTA
Found at i:28690 original size:115 final size:113
Alignment explanation
Indices: 28342--28930 Score: 308
Period size: 115 Copynumber: 5.1 Consensus size: 113
28332 CTAATCTAGA
* * * * * *
28342 AACGCCGCCAAAGATCGGTATTAACGGCGCTTATA-TACTAAACGCCACAGAAAGTTAACCGAAA
1 AACGCCACTAAAGATCGATATTAACGGCGCTTA-ACGA-TAAACGCCGCAGAAAGTTAACCAAAA
* * * * *
28406 TGCATCGTTTGGCCTCGAGGTATAGTGGCATTTAGCGGCGCTTTAGTTA-C-
64 CGCATCGTTTGGCCTTGATGTATGGTGGCATTTAGCGGCGCTTT--TAACCG
* * * * * * * * *
28456 AACGCCACTAAAGATC-TTCATTAGCGGCGATTTCACCAT-AGCGCCGCAAAAGAAGTTAAAACT
1 AACGCCACTAAAGATCGAT-ATTAACGGCG-CTTAACGATAAACGCCGC-AGA-AAGTT-AACCA
* * ** * ** * *** *
28519 AAACGCAGCGTTCGGTGTTCATCAATTGTGGC-TTTAGCGGCGCAAACATAA--A
61 AAACGCATCGTTTGGCCTTGATGTATGGTGGCATTTAGCGGCGC--TTTTAACCG
* * * *
28571 AACGCCGCTAAAAATCGATATTAACGGCGCTTACCAGATAAACGCCGCAGAAAGCTAACCAAAAC
1 AACGCCACTAAAGATCGATATTAACGGCGCTTAAC-GATAAACGCCGCAGAAAGTTAACCAAAAC
28636 GCATCGTTTGGCCTTGATGTATGGTGGCATTTAGCGGCGCTTTTAACCTG
65 GCATCGTTTGGCCTTGATGTATGGTGGCATTTAGCGGCGCTTTTAACC-G
* ** * *** * *
28686 AACGCCACTAAAGATC-TTCATTAACGGCG-TTTTCGTTAAAACGCCGCCGAGTCTGTTAAAACT
1 AACGCCACTAAAGATCGAT-ATTAACGGCGCTTAACGAT-AAACGCCG-C-AGAAAGTT-AACCA
* * ** * * * * ** **
28749 AAATGCAGCGTTTGGTTTTAATGAAT--T-GCGATTCCAGTGGCGCTAATAA-AA
61 AAACGCATCGTTTGGCCTTGATGTATGGTGGC-ATT-TAGCGGCGCTTTTAACCG
* * *
28800 AATCGCCGCGAAAGATCAGA-ATTAACGGTGCTTAACGAATAAACGCCGCAGAAAGTTAACCAAA
1 AA-CGCCACTAAAGATC-GATATTAACGGCGCTTAACG-ATAAACGCCGCAGAAAGTTAACCAAA
* *
28864 ACGCATCGTTTGGCCTTGATTTATGGTGGCATTTAGCGGCGCTTTAAACCG
63 ACGCATCGTTTGGCCTTGATGTATGGTGGCATTTAGCGGCGCTTTTAACCG
28915 AACGCCACTAAAGATC
1 AACGCCACTAAAGATC
28931 TTCATTAGCG
Statistics
Matches: 339, Mismatches: 104, Indels: 64
0.67 0.21 0.13
Matches are distributed among these distances:
112 3 0.01
113 58 0.17
114 88 0.26
115 105 0.31
116 61 0.18
117 24 0.07
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (113 bp):
AACGCCACTAAAGATCGATATTAACGGCGCTTAACGATAAACGCCGCAGAAAGTTAACCAAAACG
CATCGTTTGGCCTTGATGTATGGTGGCATTTAGCGGCGCTTTTAACCG
Found at i:29320 original size:189 final size:191
Alignment explanation
Indices: 28947--29328 Score: 445
Period size: 190 Copynumber: 2.0 Consensus size: 191
28937 AGCGCAAAAT
*
28947 ATGTTAAAACTAAACGCAACGTTCGATTTTGATAAATTCTGGATTTCACGGCGCTAATTGAAAAA
1 ATGTTAAAACTAAACGCAACGTTCGATTTTGATAAATTCTGGATTTCACGGCGCTAAATGAAAAA
**
29012 CGCCGCTAAAGATCGGTATTAACGACGCTTAACTAGTAAACGCCGCAAAAAGTTAACCAAAACGC
66 CGCCGCTAAAGATCGGTATTAACGACGCTTAACTAAAAAACGCCGCAAAAAGTTAACCAAAACGC
* * *
29077 ATCGTTTGGCCGTGAGGTATAGTGGCATTTAGCGGCGCTTTGCCTAAAAACGCCACTAGAG
131 ATCGTTTGGCCGAGAGGTATAGTGGCATTTAGCGGCGCTTTGACTAAAAACGCCACTAAAG
* * * *
29138 ATGTTAAAACTAAACGCAGCGTTCG-TTGTTGAT-CATTGTGGCA-TTCGCGGCGCTAACAT-AA
1 ATGTTAAAACTAAACGCAACGTTCGATT-TTGATAAATTCTGG-ATTTCACGGCGCTAA-ATGAA
* * * * ** * * **
29199 AATCGCCGCTAAATATCGGTATTAACGGCGCTTGAC-AAAAAACGCCGCAAGTATTTAACCTAGG
63 AAACGCCGCTAAAGATCGGTATTAACGACGCTTAACTAAAAAACGCCGCAAAAAGTTAACCAAAA
** * * *
29263 CGCATCGTTTTGGTGGAGAGGTATA-TGGTCA-TTAGTGGCGCTTTTATTAAAAACGCCACTAAA
128 CGCATCG-TTTGGCCGAGAGGTATAGTGG-CATTTAGCGGCGCTTTGACTAAAAACGCCACTAAA
29326 G
191 G
29327 AT
1 AT
29329 CATCATTAGC
Statistics
Matches: 161, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
189 60 0.37
190 70 0.43
191 31 0.19
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (191 bp):
ATGTTAAAACTAAACGCAACGTTCGATTTTGATAAATTCTGGATTTCACGGCGCTAAATGAAAAA
CGCCGCTAAAGATCGGTATTAACGACGCTTAACTAAAAAACGCCGCAAAAAGTTAACCAAAACGC
ATCGTTTGGCCGAGAGGTATAGTGGCATTTAGCGGCGCTTTGACTAAAAACGCCACTAAAG
Found at i:29809 original size:15 final size:16
Alignment explanation
Indices: 29775--29811 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
29765 AAGGATTTAG
29775 GGTATATTTGGGGATT
1 GGTATATTTGGGGATT
*
29791 -GTAT-TTTGGGGTTT
1 GGTATATTTGGGGATT
29805 GGTATAT
1 GGTATAT
29812 ATTGTTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
14 9 0.50
15 8 0.44
16 1 0.06
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.49
Consensus pattern (16 bp):
GGTATATTTGGGGATT
Found at i:44275 original size:18 final size:18
Alignment explanation
Indices: 44232--44275 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
44222 ACCCAATCCA
* *
44232 AACCCAAGTATTCAACCC
1 AACCCAATTACTCAACCC
44250 AACCCAATTACTCAACCC
1 AACCCAATTACTCAACCC
44268 AACCCAAT
1 AACCCAAT
44276 CATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (18 bp):
AACCCAATTACTCAACCC
Found at i:47503 original size:16 final size:16
Alignment explanation
Indices: 47459--47508 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
47449 CATGTTTTCG
47459 TAAAATTTT-AATTTA
1 TAAAATTTTAAATTTA
* *
47474 -GACATTTTATAATTTA
1 TAAAATTTTA-AATTTA
*
47490 TAAAATTTTAAATTAA
1 TAAAATTTTAAATTTA
47506 TAA
1 TAA
47509 TAAAATTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
14 6 0.22
16 14 0.52
17 7 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TAAAATTTTAAATTTA
Found at i:48466 original size:9 final size:9
Alignment explanation
Indices: 48454--48478 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48444 TTAATTTTTT
48454 AAAATTAAA
1 AAAATTAAA
48463 AAAATTAAA
1 AAAATTAAA
48472 AAAATTA
1 AAAATTA
48479 TTTTCAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAATTAAA
Found at i:50843 original size:426 final size:426
Alignment explanation
Indices: 50050--50862 Score: 1574
Period size: 426 Copynumber: 1.9 Consensus size: 426
50040 CGAGTGGCCC
50050 TAGAGAATATATATTACGTAACGGCAAGGTGAGGTGGCCCCACGTTGTGGAAGTTGCTTTTGCTG
1 TAGAGAATATATATTACGTAACGGCAAGGTGAGGTGGCCCCACGTTGTGGAAGTTGCTTTTGCTG
*
50115 TGCGGGAAAAGTACGCAGTGTATAATAATTGGTTGAACTATCTTATGTTAATTTATCGTCAGCCA
66 TGCGGGAAAAGTACGCAGTGTATAATAATTGGTTGAACTATCTTATGTTAATTTATCGCCAGCCA
50180 ATTTATAAATCTCTATAAAGTTAATGAGATTTAAGAAGTTTTGTTTCATTACTTCAGAGTTATAC
131 ATTTATAAATCTCTATAAAGTTAATGAGATTTAAGAAGTTTTGTTTCATTACTTCAGAGTTATAC
50245 TCTTGATAAAATAATGTTGCATCCCATAAAATTGAAAAAAATCAATTTTTTAATATGATACACTC
196 TCTTGATAAAATAATGTTGCATCCCATAAAATTGAAAAAAATCAATTTTTTAATATGATACACTC
50310 TTTGTGAAAGTTATTTTTTGATATGCAGGGAAAATACGCAGTGTATAATAATTGGTTGAACTAAT
261 TTTGTGAAAGTTATTTTTTGATATGCAGGGAAAATACGCAGTGTATAATAATTGGTTGAACTAAT
50375 TTATATTATTTTATCCTCCGTCAATTTATTAAATCTCTATAAAGATAACGGGACTTGAGGTGAAT
326 TTATATTATTTTATCCTCCGTCAATTTATTAAATCTCTATAAAGATAACGGGACTTGAGGTGAAT
50440 TGAAAATAAAATCAATTTTTTAATATGATACACTCT
391 TGAAAATAAAATCAATTTTTTAATATGATACACTCT
50476 TAGAGAATATATATTACGTAACGGCAAGGTGAGGTGGCCCCACGTTGTGGAAGTTGCTTTTGCTG
1 TAGAGAATATATATTACGTAACGGCAAGGTGAGGTGGCCCCACGTTGTGGAAGTTGCTTTTGCTG
* *
50541 TGCGGGAAAAGTACGCAGTGTATAATAATTGGTTGAACTATCTTATGTT-ATTTATCGCCTGCTA
66 TGCGGGAAAAGTACGCAGTGTATAATAATTGGTTGAACTATCTTATGTTAATTTATCGCCAGCCA
*
50605 GTTTATCAAATCTCTATAAAGTTAATGAGATTTAAGAAGTTTTGTTTCATTACTTCAGAGTTATA
131 ATTTAT-AAATCTCTATAAAGTTAATGAGATTTAAGAAGTTTTGTTTCATTACTTCAGAGTTATA
50670 CTCTTGATAAAATAATGTTGCATCCCATAAAATTGAAAAAAATCAATTTTTTAATATGATACACT
195 CTCTTGATAAAATAATGTTGCATCCCATAAAATTGAAAAAAATCAATTTTTTAATATGATACACT
50735 CTTTGTGAAAGTTATTTTTTGATATGCAGGGAAAATACGCAGTGTATAATAATTGGTTGAACTAA
260 CTTTGTGAAAGTTATTTTTTGATATGCAGGGAAAATACGCAGTGTATAATAATTGGTTGAACTAA
50800 TTTATATTATTTTATCCTCCGTCAATTTATTAAATCTCTATAAAGATAACGGGACTTGAGGTG
325 TTTATATTATTTTATCCTCCGTCAATTTATTAAATCTCTATAAAGATAACGGGACTTGAGGTG
50863 TTTCGTTTAC
Statistics
Matches: 382, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
425 17 0.04
426 365 0.96
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (426 bp):
TAGAGAATATATATTACGTAACGGCAAGGTGAGGTGGCCCCACGTTGTGGAAGTTGCTTTTGCTG
TGCGGGAAAAGTACGCAGTGTATAATAATTGGTTGAACTATCTTATGTTAATTTATCGCCAGCCA
ATTTATAAATCTCTATAAAGTTAATGAGATTTAAGAAGTTTTGTTTCATTACTTCAGAGTTATAC
TCTTGATAAAATAATGTTGCATCCCATAAAATTGAAAAAAATCAATTTTTTAATATGATACACTC
TTTGTGAAAGTTATTTTTTGATATGCAGGGAAAATACGCAGTGTATAATAATTGGTTGAACTAAT
TTATATTATTTTATCCTCCGTCAATTTATTAAATCTCTATAAAGATAACGGGACTTGAGGTGAAT
TGAAAATAAAATCAATTTTTTAATATGATACACTCT
Found at i:51761 original size:64 final size:63
Alignment explanation
Indices: 51658--51786 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 63
51648 TTATCAAACT
*
51658 CTCAACTTTTGTCAGTTCTAATCCTTACAATAGTACCAATGTTACTACTTTTCTCATTCATTAG
1 CTCAACTTTTGTCACTTCTAATCCTTACAATAGTACCAATGTTACTAC-TTTCTCATTCATTAG
* *
51722 CTCAACTTTTGTCACTTGTAATCCTTACAATAGTGCCAATGTTACTACTTTCTCATTCATTAG
1 CTCAACTTTTGTCACTTCTAATCCTTACAATAGTACCAATGTTACTACTTTCTCATTCATTAG
51785 CT
1 CT
51787 TTCTGCATAG
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
63 17 0.27
64 45 0.73
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.42
Consensus pattern (63 bp):
CTCAACTTTTGTCACTTCTAATCCTTACAATAGTACCAATGTTACTACTTTCTCATTCATTAG
Found at i:54013 original size:27 final size:27
Alignment explanation
Indices: 53961--54013 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
53951 ACCACTAAAA
*
53961 ATAATAGAAAATACAAATTTTAAAATT
1 ATAATAGAAAATACAAATTATAAAATT
* *
53988 ATAATATATAATA-AAATTATATAAAT
1 ATAATAGAAAATACAAATTATA-AAAT
54014 AATTTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
ATAATAGAAAATACAAATTATAAAATT
Found at i:54269 original size:24 final size:24
Alignment explanation
Indices: 54237--54284 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
54227 GGAGAATGAC
54237 AAATCATATTTTTCTTCCTGATTT
1 AAATCATATTTTTCTTCCTGATTT
54261 AAATCATATTTTTCTTCCTGATTT
1 AAATCATATTTTTCTTCCTGATTT
54285 TTTGCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.04, T:0.54
