Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 44 of 222
Found at i:13056263 original size:9 final size:9
Alignment explanation
Indices: 13056249--13056379 Score: 70
Period size: 9 Copynumber: 15.9 Consensus size: 9
13056239 TGCATAATAA
13056249 ATAACTTAC
1 ATAACTTAC
13056258 ATAACTTAC
1 ATAACTTAC
13056267 ATAA--TAC
1 ATAACTTAC
*
13056274 ATAACTTAT
1 ATAACTTAC
* *
13056283 ATGACTTAT
1 ATAACTTAC
13056292 ATAACTTAC
1 ATAACTTAC
*
13056301 AT-A---GC
1 ATAACTTAC
* *
13056306 ATAATTTTC
1 ATAACTTAC
13056315 ATAA--TAC
1 ATAACTTAC
*
13056322 ACAACTTAC
1 ATAACTTAC
** *
13056331 ATAGTTTTC
1 ATAACTTAC
*
13056340 ATAA--TAA
1 ATAACTTAC
13056347 ATAACTTAC
1 ATAACTTAC
13056356 ATAA--TAC
1 ATAACTTAC
13056363 ATAACTTAC
1 ATAACTTAC
*
13056372 ATAGCTTA
1 ATAACTTA
13056380 ATTATACTTA
Statistics
Matches: 93, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
5 3 0.03
6 1 0.01
7 24 0.26
8 1 0.01
9 64 0.69
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:13056270 original size:25 final size:25
Alignment explanation
Indices: 13056241--13056366 Score: 91
Period size: 25 Copynumber: 5.2 Consensus size: 25
13056231 TAACAATTTG
13056241 CATAATAAATAACTTACATAACTTA
1 CATAATAAATAACTTACATAACTTA
* * *
13056266 CATAATACATAACTTATATGACTT-
1 CATAATAAATAACTTACATAACTTA
* * * * *
13056290 -AT-ATAACTTACATAGCATAATTTT
1 CATAATAAATAACTTA-CATAACTTA
* * ** *
13056314 CATAATACACAACTTACATAGTTTT
1 CATAATAAATAACTTACATAACTTA
13056339 CATAATAAATAACTTACATAA--TA
1 CATAATAAATAACTTACATAACTTA
13056362 CATAA
1 CATAA
13056367 CTTACATAGC
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
22 8 0.10
23 13 0.17
25 49 0.64
26 7 0.09
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (25 bp):
CATAATAAATAACTTACATAACTTA
Found at i:13056274 original size:16 final size:16
Alignment explanation
Indices: 13056255--13056374 Score: 78
Period size: 16 Copynumber: 7.9 Consensus size: 16
13056245 ATAAATAACT
13056255 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
13056271 TACATAACTTATATGACT
1 TACATAACTTACAT-A-A
*
13056289 TATATAACTTACAT-A
1 TACATAACTTACATAA
* * *
13056304 -GCATAATTTTCATAA
1 TACATAACTTACATAA
* *
13056319 TACACAACTTACATAG
1 TACATAACTTACATAA
13056335 T---T---TT-CATAA
1 TACATAACTTACATAA
*
13056344 TAAATAACTTACATAA
1 TACATAACTTACATAA
13056360 TACATAACTTACATA
1 TACATAACTTACATA
13056375 GCTTAATTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
12 1 0.01
14 9 0.12
15 3 0.04
16 43 0.57
17 1 0.01
18 12 0.16
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:13061924 original size:66 final size:66
Alignment explanation
Indices: 13061805--13061935 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 66
13061795 AGCAAATTAC
* * * *
13061805 ACAACTTAAAGCGGATGCAACATCGAGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGC
1 ACAACTGAAAGCAGATGCAACAGCAAGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGC
13061870 T
66 T
* * *
13061871 ACAACTGAAAGCAGATGCAGCAGCAAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAG
1 ACAACTGAAAGCAGATGCAACAGCAAGAGAAGCTGAGGCTCAA-AAAAGATATGAAGAACTCCAG
13061935 C
65 C
13061936 AGTAGCTTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 53 0.93
67 4 0.07
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (66 bp):
ACAACTGAAAGCAGATGCAACAGCAAGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGC
T
Found at i:13061953 original size:66 final size:66
Alignment explanation
Indices: 13061830--13061967 Score: 172
Period size: 66 Copynumber: 2.1 Consensus size: 66
13061820 TGCAACATCG
*
13061830 AGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCAGC
1 AGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGAAGC
13061895 A
66 A
* * * * * * *
13061896 AGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAGC-AGTAGCTTAAAGTAGATGCGGAA
1 AGAGAAGCTGAGGCTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTGAAAGCAGATGCAGAA
13061959 GCA
64 GCA
13061962 AGAGAA
1 AGAGAA
13061968 ACAGAGGCGG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 1 0.02
66 57 0.92
67 4 0.06
ACGTcount: A:0.43, C:0.17, G:0.27, T:0.14
Consensus pattern (66 bp):
AGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGAAGC
A
Found at i:13062034 original size:21 final size:21
Alignment explanation
Indices: 13061969--13062036 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
13061959 GCAAGAGAAA
* * *
13061969 CAGAGGCGGCAGCTAGAGAAG
1 CAGAGGCTGCAGCGAGGGAAG
* * *
13061990 TACAGGCTGCAGTGAGGGAAG
1 CAGAGGCTGCAGCGAGGGAAG
13062011 CAGAGGCTGCAGCGAGGGAAG
1 CAGAGGCTGCAGCGAGGGAAG
13062032 CAGAG
1 CAGAG
13062037 CAGCGTCAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.44, T:0.07
Consensus pattern (21 bp):
CAGAGGCTGCAGCGAGGGAAG
Found at i:13062484 original size:86 final size:86
Alignment explanation
Indices: 13062391--13062692 Score: 306
Period size: 86 Copynumber: 3.5 Consensus size: 86
13062381 CTTTAGTGGT
* * *
13062391 GTTTTTGGTCAAAGCGTCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTA
1 GTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTA
13062456 AAGATCATGGTCTTTAGCGAC
66 AAGATCATGGTCTTTAGCGAC
** * * * **
13062477 GTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTT-TAGGGGAAAGCGCCGCT
1 GTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGT-GGAAAAAGCGCCGCT
* * *
13062541 AAAGATTA-GGTTCTTTAGTGGC
65 AAAGATCATGG-TCTTTAGCGAC
* * * * * *
13062563 GTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGAAAAAAACACCGCT
1 GTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTCT-TTAGCGGCGTTTGTGGAAAAAGCGCCGCT
* * *
13062627 AAAGACCCTGATCTTTAGCGAC
65 AAAGATCATGGTCTTTAGCGAC
* * * *
13062649 GCTTCTAG-CACAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCG
1 GTTTTTGGTCA-AAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCG
13062693 CTTCCACTAA
Statistics
Matches: 173, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
85 7 0.04
86 163 0.94
87 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (86 bp):
GTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTA
AAGATCATGGTCTTTAGCGAC
Found at i:13062607 original size:43 final size:43
Alignment explanation
Indices: 13062381--13062692 Score: 243
Period size: 43 Copynumber: 7.3 Consensus size: 43
13062371 AGGTGTTGGC
* * * * * *
13062381 CTTTAGTGGTGTTTTTGGTCAAAGCGTCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
** * *
13062424 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
* * * * *
13062467 CTTTAGCGACGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
* * * *
13062510 CTTTAGTGGCGTTT-TAGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGCGGCGTTTGT-GGGCAAAGCGCCGCTAAAGATCAGGGT
* * *
13062553 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
* *** * * * ** *
13062596 CTATT-GCGGCGTTTGAGAAAAAAACACCGCTAAAGACCCTGAT
1 CT-TTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
* * * * *
13062639 CTTTAGCGACGCTTCT-AGCACAAACGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGGCA-AAGCGCCGCTAAAGATCAGGGT
13062682 CTTTAGCGGCG
1 CTTTAGCGGCG
13062693 CTTCCACTAA
Statistics
Matches: 216, Mismatches: 48, Indels: 10
0.79 0.18 0.04
Matches are distributed among these distances:
42 5 0.02
43 208 0.96
44 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
Found at i:13062626 original size:129 final size:129
Alignment explanation
Indices: 13062381--13062692 Score: 304
Period size: 129 Copynumber: 2.4 Consensus size: 129
13062371 AGGTGTTGGC
* * * *
13062381 CTTTAGTGGTGTTTTTGGTCAAAGCGTCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 CTTTAGTGGCGTTTTAGGGCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
* ** *** * *
13062446 AGCGCCACTAAAGATCATGGTCTTTAGCGACGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTT
66 AGCGCCACTAAAGATCAGGGTCTTTAGCGACGTTTGAGAAAAAAACACCGCTAAAGATTAGGTT
* * * * **
13062510 CTTTAGTGGCGTTTTAGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAA
1 CTTTAGTGGCGTTTTAGGGCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
* * * **** *
13062575 AGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGAAAAAAACACCGCTAAAGACCCTGAT
66 AGCGCCACTAAAGATCAGGGTCT-TTAGCGACGTTTGAGAAAAAAACACCGCTAAAGATTAGGTT
* * * ** *
13062639 CTTTAGCGACGCTTCTAGCACAAA-CGCCGCTAAAGATCAGGGTCTTTAGCGGCG
1 CTTTAGTGGCG-TTTTAGGGCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCG
13062693 CTTCCACTAA
Statistics
Matches: 146, Mismatches: 35, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
129 136 0.93
130 10 0.07
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (129 bp):
CTTTAGTGGCGTTTTAGGGCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
AGCGCCACTAAAGATCAGGGTCTTTAGCGACGTTTGAGAAAAAAACACCGCTAAAGATTAGGTT
Found at i:13062902 original size:22 final size:22
Alignment explanation
Indices: 13062874--13062916 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13062864 CTGCGGCGCT
* *
13062874 AAAAAGCGCCGCTAAATGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
13062896 AAAAAGCACCGCTAAAAGCCT
1 AAAAAGCACCGCTAAAAGCCT
13062917 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAAAGCACCGCTAAAAGCCTA
Found at i:13070241 original size:19 final size:19
Alignment explanation
Indices: 13070197--13070241 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13070187 TATATATTCA
13070197 ATTATTTGATTTATTTCTT
1 ATTATTTGATTTATTTCTT
13070216 -TTCATTT-ATTTACTTTCTT
1 ATT-ATTTGATTTA-TTTCTT
13070235 ATTATTT
1 ATTATTT
13070242 TATAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 7 0.30
19 14 0.61
20 2 0.09
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTATTTGATTTATTTCTT
Found at i:13071382 original size:4 final size:4
Alignment explanation
Indices: 13071373--13071399 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
13071363 TGATTTTAGT
13071373 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
13071400 GTTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:13072046 original size:3 final size:3
Alignment explanation
Indices: 13072038--13072104 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
