Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold389
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: 982648
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 7
Found at i:151712 original size:52 final size:52
Alignment explanation
Indices: 151634--151762 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
151624 CGAAATATGA
*
151634 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
151686 AAATTTGCCTACATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
151738 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
151763 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:151773 original size:52 final size:51
Alignment explanation
Indices: 151634--151780 Score: 215
Period size: 52 Copynumber: 2.8 Consensus size: 51
151624 CGAAATATGA
*
151634 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
151686 AAATTTGCCTACATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
151738 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATA
151781 TAATGTATCG
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:151875 original size:32 final size:33
Alignment explanation
Indices: 151834--151902 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
151824 GGCAGTAGCT
151834 TACATTGTATCGATACAAAAC-TTATGTACCGA
1 TACATTGTATCGATACAAAACTTTATGTACCGA
* *
151866 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTACCGA
151899 TACA
1 TACA
151903 AATCGTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTACCGA
Found at i:155683 original size:20 final size:20
Alignment explanation
Indices: 155658--155711 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
155648 GTTAGAAGCA
*
155658 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
155678 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
155698 ATGTATCGATACAA
1 ATGTATCGATACAA
155712 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:156216 original size:31 final size:31
Alignment explanation
Indices: 156181--156243 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
156171 ATGGCACAAG
156181 AATTGATGAAAACATGAGTCCTAAAAGACTA
1 AATTGATGAAAACATGAGTCCTAAAAGACTA
* *
156212 AATTGATGAATACATTAGTCCTAAAAGACTA
1 AATTGATGAAAACATGAGTCCTAAAAGACTA
156243 A
1 A
156244 CATGCTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (31 bp):
AATTGATGAAAACATGAGTCCTAAAAGACTA
Found at i:157352 original size:20 final size:20
Alignment explanation
Indices: 157327--157365 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
157317 ACAAAAACCT
*
157327 AAAATGTATCGATATATTGA
1 AAAATGTATCGATACATTGA
157347 AAAATGTATCGATACATTG
1 AAAATGTATCGATACATTG
157366 TATTGATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
AAAATGTATCGATACATTGA
Found at i:158306 original size:107 final size:113
Alignment explanation
Indices: 158074--158342 Score: 270
Period size: 107 Copynumber: 2.4 Consensus size: 113
158064 GTTTTATGAT
* * * * * *
158074 GTGCCAGTGTGTAGATTCAAGCCTTGCGACACTAGACTTAAACATGATAAGGATAAGAAAGGTGC
1 GTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAAACATGATAA-GATAAGAAAGGTGC
* *
158139 CAATGAGCTGATTCAAGGCCAACAACATTGGACTTGAAGATGAGAAGAA
65 CAATGAGCTGATTCAAGGCCAACAACATCGGACTTAAAGATGAGAAGAA
* * *
158188 -TGCCACTGTGTTGATTCAAGGCTAGCGACATTGGACTTAAACATGGT-A-AT-A-AAA-GTGCT
1 GTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAAACATGATAAGATAAGAAAGGTGCC
* * * *
158247 AAT-ATGCTGATTCAAGGCTAGCAATATCGGTCTTAAAGATGA-AA-AA
66 AATGA-GCTGATTCAAGGCCAACAACATCGGACTTAAAGATGAGAAGAA
* * *
158293 GGTGCCAATGTGTTAATTTAAGG-TCAGCGACATTGGACTTAAAGATGATA
1 -GTGCCAATGTGTTGATTCAAGGCT-AGCGACATTGGACTTAAACATGATA
158343 GGGGTGCCAA
Statistics
Matches: 131, Mismatches: 19, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
105 2 0.02
106 4 0.03
107 78 0.60
108 3 0.02
109 1 0.01
110 2 0.02
112 1 0.01
113 40 0.31
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (113 bp):
GTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAAACATGATAAGATAAGAAAGGTGCC
AATGAGCTGATTCAAGGCCAACAACATCGGACTTAAAGATGAGAAGAA
Found at i:158335 original size:52 final size:52
Alignment explanation
Indices: 158131--158385 Score: 210
Period size: 52 Copynumber: 4.8 Consensus size: 52
158121 TAAGGATAAG
* * * *
158131 AAAGGTGCCAATGAGCTGATTCAAGGCCAACAACATTGGACTTGAAGATGAGA
1 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATGA-A
* * * *
158184 AGAA--TGCCACTGTGTTGATTCAAGGCTAGCGACATTGGACTTAAACATGGTAA
1 A-AAGGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGAT-G-AA
* * * * * *
158237 TAAAAGTGCTAATATGCTGATTCAAGGCTAGCAATATCGGTCTTAAAGATGAA
1 -AAAGGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATGAA
* * * * *
158290 AAAGGTGCCAATGTGTTAATTTAAGG-TCAGCGACATTGGACTTAAAGATGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCT-AGCAACATTGGACTTAAAGATGAA
** * ** *
158342 AGGGGTGCCAATGTGCTGATTAAAGGCTAGTGACATTGGTCTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTA
158386 GAAAGAGATG
Statistics
Matches: 159, Mismatches: 35, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
51 1 0.01
52 110 0.69
53 8 0.05
54 5 0.03
55 35 0.22
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATGAA
Found at i:158501 original size:32 final size:32
Alignment explanation
Indices: 158452--158664 Score: 216
Period size: 32 Copynumber: 6.7 Consensus size: 32
158442 TAAAAGGAGA
* *
158452 TGCCACCGACTTATGTGGGCTTTTAAG-AGGGT
1 TGCCACCAACTTGTGTGGGC-TTTAAGAAGGGT
*
158484 TGCCACTAACTTGTGTGGGCTTT-AGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAAGAAGGGT
* * *
158515 TGCTATCAACTTTTGTGGGCTTTGAA-AAGGGT
1 TGCCACCAACTTGTGTGGGCTTT-AAGAAGGGT
* * * *
158547 TACCACCGATTTGTGTAGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAAGAAGGGT
* * * *
158579 TACCACCGACTTGTATGGGCTTTGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAAGAAGGGT
* * * *
158611 TGCCACCGACTTGTGTAGGCATTAAAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAAGAAGGGT
*
158643 TGCCACTAACTTGTGTGGGCTT
1 TGCCACCAACTTGTGTGGGCTT
158665 AAAAGGATGA
Statistics
Matches: 149, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
30 2 0.01
31 29 0.19
32 117 0.79
33 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTAAGAAGGGT
Found at i:158603 original size:64 final size:64
Alignment explanation
Indices: 158452--158664 Score: 248
Period size: 64 Copynumber: 3.3 Consensus size: 64
158442 TAAAAGGAGA
* * * * ** *
158452 TGCCACCGACTTATGTGGGCTTTTAAGAGGGTTGCCACTAACTTGTGTGGGCTTT-AGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTAGGCTTTAAGAAGGGT
* * * * *
158515 TGCTATCAACTTTTGTGGGCTTTGAAAAGGGTTACCACCGATTTGTGTAGGCTTTAAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTAGGCTTTAAGAAGGGT
* * * * * *
158579 TACCACCGACTTGTATGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTAGGCATTAAAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTAGGCTTTAAGAAGGGT
*
158643 TGCCACTAACTTGTGTGGGCTT
1 TGCCACCAACTTGTGTGGGCTT
158665 AAAAGGATGA
Statistics
Matches: 123, Mismatches: 26, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
63 44 0.36
64 79 0.64
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (64 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTAGGCTTTAAGAAGGGT
Found at i:158711 original size:31 final size:30
Alignment explanation
Indices: 158674--158762 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 30
158664 TAAAAGGATG
158674 AGGTGCCACAGAGTTATGGACTTTAAAAGAA
1 AGGTGCCACAGAGTTATGGACTTTAAAAG-A
** * *
158705 AGGTGCCATGGAGTTGTGGACTTT-GAAGA
1 AGGTGCCACAGAGTTATGGACTTTAAAAGA
* * *
158734 GGGATGCCACAGAGTCATGGGCTTTAAAA
1 AGG-TGCCACAGAGTTATGGACTTTAAAA
158763 AAGTTACTCT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 3 0.07
30 19 0.42
31 23 0.51
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.24
Consensus pattern (30 bp):
AGGTGCCACAGAGTTATGGACTTTAAAAGA
Found at i:159385 original size:28 final size:27
Alignment explanation
Indices: 159332--159390 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
159322 GACCATAGCC
* * *
159332 ATTGCAAGTTTCGTAATTCTATTAGGG
1 ATTGCAAGTTTCCTAATTCCACTAGGG
*
159359 ATTGCAATTTGTCCTAATTCCACTAGGG
1 ATTGCAAGTT-TCCTAATTCCACTAGGG
159387 ATTG
1 ATTG
159391 GCACTCTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTGCAAGTTTCCTAATTCCACTAGGG
Found at i:160343 original size:7 final size:7
Alignment explanation
Indices: 160333--160381 Score: 89
Period size: 7 Copynumber: 6.9 Consensus size: 7
160323 TTTTTGTTTT
160333 TTTTTAA
1 TTTTTAA
160340 TTTTTTAA
1 -TTTTTAA
160348 TTTTTAA
1 TTTTTAA
160355 TTTTTAA
1 TTTTTAA
160362 TTTTTAA
1 TTTTTAA
160369 TTTTTAA
1 TTTTTAA
160376 TTTTTA
1 TTTTTA
160382 TATATGAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
7 34 0.83
8 7 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTAA
Found at i:163515 original size:27 final size:26
Alignment explanation
Indices: 163481--163536 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
163471 TGCTGCTTAC
*
163481 TTTCTTTTTTTTTTTTGGCATTTTGCT
1 TTTCTTTTTCTTTTTTGGCATTTTG-T
163508 TTTCTTTTTCTTTTTTGGCATTTTGT
1 TTTCTTTTTCTTTTTTGGCATTTTGT
163534 TTT
1 TTT
163537 ATGAATGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.04, C:0.11, G:0.11, T:0.75
Consensus pattern (26 bp):
TTTCTTTTTCTTTTTTGGCATTTTGT
Found at i:164360 original size:17 final size:16
Alignment explanation
Indices: 164340--164401 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 16
164330 TAATTATCAC
*
164340 TATTATTATTTTATGTA
1 TATTATTATTTTAT-TT
* *
164357 TATTTTTTATTTTTTATT
1 TA-TTATTATTTTAT-TT
*
164375 TATTTTTATTTTTATTT
1 TATTATTA-TTTTATTT
164392 TATTATTATT
1 TATTATTATT
164402 ATTTTTCTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
16 2 0.05
17 17 0.46
18 18 0.49
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
TATTATTATTTTATTT
Found at i:164362 original size:11 final size:11
Alignment explanation
Indices: 164346--164395 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
164336 TCACTATTAT
*
164346 TATTTTATGTA
1 TATTTTATTTA
164357 TA-TTT-TTTA
1 TATTTTATTTA
*
164366 TTTTTTATTTA
1 TATTTTATTTA
*
164377 T-TTTTATTTT
1 TATTTTATTTA
164387 TATTTTATT
1 TATTTTATT
164396 ATTATTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 4 0.12
10 15 0.45
11 14 0.42
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (11 bp):
TATTTTATTTA
Found at i:164368 original size:18 final size:17
Alignment explanation
Indices: 164340--164387 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
164330 TAATTATCAC
*
164340 TATTATTATTTTATGTATA
1 TATTTTTATTTT-T-TATA
*
164359 T-TTTTTATTTTTTATT
1 TATTTTTATTTTTTATA
164375 TATTTTTATTTTT
1 TATTTTTATTTTT
164388 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 12 0.46
18 9 0.35
19 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (17 bp):
TATTTTTATTTTTTATA
Found at i:164382 original size:6 final size:6
Alignment explanation
Indices: 164360--164407 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
164350 TTATGTATAT
* *
164360 TTTTTA TTTTT- TATTTA TTTTTA TTTTTA TTTTATTA TTATTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTT-TTA TTTTTA TTTTT
164408 CTTAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 4 0.11
6 23 0.66
7 5 0.14
8 3 0.09
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:164400 original size:11 final size:11
Alignment explanation
Indices: 164340--164401 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
164330 TAATTATCAC
164340 TATTATTATTT
1 TATTATTATTT
164351 TATGTA-TATTT
1 TAT-TATTATTT
164362 T-TTATT-TTT
1 TATTATTATTT
164371 TA-T-TTATTTT
1 TATTATTA-TTT
*
164381 TATTTTTATTT
1 TATTATTATTT
164392 TATTATTATT
1 TATTATTATT
164402 ATTTTTCTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
8 2 0.05
9 7 0.16
10 7 0.16
11 22 0.51
12 5 0.12
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.76
Consensus pattern (11 bp):
TATTATTATTT
Found at i:165032 original size:43 final size:43
Alignment explanation
Indices: 164925--165036 Score: 104
Period size: 43 Copynumber: 2.6 Consensus size: 43
164915 AGAGTCTCCC
* * **
164925 GAGTTAAAGCCGATGGGCAGACAAGA-GGTGAAAAAGTCTTTA