Consensus pattern (24 bp):
AAATCATATTTTTCTTCCTGATTT
Found at i:57193 original size:274 final size:269
Alignment explanation
Indices: 56798--57345 Score: 839
Period size: 274 Copynumber: 2.0 Consensus size: 269
56788 AGTATAATAA
*
56798 AAATATGTGAGACCCATTATAATAAGAATATATATAATATTTGTCCAGTTAATGTATTTATTAGA
1 AAATATGTGAGACCCATTATAATAAGAATATATATAATATTTGTCCAGTTAATGTACTTATTAGA
* *
56863 TTAAAAATACTTTTAAAAAAAATTAATTTTAATTATAAATTAATAAATATATGTGTGAC-CGAAA
66 TTAAAAATACTTTTAAAAAAAATTAAATTAAATTATAAATTAATAAATATATGTGTGACTC-AAA
* * * * *
56927 TTCTTATTAAATAAAATAAGACATTGTCTGCAAGTTAAGTTAAACAAAATATATTTTCTTTCTAG
130 TACTTATTAAATAAAATAAGACATTATCTGCAAATCAAGTTAAACAAAATATATTTTCTTTCTAA
* * **
56992 AAGATTTAGTATTTATTAGTATAATATATTTTACATTTATTAGCATAATTTATTTGACCTATGAA
195 AAGATTTAGTATATATTAATATAATATATTTTACATTTATTAGCATAATTTATTTGACCTACAAA
57057 TTTAATCTAT
260 TTTAATCTAT
*
57067 AAATATGTGAGACCCATTATAATAAGAATATATATATGTAATATTTGTCTAGTTAATGTACTTAT
1 AAATATGTGAGACCCATTATAATAAG-A-ATATATA--TAATATTTGTCCAGTTAATGTACTTAT
57132 TAGATTAAAAAAATA-TTTTAAAAAAAATTAAATTAAATTATAAATTAATAAATATATGTGTGAC
62 TAGATT--AAAAATACTTTTAAAAAAAATTAAATTAAATTATAAATTAATAAATATATGTGTGAC
* * *
57196 TCAAATACTTATTAAATAAAATAAGAGATTATTTGTAAATCAAGTTAAACAAAATATATTTTCTT
125 TCAAATACTTATTAAATAAAATAAGACATTATCTGCAAATCAAGTTAAACAAAATATATTTTCTT
** *
57261 TCTAAAAGATTTAGTATATATTAATATAATATATTTTGTATTTATTAGTATAATTTATTTGACCT
190 TCTAAAAGATTTAGTATATATTAATATAATATATTTTACATTTATTAGCATAATTTATTTGACCT
*
57326 ACAAATTTAGTCTAT
255 ACAAATTTAATCTAT
57341 AAATA
1 AAATA
57346 GACACTTTTA
Statistics
Matches: 252, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
269 26 0.10
270 1 0.00
271 7 0.03
273 31 0.12
274 179 0.71
275 8 0.03
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (269 bp):
AAATATGTGAGACCCATTATAATAAGAATATATATAATATTTGTCCAGTTAATGTACTTATTAGA
TTAAAAATACTTTTAAAAAAAATTAAATTAAATTATAAATTAATAAATATATGTGTGACTCAAAT
ACTTATTAAATAAAATAAGACATTATCTGCAAATCAAGTTAAACAAAATATATTTTCTTTCTAAA
AGATTTAGTATATATTAATATAATATATTTTACATTTATTAGCATAATTTATTTGACCTACAAAT
TTAATCTAT
Found at i:57301 original size:24 final size:24
Alignment explanation
Indices: 57269--57320 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
57259 TTTCTAAAAG
57269 ATTTAGTATATATTAATATAATAT
1 ATTTAGTATATATTAATATAATAT
* * * *
57293 ATTTTGTATTTATTAGTATAATTT
1 ATTTAGTATATATTAATATAATAT
57317 ATTT
1 ATTT
57321 GACCTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (24 bp):
ATTTAGTATATATTAATATAATAT
Found at i:63415 original size:13 final size:13
Alignment explanation
Indices: 63375--63417 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
63365 ATCAATAATT
63375 AAAAATGAAA-AA
1 AAAAATGAAAGAA
*
63387 AAATAATCATAAGAA
1 AAA-AATGA-AAGAA
63402 AAAAATGAAAGAA
1 AAAAATGAAAGAA
63415 AAA
1 AAA
63418 CTAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 3 0.12
13 12 0.46
14 6 0.23
15 5 0.19
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAAATGAAAGAA
Found at i:63539 original size:6 final size:7
Alignment explanation
Indices: 63519--63568 Score: 66
Period size: 7 Copynumber: 7.1 Consensus size: 7
63509 TCGAAATTTG
63519 ATTAAAA
1 ATTAAAA
63526 ATTAAAA
1 ATTAAAA
63533 ATTAAAA
1 ATTAAAA
63540 ATTAAAA
1 ATTAAAA
*
63547 AATAGAAA
1 ATTA-AAA
*
63555 AGT-AAA
1 ATTAAAA
63561 ATTAAAA
1 ATTAAAA
63568 A
1 A
63569 GAAAAGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 5 0.13
7 28 0.74
8 5 0.13
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (7 bp):
ATTAAAA
Found at i:64274 original size:11 final size:11
Alignment explanation
Indices: 64260--64307 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
64250 ATTGCTGTTA
64260 TGTTGCTATTT
1 TGTTGCTATTT
*
64271 TGTTGCTATTA
1 TGTTGCTATTT
*
64282 TGTTGCTCTTT
1 TGTTGCTATTT
** *
64293 TACTACTATTT
1 TGTTGCTATTT
64304 TGTT
1 TGTT
64308 ATTATATTGC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.60
Consensus pattern (11 bp):
TGTTGCTATTT
Found at i:64277 original size:22 final size:22
Alignment explanation
Indices: 64251--64293 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
64241 TTGTTGTTTA
*
64251 TTGCTGTTATGTTGCTATTTTG
1 TTGCTATTATGTTGCTATTTTG
*
64273 TTGCTATTATGTTGCTCTTTT
1 TTGCTATTATGTTGCTATTTT
64294 ACTACTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.12, G:0.19, T:0.60
Consensus pattern (22 bp):
TTGCTATTATGTTGCTATTTTG
Found at i:64301 original size:22 final size:22
Alignment explanation
Indices: 64257--64307 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
64247 TTTATTGCTG
** *
64257 TTATGTTGCTATTTTGTTGCTA
1 TTATGTTGCTATTTTACTACTA
*
64279 TTATGTTGCTCTTTTACTACTA
1 TTATGTTGCTATTTTACTACTA
*
64301 TTTTGTT
1 TTATGTT
64308 ATTATATTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.61
Consensus pattern (22 bp):
TTATGTTGCTATTTTACTACTA
Found at i:65282 original size:17 final size:17
Alignment explanation
Indices: 65260--65300 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
65250 GTCACTTGCT
65260 CGTGTGTGACACACGAC
1 CGTGTGTGACACACGAC
65277 CGTGTGTGACACACGAC
1 CGTGTGTGACACACGAC
65294 CGTGTGT
1 CGTGTGT
65301 TAGACTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.22
Consensus pattern (17 bp):
CGTGTGTGACACACGAC
Found at i:69063 original size:37 final size:37
Alignment explanation
Indices: 69012--69104 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
69002 TACACAAGTT
* ** *
69012 ATCCAACCGA-AACACGCTAGTTGCTCATAAGGGCTA
1 ATCCAACCGATAACACGCCAAATGCTCATAAGAGCTA
*
69048 ATCCACCCGATAACACGCCAAATGCTCATAAGAGCTA
1 ATCCAACCGATAACACGCCAAATGCTCATAAGAGCTA
* *
69085 ATCCATCCGATAACATGCCA
1 ATCCAACCGATAACACGCCA
69105 GATCAAGATA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 9 0.18
37 40 0.82
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.18
Consensus pattern (37 bp):
ATCCAACCGATAACACGCCAAATGCTCATAAGAGCTA
Found at i:73407 original size:27 final size:26
Alignment explanation
Indices: 73341--73431 Score: 103
Period size: 26 Copynumber: 3.5 Consensus size: 26
73331 TTTGAGATCC
* * **
73341 CTACAAAGGCTTTCATTTTAAATACA
1 CTACAAAGGCTTCCATTTCAAATATG
*
73367 CTTCAAAGGCTTCCATTTCATAA-ATGG
1 CTACAAAGGCTTCCATTTCA-AATAT-G
*
73394 CTACAAAGGTTTCCATTTCAAATATG
1 CTACAAAGGCTTCCATTTCAAATATG
73420 CTACAAAGGCTT
1 CTACAAAGGCTT
73432 TTATTTCTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
26 32 0.59
27 22 0.41
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (26 bp):
CTACAAAGGCTTCCATTTCAAATATG
Found at i:73609 original size:23 final size:23
Alignment explanation
Indices: 73577--73629 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
73567 ACCCACCAGT
*
73577 CATGGTCTTAAAGGATATAGTGC
1 CATGGCCTTAAAGGATATAGTGC
* * *
73600 CATGGCCTTACATGATATGGTGC
1 CATGGCCTTAAAGGATATAGTGC
73623 CATGGCC
1 CATGGCC
73630 ATGGGCTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (23 bp):
CATGGCCTTAAAGGATATAGTGC
Found at i:77888 original size:40 final size:40
Alignment explanation
Indices: 77770--77895 Score: 117
Period size: 40 Copynumber: 3.1 Consensus size: 40
77760 GTAGACAAGC
* *
77770 TGCCAGTAATGTGGTCGAGCCACCAGTAATGCAGATAAAC
1 TGCCAGTAATGTGGTCAAGCCACCAGTAATGCAGATAAAA
* * * * ** * * *
77810 TGCTAGTAGTGTAGACAAGCTGCCAGTATTGTATATAAAA
1 TGCCAGTAATGTGGTCAAGCCACCAGTAATGCAGATAAAA
* * * *
77850 TTCCAGTAATATGGTCAAGCCACCAGTAATACAGATAAAC
1 TGCCAGTAATGTGGTCAAGCCACCAGTAATGCAGATAAAA
77890 TGCCAG
1 TGCCAG
77896 AAGTGCAGAC
Statistics
Matches: 61, Mismatches: 25, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCAGTAATGTGGTCAAGCCACCAGTAATGCAGATAAAA
Found at i:77895 original size:20 final size:21
Alignment explanation
Indices: 77872--77917 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
77862 GGTCAAGCCA
*
77872 CCAGTAA-TACAGATAAACTG
1 CCAGTAAGTACAGACAAACTG
* *
77892 CCAG-AAGTGCAGACAAGCTG
1 CCAGTAAGTACAGACAAACTG
77912 CCAGTA
1 CCAGTA
77918 CTTCCTCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.10
20 18 0.86
21 1 0.05
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (21 bp):
CCAGTAAGTACAGACAAACTG
Found at i:77916 original size:40 final size:39
Alignment explanation
Indices: 77792--77917 Score: 101
Period size: 40 Copynumber: 3.2 Consensus size: 39
77782 GGTCGAGCCA
* *
77792 CCAGTAATGCAGATAAACTGCTAGTAGTGTAGACAAGCTG
1 CCAGTAATGCAGATAAACTGCCAGAAGTG-AGACAAGCTG
* * * * * * * **
77832 CCAGTATTGTATATAAAATTCCAGTAATATG-GTCAAGCCA
1 CCAGTAATGCAGATAAACTGCCAG-AA-GTGAGACAAGCTG
*
77872 CCAGTAATACAGATAAACTGCCAGAAGTGCAGACAAGCTG
1 CCAGTAATGCAGATAAACTGCCAGAAGTG-AGACAAGCTG
77912 CCAGTA
1 CCAGTA
77918 CTTCCTCCTT
Statistics
Matches: 61, Mismatches: 21, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
38 2 0.03
39 2 0.03
40 54 0.89
41 1 0.02
42 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (39 bp):
CCAGTAATGCAGATAAACTGCCAGAAGTGAGACAAGCTG
Found at i:78202 original size:37 final size:37
Alignment explanation
Indices: 78161--78246 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
78151 GAGAATGAGA
* *
78161 ACAACATGCTTTTCAAATCAGTAATAAACATAGCCAT
1 ACAACATGCTTTTCAAATCAGTAATAAAAATAACCAT
78198 ACAACATGCTTTTCAAATCAGTAATAAAAATAACCAT
1 ACAACATGCTTTTCAAATCAGTAATAAAAATAACCAT
78235 ACAACATGCTTT
1 ACAACATGCTTT
78247 CACAAAGTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (37 bp):
ACAACATGCTTTTCAAATCAGTAATAAAAATAACCAT
Found at i:88972 original size:44 final size:44
Alignment explanation
Indices: 88901--89018 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 44
88891 ACTTGATGCG