13072028 TTGTTTTTAC
* * *
13072038 TAT TAT TAT T-T T-T TAA T-T TAT TAT TAT TGT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
13072083 TAT TGT TA- TAGG TAT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT T
13072105 GTATTAGTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
2 7 0.14
3 42 0.82
4 2 0.04
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:13072079 original size:21 final size:21
Alignment explanation
Indices: 13072038--13072104 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
13072028 TTGTTTTTAC
13072038 TATTATTATT-TT-TTAAT-T
1 TATTATTATTGTTATTAATAT
*
13072056 TATTATTATTGTTATTACTAT
1 TATTATTATTGTTATTAATAT
*
13072077 TATTATTATTGTTA-TAGGTAT
1 TATTATTATTGTTATTA-ATAT
13072098 TATTATT
1 TATTATT
13072105 GTATTAGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 10 0.23
19 2 0.05
20 6 0.14
21 25 0.58
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.64
Consensus pattern (21 bp):
TATTATTATTGTTATTAATAT
Found at i:13072263 original size:15 final size:16
Alignment explanation
Indices: 13072245--13072274 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13072235 TTATATGAAG
13072245 ATTTTATATA-ATATT
1 ATTTTATATACATATT
13072260 ATTTTATATACATAT
1 ATTTTATATACATAT
13072275 ATGATTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTATATACATATT
Found at i:13075268 original size:38 final size:38
Alignment explanation
Indices: 13075217--13075294 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
13075207 ATTTGTTAGC
13075217 ATTTGTGACTTATTTTTATCTTGGATTCATTTTACCAA
1 ATTTGTGACTTATTTTTATCTTGGATTCATTTTACCAA
13075255 ATTTGTGACTTATTTTTATCTTGGATTCATTTTACCAA
1 ATTTGTGACTTATTTTTATCTTGGATTCATTTTACCAA
13075293 AT
1 AT
13075295 GATCTCAAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.24, C:0.13, G:0.10, T:0.53
Consensus pattern (38 bp):
ATTTGTGACTTATTTTTATCTTGGATTCATTTTACCAA
Found at i:13079610 original size:148 final size:148
Alignment explanation
Indices: 13079315--13079664 Score: 393
Period size: 148 Copynumber: 2.3 Consensus size: 148
13079305 AAATAGGCAT
* * * *
13079315 TAAATATGGAATTTAACCATTCTT-TATAATCTCAAAGAATTAGAGGGATTAGAATTGATATTTG
1 TAAATATGAAATTTAACCATTCTTATATAATCTCAAAAAAGTAGAGGGACTAGAATTGATATTTG
** ** * * * * *
13079379 GCCATTAGCTTCTCATATTAAAGAAAGCAATTAACATTGGACAAGTATCATGTAAAAAGTAGAGG
66 AACATTAGCTTCTCATAGAAAAAAAAACAACTAACATTGGACAAGTATCATGTAAAAAGCAGAGA
*
13079444 GGTTAAAAAAGTAGAAAA
131 GATTAAAAAAGTAGAAAA
13079462 TAAATATGAAATTTAACCATTCTTATATAATCTCAAAAAAGTAGAGGGACTAGAATTGATATTTG
1 TAAATATGAAATTTAACCATTCTTATATAATCTCAAAAAAGTAGAGGGACTAGAATTGATATTTG
*** *
13079527 AACATTAGCTTCTCATGTAAGAAAAAAAAACAACTAACATTGGATTGGTGTCATGTAAAAA-CAG
66 AACATTAGCTTCTCA--T-AGAAAAAAAAACAACTAACATTGGACAAGTATCATGTAAAAAGCAG
* * *
13079591 AGAGATTAGAATTGAAAAATAGGAAT
128 AGAGATT--AA---AAAAGTAGAAAA
*
13079617 TAAATATTG-AATTTAACTATTCTTATATAATCTC-AAAAAGTAGAGGGA
1 TAAATA-TGAAATTTAACCATTCTTATATAATCTCAAAAAAGTAGAGGGA
13079665 TTGAACCCCA
Statistics
Matches: 171, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
147 23 0.13
148 50 0.29
150 8 0.05
151 33 0.19
152 2 0.01
154 14 0.08
155 39 0.23
156 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30
Consensus pattern (148 bp):
TAAATATGAAATTTAACCATTCTTATATAATCTCAAAAAAGTAGAGGGACTAGAATTGATATTTG
AACATTAGCTTCTCATAGAAAAAAAAACAACTAACATTGGACAAGTATCATGTAAAAAGCAGAGA
GATTAAAAAAGTAGAAAA
Found at i:13085654 original size:30 final size:30
Alignment explanation
Indices: 13085586--13085663 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
13085576 TTAACATTAG
* * *
13085586 CATCGACTACTACACGGGCATCTACATCAA
1 CATCGACTGCTGCATGGGCATCTACATCAA
13085616 CATCGACTGCTGCATGGGCATCTACATCAA
1 CATCGACTGCTGCATGGGCATCTACATCAA
13085646 CATCGACTGCTGCATGGG
1 CATCGACTGCTGCATGGG
13085664 AAGCTACACC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.22
Consensus pattern (30 bp):
CATCGACTGCTGCATGGGCATCTACATCAA
Found at i:13085671 original size:30 final size:30
Alignment explanation
Indices: 13085607--13085671 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
13085597 ACACGGGCAT
* *
13085607 CTACATCAACATCGACTGCTGCATGGGCAT
1 CTACATCAACATCGACTGCTGCATGGGAAG
13085637 CTACATCAACATCGACTGCTGCATGGGAAG
1 CTACATCAACATCGACTGCTGCATGGGAAG
13085667 CTACA
1 CTACA
13085672 CCTATATCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (30 bp):
CTACATCAACATCGACTGCTGCATGGGAAG
Found at i:13088789 original size:19 final size:18
Alignment explanation
Indices: 13088762--13088800 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
13088752 CTTTTTTATA
*
13088762 TATTCTTTATATTGTTTTT
1 TATTCTTTATAAT-TTTTT
*
13088781 TATTTTTTATAATTTTTT
1 TATTCTTTATAATTTTTT
13088799 TA
1 TA
13088801 AAAAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TATTCTTTATAATTTTTT
Found at i:13088827 original size:18 final size:16
Alignment explanation
Indices: 13088806--13088849 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 16
13088796 TTTTAAAAAA
13088806 TATAAATTTTGAAATTTT
1 TATAAATTTTG-AA-TTT
13088824 TATAAATATTTTGAATTT
1 TAT-AA-ATTTTGAATTT
13088842 TATAAATT
1 TATAAATT
13088850 ATTTTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.12
17 2 0.08
18 9 0.38
19 4 0.17
20 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
TATAAATTTTGAATTT
Found at i:13088836 original size:20 final size:20
Alignment explanation
Indices: 13088811--13088856 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
13088801 AAAAATATAA
13088811 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAA-TTTTATAAATT
13088831 ATTTTG-AATTTTATAAATT
1 ATTTTGAAATTTTATAAATT
13088850 ATTTTGA
1 ATTTTGA
13088857 TTTTTTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.38
19 9 0.38
20 6 0.25
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTTGAAATTTTATAAATT
Found at i:13088842 original size:19 final size:20
Alignment explanation
Indices: 13088811--13088861 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
13088801 AAAAATATAA
13088811 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTATAAATT
13088831 ATTTTGAA-TTTTATAAATT
1 ATTTTGAATTTTTATAAATT
13088850 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
13088862 TGCATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.34
19 13 0.45
20 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:13097512 original size:39 final size:39
Alignment explanation
Indices: 13097455--13097620 Score: 197
Period size: 39 Copynumber: 4.2 Consensus size: 39
13097445 AATAAAAATA
* *
13097455 TGGTGATTATTCGGGCTATGTGGCTAGCAGGCTGTGTGC
1 TGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
* ** *
13097494 TGGTTATTATTTGGGCTATGTGCCTAGCAAGCTGTGTGC
1 TGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
** * * * *
13097533 CAGTGATTATCCAGGTTATGTGTCTAGTAGGCTGTGTGC
1 TGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
* *
13097572 CGGTGATTATTCAGGCTATGTGCCTAGCAGGCTATGTGC
1 TGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
13097611 TGGTGTATTA
1 TGGTG-ATTA
13097621 AAAATTTGCA
Statistics
Matches: 105, Mismatches: 21, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
39 101 0.96
40 4 0.04
ACGTcount: A:0.16, C:0.16, G:0.33, T:0.36
Consensus pattern (39 bp):
TGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
Found at i:13099886 original size:70 final size:70
Alignment explanation
Indices: 13099655--13100043 Score: 375
Period size: 70 Copynumber: 5.6 Consensus size: 70
13099645 TAATTAGAAA
* *
13099655 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGG-TCTAATCTAT-G-G-CCACCAAACAG
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTC-AA--TATCGCGACCTCTAAACAG
13099716 TTAGCGAG
63 TTAGCGAG
* * * * *
13099724 AGTTAGAAGCTCCCAACTATCATTTTAAGGCTTGCAAGTTTAATA-CTGCGACCTCTATAA-A-T
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTCAATATC-GCGACCTCTA-AACAGT
*
13099786 TAGTGAG
64 TAGCGAG
* * *
13099793 AGTTAAAAGCTCCCAGCTATCATTCTAAGGTTCGCAGGTTCAATATCGCGACCTCTAAATAGTTA
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTCAATATCGCGACCTCTAAACAGTTA
**
13099858 GTTAG
66 GCGAG
* * * * *
13099863 AGTTAAAAGCTCCCAACTTTCATTTTAAGGCTCGCAGGTTTAATACCGC-AGCCTCTAAATAGTT
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTCAATATCGCGA-CCTCTAAACAGTT
*
13099927 AGCGAT
65 AGCGAG
* * * * * * *
13099933 AGTTAAAAGCTCCCAGCTGTCAATCTAAGGGTCACAGGTTTAATATCG-TAGCCT-TCAAACAGT
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTCAATATCGCGA-CCTCT-AAACAGT
*
13099996 TAGCAAG
64 TAGCGAG
* *
13100003 AGTTAAAAGCTCTCAACTATCATTCTAAGGCTCGTAGGTTC
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTC
13100044 GATACCATAG
Statistics
Matches: 265, Mismatches: 43, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
67 2 0.01
68 3 0.01
69 95 0.36
70 163 0.62
71 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (70 bp):
AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTCAATATCGCGACCTCTAAACAGTTA
GCGAG
Found at i:13100049 original size:140 final size:138
Alignment explanation
Indices: 13099655--13100042 Score: 442
Period size: 140 Copynumber: 2.8 Consensus size: 138
13099645 TAATTAGAAA
* * * * * *
13099655 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTCTAATCT-ATGGCCACCAAACAGTTA
1 AGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATATCGTAGCC-TCAAACAGTTA
* * * * *
13099719 GCGAGAGTTAGAAGCTCCCAACTATCATTTTAAGGCTTGCAAGTTTAATACTGCGACCTCTATAA
65 GCAAGAGTTAAAAGCTCCCAACTATCATTTTAAGGCTCGCAGGTTTAATACCGCGACCTCTATAA
*
13099784 ATTAGTGAG
130 ATTAGCGAG
* * * *
13099793 AGTTAAAAGCTCCCAGCTATCATTCTAAGGTTCGCAGGTTCAATATCG-CGACCTCTAAATAGTT
1 AGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATATCGTAG-CCTC-AAACAGTT
** *
13099857 AGTTAGAGTTAAAAGCTCCCAACTTTCATTTTAAGGCTCGCAGGTTTAATACCGC-AGCCTCTA-
64 AGCAAGAGTTAAAAGCTCCCAACTATCATTTTAAGGCTCGCAGGTTTAATACCGCGA-CCTCTAT
*
13099920 AATAGTTAGCGAT
128 AA-A-TTAGCGAG
* * * *
13099933 AGTTAAAAGCTCCCAGCTGTCAATCTAAGGGTCACAGGTTTAATATCGTAGCCTTCAAACAGTTA
1 AGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATATCGTAGCC-TCAAACAGTTA