1 GAGTCAAAGCCGATAGGCAGACTTGAGGGTGAAAAAGTCTTTA
* * * * *
164967 -AGGTCAAAGTCAACAAGTAGACTTGAGGGT-AAAGAAGTCTTTA
1 GA-GTCAAAGCCGATAGGCAGACTTGAGGGTGAAA-AAGTCTTTA
165010 GAGTCAAAGCCGATAGGCAGACTTGAG
1 GAGTCAAAGCCGATAGGCAGACTTGAG
165037 ATGAGGCAGT
Statistics
Matches: 52, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
41 1 0.02
42 18 0.35
43 32 0.62
44 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (43 bp):
GAGTCAAAGCCGATAGGCAGACTTGAGGGTGAAAAAGTCTTTA
Found at i:165116 original size:84 final size:84
Alignment explanation
Indices: 165012--165393 Score: 446
Period size: 84 Copynumber: 4.6 Consensus size: 84
165002 AGTCTTTAGA
* * * * *
165012 GTCAAAGCCGATAGGCAGACTTGAGATGAGGCAGTCT-TTAGGATCAAAGCTGACAAACAGATTA
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAGTCTCTAAGG-TCAAAGCTGACAGACAGACTG
165076 AAGGTAAGAAAGTCTCCAGG
65 AAGGTAAGAAAGTCTCCAGG
** * * * *
165096 GTCAAAGCCGATGGGTAGACTTGAGATGAGGCAATCTCTAAGGTCAAAGTTGACAGGCAGACTGA
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCTGACAGACAGACTGA
*
165161 AGG-ATAGAAAGTCTCCAAG
66 AGGTA-AGAAAGTCTCCAGG
* * * * *
165180 GTCAAAGCCAACAAGTAGACTTGAGATAAGGCAGTCTCTAAGGTCAAAGCTGACAGATAGACTGA
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCTGACAGACAGACTGA
*
165245 AGGTAAAAAAGTCTCCAGG
66 AGGTAAGAAAGTCTCCAGG
* * * * * * * **
165264 GTTAAAGTCGACAGGCAAACTTGAGATGAGGCAGTCTCCAAGGTCAAAACCGACTGGTAGACTGA
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCTGACAGACAGACTGA
165329 AGGTAAGAAAGTCTCCA-G
66 AGGTAAGAAAGTCTCCAGG
* * * *
165347 GTCAAAGCCGACAGGCAGCCTTGATATGAGGCAATCTCCAAGGTCAA
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAA
165394 TGCCGATAGG
Statistics
Matches: 255, Mismatches: 40, Indels: 7
0.84 0.13 0.02
Matches are distributed among these distances:
83 43 0.17
84 207 0.81
85 5 0.02
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (84 bp):
GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAGTCTCTAAGGTCAAAGCTGACAGACAGACTGA
AGGTAAGAAAGTCTCCAGG
Found at i:165141 original size:42 final size:42
Alignment explanation
Indices: 165012--165575 Score: 263
Period size: 42 Copynumber: 13.5 Consensus size: 42
165002 AGTCTTTAGA
* * **
165012 GTCAAAGCCGATAGGCAGACTTGAGATGAGGCAGTCT-TTAG
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAATCTCCAAG
* ** * * * * *
165053 GATCAAAGCTGACAAACAGA-TT-AAAGGTAAGAAAGTCTCCAGG
1 G-TCAAAGCCGACAGGCAGACTTGAGATG-AGGCAA-TCTCCAAG
** * *
165096 GTCAAAGCCGATGGGTAGACTTGAGATGAGGCAATCTCTAAG
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAATCTCCAAG
** *
165138 GTCAAAGTTGACAGGCAGAC-TGAAGGAT-A-GAAAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTTG-A-GATGAGGCAA-TCTCCAAG
* * * * * *
165180 GTCAAAGCCAACAAGTAGACTTGAGATAAGGCAGTCTCTAAG
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAATCTCCAAG
* ** * *** *
165222 GTCAAAGCTGACAGATAGAC-TGA-AGGTAAAAAAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTTGAGATG-AGGCAA-TCTCCAAG
* * * *
165264 GTTAAAGTCGACAGGCAAACTTGAGATGAGGCAGTCTCCAAG
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAATCTCCAAG
* * * * * *
165306 GTCAAAACCGACTGGTAGAC-TGA-AGGTAAGAAAGTCTCC-AG
1 GTCAAAGCCGACAGGCAGACTTGAGATG-AGGCAA-TCTCCAAG
* *
165347 GTCAAAGCCGACAGGCAGCCTTGATATGAGGCAATCTCCAAG
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAATCTCCAAG
* * * * *
165389 GTCAATGCCGATAGGCAGACTTGAGATGAGGCAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAATCTCCAAG
* * * * *** *
165431 GTGAAAGTCGACAGGCAAAC-TGA-AGGTAAAAAAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTTGAGATG-AGGCAA-TCTCCAAG
* * * * *
165473 GTCAAAGCCGACAGGCAGACTTGAGATAAGGTAGTCTCTAAA
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAATCTCCAAG
* * ** * * * * *
165515 GTCAAAGTCAACAGGTTGACTTAAGATAAGGCAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAATCTCCAAG
* *
165557 GTTAAAGCCGATAGGCAGA
1 GTCAAAGCCGACAGGCAGA
165576 TTAAAGAGTA
Statistics
Matches: 374, Mismatches: 124, Indels: 49
0.68 0.23 0.09
Matches are distributed among these distances:
40 8 0.02
41 53 0.14
42 280 0.75
43 27 0.07
44 6 0.02
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (42 bp):
GTCAAAGCCGACAGGCAGACTTGAGATGAGGCAATCTCCAAG
Found at i:165551 original size:126 final size:125
Alignment explanation
Indices: 165011--165573 Score: 333
Period size: 126 Copynumber: 4.5 Consensus size: 125
165001 AAGTCTTTAG
* * * * * * * * ** * * *
165011 AGTCAAAGCCGATAGGCAGACTTGAGATGAGGCAGTCTTTAGGATCAAAGCTGACAAACAGATTA
1 AGTCAAAGCCAACAGGCAGACTTAAGATAAGGCAGTCTCTAGGGTGAAAGCCGACAGGCAAACTG
* ** * * *
165076 AAGGTAAGAAAGTCTCCAGGGTCAAAGCCGATGGGTAGACTTGAGATGAGGCAATCTCTAA
66 AAGGTAAAAAAGTCTCCA-GGTCAAAGCCGACAGGCAGACTTGAGATAAGGCAATCTCCAA
* *** * ** * * * * * * *
165137 GGTCAAAGTTGACAGGCAGACTGAAGGAT-AGAAAGTCTCCAAGGTCAAAGCCAACAAGTAGACT
1 AGTCAAAGCCAACAGGCAGACTTAA-GATAAGGCAGTCTCTAGGGTGAAAGCCGACAGGCAAAC-
* *** * * ** * ** *
165201 TG-AGATAAGGCAGTCTCTAAGGTCAAAGCTGACAGATAGAC-TGAAGGTAA-AAAAGTCTCCAG
64 TGAAGGTAAAAAAGTCTC-CAGGTCAAAGCCGACAGGCAGACTTG-AGATAAGGCAA-TCTCCAA
* * * * * * * * * * * * * *
165263 GGTTAAAGTCGACAGGCAAACTTGAGATGAGGCAGTCTCCAAGGTCAAAACCGACTGGTAGACTG
1 AGTCAAAGCCAACAGGCAGACTTAAGATAAGGCAGTCTCTAGGGTGAAAGCCGACAGGCAAACTG
* * * *
165328 AAGGTAAGAAAGTCTCCAGGTCAAAGCCGACAGGCAGCCTTGATATGAGGCAATCTCCAA
66 AAGGTAAAAAAGTCTCCAGGTCAAAGCCGACAGGCAGACTTGAGATAAGGCAATCTCCAA
* * * * * * *
165388 GGTCAATGCCGATAGGCAGACTTGAGATGAGGCAGTCTCTAGGGTGAAAGTCGACAGGCAAACTG
1 AGTCAAAGCCAACAGGCAGACTTAAGATAAGGCAGTCTCTAGGGTGAAAGCCGACAGGCAAACTG
* * *
165453 AAGGTAAAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTGAGATAAGGTAGTCTCTAA
66 AAGGTAAAAAAGTCTCCA-GGTCAAAGCCGACAGGCAGACTTGAGATAAGGCAATCTCCAA
* ** * *
165514 AGTCAAAGTCAACAGGTTGACTTAAGATAAGGCAGTCTCTAGGGTTAAAGCCGATAGGCA
1 AGTCAAAGCCAACAGGCAGACTTAAGATAAGGCAGTCTCTAGGGTGAAAGCCGACAGGCA
165574 GATTAAAGAG
Statistics
Matches: 338, Mismatches: 89, Indels: 20
0.76 0.20 0.04
Matches are distributed among these distances:
125 105 0.31
126 228 0.67
127 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (125 bp):
AGTCAAAGCCAACAGGCAGACTTAAGATAAGGCAGTCTCTAGGGTGAAAGCCGACAGGCAAACTG
AAGGTAAAAAAGTCTCCAGGTCAAAGCCGACAGGCAGACTTGAGATAAGGCAATCTCCAA
Found at i:165790 original size:44 final size:44
Alignment explanation
Indices: 165695--165849 Score: 163
Period size: 44 Copynumber: 3.5 Consensus size: 44
165685 GAATGGTTTG
* * * *
165695 ACTAGGGTGGTAACCATACGTCAAA-CAGAA--AAAAAGAGGATTTG
1 ACTAGGGTGGTAACCAGACGTCAAATCAGAATGAGAAA-A--ATCTA
* **
165739 ACCAGGGTGGTAACTGGACGTCAAATCAGAATGAGAAAAATCTA
1 ACTAGGGTGGTAACCAGACGTCAAATCAGAATGAGAAAAATCTA
* * *
165783 ACTAGGGTGGTAACCATACGTCAAATTAGAATGAGAAAAATCTG
1 ACTAGGGTGGTAACCAGACGTCAAATCAGAATGAGAAAAATCTA
*
165827 ACTAGGGTGGTAACCATACGTCA
1 ACTAGGGTGGTAACCAGACGTCA
165850 GGCTAAAATG
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
44 85 0.89
45 5 0.05
46 1 0.01
47 4 0.04
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (44 bp):
ACTAGGGTGGTAACCAGACGTCAAATCAGAATGAGAAAAATCTA
Found at i:165959 original size:42 final size:43
Alignment explanation
Indices: 165912--166000 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 43
165902 GATAAAGGTT
**
165912 GTTTCCCAAGACTGAA-TCGATGGGCAAGTAAAAAG-TGAAAAA
1 GTTTCCCAAGACT-AAGTCGATGGGCAAACAAAAAGATGAAAAA
* *
165954 GTTTCCCAAGTCTAAGTCGATGGGCAAACAAAAAGATGAAGAA
1 GTTTCCCAAGACTAAGTCGATGGGCAAACAAAAAGATGAAAAA
165997 GTTT
1 GTTT
166001 AGTGAGATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
41 2 0.05
42 29 0.71
43 10 0.24
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (43 bp):
GTTTCCCAAGACTAAGTCGATGGGCAAACAAAAAGATGAAAAA
Found at i:166967 original size:36 final size:33
Alignment explanation
Indices: 166920--167001 Score: 103
Period size: 32 Copynumber: 2.4 Consensus size: 33
166910 TTTCAACAAT
*
166920 TTGTATCGATACAAACAGTAATTGTATACATAAGTG
1 TTGTATCGATACAAA-AGT-ATCG-ATACATAAGTG
* *
166956 TTGTATCGATAC-AATGTATCGATATATAAGTG
1 TTGTATCGATACAAAAGTATCGATACATAAGTG
166988 TTGTATCGATACAA
1 TTGTATCGATACAA
167002 TGTATCGCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
32 22 0.52
33 4 0.10
34 2 0.05
35 2 0.05
36 12 0.29
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACAAAAGTATCGATACATAAGTG
Found at i:170905 original size:17 final size:17
Alignment explanation
Indices: 170883--170921 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
170873 TTTCATTCGA
*
170883 TTTTTTTTT-ATTTTCT
1 TTTTTTTTTAATTTTAT
170899 TTTTTTTTTAATTTTAT
1 TTTTTTTTTAATTTTAT
170916 TTTTTT
1 TTTTTT
170922 CTTCTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTTTTTTAATTTTAT
Found at i:182420 original size:79 final size:78
Alignment explanation
Indices: 182134--182892 Score: 635
Period size: 79 Copynumber: 9.6 Consensus size: 78
182124 TTATTGATGT
* * * *** * * *
182134 TTTTATTTCTAAAATATCGATTTT-TCACCATCAAAGATACTCTAATCCCGTTATTTCCAAGGAG
1 TTTTATTTCTAAAACACCAATTTTCT-ACCATCGGGGATACTCCAA-CCCGTTATTTTCGAGGAG
*
182198 ATACTCC-CCCT-GG
64 ATACTCCAACCTCGG
* *
182211 TTTTATTTATAAAACACCAATTTT-TCACCATCGGGGATACTCCAACCCCGTTATTTTTGAGG-G
1 TTTTATTTCTAAAACACCAATTTTCT-ACCATCGGGGATACTCCAA-CCCGTTATTTTCGAGGAG
*
182274 AATACTCCAACCTTGG
64 -ATACTCCAACCTCGG
* * *
182290 TTTTATTTCTAAAAACACCGATTTT-TCACCATCGGGGATACTCCAACTCCGTTATTTCCAAGGA
1 TTTTATTTCT-AAAACACCAATTTTCT-ACCATCGGGGATACTCCAAC-CCGTTATTTTCGAGGA
*
182354 GATACTCCAACCTCAG
63 GATACTCCAACCTCGG
* * * *
182370 TTTTATTTCTAAAACACCAATTTTCTACCATTGGGGATACTCTAACTCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCAATTTTCTACCATCGGGGATACTCCAAC-CCGTTATTTTCGAGGAGA
182435 TACTCCAACC-CTGG
65 TACTCCAACCTC-GG
* * * *
182449 TTTTATTTTTAAAACACCAATTTT-TCACCATCGGGGATATTCCAACCCCGTTATTTTCAAGGGG
1 TTTTATTTCTAAAACACCAATTTTCT-ACCATCGGGGATACTCCAA-CCCGTTATTTTCGAGGAG
*
182513 ATACTCCAACCCCGG
64 ATACTCCAACCTCGG
* * * * ** *
182528 TTTTATTTCTAAAACATCGATTTTCCACCATCGAGGATACTCCAACCCTGTTATTTTTAAGGGGA
1 TTTTATTTCTAAAACACCAATTTTCTACCATCGGGGATACTCCAACCC-GTTATTTTCGAGGAGA
** * *
182593 TACTTTAACCCCGA
65 TACTCCAACCTCGG
* * * * *
182607 TTTTGTCTCTAAAGCATCCATTTTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGA-GA
1 TTTTATTTCTAAAACA-CCA-ATTTTCTACCATCGGGGATACTCCAA-CCCGTTATTTTCGAGGA
* *
182671 GGATACTCCAACCCCAG
63 -GATACTCCAACCTCGG
*** * ** * *
182688 TTTTATTTCTAAAACATTGATTTTCCACCATTAGGGATACTCTAACCCTATTATTTTCGAGGAGA
1 TTTTATTTCTAAAACACCAATTTTCTACCATCGGGGATACTCCAACCC-GTTATTTTCGAGGAGA
*
182753 TACTCCAACCTCGA
65 TACTCCAACCTCGG
* * * * * *
182767 TTTTATTTCTAAAACATCGATTTTC-ACCATCTGGGATATTCCAACCTCATTATTTTTGA-GAGG
1 TTTTATTTCTAAAACACCAATTTTCTACCATCGGGGATACTCCAACC-CGTTATTTTCGAGGA-G
** *
182830 ATACTTTAACC-CTGA
64 ATACTCCAACCTC-GG
* * * *
182845 TTTTATTTCTAAAATATCAAATTTTC-ACCATTGGGGATACTCAAACCC
1 TTTTATTTCTAAAACA-CCAATTTTCTACCATCGGGGATACTCCAACCC
182893 TGTTTTTATC
Statistics
Matches: 571, Mismatches: 88, Indels: 45
0.81 0.12 0.06
Matches are distributed among these distances:
76 1 0.00
77 60 0.11
78 66 0.12
79 306 0.54
80 76 0.13
81 59 0.10
82 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (78 bp):
TTTTATTTCTAAAACACCAATTTTCTACCATCGGGGATACTCCAACCCGTTATTTTCGAGGAGAT
ACTCCAACCTCGG
Found at i:187739 original size:23 final size:23
Alignment explanation
Indices: 187701--187745 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
187691 TTCTTTACTG
187701 TTTTGCTACTGCTTTGGTTGCTC
1 TTTTGCTACTGCTTTGGTTGCTC
* *
187724 TTTTGCTGCTGTTTTGGTTGCT
1 TTTTGCTACTGCTTTGGTTGCT
187746 TCGATTGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.02, C:0.18, G:0.24, T:0.56
Consensus pattern (23 bp):
TTTTGCTACTGCTTTGGTTGCTC
Found at i:188848 original size:25 final size:28
Alignment explanation
Indices: 188801--188862 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 28
188791 AATTATCACT
*
188801 ATTATTATTTTATGTATATTTTTATTTA
1 ATTATTATTTTATGTATACTTTTATTTA
*
188829 ATTATT-TTTTAT-T-TACTTTTATTTT
1 ATTATTATTTTATGTATACTTTTATTTA
*
188854 TTTATTATT
1 ATTATTATT
188863 CTTTTTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 15 0.50
26 3 0.10
27 6 0.20