* * * *
88901 ATCTGCTCTACTGCAACATCAGAGAGATAAGATCTATTACTTT-A
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCACTTTCA
* * * **
88945 ATCTGCTCCACTACAACTTTAGGGAGATATGATTATCGGTTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCACTTTCA
* *
88989 ATTTGCTCCACTGTAACTTCAGGGAGATAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAA
89019 AATTTGCCCT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
43 6 0.10
44 53 0.90
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCACTTTCA
Found at i:89168 original size:128 final size:128
Alignment explanation
Indices: 89013--90139 Score: 1594
Period size: 128 Copynumber: 8.8 Consensus size: 128
89003 AACTTCAGGG
* * * * * *
89013 AGATAAAATTTGCCCTCTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGAGCTATAATTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * *
89078 ACCTATTCCACTACTGAGCAGGGATATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGA
66 ACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * *
89141 AGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAATATCTGTAATTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * * * *
89206 ACCTACTCCACTGCTGGCTAGGGATATTGGACTTGTGGCTTAAATCTGTTTCCTTACACTTGA
66 ACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * * *
89269 AGATAAGATTTGCC-ACTTTCGATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTTC
1 AGATAAGATTCGCCGTC-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCC
* ** * *
89333 AACCTATTCCACTACTGACCAGGGACGTAGGACTTGTGGCTTGAATCTGCTTCCTTACATTTGA
65 AACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * *
89397 AGATAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATTTGTAATTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * * * *
89462 ACCTACTCCATTGCTAACCAAGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
66 ACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
*
89525 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGATACAAGATCTGTAATTTCCC
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT-CC
* * *
89590 AACCTATTACATTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGTTTCCTTACACTTGA
65 AACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * * * *
89654 AGATAAGATTTGTCG-CTTTCGATCTGCTCTGTTACTACTTAGGGAGACAAGATCTGTAATTTCC
1 AGATAAGATTCGCCGTC-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT-C
* * *
89718 CAACCTATTCCACTGCTGACGAGGGACATAGGACTTGTGGCTTAAATTTGCTTCCTTACACTTGA
64 CAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * *
89783 AGATAAGATTCGCCGTCTTCAATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * * *
89848 ACCTACTCCACTGCTGGCTAGGGATATAGGATTTGTGGCTTAAATCTGCTTCCTTACACTTGA
66 ACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * * *
89911 AGATAAGATTCACC-ACTTTTGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTC
1 AGATAAGATTCGCCGTC-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCC
*
89975 AACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
65 AACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * * *
90039 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTACTTAGGGAGGCAAGATTTGTATTTTCCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * * *
90104 ACCTACTCCACTGTTGACTAGGGAGATAGGACTTGT
66 ACCTATTCCACTGCTGACCAGGGATATAGGACTTGT
90140 AATCTTCAAC
Statistics
Matches: 889, Mismatches: 103, Indels: 14
0.88 0.10 0.01
Matches are distributed among these distances:
127 2 0.00
128 654 0.74
129 232 0.26
130 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (128 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
ACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
Found at i:90150 original size:44 final size:44
Alignment explanation
Indices: 90102--90213 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 44
90092 TTGTATTTTC
* * * *
90102 CAACCTACTCCACTGTTGACT-AGGGAGATAGGACTTGTAATCTT
1 CAACCTATTCCACTGCTG-CTCAGGAAGATAGGACTTGCAATCTT
* * **
90146 CAACCTATTCCACTGCTGGTCAGGAAGCTAGGTTTTGCAATCTT
1 CAACCTATTCCACTGCTGCTCAGGAAGATAGGACTTGCAATCTT
*
90190 CAACCTATTCCACTGCTGGTCAGG
1 CAACCTATTCCACTGCTGCTCAGG
90214 GAGCTAGGTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 1 0.02
44 58 0.98
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (44 bp):
CAACCTATTCCACTGCTGCTCAGGAAGATAGGACTTGCAATCTT
Found at i:90219 original size:44 final size:44
Alignment explanation
Indices: 90140--90226 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
90130 TAGGACTTGT
90140 AATCTTCAACCTATTCCACTGCTGGTCAGGAAGCTAGGTTTTGC
1 AATCTTCAACCTATTCCACTGCTGGTCAGGAAGCTAGGTTTTGC
*
90184 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGCTAGGTTTTG
1 AATCTTCAACCTATTCCACTGCTGGTCAGGAAGCTAGGTTTTG
90227 TGGTTTCACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (44 bp):
AATCTTCAACCTATTCCACTGCTGGTCAGGAAGCTAGGTTTTGC
Found at i:92385 original size:6 final size:6
Alignment explanation
Indices: 92376--92488 Score: 105
Period size: 6 Copynumber: 19.7 Consensus size: 6
92366 TTTTTCTCCT
92376 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA --TTGA TTTTGA -TTT--
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
* * * * * *
92419 TTTTGC TTTTGA CTTTGA TTTTTA TTTTTA TTTT-- TTTTGTT TTTTGTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTG-A TTTTG-A
92467 TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTT
92489 TTTATTGAAT
Statistics
Matches: 94, Mismatches: 5, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
4 11 0.12
5 3 0.03
6 68 0.72
7 12 0.13
ACGTcount: A:0.12, C:0.02, G:0.13, T:0.73
Consensus pattern (6 bp):
TTTTGA
Found at i:92445 original size:27 final size:25
Alignment explanation
Indices: 92378--92480 Score: 81
Period size: 27 Copynumber: 4.1 Consensus size: 25
92368 TTTCTCCTTT
92378 TTGATTTTGATTTTGATTTTGATTTTGA
1 TTGATTTTGA-TTT--TTTTGATTTTGA
*
92406 TTGATTTTGATTTTTTTGCTTTTGA
1 TTGATTTTGATTTTTTTGATTTTGA
* **
92431 CTTTGATTTTTATTTTTATTTTTTTTG-
1 --TTGATTTTGATTTTT-TTGATTTTGA
92458 TT--TTTTG--TTTTTTGATTTTGA
1 TTGATTTTGATTTTTTTGATTTTGA
92479 TT
1 TT
92481 TTGATTTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 15
0.74 0.08 0.17
Matches are distributed among these distances:
20 7 0.11
21 6 0.09
23 4 0.06
25 13 0.20
27 17 0.27
28 17 0.27
ACGTcount: A:0.13, C:0.02, G:0.14, T:0.72
Consensus pattern (25 bp):
TTGATTTTGATTTTTTTGATTTTGA
Found at i:92461 original size:14 final size:15
Alignment explanation
Indices: 92375--92482 Score: 57
Period size: 16 Copynumber: 7.1 Consensus size: 15
92365 CTTTTTCTCC
92375 TTTTTGATTTTGATTT
1 TTTTTGATTTT-ATTT
*
92391 TGATTTTGATTTTGATTG
1 T--TTTTGATTTT-ATTT
*
92409 ATTTTGATTTT-TTT
1 TTTTTGATTTTATTT
* *
92423 GCTTTTGACTTTGA-TT
1 -TTTTTGA-TTTTATTT
*
92439 TTTAT--TTTTATTT
1 TTTTTGATTTTATTT
92452 TTTTTG-TTTT-TTGT
1 TTTTTGATTTTATT-T
92466 TTTTTGATTTTGATTT
1 TTTTTGATTTT-ATTT
92482 T
1 T
92483 GATTTTTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
12 4 0.06
13 8 0.11
14 13 0.18
15 13 0.18
16 18 0.25
17 2 0.03
18 14 0.19
ACGTcount: A:0.12, C:0.02, G:0.13, T:0.73
Consensus pattern (15 bp):
TTTTTGATTTTATTT
Found at i:92490 original size:43 final size:43
Alignment explanation
Indices: 92375--92489 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
92365 CTTTTTCTCC
* *
92375 TTTTTGATTTTGATTTTGATTTTGATTTTGATTGATTTTGATT
1 TTTTTGCTTTTGATTTTGATTTTGATTTTTATTGATTTTGATT
* * **
92418 TTTTTGCTTTTGACTTTGATTTTTATTTTTATTTTTTTTG--T
1 TTTTTGCTTTTGATTTTGATTTTGATTTTTATTGATTTTGATT
*
92459 TTTTTGTTTTTTGATTTTGATTTTGATTTTT
1 TTTTTG-CTTTTGATTTTGATTTTGATTTTT
92490 TTATTGAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 7 0.11
42 21 0.34
43 34 0.55
ACGTcount: A:0.12, C:0.02, G:0.13, T:0.73
Consensus pattern (43 bp):
TTTTTGCTTTTGATTTTGATTTTGATTTTTATTGATTTTGATT
Found at i:93938 original size:3 final size:3
Alignment explanation
Indices: 93930--93963 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
93920 AAGATGAAAC
*
93930 TAA TAA TAA TTAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
93964 CAACACTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:94807 original size:17 final size:18
Alignment explanation
Indices: 94785--94823 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
94775 TTTATAACCG
*
94785 AAAATAAAAAAGAAAAT-
1 AAAATAAAAAACAAAATC
94802 AAAATAAAAAACAAAATC
1 AAAATAAAAAACAAAATC
94820 AAAA
1 AAAA
94824 GAAATCTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (18 bp):
AAAATAAAAAACAAAATC
Found at i:95738 original size:84 final size:85
Alignment explanation
Indices: 95597--95758 Score: 281
Period size: 84 Copynumber: 1.9 Consensus size: 85
95587 GCAAGACTTG
** **
95597 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACTG
1 ATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAA
95662 CTT-AGGGAGATAAGATCTA
66 CTTCAGGGAGATAAGATCTA
95681 ATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAA
1 ATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAA
95746 CTTCAGGGAGATA
66 CTTCAGGGAGATA
95759 GGATTATCGA
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
84 64 0.88
85 9 0.12
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (85 bp):
ATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAA
CTTCAGGGAGATAAGATCTA
Found at i:95757 original size:44 final size:44
Alignment explanation
Indices: 95606--95758 Score: 170
Period size: 44 Copynumber: 3.6 Consensus size: 44
95596 GATGCGATCT
* *
95606 GCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCC
** * ***
95650 GCTCCACTACTGCTT-AGGGAGATAAGATCTA--A-TGCGATCC
1 GCTCCACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCC
* * *
95690 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCC
*
95734 GCTCCACTACAACTTCAGGGAGATA
1 GCTCCACTACAACTTCAGAGAGATA
95759 GGATTATCGA
Statistics
Matches: 84, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
40 15 0.18
41 16 0.19
43 16 0.19
44 37 0.44
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (44 bp):
GCTCCACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCC
Found at i:96190 original size:129 final size:130
Alignment explanation
Indices: 95773--97008 Score: 1947
Period size: 129 Copynumber: 9.6 Consensus size: 130
95763 TATCGACTTC
* * * * *
95773 AATCTGCTTCCTTACCCTTGAAGATAAGATTCACC-ATCTTCGATGTGCTCCGCTACTACTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTCTTCGATCTGCTCCGCTACTGCTTAGG
*
95837 GAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTA
66 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * *
95901 AATCTACTTCCTTACACTTGAAGATAAGATTCGCTG-TCTCCGATCTGCTCCGCTACTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTCTTCGATCTGCTCCGCTACTGCTTAGG
* * ** * *
95965 GAGACCAGATCTGTAATTT-CCAACCTATTTCACTATTAACCAGGGAGATAGGACTTGTGGCTTA
66 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* **
96029 AATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGCT-TTCGATCTGCTCTACTACTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTCTTCGATCTGCTCCGCTACTGCTTAGG
*
96093 GAGACAAGATTTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
66 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * * *
96158 AATCTGCTTCCTTAGACTTGAAGATAATATTTGCCGCT-TTCGATCTGCTCCGCTGCTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTCTTCGATCTGCTCCGCTACTGCTTAGG
*
96222 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGTGATATAGGACTTGTGGCTTA
66 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* *
96287 AATCTGCTTCCTTACACTTGAAGATAAGATTTGCCG-TCTTCGATCTGCTCCGCTATTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTCTTCGATCTGCTCCGCTACTGCTTAGG
*
96351 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTTCTGACCAGGGATATAGGACTTGTGGCTTA
66 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * *
96416 AATATGCTTCCTTACACTTGAAGATAAGATTTGCCGCT-TTCGATCTGCTCCACTACTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTCTTCGATCTGCTCCGCTACTGCTTAGG
* * * * *
96480 GAGATAAGATCTGTAATTTCCCAACTTATTCCACTGCTGACTAGTGATATAGGGCTTGTGGCTTA
66 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* * *
96545 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCC-ATCTTCGATCTGCTCTGCTATTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTCTTCGATCTGCTCCGCTACTGCTTAGG
*
96609 GAGACAAGATCTGTAATTTCCCAACCTATTTCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
66 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
* *
96674 AATCTGCTTCCTTACACTTGAAGATAAGATTCACCGCT-TTCGATTTGCTCCGCTACTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTCTTCGATCTGCTCCGCTACTGCTTAGG
96738 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
66 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
** * * *
96803 AATCTATTTCCTTACACTTGAAGATAAGATTTGTCGCT-TTCGATCTGCTCCGCTACAGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTCTTCGATCTGCTCCGCTACTGCTTAGG
**
96867 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTTTTGACCAGGGATATAGGACTTGTGGCTTA
66 GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
*
96932 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCG-TCTTCGATCTACTCCGCTACTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTCTTCGATCTGCTCCGCTACTGCTTAGG
96996 GAGACAAGATCTG
66 GAGACAAGATCTG
97009 CTATATTCAC
Statistics
Matches: 1019, Mismatches: 81, Indels: 15
0.91 0.07 0.01
Matches are distributed among these distances:
128 190 0.19
129 827 0.81
130 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (130 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGCTCTTCGATCTGCTCCGCTACTGCTTAGG
GAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTA
Found at i:103773 original size:3 final size:3
Alignment explanation
Indices: 103765--103807 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
103755 AAGATGAAAC
* *
103765 TAA TAA TAA TTAA TAG TAA CAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
103808 CACTAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:104654 original size:17 final size:18
Alignment explanation
Indices: 104628--104666 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
104618 TTTATAGCCG
*
104628 AAAATAAAAAAGAAAAT-
1 AAAATAAAAAACAAAATC
*
104645 AAAATCAAAAACAAAATC
1 AAAATAAAAAACAAAATC
104663 AAAA
1 AAAA
104667 GAAATCTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (18 bp):
AAAATAAAAAACAAAATC
Found at i:125394 original size:12 final size:11
Alignment explanation
Indices: 125348--125397 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 11
125338 GTAGGCAACT
125348 TTTTTTTTGCG
1 TTTTTTTTGCG
125359 ATTTTTTTTGCG
1 -TTTTTTTTGCG
*
125371 --CTTTTTGC-
1 TTTTTTTTGCG
125379 TTTTTTTTGCTG
1 TTTTTTTTGC-G
125391 TTTTTTT
1 TTTTTTT
125398 AGCTTCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
9 7 0.22
10 7 0.22
12 18 0.56
ACGTcount: A:0.02, C:0.10, G:0.14, T:0.74
Consensus pattern (11 bp):
TTTTTTTTGCG
Found at i:128517 original size:46 final size:46
Alignment explanation
Indices: 128465--128554 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
128455 ATAAAAGACA
128465 TCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGAACC
1 TCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGAACC
*
128511 TCGACCCACTATCAAGGATGATAGGAACCTTGGTATATGATGAA
1 TCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGAA
128555 TGCCACACAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (46 bp):
TCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGAACC
Found at i:132732 original size:27 final size:27
Alignment explanation
Indices: 132692--132760 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
132682 TTTAAGAGAT
* *
132692 CGCCATAAATGCTTTCATTTCATGATT-
1 CGCCACAAAGGCTTTCATTTCAT-ATTA
*
132719 TGCCACAAAGGCTTTCATTTCATATTA
1 CGCCACAAAGGCTTTCATTTCATATTA
132746 CGCCACAAAGGCTTT
1 CGCCACAAAGGCTTT
132761 TTTTCTCTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.08
27 34 0.92
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (27 bp):
CGCCACAAAGGCTTTCATTTCATATTA
Found at i:135709 original size:10 final size:10
Alignment explanation
Indices: 135694--135730 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
135684 GCTGCTGCCG
135694 GAAAAAGAGA
1 GAAAAAGAGA
135704 GAAAAAGAGA
1 GAAAAAGAGA
*
135714 GAAAGAGAAGA
1 GAAAAAG-AGA
135725 GAAAAA
1 GAAAAA
135731 AAGGTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAAGAGA
Found at i:138423 original size:116 final size:115
Alignment explanation
Indices: 138299--138621 Score: 526
Period size: 116 Copynumber: 2.8 Consensus size: 115
138289 GAAGTGTATT
*
138299 AATTATTTCT-TTTTTCTAAAAAAATTTAGTAAAAAACTCTTATTTCGGCCATTTGTTCGTATTT
1 AATTATTTCTAATTTT-T-AAAAAATTTAGTAAAAAACTCTTATTTCGGCCATTTGTTCGTATTT
138363 TTTCCCGAATTTTATTACTTTCAAAAAAATATATTGTTTTTGAATTTTTAAA
64 TTTCCCGAATTTTATTACTTTCAAAAAAATATATTGTTTTTGAATTTTTAAA
138415 AATTATTTCTGAATTTTTAAAAAATTTAGTAAAAAACTCTTATTTCGGCCATTTGTTCGTATTTT
1 AATTATTTCT-AATTTTTAAAAAATTTAGTAAAAAACTCTTATTTCGGCCATTTGTTCGTATTTT
138480 TTCCCGAATTTTATTACTTTCAAAAAAATATATTGTTTTTGAATTTTTAAA
65 TTCCCGAATTTTATTACTTTCAAAAAAATATATTGTTTTTGAATTTTTAAA
* * * *
138531 AATTATTTCTGAATTTTTAAAAAATTTAGTAAAAGACTCTTACTTCAGCCATTTGTTAGTATTAT
1 AATTATTTCT-AATTTTTAAAAAATTTAGTAAAAAACTCTTATTTCGGCCATTTGTTCGTATT-T
*
138596 TTT-CCGCATTTTATTACTTT-AAAAAA
64 TTTCCCGAATTTTATTACTTTCAAAAAA
138622 TATCATAATT
Statistics
Matches: 198, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
115 6 0.03
116 183 0.92
117 5 0.03
118 4 0.02
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (115 bp):
AATTATTTCTAATTTTTAAAAAATTTAGTAAAAAACTCTTATTTCGGCCATTTGTTCGTATTTTT
TCCCGAATTTTATTACTTTCAAAAAAATATATTGTTTTTGAATTTTTAAA
Found at i:138970 original size:10 final size:10
Alignment explanation
Indices: 138955--139095 Score: 60
Period size: 10 Copynumber: 14.0 Consensus size: 10
138945 AAATTACCTT
138955 TTTTTCTTTC
1 TTTTTCTTTC
*
138965 TTTTTCCTTC
1 TTTTTCTTTC
* **
138975 CTTCCCTCTTC
1 TTTTTCT-TTC
*
138986 TTCTTC-TTC
1 TTTTTCTTTC
*
138995 TTCCTT-TTT-
1 TT-TTTCTTTC
139004 TTTTTCTTCTC
1 TTTTTCTT-TC
* *
139015 CTTTCCTTT-
1 TTTTTCTTTC
* *
139024 TCTTTCCTTC
1 TTTTTCTTTC
139034 TTTTTCTTTC
1 TTTTTCTTTC
*
139044 TTTCCTCTCCTCTC
1 TTT--T-T-CTTTC
*
139058 CTTTTCTTTC
1 TTTTTCTTTC
139068 TTTTTCTTTC
1 TTTTTCTTTC
139078 --TTTCTTTC
1 TTTTTCTTTC
*
139086 TTCTTCTTTC
1 TTTTTCTTTC
139096 CCTCTCCTTC
Statistics
Matches: 95, Mismatches: 23, Indels: 26
0.66 0.16 0.18
Matches are distributed among these distances:
8 10 0.11
9 14 0.15
10 50 0.53
11 12 0.13
12 2 0.02
13 1 0.01
14 6 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:139010 original size:24 final size:24
Alignment explanation
Indices: 138983--139091 Score: 66
Period size: 24 Copynumber: 4.6 Consensus size: 24
138973 TCCTTCCCTC
*
138983 TTCTTCTTCTTCTTCCTTTTTTTT
1 TTCTTCTTCTTCTTCCTTTTTCTT
*
139007 TTCTTC-TCCT-TTCC-TTTTCTT
1 TTCTTCTTCTTCTTCCTTTTTCTT
* * * * *
139028 TCCTTCTTTTTCTTTCTTTCCTCTC
1 TTCTTCTTCTTCTTCCTTT-TTCTT
* * *
139053 CTCTCCTT-TTCTTTCTTTTTC-T
1 TTCTTCTTCTTCTTCCTTTTTCTT
139075 TTCTTTCTTTCTTCTTC