* * *
13099998 GCAAGAGTTAAAAGCTCTCAACTATCATTCTAAGGCTCGTAGGTT
65 GCAAGAGTTAAAAGCTCCCAACTATCATTTTAAGGCTCGCAGGTT
13100043 CGATACCATA
Statistics
Matches: 211, Mismatches: 31, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
138 46 0.22
139 64 0.30
140 98 0.46
141 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (138 bp):
AGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATATCGTAGCCTCAAACAGTTAG
CAAGAGTTAAAAGCTCCCAACTATCATTTTAAGGCTCGCAGGTTTAATACCGCGACCTCTATAAA
TTAGCGAG
Found at i:13100055 original size:70 final size:70
Alignment explanation
Indices: 13099610--13100080 Score: 354
Period size: 70 Copynumber: 6.8 Consensus size: 70
13099600 TTTATTAAAA
* * * * * * * * *
13099610 CTAAGGCTTGCAAGTTTAACACCATAACCTTCAAATAATTAG-AAAAGTTAAAAGCTCCCAACTA
1 CTAAGGCTCGCAGGTTCAATACCATAGCCTTCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTA
13099674 TCATT
66 TCATT
* * ** *
13099679 CTAAGGCTCGCAGG-TCTAAT-CTATGGCCACCAAACAGTTAGCGAGAGTTAGAAGCTCCCAACT
1 CTAAGGCTCGCAGGTTC-AATACCATAGCCTTCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACT
13099742 ATCATT
65 ATCATT
* * * * * *
13099748 TTAAGGCTTGCAAGTTTAATA-C-T-GCGACCTCTATAA-A-TTAGTGAGAGTTAAAAGCTCCCA
1 CTAAGGCTCGCAGGTTCAATACCATAGC--CTTC-A-AACAGTTAGCGAGAGTTAAAAGCTCCCA
*
13099808 GCTATCATT
62 ACTATCATT
* * * **
13099817 CTAAGGTTCGCAGGTTCAATATCGC-GA-CC-TCTAAATAGTTAGTTAGAGTTAAAAGCTCCCAA
1 CTAAGGCTCGCAGGTTCAATA-C-CATAGCCTTC-AAACAGTTAGCGAGAGTTAAAAGCTCCCAA
*
13099879 CTTTCATT
63 CTATCATT
* * ** * * *
13099887 TTAAGGCTCGCAGGTTTAATACCGCAGCC-TCTAAATAGTTAGCGATAGTTAAAAGCTCCCAGCT
1 CTAAGGCTCGCAGGTTCAATACCATAGCCTTC-AAACAGTTAGCGAGAGTTAAAAGCTCCCAACT
* *
13099951 GTCAAT
65 ATCATT
* * * * * * *
13099957 CTAAGGGTCACAGGTTTAATATCGTAGCCTTCAAACAGTTAGCAAGAGTTAAAAGCTCTCAACTA
1 CTAAGGCTCGCAGGTTCAATACCATAGCCTTCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTA
13100022 TCATT
66 TCATT
* * *
13100027 CTAAGGCTCGTAGGTTCGATACCATAGCCTTCAAACAGTTAGCGCGAGCTTAAA
1 CTAAGGCTCGCAGGTTCAATACCATAGCCTTCAAACAGTTAGCGAGAG-TTAAA
13100081 CTCCGACTGT
Statistics
Matches: 320, Mismatches: 64, Indels: 34
0.77 0.15 0.08
Matches are distributed among these distances:
67 2 0.01
68 19 0.06
69 106 0.33
70 182 0.57
71 9 0.03
72 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (70 bp):
CTAAGGCTCGCAGGTTCAATACCATAGCCTTCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTA
TCATT
Found at i:13100292 original size:18 final size:18
Alignment explanation
Indices: 13100249--13100295 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
13100239 CTTATGTCTA
* * *
13100249 AAATTTTGCTTGAGTTTG
1 AAATTTTACTTCAGTTTC
*
13100267 AAAGTTTACTTCAGTTTC
1 AAATTTTACTTCAGTTTC
13100285 AAATTTTACTT
1 AAATTTTACTT
13100296 AAGTCAAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.49
Consensus pattern (18 bp):
AAATTTTACTTCAGTTTC
Found at i:13103304 original size:20 final size:20
Alignment explanation
Indices: 13103279--13103321 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13103269 TCATAAGAAT
13103279 AGTGGGGTCAAGTCATGAAC
1 AGTGGGGTCAAGTCATGAAC
* * *
13103299 AGTGGGGTTATGTCGTGAAC
1 AGTGGGGTCAAGTCATGAAC
13103319 AGT
1 AGT
13103322 AATAGTATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.12, G:0.37, T:0.26
Consensus pattern (20 bp):
AGTGGGGTCAAGTCATGAAC
Found at i:13104585 original size:16 final size:16
Alignment explanation
Indices: 13104564--13104595 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13104554 CATACCTTAT
13104564 ATCCAAGTTGATCTAA
1 ATCCAAGTTGATCTAA
13104580 ATCCAAGTTGATCTAA
1 ATCCAAGTTGATCTAA
13104596 CAGTCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
ATCCAAGTTGATCTAA
Found at i:13111390 original size:40 final size:41
Alignment explanation
Indices: 13111200--13111394 Score: 257
Period size: 41 Copynumber: 4.8 Consensus size: 41
13111190 TACCTTTCAG
*
13111200 ATCTTTAGCGGCGTTTTTAAAAAAAGCGCTGCTAATGCTCAA
1 ATCTTTAGCGGCGTTTTT-AAAAAAGCGCCGCTAATGCTCAA
*
13111242 ATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
1 ATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAA
* * *
13111283 ATCTTTCGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCAG
1 ATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAA
** * *
13111324 ATCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTC-G
1 ATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAA
** * *
13111364 GGCTTTAGCGGCATTTTTGAAAAAGCGCCGC
1 ATCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
13111395 AAAAACATTT
Statistics
Matches: 136, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 26 0.19
41 92 0.68
42 18 0.13
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (41 bp):
ATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAA
Found at i:13112045 original size:22 final size:22
Alignment explanation
Indices: 13112020--13112071 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
13112010 TATTAAAAAA
* *
13112020 GGTTTAGAGGTTAGTGGTTTGG
1 GGTTTAGAGGTTAGTGATTTAG
*
13112042 GGTTAAGA-GTTAGTGATTTAG
1 GGTTTAGAGGTTAGTGATTTAG
13112063 GGTTTAGAG
1 GGTTTAGAG
13112072 ATTCGGGGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (22 bp):
GGTTTAGAGGTTAGTGATTTAG
Found at i:13112906 original size:103 final size:105
Alignment explanation
Indices: 13112785--13112995 Score: 356
Period size: 105 Copynumber: 2.0 Consensus size: 105
13112775 TAGTGGCGTT
*
13112785 TTTTATAAAAACAGCGCAAAAGGTAAGCAATAGCGGCGTTTTTAT-AAAAAACG-CAAAAAAAAT
1 TTTTATAAAAACAGCGCAAAAGGTAAGCAATAGCGCCGTTTTTATAAAAAAACGCCAAAAAAAAT
* *
13112848 AATTTTACTTTAAAAAATAGTCATTTTATATAGCAAAATA
66 AATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAACA
*
13112888 TTTTATAAAAAC-GCCGCAAAAGGTAAGCAATAGCGCCGTTTTTATAAAAAAACGCCACAAAAAA
1 TTTTATAAAAACAG-CGCAAAAGGTAAGCAATAGCGCCGTTTTTATAAAAAAACGCCAAAAAAAA
13112952 TAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAACA
65 TAATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAACA
13112993 TTT
1 TTT
13112996 AGCGGCGTTT
Statistics
Matches: 101, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
102 1 0.01
103 42 0.42
104 8 0.08
105 50 0.50
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (105 bp):
TTTTATAAAAACAGCGCAAAAGGTAAGCAATAGCGCCGTTTTTATAAAAAAACGCCAAAAAAAAT
AATTTTACTTTAAAAAATAGCCATTTTATATAGCAAAACA
Found at i:13113034 original size:76 final size:76
Alignment explanation
Indices: 13112918--13113142 Score: 414
Period size: 76 Copynumber: 2.9 Consensus size: 76
13112908 AGGTAAGCAA
*
13112918 TAGCGCCGTTTTTATAAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATA
1 TAGCGGCGTTTTTAT-AAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATA
13112983 TAGCAAAACATT
65 TAGCAAAACATT
13112995 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
*
13113060 AGAAAAACATT
66 AGCAAAACATT
*
13113071 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
13113136 AGCAAAA
66 AGCAAAA
13113143 TATTATAAAA
Statistics
Matches: 144, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
76 130 0.90
77 14 0.10
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.32
Consensus pattern (76 bp):
TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
AGCAAAACATT
Found at i:13113259 original size:74 final size:74
Alignment explanation
Indices: 13113173--13113312 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 74
13113163 AGGTAAGCAA
* * *
13113173 TAGCGGCGTTTTTGTAAAAAACGCCAC--AAAATATAATTTTACTTTAAAAAATA-GCCATTTTA
1 TAGCGGCATTTTTATAAAAAACGCCACAGAAAAT-TAATTTTA--TAAAAAAATACGCCATTTTA
13113235 TAACAAAACATT
63 TAACAAAACATT
* *
13113247 TAGCGGCATTTTTATGAAAAATGCCACAGAAAATTAATTTTATAAAAAAATAGCGCCATTTTATA
1 TAGCGGCATTTTTATAAAAAACGCCACAGAAAATTAATTTTATAAAAAAATA-CGCCATTTTATA
13113312 A
65 A
13113313 AATCTTCTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
73 9 0.16
74 23 0.40
75 20 0.35
76 5 0.09
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (74 bp):
TAGCGGCATTTTTATAAAAAACGCCACAGAAAATTAATTTTATAAAAAAATACGCCATTTTATAA
CAAAACATT
Found at i:13115698 original size:43 final size:43
Alignment explanation
Indices: 13115645--13115893 Score: 270
Period size: 43 Copynumber: 5.8 Consensus size: 43
13115635 AGGTTATGTT
* * * * **
13115645 TTTAGTGGCGTTTCTGTGCAAAGCGCCGCTAAAGGTCAT-GGTA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TCGGCC
* *
13115688 TTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGATCTCGGCC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTCGGCC
* *
13115731 TTTAGCGGCGTTTTTGGG-AAAGCGCCGCTGAAGGTCTCGGCC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTCGGCC
* * * *
13115773 TTCAGCGGCGTTTTTGGGAAAAGCACCGCTGAAGGTCTCGGCC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTCGGCC
* * * *
13115816 TTTAGCAGCGTTTGTGGGAAAAGCGACGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTCGGCC
**
13115859 TTTAGCGGCGTTT-TTAGAAAAGAACGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAG--CGCCGCTAAAG
13115894 TTAGCGACGC
Statistics
Matches: 176, Mismatches: 26, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
42 46 0.26
43 120 0.68
44 10 0.06
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTCGGCC
Found at i:13115780 original size:85 final size:84
Alignment explanation
Indices: 13115645--13115871 Score: 292
Period size: 85 Copynumber: 2.6 Consensus size: 84
13115635 AGGTTATGTT
* * *
13115645 TTTAGTGGCGTTTCTGTGCAAAGCGCCGCTAAAGGTCATGGTATTTAGCGGCGTTTGTGGGAAAA
1 TTTAGCGGCGTTTCTG-GGAAAGCGCCGCTAAAGGTC-TGGTCTTTAGCGGCGTTTGTGGGAAAA
13115710 GCACCGCTAAAGATCTCGGCC
64 GCACCGCTAAAGATCTCGGCC
* * * * *
13115731 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTGAAGGTCTCGGCCTTCAGCGGCGTTTTTGGGAAAAG
1 TTTAGCGGCGTTTCTGGGAAAGCGCCGCTAAAGGTCT-GGTCTTTAGCGGCGTTTGTGGGAAAAG
* *
13115796 CACCGCTGAAGGTCTCGGCC
65 CACCGCTAAAGATCTCGGCC
* * *
13115816 TTTAGCAGCGTTTGTGGGAAAAGCGACGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 TTTAGCGGCGTTTCTGGG-AAAGCGCCGCTAAAGGTC-TGGTCTTTAGCGGCGTTT
13115872 TTAGAAAAGA
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