28 6 0.20
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (28 bp):
ATTATTATTTTATGTATACTTTTATTTA
Found at i:209033 original size:108 final size:109
Alignment explanation
Indices: 208907--209152 Score: 264
Period size: 108 Copynumber: 2.2 Consensus size: 109
208897 ATGATTAATG
* * * * *
208907 TGAAAAATGTATTTTCCTATAAAAAGGACATTCGTACACCACTTTATGACCACTATACAA-ACCT
1 TGAAAAATGAATTATCCTATAAAAAGGACATTCATACACCACTTTACGA-CACTAGACAAGACCT
**
208971 ATTTC-AGGGCCAATCCTTTAGTACC-AAAAACAATGTAATTTATA
65 ATTTCGA-GGCCAATCCCCTAGTACCTAAAAACAATGTAATTTATA
* * * * * *
209015 TGAAAAATGAATTATCCTATATAAATGCCATTCATACTCCACTTTACGACTCTAGACAATGATCT
1 TGAAAAATGAATTATCCTATAAAAAGGACATTCATACACCACTTTACGACACTAGACAA-GACCT
* * * *
209080 ATTTCGAGGCCAATCCCCTAGTGCCTAAATACTATGTAATTTATG
65 ATTTCGAGGCCAATCCCCTAGTACCTAAAAACAATGTAATTTATA
* *
209125 TGAAAAATAAATTGTCCTATATAAAAGG
1 TGAAAAATGAATTATCCTATA-AAAAGG
209153 TATTTGTATG
Statistics
Matches: 112, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
107 8 0.07
108 41 0.37
109 23 0.21
110 36 0.32
111 4 0.04
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (109 bp):
TGAAAAATGAATTATCCTATAAAAAGGACATTCATACACCACTTTACGACACTAGACAAGACCTA
TTTCGAGGCCAATCCCCTAGTACCTAAAAACAATGTAATTTATA
Found at i:209131 original size:110 final size:110
Alignment explanation
Indices: 208904--209333 Score: 377
Period size: 110 Copynumber: 3.9 Consensus size: 110
208894 TACATGATTA
* * * * ** * * *
208904 ATGTGAAAAATGTATTTTCCTATA-AAAAGGACATTCGTACACCACTTTATGACCACTATACAA-
1 ATGTGAAAAATGAATTGTCCTATATAAATGG-CATTCATATGCCACTTTACGA-CTCTAGACAAT
* * * *
208967 -ACCTATTTC-AGGGCCAATCCTTTAGTACC-AAAAACAATGTAATTT
64 GACCTATTTCGA-GGCCAATCCCTTAGTGCCTAAATACTATGTAATTT
* * *
209012 ATATGAAAAATGAATTATCCTATATAAATGCCATTCATACT-CCACTTTACGACTCTAGACAATG
1 ATGTGAAAAATGAATTGTCCTATATAAATGGCATTCATA-TGCCACTTTACGACTCTAGACAATG
* *
209076 ATCTATTTCGAGGCCAATCCCCTAGTGCCTAAATACTATGTAATTT
65 ACCTATTTCGAGGCCAATCCCTTAGTGCCTAAATACTATGTAATTT
* * * ** * * *
209122 ATGTGAAAAATAAATTGTCCTATATAAAAGGTATTTGTATGCTACTTTATGACTTTAGACAATGA
1 ATGTGAAAAATGAATTGTCCTATATAAATGGCATTCATATGCCACTTTACGACTCTAGACAATGA
** * * * * *
209187 TTTATTTCGGGGCTAATCTCTTGGTGCCTGAATACTATGTAATTT
66 CCTATTTCGAGGCCAATCCCTTAGTGCCTAAATACTATGTAATTT
* * ** * * * *
209232 ATGAGAAAAATGAATTGTCCTTTATAAATGGTGTCCATATGCTACTTTACAACTCTAGATAATGA
1 ATGTGAAAAATGAATTGTCCTATATAAATGGCATTCATATGCCACTTTACGACTCTAGACAATGA
* * **
209297 CCTATTTCAAGACCAATCCCTTAGTGCCCGAATACTA
66 CCTATTTCGAGGCCAATCCCTTAGTGCCTAAATACTA
209334 CATAATTAAT
Statistics
Matches: 260, Mismatches: 55, Indels: 12
0.80 0.17 0.04
Matches are distributed among these distances:
107 8 0.03
108 38 0.15
109 28 0.11
110 186 0.72
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (110 bp):
ATGTGAAAAATGAATTGTCCTATATAAATGGCATTCATATGCCACTTTACGACTCTAGACAATGA
CCTATTTCGAGGCCAATCCCTTAGTGCCTAAATACTATGTAATTT
Found at i:209340 original size:110 final size:110
Alignment explanation
Indices: 208969--209333 Score: 387
Period size: 110 Copynumber: 3.3 Consensus size: 110
208959 CTATACAAAC
* * * * * *
208969 CTATTTC-AGGGCCAATCCTTTAGTACC-AAAAACAATGTAATTTAT-ATGAAAAATGAATTATC
1 CTATTTCGA-GGCCAATCCCTTAGTGCCTGAATACTATGTAATTTATGA-GAAAAATGAATTGTC
** *
209031 CTATATAAATGCCATTCATACT-CCACTTTACGACTCTAGACAATGAT
64 CTATATAAATGGTATTCATA-TGCTACTTTACGACTCTAGACAATGAT
* * * *
209078 CTATTTCGAGGCCAATCCCCTAGTGCCTAAATACTATGTAATTTATGTGAAAAATAAATTGTCCT
1 CTATTTCGAGGCCAATCCCTTAGTGCCTGAATACTATGTAATTTATGAGAAAAATGAATTGTCCT
* ** * *
209143 ATATAAAAGGTATTTGTATGCTACTTTATGACTTTAGACAATGAT
66 ATATAAATGGTATTCATATGCTACTTTACGACTCTAGACAATGAT
* * * * *
209188 TTATTTCGGGGCTAATCTCTTGGTGCCTGAATACTATGTAATTTATGAGAAAAATGAATTGTCCT
1 CTATTTCGAGGCCAATCCCTTAGTGCCTGAATACTATGTAATTTATGAGAAAAATGAATTGTCCT
* * * * * *
209253 TTATAAATGGTGTCCATATGCTACTTTACAACTCTAGATAATGAC
66 ATATAAATGGTATTCATATGCTACTTTACGACTCTAGACAATGAT
* * *
209298 CTATTTCAAGACCAATCCCTTAGTGCCCGAATACTA
1 CTATTTCGAGGCCAATCCCTTAGTGCCTGAATACTA
209334 CATAATTAAT
Statistics
Matches: 208, Mismatches: 44, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
109 23 0.11
110 185 0.89
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (110 bp):
CTATTTCGAGGCCAATCCCTTAGTGCCTGAATACTATGTAATTTATGAGAAAAATGAATTGTCCT
ATATAAATGGTATTCATATGCTACTTTACGACTCTAGACAATGAT
Found at i:210211 original size:14 final size:15
Alignment explanation
Indices: 210155--210241 Score: 67
Period size: 14 Copynumber: 6.1 Consensus size: 15
210145 CAGGCCATCA
*
210155 TTTTCTCTTTT-TT-
1 TTTTCTTTTTTCTTC
210168 TTTTCTTTTTTCTTC
1 TTTTCTTTTTTCTTC
** *
210183 -TCCCTTTGCTTCTTC
1 TTTTCTTT-TTTCTTC
210198 TTTT-TTTTTTCTTC
1 TTTTCTTTTTTCTTC
*
210212 TTTTCTTTTCT-TTC
1 TTTTCTTTTTTCTTC
**
210226 CCTTCTTTTTTCTTC
1 TTTTCTTTTTTCTTC
210241 T
1 T
210242 CTCTTTCTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
13 10 0.18
14 28 0.50
15 17 0.30
16 1 0.02
ACGTcount: A:0.00, C:0.24, G:0.01, T:0.75
Consensus pattern (15 bp):
TTTTCTTTTTTCTTC
Found at i:210241 original size:19 final size:17
Alignment explanation
Indices: 210194--210255 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 17
210184 CCCTTTGCTT
210194 CTTCTTTTTTTT-T-T-
1 CTTCTTTTTTTTCTCTC
*
210208 CTTCTTTTCTTTTCTTTCC
1 CTTCTTTT-TTTTCTCT-C
210227 CTTCTTTTTTCTTCTCTC
1 CTTCTTTTTT-TTCTCTC
*
210245 TTTCTTTTTTT
1 CTTCTTTTTTT
210256 GGTTTCGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 8 0.20
15 4 0.10
16 1 0.03
17 2 0.05
18 12 0.30
19 13 0.32
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTCTTTTTTTTCTCTC
Found at i:211266 original size:28 final size:27
Alignment explanation
Indices: 211229--211418 Score: 102
Period size: 28 Copynumber: 7.0 Consensus size: 27
211219 CTCTTATTAG
* * *
211229 GTGCCTGCTAATATGGGCTTCGACTTA
1 GTGCCAGCTAATGTGGGCTTAGACTTA
211256 GATGCCAGCTAATGTGGGCTTTA-ACTTA
1 G-TGCCAGCTAATGTGGGC-TTAGACTTA
* *
211284 TGTGCCAGCAAATGTGGGCTTAGACTTTT
1 -GTGCCAGCTAATGTGGGCTTAGAC-TTA
*** *
211313 GTGCCAAAGAATGTGGGCTTTGACTT-
1 GTGCCAGCTAATGTGGGCTTAGACTTA
* * **
211339 GTGCTAAC-AAGTGTGGGC-T-GACTCC
1 GTGCCAGCTAA-TGTGGGCTTAGACTTA
* * * * *
211364 GATGCTAACTAATATAGGCTTTGACTTAA
1 G-TGCCAGCTAATGTGGGCTTAGACTT-A
* *
211393 GTGCCAGCTAGTGTGGGCCTAGACTT
1 GTGCCAGCTAATGTGGGCTTAGACTT
211419 TGTAGGATTT
Statistics
Matches: 128, Mismatches: 23, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
24 4 0.03
25 4 0.03
26 25 0.20
27 9 0.07
28 80 0.62
29 6 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (27 bp):
GTGCCAGCTAATGTGGGCTTAGACTTA
Found at i:211310 original size:56 final size:56
Alignment explanation
Indices: 211242--211418 Score: 157
Period size: 56 Copynumber: 3.2 Consensus size: 56
211232 CCTGCTAATA
* * * *
211242 TGGGCTTCGACTTAGATGCCAGCTAATGTGGGCTTTAACTTATGTGCCAGCAAATG
1 TGGGCTTAGACTTAGATGCCAACTAATGTGGGCTTTGACTTATGTGCCAGCAAGTG
* ** * *
211298 TGGGCTTAGACTTTTG-TGCCAAAGAATGTGGGCTTTGAC-T-TGTGCTAACAAGTG
1 TGGGCTTAGAC-TTAGATGCCAACTAATGTGGGCTTTGACTTATGTGCCAGCAAGTG
** * * * * *
211352 TGGGC-T-GACTCCGATGCTAACTAATATAGGCTTTGACTTAAGTGCCAGCTAGTG
1 TGGGCTTAGACTTAGATGCCAACTAATGTGGGCTTTGACTTATGTGCCAGCAAGTG
*
211406 TGGGCCTAGACTT
1 TGGGCTTAGACTT
211419 TGTAGGATTT
Statistics
Matches: 94, Mismatches: 21, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
51 2 0.02
52 21 0.22
53 2 0.02
54 31 0.33
55 2 0.02
56 33 0.35
57 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (56 bp):
TGGGCTTAGACTTAGATGCCAACTAATGTGGGCTTTGACTTATGTGCCAGCAAGTG
Found at i:211488 original size:28 final size:29
Alignment explanation
Indices: 211456--211520 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
211446 CCGACGAGTA
*
211456 TGGGCTTTGACTT-AGATGCCAGCAAGTG
1 TGGGCTTAGACTTAAGATGCCAGCAAGTG
*
211484 TGGGCTTAGACTTAAGGTGCCAGCAAGTG
1 TGGGCTTAGACTTAAGATGCCAGCAAGTG
211513 TGGGCTTA
1 TGGGCTTA
211521 AATGTGTGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 12 0.35
29 22 0.65
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGGCTTAGACTTAAGATGCCAGCAAGTG
Found at i:211558 original size:28 final size:28
Alignment explanation
Indices: 211472--211573 Score: 87
Period size: 28 Copynumber: 3.6 Consensus size: 28
211462 TTGACTTAGA
* * * **
211472 TGCCAGCAAGTGTGGGCTTAGACTTAAGG
1 TGCCAGCAAATGTGGGCTTAAACAT-CTG
* ** *
211501 TGCCAGCAAGTGTGGGCTTAAATGTGTG
1 TGCCAGCAAATGTGGGCTTAAACATCTG
* **
211529 TGCTAGTGAATGTGGGCTTAAACATCTG
1 TGCCAGCAAATGTGGGCTTAAACATCTG
211557 TGCCAGCAAATGTGGGC
1 TGCCAGCAAATGTGGGC
211574 CAGTAAATGT
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
28 36 0.62
29 22 0.38
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
TGCCAGCAAATGTGGGCTTAAACATCTG
Found at i:211798 original size:28 final size:28
Alignment explanation
Indices: 211756--211829 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
211746 CTTGAACGTA
* * **
211756 TGTGCTAGCGAATGTGGGATTTAATGTG
1 TGTGCTAGCAAATGTGGGATTAAACATG
* *
211784 TTTGCTAGCAAATGTGGGCTTAAACATG
1 TGTGCTAGCAAATGTGGGATTAAACATG
*
211812 TGTGCCAGCAAATGTGGG
1 TGTGCTAGCAAATGTGGG
211830 CTTACTCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.31
Consensus pattern (28 bp):
TGTGCTAGCAAATGTGGGATTAAACATG
Found at i:213232 original size:19 final size:18
Alignment explanation
Indices: 213210--213264 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
213200 TTATTTTTCT
213210 TTTTTTGCTTCTTTTTTG
1 TTTTTTGCTTCTTTTTTG
*
213228 CTTTTTTTCTAT-TTTTTTG
1 -TTTTTTGCT-TCTTTTTTG
213247 -TTTTTGCCTTGCTTTTTT
1 TTTTTTG-CTT-CTTTTTT
213265 CTTAAGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 6 0.20
18 2 0.07
19 21 0.70
20 1 0.03
ACGTcount: A:0.02, C:0.13, G:0.09, T:0.76
Consensus pattern (18 bp):
TTTTTTGCTTCTTTTTTG
Found at i:213263 original size:21 final size:20
Alignment explanation
Indices: 213214--213309 Score: 67
Period size: 21 Copynumber: 4.6 Consensus size: 20
213204 TTTTCTTTTT
213214 TTGCTTCTTTTTTGCTTTTT--
1 TTGCTT-TTTTTTG-TTTTTGC
213234 TT-CTATTTTTTTGTTTTTGCC
1 TTGCT-TTTTTTTGTTTTTG-C
213255 TTGCTTTTTTCTTAAG-TTTTG-
1 TTGCTTTTTT-TT--GTTTTTGC
*
213276 TTGCCTTTTTTTTGTATTTGC
1 TTG-CTTTTTTTTGTTTTTGC
213297 TTTGCTTTTTTTT
1 -TTGCTTTTTTTT
213310 AAATCTTAGA
Statistics
Matches: 63, Mismatches: 1, Indels: 23
0.72 0.01 0.26
Matches are distributed among these distances:
18 5 0.08
19 10 0.16
20 7 0.11
21 21 0.33
22 14 0.22
23 5 0.08
24 1 0.02
ACGTcount: A:0.04, C:0.12, G:0.11, T:0.72
Consensus pattern (20 bp):
TTGCTTTTTTTTGTTTTTGC
Found at i:214328 original size:109 final size:108
Alignment explanation
Indices: 214195--214398 Score: 266
Period size: 108 Copynumber: 1.9 Consensus size: 108
214185 TAGACAAGTT
* ** * ** * * *
214195 TATTTTGGGGCCAATCTATTGGTGCCCGAGTATTACATGATTAATGTGAAAAATGTATTTTCTTA
1 TATTTTGGGGCCAATCTATTGGTG-CCGAATACAACATAATTAACATGAAAAATGAATTATCCTA
214260 TACAAAGGACATTCATATGCCACTTTATGACCACTATACAAGCC
65 TACAAAGGACATTCATATGCCACTTTATGACCACTATACAAGCC
* *
214304 TATTTTGGGGCCAATCCT-TTGGTGCCGAATACAACGTAATTTACATGAAAAATGAATTATCCTA
1 TATTTTGGGGCCAAT-CTATTGGTGCCGAATACAACATAATTAACATGAAAAATGAATTATCCTA
* *
214368 TATAAAGGGCATTCATATGCCACTTTATGAC
65 TACAAAGGACATTCATATGCCACTTTATGAC
214399 TCTAGATAAT
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
108 58 0.72
109 21 0.26
110 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (108 bp):
TATTTTGGGGCCAATCTATTGGTGCCGAATACAACATAATTAACATGAAAAATGAATTATCCTAT
ACAAAGGACATTCATATGCCACTTTATGACCACTATACAAGCC
Found at i:214478 original size:110 final size:109
Alignment explanation
Indices: 214238--214663 Score: 397
Period size: 110 Copynumber: 3.9 Consensus size: 109
214228 TACATGATTA
** * * * * * * *
214238 ATGTGAAAAATGTATTTTCTTATACAAAGGACATTCATATGCCACTTTATGACCACTATACAA-G
1 ATGTGAAAAATAAATTGTCCTATATAAAGGGCATTCATACGCCACTTTATGA-CTCTAGACAATG
* * * * * * *
214302 CCTATTTTGGGGCCAATCCTTTGGTGC-CGAATACAACGTAATTT
65 TCTATTTCGAGGCCAATCCCTTGGTGCTTGAATACTATGTAATTT
** * * * *
214346 ACATGAAAAATGAATTATCCTATATAAAGGGCATTCATATGCCACTTTATGACTCTAGATAATGA
1 ATGTGAAAAATAAATTGTCCTATATAAAGGGCATTCATACGCCACTTTATGACTCTAGACAATG-
* *
214411 TCTATTTCGAGGCCAACCCCTTGGTGCTTAAATACTATGTAATTT