1 TTC-TTC-TTCTTCTTC
139092 TTTCCCTCTC
Statistics
Matches: 62, Mismatches: 16, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
21 11 0.18
22 8 0.13
23 10 0.16
24 20 0.32
25 13 0.21
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (24 bp):
TTCTTCTTCTTCTTCCTTTTTCTT
Found at i:139024 original size:18 final size:19
Alignment explanation
Indices: 138989--139096 Score: 82
Period size: 18 Copynumber: 5.7 Consensus size: 19
138979 CCTCTTCTTC
*
138989 TTCTTCTTCCTTT--TTTTT
1 TTCTTC-TCCTTTCCTTTCT
139007 TTCTTCTCCTTTCCTTTTCT
1 TTCTTCTCCTTTCC-TTTCT
*
139027 TTCCTTCT--TTTTCTTTCT
1 TT-CTTCTCCTTTCCTTTCT
* *
139045 TTCCTCTCCTCTCCTTTTCT
1 TTCTTCTCCTTTCC-TTTCT
* *
139065 TTCTTTTTCTTT-CTTTCT
1 TTCTTCTCCTTTCCTTTCT
*
139083 TTCTTCTTCTTTCC
1 TTCTTCTCCTTTCC
139097 CTCTCCTTCT
Statistics
Matches: 72, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
17 10 0.14
18 29 0.40
19 9 0.12
20 19 0.26
21 5 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTTCTCCTTTCCTTTCT
Found at i:139061 original size:38 final size:36
Alignment explanation
Indices: 138955--139085 Score: 113
Period size: 38 Copynumber: 3.4 Consensus size: 36
138945 AAATTACCTT
*
138955 TTTTTCTTTCTTTTTCCT-TCCTTCCCTCTTCTTCTTCTTC
1 TTTTTCTTTC--TTTCCTCTCCTT-CCTTTTC-T-TTCTTC
* *
138995 TTCCTTT-TTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTC
1 TT--TTTCTTTCTTTCCTCTCC-TTCCTTTTCTTT-CTTC
*
139034 TTTTTCTTTCTTTCCTCTCCTCTCCTTTTCTTTCTTT
1 TTTTTCTTTCTTTCCTCTCCT-TCCTTTTCTTTCTTC
139071 TTCTTTCTTTCTTTC
1 TT-TTTCTTTCTTTC
139086 TTCTTCTTTC
Statistics
Matches: 77, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
37 9 0.12
38 37 0.48
39 12 0.16
40 11 0.14
41 5 0.06
42 3 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (36 bp):
TTTTTCTTTCTTTCCTCTCCTTCCTTTTCTTTCTTC
Found at i:139069 original size:34 final size:34
Alignment explanation
Indices: 138956--139094 Score: 131
Period size: 34 Copynumber: 4.1 Consensus size: 34
138946 AATTACCTTT
* * *
138956 TTTTCTTTCTTTTTCCTTCCTTCC-CTCTTCTTC
1 TTTTCTTTCTTTTTCTTTCTTTCCTCTCCTCTTC
* * * *
138989 TTCTTCTTCCTTTTTTTTTTCTTCTCCTTTCCTTTTC
1 TT-TTCTTTC-TTTTTCTTTCTT-TCCTCTCCTCTTC
* *
139026 -TTTCCTTCTTTTTCTTTCTTTCCTCTCCTCTCC
1 TTTTCTTTCTTTTTCTTTCTTTCCTCTCCTCTTC
* *
139059 TTTTCTTTCTTTTTCTTTCTTT-CTTTCTTCTTC
1 TTTTCTTTCTTTTTCTTTCTTTCCTCTCCTCTTC
139092 TTT
1 TTT
139095 CCCTCTCCTT
Statistics
Matches: 84, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
33 23 0.27
34 37 0.44
35 14 0.17
36 4 0.05
37 6 0.07
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (34 bp):
TTTTCTTTCTTTTTCTTTCTTTCCTCTCCTCTTC
Found at i:143693 original size:51 final size:51
Alignment explanation
Indices: 143617--143731 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
143607 ACTTCTGATC
* *
143617 AGTGACAAGTGATAAGTGGCAGCTTTAGCTACACTTCTCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGCAGCTTTAGCTACACTTATCTGATCAGGGACA
* *
143668 AGTGACAAGTGATAAGTGGTAGCTTTAGCTATACTTATCTGATCAGGGACA
1 AGTGACAAGTGATAAGTGGCAGCTTTAGCTACACTTATCTGATCAGGGACA
143719 AGTGACAAGTGAT
1 AGTGACAAGTGAT
143732 TAATGTGATC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGCAGCTTTAGCTACACTTATCTGATCAGGGACA
Found at i:145179 original size:43 final size:42
Alignment explanation
Indices: 145113--145269 Score: 145
Period size: 43 Copynumber: 3.7 Consensus size: 42
145103 AGTTTGTACA
* * **
145113 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAAACAAGGTCTTACATGTAATCAAAT-ACG
* * *
145156 ATGCCACTGTCCCAAACAAGGTCTTACACGTAATCATATACG
1 ATGCCAATGTCCCAAACAAGGTCTTACATGTAATCAAATACG
* * *
145198 ATGCCAATGTCCCAGACATGGTCTTACATCTAAATCTTAAAT-CG
1 ATGCCAATGTCCCAAACAAGGTCTTACATGT-AATC--AAATACG
* * **
145242 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAAACAAGGTCTTACA
145270 CAAAATCATA
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 29 0.30
43 36 0.38
44 28 0.29
45 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACAAGGTCTTACATGTAATCAAATACG
Found at i:145277 original size:86 final size:84
Alignment explanation
Indices: 145113--145281 Score: 207
Period size: 86 Copynumber: 2.0 Consensus size: 84
145103 AGTTTGTACA
* *
145113 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACGATGCCACTGTCCCAAACAAGGT
1 ATGCCAACGTCCCAGACATGGTCTTACATCTAATCAAAT-ACGATGCCACTGTCCCAAACAAGGT
**
145178 CTTACACGTAATCATATACG
65 CTTACACAAAATCATATACG
* * **
145198 ATGCCAATGTCCCAGACATGGTCTTACATCTAAATCTTAAAT-CGATGCCAAC-GTCCCAGACGT
1 ATGCCAACGTCCCAGACATGGTCTTACATCT-AATC--AAATACGATGCC-ACTGTCCCAAACAA
145261 GGTCTTACACAAAATCATATA
62 GGTCTTACACAAAATCATATA
145282 TCAGAATCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
85 28 0.39
86 38 0.53
87 2 0.03
88 4 0.06
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACATCTAATCAAATACGATGCCACTGTCCCAAACAAGGTC
TTACACAAAATCATATACG
Found at i:145915 original size:15 final size:13
Alignment explanation
Indices: 145887--145913 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
145877 TACAAACGAT
145887 AAAATTTTCACAC
1 AAAATTTTCACAC
145900 AAAATTTTCACAC
1 AAAATTTTCACAC
145913 A
1 A
145914 CACAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:156678 original size:125 final size:125
Alignment explanation
Indices: 156456--156868 Score: 646
Period size: 125 Copynumber: 3.3 Consensus size: 125
156446 TTTTATTAAG
* * *
156456 GAAATCGCTCCCACGTGGACTCGTTTTTGATATAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTATAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* * * * *
156521 GTTTTTGAGCAAAGAGTATAAAAAACGCTTCAAGCAGGATGTTTTATAAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* *
156581 GAAATCGCTCCCATGTGGACGCGCTTTTGCTATAATAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTATAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
156646 GTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGTAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* * *
156706 GAAATCGCTCCCACGTGGACGTGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTATAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
156771 GTTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAGGGTGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* * *
156831 GAAATCGCTCTCACGTGGACGTGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTATAGTAG
156869 CATGTTTGGG
Statistics
Matches: 266, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 266 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTATAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
Found at i:158339 original size:18 final size:18
Alignment explanation
Indices: 158313--158355 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
158303 GACTAGAAAA
* * *
158313 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
158331 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
158349 AGGATAC
1 AGGATAC
158356 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:159805 original size:122 final size:122
Alignment explanation
Indices: 159588--159831 Score: 488
Period size: 122 Copynumber: 2.0 Consensus size: 122
159578 ATCTCGATCC
159588 GACCTCCGTTAATTTTCTCCGGAATAGAGCCCAAAAGCTCGTAGCACATTGCTCCCCAATCGCCA
1 GACCTCCGTTAATTTTCTCCGGAATAGAGCCCAAAAGCTCGTAGCACATTGCTCCCCAATCGCCA
159653 GATTGAACATACCCGGTGACTGGTACCCGTCCACCAATAATCCCAATTGCAGATTGA
66 GATTGAACATACCCGGTGACTGGTACCCGTCCACCAATAATCCCAATTGCAGATTGA
159710 GACCTCCGTTAATTTTCTCCGGAATAGAGCCCAAAAGCTCGTAGCACATTGCTCCCCAATCGCCA
1 GACCTCCGTTAATTTTCTCCGGAATAGAGCCCAAAAGCTCGTAGCACATTGCTCCCCAATCGCCA
159775 GATTGAACATACCCGGTGACTGGTACCCGTCCACCAATAATCCCAATTGCAGATTGA
66 GATTGAACATACCCGGTGACTGGTACCCGTCCACCAATAATCCCAATTGCAGATTGA
159832 CATCTTCCAA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (122 bp):
GACCTCCGTTAATTTTCTCCGGAATAGAGCCCAAAAGCTCGTAGCACATTGCTCCCCAATCGCCA
GATTGAACATACCCGGTGACTGGTACCCGTCCACCAATAATCCCAATTGCAGATTGA
Found at i:160314 original size:11 final size:11
Alignment explanation
Indices: 160300--160397 Score: 71
Period size: 11 Copynumber: 9.3 Consensus size: 11
160290 GAGAAATTTA
160300 AGAGGAAATTG
1 AGAGGAAATTG
*
160311 AGAGCAAATTG
1 AGAGGAAATTG
**
160322 AGATTAAA-T-
1 AGAGGAAATTG
* *
160331 A-TGG-ATTTG
1 AGAGGAAATTG
160340 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
160351 AAAGGAAATTG
1 AGAGGAAATTG
* *
160362 AGAGCAATTTG
1 AGAGGAAATTG
160373 AGAGGAAATTG
1 AGAGGAAATTG
*
160384 AAAGGAAATTG
1 AGAGGAAATTG
160395 AGA
1 AGA
160398 AAGGATTAAT
Statistics
Matches: 64, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 2 0.03
11 53 0.83
12 4 0.06
ACGTcount: A:0.46, C:0.02, G:0.29, T:0.23
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:160375 original size:33 final size:33
Alignment explanation
Indices: 160335--160397 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
160325 TTAAATATGG
160335 ATTTGAGA-GAAATTTGAAAGGAAATTGAGAGCA
1 ATTTGAGAGGAAA-TTGAAAGGAAATTGAGAGCA
160368 ATTTGAGAGGAAATTGAAAGGAAATTGAGA
1 ATTTGAGAGGAAATTGAAAGGAAATTGAGA
160398 AAGGATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.29, T:0.24
Consensus pattern (33 bp):
ATTTGAGAGGAAATTGAAAGGAAATTGAGAGCA
Found at i:166704 original size:31 final size:30
Alignment explanation
Indices: 166635--166707 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
166625 AGATGATAAT
* *
166635 GTTAAATGA-TAAAATTGAAAATTTTTATA
1 GTTAAATGATTAAAATTAAAAATTTTTACA
* *
166664 ATTTAATGATTAAAA-TAAAAATATGTTTACA
1 GTTAAATGATTAAAATTAAAAAT-T-TTTACA
166695 GTTAAATGATTAA
1 GTTAAATGATTAA