84 1 0.01
85 75 0.61
86 45 0.37
87 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.27
Consensus pattern (84 bp):
TTTAGCGGCGTTTCTGGGAAAGCGCCGCTAAAGGTCTGGTCTTTAGCGGCGTTTGTGGGAAAAGC
ACCGCTAAAGATCTCGGCC
Found at i:13116237 original size:43 final size:43
Alignment explanation
Indices: 13116007--13116296 Score: 286
Period size: 43 Copynumber: 6.8 Consensus size: 43
13115997 GCGTCGCTAA
* **
13116007 CTTTAGCGGCGTTTTTAGATAA-AAACGCCGCTAAAGACCGTGAC
1 CTTTAGCGGCGCTTTT--ATAACAAACGCCGCTAAAGACCAAGAC
* *
13116051 CTTTAGCGGCGC--TTCTCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGACCAAGAC
* * *** * *
13116092 CTTTAGCGGCCCATTTCCCACAAACACCGCTAATGACCAAGAC
1 CTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGACCAAGAC
* ***
13116135 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGACCAAGAC
* * *
13116178 CTTTAGCGACGATTTTATAACAATCGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGACCAAGAC
* *
13116221 CTTTAGCGGCGCTTTTATTAA-AAACGCCGCGAAAGAACAA-AC
1 CTTTAGCGGCGCTTTTA-TAACAAACGCCGCTAAAGACCAAGAC
* * *
13116263 ATTTAGCGGCGCTTCTA-ACAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTATA-ACAAACGCCGCTAAA
13116297 AACATAATCT
Statistics
Matches: 213, Mismatches: 27, Indels: 14
0.84 0.11 0.06
Matches are distributed among these distances:
40 3 0.01
41 32 0.15
42 31 0.15
43 133 0.62
44 14 0.07
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGACCAAGAC
Found at i:13121368 original size:41 final size:41
Alignment explanation
Indices: 13121323--13121433 Score: 177
Period size: 41 Copynumber: 2.7 Consensus size: 41
13121313 TTTTGCGACG
*
13121323 CTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGTGGCA
1 CTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCA
* *
13121364 CTTCTTTAAAAACGCCGCTAAAAGCCCGAGCATTAGCGGCG
1 CTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCA
* *
13121405 CTTCTTAAAAAACGCCGCTAAAGCCCCGA
1 CTTCTTTAAAAACGCCGCTAAAGGCCCGA
13121434 AAACTCAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (41 bp):
CTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCA
Found at i:13121591 original size:40 final size:40
Alignment explanation
Indices: 13121491--13121600 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 40
13121481 TTTGGAAAAT
* * *
13121491 GCCGCTAATGC-TCATTTTTAGCAGCGTTTTCCTGAAAGC
1 GCCGCTAATGCTTAATTTTTAGCGGCGTTTTCCTAAAAGC
* ** * * *
13121530 GCCGCTAATACTCGATCTTTAGTGGCGTTTTCTTAAAAGC
1 GCCGCTAATGCTTAATTTTTAGCGGCGTTTTCCTAAAAGC
* *
13121570 GCCGGTAATGCTTAATTTTTAGCGGCATTTT
1 GCCGCTAATGCTTAATTTTTAGCGGCGTTTT
13121601 TTATCCAAAC
Statistics
Matches: 55, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
39 10 0.18
40 45 0.82
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (40 bp):
GCCGCTAATGCTTAATTTTTAGCGGCGTTTTCCTAAAAGC
Found at i:13123263 original size:13 final size:13
Alignment explanation
Indices: 13123245--13123270 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13123235 CGCAAACGAT
13123245 AAAAATTTTCACA
1 AAAAATTTTCACA
13123258 AAAAATTTTCACA
1 AAAAATTTTCACA
13123271 CATAAATTAA
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTTTCACA
Found at i:13123968 original size:126 final size:125
Alignment explanation
Indices: 13123731--13124121 Score: 538
Period size: 124 Copynumber: 3.1 Consensus size: 125
13123721 GTCAAGCAAA
13123731 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* ** * *
13123796 TGTTTGAAGTGTTTTTTACACTATTTTTTTAAAACCGTCTTC-TAAAATTTATTTTTTCAAG
66 TGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTTAAAA-TTA-TTTTTCAAG
* * * * *
13123857 AACTACTGCAGAAAAAGAGGGTCCACGTGGGAGCTTTTTTCAATAATTCTGTTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
13123922 TGCTTGAAG-AATTTTGAAACTATTTTTTTAGAATCGTCTTCTTAAAATTATTTTTCAAG
66 TGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTTAAAATTATTTTTCAAG
* * * *
13123981 AACTACTATAGAAAAAGAGCGTTCACATGGGAGCTTTTTT-AGTAATTTTGCTAACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
13124045 TGCTTGAAGCATTTTTGACATTATTTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCTAA-
66 TGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTTAAAATT-ATTTTTC-AAG
13124106 AACTACTGTAGAAAAA
1 AACTACTGTAGAAAAA
13124122 AACAAAATCC
Statistics
Matches: 233, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
123 29 0.12
124 78 0.33
125 51 0.22
126 75 0.32
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (125 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTTAAAATTATTTTTCAAG
Found at i:13124238 original size:68 final size:69
Alignment explanation
Indices: 13124173--13124303 Score: 169
Period size: 68 Copynumber: 1.9 Consensus size: 69
13124163 TAACCTAAAC
*
13124173 ACAAATTTA-TT-TTTAAAAAAACTAAACCCTAATTTAATTAATTTTCTT-AAAAACTTTAAACC
1 ACAAATTTATTTATTTAAAAAAACTAAAACCTAATTTAATTAATTTTCTTAAAAAACTTTAAACC
13124235 CTAA
66 CTAA
*** *** *
13124239 TTTAATTTATTTATTTAAAACCCCTAAAACCTAATTTAATTAATTTTTTTAAAAAACTTTAAACC
1 ACAAATTTATTTATTTAAAAAAACTAAAACCTAATTTAATTAATTTTCTTAAAAAACTTTAAACC
13124304 TTGATTTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
66 6 0.11
67 2 0.04
68 32 0.59
69 14 0.26
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (69 bp):
ACAAATTTATTTATTTAAAAAAACTAAAACCTAATTTAATTAATTTTCTTAAAAAACTTTAAACC
CTAA
Found at i:13124304 original size:34 final size:35
Alignment explanation
Indices: 13124182--13124303 Score: 144
Period size: 34 Copynumber: 3.6 Consensus size: 35
13124172 CACAAATTTA
*
13124182 TTTTTAAAAAAAC--TAAACCCTAATTTAATTAAT
1 TTTTTTAAAAAACTTTAAACCCTAATTTAATTAAT
* *
13124215 TTTCTT-AAAAACTTTAAACCCTAATTTAATTTAT
1 TTTTTTAAAAAACTTTAAACCCTAATTTAATTAAT
* * ** *
13124249 TTATTT-AAAACCCCTAAAACCTAATTTAATTAAT
1 TTTTTTAAAAAACTTTAAACCCTAATTTAATTAAT
13124283 TTTTTTAAAAAACTTTAAACC
1 TTTTTTAAAAAACTTTAAACC
13124304 TTGATTTATT
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
32 6 0.08
33 4 0.06
34 51 0.72
35 10 0.14
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.42
Consensus pattern (35 bp):
TTTTTTAAAAAACTTTAAACCCTAATTTAATTAAT
Found at i:13126130 original size:21 final size:21
Alignment explanation
Indices: 13126092--13126131 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13126082 GTCAAGGATG
* *
13126092 CTCAATTTCATGATACCTAGT
1 CTCAATGTCATGACACCTAGT
*
13126113 CTCAATGTCGTGACACCTA
1 CTCAATGTCATGACACCTA
13126132 CATCAAATGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (21 bp):
CTCAATGTCATGACACCTAGT
Found at i:13139106 original size:21 final size:21
Alignment explanation
Indices: 13139081--13139122 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13139071 ATTATCAGTG
13139081 CAAAAGCAACCAA-AACACCAA
1 CAAAAGCAACCAAGAA-ACCAA
*
13139102 CAAAAGCACCCAAGAAACCAA
1 CAAAAGCAACCAAGAAACCAA
13139123 ATACCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.33, G:0.07, T:0.00
Consensus pattern (21 bp):
CAAAAGCAACCAAGAAACCAA
Found at i:13139790 original size:3 final size:3
Alignment explanation
Indices: 13139784--13139816 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13139774 GGATGATGAT
13139784 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
13139817 AAGGTAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13141535 original size:21 final size:22
Alignment explanation
Indices: 13141509--13141553 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
13141499 TACACTACTA
* *
13141509 AGAGTTTAAGTGGGA-AAAAAT
1 AGAGTTCAACTGGGAGAAAAAT
*
13141530 AGAGTTCAACTGGGAGAAGAAT
1 AGAGTTCAACTGGGAGAAAAAT
13141552 AG
1 AG
13141554 CTAAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.44, C:0.04, G:0.31, T:0.20
Consensus pattern (22 bp):
AGAGTTCAACTGGGAGAAAAAT
Found at i:13145186 original size:196 final size:190
Alignment explanation
Indices: 13144853--13145204 Score: 524
Period size: 196 Copynumber: 1.8 Consensus size: 190
13144843 ATCCTATCAC
* * *
13144853 AAATTTAAAACACAAATGTCTGTTTAAAATAACATATAATAAATAATAAAACATATAGTTTGAAA
1 AAATTTAAAACACAAATGTCTATTTAAAATAACATACAACAAATAATAAAACATATAGTTTGAAA
*
13144918 CTAATTAATAATAACACATGAAATATGTATGTTATTCAAATAAAAAATTAGATTAAATTGTTTAT
66 CTAATTAATAATAACACATGAAATATGTATGTTATTAAAATAAAAAATTAGATTAAATTGTTTAT
13144983 CATGGTGTTGTCATCAATCTTAAGTCAGTCCTATCATACGTATATGCGTGTAGAGACCTT
131 CATGGTGTTGTCATCAATCTTAAGTCAGTCCTATCATACGTATATGCGTGTAGAGACCTT
* * * * * * *
13145043 AAATTTAGAACACAAATTTCTATTTAAAAATAGCATACAACAAGTACTAAAACTTATGGTTTGAA
1 AAATTTAAAACACAAATGTCTATTT-AAAATAACATACAACAAATAATAAAACATATAGTTTGAA
*
13145108 ACTAATTTAATAATAACACATGAAGTATATATGTATGTTATTAAAATGAAAAATTAGATTAAATT
65 ACTAA-TTAATAATAACACATG-A--A-ATATGTATGTTATTAAAATAAAAAATTAGATTAAATT
* *
13145173 GTTTATTATGGTGTTGTTATCAATCTTAAGTC
125 GTTTATCATGGTGTTGTCATCAATCTTAAGTC
13145205 GGTGTCGAAT
Statistics
Matches: 142, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
190 22 0.15
191 37 0.26
192 16 0.11
193 1 0.01
195 1 0.01
196 65 0.46
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (190 bp):
AAATTTAAAACACAAATGTCTATTTAAAATAACATACAACAAATAATAAAACATATAGTTTGAAA
CTAATTAATAATAACACATGAAATATGTATGTTATTAAAATAAAAAATTAGATTAAATTGTTTAT
CATGGTGTTGTCATCAATCTTAAGTCAGTCCTATCATACGTATATGCGTGTAGAGACCTT
Found at i:13145313 original size:18 final size:19
Alignment explanation
Indices: 13145274--13145317 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
13145264 ATGGATGTAA
13145274 TAAAATGTGCATAATAAAAT
1 TAAAATGT-CATAATAAAAT
13145294 TAAAATGT-ATAA-AAATAT
1 TAAAATGTCATAATAAA-AT
13145312 TAAAAT
1 TAAAAT
13145318 AAAACTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
20 8 0.35
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (19 bp):
TAAAATGTCATAATAAAAT
Found at i:13147802 original size:31 final size:31
Alignment explanation
Indices: 13147767--13147869 Score: 113
Period size: 31 Copynumber: 3.4 Consensus size: 31
13147757 TAATTACATT
*
13147767 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
** * *
13147798 AATATTAAATT--TAATTTAATATCTCATATT
1 AATATTAAATTAATAAAATAATATCT-AGATA
*
13147828 AATATTAAATTAA-AAAAGTAATAACTAGATA