65 TCTATTTCGAGGCCAATCCCTTGGTGCTTGAATACTATGTAATTT
* * * * * *
214456 ATGTGAAAAATAAATTGTCCTATATAAAAGGCATTCGTACGCTACTTTACGACTTTGGACAATGA
1 ATGTGAAAAATAAATTGTCCTATATAAAGGGCATTCATACGCCACTTTATGACTCTAGACAATG-
* *
214521 TATATTTCGAAGCCAATCCCTTGGTGCTTGAATACTATGTAATTT
65 TCTATTTCGAGGCCAATCCCTTGGTGCTTGAATACTATGTAATTT
** * * ** * * * *
214566 ATGCAAAAAATAAACTGTCCTATATAAAGAGCATTTGTACACCATTTTATGACTTTAGACAATGG
1 ATGTGAAAAATAAATTGTCCTATATAAAGGGCATTCATACGCCACTTTATGACTCTAGACAATGT
* * *
214631 CTTATTTTGAGGCTAATCCCTTGGTGCTCGAAT
66 C-TATTTCGAGGCCAATCCCTTGGTGCTTGAAT
214664 GCTACATAAT
Statistics
Matches: 262, Mismatches: 52, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
107 7 0.03
108 46 0.18
109 22 0.08
110 187 0.71
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (109 bp):
ATGTGAAAAATAAATTGTCCTATATAAAGGGCATTCATACGCCACTTTATGACTCTAGACAATGT
CTATTTCGAGGCCAATCCCTTGGTGCTTGAATACTATGTAATTT
Found at i:217847 original size:20 final size:20
Alignment explanation
Indices: 217822--218108 Score: 133
Period size: 20 Copynumber: 12.7 Consensus size: 20
217812 TTTTACCCAG
217822 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
217842 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
217862 ATGTATTGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
*
217892 GATGTATCGATATATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * *
217913 ATGTATCGATACATATATGA
1 ATGTATCGATACATTTTTCA
* *
217933 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
217953 ATGTATTGATACATTTTGTCTTTTTACACAA
1 ATGTATCGATACA-------TTTTT---C-A
217984 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
218004 ATGTATCGATACATATATGA
1 ATGTATCGATACATTTTTCA
* *
218024 ATGTATCGATGCATTCTTCA
1 ATGTATCGATACATTTTTCA
218044 ATGTATCGATACATTCTGTCTTTTTTCCCA
1 ATGTATCGATACA--------TTTTT--CA
218074 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
218095 ATGTATCGATACAT
1 ATGTATCGATACAT
218109 CTAGTTAAAA
Statistics
Matches: 204, Mismatches: 30, Indels: 66
0.68 0.10 0.22
Matches are distributed among these distances:
20 132 0.65
21 5 0.02
23 5 0.02
24 10 0.05
27 7 0.03
28 4 0.02
30 4 0.02
31 37 0.18
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:217932 original size:71 final size:71
Alignment explanation
Indices: 217811--217949 Score: 260
Period size: 71 Copynumber: 2.0 Consensus size: 71
217801 AAAAGTCATA
*
217811 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATTGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATATATGAATGTATTGATACAT
217876 TCTGTC
66 TCTGTC
*
217882 TTTTTACCCAGATGTATCGATATATTTTTCAATGTATCGATACATATATGAATGTATTGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATATATGAATGTATTGATACAT
217947 TCT
66 TCT
217950 TCAATGTATT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (71 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATATATGAATGTATTGATACAT
TCTGTC
Found at i:217977 original size:91 final size:91
Alignment explanation
Indices: 217822--218108 Score: 441
Period size: 91 Copynumber: 3.2 Consensus size: 91
217812 TTTTACCCAG
* * * * *
217822 ATGTATCGATACATTTTTCAATGTATCGATACATGT-ATGAATGTATTGATACATTCTGTCTTTT
1 ATGTATCGATACATATATGAATGTATCGATACAT-TCTTCAATGTATTGATACATTCTGTCTTTT
*
217886 TACCCAGATGTATCGATATATTTTTCA
65 TACCCAGATGTATCGATACATTTTTCA
* *
217913 ATGTATCGATACATATATGAATGTATTGATACATTCTTCAATGTATTGATACATTTTGTCTTTTT
1 ATGTATCGATACATATATGAATGTATCGATACATTCTTCAATGTATTGATACATTCTGTCTTTTT
* *
217978 ACACAAATGTATCGATACATTTTTCA
66 ACCCAGATGTATCGATACATTTTTCA
* *
218004 ATGTATCGATACATATATGAATGTATCGATGCATTCTTCAATGTATCGATACATTCTGTCTTTTT
1 ATGTATCGATACATATATGAATGTATCGATACATTCTTCAATGTATTGATACATTCTGTCTTTTT
*
218069 TCCCAGATGTATCGATACATTTTTCA
66 ACCCAGATGTATCGATACATTTTTCA
218095 ATGTATCGATACAT
1 ATGTATCGATACAT
218109 CTAGTTAAAA
Statistics
Matches: 178, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
90 1 0.01
91 177 0.99
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (91 bp):
ATGTATCGATACATATATGAATGTATCGATACATTCTTCAATGTATTGATACATTCTGTCTTTTT
ACCCAGATGTATCGATACATTTTTCA
Found at i:218008 original size:51 final size:49
Alignment explanation
Indices: 217932--218108 Score: 167
Period size: 51 Copynumber: 3.7 Consensus size: 49
217922 TACATATATG
* * *
217932 AATGTATTGATACATTCTTCAATGTATTGATACATTTTGTCTTTTTACACA
1 AATGTATCGATACATTCTTCAATGTATCGATACATTATGTCTTTTT-C-CA
*
217983 AATGTATCGATACATTTTTCAATGTATCGATACATATATG----------
1 AATGTATCGATACATTCTTCAATGTATCGATACAT-TATGTCTTTTTCCA
* *
218023 AATGTATCGATGCATTCTTCAATGTATCGATACATTCTGTCTTTTTTCCCA
1 AATGTATCGATACATTCTTCAATGTATCGATACATTATGTC-TTTTT-CCA
* *
218074 GATGTATCGATACATTTTTCAATGTATCGATACAT
1 AATGTATCGATACATTCTTCAATGTATCGATACAT
218109 CTAGTTAAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
39 3 0.03
40 33 0.32
51 64 0.62
52 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (49 bp):
AATGTATCGATACATTCTTCAATGTATCGATACATTATGTCTTTTTCCA
Found at i:233392 original size:33 final size:33
Alignment explanation
Indices: 233355--233421 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
233345 TTCAACGATT
233355 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
233388 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
233421 T
1 T
233422 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:233393 original size:13 final size:13
Alignment explanation
Indices: 233375--233399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
233365 CATAAAATGT
233375 TGTATCGATACAA
1 TGTATCGATACAA
233388 TGTATCGATACA
1 TGTATCGATACA
233400 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:233482 original size:13 final size:13
Alignment explanation
Indices: 233464--233488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
233454 ATTACTCACA
233464 TGTATCGATACAT
1 TGTATCGATACAT
233477 TGTATCGATACA
1 TGTATCGATACA
233489 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:233625 original size:52 final size:52
Alignment explanation
Indices: 233497--233617 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
233487 CACTGATCTT
*
233497 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
233549 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
233601 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
233618 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:240794 original size:15 final size:15
Alignment explanation
Indices: 240774--240807 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
240764 TCCAAACACA
*
240774 AAAAAAAGAAAAAAG
1 AAAAAAACAAAAAAG
*
240789 AAAAAAACAAAACAG
1 AAAAAAACAAAAAAG
240804 AAAA
1 AAAA
240808 TCTCGGTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAG
Found at i:241871 original size:31 final size:30
Alignment explanation
Indices: 241833--241982 Score: 149
Period size: 31 Copynumber: 4.9 Consensus size: 30
241823 AAAAAATAAA
*
241833 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGCTC
* *
241864 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATC-TTTGC-TC
241896 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTG-CTC
* * * *
241926 AAGGTCCACGACTCAATGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGC-TC
* * * *
241957 AAAGCCCACAACTCCGTGGCACCTTT
1 AAAGTCCACGACTCAGTGGCATCTTT
241983 TCCTTTAAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
30 28 0.28
31 48 0.48
32 23 0.23
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTGCTC
Found at i:241905 original size:32 final size:32
Alignment explanation
Indices: 241864--242371 Score: 418
Period size: 34 Copynumber: 15.8 Consensus size: 32
241854 ATCTCTGCTC
* * *
241864 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* * * * *
241896 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* * * ** *
241926 AAGGTCCACGACTCAATGGCAT-TTTTTCTTC
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* *
241957 AAAGCCCACAACTCCGTGGCACCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
**
241989 AAAGCCCACAACTCCGTGGCA-C--CCT-TTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
*
242017 AAAGCCCACAATTCCGTGGCA-CTTTTTTCATCTT
1 AAAGCCCACAACTCCGTGGCATC-TTTTTC-T-TT
* * *
242051 TAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* *
242083 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCATCTT-TT-TCTTT
* *
242117 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTC-TTT
*
242150 CAAAGCCCACAACTCCGTGGCA-CTTTTT-TTA
1 -AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
*
242181 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCA-TCTTTTT-CTT-T
* * *
242216 -AAGCACATAACTCCGTGGCACCCTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCA-TCTTTTT-C-TTT
*
242250 AAAGCCCACGACTCCGTGGCA-C----TCTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* *
242277 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCATCTT-TT-TCTTT
242311 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGCCCACAACTCCGTGGCA-TCTTTTT--CTTT
* *
242346 TAAGTCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCATCTTT
242372 CTCCCTTCCT
Statistics
Matches: 402, Mismatches: 44, Indels: 58
0.80 0.09 0.12
Matches are distributed among these distances:
27 23 0.06
28 26 0.06
29 1 0.00
30 46 0.11
31 27 0.07
32 82 0.20
33 15 0.04
34 137 0.34
35 45 0.11
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.32
Consensus pattern (32 bp):
AAAGCCCACAACTCCGTGGCATCTTTTTCTTT
Found at i:241935 original size:30 final size:32
Alignment explanation
Indices: 241833--242009 Score: 168
Period size: 32 Copynumber: 5.7 Consensus size: 32
241823 AAAAAATAAA
*
241833 AAAGTCCACGACTCAGTGGCAATCTCTG-C-TC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGTCTTC
* *
241864 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
241896 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* * *
241926 AAGGTCCACGACTCAATGGCAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* * * * *
241957 AAAGCCCACAACTCCGTGGCACCTTT-TCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGT-CTTC
* * *
241989 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
242010 CCCTTTTAAA
Statistics
Matches: 126, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
30 31 0.25
31 45 0.36
32 50 0.40
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
Found at i:242008 original size:93 final size:92
Alignment explanation
Indices: 241862--242371 Score: 356
Period size: 96 Copynumber: 5.3 Consensus size: 92
241852 CAATCTCTGC
* * * * * * *
241862 TCAAAGTCCACGACTCAGTGGCATCTTTTTCTTTAAAGTCCACGACTCAGTGGCA-TTTTGTCTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTAAAGCCCACAACTCCGTGGCACTTTT-T-T-
* * * *
241926 AAGGTCCACGACTCAATGGCA-TTTTTTCT
63 AAAGCCCACAACTCAGTGGCACTTTTTTCT
* **
241955 TCAAAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAA
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTAAAGCCCACAACTCCGTGGCACTTTTTTAAA
* *
242020 GCCCACAATTCCGTGGCACTTTTTTCAT
66 GCCCACAACTCAGTGGCACTTTTTTC-T
** *
242048 CTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 -TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTAAAGCCCACAACTCCGTGGCA----C-T-T
*
242113 TTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT-T
59 TTTTAAAGCCCACAACTCAGTGGCA-CTT-TT-TTCT
* *
242149 TCAAAGCCCACAACTCCGTGGCA-CTTTTT-TTAAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTAAAGCCCACAACTCCGTGGCA--C-TTTT--
* * * * *
242212 TTCTAAGCACATAACTCCGTGGCACCCTTTTTCCTT
61 TT-AAAGCCCACAACTCAGTGGCA--CTTTTTTC-T
* *
242248 TTAAAGCCCACGACTCCGTGGCA-C----TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTAAAGCCCACAACTCCGTGGCA----C-T-TT
*
242308 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
60 TTTAAAGCCCACAACTCAGTGGCACT-TTTTT--CT
** * *
242344 TTTAAGTCCACAACTCCGTGGCATCTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTT
242372 CTCCCTTCCT
Statistics
Matches: 342, Mismatches: 45, Indels: 53
0.78 0.10 0.12
Matches are distributed among these distances:
91 15 0.04
92 8 0.02
93 49 0.14
94 55 0.16
95 8 0.02
96 65 0.19
97 7 0.02
98 47 0.14
99 36 0.11
100 44 0.13
101 4 0.01
102 2 0.01