166708 TTATATAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 13 0.37
30 6 0.17
31 16 0.46
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (30 bp):
GTTAAATGATTAAAATTAAAAATTTTTACA
Found at i:183616 original size:24 final size:24
Alignment explanation
Indices: 183584--183636 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
183574 AAATCTAGAA
183584 TGTCTAGCCCTTTGGGACGAACTG
1 TGTCTAGCCCTTTGGGACGAACTG
183608 TGTCTAGCCCTTTGGGACGAACTG
1 TGTCTAGCCCTTTGGGACGAACTG
183632 TGTCT
1 TGTCT
183637 GTAGATAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.32
Consensus pattern (24 bp):
TGTCTAGCCCTTTGGGACGAACTG
Found at i:188425 original size:17 final size:17
Alignment explanation
Indices: 188403--188436 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
188393 TCACTTAGTG
188403 GTAATCCTTCATAGTAA
1 GTAATCCTTCATAGTAA
188420 GTAATCCTTCATAGTAA
1 GTAATCCTTCATAGTAA
188437 TTGAATACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
GTAATCCTTCATAGTAA
Found at i:188501 original size:14 final size:15
Alignment explanation
Indices: 188477--188518 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
188467 ACTTTGTGTG
*
188477 AGCTATTTTTTT-AT
1 AGCTTTTTTTTTCAT
*
188491 GGCTTTTTTTTTCAT
1 AGCTTTTTTTTTCAT
*
188506 AGCTTCTTTTTTC
1 AGCTTTTTTTTTC
188519 TTTAGAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.12, C:0.14, G:0.10, T:0.64
Consensus pattern (15 bp):
AGCTTTTTTTTTCAT
Found at i:195133 original size:13 final size:13
Alignment explanation
Indices: 195115--195165 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
195105 TTTTTATATT
195115 TTTATTCATTTTC
1 TTTATTCATTTTC
*
195128 TTTATTCA-TTTA
1 TTTATTCATTTTC
195140 TTTATTTACATTTTC
1 TTTA-TT-CATTTTC
*
195155 ATTATT-ATTTT
1 TTTATTCATTTT
195166 GAGAGAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 12 0.38
13 10 0.31
14 4 0.12
15 6 0.19
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTCATTTTC
Found at i:195538 original size:74 final size:74
Alignment explanation
Indices: 195460--195603 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 74
195450 TCTTTTTAAA
** *
195460 CTCAAGTTTTAAACGATCTCGGGAATCAAGAAGAGATCATGTCCTAACTTACTGGACATGATCCC
1 CTCAAGTTTTAAACGATCTCAAGAATCAAGAAAAGATCATGTCCTAACTTACTGGACATGATCCC
195525 TTTTTTTTT
66 TTTTTTTTT
* ** * *
195534 CTCAAGTTTTAAACGATCTCAAGAATTAAGAAAAGATTGTGTCTTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCAAGAATCAAGAAAAGATCATGTCCTAACTTACTGGACATGATCCC
195599 TTTTT
66 TTTTT
195604 CAAATCCGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (74 bp):
CTCAAGTTTTAAACGATCTCAAGAATCAAGAAAAGATCATGTCCTAACTTACTGGACATGATCCC
TTTTTTTTT
Found at i:204595 original size:4 final size:4
Alignment explanation
Indices: 204586--204612 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
204576 TACTGTCGCT
204586 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
204613 TAACTTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:205271 original size:29 final size:30
Alignment explanation
Indices: 205229--205289 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
205219 TTAACAACCC
**
205229 AGTGACTTAAATAAAAACTTTTGCATAGTTT
1 AGTGACTT-AATAAAAACTTTTAAATAGTTT
205260 AGTGACTT-ATAAAAACTTTTAAATAGTTT
1 AGTGACTTAATAAAAACTTTTAAATAGTTT
205289 A
1 A
205290 ATAACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.71
31 8 0.29
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (30 bp):
AGTGACTTAATAAAAACTTTTAAATAGTTT
Found at i:205815 original size:3 final size:3
Alignment explanation
Indices: 205809--205889 Score: 153
Period size: 3 Copynumber: 26.7 Consensus size: 3
205799 AAGAAGACAG
205809 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
205855 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
205890 GTTCTATAAT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 74 0.96
4 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:206614 original size:27 final size:28
Alignment explanation
Indices: 206554--206628 Score: 118
Period size: 27 Copynumber: 2.7 Consensus size: 28
206544 AAAAATAAAA
206554 ATTTACCAAAATAT-TACAACTTTTTTTTT
1 ATTTACCAAAATATATA-AAC-TTTTTTTT
206583 ATTTACCAAAATATATAAAC-TTTTTTT
1 ATTTACCAAAATATATAAACTTTTTTTT
206610 ATTTACCAAAATATATAAA
1 ATTTACCAAAATATATAAA
206629 AAAAACCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
27 26 0.58
29 17 0.38
30 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTTACCAAAATATATAAACTTTTTTTT
Found at i:206724 original size:27 final size:27
Alignment explanation
Indices: 206685--206760 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
206675 TACTGGTCAC
*
206685 GCCAATGGAATTGGCGGCACCAATGGT
1 GCCAATGCAATTGGCGGCACCAATGGT
*
206712 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATGCAATTGGCGGCACCAATGGT
*
206739 GCC-ATACTAATTGGCGGCACCA
1 GCCAATGC-AATTGGCGGCACCA
206761 CTCGTATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.18
Consensus pattern (27 bp):
GCCAATGCAATTGGCGGCACCAATGGT
Found at i:206922 original size:19 final size:21
Alignment explanation
Indices: 206884--206922 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
206874 ACTAATTGAT
*
206884 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
206905 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
206923 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:206986 original size:3 final size:3
Alignment explanation
Indices: 206968--207002 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
206958 AAAATAAAAG
*
206968 TAT TAGT TAG TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
207003 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:212253 original size:19 final size:19
Alignment explanation
Indices: 212218--212255 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
212208 TTTAAACACG
212218 CAAATATTACAAAAAAATT
1 CAAATATTACAAAAAAATT
*
212237 CAAAT-TTATAAATAAAATT
1 CAAATATTACAAA-AAAATT
212256 ACATTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
CAAATATTACAAAAAAATT
Found at i:212312 original size:12 final size:12
Alignment explanation
Indices: 212297--212447 Score: 92
Period size: 12 Copynumber: 13.0 Consensus size: 12
212287 CTCTTCCTCT
212297 TCTTCTTCTTTC
1 TCTTCTTCTTTC
*
212309 TCTTCTCCTTTC
1 TCTTCTTCTTTC
*
212321 -CCT-TTCTTTC
1 TCTTCTTCTTTC
212331 -CTTCTTTCTTTC
1 TCTTC-TTCTTTC
*
212343 T-TTTTTC-TTC
1 TCTTCTTCTTTC
*
212353 TCTTCTCCTTT-
1 TCTTCTTCTTTC
*
212364 TCTCCTTCTTTC
1 TCTTCTTCTTTC
*
212376 T-TTCCTTTTTTC
1 TCTT-CTTCTTTC
*
212388 TCTTCTCCTTTC
1 TCTTCTTCTTTC
212400 -CTT-TTCTTTC
1 TCTTCTTCTTTC
212410 T-TTCCTCTCCTTTC
1 TCTT-CT-T-CTTTC
212424 T-TTCTTTCTTTC
1 TCTTC-TTCTTTC
212436 T-TTCTTTCTTTC
1 TCTTC-TTCTTTC
212448 CCTCCTTTTG
Statistics
Matches: 111, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
10 20 0.18
11 22 0.20
12 55 0.50
13 5 0.05
14 9 0.08
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (12 bp):
TCTTCTTCTTTC
Found at i:212327 original size:22 final size:21
Alignment explanation
Indices: 212302--212436 Score: 85
Period size: 22 Copynumber: 6.6 Consensus size: 21
212292 CCTCTTCTTC
212302 TTCTTTCTCTTCTCCTTTCCCT
1 TTCTTTCTCTTCTCCTTT-CCT
* *
212324 TTCTTTC-CTTCTTTCTTTCTT
1 TTCTTTCTCTTC-TCCTTTCCT
* *
212345 TTTTCTTCTCTTCTCCTTTTCTCC
1 TTCT-TTCTCTTCTCC-TTTC-CT
212369 TTC-TT-TCTT-TCCTTT--T
1 TTCTTTCTCTTCTCCTTTCCT
*
212385 TTCTCTTCTCCTT-TCCTTTTCT
1 TTCT-TTCT-CTTCTCCTTTCCT
212407 TTCTTTC-C-TCTCCTTT-CT
1 TTCTTTCTCTTCTCCTTTCCT
212425 TTCTTTCT-TTCT
1 TTCTTTCTCTTCT
212437 TTCTTTCTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 31
0.70 0.06 0.24
Matches are distributed among these distances:
16 3 0.03
18 12 0.13
19 14 0.15
20 12 0.13
21 16 0.18
22 24 0.26
23 8 0.09
24 2 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (21 bp):
TTCTTTCTCTTCTCCTTTCCT
Found at i:212339 original size:4 final size:4
Alignment explanation
Indices: 212322--212447 Score: 98
Period size: 4 Copynumber: 30.2 Consensus size: 4
212312 TCTCCTTTCC
* * *
212322 CTTT CTTT CCTT CTTT CTTT CTTT -TTT CTTCT CTTCT CCTTT -TCT CCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CTT-T -CTTT CTTT CTTT
* *
212371 CTTT CTTT CCTTT -TTT CTCTT C-TC CTTT CCTTTT CTTT CTTT CCTCTC
1 CTTT CTTT -CTTT CTTT CT-TT CTTT CTTT -C-TTT CTTT CTTT -CT-TT
212419 CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
212448 CCTCCTTTTG
Statistics
Matches: 100, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
3 10 0.10
4 63 0.63
5 20 0.20
6 7 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (4 bp):
CTTT
Found at i:212370 original size:37 final size:35
Alignment explanation
Indices: 212329--212415 Score: 122
Period size: 35 Copynumber: 2.5 Consensus size: 35
212319 TCCCTTTCTT
* *
212329 TCCTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTTC
1 TCCTTCTTTCTTTC-CTTTT-TTCTCTTCTCCTTTCC
212366 TCCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCC
1 TCCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCC
*
212401 T-TTTCTTTCTTTCCT
1 TCCTTCTTTCTTTCCT
212416 CTCCTTTCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
34 13 0.28
35 16 0.34
36 4 0.09
37 14 0.30
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (35 bp):
TCCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCC
Found at i:212412 original size:34 final size:33
Alignment explanation
Indices: 212332--212448 Score: 112
Period size: 34 Copynumber: 3.4 Consensus size: 33
212322 CTTTCTTTCC
* *
212332 TTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTTCTCC
1 TTCTTTCTTTC-CTTTT-TTCTCTTCTCC-TTTCT-T
212369 TTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCTT
1 TTCTTTCTTTCCTTTTTTCTCTTCTCCTTT-CTT
* *
212403 TTCTTTCTTTCCTCTCCTTTCT-TTCTTTCTTTC-T
1 TTCTTTCTTTCCT-T-TTTTCTCTTC-TCCTTTCTT
212437 TTCTTTCTTTCC
1 TTCTTTCTTTCC
212449 CTCCTTTTGC
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
34 29 0.40
35 18 0.25
36 14 0.19
37 11 0.15
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (33 bp):
TTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCTT
Found at i:212629 original size:28 final size:28
Alignment explanation
Indices: 212589--212644 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
212579 TTTTTTTTGG
212589 TTTTTTTGATATATTTTGGTAAATAAAA
1 TTTTTTTGATATATTTTGGTAAATAAAA
*
212617 TTTTTTTTATATATTTTGGTAAATAAAA
1 TTTTTTTGATATATTTTGGTAAATAAAA
212645 AAAATTGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (28 bp):
TTTTTTTGATATATTTTGGTAAATAAAA
Found at i:212665 original size:27 final size:28
Alignment explanation
Indices: 212597--212667 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
212587 GGTTTTTTTG
**** *
212597 ATATATTTTGGTAAATAAAATTTTTTTT
1 ATATATTTTGGTAAATAAAAAAAATTGT
212625 ATATATTTTGGTAAATAAAAAAAATTGT
1 ATATATTTTGGTAAATAAAAAAAATTGT
212653 A-ATATTTTGGTAAAT
1 ATATATTTTGGTAAAT
212668 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 14 0.37
28 24 0.63
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAATTGT
Found at i:213091 original size:4 final size:4
Alignment explanation
Indices: 213074--213164 Score: 66
Period size: 4 Copynumber: 22.2 Consensus size: 4
213064 TCACCTTTCC
*
213074 CTTT CTTT CCTT CTTT CTTT CTTT -TTT CTTCT CTTCT CCTTT C-TT C-TT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CTT-T -CTTT CTTT CTTT
*
213122 CTTT CTTT CATTT -TTT CTCTT C-TC CTTT CCTTTT CTTT CTTT C
1 CTTT CTTT C-TTT CTTT CT-TT CTTT CTTT -C-TTT CTTT CTTT C
213165 CCTCCTTCTG
Statistics
Matches: 73, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
3 14 0.19
4 38 0.52
5 15 0.21
6 6 0.08
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:213115 original size:44 final size:41
Alignment explanation
Indices: 213042--213165 Score: 125
Period size: 40 Copynumber: 3.0 Consensus size: 41
213032 TTTCTTCCCT
*
213042 CTTC-TTCTTCTTTTTT-TTCTCTTCACCTTTCCCTTTCTTTC
1 CTTCTTTCTTCTTTTTTCTTCTCTTCTCCTTT--CTTTCTTTC
213083 CTTCTTTCTTTCTTTTTTCTTCTCTTCTCCTTTC-TTC-TTC
1 CTTCTTTC-TTCTTTTTTCTTCTCTTCTCCTTTCTTTCTTTC
* *
213123 TTTCTTTCATT-TTTTCTCTTCTCCTT-TCCTTTTCTTTCTTTC
1 CTTCTTTC-TTCTTTTTTCTTCT-CTTCTCC-TTTCTTTCTTTC
213165 C
1 C
213166 CTCCTTCTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
39 13 0.18
40 19 0.27
41 10 0.14
42 7 0.10
43 9 0.13
44 13 0.18
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (41 bp):
CTTCTTTCTTCTTTTTTCTTCTCTTCTCCTTTCTTTCTTTC
Found at i:213164 original size:34 final size:36
Alignment explanation
Indices: 213073--213164 Score: 127
Period size: 34 Copynumber: 2.6 Consensus size: 36
213063 TTCACCTTTC
*
213073 CCTTTCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTCT
1 CCTTTC-TT-CTTCTTTCTTTCTATTTTCTTCTCTTCT
213111 CCTTTCTTCTTCTTTCTTTC-ATTTT-TTCTCTTCT
1 CCTTTCTTCTTCTTTCTTTCTATTTTCTTCTCTTCT
213145 CCTTTCCTT-TTCTTTCTTTC
1 CCTTT-CTTCTTCTTTCTTTC
213165 CCTCCTTCTG
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
34 25 0.48
35 7 0.13
36 12 0.23
37 2 0.04
38 6 0.12
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (36 bp):
CCTTTCTTCTTCTTTCTTTCTATTTTCTTCTCTTCT
Found at i:213243 original size:27 final size:27
Alignment explanation
Indices: 213205--213280 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
213195 TAATACCAAC
213205 TGGTGCCGCCAATGGCATTGGCACCCT
1 TGGTGCCGCCAATGGCATTGGCACCCT
** *
213232 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCCT
**
213259 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
213281 TTGATCAGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.14, C:0.30, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCCT
Found at i:213401 original size:27 final size:28
Alignment explanation
Indices: 213341--213411 Score: 110
Period size: 27 Copynumber: 2.6 Consensus size: 28
213331 TGGTTTTTTG
*
213341 ATATATTGTGGTAAATAAAAAAAAGTTT
1 ATATATTTTGGTAAATAAAAAAAAGTTT
213369 ATATATTTTGGTAAAT-AAAAAAAGTTGT
1 ATATATTTTGGTAAATAAAAAAAAGTT-T
213397 A-ATATTTTGGTAAAT
1 ATATATTTTGGTAAAT
213412 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.39
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAAGTTT
Found at i:217833 original size:20 final size:20
Alignment explanation
Indices: 217808--217848 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
217798 GATCGTTCCT
217808 TAGTACAGCTAGTACTAAAA
1 TAGTACAGCTAGTACTAAAA
217828 TAGTACAGCTAGTACTAAAA
1 TAGTACAGCTAGTACTAAAA
217848 T
1 T
217849 CGAAGTTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (20 bp):
TAGTACAGCTAGTACTAAAA
Found at i:221075 original size:13 final size:13
Alignment explanation
Indices: 221057--221128 Score: 66
Period size: 13 Copynumber: 5.7 Consensus size: 13
221047 TTATTTTTGT
221057 TTTATTATTATTA
1 TTTATTATTATTA
221070 TTTATTATT-TTA
1 TTTATTATTATTA
221082 TTTACTTTATTTATTA
1 TTTA--TTA-TTATTA
221098 CTTTATT-TTA-T-
1 -TTTATTATTATTA
221109 TTTATTA-T-TTA
1 TTTATTATTATTA
221120 TTTATTATT
1 TTTATTATT
221129 TGGATATTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 19
0.72 0.00 0.28
Matches are distributed among these distances:
10 8 0.16
11 7 0.14
12 9 0.18
13 12 0.24
14 3 0.06
15 4 0.08
16 3 0.06
17 4 0.08
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:221082 original size:21 final size:22
Alignment explanation
Indices: 221047--221129 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 22
221037 AACCCAATTT
*
221047 TTATTT-TTGTTTTA-TTATTA
1 TTATTTATTATTTTATTTATTA
*
221067 TTATTTATTATTTTATTTACT-
1 TTATTTATTATTTTATTTATTA
*
221088 TTATTTATTACTTTATTTTATTTTA
1 TTATTTATTATTTTA-TTTA--TTA
*
221113 TTATTTATT-TATTATTT
1 TTATTTATTATTTTATTT
221130 GGATATTAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 6 0.12
21 21 0.41
22 8 0.16
23 3 0.06
24 4 0.08
25 9 0.18
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.73
Consensus pattern (22 bp):
TTATTTATTATTTTATTTATTA
Found at i:221085 original size:4 final size:4
Alignment explanation
Indices: 221067--221129 Score: 53
Period size: 4 Copynumber: 15.5 Consensus size: 4
221057 TTTATTATTA
221067 TTAT TTA- TTATT TTAT TTACT TTAT TTA- TTACT TTATT TTAT TT-T
1 TTAT TTAT TTA-T TTAT TTA-T TTAT TTAT TTA-T TTA-T TTAT TTAT
221112 ATTAT TTAT TTA- TTAT TT
1 -TTAT TTAT TTAT TTAT TT
221130 GGATATTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
3 10 0.20
4 25 0.50
5 15 0.30
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:221317 original size:22 final size:22
Alignment explanation
Indices: 221292--221334 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
221282 CCAAACTACT
* *
221292 TTATTCCTGCAGCCAACCACCC
1 TTATCCCTGCACCCAACCACCC
*
221314 TTATCCCTGCACCCAAGCACC
1 TTATCCCTGCACCCAACCACC
221335 ACCCCTCAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.47, G:0.09, T:0.21
Consensus pattern (22 bp):
TTATCCCTGCACCCAACCACCC
Found at i:222462 original size:101 final size:101
Alignment explanation
Indices: 222273--222466 Score: 273
Period size: 101 Copynumber: 1.9 Consensus size: 101
222263 AAGAACATGT
* * * *
222273 TGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGATGTG
1 TGGGCTGAGTAACCGGGATGAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCGATATG
* *
222338 TTCTTAAGAAAAAAATATAATAAATTAGGAGTCTAC
66 TCCTAAAGAAAAAAATATAATAAATTAGGAGTCTAC
*
222374 TGGGCTGAGTAACCGGGATGGGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCAGTATA
1 TGGGCTGAGTAACCGGGATGAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTC-G-ATA
222439 T-TCCTAAAGCATAAAAAATATAAATAAA
64 TGTCCTAAAG-A-AAAAAATAT-AATAAA
222467 AAAAATCAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
101 55 0.68
102 7 0.09
103 4 0.05
104 9 0.11
105 6 0.07
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (101 bp):
TGGGCTGAGTAACCGGGATGAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCGATATG
TCCTAAAGAAAAAAATATAATAAATTAGGAGTCTAC
Found at i:223997 original size:20 final size:20
Alignment explanation
Indices: 223974--224027 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
223964 ATATTATATG
223974 TTTATATTTTAT-TTTCAATA
1 TTTATATTTTATGTTT-AATA
* *
223994 TTTAGATTTAATGTTTAATA
1 TTTATATTTTATGTTTAATA
224014 -TTATATTTT-TGTTT
1 TTTATATTTTATGTTT
224028 GTAAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.17
19 7 0.24
20 14 0.48
21 3 0.10
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTATATTTTATGTTTAATA
Found at i:224895 original size:18 final size:17
Alignment explanation
Indices: 224863--224897 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
224853 TGCATAAATT
*
224863 AAATACAAAGAAATAAA
1 AAATAAAAAGAAATAAA
224880 AAATAAAAATGAAATAAA
1 AAATAAAAA-GAAATAAA
224898 TACACATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (17 bp):
AAATAAAAAGAAATAAA
Found at i:226474 original size:39 final size:39
Alignment explanation
Indices: 226428--227025 Score: 918
Period size: 39 Copynumber: 15.3 Consensus size: 39
226418 CGTATTCATT
* * * *
226428 TTTAAGCATATATCATATTACACATATAATCACCTAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
*
226467 TTCAAGCATATATCACAATACT-CATATAATCACATAACA