1 AATATTAAATTAATAAAA-TAATATCTAGATA
13147859 AATATTAAATT
1 AATATTAAATT
13147870 TAATTTAATA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
29 10 0.17
30 14 0.24
31 27 0.47
32 7 0.12
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:13147859 original size:61 final size:61
Alignment explanation
Indices: 13147764--13147879 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
13147754 AATTAATTAC
* *
13147764 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTTAATTTAATATCTCAT
1 ATTAATATTAAATTAATAAAATAATAACTAGATAAATATTAAATTTAATTTAATATCTCAT
13147825 ATTAATATTAAATTAA-AAAAGTAATAACTAGATAAATATTAAATTTAATTTAATA
1 ATTAATATTAAATTAATAAAA-TAATAACTAGATAAATATTAAATTTAATTTAATA
13147880 ATAAATTCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
60 4 0.08
61 48 0.92
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (61 bp):
ATTAATATTAAATTAATAAAATAATAACTAGATAAATATTAAATTTAATTTAATATCTCAT
Found at i:13151130 original size:25 final size:25
Alignment explanation
Indices: 13151093--13151187 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
13151083 CGGGCACACC
* *
13151093 ACAGCTCGTATGAGCTTCCTATTAT
1 ACAGCTCGCATGAGCTTCCCATTAT
*
13151118 ACAGCTCGCATGAGCTTCCCGTTAT
1 ACAGCTCGCATGAGCTTCCCATTAT
*
13151143 TCAGCTCGCATGAGCTTCCCATTAT
1 ACAGCTCGCATGAGCTTCCCATTAT
* * *
13151168 TCAGCTCGGAGGAGCTTCCC
1 ACAGCTCGCATGAGCTTCCC
13151188 GTTTATAGAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (25 bp):
ACAGCTCGCATGAGCTTCCCATTAT
Found at i:13151156 original size:50 final size:50
Alignment explanation
Indices: 13151094--13151190 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
13151084 GGGCACACCA
* * *
13151094 CAGCTCGTATGAGCTTCCTATTATACAGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGCATGAGCTTCCCATTATACAGCTCGCAGGAGCTTCCCGTTATT
* *
13151144 CAGCTCGCATGAGCTTCCCATTATTCAGCTCGGAGGAGCTTCCCGTT
1 CAGCTCGCATGAGCTTCCCATTATACAGCTCGCAGGAGCTTCCCGTT
13151191 TATAGATCGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.31
Consensus pattern (50 bp):
CAGCTCGCATGAGCTTCCCATTATACAGCTCGCAGGAGCTTCCCGTTATT
Found at i:13158680 original size:25 final size:25
Alignment explanation
Indices: 13158652--13158700 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13158642 ATTAGATTTC
13158652 TGTTATACAGCTCACATGAGCTTCT
1 TGTTATACAGCTCACATGAGCTTCT
** * *
13158677 TGTTATTTAGTTCGCATGAGCTTC
1 TGTTATACAGCTCACATGAGCTTC
13158701 CCGTTGTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (25 bp):
TGTTATACAGCTCACATGAGCTTCT
Found at i:13174266 original size:3 final size:3
Alignment explanation
Indices: 13174258--13174284 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13174248 AGGGAAAGGT
13174258 GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA
13174285 TAATATTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GTA
Found at i:13177210 original size:74 final size:74
Alignment explanation
Indices: 13177089--13177233 Score: 281
Period size: 74 Copynumber: 2.0 Consensus size: 74
13177079 AATGTTAAGC
*
13177089 GGATGCAGAGAAGGTATGGTAGAGGATCCAACGTGTTCAATTTGTGGAGTAATGGAGGAACTAGT
1 GGATGCAGAGAAGGTATGGCAGAGGATCCAACGTGTTCAATTTGTGGAGTAATGGAGGAACTAGT
13177154 CTTACAAGT
66 CTTACAAGT
13177163 GGATGCAGAGAAGGTATGGCAGAGGATCCAACGTGTTCAATTTGTGGAGTAATGGAGGAACTAGT
1 GGATGCAGAGAAGGTATGGCAGAGGATCCAACGTGTTCAATTTGTGGAGTAATGGAGGAACTAGT
13177228 CTTACA
66 CTTACA
13177234 CGTTTTAAGA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (74 bp):
GGATGCAGAGAAGGTATGGCAGAGGATCCAACGTGTTCAATTTGTGGAGTAATGGAGGAACTAGT
CTTACAAGT
Found at i:13181370 original size:26 final size:25
Alignment explanation
Indices: 13181341--13181506 Score: 91
Period size: 23 Copynumber: 6.5 Consensus size: 25
13181331 CAAAATTTAT
13181341 AAATATATATTAAAATTATATTATAA
1 AAATATATATT-AAATTATATTATAA
* *
13181367 AAAT-TATATT--ATTGTGGCTTACATAA
1 AAATATATATTAAATTAT--ATT--ATAA
13181393 AACATATATTATTAAAATTTATATTATAA
1 AA-ATATA-TATT-AAA-TTATATTATAA
* *
13181422 AAAAAT-TATGAAATTATATTATAA
1 AAATATATATTAAATTATATTATAA
13181446 AAA-AT-TA-TAAATATATATTAT-A
1 AAATATATATTAAAT-TATATTATAA
*
13181468 AAATAT-TA-TAAATATATATTTTTATA
1 AAATATATATTAAAT-TATA-TTATA-A
13181494 AAATATTATATTA
1 AAATA-TATATTA
13181507 TAACGACTTA
Statistics
Matches: 113, Mismatches: 8, Indels: 35
0.72 0.05 0.22
Matches are distributed among these distances:
22 12 0.11
23 26 0.23
24 19 0.17
25 9 0.08
26 19 0.17
27 3 0.03
28 7 0.06
29 12 0.11
31 2 0.02
32 1 0.01
33 3 0.03
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
AAATATATATTAAATTATATTATAA
Found at i:13181371 original size:14 final size:14
Alignment explanation
Indices: 13181352--13181378 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13181342 AATATATATT
13181352 AAAATTATATTATA
1 AAAATTATATTATA
13181366 AAAATTATATTAT
1 AAAATTATATTAT
13181379 TGTGGCTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATTATATTATA
Found at i:13181447 original size:23 final size:23
Alignment explanation
Indices: 13181403--13181487 Score: 120
Period size: 23 Copynumber: 3.7 Consensus size: 23
13181393 AACATATATT
*
13181403 ATTA-AAATTTATATTATAAAAAA
1 ATTATAAATATATATTAT-AAAAA
13181426 ATTATGAAAT-TATATTATAAAAA
1 ATTAT-AAATATATATTATAAAAA
*
13181449 ATTATAAATATATATTATAAAAT
1 ATTATAAATATATATTATAAAAA
13181472 ATTATAAATATATATT
1 ATTATAAATATATATT
13181488 TTTATAAAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
22 4 0.07
23 42 0.72
24 8 0.14
25 4 0.07
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (23 bp):
ATTATAAATATATATTATAAAAA
Found at i:13181452 original size:15 final size:14
Alignment explanation
Indices: 13181397--13181509 Score: 61
Period size: 13 Copynumber: 8.7 Consensus size: 14
13181387 ACATAAAACA
*
13181397 TATATTATTAAAATT
1 TATATTA-TAAAAAT
13181412 TATATTATAAAAA-
1 TATATTATAAAAAT
*
13181425 -A-ATTAT-GAAAT
1 TATATTATAAAAAT
13181436 TATATTAT-AAAA-
1 TATATTATAAAAAT
*
13181448 -A-ATTATAAATA-
1 TATATTATAAAAAT
13181459 TATATTATAAAATAT
1 TATATTATAAAA-AT
* * *
13181474 TATA-AATATATAT
1 TATATTATAAAAAT
13181487 T-T-TTATAAAATAT
1 TATATTATAAAA-AT
13181500 TATATTATAA
1 TATATTATAA
13181510 CGACTTACGT
Statistics
Matches: 75, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
10 8 0.11
11 9 0.12
12 8 0.11
13 22 0.29
14 11 0.15
15 17 0.23
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (14 bp):
TATATTATAAAAAT
Found at i:13181467 original size:13 final size:13
Alignment explanation
Indices: 13181396--13181487 Score: 78
Period size: 13 Copynumber: 7.7 Consensus size: 13
13181386 TACATAAAAC
13181396 ATATATTATTA-AA
1 ATATA-TATTATAA
*
13181409 ATTTATATTATAA
1 ATATATATTATAA
*
13181422 A-A-AAATTATGAA
1 ATATATATTAT-AA
13181434 AT-TATATTATAA
1 ATATATATTATAA
13181446 A-A-A-ATTATAA
1 ATATATATTATAA
13181456 ATATATATTAT-A
1 ATATATATTATAA
13181468 A-A-ATATTATAA
1 ATATATATTATAA
13181479 ATATATATT
1 ATATATATT
13181488 TTTATAAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
10 15 0.23
11 11 0.17
12 15 0.23
13 23 0.36
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (13 bp):
ATATATATTATAA
Found at i:13181492 original size:16 final size:18
Alignment explanation
Indices: 13181473--13181505 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13181463 TTATAAAATA
13181473 TTAT-AAATA-TATATTT
1 TTATAAAATATTATATTT
13181489 TTATAAAATATTATATT
1 TTATAAAATATTATATT
13181506 ATAACGACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATAAAATATTATATTT
Found at i:13181502 original size:10 final size:10
Alignment explanation
Indices: 13181413--13181503 Score: 55
Period size: 10 Copynumber: 8.8 Consensus size: 10
13181403 ATTAAAATTT
13181413 ATATTATAAAA
1 ATATTAT-AAA
*
13181424 AAATTATGAAA
1 ATATTAT-AAA
13181435 TTATATTATAAA
1 --ATATTATAAA
*
13181447 AAATTATAAATA
1 ATATTAT-AA-A
13181459 TATATTATAAA
1 -ATATTATAAA
13181470 ATATTAT-AA
1 ATATTATAAA
13181479 ATA-TAT--A
1 ATATTATAAA
* *
13181486 TTTTTATAAA
1 ATATTATAAA
13181496 ATATTATA
1 ATATTATA
13181504 TTATAACGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
7 2 0.03
8 6 0.10
9 5 0.08
10 20 0.32
11 12 0.19
12 6 0.10
13 12 0.19
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (10 bp):
ATATTATAAA
Found at i:13189561 original size:16 final size:16
Alignment explanation
Indices: 13189540--13189570 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13189530 CTATGCATGC
*
13189540 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
13189556 AAAATACAAAAGACA
1 AAAATACAAAAGACA
13189571 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:13194605 original size:18 final size:18
Alignment explanation
Indices: 13194567--13194616 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
13194557 AGGCCAATCT
* *
13194567 GGGCATGT-GGACCACAT
1 GGGCATGTGGGCCCACAC
13194584 GGGCATGTGGGCCCACAC
1 GGGCATGTGGGCCCACAC
13194602 GGGCATGTGGGCCCA
1 GGGCATGTGGGCCCA
13194617 AACTTCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.18, C:0.28, G:0.40, T:0.14
Consensus pattern (18 bp):
GGGCATGTGGGCCCACAC
Found at i:13204569 original size:18 final size:17
Alignment explanation
Indices: 13204543--13204590 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
13204533 AATAAAAATA
13204543 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAA-TGAAT
*
13204561 AACGATTTGTAAATGAAT
1 AACGTTTTG-AAATGAAT
*
13204579 AATGTTTTGAAA
1 AACGTTTTGAAA
13204591 ACGAACAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (17 bp):
AACGTTTTGAAATGAAT
Found at i:13205048 original size:20 final size:18
Alignment explanation
Indices: 13204948--13205049 Score: 72
Period size: 20 Copynumber: 5.7 Consensus size: 18
13204938 TTCAACTATA
13204948 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAAT-A-TTTAAT
13204969 ATTAAATTAATA--TAAT
1 ATTAAATTAATATTTAAT
* * *
13204985 ATT-TATTAAGA-TAAAT
1 ATTAAATTAATATTTAAT
*
13205001 ATTAGATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
13205018 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
13205038 ATTAAATTAATA
1 ATTAAATTAATA
13205050 AAATACTATT