103 2 0.01
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.32
Consensus pattern (92 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTAAAGCCCACAACTCCGTGGCACTTTTTTAAA
GCCCACAACTCAGTGGCACTTTTTTCT
Found at i:242060 original size:34 final size:33
Alignment explanation
Indices: 241948--242371 Score: 456
Period size: 34 Copynumber: 13.1 Consensus size: 33
241938 TCAATGGCAT
*
241948 TTTTTC-TTCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
*
241980 -TTTTCCTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
* *
242012 -----CTTTTAAAGCCCACAATTCCGTGGCACT
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
*
242040 TTTTTCATCTTT-AAGTCCACAACTCCGTGGCACC
1 TTTTTC-T-TTTAAAGCCCACAACTCCGTGGCACC
242074 TTTTTC-TTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
*
242106 TTCTTCTTTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTC-TTTTAAAGCCCACAACTCCGTGGCACC
*
242140 TTCTTCTTTTCAAAGCCCACAACTCCGTGGCA-C
1 TTTTTCTTTT-AAAGCCCACAACTCCGTGGCACC
* *
242173 -TTTT-TTTAAAAGCCCACAACTCTGTGGCACTC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-C
* * *
242205 TTTTTCCTTCT-AAGCACATAACTCCGTGGCACCC
1 TTTTT-CTTTTAAAGCCCACAACTCCGTGGCA-CC
*
242239 TTTTTCCTTTTAAAGCCCACGACTCCGTGGCA-C
1 TTTTT-CTTTTAAAGCCCACAACTCCGTGGCACC
242272 ----TC-TTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
*
242300 TTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTTC-TTTTAAAGCCCACAACTCCGTGGCAC-C
* *
242335 TTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATC
1 TTTTT--CTTTTAAAGCCCACAACTCCGTGGCACC
242369 TTT
1 TTT
242372 CTCCCTTCCT
Statistics
Matches: 338, Mismatches: 25, Indels: 56
0.81 0.06 0.13
Matches are distributed among these distances:
27 23 0.07
28 27 0.08
29 1 0.00
30 20 0.06
31 11 0.03
32 57 0.17
33 11 0.03
34 136 0.40
35 47 0.14
36 4 0.01
37 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.32
Consensus pattern (33 bp):
TTTTTCTTTTAAAGCCCACAACTCCGTGGCACC
Found at i:242136 original size:160 final size:158
Alignment explanation
Indices: 241952--242338 Score: 529
Period size: 160 Copynumber: 2.4 Consensus size: 158
241942 TGGCATTTTT
* * *
241952 TCTTCAAAGCCCACAACTCCGTGGCACCTT-TTCCTTTAAAGCCCACAACTCCGTGGCACCCTTT
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
*
242016 T-AAAGCCCACAATTCCGTGGCACT-TTTTTCATCTT-TAAGTC-CACAACTCCGTGGCA-CCTT
66 TAAAAGCCCACAACTCCGTGGCACTCTTTTTC--CTTCTAAG-CACACAACTCCGTGGCACCCTT
242076 TTT-C-TTTAAAGCCCACAACTCCGTGGCACCTTC
128 TTTCCTTTTAAAGCCCACAACTCCGTGGCA----C
242109 TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACT
1 -TC--TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT-AAAGCCCACAACTCCGTGGCAC-
* * *
242174 TTTTTTAAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGCACATAACTCCGTGGCACCC
61 TCTTTTAAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCACACAACTCCGTGGCACCC
*
242239 TTTTTCCTTTTAAAGCCCACGACTCCGTGGCAC
126 TTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC
242272 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTT
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTC-TTTTAAAGCCCACAACTCCGTGGCACTCTT
242337 TT
65 TT
242339 TCCCTTTTAA
Statistics
Matches: 207, Mismatches: 9, Indels: 25
0.86 0.04 0.10
Matches are distributed among these distances:
158 2 0.01
159 5 0.02
160 81 0.39
161 10 0.05
162 24 0.12
163 9 0.04
164 39 0.19
165 13 0.06
166 1 0.00
167 23 0.11
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.31
Consensus pattern (158 bp):
TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
TAAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCACACAACTCCGTGGCACCCTTTTT
CCTTTTAAAGCCCACAACTCCGTGGCAC
Found at i:242283 original size:194 final size:192
Alignment explanation
Indices: 241954--242371 Score: 530
Period size: 194 Copynumber: 2.2 Consensus size: 192
241944 GCATTTTTTC
241954 TTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACCCTTTTAA
1 TTCAAAGCCCACAACTCCGTGGCACCTTTT-CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAA
* * * *
242019 AGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTA
65 AGCACACAACTCCGTGGCACCTTTTTCATCTTTAAGCCCACAACTCCGTGGCACC---TTCTTTA
242084 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-CT
127 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCT
242147 T
192 T
* *
242148 TTCAAAGCCCACAACTCCGTGGCA-CTTTT-TTTAAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTCTTT-AAAGCCCACAACTCCGTGGCAC-C--CTT-
* * * *
242211 CTTCTAAGCACATAACTCCGTGGCACCCTTTTTCCT-TTTAAAGCCCACGACTCCGTGGCA-C-T
61 -TT-AAAGCACACAACTCCGTGGCA-CCTTTTTCATCTTT-AAGCCCACAACTCCGTGGCACCTT
*
242273 CTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
122 CTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTC
242338 TTCCCTT
187 TT-CCTT
* *
242345 TT--AAGTCCACAACTCCGTGGCATCTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTT
242372 CTCCCTTCCT
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
191 3 0.02
192 21 0.11
193 6 0.03
194 85 0.43
195 26 0.13
196 4 0.02
197 7 0.04
198 21 0.11
199 26 0.13
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (192 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTCTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAA
GCACACAACTCCGTGGCACCTTTTTCATCTTTAAGCCCACAACTCCGTGGCACCTTCTTTAAAGC
CCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCTT
Found at i:242285 original size:27 final size:27
Alignment explanation
Indices: 242247--242337 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 27
242237 CCTTTTTCCT
*
242247 TTTAAAGCCCACGACTCCGTGGCACTC
1 TTTAAAGCCCACAACTCCGTGGCACTC
242274 TTTAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTAAAGCCCACAACTCCGTGGCA----C-TC
242306 TTTTTAAAGCCCACAACTCCGTGGCACTC
1 --TTTAAAGCCCACAACTCCGTGGCACTC
242335 TTT
1 TTT
242338 TTCCCTTTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
27 26 0.46
29 2 0.04
30 1 0.02
31 1 0.02
32 2 0.04
34 24 0.43
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.29
Consensus pattern (27 bp):
TTTAAAGCCCACAACTCCGTGGCACTC
Found at i:242419 original size:33 final size:34
Alignment explanation
Indices: 242376--242440 Score: 123
Period size: 33 Copynumber: 1.9 Consensus size: 34
242366 ATCTTTCTCC
242376 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
242410 CTTCC-AAAGCCCACACAAGTCGGTGGCAACC
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACC
242441 CCTCTAAGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.28, C:0.37, G:0.18, T:0.17
Consensus pattern (34 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
Found at i:242527 original size:49 final size:49
Alignment explanation
Indices: 242470--243042 Score: 812
Period size: 49 Copynumber: 11.9 Consensus size: 49
242460 TGGCCTTTTC
* *
242470 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
242519 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
242568 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
242617 CATCTTTAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
242666 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
242715 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
242764 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
242813 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
242862 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
242907 C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
242954 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
242999 C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
243043 ATTTTCCATC
Statistics
Matches: 469, Mismatches: 46, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
43 78 0.17
45 2 0.00
47 1 0.00
48 1 0.00
49 386 0.82
50 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:242641 original size:98 final size:98
Alignment explanation
Indices: 242470--243041 Score: 1033
Period size: 98 Copynumber: 6.0 Consensus size: 98
242460 TGGCCTTTTC
242470 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
242535 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
66 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
242568 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
*
242633 ATCACTGGCCTTGAATCAGCATATTGGCATCTT
66 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
242666 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
242731 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
66 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
242764 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
242829 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
66 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
242862 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
242921 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
66 ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
*
242954 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAAT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
*
243013 ATAGCTGGCCTTGAATCAGCATATTGGCA
66 ATCGCTGGCCTTGAATCAGCATATTGGCA
243042 CATTTTCCAT
Statistics
Matches: 470, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
92 132 0.28
94 1 0.00
98 337 0.72
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (98 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
ATCGCTGGCCTTGAATCAGCATATTGGCATCTT
Found at i:242936 original size:92 final size:92
Alignment explanation
Indices: 242816--243041 Score: 434
Period size: 92 Copynumber: 2.5 Consensus size: 92
242806 GCACCTTCAT
242816 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
242881 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
242908 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
242973 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
243000 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
243042 CATTTTCCAT
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 132 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:243074 original size:42 final size:41
Alignment explanation
Indices: 242823--243076 Score: 195
Period size: 43 Copynumber: 5.7 Consensus size: 41
242813 CATCTTTAAG
* *
242823 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
1 TCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----CA--TTT-A
* * *
242871 GTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAA
1 -TCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTT-A
* *
242914 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
1 -TCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----CA--TTT-A
* *
242963 GTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAA
1 -TCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTT-A
*
243006 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTT-
1 -TCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTTA
* *
243047 TCCATCTTTAAGCTGGCCTTGAATCAGCAC
1 TCCA-ATAT-AGCTGGCCTTGAATCAGCAC
243077 GTTGACATCC
Statistics
Matches: 177, Mismatches: 20, Indels: 23
0.80 0.09 0.10
Matches are distributed among these distances:
40 4 0.02
41 2 0.01
42 19 0.11
43 80 0.45
45 2 0.01
47 1 0.01
49 69 0.39
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (41 bp):
TCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTTA
Found at i:243280 original size:171 final size:168
Alignment explanation
Indices: 243000--243384 Score: 602
Period size: 171 Copynumber: 2.3 Consensus size: 168
242990 ACATTGGCAC
* *
243000 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA---CAT-TTTCCATCTTTAAGCT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTCAATCTGTAAGCT
243061 GGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAAT
66 GGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAAT
*
243126 CAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
131 CAACATATTAGCATCTTTATCACTTTTCTCATCATCAT
* *
243164 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTT-AAGTTCAATGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTTCAA--TC--TGT
*
243228 -AGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCA
61 AAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
*
243292 TGAATCAACATATTAGCATCTTTATCACTTTTCTCATCTTCAT
126 TGAATCAACATATTAGCATCTTTATCACTTTTCTCATCATCAT
*
243335 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATC
243385 ATCTCTAAAA
Statistics
Matches: 202, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
164 40 0.20
168 4 0.02
169 3 0.01
170 2 0.01
171 151 0.75
172 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (168 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTCAATCTGTAAGCT
GGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAAT
CAACATATTAGCATCTTTATCACTTTTCTCATCATCAT
Found at i:244220 original size:33 final size:33
Alignment explanation
Indices: 244183--244249 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
244173 TTCAACGATT
244183 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
244216 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
244249 T
1 T
244250 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:244221 original size:13 final size:13
Alignment explanation
Indices: 244203--244227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
244193 CATAAAATGT
244203 TGTATCGATACAA
1 TGTATCGATACAA
244216 TGTATCGATACA
1 TGTATCGATACA
244228 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:244310 original size:13 final size:13
Alignment explanation
Indices: 244292--244316 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
244282 ATTACTCACA
244292 TGTATCGATACAT
1 TGTATCGATACAT
244305 TGTATCGATACA
1 TGTATCGATACA
244317 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:244453 original size:52 final size:52
Alignment explanation
Indices: 244325--244445 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
244315 CACTGATCTT
*
244325 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
244377 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
244429 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
244446 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:250741 original size:52 final size:52
Alignment explanation
Indices: 250663--250791 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
250653 CGAAATATGA
*
250663 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
250715 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
250767 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
250792 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:250903 original size:32 final size:33
Alignment explanation
Indices: 250862--250930 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
250852 GGCAGTAGCT
250862 TACATTGTATCGATACAA-AACTTATGTATCGA
1 TACATTGTATCGATACAACAACTTATGTATCGA
*
250894 TACATTGTATCGATACAACACCTTATGTATCGA
1 TACATTGTATCGATACAACAACTTATGTATCGA
250927 TACA
1 TACA
250931 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 18 0.51
33 17 0.49
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (33 bp):
TACATTGTATCGATACAACAACTTATGTATCGA
Found at i:250904 original size:13 final size:13
Alignment explanation
Indices: 250886--250910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
250876 ACAAAACTTA
250886 TGTATCGATACAT
1 TGTATCGATACAT
250899 TGTATCGATACA
1 TGTATCGATACA
250911 ACACCTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:253674 original size:9 final size:9
Alignment explanation
Indices: 253660--253729 Score: 81
Period size: 9 Copynumber: 7.8 Consensus size: 9
253650 CGTCTTTCGT
253660 ACAAAAAAA
1 ACAAAAAAA
253669 ACAAAAAAA
1 ACAAAAAAA
253678 AC-AAAAAA
1 ACAAAAAAA
*
253686 A-ATAAAAA
1 ACAAAAAAA
253694 ACAGAAAAAA
1 ACA-AAAAAA
*
253704 CCAAAAACAA
1 ACAAAAA-AA
*
253714 ACAAAACAA
1 ACAAAAAAA
253723 ACAAAAA
1 ACAAAAA
253730 TGGGTCCAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
8 13 0.25
9 24 0.47
10 14 0.27
ACGTcount: A:0.83, C:0.14, G:0.01, T:0.01
Consensus pattern (9 bp):
ACAAAAAAA
Found at i:253685 original size:16 final size:16
Alignment explanation
Indices: 253660--253723 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
253650 CGTCTTTCGT
253660 ACAAAAAAAACAAAAAAA
1 ACAAAAAAAAC--AAAAA
*
253678 ACAAAAAAAATAAAAA
1 ACAAAAAAAACAAAAA
* *
253694 ACAGAAAAAACCAAAA
1 ACAAAAAAAACAAAAA
*
253710 ACAAACAAAACAAA
1 ACAAAAAAAACAAA
253724 CAAAAATGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
16 29 0.74
18 10 0.26
ACGTcount: A:0.83, C:0.14, G:0.02, T:0.02
Consensus pattern (16 bp):
ACAAAAAAAACAAAAA
Found at i:253701 original size:25 final size:27
Alignment explanation
Indices: 253664--253729 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 27
253654 TTTCGTACAA
*
253664 AAAAAACAAAAAAAA-CAAAAA-AAAT
1 AAAAAACAAAAAAAACCAAAAACAAAC
*
253689 AAAAAACAGAAAAAACCAAAAACAAAC
1 AAAAAACAAAAAAAACCAAAAACAAAC
253716 AAAACAAACAAAAA
1 -AAA-AAACAAAAA
253730 TGGGTCCAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 14 0.41
26 6 0.18
27 3 0.09
28 3 0.09
29 8 0.24
ACGTcount: A:0.83, C:0.14, G:0.02, T:0.02
Consensus pattern (27 bp):
AAAAAACAAAAAAAACCAAAAACAAAC
Found at i:255191 original size:89 final size:84
Alignment explanation
Indices: 254978--255812 Score: 661
Period size: 89 Copynumber: 9.5 Consensus size: 84
254968 ACGTTCATCT
* * * * *
254978 TTTCAAAGCCCATAGGTTAGTGGCA-TCTTTTCAAAGCCCACAAGTCAATGGCACATTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-TCTTCAAAG
* *
255042 CCCACAAGTCAGTGGCATACCT
65 CCCACAAGTCAGT-G-ACACCC
* *
255064 TTTCAAAGCCCACACAAGTCGGTGGCAATTCTTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCA-CTCTTC-
*
255129 AAAGCCCACAAGTTAGTGACACCC
61 AAAGCCCACAAGTCAGTGACACCC
* * *
255153 TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAATGGCACCCTTTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTCA
*
255218 AAGCCCACAAGTCAGTGGCATACCC
62 AAGCCCACAAGTCAGT-G-ACACCC
* * *
255243 TTTCAAAGCCCACATAAGTCGGTGGCAACTCTTTTCAAAGCTCACAAGTCAGTGGCACCCTTTCA
1 TTTCAAAGCCCAC--AAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTCA
* * *
255308 AAGCCCACACAAGTCGGTGGCAACTCT
62 AAG-CC-CACAAGTCAGTGAC-AC-CC
* * * *
255335 TTTCAAAGCCCACAAGTCAGTGGCA-TCTCTTCAAAAGACCGCAAGTTAGTGGCA-TCCTTTCAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC-AAAGCCCACAAGTCAGTGGCACT-C-TTCAA
* *
255398 AGCCCACAAGTTAGTAGCATACCC
63 AGCCCACAAGTCAGT-G-ACACCC
* *
255422 TTTCAAAGCCCACAAGTCGGTGGCAC-CCTTTCAAAGCCCACACAAGTCAGTGGCAACTCTTTTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGTGGC-ACTC--TTC
* * * *
255486 AAAGCCCACAAATCAATGGCA-TC
61 AAAGCCCACAAGTCAGTGACACCC
* * **
255509 TCTTCAAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACACAAGTCGGTAGTAACTCTTT
1 T-TTC-AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGT-GGCACTC--T
* * *
255573 TCAAAGCCCACAAGTTAGTGGCA-TC
59 TCAAAGCCCACAAGTCAGTGACACCC
* * * *
255598 TCTTCAAAAGCCCACAAGTTAGTGGCA-TCTCTTCAAAGCCCACACAAATCAGTGGCACCCTTAC
1 T-TTC-AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGTGGCACTCTT-C
*
255662 AAAGCCCACAAGTCAGTGGCACCC
61 AAAGCCCACAAGTCAGTGACACCC
* * * *
255686 TTTCAAAGCCCACAATTCAGTGGCAC-CCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCACAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTCA-AA
* *
255750 -CCCAAAAGTCAATAGTAC-CCC
64 GCCCACAAGTCAGT-G-ACACCC
* **
255771 -TTCAAAGCCCACAAGTCAATGGCA-TCCCCTTCAAAGCCCACA
1 TTTCAAAGCCCACAAGTCAGTGGCACT-CTTTTCAAAGCCCACA
255813 TAAGTTAGTG
Statistics
Matches: 637, Mismatches: 74, Indels: 77
0.81 0.09 0.10
Matches are distributed among these distances:
84 52 0.08
85 24 0.04
86 41 0.06
87 67 0.11
88 64 0.10
89 217 0.34
90 126 0.20
91 22 0.03
92 24 0.04
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (84 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTCAAAGC
CCACAAGTCAGTGACACCC
Found at i:255227 original size:147 final size:144
Alignment explanation
Indices: 254973--255812 Score: 832
Period size: 147 Copynumber: 5.7 Consensus size: 144
254963 CTAAAACGTT
* * * * * * * *
254973 CATCTTTTCAAAGCCCATAGGTTAGTGGCATCTTTTCAAAG-CC-CACAAGTCAATGGC-AC-AT
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCT
* * * * *
255034 TTTCAAAGCCCACAAGTCAGTGGCATACCTTTTCAAAGCCCACACAAGTCGGTGGCAATTCTTTT
66 TTTCAAAGCCCACAAGTCAATGGC--ACCCTTTCAAAG-CC-CACAAGTCAGTGGC-A-CCCTTT
255099 CAAAGCCCACAAGTCAGTGG
125 CAAAGCCCACAAGTCAGTGG
* * *
255119 CATCTCTTCAAAAGCCCACAAGTTAGTGACACCCTTTCAAAGCCCACACAAGTCGGTGGCAACTC
1 CATCTCTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTC
255184 TTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAA
65 TTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ACCCTTTCAA
*
255249 AGCCCACATAAGTCGGTGG
128 AGCCCAC--AAGTCAGTGG
* * *
255268 CAACTCTTTTCAAAGCTCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCGGTGGCAACT
1 C-A-TCTCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACT
* * * * * *
255333 CTTTTCAAAGCCCACAAGTCAGTGGCA-TCTCTTCAAAAGACCGCAAGTTAGTGGCATCCTTTCA
64 CTTTTCAAAGCCCACAAGTCAATGGCACCCT-TTC-AAAGCCCACAAGTCAGTGGCACCCTTTCA
* *
255397 AAGCCCACAAGTTAGTAG
127 AAGCCCACAAGTCAGTGG
* *
255415 CATACCCTTTCAAAGCCCACAAGTCGGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACT
1 CAT-CTC-TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACT
* *
255480 CTTTTCAAAGCCCACAAATCAATGGCA-TCTCTTCAAAAGCCCACAAGTCAGTGGCACCCTTTCA
64 CTTTTCAAAGCCCACAAGTCAATGGCACCCT-TTC-AAAGCCCACAAGTCAGTGGCACCCTTTCA
* *
255544 AAGCCCACACAAGTCGGTAGT
127 AAG-CC-CACAAGTCAGT-GG
* * * * *
255565 AACTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCTCTTCAAAAG-CC-CACAAGTTAGTGGC-A-
1 CA-TCTCTTCAAAGCCCACAAGTCAGTGGCACCCT-TTC-AAAGCCCACACAAGTCAGTGGCAAC
* * * *
255625 TCTCTTCAAAGCCCACACAAATCAGTGGCACCCTTACAAAGCCCACAAGTCAGTGGCACCCTTTC
63 TCTTTTCAAAG-CC-CACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
*
255690 AAAGCCCACAATTCAGTGG
126 AAAGCCCACAAGTCAGTGG
* * * *
255709 CA-CCCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCACAA-CCCA-A-AAGTCAATAG-TAC-
1 CATCTCTT-CAAAGCCCACAAGTCAGTGGCACCCTTTCA-AAGCCCACACAAGTCAGTGGCAACT
** *
255768 CCCTTCAAAGCCCACAAGTCAATGGCATCCCCTTCAAAGCCCACA
64 CTTTTCAAAGCCCACAAGTCAATGGCA-CCCTTTCAAAGCCCACA
255813 TAAGTTAGTG
Statistics
Matches: 592, Mismatches: 71, Indels: 67
0.81 0.10 0.09
Matches are distributed among these distances:
140 13 0.02
141 17 0.03
142 21 0.04
143 29 0.05
144 4 0.01
145 10 0.02
146 22 0.04
147 212 0.36
148 38 0.06
149 89 0.15
150 89 0.15
151 48 0.08
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (144 bp):
CATCTCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCT
TTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
CCACAAGTCAGTGG
Found at i:255680 original size:28 final size:28
Alignment explanation
Indices: 254978--255812 Score: 755
Period size: 28 Copynumber: 28.5 Consensus size: 28
254968 ACGTTCATCT
* * * * *
254978 TTTCAAAGCCCATAGGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* **
255006 TTTCAAAGCCCACAAGTCAATGGCACAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
255034 TTTCAAAGCCCACAAGTCAGTGGCATACCT
1 TTTCAAAGCCCACAAGTCAGTGGC--ACCC
* * *
255064 TTTCAAAGCCCACACAAGTCGGTGGCAATTCT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCC
*
255096 TTTCAAAGCCCACAAGTCAGTGGCA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
255123 TCTTCAAAAGCCCACAAGTTAGTGACACCC
1 T-TTC-AAAGCCCACAAGTCAGTGGCACCC
* *
255153 TTTCAAAGCCCACACAAGTCGGTGGCAACTCT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
*
255185 TTTCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
255213 TTTCAAAGCCCACAAGTCAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACCC
* *
255243 TTTCAAAGCCCACATAAGTCGGTGGCAACTCT
1 TTTCAAAGCCCAC--AAGTCAGTGGC-AC-CC
*
255275 TTTCAAAGCTCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
255303 TTTCAAAGCCCACACAAGTCGGTGGCAACTCT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
*
255335 TTTCAAAGCCCACAAGTCAGTGGCA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
255362 TCTTCAAAAGACCGCAAGTTAGTGGCATCC
1 T-TTC-AAAGCCCACAAGTCAGTGGCACCC
* *
255392 TTTCAAAGCCCACAAGTTAGTAGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACCC
*
255422 TTTCAAAGCCCACAAGTCGGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