1 TTTAAGCATATATCACAATA-TACATATAATCACATAACA
*
226506 TTTAAGCATATATAACAATATACATATAATCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
* *
226545 TTTAAGCATATCTCAAAATATACATATAATCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
*
226584 TTTAAGCATATGTCACAATACT-CATATAATCACATAACA
1 TTTAAGCATATATCACAATA-TACATATAATCACATAACA
* *
226623 TTTAAGCATATATCACAATATCCATATAATCACATAATA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
* *
226662 TTTAAACATATATCACAATACT-CGTATAATCACATAACA
1 TTTAAGCATATATCACAATA-TACATATAATCACATAACA
*
226701 TTTAAGCATATATCACAATATACATATAATCACATAATA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
* * **
226740 TTTAAACATATATCATAATACT-TGTATAATCACATAACA
1 TTTAAGCATATATCACAATA-TACATATAATCACATAACA
*
226779 TTCAAGCATATATCACAATATACATATAATCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
226818 TTTAAGCATATATCACAATATACATATAATCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
226857 TTTAAGCATATATCACAATATACATATAATCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
* *
226896 TTTAAGCATATATCACAATACT-CATATAACCATATAACA
1 TTTAAGCATATATCACAATA-TACATATAATCACATAACA
*
226935 TTTAAACATATATCACAATATACATATAATCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
226974 TTTAAGCATATATCACAATATACATATAATCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
227013 TTTAAGCATATAT
1 TTTAAGCATATAT
227026 TGTAATACTC
Statistics
Matches: 512, Mismatches: 37, Indels: 20
0.90 0.07 0.04
Matches are distributed among these distances:
38 5 0.01
39 503 0.98
40 4 0.01
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATATACATATAATCACATAACA
Found at i:241010 original size:42 final size:40
Alignment explanation
Indices: 240890--241156 Score: 291
Period size: 41 Copynumber: 6.4 Consensus size: 40
240880 TCTTTGAATG
* * * * *
240890 TAAGGGGTTGCTAAGTGCAGATTTCGCGAATCATTGATCAA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TA
* * *
240931 AAAGGGGTTCCTATGTGCTGATTCCCCGTATCATTGATTA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * * *
240971 TAAGGTGGTTTCTAAGTGTTGATTCCACCGTATCCTTGATTG
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
*
241013 TGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* *
241055 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTG
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
* *
241097 TGAAAGGGGTTCCTATGTGCTGATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
241139 TAAGGTGGTTGCTAAGTG
1 TAAGG-GGTTGCTAAGTG
241157 NNNNNNNNNN
Statistics
Matches: 189, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
40 13 0.07
41 77 0.41
42 56 0.30
43 35 0.19
44 8 0.04
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (40 bp):
TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
Found at i:241029 original size:84 final size:84
Alignment explanation
Indices: 240931--241156 Score: 425
Period size: 84 Copynumber: 2.7 Consensus size: 84
240921 CATTGATCAA
* *
240931 AAAGGGGTTCCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTTCTAAGTGTTGATTC
1 AAAGGGGTTCCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
240996 CACCGTATCCTTGATTGTG
66 CACCGTATCCTTGATTGTG
*
241015 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTCCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
241080 CACCGTATCCTTGATTGTG
66 CACCGTATCCTTGATTGTG
241099 AAAGGGGTTCCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTG
1 AAAGGGGTTCCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTG
241157 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 138 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (84 bp):
AAAGGGGTTCCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
CACCGTATCCTTGATTGTG
Found at i:246145 original size:43 final size:44
Alignment explanation
Indices: 246081--246434 Score: 372
Period size: 43 Copynumber: 8.3 Consensus size: 44
246071 TTTTAGAAAT
* *
246081 AAACGCCGCTAAAG-GTCATGACCTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCCAC
*
246124 AAACGCCGCTAAAGACT-ATGACCTTTAGCGGC-CCTTTCCCAC
1 AAACGCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
246166 AATCGCCGCTAAAGA-TGATGACTTTTAGCGGCGC-TTTCCCAC
1 AAACGCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCCAC
*
246208 AAACGCCGCTAAAGACT-ATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCCAC
*
246251 AAACGCCGCTAAAGAC-CATGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
246294 AAACGCCGCTATAGA-TCAAGACCGTTAGCGGCACTTTTCTCAC
1 AAACGCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * ***
246337 AAACGCCACTATAGA-TCAAGGCCTTTAGCGGCGCTTTTTGTAC
1 AAACGCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * ** *
246380 AAATGCCGCTATAGGA--CA-GACCTTTAGTGTCGCTTTTAACAG
1 AAACGCCGCTA-AAGACTCATGACCTTTAGCGGCGCTTTTCCCAC
246422 AAACGCCGCTAAA
1 AAACGCCGCTAAA
246435 AACATATATT
Statistics
Matches: 267, Mismatches: 36, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.01
42 101 0.38
43 161 0.60
44 3 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (44 bp):
AAACGCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:246382 original size:86 final size:86
Alignment explanation
Indices: 246081--246374 Score: 414
Period size: 86 Copynumber: 3.4 Consensus size: 86
246071 TTTTAGAAAT
* *
246081 AAACGCCGCTAAAGGTCATGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGACTATGAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACTATGAC
*
246146 CTTTAGCGGC-CCTTTCCCAC
66 CTTTAGCGGCACTTTTCCCAC
* * *
246166 AATCGCCGCTAAAGATGATGACTTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGACTATGAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACTATGAC
246230 CTTTAGCGGCACTTTTCCCAC
66 CTTTAGCGGCACTTTTCCCAC
* * * *
246251 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGA-TCAAGA
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACT-ATGA
* *
246315 CCGTTAGCGGCACTTTTCTCAC
65 CCTTTAGCGGCACTTTTCCCAC
* * * *
246337 AAACGCCACTATAGATCAAGGCCTTTAGCGGCGCTTTT
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTT
246375 TGTACAAATG
Statistics
Matches: 186, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
84 40 0.22
85 69 0.37
86 77 0.41
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (86 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACTATGAC
CTTTAGCGGCACTTTTCCCAC
Found at i:246672 original size:43 final size:42
Alignment explanation
Indices: 246624--246711 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 42
246614 TATGCAAGGC
* *
246624 AATAAAACATACAATGCATTT-TCTTAATCAAGTAAATCTTGGT
1 AATAAAACATACAATACATTTAT-TTAATCAAGGAAATCTT-GT
* *
246667 AATAAAATATATAATACATTTATTTAATCAAGGAAATCTTGT
1 AATAAAACATACAATACATTTATTTAATCAAGGAAATCTTGT
246709 AAT
1 AAT
246712 GAACTCAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 5 0.12
43 34 0.85
44 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (42 bp):
AATAAAACATACAATACATTTATTTAATCAAGGAAATCTTGT
Found at i:250937 original size:14 final size:14
Alignment explanation
Indices: 250880--250939 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 14
250870 CCCTAAACCT
250880 TAACGTCTAACCCC
1 TAACGTCTAACCCC
*
250894 TAA-ATCCTTAAACCCC
1 TAACGT-C-T-AACCCC
*
250910 TAACGTTTAA-CCC
1 TAACGTCTAACCCC
*
250923 TAATGTCTAACCCC
1 TAACGTCTAACCCC
250937 TAA
1 TAA
250940 ACCTTAATCC
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
13 12 0.33
14 12 0.33
15 2 0.06
16 9 0.25
17 1 0.03
ACGTcount: A:0.33, C:0.35, G:0.05, T:0.27
Consensus pattern (14 bp):
TAACGTCTAACCCC
Found at i:250960 original size:20 final size:20
Alignment explanation
Indices: 250931--250970 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
250921 CCTAATGTCT
*
250931 AACCCCTAAACCTTAATCCC
1 AACCCCTAAACCATAATCCC
*
250951 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
250971 TAATTCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:251242 original size:22 final size:21
Alignment explanation
Indices: 251217--251315 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 21
251207 CCTCTAATGT
*
251217 CTAACCCTTAAACCCCTAACCC
1 CTAAACCTTAAACCCC-AACCC
*
251239 CTAAACCTTAAATCCCAACCC
1 CTAAACCTTAAACCCCAACCC
* * * * *
251260 TTAAACCATAATCCCTAATCC
1 CTAAACCTTAAACCCCAACCC
* * *
251281 ATAATCAC-TAAACCCCATACTCT
1 CTAAAC-CTTAAACCCCA-AC-CC
251304 CTAAACCTTAAA
1 CTAAACCTTAAA
251316 ATAGTAACTC
Statistics
Matches: 57, Mismatches: 16, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
21 31 0.54
22 17 0.30
23 9 0.16
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (21 bp):
CTAAACCTTAAACCCCAACCC
Found at i:251264 original size:21 final size:22
Alignment explanation
Indices: 251217--251277 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
251207 CCTCTAATGT
* *
251217 CTAACCCTTAAACCCCTAACCC
1 CTAAACCTTAAATCCCTAACCC
251239 CTAAACCTTAAATCCC-AACCC
1 CTAAACCTTAAATCCCTAACCC
* *
251260 TTAAACCAT-AATCCCTAA
1 CTAAACCTTAAATCCCTAA
251278 TCCATAATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.18
21 14 0.41
22 14 0.41
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (22 bp):
CTAAACCTTAAATCCCTAACCC
Found at i:251595 original size:21 final size:22
Alignment explanation
Indices: 251556--251608 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
251546 ATCTAACTCC
* *
251556 TAAACCCCTAACCCCTAAACCT
1 TAAATCCCTAACCCCTAAACCA
*
251578 TAAATCCC-AACCCTTAAACCA
1 TAAATCCCTAACCCCTAAACCA
251599 T-AATCCCTAA
1 TAAATCCCTAA
251609 ATTCATACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACCA
Done.