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
15 6 0.09
16 14 0.21
17 16 0.24
18 1 0.01
19 4 0.06
20 20 0.30
21 6 0.09
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:13205082 original size:68 final size:69
Alignment explanation
Indices: 13204956--13205090 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 69
13204946 TAATTAAACT
* * *
13204956 TAATCACTTTAATATTAAATTAATATAATATTTATTAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATATCTATTAAGATAAATATTAAATTAAATTTAATATT
13205021 AAGA
66 AAGA
*
13205025 TAATCACTTTAATATTAAATTAATAAAATA-CTATTAAGATAAGTATTAAATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATATCTATTAAGATAAATATTAAATTAAATTTAATATT
13205089 AA
66 AA
13205091 ACTATTAAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
68 33 0.53
69 29 0.47
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (69 bp):
TAATCACTTTAATATTAAATTAATAAAATATCTATTAAGATAAATATTAAATTAAATTTAATATT
AAGA
Found at i:13215205 original size:18 final size:17
Alignment explanation
Indices: 13215175--13215208 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13215165 TGTTTAATGG
13215175 TAAAGAACGAAATGGAC
1 TAAAGAACGAAATGGAC
*
13215192 TAAATGAACTAAATGGA
1 TAAA-GAACGAAATGGA
13215209 AATGCTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.09, G:0.21, T:0.18
Consensus pattern (17 bp):
TAAAGAACGAAATGGAC
Found at i:13217227 original size:13 final size:13
Alignment explanation
Indices: 13217209--13217303 Score: 59
Period size: 13 Copynumber: 7.3 Consensus size: 13
13217199 TAAATGTGTA
13217209 ATATGAAATGATT
1 ATATGAAATGATT
* * *
13217222 ATATGAGACGGTT
1 ATATGAAATGATT
* *
13217235 ATACG-AATGGTT
1 ATATGAAATGATT
* *
13217247 ATATAAAATGAAT
1 ATATGAAATGATT
*
13217260 ATATGAAAGGATT
1 ATATGAAATGATT
* *
13217273 GTTTG-AATCGATT
1 ATATGAAAT-GATT
*
13217286 ATATGGAAATAATT
1 ATAT-GAAATGATT
13217300 ATAT
1 ATAT
13217304 AAAACTGTTT
Statistics
Matches: 59, Mismatches: 19, Indels: 7
0.69 0.22 0.08
Matches are distributed among these distances:
12 10 0.17
13 38 0.64
14 8 0.14
15 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.36
Consensus pattern (13 bp):
ATATGAAATGATT
Found at i:13228468 original size:32 final size:32
Alignment explanation
Indices: 13228421--13228507 Score: 120
Period size: 32 Copynumber: 2.7 Consensus size: 32
13228411 TTGAAATTAG
*
13228421 TTTGTTGGATTTTGAAATTATTATGTTTTAAA
1 TTTGTTGGATATTGAAATTATTATGTTTTAAA
* * *
13228453 TTTGTTAGATATTGAATTTATTATGTTTTAAG
1 TTTGTTGGATATTGAAATTATTATGTTTTAAA
* *
13228485 CTTGTTGGATATTGAAATGATTA
1 TTTGTTGGATATTGAAATTATTA
13228508 ACAATGACAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.29, C:0.01, G:0.17, T:0.53
Consensus pattern (32 bp):
TTTGTTGGATATTGAAATTATTATGTTTTAAA
Found at i:13250931 original size:33 final size:33
Alignment explanation
Indices: 13250894--13250958 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
13250884 TTCTTGAACC
13250894 GGAGAAATTGGGACGTTACTACTTGTCCCGTAT
1 GGAGAAATTGGGACGTTACTACTTGTCCCGTAT
13250927 GGAGAAATTGGGACGTTACTACTTGTCCCGTA
1 GGAGAAATTGGGACGTTACTACTTGTCCCGTA
13250959 CTTAGATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (33 bp):
GGAGAAATTGGGACGTTACTACTTGTCCCGTAT
Found at i:13256004 original size:26 final size:27
Alignment explanation
Indices: 13255975--13256047 Score: 89
Period size: 26 Copynumber: 2.7 Consensus size: 27
13255965 TTTTTATTGG
13255975 TTATAT-TTAAAATTTAAAA-TTATAAT
1 TTATATATTAAAATTTAAAATTTAT-AT
*
13256001 TTATATATT-CAATTTAAAATTTATAT
1 TTATATATTAAAATTTAAAATTTATAT
13256027 TTCATATATTAAAATATTAAA
1 TT-ATATATTAAAAT-TTAAA
13256048 TTTTTTTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 19 0.47
27 13 0.32
28 3 0.08
29 5 0.12
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (27 bp):
TTATATATTAAAATTTAAAATTTATAT
Found at i:13256027 original size:18 final size:21
Alignment explanation
Indices: 13255993--13256050 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
13255983 AAAATTTAAA
*
13255993 ATTATAATTTATATATTCA-AT
1 ATTAAAATTTATAT-TTCATAT
13256014 -TTAAAATTTATATTTCATAT
1 ATTAAAATTTATATTTCATAT
*
13256034 ATTAAAATATTAAATTT
1 ATTAAAAT-TTATATTT
13256051 TTTTATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 4 0.12
20 14 0.44
21 7 0.22
22 7 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTAAAATTTATATTTCATAT
Found at i:13264510 original size:29 final size:29
Alignment explanation
Indices: 13264478--13264539 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
13264468 AACCAAAAAA
*
13264478 GGCCGTTTTTTTCAA-AATTTACCGAAATG
1 GGCCGGTTTTTT-AATAATTTACCGAAATG
* *
13264507 GGCCGGTTTTTTAATTATTTACCGGAATG
1 GGCCGGTTTTTTAATAATTTACCGAAATG
13264536 GGCC
1 GGCC
13264540 ATTTACAGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (29 bp):
GGCCGGTTTTTTAATAATTTACCGAAATG
Found at i:13265622 original size:29 final size:29
Alignment explanation
Indices: 13265578--13265643 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
13265568 GGTTTTTATG
*
13265578 AATAAAAATAATAGGTTAAGAGCTTATTTA
1 AATACAAA-AATAGGTTAAGAGCTTATTTA
* * * *
13265608 ACTACAAAAATAGGTTGAGGGCTTGTTTA
1 AATACAAAAATAGGTTAAGAGCTTATTTA
13265637 AATACAA
1 AATACAA
13265644 TGTAGTGAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.30
Consensus pattern (29 bp):
AATACAAAAATAGGTTAAGAGCTTATTTA
Found at i:13268601 original size:30 final size:30
Alignment explanation
Indices: 13268539--13268602 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
13268529 TATTATATTT
*
13268539 AAATAAGTCTTTAAATTTTAATTAGTACTC
1 AAATAAGTCTTTAAATTTTAATTAGCACTC
* *
13268569 AAATAAGTTTTTAAATTTTAAGTTA-CATTC
1 AAATAAGTCTTTAAATTTTAA-TTAGCACTC
13268599 AAAT
1 AAAT
13268603 TATAAGTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (30 bp):
AAATAAGTCTTTAAATTTTAATTAGCACTC
Found at i:13268631 original size:30 final size:30
Alignment explanation
Indices: 13268597--13268657 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
13268587 TAAGTTACAT
13268597 TCAAATTATAAGTTGTTAATCTTTAATTTG
1 TCAAATTATAAGTTGTTAATCTTTAATTTG
13268627 TCAAATTATAAGTTGTTAATCTTTAATTTG
1 TCAAATTATAAGTTGTTAATCTTTAATTTG
13268657 T
1 T
13268658 ATCCAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.51
Consensus pattern (30 bp):
TCAAATTATAAGTTGTTAATCTTTAATTTG
Found at i:13268657 original size:15 final size:15
Alignment explanation
Indices: 13268609--13268657 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
13268599 AAATTATAAG
13268609 TTGTTAATCTTTAAT
1 TTGTTAATCTTTAAT
* * *
13268624 TTGTCAAAT-TATAAG
1 TTGT-TAATCTTTAAT
13268639 TTGTTAATCTTTAAT
1 TTGTTAATCTTTAAT
13268654 TTGT
1 TTGT
13268658 ATCCAAATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 3 0.12
15 20 0.77
16 3 0.12
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (15 bp):
TTGTTAATCTTTAAT
Found at i:13281574 original size:18 final size:18
Alignment explanation
Indices: 13281553--13281612 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
13281543 AATGCAAAGA
13281553 TTAATAAAAATAAATAAT
1 TTAATAAAAATAAATAAT
*
13281571 TTAATAATATATAAA-AA-
1 TTAATAA-AAATAAATAAT
** *
13281588 TTGGTAAAAATCAATAAT
1 TTAATAAAAATAAATAAT
13281606 TTAATAA
1 TTAATAA
13281613 TTTATATGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
16 5 0.16
17 7 0.22
18 14 0.44
19 6 0.19
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (18 bp):
TTAATAAAAATAAATAAT
Found at i:13285018 original size:17 final size:16
Alignment explanation
Indices: 13284996--13285028 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
13284986 TTTTAGATTG
13284996 ATGTAAATATATGTTAA
1 ATGTAAATATAT-TTAA
13285013 ATGTAAATATATTTAA
1 ATGTAAATATATTTAA
13285029 TTTTTTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
ATGTAAATATATTTAA
Found at i:13285365 original size:18 final size:18
Alignment explanation
Indices: 13285344--13285380 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
13285334 AATTAATGGC
13285344 TAAAGAAAGAATAATTTT
1 TAAAGAAAGAATAATTTT
13285362 TAAAGAAAGAATAATTTT
1 TAAAGAAAGAATAATTTT
13285380 T
1 T
13285381 TAGCTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (18 bp):
TAAAGAAAGAATAATTTT
Found at i:13286575 original size:31 final size:31
Alignment explanation
Indices: 13286540--13286601 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
13286530 GCAATAAGAA
13286540 AGAACCAGTATATTGATTCATTGTGCTTACT
1 AGAACCAGTATATTGATTCATTGTGCTTACT
13286571 AGAACCAGTATATTGATTCATTGTGCTTACT
1 AGAACCAGTATATTGATTCATTGTGCTTACT
13286602 CAGAGGAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (31 bp):
AGAACCAGTATATTGATTCATTGTGCTTACT
Found at i:13288531 original size:6 final size:6
Alignment explanation
Indices: 13288512--13288545 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
13288502 TGACATTTTT
*
13288512 AAATTA AAACTA AAATTA AAATTA AAATATA AAA
1 AAATTA AAATTA AAATTA AAATTA AAAT-TA AAA
13288546 AATTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (6 bp):
AAATTA
Found at i:13289162 original size:29 final size:29
Alignment explanation
Indices: 13289104--13289162 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
13289094 TGGGCAACAG
* * * *
13289104 AAAATAGTTTAGGTATCACTTGTGACAAA
1 AAAAAAGTTTAGGTATAACTAGGGACAAA
13289133 AAAAAAGTTTAGGTACTAACTAGGGA-AAA
1 AAAAAAGTTTAGGTA-TAACTAGGGACAAA
13289162 A
1 A
13289163 TGGTATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.25
Consensus pattern (29 bp):
AAAAAAGTTTAGGTATAACTAGGGACAAA
Found at i:13290345 original size:8 final size:8
Alignment explanation
Indices: 13290332--13290356 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13290322 ATTGGACAAC
13290332 AAAATTTT
1 AAAATTTT
13290340 AAAATTTT
1 AAAATTTT
13290348 AAAATTTT
1 AAAATTTT
13290356 A
1 A
13290357 TAATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAAATTTT
Found at i:13292356 original size:11 final size:11
Alignment explanation
Indices: 13292336--13292365 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13292326 ATTGACCCAT
*
13292336 ATACAAAAATC
1 ATACAGAAATC
13292347 ATACAGAAATC