255450 TTTCAAAGCCCACACAAGTCAGTGGCAACTCT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
* * *
255482 TTTCAAAGCCCACAAATCAATGGCA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
255509 TCTTCAAAAGCCCACAAGTCAGTGGCACCC
1 T-TTC-AAAGCCCACAAGTCAGTGGCACCC
* ** *
255539 TTTCAAAGCCCACACAAGTCGGTAGTAACTCT
1 TTTCAAAG-CC-CACAAGTCAGT-GGCAC-CC
* *
255571 TTTCAAAGCCCACAAGTTAGTGGCA-TC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
255598 TCTTCAAAAGCCCACAAGTTAGTGGCA-TC
1 T-TTC-AAAGCCCACAAGTCAGTGGCACCC
*
255627 TCTTCAAAGCCCACACAAATCAGTGGCACCC
1 T-TTCAAAG-CC-CACAAGTCAGTGGCACCC
*
255658 TTACAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
255686 TTTCAAAGCCCACAATTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
255714 TTCCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
255742 TTTCACAA-CCCAAAAGTCAATAGTACCC
1 TTTCA-AAGCCCACAAGTCAGTGGCACCC
* *
255770 CTTCAAAGCCCACAAGTCAATGGCATCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
*
255799 CTTCAAAGCCCACA
1 TTTCAAAGCCCACA
255813 TAAGTTAGTG
Statistics
Matches: 677, Mismatches: 85, Indels: 89
0.80 0.10 0.10
Matches are distributed among these distances:
27 6 0.01
28 238 0.35
29 132 0.19
30 193 0.29
31 26 0.04
32 82 0.12
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:256006 original size:48 final size:48
Alignment explanation
Indices: 255935--256066 Score: 192
Period size: 48 Copynumber: 2.8 Consensus size: 48
255925 GGCACCTTTA
*
255935 TTAGCTCAATGTCTTTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGTTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * *
255983 TTAGCTCAATGTCGCTAGCCTTGAATCAGTACATTGTCCATTTTTCCC
1 TTAGCTCAATGTCGTTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * **
256031 TTAGCTCGATGTCGTTGGCCTTGAATTGGCACATTG
1 TTAGCTCAATGTCGTTAGCCTTGAATCAGCACATTG
256067 GCACTCCTCT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (48 bp):
TTAGCTCAATGTCGTTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:256801 original size:20 final size:20
Alignment explanation
Indices: 256776--256921 Score: 94
Period size: 20 Copynumber: 6.8 Consensus size: 20
256766 TTTTACCTAG
256776 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
256796 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
256816 ATGTATCGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
*
256846 GACGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * * *
256867 ATGTATAGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
256887 ATGTATCGATATATTATTCG
1 ATGTATCGATACATTTTTCA
256907 ATGTATCGATACATT
1 ATGTATCGATACATT
256922 CTGTCTTTTT
Statistics
Matches: 95, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
20 72 0.76
21 2 0.02
24 5 0.05
27 3 0.03
30 1 0.01
31 12 0.13
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:256881 original size:71 final size:71
Alignment explanation
Indices: 256765--256897 Score: 239
Period size: 71 Copynumber: 1.9 Consensus size: 71
256755 AAAAGTCACA
* * *
256765 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGACGTATCGATACATTTTTCAATGTATAGATACATGTATGAATGTATCGATACAT
256830 TCTGTC
66 TCTGTC
256836 TTTTTACCCAGACGTATCGATACATTTTTCAATGTATAGATACATGTATGAATGTATCGATA
1 TTTTTACCCAGACGTATCGATACATTTTTCAATGTATAGATACATGTATGAATGTATCGATA
256898 TATTATTCGA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (71 bp):
TTTTTACCCAGACGTATCGATACATTTTTCAATGTATAGATACATGTATGAATGTATCGATACAT
TCTGTC
Found at i:256931 original size:91 final size:91
Alignment explanation
Indices: 256776--256974 Score: 276
Period size: 91 Copynumber: 2.2 Consensus size: 91
256766 TTTTACCTAG
* *
256776 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTT
1 ATGTATCGATACATGTATCAATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTT
* *
256841 ACCCAGACGTATCGATACATTTTTCA
66 ACCCAAACATATCGATACATTTTTCA
* * *
256867 ATGTATAGATACATGTATGAATGTATCGATATAT-TATTCG-ATGTATCGATACATTCTGTCTTT
1 ATGTATCGATACATGTATCAATGTATCGATACATGTA-T-GAATGTATCGATACATTCTGTCTTT
** *
256930 TTTTCCAAATATATCGATACATTTTTCA
64 TTACCCAAACATATCGATACATTTTTCA
256958 ATGTATCGATACATGTA
1 ATGTATCGATACATGTA
256975 GTTAAAATTA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
90 2 0.02
91 92 0.97
92 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (91 bp):
ATGTATCGATACATGTATCAATGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTT
ACCCAAACATATCGATACATTTTTCA
Found at i:260464 original size:18 final size:20
Alignment explanation
Indices: 260422--260465 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
260412 GGCTAAACAC
*
260422 TACCTTTAATACACCTCTTA
1 TACCTTTAATACACCACTTA
*
260442 AACCTTTAA-AC-CCACTTA
1 TACCTTTAATACACCACTTA
260460 TACCTT
1 TACCTT
260466 AACCATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 11 0.52
19 2 0.10
20 8 0.38
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (20 bp):
TACCTTTAATACACCACTTA
Found at i:264341 original size:2 final size:2
Alignment explanation
Indices: 264334--264374 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
264324 AAATAATTAG
264334 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
264375 TTATGTATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:266329 original size:29 final size:30
Alignment explanation
Indices: 266284--266343 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
266274 ATTTGCATTA
*
266284 ACGTCAAGAAACTAAAGTAAAG-TTGTTAG
1 ACGTCAAGAAACAAAAGTAAAGTTTGTTAG
266313 ACGTCAAGAAACAAAAGTAAAGTTTGTTAG
1 ACGTCAAGAAACAAAAGTAAAGTTTGTTAG
266343 A
1 A
266344 TCCAATGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (30 bp):
ACGTCAAGAAACAAAAGTAAAGTTTGTTAG
Found at i:266823 original size:15 final size:15
Alignment explanation
Indices: 266803--266831 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
266793 AATTGGATCA
266803 AAATAAATATTTGAT
1 AAATAAATATTTGAT
266818 AAATAAATATTTGA
1 AAATAAATATTTGA
266832 ATTCTAGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
AAATAAATATTTGAT
Found at i:268239 original size:166 final size:165
Alignment explanation
Indices: 267927--268374 Score: 519
Period size: 166 Copynumber: 2.7 Consensus size: 165
267917 TTTTTACTGG
* * * * * *
267927 AATTCGAAAGATGTGACTAATGCATGGATTCTGTTTGGGAATAAATGTGATTAATGCATATATTT
1 AATTCGAAAAATGAGACTAATGCATGGATTATATTTTGGAATAAATGTGATTAATGCATA-AATT
* * * ** *
267992 TTTATAGGAATCAGATTCCTTCTGATAT-AACATAAGTTGATAAGACTAATGTATGAATTGTAAA
65 TTTATGGGAATCAGATTCCTTCTGACATGAA-AGAAGTTGATAAGACTAATACATGAATTGAAAA
* * * *
268056 TTTTAGACTGTAAAAATTAGACTAATGCATGGATTAG-
129 TGTCAGACTGCAAAAATTAGACTAATGCATGAATT-GT
* *
268093 AATTC-AAAATAT-AGGACTAATACATGGATTTTATTTTGGAATAAATGTGATTAATGCATAAAT
1 AATTCGAAAA-ATGA-GACTAATGCATGGATTATATTTTGGAATAAATGTGATTAATGCATAAAT
* *
268156 TTCTTATGGGAATCAGATTCCTTCTAACATGAAAGAAGTTGATAAGATTAATACAT-AGATTGAA
64 TT-TTATGGGAATCAGATTCCTTCTGACATGAAAGAAGTTGATAAGACTAATACATGA-ATTGAA
* *
268220 AATGTCAGATTGCAAAAATTAGACTAATGCATTAATTGT
127 AATGTCAGACTGCAAAAATTAGACTAATGCATGAATTGT
* * * *
268259 AATTCGAAAAATGAGACTAATGCGTGAATTATATTTTGGAATAAATGTGAGTAATGCATAGATTA
1 AATTCGAAAAATGAGACTAATGCATGGATTATATTTTGGAATAAATGTGATTAATGCATAAATT-
* * * *
268324 TTGATGGAAATTAGATTCGTTCTGACATGAAAGAAGTTGATAAGACTAATA
65 TTTATGGGAATCAGATTCCTTCTGACATGAAAGAAGTTGATAAGACTAATA
268375 AATTATGCAT
Statistics
Matches: 240, Mismatches: 33, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
165 9 0.04
166 223 0.93
167 8 0.03
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (165 bp):
AATTCGAAAAATGAGACTAATGCATGGATTATATTTTGGAATAAATGTGATTAATGCATAAATTT
TTATGGGAATCAGATTCCTTCTGACATGAAAGAAGTTGATAAGACTAATACATGAATTGAAAATG
TCAGACTGCAAAAATTAGACTAATGCATGAATTGT
Found at i:271581 original size:13 final size:13
Alignment explanation
Indices: 271563--271589 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
271553 TACAAAGATT
271563 AATGTATCGATAC
1 AATGTATCGATAC
271576 AATGTATCGATAC
1 AATGTATCGATAC
271589 A
1 A
271590 TTGAGTAATG
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:271585 original size:33 final size:33
Alignment explanation
Indices: 271547--271609 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
271537 TTCCTAGATA
* *
271547 TATCGATACAAAGATTAATGTATCGATACAATG
1 TATCGATACAAAGAGTAATGTATCAATACAATG
**
271580 TATCGATACATTGAGTAATGTATCAATACA
1 TATCGATACAAAGAGTAATGTATCAATACA
271610 TTTCCTTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (33 bp):
TATCGATACAAAGAGTAATGTATCAATACAATG
Found at i:271663 original size:17 final size:17
Alignment explanation
Indices: 271641--271684 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
271631 AGCGATACAT
*
271641 TGTATCGACAACACTTA
1 TGTATCGACAAAACTTA
271658 TGTATCGATACAAAACTTA
1 TGTATCG--ACAAAACTTA
271677 TGTATCGA
1 TGTATCGA
271685 TACATTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.33
19 16 0.67
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (17 bp):
TGTATCGACAAAACTTA
Found at i:271675 original size:19 final size:19
Alignment explanation
Indices: 271648--271688 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
271638 CATTGTATCG
*
271648 ACAACACTTATGTATCGAT
1 ACAAAACTTATGTATCGAT
271667 ACAAAACTTATGTATCGAT
1 ACAAAACTTATGTATCGAT
271686 ACA
1 ACA
271689 TTTACTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (19 bp):
ACAAAACTTATGTATCGAT
Found at i:274860 original size:13 final size:13
Alignment explanation
Indices: 274844--274872 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
274834 ATACCTTATA
274844 AAAATTACTTAAT
1 AAAATTACTTAAT
274857 AAAATTACTTAAT
1 AAAATTACTTAAT
274870 AAA
1 AAA
274873 TACTAACCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAATTACTTAAT
Found at i:275887 original size:20 final size:20
Alignment explanation
Indices: 275848--275887 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
275838 TTTTATTTTC
*
275848 ATATTATATTTATATTTAAA
1 ATATTATATTTATATATAAA
275868 ATATTATATATT-TATATAAA
1 ATATTATAT-TTATATATAAA
275888 TTTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTATATTTATATATAAA
Found at i:276741 original size:2 final size:2
Alignment explanation
Indices: 276736--276770 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
276726 TTCTTTATTA
276736 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
276771 GTGCTATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:279215 original size:19 final size:18
Alignment explanation
Indices: 279172--279205 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
279162 ACTAATCAAT
279172 AAAT-TTTTATATTTTTC
1 AAATATTTTATATTTTTC
279189 AAATATTTTATATTTTT
1 AAATATTTTATATTTTT
279206 TAATTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
AAATATTTTATATTTTTC
Found at i:279593 original size:19 final size:17
Alignment explanation
Indices: 279546--279587 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
279536 TTTTTATTTA
279546 ATTTAATTATAAAAATAT
1 ATTTAA-TATAAAAATAT
279564 ATTTAATATAAAAATAT
1 ATTTAATATAAAAATAT
279581 -TTTAATA
1 ATTTAATA
279588 ATATAATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.29
17 11 0.46
18 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAATATAAAAATAT
Found at i:280822 original size:16 final size:15
Alignment explanation
Indices: 280780--280825 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
280770 AGAAAAATAT
280780 ATTTTTCATCTTTTCA
1 ATTTTTCATC-TTTCA
* *
280796 CTTTTTTATCTTTCA
1 ATTTTTCATCTTTCA
280811 ATTTTTCAATCTTTC
1 ATTTTTC-ATCTTTC
280826 CAAAATTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTTTCATCTTTCA
Found at i:285611 original size:34 final size:36
Alignment explanation
Indices: 285568--285672 Score: 96
Period size: 34 Copynumber: 3.1 Consensus size: 36
285558 TTATTTAGTT
*
285568 AAATT-ATTATTTAATAATA-A-AAATAATT-ATTTA
1 AAATTAATTATTTAATAATATATAAAT-ATTAATATA
*
285601 AAATTAATTA--TAATAATATATAAATTTTAATATA
1 AAATTAATTATTTAATAATATATAAATATTAATATA
* * * * *
285635 AAATTAATTTTTTAATATTATTTAAATAATAAAATA
1 AAATTAATTATTTAATAATATATAAATATTAATATA
285671 AA
1 AA
285673 TTATTAAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