1 ATACAGAAATC
13292358 ATACAGAA
1 ATACAGAA
13292366 CATGCTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.17, G:0.07, T:0.17
Consensus pattern (11 bp):
ATACAGAAATC
Found at i:13307372 original size:15 final size:16
Alignment explanation
Indices: 13307354--13307388 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13307344 ACATAGAAAT
*
13307354 AATAAGAAT-AATAAA
1 AATAAAAATAAATAAA
13307369 AATAAAAATAAATAAA
1 AATAAAAATAAATAAA
13307385 AATA
1 AATA
13307389 CTAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AATAAAAATAAATAAA
Found at i:13307481 original size:17 final size:17
Alignment explanation
Indices: 13307459--13307494 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
13307449 TAGGCATAAG
13307459 AATAAAATAAATAAATA
1 AATAAAATAAATAAATA
*
13307476 AATAAAATAACTAAATA
1 AATAAAATAAATAAATA
13307493 AA
1 AA
13307495 GAGGGAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAAATAAATAAATA
Found at i:13307776 original size:30 final size:31
Alignment explanation
Indices: 13307740--13307799 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
13307730 GCGTCGGAGG
13307740 AGGGAAA-TGAAAAGGTG-AAGGAAG-GGAGAA
1 AGGGAAATTG-AAAGG-GAAAGGAAGAGGAGAA
13307770 AGGGAAATTGAAAGGGAAAGGAAGAGGAGA
1 AGGGAAATTGAAAGGGAAAGGAAGAGGAGA
13307800 TGGGGAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 1 0.04
30 19 0.70
31 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.43, T:0.07
Consensus pattern (31 bp):
AGGGAAATTGAAAGGGAAAGGAAGAGGAGAA
Found at i:13308451 original size:12 final size:12
Alignment explanation
Indices: 13308424--13308466 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
13308414 TTATTTCAAA
13308424 AAAAG-AAAAAC
1 AAAAGAAAAAAC
13308435 AAAAGAAGAAAAC
1 AAAAGAA-AAAAC
*
13308448 -AAAGAAAAAAG
1 AAAAGAAAAAAC
13308459 AAAAGAAA
1 AAAAGAAA
13308467 TTGTGAACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAC
Found at i:13311163 original size:31 final size:31
Alignment explanation
Indices: 13311125--13311183 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
13311115 TAAATAGTGA
**
13311125 AAACCATCATTGTTGGGCAATCCAGGGTGGT
1 AAACCATCATTGTAAGGCAATCCAGGGTGGT
*
13311156 AAACCATCATTGTAAGGCAATCCGGGGT
1 AAACCATCATTGTAAGGCAATCCAGGGT
13311184 CGTATGTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (31 bp):
AAACCATCATTGTAAGGCAATCCAGGGTGGT
Found at i:13324698 original size:16 final size:16
Alignment explanation
Indices: 13324677--13324744 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
13324667 TTTGGTTCGC
13324677 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
13324693 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
13324709 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13324725 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13324741 TGTA
1 TGTA
13324745 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13324809 original size:44 final size:45
Alignment explanation
Indices: 13324725--13324815 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
13324715 GGATTAGAGG
* * *
13324725 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
13324770 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
13324814 TG
1 TG
13324816 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:13325176 original size:120 final size:120
Alignment explanation
Indices: 13324963--13325466 Score: 857
Period size: 120 Copynumber: 4.2 Consensus size: 120
13324953 ATCATATTTA
* * *
13324963 AACATAATTATTATTAAATATATTTTAATTAAAATATATGATACT-GTAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAAT-TTAATAAAATTCTTAATAATTA
* * *
13325027 ATATTCTTATATTAAATTACTGAAATCATACTATATGATACTGTAAAATATAAATT
65 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* * * *
13325083 AACATAATTATTATTAAATATATTTTAATTAAAATATTTGATTTAAAAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
13325148 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
13325203 AACATAATTATTATTAAATATATTTTAATTATACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
13325268 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
13325323 AACATAATTATTATTAAATATATTTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATA-TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
*
13325388 ATATTCTTATATTAATTTACTCAAATCATAATACATGATACTGTAAAATATAAATT
65 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
13325444 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
13325467 AACTTGAAAA
Statistics
Matches: 366, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
119 1 0.00
120 247 0.67
121 118 0.32
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:13332055 original size:11 final size:11
Alignment explanation
Indices: 13332039--13332066 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
13332029 AATCGGGAGG
13332039 CGAAGGTAGAA
1 CGAAGGTAGAA
13332050 CGAAGGTAGAA
1 CGAAGGTAGAA
13332061 CGAAGG
1 CGAAGG
13332067 AAGATGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.39, T:0.07
Consensus pattern (11 bp):
CGAAGGTAGAA
Found at i:13333115 original size:27 final size:27
Alignment explanation
Indices: 13333076--13333169 Score: 143
Period size: 27 Copynumber: 3.5 Consensus size: 27
13333066 CTTGTCAGCT
* * *
13333076 TTTGTGGCATACTCTGAAAGAATCACC
1 TTTGTGGCATACTATGAATGAATCGCC
*
13333103 TTTGTGGCGTACTATGAATGAATCGCC
1 TTTGTGGCATACTATGAATGAATCGCC
*
13333130 TTTGTGGCGTACTATGAATGAATCGCC
1 TTTGTGGCATACTATGAATGAATCGCC
13333157 TTTGTGGCATACT
1 TTTGTGGCATACT
13333170 CTGTATAGAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (27 bp):
TTTGTGGCATACTATGAATGAATCGCC
Found at i:13345423 original size:68 final size:71
Alignment explanation
Indices: 13345328--13345464 Score: 172
Period size: 72 Copynumber: 2.0 Consensus size: 71
13345318 TTAATAGATA
* * * *
13345328 TAATATTAAATTTAGTTTAATACTTATCTT-T-AT-AGTATTTTGTTAATTTAATATTAAAGTGA
1 TAATATTAAATTTAATTTAATACTTATCTTGTAATAAATATTCTATTAATTTAATATTAAAGTGA
13345390 TTATCT
66 TTATCT
* ** *
13345396 TAATATTTAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTCATATTAAAGTG
1 TAATATTAAATTTAATTTAATACTTATCTTGTA-ATAAATATTCTATTAATTTAATATTAAAGTG
13345461 ATTA
65 ATTA
13345465 AGTTTAATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
68 26 0.46
69 1 0.02
71 2 0.04
72 28 0.49
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.52
Consensus pattern (71 bp):
TAATATTAAATTTAATTTAATACTTATCTTGTAATAAATATTCTATTAATTTAATATTAAAGTGA
TTATCT
Found at i:13346294 original size:21 final size:21
Alignment explanation
Indices: 13346268--13346319 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
13346258 CTGTTGTCAA
* *
13346268 TGTCGCGATACAGGATGAGGG
1 TGTCGCGACACAGGATAAGGG
*
13346289 TGTCGCGACACAGGCTAAGGG
1 TGTCGCGACACAGGATAAGGG
13346310 TGTCGCGACA
1 TGTCGCGACA
13346320 TACCCTTGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.38, T:0.17
Consensus pattern (21 bp):
TGTCGCGACACAGGATAAGGG
Found at i:13374164 original size:20 final size:20
Alignment explanation
Indices: 13374139--13374177 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13374129 TACTTTCTTC
13374139 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
13374159 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
13374178 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:13374522 original size:50 final size:50
Alignment explanation
Indices: 13374468--13374574 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
13374458 ACATGAGAGT
* ** *
13374468 TCTCATATCGGTACCCATGCCATGTCCCAGACATGGTCTTACGGGGGACC
1 TCTCATATCGGTACCAACACCATGTCCCAGACATGGTCTTACGGGGAACC
* * *
13374518 TCTCATCTCGGTGCCAACACCATGTCCCAGACATGGTCTTACGTGGAACC
1 TCTCATATCGGTACCAACACCATGTCCCAGACATGGTCTTACGGGGAACC
*
13374568 TTTCATA
1 TCTCATA
13374575 ACCTCAATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTACCAACACCATGTCCCAGACATGGTCTTACGGGGAACC
Found at i:13381893 original size:20 final size:20
Alignment explanation
Indices: 13381868--13381906 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13381858 TACTTTCTTC
13381868 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
13381888 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
13381907 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:13390719 original size:51 final size:51
Alignment explanation
Indices: 13390664--13390776 Score: 124
Period size: 51 Copynumber: 2.3 Consensus size: 51
13390654 AGAAATGATG
* * * *
13390664 AAATAGATAAATAGGAA-CATTTCAAAATGATTATGATTTTCTCCAAAATGA
1 AAATAGAGAAAT-GAAATCATTTCAAAATAAATATGATTTTCTCCAAAATGA
** * *
13390715 AAATAGAGAAATGAAATCATTTGGAAATAAATGTGGTTTTCTCCAAAATGA
1 AAATAGAGAAATGAAATCATTTCAAAATAAATATGATTTTCTCCAAAATGA
13390766 AAAT-GA-AAATG
1 AAATAGAGAAATG
13390777 GCCTGAAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 5 0.09
50 5 0.09
51 43 0.81
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (51 bp):
AAATAGAGAAATGAAATCATTTCAAAATAAATATGATTTTCTCCAAAATGA
Found at i:13396532 original size:6 final size:6
Alignment explanation
Indices: 13396523--13396552 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
13396513 GATTTTCTCC
13396523 AAAATG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG
13396553 GAGAAACGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:13396558 original size:69 final size:69
Alignment explanation
Indices: 13396479--13396609 Score: 183
Period size: 69 Copynumber: 1.9 Consensus size: 69
13396469 AGAAATGATG
* * *
13396479 AAATAGAGAAATAGGAA-CATTTGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAATGAA
1 AAATAGAGAAA-AGAAATCATTTGAAAATGAATATGATTTTCTCCAAAATGAAAATGAAAATGAA
13396543 AATGA
65 AATGA
* * * *
13396548 AAATGGAGAAACGAAATCATTTGAAAATGAATGTGGTTTTCTCCAAAATGAAAATGAAAATG
1 AAATAGAGAAAAGAAATCATTTGAAAATGAATATGATTTTCTCCAAAATGAAAATGAAAATG
13396610 GCCTGAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 3 0.06
69 51 0.94
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (69 bp):
AAATAGAGAAAAGAAATCATTTGAAAATGAATATGATTTTCTCCAAAATGAAAATGAAAATGAAA
ATGA
Found at i:13405093 original size:57 final size:57
Alignment explanation
Indices: 13405006--13405123 Score: 218
Period size: 57 Copynumber: 2.1 Consensus size: 57
13404996 TGATATGGAG
* *
13405006 TTATTTTATTCAAATGATTCAAAATCCCTAGTAGTTGGCTATACTGATACTGGAAAT
1 TTATTTTATTCAAATGATTCAAAATCCCTAGTAGTCGGCTATACTGATACAGGAAAT
13405063 TTATTTTATTCAAATGATTCAAAATCCCTAGTAGTCGGCTATACTGATACAGGAAAT
1 TTATTTTATTCAAATGATTCAAAATCCCTAGTAGTCGGCTATACTGATACAGGAAAT
13405120 TTAT
1 TTAT
13405124 CGAATCCACA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (57 bp):
TTATTTTATTCAAATGATTCAAAATCCCTAGTAGTCGGCTATACTGATACAGGAAAT
Found at i:13410673 original size:11 final size:11
Alignment explanation
Indices: 13410659--13410715 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
13410649 ATATCCAAAT
13410659 AATAATAACAA
1 AATAATAACAA
*
13410670 AATATTAACAA
1 AATAATAACAA
*
13410681 TATAATAACAA
1 AATAATAACAA
* *
13410692 AATGATAGCAA
1 AATAATAACAA
* *
13410703 AACAACAACAA
1 AATAATAACAA
13410714 AA
1 AA
13410716 CAACTTATTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.18
Consensus pattern (11 bp):
AATAATAACAA
Found at i:13412864 original size:19 final size:19
Alignment explanation
Indices: 13412840--13412901 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
13412830 AACCACATTC
13412840 ATTTTCAAATGTTTCCTAT
1 ATTTTCAAATGTTTCCTAT
*
13412859 ATTTTC--A---TTCCACATT
1 ATTTTCAAATGTTTCC-TA-T
13412875 CATTTTCAAATGTTTCCTAT
1 -ATTTTCAAATGTTTCCTAT
13412895 ATTTTCA
1 ATTTTCA
13412902 TTTTCATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
14 4 0.12
15 1 0.03
16 1 0.03
17 7 0.21
19 14 0.42
20 1 0.03
21 1 0.03
22 4 0.12
ACGTcount: A:0.26, C:0.19, G:0.03, T:0.52
Consensus pattern (19 bp):
ATTTTCAAATGTTTCCTAT
Found at i:13412875 original size:36 final size:36
Alignment explanation
Indices: 13412832--13412903 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
13412822 TGGGAGAAAA
13412832 CCACATTCATTTTCAAATGTTTCCTATATTTTCATT
1 CCACATTCATTTTCAAATGTTTCCTATATTTTCATT
13412868 CCACATTCATTTTCAAATGTTTCCTATATTTTCATT
1 CCACATTCATTTTCAAATGTTTCCTATATTTTCATT
13412904 TTCATTTGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.03, T:0.50
Consensus pattern (36 bp):
CCACATTCATTTTCAAATGTTTCCTATATTTTCATT
Found at i:13412926 original size:52 final size:52
Alignment explanation
Indices: 13412868--13412993 Score: 200
Period size: 52 Copynumber: 2.4 Consensus size: 52
13412858 TATTTTCATT
* *
13412868 CCACATTCATTTTCAAATGTTTCCTATATT-TTCATTTTCATTTGGGAGAAAA
1 CCACATTCATTTTCAAATGTTTCCTAT-TTCTCCATTTTCATTTGGGAAAAAA
*
13412920 CCACATTCATTTTCAAATGTTTCCTATTTCTCCATTTTCATTTTGGAAAAAA
1 CCACATTCATTTTCAAATGTTTCCTATTTCTCCATTTTCATTTGGGAAAAAA
*
13412972 CCACATCCATTTTCAAATGTTT
1 CCACATTCATTTTCAAATGTTT
13412994 TTCATTTCTT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 2 0.03
52 67 0.97
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.44
Consensus pattern (52 bp):
CCACATTCATTTTCAAATGTTTCCTATTTCTCCATTTTCATTTGGGAAAAAA
Found at i:13412961 original size:94 final size:90
Alignment explanation
Indices: 13412774--13412946 Score: 287
Period size: 88 Copynumber: 1.9 Consensus size: 90
13412764 TTGGAGAAAA
13412774 CCACATTCATTTTCAAATGTTCCCTATTTCTCCATTTTCATTTTCATTTGGGAGAAAACCACATT
1 CCACATTCATTTTCAAATGTTCCCTA--T-T-CATTTTCATTTTCATTTGGGAGAAAACCACATT
13412839 CATTTTCAAATGTTTCCTATATTTTCATT
62 CATTTTCAAATGTTTCCTATATTTTCATT
*
13412868 CCACATTCATTTTCAAATGTTTCCTA-T-ATTTTCATTTTCATTTGGGAGAAAACCACATTCATT
1 CCACATTCATTTTCAAATGTTCCCTATTCATTTTCATTTTCATTTGGGAGAAAACCACATTCATT
13412931 TTCAAATGTTTCCTAT
66 TTCAAATGTTTCCTAT
13412947 TTCTCCATTT
Statistics
Matches: 78, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
88 52 0.67
90 1 0.01
94 25 0.32
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.45
Consensus pattern (90 bp):
CCACATTCATTTTCAAATGTTCCCTATTCATTTTCATTTTCATTTGGGAGAAAACCACATTCATT
TTCAAATGTTTCCTATATTTTCATT
Found at i:13413001 original size:52 final size:51
Alignment explanation
Indices: 13412868--13413009 Score: 173
Period size: 52 Copynumber: 2.7 Consensus size: 51
13412858 TATTTTCATT
*
13412868 CCACATTCATTTTCAAATGTTTCCTAT-ATTT-TCATTTTCATTTGGGAGAAAA
1 CCACATTCATTTTCAAATGTTT--T-TCATTTCTCATTTTCATTTGGGAAAAAA
* *
13412920 CCACATTCATTTTCAAATG-TTTCCTATTTCTCCATTTTCATTTTGGAAAAAA
1 CCACATTCATTTTCAAATGTTTTTC-ATTTCT-CATTTTCATTTGGGAAAAAA
*
13412972 CCACATCCATTTTCAAATGTTTTTCATTTCTTCATTTT
1 CCACATTCATTTTCAAATGTTTTTCATTTC-TCATTTT
13413010 TACTATTTCT
Statistics
Matches: 79, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
49 1 0.01
50 4 0.05
51 3 0.04
52 66 0.84
53 5 0.06
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.46
Consensus pattern (51 bp):
CCACATTCATTTTCAAATGTTTTTCATTTCTCATTTTCATTTGGGAAAAAA
Found at i:13417211 original size:12 final size:12
Alignment explanation
Indices: 13417194--13417219 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13417184 CTATTAAGTC
13417194 TAGGTCAACAAT
1 TAGGTCAACAAT
13417206 TAGGTCAACAAT
1 TAGGTCAACAAT
13417218 TA
1 TA
13417220 TGGATGAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (12 bp):
TAGGTCAACAAT
Found at i:13424950 original size:33 final size:34
Alignment explanation
Indices: 13424872--13424956 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 34
13424862 TGATAAATTT
*
13424872 AAAAATATATAAAAAT-AAAAAAATATTATTCACG
1 AAAAATA-ATAATAATAAAAAAAATATTATTCACG
*
13424906 AGAAATAATAATATATAAAAATAAATATT-TTCA-G
1 AAAAATAATAATA-ATAAAAA-AAATATTATTCACG
13424940 AAAAAT-ATAATAATAAA
1 AAAAATAATAATAATAAA
13424957 TTTAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
32 5 0.11
33 11 0.24
34 14 0.31
35 8 0.18
36 7 0.16
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (34 bp):
AAAAATAATAATAATAAAAAAAATATTATTCACG
Found at i:13426158 original size:170 final size:169
Alignment explanation
Indices: 13425877--13426201 Score: 569
Period size: 170 Copynumber: 1.9 Consensus size: 169
13425867 TGGTGCCTTA
* * * *
13425877 AGTGTAGTATATTCGTTTGTAAATTTGTAATTTTTTTGAAAAAATTGTTTTATTAACCAATGTAA
1 AGTGTAGTATATTCATTTGTAAACTTGTAACTTTTTCGAAAAAATTGTTTTATTAACCAATGTAA
*
13425942 CAATCAATGAATTTATTTTATTAACCAATCTGTTCAAAAAAAATTACAAGTTTACAGATGAATAC
66 CAATCAATGAATTTATTTTATTAACCAATCTGTTCAAAAAAAATTACAAGTTTACAGACGAATAC
*
13426007 ACTACACTTAGGGCATTAGATCCAACACTCAGGGCTCTG
131 ACTACACTCAGGGCATTAGATCCAACACTCAGGGCTCTG
*
13426046 AGTGTAGTATATTCATTTGTAAACTTGTAACTTTTTCGAAAAAAATTGTTTTATTAACCAATGTC
1 AGTGTAGTATATTCATTTGTAAACTTGTAACTTTTTCG-AAAAAATTGTTTTATTAACCAATGTA
13426111 ACAATCAATGAATTTATTTTATTAACCAATCTGTTCAAAAAAAATTACAAGTTTACAGACGAATA
65 ACAATCAATGAATTTATTTTATTAACCAATCTGTTCAAAAAAAATTACAAGTTTACAGACGAATA
*
13426176 TACTACACTCAGGGCATTAGATCCAA
130 CACTACACTCAGGGCATTAGATCCAA
13426202 TAGTCTTTCA
Statistics
Matches: 147, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
169 34 0.23
170 113 0.77
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (169 bp):
AGTGTAGTATATTCATTTGTAAACTTGTAACTTTTTCGAAAAAATTGTTTTATTAACCAATGTAA
CAATCAATGAATTTATTTTATTAACCAATCTGTTCAAAAAAAATTACAAGTTTACAGACGAATAC
ACTACACTCAGGGCATTAGATCCAACACTCAGGGCTCTG
Found at i:13435105 original size:25 final size:25
Alignment explanation
Indices: 13435067--13435114 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
13435057 TCGAACAAAT
13435067 CAAATAAAACACAGAACCAAAATCA
1 CAAATAAAACACAGAACCAAAATCA
* *
13435092 CAAATCAAATACAGAACCAAAAT
1 CAAATAAAACACAGAACCAAAAT
13435115 ATTTTCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.62, C:0.23, G:0.04, T:0.10
Consensus pattern (25 bp):
CAAATAAAACACAGAACCAAAATCA
Found at i:13444655 original size:79 final size:82
Alignment explanation
Indices: 13444511--13444728 Score: 220
Period size: 79 Copynumber: 2.7 Consensus size: 82
13444501 AAATCACGTA
* * ** * *
13444511 CCTTCGGAAT-TTAA-CCGGATATAG-CTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGG-ATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATA
*
13444572 TAGTAACTCGCACAATTG
65 TAGTAACTCGCACAAATG
* *
13444590 CCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT-
1 CCTTC-GGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATA
*
13444651 TAGTATCTCGCACAAATG
65 TAGTAACTCGCACAAATG
** * **
13444669 CCTTCGGATCTTAGTCCGGATATGGTCATTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
13444729 CATCATTCAA
Statistics
Matches: 116, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
78 3 0.03
79 62 0.53
80 51 0.44
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (82 bp):
CCTTCGGATCTTAACCCGGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATAT
AGTAACTCGCACAAATG
Found at i:13444728 original size:40 final size:40
Alignment explanation
Indices: 13444525--13444728 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
13444515 CGGAATTTAA
** *
13444525 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
13444565 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
13444605 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13444644 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* ** *
13444684 CCGGATATGGTCATTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AACTCGCACAAATGCCTTCGGGACTTAGC
13444724 CCGGA
1 CCGGA
13444729 CATCATTCAA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 91 0.65
41 14 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:13452846 original size:39 final size:40
Alignment explanation
Indices: 13452729--13452909 Score: 190
Period size: 40 Copynumber: 4.5 Consensus size: 40
13452719 GCTACTCGTT
* *
13452729 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
13452769 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
13452809 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
13452848 CAAATGCCTTC-GGATCTGAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
13452889 CAAA-GCGTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
13452910 TGGACATGAT
Statistics
Matches: 117, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.28
40 69 0.59
41 13 0.11
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Done.