32 8 0.14
33 8 0.14
34 21 0.36
36 21 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (36 bp):
AAATTAATTATTTAATAATATATAAATATTAATATA
Found at i:285643 original size:17 final size:17
Alignment explanation
Indices: 285599--285645 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
285589 AATAATTATT
*
285599 TAAAATTAATTATAATA
1 TAAAATTAATTTTAATA
* *
285616 -ATATATAAATTTTAATA
1 TA-AAATTAATTTTAATA
285633 TAAAATTAATTTT
1 TAAAATTAATTTT
285646 TTAATATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATTAATTTTAATA
Found at i:285643 original size:48 final size:48
Alignment explanation
Indices: 285577--285690 Score: 135
Period size: 48 Copynumber: 2.4 Consensus size: 48
285567 TAAATTATTA
*
285577 TTTAATAATAAAAATAATTATTTAAAATTAATTATAATAAT-ATATAAAT
1 TTTAAT-ATAAAAATAATTATTTAAAATTAATTA-AATAATAAAATAAAT
* * * *
285626 TTTAATATAAAATTAATTTTTTAATATTATTTAAATAATAAAATAAAT
1 TTTAATATAAAAATAATTATTTAAAATTAATTAAATAATAAAATAAAT
285674 TATTAA-ATAAAAA-AATT
1 T-TTAATATAAAAATAATT
285691 TTGAAGTGAG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
47 10 0.18
48 37 0.65
49 10 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (48 bp):
TTTAATATAAAAATAATTATTTAAAATTAATTAAATAATAAAATAAAT
Found at i:285681 original size:20 final size:21
Alignment explanation
Indices: 285651--285689 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
285641 ATTTTTTAAT
*
285651 ATTATTTAAATAATAAAATAA
1 ATTATTTAAATAAAAAAATAA
285672 ATTA-TTAAATAAAAAAAT
1 ATTATTTAAATAAAAAAAT
285690 TTTGAAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTATTTAAATAAAAAAATAA
Found at i:286187 original size:18 final size:20
Alignment explanation
Indices: 286143--286188 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
286133 GACGTGGACG
286143 AGATTAATAATAAATTAGTTA
1 AGATTAATAATAAA-TAGTTA
**
286164 TTATTAATAATAAA-A-TTA
1 AGATTAATAATAAATAGTTA
286182 AGATTAA
1 AGATTAA
286189 AATTAATGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
18 8 0.38
19 1 0.05
21 12 0.57
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (20 bp):
AGATTAATAATAAATAGTTA
Found at i:286286 original size:14 final size:15
Alignment explanation
Indices: 286260--286288 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
286250 ATCATTAAGG
286260 ATATTATTATTAAAA
1 ATATTATTATTAAAA
286275 ATATTA-TATTAAAA
1 ATATTATTATTAAAA
286289 TTTATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATTATTATTAAAA
Found at i:286333 original size:69 final size:69
Alignment explanation
Indices: 286273--286419 Score: 178
Period size: 69 Copynumber: 2.2 Consensus size: 69
286263 TTATTATTAA
*
286273 AAATAT-TATATTAAAATTTATA-T-AATAAATAATTAAAAATTATTTAA-ATTATATTTATATT
1 AAATATATAAATTAAAATTTATATTAAAT-AATAATTAAAAA-TA-TTAATATTATATTTATATT
286334 AAATAAT
63 AAATAAT
*** *
286341 AAATATATAAATTTGTATTTATATTAAATAATAATTAAAAATATTAATATTATATTTATAATAAA
1 AAATATATAAATTAAAATTTATATTAAATAATAATTAAAAATATTAATATTATATTTATATTAAA
286406 -AAT
66 TAAT
*
286409 AAATATTTAAA
1 AAATATATAAA
286420 AATTATATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
68 23 0.33
69 30 0.43
70 13 0.19
71 3 0.04
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (69 bp):
AAATATATAAATTAAAATTTATATTAAATAATAATTAAAAATATTAATATTATATTTATATTAAA
TAAT
Found at i:286335 original size:16 final size:16
Alignment explanation
Indices: 286312--286369 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
286302 TAATTAAAAA
286312 TTAT-TTAAATTATAT
1 TTATATTAAATTATAT
* *
286327 TTATATTAAATAATAA
1 TTATATTAAATTATAT
* *
286343 ATATA-TAAATTTGTAT
1 TTATATTAAA-TTATAT
286359 TTATATTAAAT
1 TTATATTAAAT
286370 AATAATTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 8 0.24
16 21 0.64
17 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TTATATTAAATTATAT
Found at i:286390 original size:26 final size:26
Alignment explanation
Indices: 286356--286409 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
286346 TATAAATTTG
*
286356 TATTTATATTA-AATAATAATTAAAAA
1 TATTAATATTATAATAATAA-TAAAAA
* *
286382 TATTAATATTATATTTATAATAAAAA
1 TATTAATATTATAATAATAATAAAAA
286408 TA
1 TA
286410 AATATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TATTAATATTATAATAATAATAAAAA
Found at i:286429 original size:69 final size:70
Alignment explanation
Indices: 286288--286447 Score: 197
Period size: 69 Copynumber: 2.3 Consensus size: 70
286278 TTATATTAAA
*
286288 ATTTATA-T-AATAAATAATTAAAAATTATTTAAATTATATTTATATTAAATAATAAATATATAA
1 ATTTATATTAAAT-AATAATTAAAAATTATTTAAATTATATTTATAATAAATAATAAATATATAA
* *
286351 ATTTGT
65 AATTAT
*
286357 ATTTATATTAAATAATAATTAAAAA-TA-TTAATATTATATTTATAATAAA-AATAAATATTTAA
1 ATTTATATTAAATAATAATTAAAAATTATTTAA-ATTATATTTATAATAAATAATAAATATAT-A
286419 AAATTAT
64 AAATTAT
*
286426 ATTTACATTTAAA-AATAATTAA
1 ATTTATA-TTAAATAATAATTAA
286448 TGAAATAAAT
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
68 14 0.17
69 46 0.57
70 18 0.22
71 3 0.04
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (70 bp):
ATTTATATTAAATAATAATTAAAAATTATTTAAATTATATTTATAATAAATAATAAATATATAAA
ATTAT
Found at i:286430 original size:32 final size:31
Alignment explanation
Indices: 286313--286430 Score: 94
Period size: 32 Copynumber: 3.6 Consensus size: 31
286303 AATTAAAAAT
*
286313 TATTT-AAATTATATTTATATTAAATAATAAA
1 TATTTAAAATTATATTTATAATAAA-AATAAA
* * * *
286344 TATATAAATTTGTATTTATATTAAATAATAATTAAA
1 TATTTAAAATTATA-TT-TA-T-AATAA-AAATAAA
* *
286380 AATATTAATATTATATTTATAATAAAAATAAA
1 TAT-TTAAAATTATATTTATAATAAAAATAAA
286412 TATTTAAAAATTATATTTA
1 TATTT-AAAATTATATTTA
286431 CATTTAAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 15
0.70 0.14 0.16
Matches are distributed among these distances:
31 6 0.09
32 26 0.39
33 7 0.11
34 3 0.05
35 3 0.05
36 13 0.20
37 8 0.12
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
TATTTAAAATTATATTTATAATAAAAATAAA
Found at i:286831 original size:31 final size:31
Alignment explanation
Indices: 286766--286832 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
286756 AAAATAAAAA
286766 TTTATTTTTTAAAAAATTAATAATAAATAATT
1 TTTATTTTTTAAAAAA-TAATAATAAATAATT
* * *
286798 TTTATTTTTTATAAAA-AATACATAATTATTT
1 TTTATTTTTTAAAAAATAATA-ATAAATAATT
286829 TTTA
1 TTTA
286833 ATTTATATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 4 0.13
31 12 0.39
32 15 0.48
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (31 bp):
TTTATTTTTTAAAAAATAATAATAAATAATT
Found at i:287254 original size:19 final size:20
Alignment explanation
Indices: 287230--287269 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
287220 TATTTATAAA
287230 AATTTAGTAA-TTTTTAATT
1 AATTTAGTAACTTTTTAATT
*
287249 AATTTATTAACTTTTTAATT
1 AATTTAGTAACTTTTTAATT
287269 A
1 A
287270 TGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
AATTTAGTAACTTTTTAATT
Found at i:287372 original size:19 final size:21
Alignment explanation
Indices: 287353--287430 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
287343 AAATAATATT
*
287353 ATTTTTATATT-TTATCATTA
1 ATTTTAATATTATTATCATTA
*
287373 ATTTTAATATTATTATTA-TA
1 ATTTTAATATTATTATCATTA
* * *
287393 ATATATAATTTTATTAT-TTTA
1 AT-TTTAATATTATTATCATTA
*
287414 ATTTTTAATTTTATTAT
1 A-TTTTAATATTATTAT
287431 TATATTATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 14 0.29
21 33 0.69
22 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTAATATTATTATCATTA
Found at i:287401 original size:21 final size:21
Alignment explanation
Indices: 287377--287434 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
287367 TCATTAATTT
*
287377 TAATATTATTATTATAATATA
1 TAATTTTATTATTATAATATA
* * *
287398 TAATTTTATTATTTTAATTTT
1 TAATTTTATTATTATAATATA
287419 TAATTTTATTATTATA
1 TAATTTTATTATTATA
287435 TTATTTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TAATTTTATTATTATAATATA
Found at i:289590 original size:38 final size:39
Alignment explanation
Indices: 289502--289764 Score: 176
Period size: 37 Copynumber: 7.0 Consensus size: 39
289492 TGTGGCATAT
* ** *
289502 GTTA-AAACAAAAACTACTATTC-TAATCTAGTGGCAC-A
1 GTTAGAAACAAAAATTACTATTCTTAA-CCGGTGACACGA
* * * *
289539 GTTCGAAATAAAAATTACTATTTTTAACCGGTGACACGG
1 GTTAGAAACAAAAATTACTATTCTTAACCGGTGACACGA
* * *
289578 GTTAG-AACAAAAATCATTATTCTT-ACCGGTGGCACGA
1 GTTAGAAACAAAAATTACTATTCTTAACCGGTGACACGA
* * *
289615 GTCTA-AAA-AAAAATCACTATTCTTAACCGATGGCAC-A
1 GT-TAGAAACAAAAATTACTATTCTTAACCGGTGACACGA
* * *
289652 GTTCGAAACAAAAACTACTATTCTTAACCGGT-AGCATG-
1 GTTAGAAACAAAAATTACTATTCTTAACCGGTGA-CACGA
* * * *
289690 GTT-GAAACAAGAACTACTATTTTTAACCGGTGACATG-
1 GTTAGAAACAAAAATTACTATTCTTAACCGGTGACACGA
* * *
289727 GTT-GAAACAAAGAA-CACTATTCTTAACTGGTGGCACGA
1 GTTAGAAACAAA-AATTACTATTCTTAACCGGTGACACGA
289765 TTGAAAACGG
Statistics
Matches: 182, Mismatches: 31, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
36 1 0.01
37 95 0.52
38 79 0.43
39 7 0.04
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (39 bp):
GTTAGAAACAAAAATTACTATTCTTAACCGGTGACACGA
Found at i:289607 original size:37 final size:37
Alignment explanation
Indices: 289548--289683 Score: 107
Period size: 38 Copynumber: 3.6 Consensus size: 37
289538 AGTTCGAAAT
* * * *
289548 AAAAATTACTATTTTTAACCGGTGACACGGGT-TAGAAC
1 AAAAATCACTATTCTT-ACCGGTGACACGAGTCTA-AAA
* *
289586 AAAAATCATTATTCTTACCGGTGGCACGAGTCTAAAA
1 AAAAATCACTATTCTTACCGGTGACACGAGTCTAAAA
* * * *
289623 AAAAATCACTATTCTTAACCGATGGCAC-AGTTCGAAAC
1 AAAAATCACTATTCTT-ACCGGTGACACGAG-TCTAAAA
289661 AAAAA-CTACTATTCTTAACCGGT
1 AAAAATC-ACTATTCTT-ACCGGT
289684 AGCATGGTTG
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
37 33 0.40
38 50 0.60
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (37 bp):
AAAAATCACTATTCTTACCGGTGACACGAGTCTAAAA
Found at i:289635 original size:75 final size:74
Alignment explanation
Indices: 289506--289764 Score: 226
Period size: 75 Copynumber: 3.4 Consensus size: 74
289496 GCATATGTTA
** * * *
289506 AAACAAAAACTACTATTC-TAATCTAGTGGCAC-AGTTCGAAATAAAAATTACTATTTTTAACCG
1 AAACAAAAAC-ACTATTCTTAA-CCGGTGGCACGAG-TCTAAAAAAAAATCACTATTTTTAACCG
289569 GTGACACGGGTT-
63 GTGACAC-GGTTG
* * *
289581 AGAACAAAAATCATTATTCTT-ACCGGTGGCACGAGTCTAAAAAAAAATCACTATTCTTAACCGA
1 A-AACAAAAA-CACTATTCTTAACCGGTGGCACGAGTCTAAAAAAAAATCACTATTTTTAACCGG
* *
289645 TGGCACAGTTCG
64 TGACACGGTT-G
* * * *
289657 AAACAAAAACTACTATTCTTAACCGGTAGCATG-GT-TGAAACAAGAA-CTACTATTTTTAACCG
1 AAACAAAAAC-ACTATTCTTAACCGGTGGCACGAGTCT-AAAAAAAAATC-ACTATTTTTAACCG
*
289719 GTGACATGGTTG
63 GTGACACGGTTG
*
289731 AAACAAAGAACACTATTCTTAACTGGTGGCACGA
1 AAACAAA-AACACTATTCTTAACCGGTGGCACGA
289765 TTGAAAACGG
Statistics
Matches: 149, Mismatches: 23, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
74 33 0.22
75 86 0.58
76 28 0.19
77 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (74 bp):
AAACAAAAACACTATTCTTAACCGGTGGCACGAGTCTAAAAAAAAATCACTATTTTTAACCGGTG
ACACGGTTG
Found at i:291075 original size:34 final size:34
Alignment explanation
Indices: 291014--291078 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
291004 AATCTGGGCC
* * *
291014 ACAAATGTAATATTCTAAAACACAATTTTATAGA
1 ACAAATGTAATAGTATAAAACAAAATTTTATAGA
* *
291048 ACAAATGTAATAGTATAATATAAAATTTTAT
1 ACAAATGTAATAGTATAAAACAAAATTTTAT
291079 TTATGCAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (34 bp):
ACAAATGTAATAGTATAAAACAAAATTTTATAGA
Found at i:291471 original size:33 final size:34
Alignment explanation
Indices: 291412--291475 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
291402 ATGCACCAGA
*
291412 TGTATCGATACATATTGCTTAGTATCGATACCAT
1 TGTATCGATAAATATTGCTTAGTATCGATACCAT
*
291446 TGTATCGATAAATGTT-CTTAGTATCGATAC
1 TGTATCGATAAATATTGCTTAGTATCGATAC
291476 ACACTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (34 bp):
TGTATCGATAAATATTGCTTAGTATCGATACCAT
Found at i:291544 original size:13 final size:13
Alignment explanation
Indices: 291526--291551 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
291516 AACTCACTCA
291526 GTATCGATACATT
1 GTATCGATACATT
291539 GTATCGATACATT
1 GTATCGATACATT
291552 AGTAAACGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Done.